Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 61 of 187
Found at i:18074189 original size:14 final size:15
Alignment explanation
Indices: 18074160--18074189 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18074150 TGTGAAGAAA
18074160 TATTTTTCTTCTCCT
1 TATTTTTCTTCTCCT
18074175 TATTTTTCTTC-CCT
1 TATTTTTCTTCTCCT
18074189 T
1 T
18074190 CGCTGAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTCTTCTCCT
Found at i:18078143 original size:21 final size:21
Alignment explanation
Indices: 18078102--18078144 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
18078092 ACCCAAAACT
* *
18078102 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
18078123 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
18078144 C
1 C
18078145 ACTTTTCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:18085357 original size:19 final size:19
Alignment explanation
Indices: 18085330--18085422 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
18085320 TTATTCCAGC
*
18085330 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
18085349 AACTTAATTAACTAATATG
1 AACTTAATTAACTAAGATG
* * * * *
18085368 -A-GTAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
18085384 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
18085403 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
18085422 A
1 A
18085423 GTAATTTATT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
17 10 0.18
18 9 0.16
19 36 0.65
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:18085380 original size:54 final size:54
Alignment explanation
Indices: 18085320--18085445 Score: 225
Period size: 54 Copynumber: 2.3 Consensus size: 54
18085310 CAACAATAAA
* *
18085320 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAATATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
*
18085374 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
18085428 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
18085446 ACTTATTCCA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:18094818 original size:30 final size:30
Alignment explanation
Indices: 18094765--18095118 Score: 552
Period size: 30 Copynumber: 11.9 Consensus size: 30
18094755 TATATATTTT
* * *
18094765 CGAATTGA-TTGTGTATGGGTATACATTGT
1 CGAATTGATTTGTATATGGATATACATTGC
18094794 CGAATTGATTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
* *
18094824 CGAATTGATTTGTATATGGATTTACATTGT
1 CGAATTGATTTGTATATGGATATACATTGC
* *
18094854 CGAATTGATTTGTATATGGATGTACATTGT
1 CGAATTGATTTGTATATGGATATACATTGC
*
18094884 CGAATTGTTTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
18094914 CGAATTGATTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
18094944 CGAATTGATTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
* **
18094974 TGAATTTTTTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
*
18095004 CGAATTGATTTGTATATGGATATACGTTGC
1 CGAATTGATTTGTATATGGATATACATTGC
* * *
18095034 CGAATTGATTTTTATATAGATATACGTTGC
1 CGAATTGATTTGTATATGGATATACATTGC
18095064 CGAATTGATTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
18095094 CGAATTGATTTGTATAT-G-TATACAT
1 CGAATTGATTTGTATATGGATATACAT
18095119 ATATATTGTC
Statistics
Matches: 302, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
28 7 0.02
29 9 0.03
30 286 0.95
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (30 bp):
CGAATTGATTTGTATATGGATATACATTGC
Found at i:18095407 original size:43 final size:40
Alignment explanation
Indices: 18095307--18095417 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 40
18095297 TGAGAAAACG
* *
18095307 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTCA
1 TGTAAGACCATGTCTGGGATA-TGGCATCGAATATGATTCA
* * *
18095348 TATAAGACCCTGTCTGGGATAGTGGCATC-AATATGCGTTAACA
1 TGTAAGACCATGTCTGGGATA-TGGCATCGAATATG-ATT--CA
*
18095391 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATGTCTGGGATATGGCAT
18095418 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
40 5 0.09
41 27 0.47
42 6 0.10
43 20 0.34
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (40 bp):
TGTAAGACCATGTCTGGGATATGGCATCGAATATGATTCA
Found at i:18102893 original size:12 final size:12
Alignment explanation
Indices: 18102876--18102901 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18102866 TTAGAGGGTA
18102876 TTATTGCAAATT
1 TTATTGCAAATT
18102888 TTATTGCAAATT
1 TTATTGCAAATT
18102900 TT
1 TT
18102902 TGGTGGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (12 bp):
TTATTGCAAATT
Found at i:18105047 original size:14 final size:14
Alignment explanation
Indices: 18105028--18105067 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18105018 TTGATTGCCA
18105028 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
18105042 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
18105056 GGAAAATGTTTT
1 GTAAAATGTTTT
18105068 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:18105076 original size:20 final size:20
Alignment explanation
Indices: 18105051--18105090 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18105041 CGTAAAATGA
*
18105051 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
18105071 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
18105091 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:18105080 original size:34 final size:35
Alignment explanation
Indices: 18105036--18105102 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
18105026 CAGTAAAATG
*
18105036 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
18105070 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
18105103 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:18105106 original size:14 final size:15
Alignment explanation
Indices: 18105030--18105106 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
18105020 GATTGCCAGT
* *
18105030 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
18105044 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
18105058 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
18105078 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
18105093 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
18105107 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:18107588 original size:11 final size:11
Alignment explanation
Indices: 18107567--18107600 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
18107557 CCGACCCACC
18107567 TATATTTATTTT
1 TATA-TTATTTT
18107579 TATATTATTTT
1 TATATTATTTT
*
18107590 TATATAATTTT
1 TATATTATTTT
18107601 AAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTATTTT
Found at i:18107621 original size:17 final size:19
Alignment explanation
Indices: 18107601--18107641 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
18107591 ATATAATTTT
*
18107601 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
18107618 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
18107636 AAAATA
1 AAAATA
18107642 AATATTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:18108007 original size:21 final size:21
Alignment explanation
Indices: 18107982--18108030 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
18107972 TTTTAAGCCT
18107982 ATATTTTACTCAAATCCTATC
1 ATATTTTACTCAAATCCTATC
*
18108003 ATATTTTACTCAAATCCTATG
1 ATATTTTACTCAAATCCTATC
18108024 ATATTTT
1 ATATTTT
18108031 GAACGAGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTTTACTCAAATCCTATC
Found at i:18123255 original size:27 final size:27
Alignment explanation
Indices: 18123208--18123271 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
18123198 AAATATTCTC
18123208 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
* *
18123234 TAAAGTAATAAAATATTTATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
18123261 TAAATTAATAA
1 TAAATTAATAA
18123272 CCTCGATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 8 0.24
27 26 0.76
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.41
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCGA
Found at i:18123615 original size:18 final size:18
Alignment explanation
Indices: 18123571--18123617 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
18123561 GACCAATGTT
*
18123571 AATAAATAATATTTTTAAA
1 AATATATAA-ATTTTTAAA
*
18123590 TATATATAAATTTATTAAA
1 AATATATAAATTT-TTAAA
18123609 AAT-TATAAA
1 AATATATAAA
18123618 AGATTATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATATAAATTTTTAAA
Found at i:18124646 original size:194 final size:194
Alignment explanation
Indices: 18124317--18124705 Score: 778
Period size: 194 Copynumber: 2.0 Consensus size: 194
