Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 323 of 352
Found at i:104650313 original size:21 final size:21
Alignment explanation
Indices: 104650289--104650333 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
104650279 TACAAGTATG
* *
104650289 ATAATAATAATGGTAATAAAA
1 ATAAAAATAATAGTAATAAAA
*
104650310 ATAAAAATAATAGTAATAATA
1 ATAAAAATAATAGTAATAAAA
104650331 ATA
1 ATA
104650334 CGTTAAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
ATAAAAATAATAGTAATAAAA
Found at i:104653245 original size:20 final size:20
Alignment explanation
Indices: 104653210--104653247 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
104653200 ACCGAACAAA
104653210 ATATAAAAATATAAATATTT
1 ATATAAAAATATAAATATTT
104653230 ATATATAAAATA-AAATAT
1 ATATA-AAAATATAAATAT
104653248 AAATTGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAAAAATATAAATATTT
Found at i:104653733 original size:20 final size:20
Alignment explanation
Indices: 104653690--104653738 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
104653680 AGGGGCAATT
* * *
104653690 AAATCAATTTGGTTAAAATC
1 AAATCAAATTGATTAAAATA
*
104653710 AAATCAAATTGATTAGAATA
1 AAATCAAATTGATTAAAATA
*
104653730 AAATAAAAT
1 AAATCAAAT
104653739 CAGGATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:104656986 original size:5 final size:5
Alignment explanation
Indices: 104656978--104657002 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
104656968 TTCTCATTTG
104656978 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
104657003 CTTGTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:104657175 original size:86 final size:86
Alignment explanation
Indices: 104656934--104657285 Score: 392
Period size: 86 Copynumber: 4.1 Consensus size: 86
104656924 TAAACAGCGG
* * *
104656934 GAATAAATCCCGAAACATATTTAATTTAA-TTTAATTCTCATTTGAAAATAAAATAAAATAA---
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTCATTTGGAAATAAAATAAAA-AATGG
* *
104656995 AATAAAATCTTGTTAAATGACGA
65 AATAAAATC-TGTTGAACGACGA
** * * *
104657018 GAATAAATCTTGAAACAGATTTTATTTAATTTTAATTTCTCATTTTGATAACAAAATAAAAAATG
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAA-TTCTCATTTGGA-AATAAAATAAAAAATG
* *
104657083 GAATAAAATCTGTTGAACGTCAA
64 GAATAAAATCTGTTGAACGACGA
* * * * *
104657106 GAATAAATCCCAAAATAGATTTTATTTAA-TTCAATACTCGTTTTGGAAATAAAATAAAAAATGG
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTC-ATTTGGAAATAAAATAAAAAATGG
*
104657170 AATAAAATCCT-TTGAACGACGG
65 AATAAAAT-CTGTTGAACGACGA
* * * *
104657192 GAATAAATCTCGAAAGAGATTTTTTTTAACTTTAATTCTCATTTGGAAATAAAATAAAAAATGAA
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTCATTTGGAAATAAAATAAAAAATGGA
*
104657257 ATAAAATCTGTTGAACGGCGA
66 ATAAAATCTGTTGAACGACGA
*
104657278 AAATAAAT
1 GAATAAAT
104657286 AATAAATCCC
Statistics
Matches: 224, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
84 25 0.11
85 7 0.03
86 119 0.53
87 30 0.13
88 34 0.15
89 9 0.04
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.33
Consensus pattern (86 bp):
GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTCATTTGGAAATAAAATAAAAAATGGA
ATAAAATCTGTTGAACGACGA
Found at i:104657262 original size:172 final size:172
Alignment explanation
Indices: 104656934--104657273 Score: 445
Period size: 172 Copynumber: 2.0 Consensus size: 172
104656924 TAAACAGCGG
* * * *
104656934 GAATAAATCCCGAAACATATTTAATTTAATTTAATTCTCATTTGAAAATAAAATAAAATAAAATA
1 GAATAAATCCCAAAACAGATTTAATTTAATTCAATACTCATTTGAAAATAAAATAAAATAAAATA
* * * * *
104656999 AAATCTTGTTAAATGACGAGAATAAATCTTGAAACAGATTTTATTTAATTTTAATTTCTCATTTT
66 AAATCCTGTTAAACGACGAGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTCTCATTTG
*
104657064 GATAACAAAATAAAAAATGGAATAAAATCTGTTGAACGTCAA
131 GATAACAAAATAAAAAATGAAATAAAATCTGTTGAACGTCAA
* * * *
104657106 GAATAAATCCCAAAATAGATTTTATTTAATTCAATACTCGTTTTGGAAATAAAATAAAA-AATGG
1 GAATAAATCCCAAAACAGATTTAATTTAATTCAATACTC-ATTTGAAAATAAAATAAAATAA---
* * * *
104657170 AATAAAATCCT-TTGAACGACGGGAATAAATCTCGAAAGAGATTTTTTTTAACTTTAA-TTCTCA
62 AATAAAATCCTGTTAAACGACGAGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTCTCA
*
104657233 TTTGGA-AATAAAATAAAAAATGAAATAAAATCTGTTGAACG
127 TTTGGATAACAAAATAAAAAATGAAATAAAATCTGTTGAACG
104657274 GCGAAAATAA
Statistics
Matches: 145, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
172 68 0.47
173 28 0.19
174 39 0.27
175 10 0.07
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.34
Consensus pattern (172 bp):
GAATAAATCCCAAAACAGATTTAATTTAATTCAATACTCATTTGAAAATAAAATAAAATAAAATA
AAATCCTGTTAAACGACGAGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTCTCATTTG
GATAACAAAATAAAAAATGAAATAAAATCTGTTGAACGTCAA
Found at i:104657482 original size:22 final size:23
Alignment explanation
Indices: 104657455--104657498 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
104657445 TTAGTGAACA
104657455 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
104657477 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
104657499 AATATAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:104658276 original size:23 final size:23
Alignment explanation
Indices: 104658250--104658301 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
104658240 TTATTTTTAA
* *
104658250 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
104658273 ATTTAGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
104658296 ATTTAG
1 ATTTAG
104658302 TGATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:104658277 original size:13 final size:13
Alignment explanation
Indices: 104658259--104658314 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
104658249 AATTTTGAAT
104658259 TATTTAGTGATAA
1 TATTTAGTGATAA
*
104658272 TATTTA--GA-AT
1 TATTTAGTGATAA
*
104658282 TATTTAATGATAA
1 TATTTAGTGATAA
104658295 TATTTAGTGATAA
1 TATTTAGTGATAA
104658308 TATTTAG
1 TATTTAG
104658315 GAAAAATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.19
11 2 0.05
12 2 0.05
13 26 0.70
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:104663079 original size:111 final size:110
Alignment explanation
Indices: 104662874--104663079 Score: 240
Period size: 111 Copynumber: 1.9 Consensus size: 110
104662864 ACATGAGAAA
* * * *
104662874 TTGAATAACCGGGATGAGGTGCTTAGGTTGTCATCTCTTTCGCGTCAAAAGGTTTGATTATGTCT
1 TTGAATAACCGGGATGAGGTGCTTAGGTTGTCATCTCCTTCGCGTCAAAAGGCTTGACTATATCT
* ** **
104662939 TGAATTCGTTAAAAATAAAAAAATTAAATAAAGAGAACGTGTCGGG
66 TGAAATC-AAAAAAATAAAAAAAAAAAATAAAGAGAACGTGTCGGG
*
104662985 TTGAGTAACCAGGG-TGAGGTGCTT-GAGTTGTCATCTCACTTCGCGTCAAAAGGCTTGACTATA
1 TTGAATAACC-GGGATGAGGTGCTTAG-GTTGTCATCTC-CTTCGCGTCAAAAGGCTTGACTATA
104663048 T-TTGAAAAT-AAAAAAATAAAAAATAAAAAATA
63 TCTTG-AAATCAAAAAAATAAAAAA-AAAAAATA
104663080 TATATAAATG
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
110 13 0.16
111 39 0.49
112 28 0.35
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (110 bp):
TTGAATAACCGGGATGAGGTGCTTAGGTTGTCATCTCCTTCGCGTCAAAAGGCTTGACTATATCT
TGAAATCAAAAAAATAAAAAAAAAAAATAAAGAGAACGTGTCGGG
Found at i:104669114 original size:22 final size:22
Alignment explanation
Indices: 104669088--104669132 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
104669078 GGGCAATTTG
104669088 CCCAATGAGTCCCTCTTGTTTA
1 CCCAATGAGTCCCTCTTGTTTA
104669110 CCCAATGAGTCCCTCTTGTTTA
1 CCCAATGAGTCCCTCTTGTTTA
104669132 C
1 C
104669133 GCAGTTTTAA
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:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (22 bp):
CCCAATGAGTCCCTCTTGTTTA
Found at i:104669301 original size:20 final size:20
Alignment explanation
Indices: 104669259--104669447 Score: 102
Period size: 18 Copynumber: 9.8 Consensus size: 20
104669249 ACCTTATTTT
* **
104669259 TTATATTATATATTATAAAA
1 TTATTTTATATATTATATTA
104669279 TTATTTTATATATTATATTA
1 TTATTTTATATATTATATTA
* *
104669299 TTA--TTATTTATTATA-TG
1 TTATTTTATATATTATATTA
* *
104669316 TTATTTT-TCACAAGT-TATTA
1 TTATTTTAT-A-TATTATATTA
*
104669336 TTATTTTACATCATTAT-TTA
1 TTATTTTATAT-ATTATATTA
104669356 TATATTATTTATATATTATATGT-
1 T-TA-T-TTTATATATTATAT-TA
104669379 TTA--TTATATATTATA-TA
1 TTATTTTATATATTATATTA
* *
104669396 TTATTTT-TACA-TATATGA
1 TTATTTTATATATTATATTA
*
104669414 TT-TTATATTATATTATA--A
1 TTATTTTA-TATATTATATTA
104669432 TTATTTTATATATTAT
1 TTATTTTATATATTAT
104669448 TAAGTCATTT
Statistics
Matches: 130, Mismatches: 18, Indels: 44
0.68 0.09 0.23
Matches are distributed among these distances:
16 1 0.01
17 14 0.11
18 41 0.32
19 13 0.10
20 41 0.32
21 3 0.02
22 8 0.06
23 8 0.06
24 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (20 bp):
TTATTTTATATATTATATTA
Found at i:104669394 original size:36 final size:38
Alignment explanation
Indices: 104669257--104669447 Score: 128
Period size: 36 Copynumber: 4.9 Consensus size: 38
104669247 TAACCTTATT
* *
104669257 TTTTATATTATATATTATAAAATTATTTTATATATTATATTA
1 TTTTATA-T-TATATTAT-ATATTA-TTTATATATTATATGA
* * * * *
104669299 TTAT-TATT-TATTATATGTTATTTTTCACAAGTTATTATTA
1 TTTTATATTATATTATATATTATTTAT-A-TA-TTA-TATGA
104669339 TTTTACATCATTAT-TTATATATTATTTATATATTATATG-
1 TTTT--AT-ATTATATTATATATTATTTATATATTATATGA
* *
104669378 -TTTAT-TATATATTATATATTATTTTTACA-TATATGA
1 TTTTATAT-TATATTATATATTATTTATATATTATATGA
104669414 TTTTATATTATATTATA-ATTATTTTATATATTAT
1 TTTTATATTATATTATATATTA-TTTATATATTAT
104669448 TAAGTCATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 36
0.70 0.08 0.21
Matches are distributed among these distances:
34 1 0.01
35 9 0.08
36 26 0.22
37 25 0.21
38 14 0.12
39 4 0.03
40 12 0.10
41 5 0.04
42 4 0.03
43 2 0.02
44 16 0.13
45 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (38 bp):
TTTTATATTATATTATATATTATTTATATATTATATGA
Found at i:104669448 original size:21 final size:21
Alignment explanation
Indices: 104669413--104669498 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 21
104669403 TACATATATG
104669413 ATTTTATAT-TATATTATAATT
1 ATTTTATATAT-TATTATAATT
* *
104669434 ATTTTATATATTATTA-AGTC
1 ATTTTATATATTATTATAATT
*
104669454 ATTTT-TGTATTATTATATATT
1 ATTTTATATATTATTATA-ATT
* *
104669475 TTTATCTATATATTATTATCATT
1 ATT-T-TATATATTATTATAATT
104669498 A
1 A
104669499 AAGATTTTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
19 9 0.18
20 8 0.16
21 17 0.34
22 2 0.04
23 4 0.08
24 10 0.20
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTATATATTATTATAATT
Found at i:104672624 original size:26 final size:26
Alignment explanation
Indices: 104672586--104672695 Score: 202
Period size: 26 Copynumber: 4.2 Consensus size: 26
