Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 49
Found at i:4565903 original size:33 final size:33
Alignment explanation
Indices: 4565858--4565969 Score: 178
Period size: 33 Copynumber: 3.5 Consensus size: 33
4565848 TCTTTTGGTT
4565858 GAAATGAAAATCGCAACGAGGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGA-GAGAATCGCAACGC
*
4565892 G-AATGACAATCGC-AC--GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4565921 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4565954 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
4565970 TGCGATTTTG
Statistics
Matches: 72, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
29 15 0.21
30 11 0.15
31 2 0.03
32 2 0.03
33 41 0.57
34 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4565934 original size:19 final size:19
Alignment explanation
Indices: 4565910--4565974 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
4565900 ATCGCACGAG
4565910 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
4565929 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
4565943 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
4565962 AATCGCAATGCGA
1 AATCGCAACGCGA
4565975 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:4566005 original size:14 final size:14
Alignment explanation
Indices: 4565986--4566039 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
4565976 TTTGGTTTCG
4565986 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4566000 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
4566018 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4566032 CGTTGCGA
1 CGTTGCGA
4566040 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 18 0.53
15 3 0.09
17 3 0.09
18 10 0.29
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4566023 original size:18 final size:17
Alignment explanation
Indices: 4565981--4566027 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
4565971 GCGATTTTGG
4565981 TTTCGCGTTGCGA-TTC
1 TTTCGCGTTGCGATTTC
*
4565997 --TCTCGTTGCGATTTC
1 TTTCGCGTTGCGATTTC
4566012 ATTTCGCGTTGCGATT
1 -TTTCGCGTTGCGATT
4566028 CTCTCGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
18 12 0.48
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (17 bp):
TTTCGCGTTGCGATTTC
Found at i:4566199 original size:32 final size:32
Alignment explanation
Indices: 4566160--4566228 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
4566150 ACTAACTTGA
*
4566160 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
* *
4566192 AAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
4566224 AAATC
1 AAATC
4566229 TAAGTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:4566202 original size:18 final size:18
Alignment explanation
Indices: 4566179--4566228 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
4566169 CGAGAGAATA
4566179 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
4566197 GCAA--CGACA-G-AATC
1 GCAACGCGAAATGAAATC
*
4566211 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
4566229 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:4566674 original size:22 final size:22
Alignment explanation
Indices: 4566622--4566676 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4566612 TGGTTGTGAG
**
4566622 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
4566644 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
4566666 GGATTTCTTCG
1 GGATTTCTTCG
4566677 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:4566685 original size:219 final size:218
Alignment explanation
Indices: 4566293--4566729 Score: 817
Period size: 219 Copynumber: 2.0 Consensus size: 218
4566283 ATATGAAAAA
4566293 ACCTACAATATGCAACATTTCAAAATAAAAATAATTAAAAAACTAACCCTCGGAGGTTGATTTTC
1 ACCTACAATATGCAACATTTCAAAATAAAAATAATTAAAAAACTAACCCTCGGAGGTTGATTTTC
4566358 CATTTCTGAATATTGTGAGGGATTTCTGACCGTGAATGGTTGTGAGGGATTTCGCCGGAGATGGG
66 CATTTCTGAATATTGTGAGGGATTTCTGACCGTGAATGGTTGTGAGGGATTTCGCCGGAGATGGG
4566423 GACGGAATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGAGTGAGAGATGGAGATGGGA-T
131 GACGGAATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGAGTGAGAGATGGAGATGGGACT
4566487 GAGTTGTGATTTTAGGTTTTAGG
196 GAGTTGTGATTTTAGGTTTTAGG
4566510 ACCTACAATAATGCAAACATTTCAAAATAAAAATAATTAAAAAAACTAACCCTCGGAGGTTGATT
1 ACCTACAAT-ATGC-AACATTTCAAAATAAAAATAATT-AAAAAACTAACCCTCGGAGGTTGATT
4566575 TT-CA-TTCTGAATATTGTGAGGGATTTCTGACCGTGAATGGTTGTGAGGGATTTCGCCGGAGAT
63 TTCCATTTCTGAATATTGTGAGGGATTTCTGACCGTGAATGGTTGTGAGGGATTTCGCCGGAGAT
4566638 GGGGACGGAAATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGAGTGAGAGATGGAGATGG
128 GGGGACGG-AATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGAGTGAGAGATGGAGATGG
4566703 GACTGAGTTGTGATTTTAGGTTTTAGG
192 GACTGAGTTGTGATTTTAGGTTTTAGG
4566730 TTATGAGTTG
Statistics
Matches: 215, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
217 9 0.04
218 71 0.33
219 83 0.39
220 52 0.24
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (218 bp):
ACCTACAATATGCAACATTTCAAAATAAAAATAATTAAAAAACTAACCCTCGGAGGTTGATTTTC
CATTTCTGAATATTGTGAGGGATTTCTGACCGTGAATGGTTGTGAGGGATTTCGCCGGAGATGGG
GACGGAATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGAGTGAGAGATGGAGATGGGACT
GAGTTGTGATTTTAGGTTTTAGG
Found at i:4566847 original size:20 final size:20
Alignment explanation
Indices: 4566822--4567014 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
4566812 CTTTAAATAT
4566822 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4566842 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
4566864 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4566883 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
4566903 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
4566923 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4566943 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4566963 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
4566983 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
4567003 CGCGTTGCGATT
1 CGCGTTGCGATT
4567015 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4567009 original size:60 final size:60
Alignment explanation
Indices: 4566822--4567014 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
4566812 CTTTAAATAT
**
4566822 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
4566883 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
4566943 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
4567003 CGCGTTGCGATT
1 CGCGTTGCGATT
4567015 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:4567095 original size:20 final size:20
Alignment explanation
Indices: 4567070--4567121 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4567060 AAGAATCGCG
*
4567070 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4567090 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4567110 TTGCGATTCTGG
1 TTGCGATTCTGG
4567122 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:4567949 original size:59 final size:59
Alignment explanation
Indices: 4567857--4567976 Score: 163
Period size: 59 Copynumber: 2.0 Consensus size: 59
4567847 TCGTTAAGTA
* * * *
4567857 ATCATTTTGTATATTTTAATAGTCGATGGACTCAATAAAGTAATATCCTATAATCGGGG
1 ATCATTTTGTATATTTTAATAGGCAATGGACTCAATAAAATAACATCCTATAATCGGGG
*
4567916 ATCATTTTGTA-ACTTTTAATAGGCAAAT-GACTCAATAAAATAACATCCTATAGTCGGGG
1 ATCATTTTGTATA-TTTTAATAGGC-AATGGACTCAATAAAATAACATCCTATAATCGGGG
4567975 AT
1 AT
4567977 TTTTATATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 1 0.02
59 51 0.94
60 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (59 bp):
ATCATTTTGTATATTTTAATAGGCAATGGACTCAATAAAATAACATCCTATAATCGGGG
Found at i:4568235 original size:32 final size:33
Alignment explanation
Indices: 4568199--4568272 Score: 132
Period size: 32 Copynumber: 2.2 Consensus size: 33
4568189 GTCACCTTAA
4568199 ATTTTCAATGTATTTTAAATCCATACTCA-TAT
1 ATTTTCAATGTATTTTAAATCCATACTCAGTAT
4568231 ATTTTCAATGTATTTTAAATCCATACTCATGTAT
1 ATTTTCAATGTATTTTAAATCCATACTCA-GTAT
4568265 ATTTTCAA
1 ATTTTCAA
4568273 CTTCTTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 29 0.73
34 11 0.28
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (33 bp):
ATTTTCAATGTATTTTAAATCCATACTCAGTAT