18124307 ACTTAATAAG
18124317 GTATTCATAACACTCCCCATTGGATGTCCAGTGGTAGATAATGTGTCTCGTTAAAACCTTATTAG
1 GTATTCATAACACTCCCCATTGGATGTCCAGTGGTAGATAATGTGTCTCGTTAAAACCTTATTAG
18124382 AAAAAAAATGTGGGATAAAAACCTAATGAAGGAAAAAGAGTACATAATCTATAATACGCATAATT
66 AAAAAAAATGTGGGATAAAAACCTAATGAAGGAAAAAGAGTACATAATCTATAATACGCATAATT
18124447 TGTTGCCTTATTAAAAACCTTATCAGGAAAACCCAATGGGACAAAACCTCGATTAAGGGAAAAA
131 TGTTGCCTTATTAAAAACCTTATCAGGAAAACCCAATGGGACAAAACCTCGATTAAGGGAAAAA
18124511 GTATTCATAACACTCCCCATTGGATGTCCAGTGGTAGATAATGTGTCTCGTTAAAACCTTATTAG
1 GTATTCATAACACTCCCCATTGGATGTCCAGTGGTAGATAATGTGTCTCGTTAAAACCTTATTAG
18124576 AAAAAAAATGTGGGATAAAAACCTAATGAAGGAAAAAGAGTACATAATCTATAATACGCATAATT
66 AAAAAAAATGTGGGATAAAAACCTAATGAAGGAAAAAGAGTACATAATCTATAATACGCATAATT
18124641 TGTTGCCTTATTAAAAACCTTATCAGGAAAACCCAATGGGACAAAACCTCGATTAAGGGAAAAA
131 TGTTGCCTTATTAAAAACCTTATCAGGAAAACCCAATGGGACAAAACCTCGATTAAGGGAAAAA
18124705 G
1 G
18124706 AGTACAATGT
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
194 195 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (194 bp):
GTATTCATAACACTCCCCATTGGATGTCCAGTGGTAGATAATGTGTCTCGTTAAAACCTTATTAG
AAAAAAAATGTGGGATAAAAACCTAATGAAGGAAAAAGAGTACATAATCTATAATACGCATAATT
TGTTGCCTTATTAAAAACCTTATCAGGAAAACCCAATGGGACAAAACCTCGATTAAGGGAAAAA
Found at i:18130919 original size:13 final size:13
Alignment explanation
Indices: 18130901--18130925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18130891 TTCCACTAAC
18130901 ACTTTTTAAAAGT
1 ACTTTTTAAAAGT
18130914 ACTTTTTAAAAG
1 ACTTTTTAAAAG
18130926 CAATACTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
ACTTTTTAAAAGT
Found at i:18137427 original size:15 final size:16
Alignment explanation
Indices: 18137405--18137442 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
18137395 GTAAAATGCC
*
18137405 AACAATTTATAAT-TT
1 AACAATTTAAAATGTT
*
18137420 ATCAATTTAAAATGTT
1 AACAATTTAAAATGTT
18137436 AACAATT
1 AACAATT
18137443 GTAATTGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (16 bp):
AACAATTTAAAATGTT
Found at i:18147233 original size:173 final size:173
Alignment explanation
Indices: 18146930--18147282 Score: 636
Period size: 173 Copynumber: 2.0 Consensus size: 173
18146920 TCATATCACC
*
18146930 TTGAAAA-GTGGTTGTTTTTAATAAACGATTTGATTTTATTAAAACAACAATTTTGGTCCACAAA
1 TTGAAAACGTGGTTATTTTTAATAAACGATTTGATTTTATTAAAACAACAATTTTGGTCCACAAA
* *
18146994 ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACTCTCGTAACGCCCAA
66 ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAACACCCTCGTAACGCCCAA
18147059 AAATTGGTACCTAGTTAATTAGCTAATATCTTGATGTCGAAAA
131 AAATTGGTACCTAGTTAATTAGCTAATATCTTGATGTCGAAAA
* *
18147102 TTGAAAACGTGGTTATTTTTAATAAACGATTTGATTTTATTAAAACAACGATTTTGGTCCATAAA
1 TTGAAAACGTGGTTATTTTTAATAAACGATTTGATTTTATTAAAACAACAATTTTGGTCCACAAA
18147167 ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAACACCCTCGTAACGCCCAA
66 ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAACACCCTCGTAACGCCCAA
* *
18147232 AAATTGGTACCTAGTTGATTAGCTAATGTCTTGATGTCGAAAA
131 AAATTGGTACCTAGTTAATTAGCTAATATCTTGATGTCGAAAA
18147275 TTGAAAAC
1 TTGAAAAC
18147283 TTTGAAGAAT
Statistics
Matches: 173, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
172 7 0.04
173 166 0.96
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (173 bp):
TTGAAAACGTGGTTATTTTTAATAAACGATTTGATTTTATTAAAACAACAATTTTGGTCCACAAA
ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAACACCCTCGTAACGCCCAA
AAATTGGTACCTAGTTAATTAGCTAATATCTTGATGTCGAAAA
Found at i:18148076 original size:20 final size:20
Alignment explanation
Indices: 18148030--18148076 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
18148020 CATAAAAATT
*
18148030 TAAACATGTATATAGATATA
1 TAAATATGTATATAGATATA
* *
18148050 TAGATATGTATATAAGTTATA
1 TAAATATGTATAT-AGATATA
18148071 -AAATAT
1 TAAATAT
18148077 AAAAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
TAAATATGTATATAGATATA
Found at i:18148149 original size:24 final size:24
Alignment explanation
Indices: 18148122--18148167 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18148112 TATAAAAATT
18148122 TAAAAAAATATGTACGTATATATA
1 TAAAAAAATATGTACGTATATATA
** *
18148146 TAAAAATGTATGTATGTATATA
1 TAAAAAAATATGTACGTATATA
18148168 CATATAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (24 bp):
TAAAAAAATATGTACGTATATATA
Found at i:18148160 original size:20 final size:21
Alignment explanation
Indices: 18148126--18148167 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
18148116 AAAATTTAAA
18148126 AAAATATGTACGTATATATAT
1 AAAATATGTACGTATATATAT
* *
18148147 AAAA-ATGTATGTATGTATAT
1 AAAATATGTACGTATATATAT
18148167 A
1 A
18148168 CATATAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
AAAATATGTACGTATATATAT
Found at i:18148255 original size:3 final size:3
Alignment explanation
Indices: 18148247--18148349 Score: 81
Period size: 3 Copynumber: 35.7 Consensus size: 3
18148237 AAATGAAAAT
* * *
18148247 ATA ATA ATA ATA ACA ATA ATA TTA ATA ATA ATA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
18148295 AT- ATA AT- TTA TTA TTT TTA ATA ATA A-A ATA ATCA A-A ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
18148337 ATA ATA A-A ATA AT
1 ATA ATA ATA ATA AT
18148350 CAAAATACAA
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
2 9 0.11
3 71 0.87
4 2 0.02
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:18148341 original size:23 final size:23
Alignment explanation
Indices: 18148311--18148356 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18148301 TTTATTATTT
18148311 TTAATAATAAAATAATCAAAATA
1 TTAATAATAAAATAATCAAAATA
18148334 TTAATAATAAAATAATCAAAATA
1 TTAATAATAAAATAATCAAAATA
18148357 CAAGCAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
TTAATAATAAAATAATCAAAATA
Found at i:18150202 original size:99 final size:99
Alignment explanation
Indices: 18150029--18150502 Score: 637
Period size: 99 Copynumber: 4.8 Consensus size: 99
18150019 TTCACCAGGG
* * * * *
18150029 AAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAATTGCAATGTCAGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTGGCCTCAATCT-TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCG
* * *
18150094 CTGTAGCTTCAATCTGTTCCATTGCACCACCAGAA
65 TTGTAGCTTCAATCTGTTCCACTGCACCGCCAGAA
* * * * *
18150129 AATTAAGATTCGCTGTTGTGGCCCCAATCTTTTAATTGCAATGTCGAGGAAGCAAGATTTGCAGT
1 AAGTAAGATTCGCTGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
*
18150194 TGTGGCTTCAATCTGTTCCACTGCACCGCCAGAA
66 TGTAGCTTCAATCTGTTCCACTGCACCGCCAGAA
* * ** *
18150228 AAGTAAGATTCGCCGTTGGGGCCTTGATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGT
1 AAGTAAGATTCGCTGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
* **
18150293 TGTAGCTTCAATCTGTTCCACTACACCGCCAGGG
66 TGTAGCTTCAATCTGTTCCACTGCACCGCCAGAA
* * *
18150327 AAGTAAGATTCG-TCATTGTGGCCTCGATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGTCG
1 AAGTAAGATTCGCT-GTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCG
* * *
18150391 TTGTAGCTTCAATCTATTCCACTGCACCGCAAGGGA
65 TTGTAGCTTCAATCTGTTCCACTGCACCGCCA-GAA
* *
18150427 AA-TAAGATTCGCTGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGA
1 AAGTAAGATTCGCTGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
18150491 TGTAGCTTCAAT
66 TGTAGCTTCAAT
18150503 AAGGTTTTAT
Statistics
Matches: 329, Mismatches: 42, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
99 299 0.91
100 30 0.09
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (99 bp):
AAGTAAGATTCGCTGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGT
TGTAGCTTCAATCTGTTCCACTGCACCGCCAGAA
Found at i:18150502 original size:49 final size:49
Alignment explanation
Indices: 18150026--18150502 Score: 274
Period size: 50 Copynumber: 9.6 Consensus size: 49
18150016 CTATTCACCA
* ** *
18150026 GGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAATTGCAATGTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-TTTAATTGCAATGTCG
* * ** **** *
18150076 GGGAAGCAAGATTCACCGCTGTAGCTTCAATCTGTTCCATTGCACCACCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-TTTAATTGCAATGTCG
** ** * * **
18150126 GAAAATTAAGATTCGCTGTTGTGGCCCCAATCTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCG
* * * * ** * ** * *
18150175 AGGAAGCAAGATTTGCAGTTGTGGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-TTTAATTGCAATGTCG
** * ** *
18150225 GAAAAGTAAGATTCGCCGTTGGGGCCTT-GATCTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAG-CTTCAATCTTTTAATTGCAATGTCG
* ** * * ** * *