104672576 CATGAAATTC
*
104672586 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
104672612 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
104672638 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
104672664 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
104672690 TTATCA
1 TTATCA
104672696 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:104674506 original size:13 final size:13
Alignment explanation
Indices: 104674484--104674514 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
104674474 TTAACAACAA
104674484 TTAAAGTTAATGG
1 TTAAAGTTAATGG
*
104674497 TTAAATTTAATGG
1 TTAAAGTTAATGG
104674510 TTAAA
1 TTAAA
104674515 AATAAGATAG
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:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (13 bp):
TTAAAGTTAATGG
Found at i:104680275 original size:31 final size:31
Alignment explanation
Indices: 104680240--104680303 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
104680230 ATTTCGGTTA
104680240 CAACTTGTTTCAATATTTTTCTTTCATTCTT
1 CAACTTGTTTCAATATTTTTCTTTCATTCTT
104680271 CAACTTGTTTCAATATTTTTCTTTCATTCTT
1 CAACTTGTTTCAATATTTTTCTTTCATTCTT
104680302 CA
1 CA
104680304 TTTGCTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.56
Consensus pattern (31 bp):
CAACTTGTTTCAATATTTTTCTTTCATTCTT
Found at i:104682822 original size:11 final size:11
Alignment explanation
Indices: 104682806--104682838 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
104682796 TAATTAAAAT
104682806 ATATTATATTA
1 ATATTATATTA
104682817 ATATTATATT-
1 ATATTATATTA
104682827 ATATTA-ATTA
1 ATATTATATTA
104682837 AT
1 AT
104682839 TAAATAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 8 0.38
11 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATTATATTA
Found at i:104682896 original size:13 final size:13
Alignment explanation
Indices: 104682878--104682909 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
104682868 ATAGTTTAAT
104682878 AATAAAATAAAGA
1 AATAAAATAAAGA
104682891 AATAAAATAAAGA
1 AATAAAATAAAGA
104682904 AATAAA
1 AATAAA
104682910 TGAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:104690004 original size:21 final size:21
Alignment explanation
Indices: 104689978--104690018 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104689968 AGACGAGCAA
* *
104689978 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
104689999 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
104690019 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:104692865 original size:214 final size:213
Alignment explanation
Indices: 104692487--104693026 Score: 832
Period size: 214 Copynumber: 2.5 Consensus size: 213
104692477 TGGAACAACA
* ** * *
104692487 GAGGGAACTTAATTTAGGCAAAACGGTTTTGAAGGAATTACCATCAC-CAATTGACAATCTTATT
1 GAGGGAACTTAATTTAAGCGGAACGGATGTGAAGGAATTACCATC-CTCAATTGACAATCTTATT
* *
104692551 GGTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTACCTTCCTACCAGCCTTTATAA
65 GGTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTACCAACCTTTATAA
* * * * *
104692616 ATTGAAATCTCTTGAAAAATTTGACGTTGAAGGTTGCTCAAGATTGGAGGCTTTCCCAGAAATCT
130 ATTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCG
*
104692681 TGGACATCATGGAGTGGTT
195 TGGACATCATGGAGCGGTT
* *
104692700 GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAAGTGACAATCTTATTT
1 GAGGGAACTTAATTTAAGCGGAACGGATGTGAAGGAATTACCATCCTCAATTGACAATCTTA-TT
** * * *
104692765 GGTCTTGAGAAATTGGTATTGAGTAATTGTGAAAACTTTGTTTGCCTTCCTACCAACTTTTATAA
65 GGTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTACCAACCTTTATAA
104692830 ATTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCG
130 ATTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCG
104692895 TGGACATCATGGAGCGGTT
195 TGGACATCATGGAGCGGTT
* *
104692914 GAGGGAACTTAATTTAAACGGAACGGATGTGAAGGAATTACCATCTTCAATTGACAATCTTATTG
1 GAGGGAACTTAATTTAAGCGGAACGGATGTGAAGGAATTACCATCCTCAATTGACAATCTTATTG
*
104692979 GTCTTGA-AAATTTGGTATTGAACAACTGTGAAAACGTTGTTTGCCTTC
66 GTCTTGAGAAA-TTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTC
104693027 TTGATAGCTT
Statistics
Matches: 297, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
212 4 0.01
213 97 0.33
214 196 0.66
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (213 bp):
GAGGGAACTTAATTTAAGCGGAACGGATGTGAAGGAATTACCATCCTCAATTGACAATCTTATTG
GTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTACCAACCTTTATAAA
TTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCGT
GGACATCATGGAGCGGTT
Found at i:104694892 original size:16 final size:16
Alignment explanation
Indices: 104694873--104694912 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
104694863 TTTTGTGAAT
104694873 TTTTTTCTATTTTTAA
1 TTTTTTCTATTTTTAA
*
104694889 TTTTTTCTTTTTTTAA
1 TTTTTTCTATTTTTAA
104694905 TTTATTTC
1 TTT-TTTC
104694913 AAGAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTCTATTTTTAA
Found at i:104696139 original size:21 final size:23
Alignment explanation
Indices: 104696105--104696161 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
104696095 ATTCTATTGT
* *
104696105 TTTTGTTGCTATTTTTC-CA-TG
1 TTTTGCTGCCATTTTTCTCACTG
104696126 TTTTGCTGCCA-TTTTCTCACTG
1 TTTTGCTGCCATTTTTCTCACTG
*
104696148 TTTTGCTACCATTT
1 TTTTGCTGCCATTT
104696162 CACAATTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 5 0.17
21 11 0.37
22 12 0.40
23 2 0.07
ACGTcount: A:0.11, C:0.21, G:0.12, T:0.56
Consensus pattern (23 bp):
TTTTGCTGCCATTTTTCTCACTG
Found at i:104703690 original size:12 final size:11
Alignment explanation
Indices: 104703660--104703725 Score: 64
Period size: 12 Copynumber: 5.9 Consensus size: 11
104703650 TTTACAAATA
*
104703660 AAATATAT-AC
1 AAATATATAAT
104703670 AAATCATATAAT
1 AAAT-ATATAAT
104703682 AAATAATATAA-
1 AAAT-ATATAAT
104703693 AAATATATAAT
1 AAATATATAAT
*
104703704 AAAATCTATAAT
1 -AAATATATAAT
*
104703716 ATATATATAA
1 AAATATATAA
104703726 AAGAAAGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
10 10 0.21
11 16 0.34
12 21 0.45
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATATAAT
Found at i:104703700 original size:22 final size:22
Alignment explanation
Indices: 104703660--104703706 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
104703650 TTTACAAATA
*
104703660 AAATATATACAAATCATATAAT
1 AAATATATAAAAATCATATAAT
104703682 AAATAATATAAAAAT-ATATAAT
1 AAAT-ATATAAAAATCATATAAT
104703704 AAA
1 AAA
104703707 ATCTATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATATATAAAAATCATATAAT
Found at i:104703708 original size:23 final size:22
Alignment explanation
Indices: 104703656--104703725 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 22
104703646 ATAATTTACA
*
104703656 AATAAAATATATACAAATCATAT
1 AATAAAATATATAAAAAT-ATAT
104703679 AAT-AAATAATATAAAAATATAT
1 AATAAAAT-ATATAAAAATATAT
* *
104703701 AATAAAATCTATAATATATATAT
1 AATAAAATATATAA-AAATATAT
104703724 AA
1 AA
104703726 AAGAAAGATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 16 0.39
23 25 0.61
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAAATATATAAAAATATAT
Found at i:104703825 original size:23 final size:24
Alignment explanation
Indices: 104703769--104703818 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
104703759 ATATCGCATG
104703769 TAATAAAA-ATGCATAAATAAAATA
1 TAATAAAATATG-ATAAATAAAATA
*
104703793 TAATGAAATATGATAAA-AAAATA
1 TAATAAAATATGATAAATAAAATA
104703816 TAA
1 TAA
104703819 AATAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 12 0.50
25 3 0.12
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (24 bp):
TAATAAAATATGATAAATAAAATA
Found at i:104703870 original size:16 final size:15
Alignment explanation
Indices: 104703805--104703893 Score: 67
Period size: 14 Copynumber: 5.9 Consensus size: 15
104703795 ATGAAATATG
* *
104703805 ATAAAAAAATATAAA
1 ATAAAAATATATAAT
*
104703820 ATAATAATA-ATAAT
1 ATAAAAATATATAAT
* * *
104703834 ATAATAAGTATTTTTAT
1 ATAA-AAATA-TATAAT
104703851 ATAAAAATATAGTAAT
1 ATAAAAATATA-TAAT
104703867 ATAAATAATATAT-A-
1 ATAAA-AATATATAAT
104703881 ATAAAAATATATA
1 ATAAAAATATATA
104703894 CCATATAGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
13 7 0.12
14 13 0.22
15 12 0.21
16 13 0.22
17 13 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
ATAAAAATATATAAT
Found at i:104708026 original size:18 final size:18
Alignment explanation
Indices: 104707941--104708027 Score: 93
Period size: 18 Copynumber: 4.8 Consensus size: 18
104707931 TACGACCGTT
104707941 TACGGTACTATTCACATA
1 TACGGTACTATTCACATA
** * **
104707959 TACGACACTATTTATGTA
1 TACGGTACTATTCACATA
*
104707977 TACGGTACTATTCACGTA
1 TACGGTACTATTCACATA
**
104707995 TACGACACTATTCACATA
1 TACGGTACTATTCACATA
*
104708013 TACGGTACTGTTCAC
1 TACGGTACTATTCAC
104708028 GTATGCAGTA
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACATA
Found at i:104708028 original size:36 final size:36
Alignment explanation
Indices: 104707941--104708031 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
104707931 TACGACCGTT
* * **
104707941 TACGGTACTATTCACATATACGACACTATTTATGTA
1 TACGGTACTATTCACGTATACGACACTATTCACATA
104707977 TACGGTACTATTCACGTATACGACACTATTCACATA
1 TACGGTACTATTCACGTATACGACACTATTCACATA
*
104708013 TACGGTACTGTTCACGTAT
1 TACGGTACTATTCACGTAT
104708032 GCAGTAGTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGACACTATTCACATA
Found at i:104715675 original size:32 final size:32
Alignment explanation
Indices: 104715639--104715703 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
104715629 ACAATATAAT
104715639 TTTAAAAAAGTTATCATTTTTATAAAAAAAAA
1 TTTAAAAAAGTTATCATTTTTATAAAAAAAAA
104715671 TTTAAAAAAGTTATCATTTTTATAAAAAAAAA
1 TTTAAAAAAGTTATCATTTTTATAAAAAAAAA
104715703 T
1 T
104715704 CATTTTGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (32 bp):
TTTAAAAAAGTTATCATTTTTATAAAAAAAAA
Found at i:104716871 original size:213 final size:210
Alignment explanation
Indices: 104716493--104717531 Score: 1163
Period size: 213 Copynumber: 4.9 Consensus size: 210
104716483 TCAAGTATTC
* * * * * * * *
104716493 ATAAACTGAAATCTCTCG-AGTATTTCGATCTTCAAGGTTGTTCCAGATTGGAGATTTTCCCTGA
1 ATAAATTGAAATCTCTTGAAATA-TTCAATCTT-AAAGTTGCTCAAGATTGGAGATTTTCCCAGA
* * ** * * **
104716557 AATCATGGACACTATGGAGAGGT-TAAGGGTTCTTGATTTAAGTGGAACGGCTTTGAAGGGCTTA
64 AATCATGGACACCATGGAGAGGTGT-A-TGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTA
* * * * *
104716621 CCATCCTCAATTGATAATCTTGTTGGTCTTGAGGATTTGAGATTGAACTACTGTGAAGACCTTGT