Found at i:4569351 original size:588 final size:585
Alignment explanation
Indices: 4568210--4569384 Score: 2250
Period size: 588 Copynumber: 2.0 Consensus size: 585
4568200 TTTTCAATGT
4568210 ATTTTAAATCCATACTCATATATTTTCAATGTATTTTAAATCCATACTCATGTATATTTTCAACT
1 ATTTTAAATCCATACTCA-ATATTTTCAATGTATTTTAAATCCATACTCATGTATATTTTCAACT
4568275 TCTTTTCACATGTTTTGTCTTATATTTCAAGATTGAGTTCAAAATTTCTTTAAAAGAAATCCACG
65 TCTTTTCACATGTTTTGTCTTATATTTCAAGATTGAGTTCAAAATTTCTTTAAAAGAAATCCACG
4568340 GACTTACATTGTATCGGAGAAATCAGGTAAAAGAGTAACTTTTGGCCTTGCAGTAGACTCGATTT
130 GACTTACATTGTATCGGAGAAATCAGGTAAAAGAGTAACTTTTGGCCTTGCAGTAGACTCGATTT
4568405 ATCATTCTCGTCTATATCATATTTTCGCATCAAATCCTAAAGGTTGTTCGATTGCATTATTTTTA
195 ATCATTCTCGTCTATATCATATTTTCGCATCAAATCCTAAAGGTTGTTCGATTGCATTATTTTTA
4568470 TACCTTACTCCTAACATAAAACCCTACAGCATAATCCATAACTCTAAACCATAAACCTTGAACTT
260 TACCTTACTCCTAACATAAAACCCTACAGCATAATCCATAACTCTAAACCATAAACCTTGAACTT
4568535 TAAACTCGTCTCAGGATTTATAATTTAGGATTTTAAGTTGGGGGTAGAGTATTGAATGATATAAT
325 TAAACTCGTCTCAGGATTTATAATTTAGGATTTTAAGTTGGGGGTAGAGTATTGAATGATATAAT
4568600 TGAGCAACTTCGAGCGCTAATTGATACGAAAATATAATAGGGACGAAAATGATAAATTAAGTATA
390 TGAGCAACTTCGAGCGCTAATTGATACGAAAATATAATAGGGACGAAAATGATAAATTAAGTATA
4568665 TTACAAAGACAAAAGTGACCGCTAAACCTAATTTTTTTTATATAAATCGTGTTTTTATTACGGGA
455 TTACAAAGACAAAAGTGACCGCTAAACCTAATTTTTTTTATATAAATCGTGTTTTTATTACGGGA
4568730 GATTGGTCCTATTTTTTCATTTTAGTCAATCCTATTCTC-AAATCTTGCCCACCAATTGTTCGTA
520 GATTGGTCCTATTTTTTCATTTTAGTCAATCCTATTCTCAAAATCTTGCCCACCAATTGTTCGTA
4568794 A
585 A
4568795 ATTTTAAATCCATACTC-ATATTTTCAATGTATTTTAAATCCATACTCATGTATATTTTCAACTT
1 ATTTTAAATCCATACTCAATATTTTCAATGTATTTTAAATCCATACTCATGTATATTTTCAACTT
4568859 CTTTTCACATGTTTTGTCTTATATTTCAAGATTGAGTTCAAAATTTCTTTAAAAGAAATCCACGG
66 CTTTTCACATGTTTTGTCTTATATTTCAAGATTGAGTTCAAAATTTCTTTAAAAGAAATCCACGG
4568924 ACTTACATTGTATCGGAGAAATCAGGTAAAAGAGTAACTTTTGGCCTTGCAGTAGACTCGATTTA
131 ACTTACATTGTATCGGAGAAATCAGGTAAAAGAGTAACTTTTGGCCTTGCAGTAGACTCGATTTA
4568989 TCATTCTCGTCTATATCATATTTTCGCATCAATTTAATCCTAAAGGTTGTTCGATTGCATTA-TT
196 TCATTCTCGTCTATATCATATTTTCGCATC-A---AATCCTAAAGGTTGTTCGATTGCATTATTT
4569053 TTATACCTTACTCCTAACATAAAACCCTACAGCATAATCCCATAACCTCTAAACCATAAACCTTG
257 TTATACCTTACTCCTAACATAAAACCCTACAGCATAAT-CCATAA-CTCTAAACCATAAACCTTG
4569118 AACTTTAAACTCGTCTCAGGATTTATAATTTAGGATTTTAAGTTGGGGGTAGAGTATTGAATGAT
320 AACTTTAAACTCGTCTCAGGATTTATAATTTAGGATTTTAAGTTGGGGGTAGAGTATTGAATGAT
4569183 ATAATTGAGCAACTTCGAGCGCTAATTGATACGAAAATATAATAGGGACGAAAATGATAAATTAA
385 ATAATTGAGCAACTTCGAGCGCTAATTGATACGAAAATATAATAGGGACGAAAATGATAAATTAA
4569248 GTATATTACAAAGACAAAAGTGACCGCTAAACCTAATTTTTTTTATATAAATCGTGTTTTTATTA
450 GTATATTACAAAGACAAAAGTGACCGCTAAACCTAATTTTTTTTATATAAATCGTGTTTTTATTA
4569313 CGGGAGATTGGT-CTATTTTTTCATTTTAGTCAAATCCTATTCTCAAAATCTTGCCCACCAATTG
515 CGGGAGATTGGTCCTATTTTTTCATTTTAGTC-AATCCTATTCTCAAAATCTTGCCCACCAATTG
4569377 TTCGTAA
579 TTCGTAA
4569384 A
1 A
4569385 AATTTCTAAT
Statistics
Matches: 582, Mismatches: 0, Indels: 12
0.98 0.00 0.02
Matches are distributed among these distances:
583 207 0.36
584 1 0.00
585 17 0.03
586 40 0.07
587 52 0.09
588 238 0.41
589 27 0.05
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (585 bp):
ATTTTAAATCCATACTCAATATTTTCAATGTATTTTAAATCCATACTCATGTATATTTTCAACTT
CTTTTCACATGTTTTGTCTTATATTTCAAGATTGAGTTCAAAATTTCTTTAAAAGAAATCCACGG
ACTTACATTGTATCGGAGAAATCAGGTAAAAGAGTAACTTTTGGCCTTGCAGTAGACTCGATTTA
TCATTCTCGTCTATATCATATTTTCGCATCAAATCCTAAAGGTTGTTCGATTGCATTATTTTTAT
ACCTTACTCCTAACATAAAACCCTACAGCATAATCCATAACTCTAAACCATAAACCTTGAACTTT
AAACTCGTCTCAGGATTTATAATTTAGGATTTTAAGTTGGGGGTAGAGTATTGAATGATATAATT
GAGCAACTTCGAGCGCTAATTGATACGAAAATATAATAGGGACGAAAATGATAAATTAAGTATAT
TACAAAGACAAAAGTGACCGCTAAACCTAATTTTTTTTATATAAATCGTGTTTTTATTACGGGAG
ATTGGTCCTATTTTTTCATTTTAGTCAATCCTATTCTCAAAATCTTGCCCACCAATTGTTCGTAA
Found at i:4572289 original size:16 final size:17
Alignment explanation
Indices: 4572268--4572305 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
4572258 TATTTATTAA
*
4572268 ATAAATTGAAAAATA-T
1 ATAAATAGAAAAATATT
*
4572284 ATAAATAGATAAATATT
1 ATAAATAGAAAAATATT
4572301 ATAAA
1 ATAAA
4572306 AATTGTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
ATAAATAGAAAAATATT
Found at i:4575170 original size:32 final size:32
Alignment explanation
Indices: 4575134--4575225 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 32
4575124 AAAATGGTTA
*
4575134 ATAAAATAATTATTAAAATTTATCAAAATATT
1 ATAAAATAATTATTAAAATTTATTAAAATATT
* * ** **
4575166 ATAAACTAATGATTAATTTTTATTAATGTATT
1 ATAAAATAATTATTAAAATTTATTAAAATATT
4575198 ATAAAATAATTATT-AAATTTATTAAAAT
1 ATAAAATAATTATTAAAATTTATTAAAAT
4575226 TGATAATTAT
Statistics
Matches: 47, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
31 10 0.21
32 37 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (32 bp):
ATAAAATAATTATTAAAATTTATTAAAATATT
Found at i:4575296 original size:21 final size:22
Alignment explanation
Indices: 4575255--4575297 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4575245 ATAAACACTG
*
4575255 TTTTATAACAATTTTATAATTA
1 TTTTATAACAATTTTAAAATTA
*
4575277 TTTTATAA-ATTTTTAAAATTA
1 TTTTATAACAATTTTAAAATTA
4575298 AACAACTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTATAACAATTTTAAAATTA
Found at i:4582201 original size:18 final size:18
Alignment explanation
Indices: 4582178--4582213 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4582168 GAATAATATA
4582178 AATTTGATTATTATTTTT
1 AATTTGATTATTATTTTT
* *
4582196 AATTTGGTTCTTATTTTT
1 AATTTGATTATTATTTTT
4582214 TTTCCTAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (18 bp):
AATTTGATTATTATTTTT
Found at i:4592133 original size:17 final size:17
Alignment explanation
Indices: 4592113--4592145 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4592103 TGGCACGTCC
4592113 TCTAGTTTTGCCAGTCT
1 TCTAGTTTTGCCAGTCT
*
4592130 TCTAGTTTTGCTAGTC
1 TCTAGTTTTGCCAGTC
4592146 GTCTTTCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.48
Consensus pattern (17 bp):
TCTAGTTTTGCCAGTCT
Found at i:4607288 original size:15 final size:15
Alignment explanation
Indices: 4607268--4607300 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4607258 ACATTACCCT
4607268 CCCCGCATCCGCCCG
1 CCCCGCATCCGCCCG
4607283 CCCCGCATCCGCCCG
1 CCCCGCATCCGCCCG
4607298 CCC
1 CCC
4607301 AACTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.70, G:0.18, T:0.06
Consensus pattern (15 bp):
CCCCGCATCCGCCCG
Found at i:4609898 original size:33 final size:34
Alignment explanation
Indices: 4609856--4609922 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
4609846 GAAAAACAAT
* *
4609856 AAATGTAATGATAGTTTTATAACATTTCGATAAA
1 AAATGTAATGATAGTTTTACAACAATTCGATAAA
* *
4609890 AAAT-TAATGATTGTTTTACAATAATTCGATAAA
1 AAATGTAATGATAGTTTTACAACAATTCGATAAA
4609923 TTCAATGATC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (34 bp):
AAATGTAATGATAGTTTTACAACAATTCGATAAA
Found at i:4612844 original size:70 final size:70
Alignment explanation
Indices: 4612751--4612892 Score: 239
Period size: 70 Copynumber: 2.0 Consensus size: 70
4612741 TTAGCAAAAC
* * *
4612751 GTTTTTCAATGGTAAATGATGATAAATCATTATTCTTTTTTGTGGTTAAATGAGCATACAGAAAC
1 GTTTTTCAATGGTAAATGATGATAAATCATTATTATTTTGTATGGTTAAATGAGCATACAGAAAC
4612816 TTAGA
66 TTAGA
* *
4612821 GTTTTTCAATGGTAAATGGTGATAAATCATTATTATTTTGTATGGTTAAATGAGCATACAGAAAT
1 GTTTTTCAATGGTAAATGATGATAAATCATTATTATTTTGTATGGTTAAATGAGCATACAGAAAC
4612886 TTAGA
66 TTAGA
4612891 GT
1 GT
4612893 GTGCTGCAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (70 bp):
GTTTTTCAATGGTAAATGATGATAAATCATTATTATTTTGTATGGTTAAATGAGCATACAGAAAC
TTAGA
Found at i:4615958 original size:20 final size:20
Alignment explanation
Indices: 4615933--4615989 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
4615923 CCATGGGAAT
4615933 GGAATCCACATTCCCCCCAG
1 GGAATCCACATTCCCCCCAG
4615953 GGAATCCACATTCCCCCCAG
1 GGAATCCACATTCCCCCCAG
4615973 GGAATCCACATTCCCCC
1 GGAATCCACATTCCCCC
4615990 GTTTGGTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.25, C:0.46, G:0.14, T:0.16
Consensus pattern (20 bp):
GGAATCCACATTCCCCCCAG
Found at i:4616519 original size:18 final size:19
Alignment explanation