18150274 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-TTTAATTGCAATGTCG
* * * * * *
18150324 GGGAAGTAAGATTCGTCATTGTGGCCTCGATCTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCG
* ** * ** *
18150373 GGGAAGCAAGATTCGTCGTTGTAGCTTCAATCTATTCCACTGCACCG-CAA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT-TTTAATTGCAATGTC-G
** * * *
18150423 GGGAAATAAGATTCGCTGTTGTGGCCTCAATCTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCG
* *
18150472 GGGAAGCGAGATTCGCCGATGTAGCTTCAAT
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAAT
18150503 AAGGTTTTAT
Statistics
Matches: 300, Mismatches: 120, Indels: 15
0.69 0.28 0.03
Matches are distributed among these distances:
48 3 0.01
49 133 0.44
50 161 0.54
51 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (49 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCG
Found at i:18150844 original size:18 final size:18
Alignment explanation
Indices: 18150818--18150862 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
18150808 AACTTTCTCT
*
18150818 TCTTATCACTCAAT-GATA
1 TCTTGTCAC-CAATAGATA
18150836 TCTTGTCACCAATACGATA
1 TCTTGTCACCAATA-GATA
18150855 TCTTGTCA
1 TCTTGTCA
18150863 TTTTGTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 8 0.33
19 12 0.50
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (18 bp):
TCTTGTCACCAATAGATA
Found at i:18151258 original size:108 final size:107
Alignment explanation
Indices: 18151069--18151262 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 107
18151059 TTTCAATGTT
* *
18151069 TGAAAAAGATTATCACAATGGACAAAGAAAATGTTATTGAGAACAAATCTCGAAATGAATAAGTT
1 TGAAAAAGATTATCACAATGGACAAAGAAAATGTTATTGAGAACAAAGCTCGAAATGAATAAATT
*
18151134 AATTAAGATAGAAAATTTTGCTAATATACGAACTGAATAAGA
66 AATCAAGATAGAAAATTTTGCTAATATACGAACTGAATAAGA
* * * * *
18151176 TGAAAAAGATTATCACAATGGAC-AGGATGGAATTTTATTGAGAGCAAAGCTTGAAATGAATAAA
1 TGAAAAAGATTATCACAATGGACAAAGA--AAATGTTATTGAGAACAAAGCTCGAAATGAATAAA
*
18151240 TTAATCAAGATAGCAAATTTTGC
64 TTAATCAAGATAGAAAATTTTGC
18151263 CAAGATTCAA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
106 3 0.04
107 23 0.30
108 50 0.66
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (107 bp):
TGAAAAAGATTATCACAATGGACAAAGAAAATGTTATTGAGAACAAAGCTCGAAATGAATAAATT
AATCAAGATAGAAAATTTTGCTAATATACGAACTGAATAAGA
Found at i:18151281 original size:108 final size:107
Alignment explanation
Indices: 18151069--18151286 Score: 276
Period size: 108 Copynumber: 2.0 Consensus size: 107
18151059 TTTCAATGTT
* *
18151069 TGAAAAAGATTATCACAATGGACAAAGAAAATGTTATTGAGAACAAATCTCGAAATGAATAAGTT
1 TGAAAAAGATTATCACAATGGACAAAGAAAATGTTATTGAGAACAAAGCTCGAAATGAATAAATT
* * * * * *
18151134 AATTAAGATAGAAAATTTTGCTAATATACGAACTGAATAAGA
66 AATCAAGATAGAAAATTTTGCCAAGATACAAAATAAATAAGA
* * * * *
18151176 TGAAAAAGATTATCACAATGGAC-AGGATGGAATTTTATTGAGAGCAAAGCTTGAAATGAATAAA
1 TGAAAAAGATTATCACAATGGACAAAGA--AAATGTTATTGAGAACAAAGCTCGAAATGAATAAA
* *
18151240 TTAATCAAGATAGCAAATTTTGCCAAGATTCAAAATAAATAAGA
64 TTAATCAAGATAGAAAATTTTGCCAAGATACAAAATAAATAAGA
18151284 TGA
1 TGA
18151287 TGACAGGTGC
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
106 3 0.03
107 23 0.24
108 68 0.72
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (107 bp):
TGAAAAAGATTATCACAATGGACAAAGAAAATGTTATTGAGAACAAAGCTCGAAATGAATAAATT
AATCAAGATAGAAAATTTTGCCAAGATACAAAATAAATAAGA
Found at i:18152167 original size:21 final size:21
Alignment explanation
Indices: 18152143--18152184 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18152133 AGTCCTTGTA
18152143 GGTTTCAGTCATTTTCCCTAC
1 GGTTTCAGTCATTTTCCCTAC
*
18152164 GGTTTCAGTCATTTTTCCTAC
1 GGTTTCAGTCATTTTCCCTAC
18152185 AATTTTCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.26, G:0.14, T:0.45
Consensus pattern (21 bp):
GGTTTCAGTCATTTTCCCTAC
Found at i:18160523 original size:173 final size:173
Alignment explanation
Indices: 18160220--18160572 Score: 645
Period size: 173 Copynumber: 2.0 Consensus size: 173
18160210 TCATATCACC
*
18160220 TTGAAAA-GTGGTTGTTTTTAATAAACGATTTGATTTTATTAAAACAACAATTTTGGTCCACAAA
1 TTGAAAACGTGGTTATTTTTAATAAACGATTTGATTTTATTAAAACAACAATTTTGGTCCACAAA
*
18160284 ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAA
66 ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAACACCCTCGTAACGCCCAA
18160349 AAATTGGTACCTAGTTAATTAGCTAATATCTTGATGTCGAAAA
131 AAATTGGTACCTAGTTAATTAGCTAATATCTTGATGTCGAAAA
* *
18160392 TTGAAAACGTGGTTATTTTTAATAAACGATTTGATTTTATTAAAACAACGATTTTGGTCCATAAA
1 TTGAAAACGTGGTTATTTTTAATAAACGATTTGATTTTATTAAAACAACAATTTTGGTCCACAAA
18160457 ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAACACCCTCGTAACGCCCAA
66 ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAACACCCTCGTAACGCCCAA
* *
18160522 AAATTGGTACCTAGTTGATTAGCTAATGTCTTGATGTCGAAAA
131 AAATTGGTACCTAGTTAATTAGCTAATATCTTGATGTCGAAAA
18160565 TTGAAAAC
1 TTGAAAAC
18160573 TTTGAAGAAT
Statistics
Matches: 174, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
172 7 0.04
173 167 0.96
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (173 bp):
TTGAAAACGTGGTTATTTTTAATAAACGATTTGATTTTATTAAAACAACAATTTTGGTCCACAAA
ATTCAGAAAACGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAACACCCTCGTAACGCCCAA
AAATTGGTACCTAGTTAATTAGCTAATATCTTGATGTCGAAAA
Found at i:18161366 original size:20 final size:20
Alignment explanation
Indices: 18161320--18161366 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
18161310 CATAAAAATT
*
18161320 TAAACATGTATATAGATATA
1 TAAATATGTATATAGATATA
* *
18161340 TAGATATGTATATAAGTTATA
1 TAAATATGTATAT-AGATATA
18161361 -AAATAT
1 TAAATAT
18161367 AAAAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
TAAATATGTATATAGATATA
Found at i:18161439 original size:24 final size:24
Alignment explanation
Indices: 18161412--18161457 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18161402 TATAAAAATT
18161412 TAAAAAAATATGTACGTATATATA
1 TAAAAAAATATGTACGTATATATA
** *
18161436 TAAAAATGTATGTATGTATATA
1 TAAAAAAATATGTACGTATATA
18161458 CATATAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (24 bp):
TAAAAAAATATGTACGTATATATA
Found at i:18161450 original size:20 final size:21
Alignment explanation
Indices: 18161416--18161457 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
18161406 AAAATTTAAA
18161416 AAAATATGTACGTATATATAT
1 AAAATATGTACGTATATATAT
* *
18161437 AAAA-ATGTATGTATGTATAT
1 AAAATATGTACGTATATATAT
18161457 A
1 A
18161458 CATATAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
AAAATATGTACGTATATATAT
Found at i:18161610 original size:3 final size:3
Alignment explanation
Indices: 18161537--18161591 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
18161527 AAATGAAAAT
* * * * *
18161537 ATA ACA ATA ATA ACA ATA ATA TTA ATA TTA ATA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18161585 AT- ATA AT
1 ATA ATA AT
18161592 TTATTATTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:18162761 original size:13 final size:13
Alignment explanation
Indices: 18162737--18162773 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
18162727 TGGGCCATTT
18162737 TAGGTT-TTGGGC
1 TAGGTTATTGGGC
18162749 TAGGTTATTGGGC
1 TAGGTTATTGGGC
*
18162762 TGGGTTATTGGG
1 TAGGTTATTGGG
18162774 TCTTTGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.11, C:0.05, G:0.43, T:0.41
Consensus pattern (13 bp):
TAGGTTATTGGGC
Found at i:18162800 original size:18 final size:20
Alignment explanation
Indices: 18162762--18162804 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
18162752 GTTATTGGGC
*
18162762 TGGGTTATTGGGTCTTTGTT
1 TGGGTTATTGGGTCGTTGTT
18162782 TGGGTT-TTGGGT-GTTGTT
1 TGGGTTATTGGGTCGTTGTT
18162800 TGGGT
1 TGGGT
18162805 CTGCTAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.02, C:0.02, G:0.42, T:0.53
Consensus pattern (20 bp):
TGGGTTATTGGGTCGTTGTT
Found at i:18163113 original size:24 final size:24
Alignment explanation
Indices: 18163063--18163114 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18163053 AATCAAAGTC
* **
18163063 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
18163087 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
18163111 AAAT
1 AAAT
18163115 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:18167490 original size:24 final size:24
Alignment explanation
Indices: 18167463--18167514 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18167453 AATAAAAGTC
* * *
18167463 AAATATATTATGCTAATAAATGCT
1 AAATACATTATACTAATAAATACT
*
18167487 AAATACATTATACTCATAAATACT
1 AAATACATTATACTAATAAATACT
18167511 AAAT