127 CCATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
*
104716686 TTGCCTTCCTAAAAGCTTTT
191 TTGCCTTCCTAACAGCTTTT
* * *
104716706 ATAAATTGGAATCTCTTGAAA-ATTTCAATCTTGGAAA-TTGCTCAATATTGGAGACTTTCCCAG
1 ATAAATTGAAATCTCTTGAAATA-TTCAATCTT--AAAGTTGCTCAAGATTGGAGATTTTCCCAG
* * *
104716769 AAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTA
63 AAATCATGGACACCATGGA-GAGGTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTA
* * *
104716834 CCATCTTCAATTACCAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTCAAAACCTTAT
127 CCATCCTCAATTA-CAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
*
104716899 TTGCCTTCCTAATAGCTTTT
191 TTGCCTTCCTAACAGCTTTT
** * * *
104716919 ATAAATTGAAATCTCTTGAGTTATTCAGTCTTGAAGGTTGCTCGAGATTGGAGATTTTCCCAGAA
1 ATAAATTGAAATCTCTTGAAATATTCAATCTT-AAAGTTGCTCAAGATTGGAGATTTTCCCAGAA
* * * *
104716984 ATCATGGAAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGGACAGCTTTGAAGGAATTACC
65 ATCATGGACACCATGGAGAGG-TGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACC
* ** * *
104717049 ATCCTCAATTGCCAATCTTATTGGTCTTAAATATTTGGGATTGAACAACTGTGAAAATCTTGTTT
129 ATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTT
* *
104717114 GCCTTCCTGACAGTTTTT
193 GCCTTCCTAACAGCTTTT
* * *
104717132 ATAAATTGAAATCTCTTGAGATATTCAATGTTAAAGGTTGCTCGAGATTGGAGATTTTCCCAGAA
1 ATAAATTGAAATCTCTTGAAATATTCAATCTTAAA-GTTGCTCAAGATTGGAGATTTTCCCAGAA
* **
104717197 ATTATGGACACCATGGAGAGGTTGTATGAACTTGATTTAATTGGAACGGCTTTGAAAGAATTACC
65 ATCATGGACACCATGGAGAGG-TGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACC
* * * *
104717262 ATCCTCAATTGGCAATCTTATTAGTCTTAAGGATTTCAGATTGAACAACTGTGAAAACCTTATTT
129 ATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTT
** *
104717327 ATCTTCCTAACAGTTTTT
193 GCCTTCCTAACAGCTTTT
* * *
104717345 ATAAATTGCAATCTCTAGAGAA-ATTCAATCTTAAAGGTTGCTCAAGATTGGAAATTTTCCCAGA
1 ATAAATTGAAATCTCTTGA-AATATTCAATCTTAAA-GTTGCTCAAGATTGGAGATTTTCCCAGA
* * *
104717409 AATCATGGACAGCC---------TGTATGAACTTGATTTAAGCAGAACAG-TTTTAAAGGAATTA
64 AATCATGGACA-CCATGGAGAGGTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAA-GAATTA
* *
104717464 CCATCCTCAATTGATAATTTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
127 CCATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
104717529 TTG
191 TTG
104717532 TAGTAATTCA
Statistics
Matches: 713, Mismatches: 100, Indels: 35
0.84 0.12 0.04
Matches are distributed among these distances:
203 6 0.01
204 90 0.13
212 9 0.01
213 595 0.83
214 12 0.02
215 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (210 bp):
ATAAATTGAAATCTCTTGAAATATTCAATCTTAAAGTTGCTCAAGATTGGAGATTTTCCCAGAAA
TCATGGACACCATGGAGAGGTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACCAT
CCTCAATTACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTGCC
TTCCTAACAGCTTTT
Found at i:104717292 original size:426 final size:423
Alignment explanation
Indices: 104716493--104717531 Score: 1307
Period size: 426 Copynumber: 2.5 Consensus size: 423
104716483 TCAAGTATTC
* * * * * *
104716493 ATAAACTGAAATCTCTCGAGTATTTC-GATCTTCAAGGTTGTTCCAGATTGGAGATTTTCCCTGA
1 ATAAATTGAAATCTCTAGAGTA-TTCAG-TCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGA
* * ** * * **
104716557 AATCATGGACACTATGGAGAGG-T-TAAGGGTTCTTGATTTAAGTGGAACGGCTTTGAAGGGCTT
64 AATCATGGA-ACCATGGAGAGGCTGT-A-TGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATT
* * * *
104716620 ACCATCCTCAATTGATAATCTTGTTGGTCTTGAGGATTTGAGATTGAACTACTGTGAAGACCTTG
126 ACCATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTG
*
104716685 TTTGCCTTCCTAAAAGCTTTTATAAATTGGAATCTCTTGAAAATTTCAATCTTGGAAATTGCTCA
191 TTTGCCTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTT-GAAATTGCTCA
*
104716750 ATATTGGAGACTTTCCCAGAAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGG
255 AGATTGGAGACTTTCCCAGAAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGG
* * *
104716815 AACGGCTTTGAAAGAATTACCATCTTCAATTACCAATCTTATTGGTCTTAAGGATTTGAGATTGA
320 AACGGCTTTGAAAGAATTACCATCCTCAATTACCAATCTTATTAGTCTTAAGGATTTCAGATTGA
* *
104716880 ACAACTGTCAAAACCTTATTTGCCTTCCTAATAGCTTTT
385 ACAACTGTCAAAACCTTATTTACCTTCCTAACAGCTTTT
* * *
104716919 ATAAATTGAAATCTCTTGAGTTATTCAGTCTTGAAGGTTGCTCGAGATTGGAGATTTTCCCAGAA
1 ATAAATTGAAATCTCTAGAG-TATTCAGTCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
*
104716984 ATCATGGAAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGGACAGCTTTGAAGGAATTACC
65 ATCATGG-AACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATTACC
** ** * *
104717049 ATCCTCAATTGCCAATCTTATTGGTCTTAAATATTTGGGATTGAACAACTGTGAAAATCTTGTTT
129 ATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTT
* * * * * *
104717114 GCCTTCCTGACAGTTTTTATAAATTGAAATCTCTTG-AGATATTCAATGTT-AAAGGTTGCTCGA
194 GCCTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAAT-TTCAATCTTGAAA--TTGCTCAA
* * * **
104717177 GATTGGAGATTTTCCCAGAAAT-TATGGACACCATGGA-GAGGTTGTATGAACTTGATTTAATTG
256 GATTGGAGACTTTCCCAGAAATCT-TGGACACCATGGAGGA-GATGTATAAACTTGATTTAAGCG
**
104717240 GAACGGCTTTGAAAGAATTACCATCCTCAATTGGCAATCTTATTAGTCTTAAGGATTTCAGATTG
319 GAACGGCTTTGAAAGAATTACCATCCTCAATTACCAATCTTATTAGTCTTAAGGATTTCAGATTG
* * *
104717305 AACAACTGTGAAAACCTTATTTATCTTCCTAACAGTTTTT
384 AACAACTGTCAAAACCTTATTTACCTTCCTAACAGCTTTT
* * * *
104717345 ATAAATTGCAATCTCTAGAGAAATTCAATCTTAAAGGTTGCTCAAGATTGGAAATTTTCCCAGAA
1 ATAAATTGAAATCTCTAGAG-TATTCAGTCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
* * * *
104717410 ATCATGG-A-C------AGCCTGTATGAACTTGATTTAAGCAGAACAGTTTTAAAGGAATTACCA
65 ATCATGGAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATTACCA
*
104717467 TCCTCAATTGATAATTTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTG
130 TCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTG
104717532 TAGTAATTCA
Statistics
Matches: 535, Mismatches: 68, Indels: 29
0.85 0.11 0.05
Matches are distributed among these distances:
417 101 0.19
423 1 0.00
424 4 0.01
425 6 0.01
426 416 0.78
427 6 0.01
428 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (423 bp):
ATAAATTGAAATCTCTAGAGTATTCAGTCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAAA
TCATGGAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATTACCAT
CCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTGC
CTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTTGAAATTGCTCAAGATTG
GAGACTTTCCCAGAAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGGAACGGC
TTTGAAAGAATTACCATCCTCAATTACCAATCTTATTAGTCTTAAGGATTTCAGATTGAACAACT
GTCAAAACCTTATTTACCTTCCTAACAGCTTTT
Found at i:104719240 original size:17 final size:18
Alignment explanation
Indices: 104719207--104719241 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
104719197 ACTTAGAAAT
*
104719207 ATTTTTTATAAAGTTTTA
1 ATTTTTTATAAAATTTTA
104719225 ATTTTTTA-AAAATTTTA
1 ATTTTTTATAAAATTTTA
104719242 TAAATATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTTTTTATAAAATTTTA
Found at i:104719442 original size:18 final size:17
Alignment explanation
Indices: 104719416--104719449 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
104719406 CAAGGTTTTT
*
104719416 TTTATAAATTATATAAAG
1 TTTAAAAATTAT-TAAAG
104719434 TTTAAAAATTATTAAA
1 TTTAAAAATTATTAAA
104719450 AATTAATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTAAAAATTATTAAAG
Found at i:104720389 original size:6 final size:6
Alignment explanation
Indices: 104720378--104720403 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
104720368 CTTCTCCCTT
104720378 TTCCCC TTCCCC TTCCCC TTCCCC TT
1 TTCCCC TTCCCC TTCCCC TTCCCC TT
104720404 GGGTTGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TTCCCC
Found at i:104720528 original size:25 final size:25
Alignment explanation
Indices: 104720500--104720550 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
104720490 CAGGTAAGGC
*
104720500 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTATTCAT
104720525 TCCTTCTCCTTCTTCCGTTATTCAT
1 TCCTTCTCCTTCTTCCGTTATTCAT
104720550 T
1 T
104720551 TTCTCTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.06, C:0.37, G:0.04, T:0.53
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTATTCAT
Found at i:104725900 original size:14 final size:14
Alignment explanation
Indices: 104725881--104725907 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
104725871 TTTTAAATTC
104725881 AAATCCTAATTCTA
1 AAATCCTAATTCTA
104725895 AAATCCTAATTCT
1 AAATCCTAATTCT
104725908 CAAGCGCTAC
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:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATCCTAATTCTA
Found at i:104745495 original size:26 final size:26
Alignment explanation
Indices: 104745459--104745568 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
104745449 TGATACAAAT
104745459 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
104745485 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
104745511 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
104745537 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
104745563 TGATAA
1 TGATAA
104745569 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:104753013 original size:31 final size:29
Alignment explanation
Indices: 104752965--104753093 Score: 74
Period size: 30 Copynumber: 4.4 Consensus size: 29
104752955 ACTTCTTGTT
104752965 AATATTTTAATATATAAAATATAAATTTTA
1 AATATTTTAATATAT-AAATATAAATTTTA
104752995 AATATTTTTAAGTA-ATAAATATTAATTATTTATA
1 AATA-TTTTAA-TATATAAATA-TAA--ATTT-TA
* *
104753029 AA-A-TTTAAT-TAGAATATATAAA--CTA
1 AATATTTTAATATATAA-ATATAAATTTTA
* * * *
104753054 TAT-TTTTAATATTTAAATATAACTATTA
1 AATATTTTAATATATAAATATAAATTTTA
104753082 AATATTTGTAAT
1 AATATTT-TAAT
104753094 TAGTATTTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 30
0.67 0.07 0.26
Matches are distributed among these distances:
25 3 0.04
26 12 0.16
27 3 0.04
28 5 0.07
29 3 0.04
30 20 0.26
31 19 0.25
32 2 0.03
33 5 0.07
34 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
AATATTTTAATATATAAATATAAATTTTA
Found at i:104762881 original size:24 final size:23
Alignment explanation
Indices: 104762854--104763057 Score: 82
Period size: 26 Copynumber: 8.2 Consensus size: 23
104762844 TTTTTTAACC
104762854 TTATTTTTATATTATATATTATAA
1 TTATTTTTATATTATATATTAT-A
*
104762878 TTATTTTATTATATAATAT-TTATA
1 TTA-TTT-TTATATTATATATTATA
*
104762902 TTATTATTAT-TTAT-TA-TATA
1 TTATTTTTATATTATATATTATA
* * *
104762922 TTATTTTTCACAAATTGTTATTATTTACA
1 TTATTTTT---ATATT-ATA-TA-TTATA
104762951 TTATTATTTATA-TAT-TATTATA
1 TTATT-TTTATATTATATATTATA