Indices: 4616496--4616540 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
4616486 CAAGTAATCC
* *
4616496 TATTCC-CTGGTAATCTTT
1 TATTCCACTGATAATCTTA
4616514 TATTCCCACTGATAATCTTA
1 TATT-CCACTGATAATCTTA
4616534 TATTCCA
1 TATTCCA
4616541 TGTACCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 4 0.17
19 5 0.22
20 14 0.61
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:4619527 original size:24 final size:22
Alignment explanation
Indices: 4619500--4619545 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
4619490 TATTATATAT
4619500 ATATATGTGTGGGTGGGGGGGGGG
1 ATATATGTGT--GTGGGGGGGGGG
4619524 ATATATGTGTGTGGGGGGGGGG
1 ATATATGTGTGTGGGGGGGGGG
4619546 CATTGTGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 12 0.55
24 10 0.45
ACGTcount: A:0.13, C:0.00, G:0.61, T:0.26
Consensus pattern (22 bp):
ATATATGTGTGTGGGGGGGGGG
Found at i:4625432 original size:28 final size:29
Alignment explanation
Indices: 4625371--4625437 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
4625361 ATTCTTTACT
*
4625371 TACATAAATGCATGCATACATGAATACACA
1 TACATACATGCATG-ATACATGAATACACA
* *
4625401 TACATACATGCATG-TGCATGAATACACG
1 TACATACATGCATGATACATGAATACACA
4625429 TACATACAT
1 TACATACAT
4625438 AGTATGCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 21 0.62
30 13 0.38
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (29 bp):
TACATACATGCATGATACATGAATACACA
Found at i:4654482 original size:2 final size:2
Alignment explanation
Indices: 4654475--4654530 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
4654465 TTTAACACAA
4654475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4654517 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
4654531 TTTTATCAGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4657885 original size:16 final size:16
Alignment explanation
Indices: 4657864--4657921 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
4657854 TCTCTAAATT
4657864 TAATTTGAATAAAAAA
1 TAATTTGAATAAAAAA
* * * *
4657880 TAATTTAAATCAATAT
1 TAATTTGAATAAAAAA
* *
4657896 TAATCTGAATAAAAAG
1 TAATTTGAATAAAAAA
*
4657912 TAACTTGAAT
1 TAATTTGAAT
4657922 TGAAAAAAAA
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.34
Consensus pattern (16 bp):
TAATTTGAATAAAAAA
Found at i:4666999 original size:60 final size:60
Alignment explanation
Indices: 4666889--4667036 Score: 138
Period size: 60 Copynumber: 2.5 Consensus size: 60
4666879 TTTAAATTGG
* * * * * * * *
4666889 TCCTTAAACTTTTAAATC-TTTTAATTTCATCCCTAAACTATGATTATCATTTTTAATTAC
1 TCCTCAAACTTTTGAA-CATTTCAATTTCAACCCCAAACTATGACTATCATTCTAAATTAC
**
4666949 TCCTCAAACTTTTGAACATTTCAATTTCAACCCCAAACTATGACCT-TCATTCTAAATTGG
1 TCCTCAAACTTTTGAACATTTCAATTTCAACCCCAAACTATGA-CTATCATTCTAAATTAC
* * *
4667009 TCCCCAAATTTTTTGAACATTCCAATTT
1 TCCTCAAA-CTTTTGAACATTTCAATTT
4667037 TTCCCAAACT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
59 1 0.01
60 53 0.74
61 18 0.25
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (60 bp):
TCCTCAAACTTTTGAACATTTCAATTTCAACCCCAAACTATGACTATCATTCTAAATTAC
Found at i:4667663 original size:29 final size:29
Alignment explanation
Indices: 4667627--4667692 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
4667617 GTTGAGTCCC
4667627 TCGACTATTAAGAGTTACAAAATTATCCT
1 TCGACTATTAAGAGTTACAAAATTATCCT
4667656 TCGACTATTAAGAGTTACAAAATTATCCT
1 TCGACTATTAAGAGTTACAAAATTATCCT
4667685 TCGACTAT
1 TCGACTAT
4667693 AGATTGTTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (29 bp):
TCGACTATTAAGAGTTACAAAATTATCCT
Found at i:4667672 original size:89 final size:89
Alignment explanation
Indices: 4667565--4667738 Score: 240
Period size: 89 Copynumber: 2.0 Consensus size: 89
4667555 AGATTAAGTT
* * * * * * * *
4667565 CTTCGATTATTAAAAGTTATAAAGTAATATTTCGACTATATATTGTTGTTTTGTTGAGTCCCTCG
1 CTTCGACTATTAAAAGTTACAAAATAATACTTCGACTATAGATTGTTGCTTTGTTGAGTCCATCA
*
4667630 ACTATTAAGAGTTACAAAATTATC
66 ACTATTAAAAGTTACAAAATTATC
* * *
4667654 CTTCGACTATTAAGAGTTACAAAATTATCCTTCGACTATAGATTGTTGCTTTGTTGAGTCCATCA
1 CTTCGACTATTAAAAGTTACAAAATAATACTTCGACTATAGATTGTTGCTTTGTTGAGTCCATCA
4667719 ACTATTAAAAGTTACAAAAT
66 ACTATTAAAAGTTACAAAAT
4667739 AGTCCTCCAA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (89 bp):
CTTCGACTATTAAAAGTTACAAAATAATACTTCGACTATAGATTGTTGCTTTGTTGAGTCCATCA
ACTATTAAAAGTTACAAAATTATC
Found at i:4667732 original size:60 final size:61
Alignment explanation
Indices: 4667659--4667819 Score: 206
Period size: 60 Copynumber: 2.7 Consensus size: 61
4667649 TTATCCTTCG
* * * *
4667659 ACTATTAAGAGTTACAAAATTA-TCCTTCGACTATAGATTGTTGCTTTGTTGAGTC-CATCA
1 ACTATTAAAAGTTACAAAATTAGTCCTCCAACTATACATTGTTGCTTTGTTGAGTCTC-TCA
*
4667719 ACTATTAAAAGTTACAAAA-TAGTCCTCCAACTATACATTGTTGCTTTGTTGAGTCTCTTA
1 ACTATTAAAAGTTACAAAATTAGTCCTCCAACTATACATTGTTGCTTTGTTGAGTCTCTCA
* *
4667779 ACTATTAAAAGTTACAAAA-TGGTCGCT-CAACTATTCATTGT
1 ACTATTAAAAGTTACAAAATTAGTC-CTCCAACTATACATTGT
4667820 GTTGCAAACC
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
59 2 0.02
60 86 0.95
61 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (61 bp):
ACTATTAAAAGTTACAAAATTAGTCCTCCAACTATACATTGTTGCTTTGTTGAGTCTCTCA
Found at i:4668053 original size:24 final size:24
Alignment explanation
Indices: 4668026--4668075 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
4668016 GTCGGGTGAC
*
4668026 TTAATTTAGTAGTAAGAGGACCAT
1 TTAATTTAGTAGTAAGACGACCAT
* *
4668050 TTAATTTATTAGTCAGACGACCAT
1 TTAATTTAGTAGTAAGACGACCAT
4668074 TT
1 TT
4668076 GTGTATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (24 bp):
TTAATTTAGTAGTAAGACGACCAT
Found at i:4676632 original size:17 final size:17
Alignment explanation
Indices: 4676610--4676646 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4676600 AAAATTAAAA
4676610 TTAGAAATTACTCCCCC
1 TTAGAAATTACTCCCCC
4676627 TTAGAAATTACTCCCCC
1 TTAGAAATTACTCCCCC
4676644 TTA
1 TTA
4676647 CTTTAACACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.32, G:0.05, T:0.32
Consensus pattern (17 bp):
TTAGAAATTACTCCCCC
Found at i:4678882 original size:20 final size:21
Alignment explanation
Indices: 4678798--4678880 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
4678788 AACAGAACCC
*
4678798 CAGGGGGGTATCGATTCCCCT
1 CAGGGGGGAATCGATTCCCCT
** *
4678819 GTGGGGGGAATCGGTTCCCCTT
1 CAGGGGGGAATCGATTCCCC-T
* * *
4678841 CAAAGGAGGAATCGGTT-CCCT
1 C-AGGGGGGAATCGATTCCCCT
4678862 CAGGGGGGAATCGATTCCC
1 CAGGGGGGAATCGATTCCC
4678881 TCTGCACCAA
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
20 12 0.25
21 20 0.42
22 4 0.08
23 12 0.25
ACGTcount: A:0.18, C:0.25, G:0.35, T:0.22
Consensus pattern (21 bp):
CAGGGGGGAATCGATTCCCCT
Found at i:4682703 original size:22 final size:21
Alignment explanation
Indices: 4682661--4682700 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4682651 GAGTTTGTTT
*
4682661 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4682682 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4682701 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4689428 original size:2 final size:2
Alignment explanation
Indices: 4689421--4689475 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
4689411 CAAACCAATA
4689421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4689463 AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT
4689476 TCAATAATAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4689711 original size:2 final size:2
Alignment explanation
Indices: 4689706--4689784 Score: 144
Period size: 2 Copynumber: 40.5 Consensus size: 2
4689696 ATTTTAATTA
4689706 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4689747 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4689785 GACGAGTATT
Statistics
Matches: 75, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 73 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4690068 original size:2 final size:2
Alignment explanation
Indices: 4690061--4690130 Score: 110
Period size: 2 Copynumber: 36.5 Consensus size: 2
4690051 ATCACAATTC
4690061 TA TA TA TA TA -A TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4690101 TA TA TC TA TA TA -A TA 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
4690131 GCACGAATCA