1 AAAT
18167515 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATACATTATACTAATAAATACT
Found at i:18177166 original size:31 final size:30
Alignment explanation
Indices: 18177131--18177190 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18177121 AATAACATTT
* *
18177131 GTAAATAATCTTTAAACAATTTAATATAATG
1 GTAAATAATATATAAA-AATTTAATATAATG
*
18177162 GTAAATTATATATAAAAATTTAATATAAT
1 GTAAATAATATATAAAAATTTAATATAAT
18177191 CATGCATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (30 bp):
GTAAATAATATATAAAAATTTAATATAATG
Found at i:18178058 original size:7 final size:7
Alignment explanation
Indices: 18178046--18178099 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
18178036 CTCGAACCCT
18178046 AGGTTCA
1 AGGTTCA
18178053 AGGTTCA
1 AGGTTCA
*
18178060 AGATTCA
1 AGGTTCA
18178067 AGGTTC-
1 AGGTTCA
18178073 AGGTTC-
1 AGGTTCA
* *
18178079 GGGTT-T
1 AGGTTCA
*
18178085 GGGTTCA
1 AGGTTCA
18178092 AGGTTCA
1 AGGTTCA
18178099 A
1 A
18178100 ACTTTAGGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
6 15 0.38
7 25 0.62
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.31
Consensus pattern (7 bp):
AGGTTCA
Found at i:18178183 original size:33 final size:34
Alignment explanation
Indices: 18178128--18178191 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
18178118 TGAGATCATA
* * *
18178128 ATTTAGGGTTTGAGTTTTGAGTTT-GAGTTTAGT
1 ATTTAGGGTTCGAGGTTGGAGTTTGGAGTTTAGT
*
18178161 ATTTAGGGTTCGGGGTTGGAGTTTGGAGTTT
1 ATTTAGGGTTCGAGGTTGGAGTTTGGAGTTT
18178192 GAGGTTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 20 0.77
34 6 0.23
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.47
Consensus pattern (34 bp):
ATTTAGGGTTCGAGGTTGGAGTTTGGAGTTTAGT
Found at i:18183981 original size:40 final size:40
Alignment explanation
Indices: 18183934--18184065 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
18183924 CCTGGTAATC
* *
18183934 GCAGATAAACTATCAGTATTATGGACAAGTCGCCAGTATT
1 GCAGATAAACTATCAGTATTATGGACAAGCCACCAGTATT
** *
18183974 GCAGATAAACTGCCAGTATTGTGGACAAGCCACCAGTATT
1 GCAGATAAACTATCAGTATTATGGACAAGCCACCAGTATT
* *
18184014 ACAGATAAA--ATGCTAGTATTATGGACAAACCACCAGTATT
1 GCAGATAAACTAT-C-AGTATTATGGACAAGCCACCAGTATT
18184054 GCAGATAAACTA
1 GCAGATAAACTA
18184066 CAAGTACTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 75 0.97
42 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (40 bp):
GCAGATAAACTATCAGTATTATGGACAAGCCACCAGTATT
Found at i:18183988 original size:20 final size:20
Alignment explanation
Indices: 18183965--18184064 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 20
18183955 TGGACAAGTC
18183965 GCCAGTATTGCAGATAAACT
1 GCCAGTATTGCAGATAAACT
** * * *
18183985 GCCAGTATTGTGGACAAGCC
1 GCCAGTATTGCAGATAAACT
* * *
18184005 ACCAGTATTACAGATAAAAT
1 GCCAGTATTGCAGATAAACT
* *** * *
18184025 GCTAGTATTATGGACAAACC
1 GCCAGTATTGCAGATAAACT
*
18184045 ACCAGTATTGCAGATAAACT
1 GCCAGTATTGCAGATAAACT
18184065 ACAAGTACTT
Statistics
Matches: 53, Mismatches: 27, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (20 bp):
GCCAGTATTGCAGATAAACT
Found at i:18185318 original size:43 final size:43
Alignment explanation
Indices: 18185261--18185356 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 43
18185251 TCGGTATTTT
* * *
18185261 GCCAATGGGTGAATTGTATAAAGACTGCTTGTGTATAGTATTC
1 GCCAATGGGCGAATTGTACAAAGACTACTTGTGTATAGTATTC
**
18185304 GCCAATGGGCGAATTGTACAAAGTTTACTTGTGTATAGTATTC
1 GCCAATGGGCGAATTGTACAAAGACTACTTGTGTATAGTATTC
**
18185347 ATCAATGGGC
1 GCCAATGGGC
18185357 TAACTATGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
GCCAATGGGCGAATTGTACAAAGACTACTTGTGTATAGTATTC
Found at i:18189866 original size:19 final size:19
Alignment explanation
Indices: 18189842--18189880 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18189832 TTAATTTTGG
18189842 TCAAATAATATTAA-ATTAA
1 TCAAATAA-ATTAATATTAA
*
18189861 TCAAATTAATTAATATTAA
1 TCAAATAAATTAATATTAA
18189880 T
1 T
18189881 ATTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TCAAATAAATTAATATTAA
Found at i:18190271 original size:38 final size:38
Alignment explanation
Indices: 18190229--18190302 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
18190219 CAAAAATAAT
*
18190229 TTTATTTTAATA-TATTTAATATTAAATTAA-ATTAAATA
1 TTTATCTTAATAGTATTT--TATTAAATTAATATTAAATA
*
18190267 TTTATCTTAATAGTATTTTATTAATTTAATATTAAA
1 TTTATCTTAATAGTATTTTATTAAATTAATATTAAA
18190303 GTAATTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 10 0.31
38 17 0.53
39 5 0.16
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (38 bp):
TTTATCTTAATAGTATTTTATTAAATTAATATTAAATA
Found at i:18191642 original size:33 final size:33
Alignment explanation
Indices: 18191602--18191682 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
18191592 CGCTGGATAG
* **
18191602 TAAACACATAACAGAAATAG-TCTGTTAGGACAA
1 TAAACACAGAACAGAAATAGTTC-ACTAGGACAA
* * *
18191635 TAAACACAGAACATAGATAGTTCACTGGGACAA
1 TAAACACAGAACAGAAATAGTTCACTAGGACAA
18191668 TAAACACAGAACAGA
1 TAAACACAGAACAGA
18191683 TAAAGTCCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 38 0.95
34 2 0.05
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.17
Consensus pattern (33 bp):
TAAACACAGAACAGAAATAGTTCACTAGGACAA
Found at i:18194110 original size:18 final size:18
Alignment explanation
Indices: 18194087--18194136 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
18194077 TTTTGGTTAA
18194087 AAATTAACCGAATTAACC-
1 AAATTAACCGAATT-ACCT
18194105 AAATTAACCGAATTACCT
1 AAATTAACCGAATTACCT
*
18194123 AAATTACCCGAATT
1 AAATTAACCGAATT
18194137 GAATCACTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 3 0.10
18 27 0.90
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTAACCGAATTACCT
Found at i:18194136 original size:9 final size:9
Alignment explanation
Indices: 18194088--18194119 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
18194078 TTTGGTTAAA
18194088 AATTAACCG
1 AATTAACCG
*
18194097 AATTAACCA
1 AATTAACCG
18194106 AATTAACCG
1 AATTAACCG
18194115 AATTA
1 AATTA
18194120 CCTAAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:18194415 original size:39 final size:39
Alignment explanation
Indices: 18194333--18194449 Score: 200
Period size: 39 Copynumber: 3.0 Consensus size: 39
18194323 ACTTAAGAGT
*
18194333 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
18194371 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
* *
18194410 TAGACTTTATTTTTAGTTTTATTGCGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
18194449 T
1 T
18194450 TGGGTTGGGT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 27 0.36
39 48 0.64
ACGTcount: A:0.18, C:0.03, G:0.27, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:18199920 original size:24 final size:24
Alignment explanation
Indices: 18199893--18199942 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
18199883 GACCCCCATA
*
18199893 TTCATCTTCATCTT-GACCATCGTC
1 TTCATCTTCAT-TTCCACCATCGTC
18199917 TTCATCTTCATTTCCACCATCGTC
1 TTCATCTTCATTTCCACCATCGTC
18199941 TT
1 TT
18199943 TGTATTCGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.16, C:0.34, G:0.06, T:0.44
Consensus pattern (24 bp):
TTCATCTTCATTTCCACCATCGTC
Found at i:18201075 original size:17 final size:17
Alignment explanation
Indices: 18201053--18201090 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
18201043 AAAATAAAAT
* *
18201053 AATTTTAAATATTTTAA
1 AATTTTAAAAACTTTAA
18201070 AATTTTAAAAACTTTAA
1 AATTTTAAAAACTTTAA
18201087 AATT
1 AATT
18201091 AACTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTAAAAACTTTAA
Found at i:18209086 original size:16 final size:16
Alignment explanation
Indices: 18209052--18209088 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18209042 GAATTAATTC
*
18209052 ATTTTTTTATTTCATA
1 ATTTTTTTATTTCAAA
*
18209068 ATTTTTTTATTTTAAA
1 ATTTTTTTATTTCAAA
18209084 ATTTT
1 ATTTT
18209089 AAAATTCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTTATTTCAAA
Found at i:18209615 original size:18 final size:18
Alignment explanation
Indices: 18209592--18209631 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18209582 TATTATTTTA
*
18209592 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
18209610 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
18209628 AAAA
1 AAAA
18209632 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:18221477 original size:18 final size:17
Alignment explanation
Indices: 18221446--18221479 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18221436 ATCATCAATT