104762973 TTATATGTTTATTAATTATATATATTATATA
1 TTAT-T-TTTA-T-A-T-TATATA-T-TATA
*
104763004 TTATTTTTTATATATATACTTTTATA
1 TTA-TTTTTATAT-TATA-TATTATA
*
104763030 TTATATATTATAATTAT-T-TTATA
1 TTAT-TTTTAT-ATTATATATTATA
104763053 TTATT
1 TTATT
104763058 ATGTCATTTT
Statistics
Matches: 141, Mismatches: 13, Indels: 54
0.68 0.06 0.26
Matches are distributed among these distances:
20 12 0.09
21 3 0.02
22 13 0.09
23 19 0.13
24 11 0.08
25 11 0.08
26 26 0.18
27 13 0.09
28 5 0.04
29 11 0.08
30 8 0.06
31 8 0.06
32 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (23 bp):
TTATTTTTATATTATATATTATA
Found at i:104762900 original size:19 final size:19
Alignment explanation
Indices: 104762859--104763079 Score: 94
Period size: 19 Copynumber: 11.7 Consensus size: 19
104762849 TAACCTTATT
*
104762859 TTTATATTA-TATATTATA
1 TTTATATTATTATATAATA
* *
104762877 ATTATTTTATTATATAATA
1 TTTATATTATTATATAATA
*
104762896 TTTATATTATTAT-TATTTA
1 TTTATATTATTATATA-ATA
* *
104762915 TTATATATTATT-TTTCACAAA
1 TT-TATATTATTATAT-A-ATA
* *
104762936 TTGT-TATTATTTACATTATTA
1 TT-TATATTA-TTATA-TAATA
104762957 TTTATA-TATTAT-T-ATA
1 TTTATATTATTATATAATA
104762973 -TTATATGT-TTAT-TAAT-
1 TTTATAT-TATTATATAATA
* *
104762989 TATATA-TATTATATATTA
1 TTTATATTATTATATAATA
*
104763007 TTT-T-TTATATATATACT-
1 TTTATATTAT-TATATAATA
104763024 TTTATATTATATATTATAATTA
1 TTTATATTAT-TA-TATAA-TA
* * *
104763046 TTTTATATTATTATGTCATT
1 -TTTATATTATTATATAATA
104763066 TTTATATTATTATA
1 TTTATATTATTATA
104763080 CATTTTTATC
Statistics
Matches: 154, Mismatches: 25, Indels: 47
0.68 0.11 0.21
Matches are distributed among these distances:
15 6 0.04
16 11 0.07
17 18 0.12
18 19 0.12
19 47 0.31
20 23 0.15
21 16 0.10
22 3 0.02
23 11 0.07
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTATATTATTATATAATA
Found at i:104762983 original size:23 final size:22
Alignment explanation
Indices: 104762855--104763107 Score: 99
Period size: 21 Copynumber: 11.6 Consensus size: 22
104762845 TTTTTAACCT
* *
104762855 TATTTTTATATTATATATTATA
1 TATTATTATATTATATTTTATA
* ** *
104762877 -ATTATTTTATTATATAATATT
1 TATTATTATATTATATTTTATA
104762898 TA-TATTATTATTAT-TTATTATA
1 TATTATTA-TATTATATT-TTATA
* ** *
104762920 TATTATT-T-TTCACAAATTGT-
1 TATTATTATATT-ATATTTTATA
*
104762940 TATTATTTACATTAT-TATTTATA
1 TATTA-TTATATTATAT-TTTATA
104762963 TATTATTATATTATATGTTTAT-
1 TATTATTATATTATAT-TTTATA
*
104762985 TAATTATATATATTATATATTAT-
1 T-ATTAT-TATATTATATTTTATA
*
104763008 T-TT-TTATATATATACTTT-TA
1 TATTATTATAT-TATATTTTATA
*
104763028 TATTA-TATATTATAATTATTTTA
1 TATTATTATATTAT-ATT-TTATA
* *
104763051 TATTATTATGTCAT-TTTTATA
1 TATTATTATATTATATTTTATA
*
104763072 TTATTA-TACATT-T-TTATCTATA
1 -TATTATTATATTATATT-T-TATA
104763094 TATTATTATCATTA
1 TATTATTAT-ATTA
104763108 AAGGTTTTAA
Statistics
Matches: 173, Mismatches: 30, Indels: 54
0.67 0.12 0.21
Matches are distributed among these distances:
19 6 0.03
20 21 0.12
21 53 0.31
22 40 0.23
23 37 0.21
24 16 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (22 bp):
TATTATTATATTATATTTTATA
Found at i:104763007 original size:62 final size:66
Alignment explanation
Indices: 104762940--104763107 Score: 154
Period size: 65 Copynumber: 2.5 Consensus size: 66
104762930 CACAAATTGT
104762940 TATTATTTACATTATTATTTATATATTATTATATTAT-ATGT-TTATTA-ATTA-TATAT-A-TT
1 TATTATTTACATTATTATTTATATATTATTATATTATAAT-TATT-TTATATTATTATATCATTT
104762999 ATA
64 ATA
** *
104763002 TATTATTTTTTATATATATACTTT-TATATTA-TATATTATAATTATTTTATATTATTATGTCAT
1 TATTA-TTTACAT-TAT-TA-TTTATATATTATTATATTATAATTATTTTATATTATTATATCAT
*
104763065 TTTTA
62 TTATA
* *
104763070 TATTATTATACATTTTTATCTATATATTATTATCATTA
1 TATTATT-TACATTATTATTTATATATTATTAT-ATTA
104763108 AAGGTTTTAA
Statistics
Matches: 84, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
62 5 0.06
63 5 0.06
64 15 0.18
65 19 0.23
66 16 0.19
67 8 0.10
68 16 0.19
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (66 bp):
TATTATTTACATTATTATTTATATATTATTATATTATAATTATTTTATATTATTATATCATTTAT
A
Found at i:104763052 original size:16 final size:16
Alignment explanation
Indices: 104762953--104763075 Score: 52
Period size: 16 Copynumber: 6.9 Consensus size: 16
104762943 TATTTACATT
*
104762953 ATTATTTATATATTATT
1 ATTATTT-TATATTATA
* *
104762970 A-TATTATATGTTTATTA
1 ATTATTTTAT-ATTA-TA
*
104762987 ATTA-TATATATTATA
1 ATTATTTTATATTATA
104763002 TATTATTTTTTATATATATA
1 -ATTA--TTTTATAT-TATA
*
104763022 CTTTTATATTATATATTATA
1 --ATTAT-TT-TATATTATA
*
104763042 ATTATTTTATATTATT
1 ATTATTTTATATTATA
104763058 ATGTCATTTTTATATTAT
1 AT-T-A-TTTTATATTAT
104763076 TATACATTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
15 5 0.06
16 24 0.29
17 11 0.13
18 7 0.08
19 18 0.21
20 10 0.12
21 9 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTATTTTATATTATA
Found at i:104763129 original size:128 final size:124
Alignment explanation
Indices: 104762866--104763148 Score: 287
Period size: 131 Copynumber: 2.2 Consensus size: 124
104762856 ATTTTTATAT
*
104762866 TATATATTATA-ATTATTTTATTATATA-ATATTTATATTATTATTATTTATTATATATTATTTT
1 TATATATTATATATTATTTT-TTATATATATATTTATATTATTATTATTTATTATATATTATTTG
* * *
104762929 TCACAAATTGTTATTATTTACATTATTATTTATATATTATTATATTATATGTTTATTAATTA
65 T-ACAAATTGTTATTATTTACATTATTATCTATATATTATTATATTATAAGGTTATTAA-TA
*
104762991 TATATATTATATATTATTTTTTATATATATACTTTTATATTATATATTATAATTATTTTATATTA
1 TATATATTATATATTATTTTTTATATATATA--TTTATATTAT-TATTAT--TTATTATATATTA
* * *
104763056 TTATGT-C-ATTTTTATATTATTATACATTTTTATCTATATATTATTATCATTA-AAGGTT-TTA
61 TT-TGTACAAATTGT-TATTATT-TACATTATTATCTATATATTATTAT-ATTATAAGGTTATTA
104763117 A-A
122 ATA
* *
104763119 CT-TGTATTATATACTTA-TTTTTATTTATAT
1 -TATATATTATATA-TTATTTTTTATATATAT
104763149 GTTAATAACT
Statistics
Matches: 135, Mismatches: 10, Indels: 23
0.80 0.06 0.14
Matches are distributed among these distances:
125 18 0.13
126 11 0.08
128 33 0.24
129 14 0.10
130 12 0.09
131 41 0.30
132 6 0.04
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (124 bp):
TATATATTATATATTATTTTTTATATATATATTTATATTATTATTATTTATTATATATTATTTGT
ACAAATTGTTATTATTTACATTATTATCTATATATTATTATATTATAAGGTTATTAATA
Found at i:104763407 original size:17 final size:17
Alignment explanation
Indices: 104763342--104763407 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
104763332 ACTAAACCAA
*
104763342 TATATTTTATATTTT-T
1 TATATATTATATTTTAT
*
104763358 TATGTAATTATTATTCTTA-
1 TATAT-ATTA-TATT-TTAT
*
104763377 TAAATA-TAT-TTTTAT
1 TATATATTATATTTTAT
104763392 TATATATTATATTTTA
1 TATATATTATATTTTA
104763408 AATTTATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 8 0.21
17 10 0.26
18 5 0.13
19 5 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:104763431 original size:26 final size:25
Alignment explanation
Indices: 104763384--104763432 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
104763374 TTATAAATAT
* * *
104763384 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
104763409 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
104763433 TTATTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:104767176 original size:15 final size:15
Alignment explanation
Indices: 104767140--104767186 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
104767130 CAATATCCTT
104767140 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
104767154 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
104767170 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
104767183 TTTG
1 TTTG
104767187 TATTCAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 5 0.17
14 7 0.24
15 11 0.38
16 6 0.21
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:104767923 original size:59 final size:59
Alignment explanation
Indices: 104767830--104767952 Score: 185
Period size: 59 Copynumber: 2.1 Consensus size: 59
104767820 GGTGCTTTCT
* * *
104767830 CATAAATTTAAGATGCCAGAGTTTGAAAATTACAACGGGACT-CATTGCCCAGAGGCATA
1 CATAAATTTAAGACGCCAGAGTTTGAAAAGTACAACAGGACTAC-TTGCCCAGAGGCATA
**
104767889 CATAAATTTAAGACGCCAGAGTTTGAGCAGTACAACAGGACTACTTGCCCAGAGGCATA
1 CATAAATTTAAGACGCCAGAGTTTGAAAAGTACAACAGGACTACTTGCCCAGAGGCATA
104767948 CATAA
1 CATAA
104767953 CAATGTTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 57 0.98
60 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (59 bp):
CATAAATTTAAGACGCCAGAGTTTGAAAAGTACAACAGGACTACTTGCCCAGAGGCATA
Found at i:104774435 original size:15 final size:14
Alignment explanation
Indices: 104774410--104774439 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
104774400 CCTTGAGATT
104774410 TAAAAAAAAGAAAA
1 TAAAAAAAAGAAAA
104774424 TAAAAGAAAAGAAAA
1 TAAAA-AAAAGAAAA
104774439 T
1 T
104774440 GGAGAGGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (14 bp):
TAAAAAAAAGAAAA
Found at i:104775690 original size:205 final size:205
Alignment explanation
Indices: 104775354--104776041 Score: 998
Period size: 206 Copynumber: 3.3 Consensus size: 205
104775344 AGATCTGGCA
* *
104775354 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATCTTTGTACTTACAAGGAACAAA
1 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATCCTTGTGCTTACAAGGAACAAA
* * *
104775419 TCAAAGACATAGCTAATTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCAT
65 TCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCAT
* *
104775484 CTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCAATGGGGAGCAGATACATAG
130 CTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAA
*
104775549 CAAATCTCACC
195 CAGATCTCACC
* * * * * *
104775560 TTTAGATGTTTATACTGAAGTAGATCCAAGATGATTTAGCATCCTTGTGCCTATAAGGAGCAAAT
1 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
* *
104775625 TGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCATC
66 CGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATC
* * *
104775690 TCTGTATTGTCAGAGAACAAATCGAATTCTGGCATCTCCACTTCAATGAAGAGCAGATACATAAC
131 TCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAAC
*
104775755 AGATCTGACC
196 AGATCTCACC
* * * *
104775765 TTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAA
1 TTCAGATGTTTATACTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAA
* * *
104775830 TCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGTAAATCTAAGATGATTTGGCAT
65 TCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCAT
* * * * ** *
104775895 CTCTGTATTATCAGAGAACGAATTGAAGTCTGGCTTCTTCACTTTGATGGAGAGCAGATACATAC
130 CTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAA
104775960 CAGATCTCACC
195 CAGATCTCACC
* * * * *