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
1 3 0.05
2 60 0.95
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4690081 original size:17 final size:16
Alignment explanation
Indices: 4690061--4690130 Score: 110
Period size: 15 Copynumber: 4.6 Consensus size: 16
4690051 ATCACAATTC
4690061 TATATATATA-ATATA
1 TATATATATATATATA
4690076 TATATATATATAT-TA
1 TATATATATATATATA
*
4690091 TATATATATATATATC
1 TATATATATATATATA
4690107 TATATA-ATATATATA
1 TATATATATATATATA
4690122 TATATATAT
1 TATATATAT
4690131 GCACGAATCA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
15 39 0.78
16 11 0.22
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATATATATATATA
Found at i:4691073 original size:2 final size:2
Alignment explanation
Indices: 4691066--4691104 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4691056 AAATAATCTG
4691066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4691105 AAGTTATGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4691765 original size:23 final size:25
Alignment explanation
Indices: 4691739--4691784 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
4691729 ATTTATGTGT
4691739 TTTATTTTTTAAAA-A-TATATACC
1 TTTATTTTTTAAAATATTATATACC
4691762 TTTATTTTTTAAAATATTATATA
1 TTTATTTTTTAAAATATTATATA
4691785 AAATTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.67
24 1 0.05
25 6 0.29
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTATTTTTTAAAATATTATATACC
Found at i:4692945 original size:30 final size:31
Alignment explanation
Indices: 4692902--4692961 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
4692892 AGATAGCAAC
4692902 AAAAAGAAATATACGAGATAAATACATTAAT
1 AAAAAGAAATATACGAGATAAATACATTAAT
*
4692933 AAAAA-AACTATACGAGATAAATACATTAA
1 AAAAAGAAATATACGAGATAAATACATTAA
4692962 CTCATCGACT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (31 bp):
AAAAAGAAATATACGAGATAAATACATTAAT
Found at i:4693953 original size:21 final size:20
Alignment explanation
Indices: 4693917--4693970 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
4693907 ATAATATATT
* *
4693917 AAAAAAT-ATACTTTTATTTA
1 AAAAAATAATA-TTTAATTGA
4693937 ATAAAAATAGATATTTAATTGA
1 A-AAAAATA-ATATTTAATTGA
4693959 AAAAAATAATAT
1 AAAAAATAATAT
4693971 ATATGGGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 5 0.17
21 13 0.45
22 8 0.28
23 3 0.10
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
AAAAAATAATATTTAATTGA
Found at i:4693972 original size:22 final size:23
Alignment explanation
Indices: 4693917--4693972 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
4693907 ATAATATATT
* *
4693917 AAAA-AATATACTTTTATTTAATA
1 AAAATAATATA-TTTAATTGAATA
*
4693940 AAAAT-AGATATTTAATTGAA-A
1 AAAATAATATATTTAATTGAATA
4693961 AAAATAATATAT
1 AAAATAATATAT
4693973 ATGGGTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 6 0.22
22 13 0.48
23 8 0.30
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (23 bp):
AAAATAATATATTTAATTGAATA
Found at i:4698956 original size:2 final size:2
Alignment explanation
Indices: 4698949--4698979 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4698939 TGACAATGTG
4698949 TA TA TA TA TA TA TA TA 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
4698980 CCTATAGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4717340 original size:41 final size:41
Alignment explanation
Indices: 4717293--4717406 Score: 112
Period size: 38 Copynumber: 2.8 Consensus size: 41
4717283 ATTTGTGATA
*
4717293 TTTTAAATTTATAATAAACTATGATAATTAATATGATTATTT
1 TTTTAAATTTA-AATAAACTATGATAATTAATATGATAATTT
* * * *
4717335 TTTAAAAAGTTAAAATAAA-T-TG-TTAGT--TATGATAATTT
1 TTT-TAAA-TTTAAATAAACTATGATAATTAATATGATAATTT
*
4717373 TTTTATATTTAAATAAACTATGATAATTAATATG
1 TTTTAAATTTAAATAAACTATGATAATTAATATG
4717407 GTTACTCTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
36 9 0.16
37 3 0.05
38 15 0.27
39 3 0.05
40 3 0.05
41 6 0.11
42 4 0.07
43 9 0.16
44 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (41 bp):
TTTTAAATTTAAATAAACTATGATAATTAATATGATAATTT
Found at i:4717446 original size:78 final size:80
Alignment explanation
Indices: 4717293--4717449 Score: 264
Period size: 78 Copynumber: 2.0 Consensus size: 80
4717283 ATTTGTGATA
* *
4717293 TTTTAAATTTATAATAAACTATGATAATTAATATGATTATTTTTTAAAAAGTTAAAATAAATTGT
1 TTTTAAATTTATAATAAACTATGATAATTAATATGATTACTCTTTAAAAAGTTAAAATAAATTGT
4717358 TAGTTATGATAATTT
66 TAGTTATGATAATTT
* *
4717373 TTTTATATTTA-AATAAACTATGATAATTAATATGGTTACTCTTT-AAAAGTTAAAATAAATTGT
1 TTTTAAATTTATAATAAACTATGATAATTAATATGATTACTCTTTAAAAAGTTAAAATAAATTGT
4717436 TAGTTATGATAATT
66 TAGTTATGATAATT
4717450 AAATTAATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 33 0.45
79 30 0.41
80 10 0.14
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (80 bp):
TTTTAAATTTATAATAAACTATGATAATTAATATGATTACTCTTTAAAAAGTTAAAATAAATTGT
TAGTTATGATAATTT
Found at i:4725052 original size:15 final size:15
Alignment explanation
Indices: 4725032--4725066 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4725022 CCATAGGACC
*
4725032 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAAG
4725047 ACTACGTCCCGAAAG
1 ACTACGTCCCGAAAG
4725062 ACTAC
1 ACTAC
4725067 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAAG
Found at i:4725300 original size:7 final size:7
Alignment explanation
Indices: 4725290--4725336 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
4725280 TGTCTCATAG
4725290 CATATAT
1 CATATAT
4725297 CATATAT
1 CATATAT
4725304 GCATATAAT
1 -CATAT-AT
*
4725313 CATGTAT
1 CATATAT
4725320 -ATCATAT
1 CAT-ATAT
4725327 CATATAT
1 CATATAT
4725334 CAT
1 CAT
4725337 GCTGCTCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 2 0.06
7 19 0.56
8 11 0.32
9 2 0.06
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (7 bp):
CATATAT
Found at i:4726569 original size:13 final size:13
Alignment explanation
Indices: 4726525--4726569 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
4726515 TACTTCCTAT
4726525 ATTAATTATAATC
1 ATTAATTATAATC
*
4726538 CTTATATTATAAATC
1 ATTA-ATTAT-AATC
4726553 -TTAATTATAATC
1 ATTAATTATAATC
4726565 ATTAA
1 ATTAA
4726570 ATTAATTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:4726790 original size:2 final size:2
Alignment explanation
Indices: 4726783--4726822 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4726773 TTTAAAATAA
4726783 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4726823 TCAAATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4726883 original size:19 final size:18
Alignment explanation
Indices: 4726844--4726887 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4726834 GTGAGAAAAC
* *
4726844 TTTTTAAAGAAAGATTGT
1 TTTTTAGAGAAAAATTGT
4726862 TTTTTAGAGAAAAATTGAT
1 TTTTTAGAGAAAAATTG-T
4726881 TTTTTAG
1 TTTTTAG
4726888 GAATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (18 bp):
TTTTTAGAGAAAAATTGT
Found at i:4727147 original size:2 final size:2
Alignment explanation
Indices: 4727140--4727312 Score: 187
Period size: 2 Copynumber: 87.0 Consensus size: 2
4727130 ATGTTTAATA
* *
4727140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT ACT -T AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
*
4727182 AT AT ACT -T AT AT AT AC AT AT AT AT -T AT ACT -T AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * *
4727223 AT AT AT AT TT AT AT AT AT TT AT AT AC AT ACT -T AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
4727265 ACT -T TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4727307 AT AT AT
1 AT AT AT
4727313 GTGTGTGTGT
Statistics
Matches: 145, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
1 6 0.04
2 134 0.92
3 5 0.03
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4727386 original size:6 final size:6
Alignment explanation
Indices: 4727365--4727612 Score: 51
Period size: 6 Copynumber: 38.5 Consensus size: 6
4727355 ATATATATGC
* * * *
4727365 ATAAGT ATAATGT ATACTT AT-ATT ATATACTT ATAAGT ATAATGT ATACTT
1 ATAATT ATAAT-T ATAATT ATAATT ATA-A-TT ATAATT ATAAT-T ATAATT
* * * *
4727416 ATATATAT ATACTT ATAAGT ATAATGT ATACTT ATATATAT CTATATT
1 ATA-AT-T ATAATT ATAATT ATAAT-T ATAATT ATA-AT-T ATA-ATT
* * * *