18221446 CATTAATCAAACACATA
1 CATTAATCAAACACATA
*
18221463 CATTATATCATACACAT
1 CATTA-ATCAAACACAT
18221480 TTTCTATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATTAATCAAACACATA
Found at i:18232608 original size:15 final size:15
Alignment explanation
Indices: 18232588--18232618 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18232578 TCAACCTTCA
*
18232588 AATTTTAGGTCAATT
1 AATTTTACGTCAATT
18232603 AATTTTACGTCAATT
1 AATTTTACGTCAATT
18232618 A
1 A
18232619 TACATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (15 bp):
AATTTTACGTCAATT
Found at i:18233779 original size:17 final size:17
Alignment explanation
Indices: 18233754--18233787 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18233744 ATTATTTTAA
*
18233754 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
18233771 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
18233788 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:18233789 original size:15 final size:16
Alignment explanation
Indices: 18233754--18233792 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
18233744 ATTATTTTAA
*
18233754 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
18233771 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
18233786 ATTTAAT
1 ATTTAAT
18233793 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:18233796 original size:17 final size:18
Alignment explanation
Indices: 18233758--18233797 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
18233748 TTTTAAATTT
*
18233758 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
18233776 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
18233792 TATTAA
1 TATTAA
18233798 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:18233904 original size:18 final size:17
Alignment explanation
Indices: 18233873--18233907 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18233863 ATTATTAAGA
18233873 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
18233890 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
18233908 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:18233954 original size:120 final size:120
Alignment explanation
Indices: 18233753--18234041 Score: 481
Period size: 120 Copynumber: 2.4 Consensus size: 120
18233743 AATTATTTTA
* * * * * * *
18233753 AATTTTATTAAATCATATA-TTTAATTAAATCATATTTAATATTAATTATTTGAAATTTTCTTTT
1 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATTTCAAATTATATTTT
*
18233817 ATAGTATCATATATTATGATTTGAGTAAATTCATGTAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
18233872 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATTTCAAATTATATTTT
*
18233937 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAT
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
18233992 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTAT
18234042 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
119 18 0.11
120 141 0.89
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:18234026 original size:18 final size:18
Alignment explanation
Indices: 18233980--18234027 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
18233970 TATAAGAATA
*
18233980 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
18233996 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
18234013 TTAATTATAATATAT
1 TTAATTATAATATAT
18234028 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:18234027 original size:16 final size:16
Alignment explanation
Indices: 18233980--18234047 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
18233970 TATAAGAATA
18233980 TTAATTATTAATA-ATT
1 TTAATTA-TAATATATT
*
18233996 TT-ATTAAATTATATATT
1 TTAATT--ATAATATATT
18234013 TTAATTATAATATA-T
1 TTAATTATAATATATT
*
18234028 TTAATAATAAT-TATGT
1 TTAATTATAATATAT-T
18234044 TTAA
1 TTAA
18234048 ATATGATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 2 0.05
15 14 0.33
16 18 0.42
17 6 0.14
18 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:18234032 original size:15 final size:15
Alignment explanation
Indices: 18233997--18234038 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18233987 TTAATAATTT
*
18233997 TATTAAATTAT-ATA
1 TATTTAATTATAATA
18234011 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
18234025 TATTTAATAATAAT
1 TATTTAATTATAAT
18234039 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:18234144 original size:147 final size:147
Alignment explanation
Indices: 18233981--18234253 Score: 503
Period size: 147 Copynumber: 1.9 Consensus size: 147
18233971 ATAAGAATAT
* * *
18233981 TAATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
18234046 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAA-AATAATTT
66 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTT-AATAACAATAATTT
18234110 ACCAAAACAAATTTCTGC
130 ACCAAAACAAATTTCTGC
18234128 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
18234193 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAATAACAATAA
18234254 CAATAATCAT
Statistics
Matches: 122, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
146 5 0.04
147 117 0.96
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:18234168 original size:18 final size:17
Alignment explanation
Indices: 18234140--18234174 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18234130 ATTATTAAGA
*
18234140 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18234157 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18234175 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18234423 original size:45 final size:44
Alignment explanation
Indices: 18234335--18234429 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 44
18234325 TTACACCTCT
18234335 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
18234379 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
18234424 ATTACA
1 ATTACA
18234430 CCTCTAATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 20 0.43
45 26 0.57
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:18234429 original size:16 final size:16
Alignment explanation
Indices: 18234408--18234445 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18234398 TTGATTTGCT
*
18234408 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
18234424 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
18234440 AATACA
1 ATTACA
18234446 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:18236384 original size:43 final size:43
Alignment explanation
Indices: 18236323--18236421 Score: 171
Period size: 43 Copynumber: 2.3 Consensus size: 43
18236313 TCTGGCACTG
* *
18236323 TAGTGCATCATCAGATATATTAAAGAAAAGATACTGACACACA
1 TAGTGCATCATCGGATATATTAAAAAAAAGATACTGACACACA
*
18236366 TAGTGCAACATCGGATATATTAAAAAAAAGATACTGACACACA
1 TAGTGCATCATCGGATATATTAAAAAAAAGATACTGACACACA
18236409 TAGTGCATCATCG
1 TAGTGCATCATCG
18236422 AGCAAGCCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.23
Consensus pattern (43 bp):
TAGTGCATCATCGGATATATTAAAAAAAAGATACTGACACACA
Found at i:18236559 original size:42 final size:42
Alignment explanation
Indices: 18236469--18236603 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 42
18236459 TCATCAAACG
* * **
18236469 AACTGAAGCAATTATACTGGCAA-GCATAGCACATCATTGGATA
1 AACTGAAGCAAATATACTGG-AACGTA-AGTGCATCATTGGATA
*
18236512 AACTGAAGCAAATATACTGGAACGTAAGTGCATCATCGGATA
1 AACTGAAGCAAATATACTGGAACGTAAGTGCATCATTGGATA
* * * *
18236554 AACTGAAGCAAATATACTAGCACATAAGTGCATCATTGGCTA
1 AACTGAAGCAAATATACTGGAACGTAAGTGCATCATTGGATA
*
18236596 AACCGAAG
1 AACTGAAG
18236604 TATAAACCTG
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 59 0.74
43 21 0.26
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (42 bp):
AACTGAAGCAAATATACTGGAACGTAAGTGCATCATTGGATA
Found at i:18242293 original size:4 final size:4
Alignment explanation
Indices: 18242284--18242309 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18242274 ATTTAATTGG
18242284 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
18242310 ATTTTAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:18247209 original size:16 final size:15
Alignment explanation
Indices: 18247188--18247226 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18247178 TCAAATATAT
18247188 ATAAAATCTAAAAAAA
1 ATAAAAT-TAAAAAAA
* *
18247204 ATAAAATTTATAAAA
1 ATAAAATTAAAAAAA
18247219 ATAAAATT
1 ATAAAATT
18247227 TACAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAAATTAAAAAAA
Found at i:18247220 original size:15 final size:15
Alignment explanation