104775971 TTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
*
104776036 TGAAGA
66 CGAAGA
104776042 AGCAAATTTG
Statistics
Matches: 427, Mismatches: 54, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
205 210 0.49
206 217 0.51
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (205 bp):
TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
CGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATC
TCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAAC
AGATCTCACC
Found at i:104777717 original size:27 final size:27
Alignment explanation
Indices: 104777687--104777869 Score: 107
Period size: 27 Copynumber: 6.9 Consensus size: 27
104777677 ACCTTATTTT
104777687 TATATTATATATTATAATTATTTATTA
1 TATATTATATATTATAATTATTTATTA
* *
104777714 TATAATAT-TA-TATTATTATTTATTA
1 TATATTATATATTATAATTATTTATTA
* * *
104777739 TATATTAT-TTTTCACAAATT-GTTATTA
1 TATATTATATATT-A-TAATTATTTATTA
* *
104777766 T-T-TTACATTATTAT--TTATATATTA
1 TATATTATA-TATTATAATTATTTATTA
* *
104777790 TTATATTATATGTTTATTAATTATATATTA
1 -TATATTATAT-ATTA-TAATTATTTATTA
* * * *
104777820 TATATTAT-T-TTTTTATATATATACTTT
1 TATATTATATATTATAAT-TATTTA-TTA
104777847 TATATTATATATTATAATTATTT
1 TATATTATATATTATAATTATTT
104777870 TATATTATTA
Statistics
Matches: 119, Mismatches: 20, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
23 2 0.02
24 5 0.04
25 29 0.24
26 15 0.13
27 35 0.29
28 10 0.08
29 13 0.11
30 10 0.08
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (27 bp):
TATATTATATATTATAATTATTTATTA
Found at i:104777744 original size:22 final size:22
Alignment explanation
Indices: 104777680--104777877 Score: 90
Period size: 23 Copynumber: 8.6 Consensus size: 22
104777670 ATTTTTAACC
*
104777680 TTATTTTTATATTATATATTATA
1 TTATTATT-TATTATATATTATA
104777703 --ATTATTTATTATATAATATTATA
1 TTATTATTTA-T-TAT-ATATTATA
*
104777726 TTATTATTTATTATATATTATTT
1 TTATTATTTATTATATATTA-TA
** * * * *
104777749 TTCACAAATTGTTATTATTTTACA
1 TT-ATTATTTATTA-TATATTATA
104777773 TTATTATTTA-TATATTATTATA
1 TTATTATTTATTATA-TATTATA
*
104777795 TTATATGTTTATTA-ATTATATATTA
1 TTAT-TATTTATTATA-TAT-TA-TA
*
104777820 TATATTATTT-TTTTATA-TATA
1 T-TATTATTTATTATATATTATA
104777841 -TACTT-TTATATTATATATTATAA
1 TTA-TTATT-TATTATATATTAT-A
104777864 TTATT-TTATATTAT
1 TTATTATT-TATTAT
104777878 TATGTCATTT
Statistics
Matches: 135, Mismatches: 19, Indels: 42
0.69 0.10 0.21
Matches are distributed among these distances:
19 4 0.03
20 5 0.04
21 16 0.12
22 25 0.19
23 40 0.30
24 20 0.15
25 22 0.16
26 3 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (22 bp):
TTATTATTTATTATATATTATA
Found at i:104777798 original size:19 final size:19
Alignment explanation
Indices: 104777774--104777900 Score: 92
Period size: 19 Copynumber: 7.1 Consensus size: 19
104777764 TATTTTACAT
104777774 TATTATTTATATATTATTA
1 TATTATTTATATATTATTA
* * *
104777793 TATTATATGTTTATTAATTA
1 TATTATTTATATATT-ATTA
*
104777813 TA-TA-TTATATATTATTT
1 TATTATTTATATATTATTA
* * *
104777830 TTTTATATATATACT-TT-
1 TATTATTTATATATTATTA
104777847 TA-TA-TTATATATTA-TA
1 TATTATTTATATATTATTA
104777863 -ATTATTT-TATATTATTA
1 TATTATTTATATATTATTA
* * *
104777880 TGTCATTTTTATATTATTA
1 TATTATTTATATATTATTA
104777899 TA
1 TA
104777901 CATTTTTATC
Statistics
Matches: 82, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
15 9 0.11
16 11 0.13
17 9 0.11
18 15 0.18
19 32 0.39
20 6 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTATTTATATATTATTA
Found at i:104777821 original size:37 final size:40
Alignment explanation
Indices: 104777686--104777896 Score: 83
Period size: 42 Copynumber: 5.2 Consensus size: 40
104777676 AACCTTATTT
104777686 TTATATTATATATTATA-ATTATT-TATTATA--TA-ATA
1 TTATATTATATATTATATATTATTATATTATATGTATATA
* *
104777721 TTATATTATTATTTATTATATATTATT-T-TTCACAAAT-TGT-TA
1 TTATATTA-TA--TATTATATATTATTATATT---ATATGTATATA
* *
104777763 TTAT-TT-TACATTAT-TATTTATATATTATTATAT-TATATGT
1 TTATATTATATATTATATA-TTAT-TA-TATTATATGTATAT-A
* * * *
104777803 TTATTAATTATATATTATATATTATTTTTTTATATATATACTT
1 TTA-T-ATTATATATTATATATTATTATATTATATGTATA-TA
*
104777846 TTATATTATATATTATA-ATTATTTTATATTATTATGTCAT-TT
1 TTATATTATATATTATATATTA--TTATATTA-TATGT-ATATA
104777888 TTATATTAT
1 TTATATTAT
104777897 TATACATTTT
Statistics
Matches: 137, Mismatches: 12, Indels: 47
0.70 0.06 0.24
Matches are distributed among these distances:
35 8 0.06
36 4 0.03
37 9 0.07
38 15 0.11
39 10 0.07
40 8 0.06
41 20 0.15
42 32 0.23
43 15 0.11
44 14 0.10
45 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (40 bp):
TTATATTATATATTATATATTATTATATTATATGTATATA
Found at i:104777826 original size:34 final size:33
Alignment explanation
Indices: 104777685--104777867 Score: 97
Period size: 34 Copynumber: 5.7 Consensus size: 33
104777675 TAACCTTATT
*
104777685 TTTATATTATATATTATAATTATTTA-TTATATAA
1 TTTATATTATATATTAT-ATTATATATTTAT-TAA
104777719 TATTATATTAT-TATT-TATTATATA-TTATT--
1 T-TTATATTATATATTATATTATATATTTATTAA
* * *
104777748 TTTCACAAATTGT-TATTAT-TT-TACA-TTATT-A
1 TTT---ATATTATATATTATATTATATATTTATTAA
*
104777779 TTTATA-TAT-TATTATATTATATGTTTATTAA
1 TTTATATTATATATTATATTATATATTTATTAA
* * * *
104777810 TTATATATTATATATTAT-TTTTTTATATATATACT
1 TT-TATATTATATATTATATTATATATTTAT-TA-A
104777845 TTTATATTATATATTATAATTAT
1 TTTATATTATATATTAT-ATTAT
104777868 TTTATATTAT
Statistics
Matches: 118, Mismatches: 14, Indels: 32
0.72 0.09 0.20
Matches are distributed among these distances:
27 8 0.07
28 6 0.05
29 3 0.03
30 13 0.11
31 18 0.15
32 16 0.14
33 12 0.10
34 28 0.24
35 11 0.09
36 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (33 bp):
TTTATATTATATATTATATTATATATTTATTAA
Found at i:104778226 original size:17 final size:17
Alignment explanation
Indices: 104778161--104778226 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
104778151 ACTAAACCAA
*
104778161 TATATTTTATATTTT-T
1 TATATATTATATTTTAT
*
104778177 TATGTAATTATTATTCTTA-
1 TATAT-ATTA-TATT-TTAT
*
104778196 TAAATA-TAT-TTTTAT
1 TATATATTATATTTTAT
104778211 TATATATTATATTTTA
1 TATATATTATATTTTA
104778227 AATTTATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 8 0.21
17 10 0.26
18 5 0.13
19 5 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:104778250 original size:26 final size:25
Alignment explanation
Indices: 104778203--104778251 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
104778193 TTATAAATAT
* * *
104778203 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
104778228 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
104778252 TTATTATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:104784516 original size:40 final size:40
Alignment explanation
Indices: 104784461--104784642 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
104784451 GAGGATTATA
104784461 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
104784501 TCCGGGTTAAGTCCCGAAGGCATTCGTGTTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
*
104784541 TCCGGGTTAAG-CCCTGAAGGCATTCGTGCTGGTCGCTATT
1 TCCGGGTTAAGTCCC-GAAGGCATTCGTGCTGGTTGCTATT
* * **
104784581 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
104784621 TCCGGGCTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
104784643 ATTGGGTTGG
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 122 0.95
41 3 0.02
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.31
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
Found at i:104784594 original size:80 final size:80
Alignment explanation
Indices: 104784456--104784642 Score: 295
Period size: 80 Copynumber: 2.3 Consensus size: 80
104784446 CAATTGAGGA
*
104784456 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTCCGGGTTAAGTCCCGAAGG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCGAAGG
*
104784521 CATTCGTGTTGGTTG
66 CATTCGTGCTGGTTG
*
104784536 TTATTTCCGGGTTAAG-CCCTGAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCGAAG
1 TTATATCCGGGTTAAGTCCC-GAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCGAAG
*
104784600 GCATTTGTGCTGGTTG
65 GCATTCGTGCTGGTTG
* * *
104784616 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
104784643 ATTGGGTTGG
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.94
81 3 0.03
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.32
Consensus pattern (80 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCGAAGG
CATTCGTGCTGGTTG
Found at i:104786153 original size:15 final size:15
Alignment explanation
Indices: 104786133--104786163 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
104786123 GCCAAATGTC
104786133 TCCCTCTACCTACCA
1 TCCCTCTACCTACCA
104786148 TCCCTCTACCTACCA
1 TCCCTCTACCTACCA
104786163 T
1 T
104786164 ATTTGGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.52, G:0.00, T:0.29
Consensus pattern (15 bp):
TCCCTCTACCTACCA
Found at i:104792794 original size:58 final size:58
Alignment explanation
Indices: 104792704--104792821 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
104792694 TAAGAAGCTT
104792704 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
1 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
104792762 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
1 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
104792820 GG
1 GG
104792822 TTTTAAATAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (58 bp):
GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
Found at i:104795236 original size:2 final size:2
Alignment explanation
Indices: 104795231--104795261 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
104795221 GACAACTCTC
*
104795231 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104795262 GTTTTGCCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:104799718 original size:19 final size:19
Alignment explanation
Indices: 104799696--104799733 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
104799686 GGGTTTGTTT
104799696 TTTCTTGTTGGGAAATCTC
1 TTTCTTGTTGGGAAATCTC
*
104799715 TTTCTTGTTGGGACATCTC
1 TTTCTTGTTGGGAAATCTC
104799734 AAATTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.47
Consensus pattern (19 bp):
TTTCTTGTTGGGAAATCTC
Found at i:104814196 original size:3 final size:3
Alignment explanation
Indices: 104814188--104814213 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
104814178 AATTGGGTAT
104814188 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
104814214 TCATATGCAT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:104815070 original size:38 final size:39
Alignment explanation