4727464 ATATTT AT-ATA AGTAA-T ATATATAT ATACTT ATTTAAGT ATAA-T ATACATT
1 ATAATT ATAATT A-TAATT ATA-AT-T ATAATT A--TAATT ATAATT ATA-ATT
* * * * *
4727515 ACAAAT ATAATGT ATACTT AT-A-T A-AATAT ATACTT ATAACT ATAATGT
1 ATAATT ATAAT-T ATAATT ATAATT ATAAT-T ATAATT ATAATT ATAAT-T
* * *
4727563 ATATATT ATAAGT ATAATAT ATATTT ATACATT ATATACTT ATAAGT ATA
1 ATA-ATT ATAATT ATAAT-T ATAATT ATA-ATT ATA-A-TT ATAATT ATA
4727613 CTTGTATTAT
Statistics
Matches: 175, Mismatches: 38, Indels: 58
0.65 0.14 0.21
Matches are distributed among these distances:
4 3 0.02
5 12 0.07
6 75 0.43
7 55 0.31
8 30 0.17
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (6 bp):
ATAATT
Found at i:4727399 original size:19 final size:19
Alignment explanation
Indices: 4727383--4727612 Score: 130
Period size: 19 Copynumber: 12.2 Consensus size: 19
4727373 AATGTATACT
*
4727383 TATATTATATACTTATAAG
1 TATAATATATACTTATAAG
*
4727402 TATAATGTATAC-T-T-A-
1 TATAATATATACTTATAAG
4727417 TAT-ATATATACTTATAAG
1 TATAATATATACTTATAAG
*
4727435 TATAATGTATACTTATATA-
1 TATAATATATACTTATA-AG
* *
4727454 TATCTATATTATATTTATATAAG
1 TAT-AATA-TATA-CT-TATAAG
4727477 TAATATATATATATACTTATTTAAG
1 ---TATA-ATATATACTTA--TAAG
* * *
4727502 TATAATATACA-TTACAAA
1 TATAATATATACTTATAAG
*
4727520 TATAATGTATACTTAT-A-
1 TATAATATATACTTATAAG
*
4727537 TA-AATATATACTTATAAC
1 TATAATATATACTTATAAG
4727555 TATAATGTATATA-TTATAAG
1 TATAA--TATATACTTATAAG
4727575 TATAATATATA-TT-T-A-
1 TATAATATATACTTATAAG
* *
4727590 TACATTATATACTTATAAG
1 TATAATATATACTTATAAG
4727609 TATA
1 TATA
4727613 CTTGTATTAT
Statistics
Matches: 164, Mismatches: 20, Indels: 54
0.69 0.08 0.23
Matches are distributed among these distances:
14 7 0.04
15 13 0.08
16 17 0.10
17 7 0.04
18 27 0.16
19 33 0.20
20 17 0.10
21 16 0.10
22 6 0.04
23 6 0.04
24 1 0.01
25 8 0.05
26 6 0.04
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (19 bp):
TATAATATATACTTATAAG
Found at i:4727484 original size:65 final size:64
Alignment explanation
Indices: 4727365--4727507 Score: 175
Period size: 65 Copynumber: 2.2 Consensus size: 64
4727355 ATATATATGC
*
4727365 ATAAGTATAATGTATACTTATATTATATACTTATAAGTATAATGTATACTTATATATATATACTT
1 ATAAGTATAATGTATACTTATATTATATACTTATAAGTATAAAGTATAC-TATATATATATACTT
**
4727430 ATAAGTATAATGTATACTTATATATATCTATA-TTATATTTATATAAGTA-A-TATATATATATA
1 ATAAGTATAATGTATACTTATAT-TA--TATACTTATAAGTATA-AAGTATACTATATATATATA
4727492 CTT
62 CTT
4727495 ATTTAAGTATAAT
1 A--TAAGTATAAT
4727508 ATACATTACA
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
65 39 0.57
66 2 0.03
67 20 0.29
68 8 0.12
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (64 bp):
ATAAGTATAATGTATACTTATATTATATACTTATAAGTATAAAGTATACTATATATATATACTT
Found at i:4727538 original size:55 final size:54
Alignment explanation
Indices: 4727479--4727612 Score: 155
Period size: 55 Copynumber: 2.5 Consensus size: 54
4727469 TATATAAGTA
*
4727479 ATATATATATATACTTATTTAAGTATAA-TATACATTACAAATATAATGTATACTT
1 ATATATATATATACTTA--TAAGTATAAGTATACATTACAAATATAATATATACTT
* * * * * *
4727534 ATATAAATATATACTTATAACTATAATGTATATATTATAAGTATAATATATATTT
1 ATATATATATATACTTATAAGTATAA-GTATACATTACAAATATAATATATACTT
*
4727589 ATACAT-TATATACTTATAAGTATA
1 ATATATATATATACTTATAAGTATA
4727613 CTTGTATTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 8 0.12
54 17 0.25
55 42 0.63
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (54 bp):
ATATATATATATACTTATAAGTATAAGTATACATTACAAATATAATATATACTT
Found at i:4727560 original size:35 final size:38
Alignment explanation
Indices: 4727478--4727583 Score: 105
Period size: 35 Copynumber: 2.8 Consensus size: 38
4727468 TTATATAAGT
* *
4727478 AATATATATATATACTTATTTAAGTATAATATACATTACA
1 AATATA-ATGTATACTTATATAAG-ATAATATACATTACA
*
4727518 AATATAATGTATACTTATATAA-AT-ATATAC-TTATA
1 AATATAATGTATACTTATATAAGATAATATACATTACA
*
4727553 ACTATAATGTATA--TATTATAAGTATAATATA
1 AATATAATGTATACTTA-TATAAG-ATAATATA
4727584 TATTTATACA
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
33 2 0.03
34 5 0.09
35 16 0.28
36 8 0.14
37 7 0.12
39 14 0.24
40 6 0.10
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (38 bp):
AATATAATGTATACTTATATAAGATAATATACATTACA
Found at i:4727579 original size:26 final size:26
Alignment explanation
Indices: 4727549--4727598 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
4727539 AATATATACT
*
4727549 TATAACTATA-ATGTATATATTATAAG
1 TATAA-TATATATGTATACATTATAAG
*
4727575 TATAATATATATTTATACATTATA
1 TATAATATATATGTATACATTATA
4727599 TACTTATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (26 bp):
TATAATATATATGTATACATTATAAG
Found at i:4728315 original size:21 final size:21
Alignment explanation
Indices: 4728291--4728340 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
4728281 GCTGACATCG
4728291 ATCCGAACTGAAAATAACCCA
1 ATCCGAACTGAAAATAACCCA
* *
4728312 ATCCGAACTGAAAGTAACCCG
1 ATCCGAACTGAAAATAACCCA
4728333 ATCCGAAC
1 ATCCGAAC
4728341 CCGATCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.30, G:0.14, T:0.14
Consensus pattern (21 bp):
ATCCGAACTGAAAATAACCCA
Found at i:4733137 original size:13 final size:13
Alignment explanation
Indices: 4733121--4733150 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4733111 TGCCAACTCC
*
4733121 ATTAGTCCTTTTG
1 ATTAGTCCCTTTG
4733134 ATTAGTCCCTTTG
1 ATTAGTCCCTTTG
4733147 ATTA
1 ATTA
4733151 AAATATGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (13 bp):
ATTAGTCCCTTTG
Found at i:4734668 original size:12 final size:10
Alignment explanation
Indices: 4734627--4734667 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
4734617 TTTATCACAC
4734627 CAAATTCTCT
1 CAAATTCTCT
4734637 CAAATTCTCT
1 CAAATTCTCT
4734647 -AAATTTCTCT
1 CAAA-TTCTCT
*
4734657 CAAATACTCT
1 CAAATTCTCT
4734667 C
1 C
4734668 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:4734716 original size:13 final size:14
Alignment explanation
Indices: 4734688--4734716 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4734678 ATATTTTATA
4734688 ATATTTTTACTATT
1 ATATTTTTACTATT
4734702 ATATTTTTACT-TT
1 ATATTTTTACTATT
4734715 AT
1 AT
4734717 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:4734931 original size:110 final size:111
Alignment explanation
Indices: 4734791--4735011 Score: 399
Period size: 110 Copynumber: 2.0 Consensus size: 111
4734781 TGGAAATCGT
* *
4734791 ATATCTCTACACTTTGCTGATACTGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
4734856 TATTTAGTT-ATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
4734901 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
4734966 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
4735012 TTTTTGTAAT
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 71 0.67
111 35 0.33
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:4740988 original size:30 final size:29
Alignment explanation
Indices: 4740926--4740988 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
4740916 TACTGTTAAG
* * *
4740926 GGTGTTAGATCGGGAAATATAATCTGACC
1 GGTGTTAGATCAGAAAATATAATCTCACC
4740955 GGTGTTAGATCAGAAAATATACTAT-TCACC
1 GGTGTTAGATCAGAAAATATA--ATCTCACC
4740985 GGTG
1 GGTG
4740989 ATATATTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 19 0.66
30 8 0.28
31 2 0.07
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (29 bp):
GGTGTTAGATCAGAAAATATAATCTCACC
Found at i:4741163 original size:20 final size:20
Alignment explanation
Indices: 4741138--4741183 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
4741128 GCGAATTTGT
4741138 AATTCGTAACACAGAAGTCA
1 AATTCGTAACACAGAAGTCA
*
4741158 AATTCGTAACACAGAAGTTA
1 AATTCGTAACACAGAAGTCA
4741178 AATTCG
1 AATTCG
4741184 CAAAGCGCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (20 bp):
AATTCGTAACACAGAAGTCA
Found at i:4743438 original size:44 final size:43
Alignment explanation
Indices: 4743375--4743462 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 43
4743365 GAATCTGTCA
*
4743375 GGAATTAGAATCCAATTCCATATTCTGTTTGGTTGGCAGGATAT
1 GGAATTAGAATCCAATTCCATATTCTGTTTGGTTCGCA-GATAT
*
4743419 GGAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGATAT
1 GGAATTAGAATCCAATTCCATATTCTGTTTGGTTCGCAGATAT
4743462 G
1 G