Indices: 18247200--18247228 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18247190 AAAATCTAAA
18247200 AAAAATAAAATTTAT
1 AAAAATAAAATTTAT
18247215 AAAAATAAAATTTA
1 AAAAATAAAATTTA
18247229 CAATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATAAAATTTAT
Found at i:18247591 original size:15 final size:15
Alignment explanation
Indices: 18247573--18247610 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18247563 AAATAAATTT
18247573 TTATAAAATTATAAA
1 TTATAAAATTATAAA
*
18247588 TTATATAATTATAAA
1 TTATAAAATTATAAA
*
18247603 TTTTAAAA
1 TTATAAAA
18247611 AATAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATAAAATTATAAA
Found at i:18247752 original size:21 final size:21
Alignment explanation
Indices: 18247728--18247772 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18247718 ATTTTTAAAC
18247728 TTTTAAAAAAATTACAATTTT
1 TTTTAAAAAAATTACAATTTT
* * **
18247749 TTTTTATAATTTTACAATTTT
1 TTTTAAAAAAATTACAATTTT
18247770 TTT
1 TTT
18247773 ACATTTTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAAAAAATTACAATTTT
Found at i:18247899 original size:22 final size:20
Alignment explanation
Indices: 18247857--18247918 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 20
18247847 ATAAAATTTT
* *
18247857 TATAGTTTATTTTTTTCTATA
1 TATA-TTTATATTTTTATATA
18247878 TATATTTATGAATTTTTATATA
1 TATATTTAT--ATTTTTATATA
* *
18247900 TTTATTTCTATTTTTATAT
1 TATATTTATATTTTTATAT
18247919 TTTTAATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 15 0.43
21 4 0.11
22 16 0.46
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (20 bp):
TATATTTATATTTTTATATA
Found at i:18256606 original size:47 final size:43
Alignment explanation
Indices: 18256492--18256606 Score: 113
Period size: 47 Copynumber: 2.5 Consensus size: 43
18256482 CTTAATCACT
* * *
18256492 TTAACATTAAATTAATATAATATTTATCAAGATAAATATTAGA
1 TTAACTTTAAATTAATATAATATTTATCAAGATAAACATTAAA
*
18256535 TTAAATATATTAAATTTAATATAATATTTATCTACAAGATAAACATTAAA
1 TT-AA-CT-TTAAA-TTAATATAATATTTA--T-CAAGATAAACATTAAA
*
18256585 TTAACTTTAATATTAAGATAAT
1 TTAACTTTAA-ATTAATATAAT
18256607 CACTTTAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
43 2 0.03
44 2 0.03
46 5 0.09
47 28 0.48
48 2 0.03
49 3 0.05
50 16 0.28
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (43 bp):
TTAACTTTAAATTAATATAATATTTATCAAGATAAACATTAAA
Found at i:18256633 original size:17 final size:18
Alignment explanation
Indices: 18256579--18256639 Score: 74
Period size: 17 Copynumber: 3.4 Consensus size: 18
18256569 CAAGATAAAC
18256579 ATTAAATT-AACTTTAAT
1 ATTAAATTAAACTTTAAT
18256596 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAA--ACTTTAAT
18256616 ATTAAATTAAAC-TTAAT
1 ATTAAATTAAACTTTAAT
18256633 ATTAAAT
1 ATTAAAT
18256640 CTATTAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 18 0.46
18 4 0.10
19 1 0.03
20 16 0.41
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAAACTTTAAT
Found at i:18259757 original size:18 final size:17
Alignment explanation
Indices: 18259722--18259760 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
18259712 GAAGACTTAG
* *
18259722 TTAGTTTCTTCTTTCCC
1 TTAGTTTCTGCTTCCCC
18259739 TTAGCTTTCTGCTTCCCC
1 TTAG-TTTCTGCTTCCCC
18259757 TTAG
1 TTAG
18259761 AAGACGAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.08, C:0.31, G:0.10, T:0.51
Consensus pattern (17 bp):
TTAGTTTCTGCTTCCCC
Found at i:18271735 original size:21 final size:21
Alignment explanation
Indices: 18271709--18271748 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18271699 CAGAATCGCT
* *
18271709 GATATACTACCAGAATGTGTG
1 GATATACCACCAAAATGTGTG
18271730 GATATACCACCAAAATGTG
1 GATATACCACCAAAATGTG
18271749 CTGATCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (21 bp):
GATATACCACCAAAATGTGTG
Found at i:18284494 original size:43 final size:43
Alignment explanation
Indices: 18284446--18284551 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
18284436 GTGTGATTTT
* * *
18284446 GTGTAAGACCATGTCTGGGTCAT-TGGCATCGATATGAGATTAC
1 GTGTAAGACCATGTCTGGGAC-TGTGACATCGATATGAGATAAC
* *
18284489 GTGTAAGACCCTGTCTGGGACTGTGACATCGATATGTGATAAC
1 GTGTAAGACCATGTCTGGGACTGTGACATCGATATGAGATAAC
* *
18284532 ATGTAAGACCATATCTGGGA
1 GTGTAAGACCATGTCTGGGA
18284552 TATGGCATTG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACTGTGACATCGATATGAGATAAC
Found at i:18288049 original size:31 final size:31
Alignment explanation
Indices: 18288011--18288115 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
18288001 TATTTAATTT
*
18288011 AATTTAATATTTATATTGATATTAATTTATG
1 AATTTAATATTAATATTGATATTAATTTATG
** * *
18288042 AATTTAATATTAACGTGAGATATTAAATT-TG
1 AATTTAATATTAATAT-TGATATTAATTTATG
* * * * * *
18288073 -ATTAAATATTGATCTTGATAGTATTTTATT
1 AATTTAATATTAATATTGATATTAATTTATG
18288103 AATTTAATATTAA
1 AATTTAATATTAA
18288116 CGTGAGTAAT
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 8 0.15
30 12 0.22
31 25 0.45
32 10 0.18
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.50
Consensus pattern (31 bp):
AATTTAATATTAATATTGATATTAATTTATG
Found at i:18288081 original size:61 final size:61
Alignment explanation
Indices: 18288000--18288121 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
18287990 AATAAATTTA
* * * *
18288000 ATATTTAATTTAATTTAATATTTATATTGATATTAATTTATGAATTTAATATTAACGTGAG
1 ATATTAAATTTAATTAAATATTGATATTGATAGTAATTTATGAATTTAATATTAACGTGAG
* * * *
18288061 ATATTAAATTTGATTAAATATTGATCTTGATAGTATTTTATTAATTTAATATTAACGTGAG
1 ATATTAAATTTAATTAAATATTGATATTGATAGTAATTTATGAATTTAATATTAACGTGAG
18288122 TAATTTCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (61 bp):
ATATTAAATTTAATTAAATATTGATATTGATAGTAATTTATGAATTTAATATTAACGTGAG
Found at i:18289465 original size:3 final size:3
Alignment explanation
Indices: 18289457--18289498 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
18289447 TAAAATAGCT
18289457 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18289499 AGGTAACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18290184 original size:23 final size:22
Alignment explanation
Indices: 18290144--18290187 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
18290134 AAATTATAAA
*
18290144 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
18290166 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
18290188 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:18290806 original size:141 final size:141
Alignment explanation
Indices: 18290552--18290832 Score: 517
Period size: 141 Copynumber: 2.0 Consensus size: 141
18290542 GTACGTATAT
18290552 GTATATATTATAAAACGCATGTATGTACACATGCATATATAACAAAATTTGAAATTTAAAGGCAT
1 GTATATATTATAAAACGCATGTATGTACACATGCATATATAACAAAATTTGAAATTTAAAGGCAT
18290617 AAAAAGTAAATAATAATGATACAAGATTAATGATGCCACATAATAGTATTAATAATATTAAAATA
66 AAAAAGTAAATAATAATGATACAAGATTAATGATGCCACATAATAGTATTAATAATATTAAAATA
*
18290682 ATTAGTTTAAG
131 ATTAATTTAAG
*
18290693 GTATATATTATAAAATGCATGTATGTACACATGCATATATAACAAAATTTGAAATTTAAAGGCAT
1 GTATATATTATAAAACGCATGTATGTACACATGCATATATAACAAAATTTGAAATTTAAAGGCAT
* **
18290758 AAAAAGTAAATAATAATGATACAAGATTAATGATGCTACATAATAGTATTAATAATATTAATTTA
66 AAAAAGTAAATAATAATGATACAAGATTAATGATGCCACATAATAGTATTAATAATATTAAAATA
18290823 ATTAATTTAA
131 ATTAATTTAA
18290833 TAATAAAAAA
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 135 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (141 bp):
GTATATATTATAAAACGCATGTATGTACACATGCATATATAACAAAATTTGAAATTTAAAGGCAT
AAAAAGTAAATAATAATGATACAAGATTAATGATGCCACATAATAGTATTAATAATATTAAAATA
ATTAATTTAAG
Found at i:18291028 original size:23 final size:22
Alignment explanation
Indices: 18290995--18291038 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
18290985 AAATCAACAA
*
18290995 TATACAAATCAA-TAAATAAAT
1 TATACAAATCAACAAAATAAAT
18291016 TATACACAGATCAACAAAATAAA
1 TATACA-A-ATCAACAAAATAAA
18291039 AACAAATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 5 0.26
24 7 0.37
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.23
Consensus pattern (22 bp):
TATACAAATCAACAAAATAAAT
Found at i:18291258 original size:23 final size:22
Alignment explanation
Indices: 18291230--18291275 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
18291220 CAAATTAAAT
*
18291230 TTCTAATATTACAAAATCATATC
1 TTCTAAGATTAC-AAATCATATC
* *
18291253 TTCTAAGATTGCATATCATATC
1 TTCTAAGATTACAAATCATATC
18291275 T
1 T
18291276 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.41
Consensus pattern (22 bp):
TTCTAAGATTACAAATCATATC
Found at i:18291291 original size:21 final size:19