Indices: 104815023--104815104 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
104815013 AAATTTAAAT
* * * * *
104815023 TTTTTTACAATCTTTTACAATTTTTAATGA-TTTTATAA
1 TTTTCTACAATATTTTACAAATTCTAATAATTTTTATAA
104815061 TTTTCTACAATATTTTACAAATTCTAATAATTTTTTATAA
1 TTTTCTACAATATTTTACAAATTCTAATAA-TTTTTATAA
104815101 TTTT
1 TTTT
104815105 TATTACTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 25 0.68
40 12 0.32
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (39 bp):
TTTTCTACAATATTTTACAAATTCTAATAATTTTTATAA
Found at i:104815077 original size:20 final size:20
Alignment explanation
Indices: 104815023--104815080 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
104815013 AAATTTAAAT
* *
104815023 TTTTTTACAATCTTTTACAA
1 TTTTCTACAATATTTTACAA
*
104815043 TTTT-T--AATGATTTTATAA
1 TTTTCTACAAT-ATTTTACAA
104815061 TTTTCTACAATATTTTACAA
1 TTTTCTACAATATTTTACAA
104815081 ATTCTAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.10
18 11 0.35
19 2 0.06
20 12 0.39
21 3 0.10
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTCTACAATATTTTACAA
Found at i:104815194 original size:19 final size:20
Alignment explanation
Indices: 104815160--104815200 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
104815150 GTAAAAAGAA
*
104815160 TATAATTTTATTTATATTTT
1 TATAATTCTATTTATATTTT
104815180 TATAATTCT-TTTATATTTT
1 TATAATTCTATTTATATTTT
104815199 TA
1 TA
104815201 AATATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TATAATTCTATTTATATTTT
Found at i:104815971 original size:34 final size:34
Alignment explanation
Indices: 104815928--104815996 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
104815918 TTGATCTATT
104815928 AATATAAAAATATAATAGTAGGTTTGGATAGATA
1 AATATAAAAATATAATAGTAGGTTTGGATAGATA
104815962 AATATAAAAATATAATAGTAGGTTTGGATAGATA
1 AATATAAAAATATAATAGTAGGTTTGGATAGATA
104815996 A
1 A
104815997 TGCGTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (34 bp):
AATATAAAAATATAATAGTAGGTTTGGATAGATA
Found at i:104817651 original size:67 final size:67
Alignment explanation
Indices: 104817543--104817687 Score: 281
Period size: 67 Copynumber: 2.2 Consensus size: 67
104817533 AATTGTATGG
104817543 TATTTTTAGTTTAATTAAGATAGAGAAACATGTATAGATGCTATCCAATCTAAGATTCCAAATAT
1 TATTTTTAGTTTAATTAAGATAGAGAAACATGTATAGATGCTATCCAATCTAAGATTCCAAATAT
104817608 TT
66 TT
104817610 TATTTTTAGTTTAATTAAGATAGAGAAACATGTATAGATGCTATCCAATCTAAGATTCCAAATAT
1 TATTTTTAGTTTAATTAAGATAGAGAAACATGTATAGATGCTATCCAATCTAAGATTCCAAATAT
104817675 TT
66 TT
*
104817677 TGTTTTTAGTT
1 TATTTTTAGTT
104817688 ATTCTATTAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 77 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (67 bp):
TATTTTTAGTTTAATTAAGATAGAGAAACATGTATAGATGCTATCCAATCTAAGATTCCAAATAT
TT
Found at i:104819476 original size:10 final size:9
Alignment explanation
Indices: 104819451--104819475 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
104819441 GTCAGTTCCC
104819451 TTTTTTTCT
1 TTTTTTTCT
104819460 TTTTTTTCT
1 TTTTTTTCT
104819469 TTTTTTT
1 TTTTTTT
104819476 TGTCTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:104820376 original size:5 final size:5
Alignment explanation
Indices: 104820366--104820399 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
104820356 TTTTATTACC
104820366 ATATA ATATA ATATA ATATA ATATA AT-TA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
104820400 TGCTACAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:104822339 original size:18 final size:21
Alignment explanation
Indices: 104822307--104822349 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
104822297 ATTAATTAAT
104822307 TTTTAAAAAATTAAA-A-ATA
1 TTTTAAAAAATTAAAGATATA
104822326 TTTTAAAAAA-TAAAGATATA
1 TTTTAAAAAATTAAAGATATA
104822346 TTTT
1 TTTT
104822350 TATATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTAAAAAATTAAAGATATA
Found at i:104822377 original size:19 final size:18
Alignment explanation
Indices: 104822343--104822408 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
104822333 AAATAAAGAT
* *
104822343 ATATTTTTATATTTTTTA
1 ATATTTTAATAATTTTTA
*
104822361 GTAATTTTAATAATTTTTA
1 AT-ATTTTAATAATTTTTA
104822380 ATATTTTAAAATAATTTTTTA
1 ATATTTT--AATAA-TTTTTA
104822401 A-ATTTTAA
1 ATATTTTAA
104822409 AAAATTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.20
19 15 0.38
20 10 0.25
21 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATATTTTAATAATTTTTA
Found at i:104822409 original size:20 final size:21
Alignment explanation
Indices: 104822353--104822414 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 21
104822343 ATATTTTTAT
*
104822353 ATTTTTTAGTAATTTT--AATA
1 ATTTTTTAAT-ATTTTAAAATA
104822373 A-TTTTTAATATTTTAAAATA
1 ATTTTTTAATATTTTAAAATA
104822393 ATTTTTTAA-ATTTTAAAA-A
1 ATTTTTTAATATTTTAAAATA
104822412 ATT
1 ATT
104822415 AATTAATTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 5 0.13
19 11 0.29
20 15 0.39
21 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTTTAATATTTTAAAATA
Found at i:104822420 original size:19 final size:21
Alignment explanation
Indices: 104822369--104822421 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
104822359 TAGTAATTTT
*
104822369 AATAATT-TTTAATATTTTAA
1 AATAATTAATTAATATTTTAA
**
104822389 AATAATTTTTTAA-ATTTTAA
1 AATAATTAATTAATATTTTAA
104822409 AA-AATTAATTAAT
1 AATAATTAATTAAT
104822422 TGATTATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 8 0.28
20 16 0.55
21 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAATTAATTAATATTTTAA
Found at i:104825759 original size:14 final size:15
Alignment explanation
Indices: 104825737--104825765 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104825727 ATTTATCCAT
104825737 TTAATTTTATTTTGC
1 TTAATTTTATTTTGC
104825752 TTAA-TTTATTTTGC
1 TTAATTTTATTTTGC
104825766 AATCACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTTGC
Found at i:104828641 original size:46 final size:46
Alignment explanation
Indices: 104828591--104828763 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
104828581 TGGTTGAGCA
*
104828591 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
104828637 TCCGAACTCGTTGAGTTGAGTTCGAGTTCA-TGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
104828682 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
104828730 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
104828764 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 61 0.56
47 29 0.27
48 4 0.04
50 6 0.06
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:104828747 original size:93 final size:93
Alignment explanation
Indices: 104828588--104828759 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
104828578 GGATGGTTGA
* * *
104828588 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
104828653 TGAGTTCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
*
104828681 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
104828746 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
104828760 CTTAGGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:104830639 original size:40 final size:40
Alignment explanation
Indices: 104830580--104830880 Score: 455
Period size: 40 Copynumber: 7.5 Consensus size: 40
104830570 ACCCAAGTAT
* * *
104830580 CTTCGGGAT-TTAG-CCGGATATAACCACTAGTACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
*
104830619 CTTCGGGTCTTAACCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
104830659 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
104830699 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
104830739 CTTCGGGTCTTAGCCCGGTTATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
104830779 CTTCGGGTCTTAGCCCAGTTATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
104830819 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * *
104830859 CTTCGGGACATAGCCCGAATAT
1 CTTCGGGTCTTAGCCCGGATAT
104830881 CATTCAAATG
Statistics
Matches: 245, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
38 1 0.00
39 10 0.04
40 233 0.95
41 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:104839620 original size:46 final size:45
Alignment explanation
Indices: 104839570--104839738 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
104839560 TGGTTGAGCA
104839570 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
104839616 TCCGAACTCGTTGA--TGAGT-CGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
104839659 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
104839705 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
104839739 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
42 1 0.01
43 25 0.25
44 9 0.09
45 9 0.09
46 57 0.56
47 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:104839718 original size:89 final size:91
Alignment explanation
Indices: 104839567--104839733 Score: 284
Period size: 89 Copynumber: 1.8 Consensus size: 91
104839557 GGATGGTTGA
* *
104839567 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA-T
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104839631 GAGT-CGAGTTCGTGAATGTAACTAG
66 GAGTCCGAGTTCGTGAATGTAACTAG
*
104839656 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG-
104839721 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
104839734 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
89 60 0.83
91 5 0.07
92 7 0.10
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
GAGTCCGAGTTCGTGAATGTAACTAG
Found at i:104853026 original size:22 final size:22
Alignment explanation
Indices: 104852994--104853044 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
104852984 TGTCAGACGA
*
104852994 TATGGGACTGTTGTAGTGGAGG
1 TATGGGGCTGTTGTAGTGGAGG
*
104853016 TATGGGGCTGTTGTAGTGGGGG
1 TATGGGGCTGTTGTAGTGGAGG
104853038 TATGGGG
1 TATGGGG
104853045 TTGCTTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.14, C:0.04, G:0.51, T:0.31
Consensus pattern (22 bp):
TATGGGGCTGTTGTAGTGGAGG
Found at i:104858777 original size:5 final size:5
Alignment explanation
Indices: 104858767--104858797 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
104858757 GATAATGGCG
*
104858767 ATAGT ATAGT ATAGT ACAGT ATAGT ATAGT A
1 ATAGT ATAGT ATAGT ATAGT ATAGT ATAGT A
104858798 CAATGAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (5 bp):
ATAGT
Found at i:104858789 original size:15 final size:15
Alignment explanation
Indices: 104858769--104858799 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
104858759 TAATGGCGAT
104858769 AGTATAGTATAGTAC