4743463 TCAGATGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 6 0.14
44 36 0.86
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (43 bp):
GGAATTAGAATCCAATTCCATATTCTGTTTGGTTCGCAGATAT
Found at i:4744018 original size:43 final size:43
Alignment explanation
Indices: 4743961--4744047 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
4743951 TTCACCCTAA
*
4743961 ACCCGAACTCGACCCGAACATCACACTTAAAAAAACCTGACCCG
1 ACCCGAACTCGACCCGAACATCACACTT-AAAAAACCCGACCCG
*
4744005 ACCCG-ACTCGACCCGAATATCACACTTAAAAAACCCGACCCG
1 ACCCGAACTCGACCCGAACATCACACTTAAAAAACCCGACCCG
4744047 A
1 A
4744048 ACAAAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 15 0.37
43 21 0.51
44 5 0.12
ACGTcount: A:0.38, C:0.39, G:0.11, T:0.11
Consensus pattern (43 bp):
ACCCGAACTCGACCCGAACATCACACTTAAAAAACCCGACCCG
Found at i:4745180 original size:15 final size:15
Alignment explanation
Indices: 4745160--4745192 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4745150 TGAGACATTA
*
4745160 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
4745175 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
4745190 CCC
1 CCC
4745193 ACCCAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.70, G:0.15, T:0.06
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:4749886 original size:31 final size:31
Alignment explanation
Indices: 4749846--4749947 Score: 95
Period size: 31 Copynumber: 3.3 Consensus size: 31
4749836 ATAAAATGAT
4749846 CTTCTGACTATAGAATGTTACTTTGTTATGTC
1 CTTC-GACTATAGAATGTTACTTTGTTATGTC
* ***
4749878 CTTCGACTATTA-AAAGTTA---TAAAATGATC
1 CTTCGACTA-TAGAATGTTACTTTGTTATG-TC
*
4749907 CTCCGACTATAGAATGTTACTTTGTTATGTC
1 CTTCGACTATAGAATGTTACTTTGTTATGTC
*
4749938 CCTCGACTAT
1 CTTCGACTAT
4749948 TAAAAGTTAT
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
28 6 0.11
29 16 0.30
31 21 0.40
32 10 0.19
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (31 bp):
CTTCGACTATAGAATGTTACTTTGTTATGTC
Found at i:4749889 original size:60 final size:60
Alignment explanation
Indices: 4749804--4749963 Score: 257
Period size: 60 Copynumber: 2.7 Consensus size: 60
4749794 TATAGGGTAC
* * * * * *
4749804 TACTTTATTAAGTCCCTGGATTATTAAAAGTTATAAAATGATCTTCTGACTATAGAATGT
1 TACTTTGTTATGTCCCTCGACTATTAAAAGTTATAAAATGATCCTCCGACTATAGAATGT
*
4749864 TACTTTGTTATGTCCTTCGACTATTAAAAGTTATAAAATGATCCTCCGACTATAGAATGT
1 TACTTTGTTATGTCCCTCGACTATTAAAAGTTATAAAATGATCCTCCGACTATAGAATGT
4749924 TACTTTGTTATGTCCCTCGACTATTAAAAGTTATAAAATG
1 TACTTTGTTATGTCCCTCGACTATTAAAAGTTATAAAATG
4749964 GTGACTTTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 92 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (60 bp):
TACTTTGTTATGTCCCTCGACTATTAAAAGTTATAAAATGATCCTCCGACTATAGAATGT
Found at i:4749925 original size:29 final size:29
Alignment explanation
Indices: 4749833--4749925 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 29
4749823 ATTATTAAAA
* *
4749833 GTTATAAAATGATCTTCTGACTATAGAAT
1 GTTATAAAATGATCCTCCGACTATAGAAT
*** * *
4749862 GTTACTTTGTTATG-TCCTTCGACTATTA-AAA
1 GTTA---TAAAATGATCCTCCGACTA-TAGAAT
4749893 GTTATAAAATGATCCTCCGACTATAGAAT
1 GTTATAAAATGATCCTCCGACTATAGAAT
4749922 GTTA
1 GTTA
4749926 CTTTGTTATG
Statistics
Matches: 46, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
28 6 0.13
29 20 0.43
31 14 0.30
32 6 0.13
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (29 bp):
GTTATAAAATGATCCTCCGACTATAGAAT
Found at i:4751986 original size:16 final size:17
Alignment explanation
Indices: 4751965--4752001 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
4751955 TAAGAAATTA
4751965 AAATAATTATTTTGT-T
1 AAATAATTATTTTGTAT
*
4751981 AAATAATTTTTTTGTAT
1 AAATAATTATTTTGTAT
4751998 AAAT
1 AAAT
4752002 GAAGCATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
AAATAATTATTTTGTAT
Found at i:4753250 original size:2 final size:2
Alignment explanation
Indices: 4753243--4753282 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4753233 AATTTGATTT
4753243 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4753283 ATCAAATGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4756213 original size:3 final size:3
Alignment explanation
Indices: 4756192--4756260 Score: 66
Period size: 3 Copynumber: 22.0 Consensus size: 3
4756182 TTTTGTCCGG
* * * *
4756192 TTA TTA ATA TTA ATA TTA TTA TTG TTA TTA TTA ATA TGTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
4756238 TTA TTAA TTA TTAA TTT TTA TTA
1 TTA TT-A TTA TT-A TTA TTA TTA
4756261 CAAATTTTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
3 44 0.83
4 9 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4756260 original size:13 final size:13
Alignment explanation
Indices: 4756205--4756270 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
4756195 TTAATATTAA
*
4756205 TATTATT-ATTGT
1 TATTATTAATTTT
* *
4756217 TATTATTAATATG
1 TATTATTAATTTT
4756230 TATTATT-ATTATT
1 TATTATTAATT-TT
*
4756243 AATTATTAATTTT
1 TATTATTAATTTT
**
4756256 TATTACAAATTTT
1 TATTATTAATTTT
4756269 TA
1 TA
4756271 CAGGCCTAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
12 9 0.21
13 30 0.71
14 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (13 bp):
TATTATTAATTTT
Found at i:4758050 original size:19 final size:20
Alignment explanation
Indices: 4758018--4758055 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
4758008 AATAACATAC
*
4758018 TTTTTTTATTTAT-ATATTG
1 TTTTTTTATCTATAATATTG
*
4758037 TTTTTTTGTCTATAATATT
1 TTTTTTTATCTATAATATT
4758056 TATACGGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTTTTATCTATAATATTG
Found at i:4766955 original size:22 final size:22
Alignment explanation
Indices: 4766930--4766995 Score: 132
Period size: 22 Copynumber: 3.0 Consensus size: 22
4766920 TATCAATTTA
4766930 GCCCTCGAAGTTGCTCAATTGC
1 GCCCTCGAAGTTGCTCAATTGC
4766952 GCCCTCGAAGTTGCTCAATTGC
1 GCCCTCGAAGTTGCTCAATTGC
4766974 GCCCTCGAAGTTGCTCAATTGC
1 GCCCTCGAAGTTGCTCAATTGC
4766996 ATCATTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.27
Consensus pattern (22 bp):
GCCCTCGAAGTTGCTCAATTGC
Found at i:4767334 original size:7 final size:7
Alignment explanation
Indices: 4767322--4767347 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4767312 AAGCTGCTAA
4767322 AAAATTG
1 AAAATTG
4767329 AAAATTG
1 AAAATTG
4767336 AAAATTG
1 AAAATTG
4767343 AAAAT
1 AAAAT
4767348 CGATTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATTG
Found at i:4769119 original size:23 final size:22
Alignment explanation
Indices: 4769093--4769137 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
4769083 ACCATTAATA
4769093 ATTTTTATGACATT-ATTTTTTTT
1 ATTTTTAT-A-ATTAATTTTTTTT
4769116 ATTTTTATAATTAATTTTTTTT
1 ATTTTTATAATTAATTTTTTTT
4769138 TTAAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.14
22 10 0.48
23 8 0.38
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
ATTTTTATAATTAATTTTTTTT
Found at i:4769133 original size:18 final size:18
Alignment explanation
Indices: 4769112--4769147 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4769102 ACATTATTTT
*
4769112 TTTTATTTTTATAATTAA
1 TTTTATTTTTAAAATTAA
*
4769130 TTTTTTTTTTAAAATTAA
1 TTTTATTTTTAAAATTAA
4769148 AGTGATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTTTTAAAATTAA
Found at i:4769133 original size:21 final size:23
Alignment explanation
Indices: 4769093--4769136 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
4769083 ACCATTAATA
*
4769093 ATTTTTATGACATTATTTTTTTT
1 ATTTTTATGACATTAATTTTTTT
4769116 ATTTTTAT-A-ATTAATTTTTTT
1 ATTTTTATGACATTAATTTTTTT
4769137 TTTAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 1 0.05
23 8 0.40
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
ATTTTTATGACATTAATTTTTTT
Found at i:4771390 original size:23 final size:23
Alignment explanation
Indices: 4771360--4771405 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4771350 TACTGTAGAT
4771360 CATTTTTCCCTTTAGTGTTTGAA
1 CATTTTTCCCTTTAGTGTTTGAA
4771383 CATTTTTCCCTTTAGTGTTTGAA
1 CATTTTTCCCTTTAGTGTTTGAA
4771406 TCCTTGACTT
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:0.17, C:0.17, G:0.13, T:0.52
Consensus pattern (23 bp):
CATTTTTCCCTTTAGTGTTTGAA
Found at i:4786074 original size:33 final size:33