Alignment explanation
Indices: 18291254--18291328 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
18291244 AATCATATCT
18291254 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18291273 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
18291294 TTTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
18291313 TCTAATATTGCTTATC
1 TCTAAGATTGCATATC
18291329 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:18299777 original size:26 final size:26
Alignment explanation
Indices: 18299738--18299794 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
18299728 ATCGGGTGAA
* * *
18299738 CTTTAATATCGGGCGTATACTTTCTT
1 CTTTAACATCGGGCGAATACTTTCAT
*
18299764 CTTTAACATTGGGCGAATACTTTCAT
1 CTTTAACATCGGGCGAATACTTTCAT
18299790 CTTTA
1 CTTTA
18299795 CACCAAAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (26 bp):
CTTTAACATCGGGCGAATACTTTCAT
Found at i:18303687 original size:17 final size:16
Alignment explanation
Indices: 18303657--18303691 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
18303647 TACATCATGC
*
18303657 ATAAAATGCGATGACA
1 ATAAAATGCAATGACA
18303673 ATAACAATGCAATGACA
1 ATAA-AATGCAATGACA
18303690 AT
1 AT
18303692 GTTCACTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.20
Consensus pattern (16 bp):
ATAAAATGCAATGACA
Found at i:18308046 original size:74 final size:74
Alignment explanation
Indices: 18307925--18308075 Score: 284
Period size: 74 Copynumber: 2.0 Consensus size: 74
18307915 CCACTTTAGC
* *
18307925 TTTGTTGATTTCAATTCCTTGACGAGAGATATGATGGCCTAACACAATGCCTTCTATTGCCATGA
1 TTTGTTGACTTCAATTCCTTGAAGAGAGATATGATGGCCTAACACAATGCCTTCTATTGCCATGA
18307990 AATGACATT
66 AATGACATT
18307999 TTTGTTGACTTCAATTCCTTGAAGAGAGATATGATGGCCTAACACAATGCCTTCTATTGCCATGA
1 TTTGTTGACTTCAATTCCTTGAAGAGAGATATGATGGCCTAACACAATGCCTTCTATTGCCATGA
18308064 AATGACATT
66 AATGACATT
18308073 TTT
1 TTT
18308076 CCCAATTTAG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (74 bp):
TTTGTTGACTTCAATTCCTTGAAGAGAGATATGATGGCCTAACACAATGCCTTCTATTGCCATGA
AATGACATT
Found at i:18312920 original size:32 final size:32
Alignment explanation
Indices: 18312884--18312947 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
18312874 AAAATCTAAA
18312884 ATAGTTTCAGGGATTCATTTGAAGGCATCCTT
1 ATAGTTTCAGGGATTCATTTGAAGGCATCCTT
* *
18312916 ATAGTTTCAGGGGTTCATTTTAAGGCATCCTT
1 ATAGTTTCAGGGATTCATTTGAAGGCATCCTT
18312948 TCTTAGAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (32 bp):
ATAGTTTCAGGGATTCATTTGAAGGCATCCTT
Found at i:18321269 original size:40 final size:39
Alignment explanation
Indices: 18321238--18321447 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
18321228 GGACTAAGAT
* *
18321238 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
18321278 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
18321318 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
18321358 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
18321398 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
18321437 CCGAAGGCATT
1 CCGAAGGCATT
18321448 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:18321401 original size:120 final size:120
Alignment explanation
Indices: 18321185--18321447 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
18321175 TTGAATGCTG
* *
18321185 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
18321249 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
18321305 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
18321368 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
18321424 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
18321448 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:18321467 original size:79 final size:80
Alignment explanation
Indices: 18321186--18321482 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
18321176 TGAATGCTGT
* ** * * * **
18321186 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
18321249 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
18321266 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
18321330 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
18321346 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
18321410 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
18321425 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
18321483 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:18325490 original size:28 final size:28
Alignment explanation
Indices: 18325451--18325657 Score: 312
Period size: 28 Copynumber: 7.4 Consensus size: 28
18325441 CTATTCAAAG
18325451 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
**
18325478 ACAGTAACAGTGTGATCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
18325506 ACAGTCACAGTGTGGCCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
18325534 ACAGTAATAGTGTGGGCCTTAGTCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
18325562 ACAG-AATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
*
18325590 ACAG-AATCAGTGTGGGCCTTAGCTCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
18325618 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
18325646 ACAGTAACAGTG
1 ACAGTAACAGTG
18325658 CAGTGCAATA
Statistics
Matches: 164, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
27 7 0.04
28 155 0.95
29 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:18325775 original size:58 final size:58
Alignment explanation
Indices: 18325685--18325815 Score: 199
Period size: 58 Copynumber: 2.3 Consensus size: 58
18325675 CCATCACAAT
* *
18325685 CCAGCCAACACACCACTCCATACCACCAACACACCATGTGGGGATAAAATCAACCCAC
1 CCAGCCAACACACCACTACATACCACCAACACACCATGTAGGGATAAAATCAACCCAC
** **
18325743 CCAGCCAACACACCACTATGTACCACCAACACACCATGTAGGGATAAAATTGACCCAC
1 CCAGCCAACACACCACTACATACCACCAACACACCATGTAGGGATAAAATCAACCCAC
*
18325801 CTAGCCAACACACCA
1 CCAGCCAACACACCA
18325816 ATATCGCAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.38, C:0.40, G:0.11, T:0.11
Consensus pattern (58 bp):
CCAGCCAACACACCACTACATACCACCAACACACCATGTAGGGATAAAATCAACCCAC
Found at i:18325895 original size:26 final size:25
Alignment explanation
Indices: 18325817--18325897 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 25
18325807 AACACACCAA
*
18325817 TATCGCAGCAAAGCTCCAAGTAATAG
1 TATCGCAGCAAAGCTCC-AGTAACAG
* * *
18325843 CATCGCAGCAGAGCTACCAGTATCAG
1 TATCGCAGCAAAGCT-CCAGTAACAG
*
18325869 TATCGCAGCAAAGTTGCCAGTAACAG
1 TATCGCAGCAAAGCT-CCAGTAACAG
18325895 TAT
1 TAT
18325898 ATATGGCAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 43 0.96
27 2 0.04
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (25 bp):
TATCGCAGCAAAGCTCCAGTAACAG
Found at i:18326151 original size:27 final size:27
Alignment explanation
Indices: 18326121--18326173 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18326111 CATCTCTTAG
18326121 GGGTATAAC-ATTCATTTTACCCTATGA
1 GGGTATAACGA-TCATTTTACCCTATGA
**
18326148 GGGTATTTCGATCATTTTACCCTATG
1 GGGTATAACGATCATTTTACCCTATG
18326174 GGATATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (27 bp):
GGGTATAACGATCATTTTACCCTATGA
Found at i:18326188 original size:26 final size:27
Alignment explanation
Indices: 18326132--18326191 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
18326122 GGTATAACAT
*
18326132 TCATTTTACCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGAGGATATTTCGA
18326159 TCATTTTACCCTATG-GGATATTTC-A
1 TCATTTTACCCTATGAGGATATTTCGA
18326184 GTCATTTT
1 -TCATTTT
18326192 CATCTATTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 1 0.03
26 15 0.48
27 15 0.48
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGATATTTCGA
Found at i:18332950 original size:20 final size:20
Alignment explanation
Indices: 18332925--18332997 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
18332915 CAAAGCTATT
* *
18332925 GAAGTGTAACCAGAGGCAAC
1 GAAGTGCAAACAGAGGCAAC
*
18332945 GAAGTGCAAACAGAGGCACC
1 GAAGTGCAAACAGAGGCAAC
* * * *
18332965 AAAGTGCAATCAAAGGCATC
1 GAAGTGCAAACAGAGGCAAC
*
18332985 AAAGTGCTAAACA
1 GAAGTGC-AAACA
18332998 AATAGCACAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 40 0.91
21 4 0.09
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (20 bp):
GAAGTGCAAACAGAGGCAAC
Found at i:18333015 original size:22 final size:22
Alignment explanation
Indices: 18332990--18333049 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
18332980 GCATCAAAGT
*
18332990 GCTAAACAAATAGCACATAAGA
1 GCTAATCAAATAGCACATAAGA
* *
18333012 GCTAATCAGATAGGACATAAGA