1 AGTATAGTATAGTAC
104858784 AGTATAGTATAGTAC
1 AGTATAGTATAGTAC
104858799 A
1 A
104858800 ATGAATGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
AGTATAGTATAGTAC
Found at i:104860328 original size:22 final size:22
Alignment explanation
Indices: 104860303--104860345 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
104860293 ATGTATAAGT
104860303 GTAAGGAATGGAAACGACATGA
1 GTAAGGAATGGAAACGACATGA
*
104860325 GTAATGAATGGAAACGACATG
1 GTAAGGAATGGAAACGACATG
104860346 GCGTTTGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.30, T:0.16
Consensus pattern (22 bp):
GTAAGGAATGGAAACGACATGA
Found at i:104863559 original size:66 final size:68
Alignment explanation
Indices: 104863451--104863578 Score: 197
Period size: 66 Copynumber: 1.9 Consensus size: 68
104863441 CATGTATAGT
* * *
104863451 TATATGCAATCCTAGGATGAAATTATTCAAAAGTTACATGATGATTGCTTTGGAATGACTTGGCT
1 TATATGCAATCCTAGGATGAAATTATTCAAAAGATACATGATGACTGCTTTAGAATGACTTGGCT
104863516 AGG
66 AGG
* *
104863519 TATATGCAA-CC-CGGATGAAATTTTTCAAAAGATACATGATGACTGCTTTAGAATGACTTG
1 TATATGCAATCCTAGGATGAAATTATTCAAAAGATACATGATGACTGCTTTAGAATGACTTG
104863579 ACCCCGCCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 44 0.80
67 2 0.04
68 9 0.16
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (68 bp):
TATATGCAATCCTAGGATGAAATTATTCAAAAGATACATGATGACTGCTTTAGAATGACTTGGCT
AGG
Found at i:104865443 original size:3 final size:3
Alignment explanation
Indices: 104865435--104865483 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
104865425 TCGTCTTGTT
104865435 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
104865483 T
1 T
104865484 GTTGAAATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:104868647 original size:27 final size:25
Alignment explanation
Indices: 104868616--104868702 Score: 70
Period size: 27 Copynumber: 3.4 Consensus size: 25
104868606 ACCTTGGTTA
* *
104868616 TTATTATTTTTAATATCTATTATTGTT
1 TTATTATTTTTAAT-TC-ATCATTCTT
*
104868643 TTATTATTTATTCATTCATCATTCTT
1 TTATTATTT-TTAATTCATCATTCTT
* *
104868669 TTATTTATTTTT-ATTC-TTATTTTT
1 TTA-TTATTTTTAATTCATCATTCTT
*
104868693 TTATCATTTT
1 TTATTATTTT
104868703 ATTTCATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 6 0.12
24 9 0.17
25 4 0.08
26 12 0.23
27 17 0.33
28 4 0.08
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.69
Consensus pattern (25 bp):
TTATTATTTTTAATTCATCATTCTT
Found at i:104869385 original size:17 final size:17
Alignment explanation
Indices: 104869352--104869384 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
104869342 ATGTTTTCAA
*
104869352 ATTTATTTTTACATTTT
1 ATTTATTTTTAAATTTT
104869369 ATTTA-TTTTAAATTTT
1 ATTTATTTTTAAATTTT
104869385 TTCCACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTATTTTTAAATTTT
Found at i:104869483 original size:26 final size:25
Alignment explanation
Indices: 104869367--104869513 Score: 82
Period size: 26 Copynumber: 5.6 Consensus size: 25
104869357 TTTTTACATT
* * *
104869367 TTATTTATTTTAAATTTTTTCCACATA
1 TTATTTACTTTAAATTTCTT--ATATA
* * * *
104869394 TGATTTATTTTAAATCTTCGTGTATA
1 TTATTTACTTTAAAT-TTCTTATATA
* * *
104869420 TTATCTATTTTAAAGTTT-TATATGTA
1 TTATTTACTTTAAA-TTTCT-TATATA
* * *
104869446 TTACTTGA-TTTAAATTATTTTATATG
1 TTA-TTTACTTTAAATT-TCTTATATA
104869472 TTATTTACTTTAAAATTTCTTATATA
1 TTATTTACTTT-AAATTTCTTATATA
*
104869498 TTATTTATTTTAAATT
1 TTATTTACTTTAAATT
104869514 CCCTTTTACA
Statistics
Matches: 94, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
25 10 0.11
26 58 0.62
27 23 0.24
28 3 0.03
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.59
Consensus pattern (25 bp):
TTATTTACTTTAAATTTCTTATATA
Found at i:104875117 original size:3 final size:3
Alignment explanation
Indices: 104875105--104875148 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
104875095 TTTATTTTTC
*
104875105 TAA T-A TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
104875149 AACAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:104881775 original size:22 final size:22
Alignment explanation
Indices: 104881750--104881791 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
104881740 TAAGATAATT
104881750 TTAAAAAACAAAT-AATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
104881772 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
104881792 GCATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:104881798 original size:22 final size:21
Alignment explanation
Indices: 104881759--104881801 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
104881749 TTTAAAAAAC
* *
104881759 AAATAATAAAATCTTAAATAA
1 AAATAATAAAAGCATAAATAA
104881780 AAATGAATAAAAGCATAAATAA
1 AAAT-AATAAAAGCATAAATAA
104881802 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAATAAAAGCATAAATAA
Found at i:104883111 original size:17 final size:17
Alignment explanation
Indices: 104883091--104883129 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
104883081 ATTATTTTGG
104883091 TTTTGTTATATTTTTTA
1 TTTTGTTATATTTTTTA
* *
104883108 TTTTGTTTTTTTTTTTA
1 TTTTGTTATATTTTTTA
104883125 TTTTG
1 TTTTG
104883130 GTGTAAGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (17 bp):
TTTTGTTATATTTTTTA
Found at i:104887446 original size:65 final size:65
Alignment explanation
Indices: 104887365--104887494 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
104887355 AGATACAACT
104887365 GCGTTCCTCATATACTCTTCCATTGTTGGTATATAGTTTTCATTACACCATTTGACCTCCACAAA
1 GCGTTCCTCATATACTCTTCCATTGTTGGTATATAGTTTTCATTACACCATTTGACCTCCACAAA
104887430 GCGTTCCTCATATACTCTTCCATTGTTGGTATATAGTTTTCATTACACCATTTGACCTCCACAAA
1 GCGTTCCTCATATACTCTTCCATTGTTGGTATATAGTTTTCATTACACCATTTGACCTCCACAAA
104887495 ATAAGATTCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (65 bp):
GCGTTCCTCATATACTCTTCCATTGTTGGTATATAGTTTTCATTACACCATTTGACCTCCACAAA
Found at i:104890899 original size:28 final size:28
Alignment explanation
Indices: 104890845--104890899 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
104890835 AAATGATTTT
* *
104890845 TTTGTCACTTTTTAAAAGTTATTTTAAC
1 TTTGTCACTTTATAAAAGATATTTTAAC
104890873 TTTGTCACTTTATAAAA-ATATTCTTAA
1 TTTGTCACTTTATAAAAGATATT-TTAA
104890900 GGTATAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (28 bp):
TTTGTCACTTTATAAAAGATATTTTAAC
Found at i:104891156 original size:33 final size:33
Alignment explanation
Indices: 104891074--104891152 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 33
104891064 TTCCCAAATA
*
104891074 TTTTAAGTAGAAAATATTTATATTTATAAATATG
1 TTTTAAATA-AAAATATTTATATTTATAAATATG
*
104891108 TTTTCAATAAAAATATTTAT-TTTCA-AAAT-TG
1 TTTTAAATAAAAATATTTATATTT-ATAAATATG
104891139 TTTTAAATGAAAAA
1 TTTTAAAT-AAAAA
104891153 ATATAAAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 9 0.22
32 12 0.30
33 12 0.30
34 7 0.17
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (33 bp):
TTTTAAATAAAAATATTTATATTTATAAATATG
Found at i:104891600 original size:18 final size:18
Alignment explanation
Indices: 104891574--104891608 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
104891564 TTTTTAAAAG
*
104891574 TTTCTAATCATATATATA
1 TTTCAAATCATATATATA
104891592 TTTCAAATCATATATAT
1 TTTCAAATCATATATAT
104891609 GTATATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCAAATCATATATATA
Found at i:104895893 original size:10 final size:10
Alignment explanation
Indices: 104895868--104895900 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
104895858 GGGGAATTTT
104895868 AGAGATGAGC
1 AGAGATGAGC
104895878 --AGATGAGC
1 AGAGATGAGC
104895886 AGAGATGAGC
1 AGAGATGAGC
104895896 AGAGA
1 AGAGA
104895901 AGAACTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.42, C:0.09, G:0.39, T:0.09
Consensus pattern (10 bp):
AGAGATGAGC
Found at i:104896473 original size:18 final size:18
Alignment explanation
Indices: 104896438--104896472 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
104896428 TAAAACTATT
*
104896438 TAATATATAATTTAAAAA
1 TAATATATAATTAAAAAA
104896456 TAATATA-AATTAAAAAA
1 TAATATATAATTAAAAAA
104896473 AATCACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATATATAATTAAAAAA
Found at i:104896706 original size:15 final size:14
Alignment explanation
Indices: 104896686--104896725 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
104896676 TGTACCCTTA
*
104896686 ACCCTTAACCCTTGG
1 ACCCTTAACCC-TAG
104896701 ACCCTTAACTCCTAG
1 ACCCTTAAC-CCTAG
104896716 ACCCTTAACC
1 ACCCTTAACC
104896726 TTTAACCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 20 0.87
16 2 0.09
ACGTcount: A:0.25, C:0.42, G:0.07, T:0.25
Consensus pattern (14 bp):
ACCCTTAACCCTAG
Found at i:104896853 original size:22 final size:22
Alignment explanation
Indices: 104896828--104896890 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
104896818 CCTTGAGATA
104896828 TTAACTCATAAACCATAAACCC
1 TTAACTCATAAACCATAAACCC
* *
104896850 TTAAACT-TTAAACCCTAAACCC
1 TT-AACTCATAAACCATAAACCC
* * *
104896872 ATAATTCATAAACCTTAAA
1 TTAACTCATAAACCATAAA
104896891 ATATTAACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 3 0.09
22 26 0.79
23 4 0.12
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (22 bp):
TTAACTCATAAACCATAAACCC
Found at i:104896932 original size:14 final size:14
Alignment explanation
Indices: 104896912--104896956 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
104896902 TCATAAACCC
104896912 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* *
104896926 TATACCCTAAACCA
1 TAAACCCTAAACTA
*
104896940 TAAACCTTAAACTA
1 TAAACCCTAAACTA
104896954 TAA
1 TAA
104896957 TGATAAGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:104897320 original size:41 final size:41
Alignment explanation
Indices: 104897236--104897354 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
104897226 TTTGTGGCGC
* * * * * **
104897236 TTTTTGAAAAAACGCCGCTATAAAT-AGAGCAATAGCGGTG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGACG
*
104897276 TTTTTCAAAAAGCTCCGCTATAGATCTGAGCATTAGCGACG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGACG
**
104897317 TTTTTCTTAAAGCGCCGCTATAGATCTGAGCATTAGCG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCG
104897355 GCGCTTTTGG
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 21 0.31
41 46 0.69
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (41 bp):
TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGACG
Found at i:104897374 original size:41 final size:41
Alignment explanation
Indices: 104897290--104897377 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