Alignment explanation
Indices: 4786035--4786097 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
4786025 AAATTATACA
4786035 TTTAGTATCTAAACTATCAGTTTTT-TTTTCCAT
1 TTTAGTATCTAAACTATCA-TTTTTATTTTCCAT
*
4786068 TTTAGTATCTAAACTTTCATTTTTATTTTC
1 TTTAGTATCTAAACTATCATTTTTATTTTC
4786098 AAAATCATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (33 bp):
TTTAGTATCTAAACTATCATTTTTATTTTCCAT
Found at i:4788176 original size:3 final size:3
Alignment explanation
Indices: 4788170--4788194 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4788160 TTTTTTAATG
4788170 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
4788195 ATTTGTCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4790874 original size:10 final size:10
Alignment explanation
Indices: 4790859--4790917 Score: 73
Period size: 10 Copynumber: 5.9 Consensus size: 10
4790849 ATAAAGCAAT
*
4790859 TACATATACA
1 TACATATATA
*
4790869 TACATATACA
1 TACATATATA
4790879 TACATATATA
1 TACATATATA
*
4790889 TATATATATA
1 TACATATATA
*
4790899 TATATATATA
1 TACATATATA
*
4790909 TATATATAT
1 TACATATAT
4790918 TTTTTACTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 47 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (10 bp):
TACATATATA
Found at i:4790889 original size:4 final size:4
Alignment explanation
Indices: 4790862--4790917 Score: 76
Period size: 4 Copynumber: 14.0 Consensus size: 4
4790852 AAGCAATTAC
* * * *
4790862 ATAT ACAT ACAT ATAC ATAC ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
4790910 ATAT ATAT
1 ATAT ATAT
4790918 TTTTTACTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:4790917 original size:6 final size:6
Alignment explanation
Indices: 4790862--4790917 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
4790852 AAGCAATTAC
* * * *
4790862 ATATAC ATACAT ATACAT ACATAT ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
4790910 ATATAT AT
1 ATATAT AT
4790918 TTTTTACTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:4791866 original size:60 final size:60
Alignment explanation
Indices: 4791791--4791905 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
4791781 AACATAATGA
* *
4791791 ATAGTCGAGTGACTATTTTATAA-CTTTTAATAGTCGAAGAGACTCAACAAAATAACTCTT
1 ATAGTCGAATGACTATTTTATAATCTTTTAATAATC-AAGAGACTCAACAAAATAACTCTT
* * * *
4791851 ATAGTTGAATGACTATTTTATAATTTTTTAATAATCAAGAGACTTAATAAAATAA
1 ATAGTCGAATGACTATTTTATAATCTTTTAATAATCAAGAGACTCAACAAAATAA
4791906 TATATTATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 38 0.79
61 10 0.21
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (60 bp):
ATAGTCGAATGACTATTTTATAATCTTTTAATAATCAAGAGACTCAACAAAATAACTCTT
Found at i:4796834 original size:60 final size:60
Alignment explanation
Indices: 4796770--4796885 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
4796760 GAGTTTCTTG
* ** *
4796770 ACTATCAAAAGTTACAAAATAGTCCCCTAACTATTGGGTGTTGCTTTGTTAAGTCCTTCA
1 ACTATCAAAAGTTACAAAATAGTCCCCTAACTATAGAATGTTGCTTTATTAAGTCCTTCA
* *
4796830 ACTATCAAAAGTTAGAAAATGGTCCCCTAACTATAGAATGTTGCTTTATTAAGTCC
1 ACTATCAAAAGTTACAAAATAGTCCCCTAACTATAGAATGTTGCTTTATTAAGTCC
4796886 CACGACTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (60 bp):
ACTATCAAAAGTTACAAAATAGTCCCCTAACTATAGAATGTTGCTTTATTAAGTCCTTCA
Found at i:4802321 original size:47 final size:45
Alignment explanation
Indices: 4802253--4802361 Score: 139
Period size: 47 Copynumber: 2.4 Consensus size: 45
4802243 ATAAAATCTT
*
4802253 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAAAATAC
* * *
4802298 TTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATCAATATAC
1 TTACCATTT--ATCCCATAAGCTCATAAGCTTATTTTACCAAAATAC
* *
4802345 TTGCCA-TTATTCCATAA
1 TTACCATTTATCCCATAA
4802362 CCATATACCA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 9 0.16
45 9 0.16
46 2 0.04
47 37 0.65
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.39
Consensus pattern (45 bp):
TTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAAAATAC
Found at i:4802383 original size:20 final size:20
Alignment explanation
Indices: 4802358--4802400 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4802348 CCATTATTCC
* *
4802358 ATAACCATATACCATAGAAA
1 ATAACCATAAACAATAGAAA
*
4802378 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGAAA
4802398 ATA
1 ATA
4802401 GCCCAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGAAA
Found at i:4802554 original size:59 final size:59
Alignment explanation
Indices: 4802462--4802590 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
4802452 CGTAGTGCTA
* * * **
4802462 TCCCGAGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
4802521 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
4802580 TCCCGAATATG
1 TCCCGAATATG
4802591 CAGCCTGCTG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:4805067 original size:29 final size:28
Alignment explanation
Indices: 4805016--4805085 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
4805006 AATCTAAATT
* * * *
4805016 AAAAATATTTTAATTACTTATTTGGTTA
1 AAAAATAATTTAAATACTTATTTGATCA
*
4805044 AAAAATAATTTAAATATTTAATTTGATCA
1 AAAAATAATTTAAATACTT-ATTTGATCA
*
4805073 AAAGAT-ATTTAAA
1 AAAAATAATTTAAA
4805086 ATGTTAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 23 0.66
29 12 0.34
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (28 bp):
AAAAATAATTTAAATACTTATTTGATCA
Found at i:4811159 original size:2 final size:2
Alignment explanation
Indices: 4811152--4811176 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4811142 AAATGAAAAT
4811152 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4811177 TCATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4812228 original size:13 final size:13
Alignment explanation
Indices: 4812210--4812247 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4812200 TATCGAATCG
4812210 ATAGAAAAAATAT
1 ATAGAAAAAATAT
4812223 ATAG-AAAAATGAT
1 ATAGAAAAAAT-AT
*
4812236 AGAGAAAAAATA
1 ATAGAAAAAATA
4812248 ACTTTCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 6 0.27
13 10 0.45
14 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (13 bp):
ATAGAAAAAATAT
Found at i:4813961 original size:15 final size:15
Alignment explanation
Indices: 4813941--4813970 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4813931 TCCTCCAATC
4813941 ACATAAAAAAATACA
1 ACATAAAAAAATACA
*
4813956 ACATAAATAAATACA
1 ACATAAAAAAATACA
4813971 TAAATGTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (15 bp):
ACATAAAAAAATACA
Found at i:4815509 original size:29 final size:29
Alignment explanation
Indices: 4815453--4815509 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4815443 TCATCCATTG
**
4815453 AAATTTTATAAATTCAAATTTATTCTCTA
1 AAATTTTATAAATTCAAATTTAAACTCTA
*
4815482 AAATTTTA-AAAGTTTAAATTTAAACTCT
1 AAATTTTATAAA-TTCAAATTTAAACTCT
4815510 TAATATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.46
Consensus pattern (29 bp):
AAATTTTATAAATTCAAATTTAAACTCTA
Found at i:4817867 original size:3 final size:3
Alignment explanation
Indices: 4817859--4817888 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
4817849 AAATAAAACA
4817859 AAT AAT AAT AAT AAT AA- AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4817889 TATTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4817879 original size:14 final size:14
Alignment explanation
Indices: 4817831--4817888 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
4817821 CCGAAAATGA
4817831 AATAAAATTAATAA-
1 AATAAAA-TAATAAT
* *
4817845 GATAAAATAA-AAC
1 AATAAAATAATAAT
*
4817858 AA-ATAATAATAAT
1 AATAAAATAATAAT
4817871 AATAAAATAATAAT
1 AATAAAATAATAAT
4817885 AATA
1 AATA
4817889 TATTATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
12 8 0.22
13 8 0.22
14 20 0.56
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:4818030 original size:65 final size:68
Alignment explanation
Indices: 4817886--4818031 Score: 205
Period size: 65 Copynumber: 2.2 Consensus size: 68
4817876 AATAATAATA
4817886 ATATATTATATA-TAAAAAAATTTCCAAAAACTATATAATATATATATTTTCAAAAATATTTTAA
1 ATATATTATATATTAAAAAAA-TTCCAAAAACTATATAATATATATATTTTCAAAAATATTTTAA
4817950 AACT
65 AACT
* *
4817954 ATATATTATATATTTAAAAAAA-T-C-AAAACTATAT-AT-TATATAGTTTTTAAAAATGTTTTA