1 GCTAATCAAATAGCACATAAGA
*
18333034 GCTAATCAAAGAGCAC
1 GCTAATCAAATAGCAC
18333050 GGAAGTGTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.15
Consensus pattern (22 bp):
GCTAATCAAATAGCACATAAGA
Found at i:18339371 original size:18 final size:18
Alignment explanation
Indices: 18339345--18339387 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18339335 TCATTGCAAT
*
18339345 ATATGTAAAAATA-ATTTA
1 ATATATAAAAATATA-TTA
*
18339363 ATATATAAAAATTTATTA
1 ATATATAAAAATATATTA
18339381 ATATATA
1 ATATATA
18339388 TTAATATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATATAAAAATATATTA
Found at i:18339531 original size:20 final size:20
Alignment explanation
Indices: 18339493--18339532 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18339483 AATATTTTCC
* *
18339493 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
18339513 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
18339533 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:18339547 original size:34 final size:35
Alignment explanation
Indices: 18339481--18339547 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18339471 CAAACACCAG
* *
18339481 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
18339516 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
18339548 CATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18339554 original size:14 final size:14
Alignment explanation
Indices: 18339516--18339555 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18339506 ATAGAAAAGT
*
18339516 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
18339530 AAATCATTTTACGG
1 AAAACATTTTACAG
18339544 AAAACATTTTAC
1 AAAACATTTTAC
18339556 TAGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:18340879 original size:18 final size:18
Alignment explanation
Indices: 18340856--18340895 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18340846 GTAATTTTAA
*
18340856 TATATTATTTTAAAAT-TT
1 TATATTA-TTAAAAATATT
18340874 TATATTATTAAAAATATT
1 TATATTATTAAAAATATT
18340892 TATA
1 TATA
18340896 AATGGTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATTATTAAAAATATT
Found at i:18342099 original size:46 final size:45
Alignment explanation
Indices: 18342039--18342127 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 45
18342029 AAATATAAAT
* * *
18342039 AAAAATAAGTAAAATATATTAATAAAGTATGAGTATATATATGTATA
1 AAAAATAAGTAAAATAAAATAATAAAGCAT-A-TATATATATGTATA
* *
18342086 AAAAATATG-AAAATAAAATAATAATGCATATATATATATGTA
1 AAAAATAAGTAAAATAAAATAATAAAGCATATATATATATGTA
18342128 AGATGCACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 12 0.32
45 1 0.03
46 16 0.43
47 8 0.22
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (45 bp):
AAAAATAAGTAAAATAAAATAATAAAGCATATATATATATGTATA
Found at i:18342230 original size:18 final size:17
Alignment explanation
Indices: 18342190--18342237 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
18342180 CGTGTAAGTG
*
18342190 TATAAAAATAATGATGA
1 TATAAAAATAATGATAA
18342207 TGATAAAAATAATGAGTAA
1 T-ATAAAAATAATGA-TAA
*
18342226 TATAATAATAAT
1 TATAAAAATAAT
18342238 AAAAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.85
19 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
TATAAAAATAATGATAA
Found at i:18342248 original size:18 final size:17
Alignment explanation
Indices: 18342190--18342250 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
18342180 CGTGTAAGTG
* *
18342190 TATAAAAATAATGATGA
1 TATAAAAATAATAATAA
*
18342207 TGATAAAAATAATGAGTAA
1 T-ATAAAAATAAT-AATAA
* *
18342226 TATAATAATAATAAAAA
1 TATAAAAATAATAATAA
18342243 TAATAAAA
1 T-ATAAAA
18342251 TAGTTAATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 5 0.15
18 26 0.76
19 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (17 bp):
TATAAAAATAATAATAA
Found at i:18355762 original size:40 final size:40
Alignment explanation
Indices: 18355731--18356090 Score: 603
Period size: 40 Copynumber: 9.0 Consensus size: 40
18355721 TGTATATGCC
* * *
18355731 TTCAAGAGTACCGAAGTACTAACAGGGGCATGAATGTGCA
1 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
* * *
18355771 TTCAGGGGTACCGAAGTACAAACGGGGGCATGAATGTGCA
1 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
* * *
18355811 TTCAGGGGTACCGTAGTACAAATAGGGGCACGAATGTGCA
1 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
18355851 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
1 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
18355891 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
1 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
* *
18355931 TTCAAGGGTACCAAAGTACAAACAGAGGCACGAATGTGCA
1 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
18355971 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
1 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
* *
18356011 TTCAAGGGTACCAAAGTACAAACAGAGGCACGAATGTGCA
1 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
18356051 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
1 TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
18356091 CTCAGACATT
Statistics
Matches: 301, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 301 1.00
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.16
Consensus pattern (40 bp):
TTCAAGGGTACCGAAGTACAAACAGGGGCACGAATGTGCA
Found at i:18355778 original size:20 final size:20
Alignment explanation
Indices: 18355753--18355818 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
18355743 GAAGTACTAA
18355753 CAGGGGCATGAATGTGCATT
1 CAGGGGCATGAATGTGCATT
* * * **
18355773 CAGGGGTACCGAA-GTACAAA
1 CAGGGGCA-TGAATGTGCATT
*
18355793 CGGGGGCATGAATGTGCATT
1 CAGGGGCATGAATGTGCATT
18355813 CAGGGG
1 CAGGGG
18355819 TACCGTAGTA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.27, C:0.17, G:0.38, T:0.18
Consensus pattern (20 bp):
CAGGGGCATGAATGTGCATT
Found at i:18357524 original size:13 final size:13
Alignment explanation
Indices: 18357503--18357565 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
18357493 TTAGCAATGC
18357503 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
*
18357516 TTTTAAAAAGTG-
1 TTTTGAAAAGTGT
* *
18357528 TTGTGAAAAAGTGC
1 TTTTG-AAAAGTGT
* *
18357542 TTTTGAGAAGTAT
1 TTTTGAAAAGTGT
18357555 TTTTGAAAAGT
1 TTTTGAAAAGT
18357566 TTGGTTTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 3 0.08
13 33 0.82
14 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:18368238 original size:14 final size:14
Alignment explanation
Indices: 18368219--18368261 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
18368209 GAAGAAGATG
18368219 ATGTTTTATTTTTT
1 ATGTTTTATTTTTT
*
18368233 ATGTTTTAAGTTTTT
1 ATGTTTT-ATTTTTT
18368248 ATGTACTTTATTTT
1 ATGT--TTTATTTT
18368262 AACTTTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.29
15 10 0.42
16 4 0.17
17 3 0.12
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (14 bp):
ATGTTTTATTTTTT
Found at i:18374987 original size:16 final size:16
Alignment explanation
Indices: 18374966--18375034 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
18374956 TTTGGTTCGC
18374966 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18374982 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18374998 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
18375015 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18375031 TGTA
1 TGTA
18375035 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:18375012 original size:33 final size:32
Alignment explanation
Indices: 18374966--18375034 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
18374956 TTTGGTTCGC
18374966 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
18374998 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
18375031 TGTA
1 TGTA
18375035 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:18375099 original size:44 final size:45
Alignment explanation
Indices: 18375020--18375109 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 45
18375010 AGAGGTGTAT
* *
18375020 TGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAATGGAA
1 TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGGAA
***
18375065 TGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAATGGAA
1 TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGGAA
18375109 T
1 T
18375110 AGAGGTGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 23 0.57
45 17 0.43
ACGTcount: A:0.29, C:0.07, G:0.30, T:0.34
Consensus pattern (45 bp):
TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGGAA
Done.