104897280 TCAAAAAGCT
* ** *
104897290 CCGCTATAGATCTGAGCATTAGCGACGTTTTTCTTAAAGCG
1 CCGCTATAGATCTGAGCATTAGCGACGCTTTTCGCAAAACG
* *
104897331 CCGCTATAGATCTGAGCATTAGCGGCGCTTTTGGCAAAACG
1 CCGCTATAGATCTGAGCATTAGCGACGCTTTTCGCAAAACG
104897372 CCGCTA
1 CCGCTA
104897378 ATAACACTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (41 bp):
CCGCTATAGATCTGAGCATTAGCGACGCTTTTCGCAAAACG
Found at i:104897487 original size:39 final size:39
Alignment explanation
Indices: 104897426--104897524 Score: 130
Period size: 39 Copynumber: 2.5 Consensus size: 39
104897416 TTTACTTTTT
104897426 GCGGCGTTTTTTTGCAAACGCCGCTAATGCTCGAT-TTGTA
1 GCGGCGTTTTTTT-CAAACGCCGCTAATGCTCGATCTT-TA
104897466 GCGGCGTTTTTTT-AAAGCGCCGCTAATGCTCGATCTTTA
1 GCGGCGTTTTTTTCAAA-CGCCGCTAATGCTCGATCTTTA
*
104897505 GCGGCCTTTTTACTTCAAAC
1 GCGGCGTTTTT--TTCAAAC
104897525 ACAGCTAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
38 3 0.06
39 29 0.55
40 15 0.28
41 3 0.06
42 3 0.06
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (39 bp):
GCGGCGTTTTTTTCAAACGCCGCTAATGCTCGATCTTTA
Found at i:104899086 original size:13 final size:13
Alignment explanation
Indices: 104899068--104899093 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104899058 AAGTACTGAT
104899068 TACAAAAGTTTAA
1 TACAAAAGTTTAA
104899081 TACAAAAGTTTAA
1 TACAAAAGTTTAA
104899094 AGTATCTGAT
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:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TACAAAAGTTTAA
Found at i:104901219 original size:40 final size:40
Alignment explanation
Indices: 104901102--104901224 Score: 174
Period size: 40 Copynumber: 3.1 Consensus size: 40
104901092 CTTGAGAATA
** *
104901102 TAAAGTGAATAGGATTTGTTCCTGATTCACTATAATACCT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
104901142 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
104901182 TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAACT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
104901222 TAA
1 TAA
104901225 GGCGGATAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (40 bp):
TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:104901238 original size:40 final size:40
Alignment explanation
Indices: 104901110--104901238 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
104901100 TATAAAGTGA
* *** * * *
104901110 ATAGGATTTGTTCCTGATTCACTATAATACCTCAAAGTGG
1 ATAGGATTTATTCCTGATTCACTACGGTAACTTAAAGCGG
* * * * *
104901150 ATAGGATTTGTTCCTGATTCACTATGGTAATTTAAAGTGA
1 ATAGGATTTATTCCTGATTCACTACGGTAACTTAAAGCGG
*
104901190 ATAGGATTTATTCCTGATTCACTACGGTAACTTAAGGCGG
1 ATAGGATTTATTCCTGATTCACTACGGTAACTTAAAGCGG
*
104901230 ATAAGATTT
1 ATAGGATTT
104901239 GACCTGAAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (40 bp):
ATAGGATTTATTCCTGATTCACTACGGTAACTTAAAGCGG
Found at i:104901304 original size:78 final size:77
Alignment explanation
Indices: 104901204--104901433 Score: 316
Period size: 78 Copynumber: 2.9 Consensus size: 77
104901194 GATTTATTCC
* * * * *
104901204 TGATTCACTACGGTAACTTAAGGCGGATAAGATTTGACCTGAAAAGGTAATCCTAATTCGCTACG
1 TGATTCATTATGGTAACTTAAGGTGG-TAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACG
104901269 GTTACATGATATA
65 GTTACATGATATA
* * *
104901282 TGATTCATTATGGTAACCTAAGGTTGGTAGGATTTGACCTGAAAAGGTAATCTTGATTTGCTACG
1 TGATTCATTATGGTAACTTAAGG-TGGTAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACG
*
104901347 GTTACACGATATA
65 GTTACATGATATA
* * * *
104901360 TGATTCCTTATGATAACTTAAGGTGGGTAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACT
1 TGATTCATTATGGTAACTTAAGGT-GGTAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACG
104901425 GTTACATGA
65 GTTACATGA
104901434 GATGTAACTT
Statistics
Matches: 133, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
77 1 0.01
78 130 0.98
79 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (77 bp):
TGATTCATTATGGTAACTTAAGGTGGTAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACGG
TTACATGATATA
Found at i:104902916 original size:25 final size:28
Alignment explanation
Indices: 104902868--104902921 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 28
104902858 AAAGAAGATG
104902868 AAATATATACACAATATAATAATATAAT
1 AAATATATACACAATATAATAATATAAT
*
104902896 AAATA-ATACA-AATTTAA-AATATAAT
1 AAATATATACACAATATAATAATATAAT
104902921 A
1 A
104902922 CTTAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 6 0.24
27 5 0.20
28 5 0.20
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (28 bp):
AAATATATACACAATATAATAATATAAT
Found at i:104902934 original size:25 final size:26
Alignment explanation
Indices: 104902888--104902942 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
104902878 ACAATATAAT
104902888 AATATAATAAATAATACAAATTT-AA
1 AATATAATAAATAATACAAATTTCAA
**
104902913 AATATAATACTTAATA-ATAATTTCAA
1 AATATAATAAATAATACA-AATTTCAA
104902939 AATA
1 AATA
104902943 GCATTTACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 1 0.04
25 19 0.73
26 6 0.23
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (26 bp):
AATATAATAAATAATACAAATTTCAA
Found at i:104907427 original size:21 final size:22
Alignment explanation
Indices: 104907394--104907435 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
104907384 CATTAAAGTT
104907394 AAATTAGAAAATA-AATAAAATG
1 AAATTAGAAAATATAA-AAAATG
104907416 AAATTA-AAAATATAAAAAAT
1 AAATTAGAAAATATAAAAAAT
104907436 ACGAGAGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (22 bp):
AAATTAGAAAATATAAAAAATG
Found at i:104907432 original size:19 final size:19
Alignment explanation
Indices: 104907376--104907432 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
104907366 ATTGAAGCAG
* *
104907376 AATTAAAACAT-TAAAGTTA
1 AATTAAAA-ATATAAAATGA
104907395 AATTAGAAAATAAATAAAATGA
1 AATTA-AAAAT--ATAAAATGA
104907417 AATTAAAAATATAAAA
1 AATTAAAAATATAAAA
104907433 AATACGAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
19 13 0.41
20 3 0.09
21 5 0.16
22 11 0.34
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
AATTAAAAATATAAAATGA
Found at i:104909093 original size:86 final size:86
Alignment explanation
Indices: 104908993--104909268 Score: 206
Period size: 86 Copynumber: 3.2 Consensus size: 86
104908983 ATGCCAAATC
* * *
104908993 ATCTTGGATTTGCTTCAGTATAAACATCTGAAGGCTAGATTTGCTATCTATCTATTCTCTGTCAA
1 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTACTATCTATCTATTCTCTGTCAA
104909058 AATGGAGATGCCAGATCTATT
66 AATGGAGATGCCAGATCTATT
** * ** * * * * *
104909079 ATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGTTAAATCTACTATGTCT-TCGATTTGTTC
1 ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAGGTTAGATTTACTA--TCTATCTA-TT-CT-
** *
104909143 CTTGT-AAACA-CAAGAATGCCA-A---ATC
59 C-TGTCAAA-ATGGAG-ATGCCAGATCTATT
* * ** * *
104909168 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTTCTATGTATCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTACTATCTATCTATTCTCTGTCAA
*
104909233 AATGGAGATGCCAGATCTGTT
66 AATGGAGATGCCAGATCTATT
104909254 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
104909269 TGGTGTGAGA
Statistics
Matches: 137, Mismatches: 36, Indels: 34
0.66 0.17 0.16
Matches are distributed among these distances:
82 9 0.07
83 6 0.04
84 1 0.01
85 3 0.02
86 35 0.26
87 19 0.14
88 18 0.13
89 23 0.17
90 5 0.04
91 1 0.01
92 7 0.05
93 10 0.07
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (86 bp):
ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTACTATCTATCTATTCTCTGTCAA
AATGGAGATGCCAGATCTATT
Found at i:104909308 original size:175 final size:175
Alignment explanation
Indices: 104908767--104909319 Score: 867
Period size: 175 Copynumber: 3.2 Consensus size: 175
104908757 ATGTGAAAAC
* * * * *
104908767 CAAATCTGCTGTGTTTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGTATCTGC
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC
* *
104908832 TTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCAGCTCT-CGTCGAAATGGAGATGCC
66 TTCAGTATAAA-CATCTGAAGGTTAGATTTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCC
104908895 AGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGT
130 AGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGT
* * * *
104908941 CAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAATACAAGAATGCCAAATCATCTTGGATTTGC
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC
* * ** * *
104909006 TTCAGTATAAACATCTGAAGGCTAGATTTGCTATCTATCTATTCTCTGTCAAAATGGAGATGCCA
66 TTCAGTATAAACATCTGAAGGTTAGATTTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCA
*
104909071 GATCTATTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGT
131 GATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGT
* * *
104909116 TAAATCTACTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC
*
104909181 TTCAGTATAAACATCTGAAGGTTAGATTTTCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCA
66 TTCAGTATAAACATCTGAAGGTTAGATTTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCA
*
104909246 GATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGT
131 GATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGT
*
104909291 CAAATCTGCTATGTCTTCAATTTGCTCCT
1 CAAATCTGCTATGTCTTCGATTTGCTCCT
104909320 CGTCGAAGAT
Statistics
Matches: 341, Mismatches: 36, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
174 91 0.27
175 250 0.73
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (175 bp):
CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC
TTCAGTATAAACATCTGAAGGTTAGATTTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCA
GATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCAAAAGT
Found at i:104917495 original size:15 final size:15
Alignment explanation
Indices: 104917453--104917502 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
104917443 ATAACTTTGA
* *
104917453 ATGCAAAT-AATGCG
1 ATGCAAATGCATGAG
104917467 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
104917482 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
104917496 ATGCAAA
1 ATGCAAA
104917503 AAAGACATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:104917501 original size:14 final size:16
Alignment explanation
Indices: 104917466--104917502 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
104917456 CAAATAATGC
104917466 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
104917481 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
104917496 -ATGCAAA
1 GATGCAAA
104917503 AAAGACATCG
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
Done.