1 ATATATTATATA-TTAAAAAAATTCCAAAAACTATATAATATATATA-TTTTCAAAAATATTTTA
4818014 AAACT
64 AAACT
4818019 ATATATTATATAT
1 ATATATTATATAT
4818032 GTTTTCAAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
64 7 0.10
65 34 0.47
66 10 0.14
67 1 0.01
68 13 0.18
70 8 0.11
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (68 bp):
ATATATTATATATTAAAAAAATTCCAAAAACTATATAATATATATATTTTCAAAAATATTTTAAA
ACT
Found at i:4818068 original size:20 final size:20
Alignment explanation
Indices: 4818043--4818082 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4818033 TTTTCAAAAA
*
4818043 ATGTTTTTAAAACTATATAT
1 ATGTTTTCAAAACTATATAT
4818063 ATGTTTTCAAAACTATATAT
1 ATGTTTTCAAAACTATATAT
4818083 TATATAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (20 bp):
ATGTTTTCAAAACTATATAT
Found at i:4818087 original size:93 final size:94
Alignment explanation
Indices: 4817976--4818152 Score: 270
Period size: 93 Copynumber: 1.9 Consensus size: 94
4817966 TTTAAAAAAA
* * *
4817976 TCAAAACTATATATTATAT-AGTTTTTAAAAATG-TTTTAAAACTATATATTATATATGTTTTCA
1 TCAAAACTATATATTATATAAGTTTTTAAAAATGATTTCAAAACTACATATTATATAAGTTTTC-
*
4818039 AAAAATGTTTT-TAAAACTATATATATGTTT
65 -AAAATGTTTTAAAAAACTATATATATGTTT
*
4818069 TCAAAACTATATATTATATAAGTTTTTCAAAATGATTTCAAAACTACATATTATATAAGTTTTCA
1 TCAAAACTATATATTATATAAGTTTTTAAAAATGATTTCAAAACTACATATTATATAAGTTTTCA
4818134 AAATGTTTTAAAAAACTAT
66 AAATGTTTTAAAAAACTAT
4818153 GTATTATATA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
93 29 0.38
94 21 0.28
95 26 0.34
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (94 bp):
TCAAAACTATATATTATATAAGTTTTTAAAAATGATTTCAAAACTACATATTATATAAGTTTTCA
AAATGTTTTAAAAAACTATATATATGTTT
Found at i:4818112 original size:57 final size:56
Alignment explanation
Indices: 4818006--4818119 Score: 158
Period size: 57 Copynumber: 2.0 Consensus size: 56
4817996 GTTTTTAAAA
* * * *
4818006 ATGTTTTAAAACTATATATTATATATGTTTTCAAAAAATGTTTTTAAAACTATATAT
1 ATGTTTTAAAACTATATATTATATAAGTTTTC-AAAAATGATTTCAAAACTACATAT
4818063 ATGTTTTCAAAACTATATATTATATAAGTTTTTC-AAAATGATTTCAAAACTACATAT
1 ATGTTTT-AAAACTATATATTATATAAG-TTTTCAAAAATGATTTCAAAACTACATAT
4818120 TATATAAGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 27 0.53
58 19 0.37
59 5 0.10
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (56 bp):
ATGTTTTAAAACTATATATTATATAAGTTTTCAAAAATGATTTCAAAACTACATAT
Found at i:4818120 original size:37 final size:37
Alignment explanation
Indices: 4818063--4818224 Score: 172
Period size: 37 Copynumber: 4.3 Consensus size: 37
4818053 AACTATATAT
4818063 ATGTTTTCAAAACTATATATTATATAAGTTTTTCAAA
1 ATGTTTTCAAAACTATATATTATATAAGTTTTTCAAA
* *
4818100 ATGATTTCAAAACTACATATTATATAAG-TTTTCAAA
1 ATGTTTTCAAAACTATATATTATATAAGTTTTTCAAA
* * *
4818136 ATGTTTTAAAAAACTATGTATTATAT-A-TATTTTCAGA
1 ATGTTTT-CAAAACTATATATTATATAAGT-TTTTCAAA
*
4818173 ATGTTTTCAAAAACTATATAATATATACA--TTTTCAAAA
1 ATGTTTTC-AAAACTATATATTATATA-AGTTTTTC-AAA
4818211 ATCGTTTTCTAAAA
1 AT-GTTTTC-AAAA
4818225 AAATATTTTT
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
36 15 0.14
37 75 0.71
38 4 0.04
39 11 0.10
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (37 bp):
ATGTTTTCAAAACTATATATTATATAAGTTTTTCAAA
Found at i:4821197 original size:19 final size:19
Alignment explanation
Indices: 4821169--4821207 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4821159 TAGATGATTA
*
4821169 TAAATCATGAAAAATCTAT
1 TAAATAATGAAAAATCTAT
4821188 TAAATAATGAAAAATCTAT
1 TAAATAATGAAAAATCTAT
4821207 T
1 T
4821208 GAGACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAATAATGAAAAATCTAT
Found at i:4822316 original size:15 final size:16
Alignment explanation
Indices: 4822296--4822329 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4822286 GTTCAATTAG
4822296 AAAAATAGAA-AAATA
1 AAAAATAGAATAAATA
*
4822311 AAAAATATAATAAATA
1 AAAAATAGAATAAATA
4822327 AAA
1 AAA
4822330 TAGGAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAATAGAATAAATA
Found at i:4823455 original size:2 final size:2
Alignment explanation
Indices: 4823448--4823504 Score: 98
Period size: 2 Copynumber: 28.5 Consensus size: 2
4823438 GCTCCATGAT
4823448 TA TA TA TA TA TA TA TA TA TGA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
4823490 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
4823505 TAAATGATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 50 0.94
3 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4833692 original size:23 final size:23
Alignment explanation
Indices: 4833662--4833722 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
4833652 CTTGTATAAA
4833662 TGCACCGAAGTGCCACGTAGAAC
1 TGCACCGAAGTGCCACGTAGAAC
*
4833685 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAC
4833708 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
4833723 TATAAAATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAC
Found at i:4834575 original size:29 final size:29
Alignment explanation
Indices: 4834542--4834635 Score: 188
Period size: 29 Copynumber: 3.2 Consensus size: 29
4834532 CTTATAATCA
4834542 AGACTTAATGAGCTATTGCTATAGGAAAT
1 AGACTTAATGAGCTATTGCTATAGGAAAT
4834571 AGACTTAATGAGCTATTGCTATAGGAAAT
1 AGACTTAATGAGCTATTGCTATAGGAAAT
4834600 AGACTTAATGAGCTATTGCTATAGGAAAT
1 AGACTTAATGAGCTATTGCTATAGGAAAT
4834629 AGACTTA
1 AGACTTA
4834636 TCACAAGTCC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (29 bp):
AGACTTAATGAGCTATTGCTATAGGAAAT
Found at i:4834932 original size:24 final size:20
Alignment explanation
Indices: 4834879--4834936 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
4834869 TTCCCCTTGA
*
4834879 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
4834899 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
4834922 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
4834937 CTACCCATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:4837030 original size:59 final size:60
Alignment explanation
Indices: 4836967--4837080 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
4836957 AAATGGTCTC
* * * *
4836967 TCGACTATAGGGTACT-ATTTATTAAGTCTCTCGATTATTAAAAGTTATAAAATGTTCCT
1 TCGACTATAGAGTACTGATTTATTAAGTCCCTCGACTATTAAAAGTTACAAAATGTTCCT
** * *
4837026 TCGACTATAGAGTGTTGATTTGTTGAGTCCCTCGACTATTAAAAGTTACAAAATG
1 TCGACTATAGAGTACTGATTTATTAAGTCCCTCGACTATTAAAAGTTACAAAATG
4837081 GTCACCCAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
59 13 0.28
60 33 0.72
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (60 bp):
TCGACTATAGAGTACTGATTTATTAAGTCCCTCGACTATTAAAAGTTACAAAATGTTCCT
Found at i:4843038 original size:3 final size:3
Alignment explanation
Indices: 4843030--4843062 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4843020 GAATTGGGTT
*
4843030 TTG TTG TTG TTG TTT TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
4843063 GTCTACAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (3 bp):
TTG
Found at i:4852659 original size:21 final size:21
Alignment explanation
Indices: 4852620--4852659 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4852610 CCCCCTTTGA
*
4852620 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
* *
4852641 AGGGGAATCGATACGCCCC
1 AGGGGAACCGATACCCCCC
4852660 TGGGGTTCTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.28, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:4854923 original size:16 final size:16
Alignment explanation
Indices: 4854902--4854934 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4854892 GTGTGTGTTT
4854902 TAAGTGTGTTTTAAAA
1 TAAGTGTGTTTTAAAA
4854918 TAAGTGTGTTTTAAAA
1 TAAGTGTGTTTTAAAA
4854934 T
1 T
4854935 GATAAATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
TAAGTGTGTTTTAAAA
Found at i:4856711 original size:54 final size:54
Alignment explanation
Indices: 4856628--4856748 Score: 179
Period size: 54 Copynumber: 2.2 Consensus size: 54
4856618 ACCTCAAAGG
4856628 GGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCGGAGCCAAAATTAACACAA
1 GGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCGGAGCCAAAATTAACACAA
* * * * * *
4856682 GGGTATCGGTACCCGTTGGGCATTTTGTTTTTCTCGGAGTCAAAATTGACATAG
1 GGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCGGAGCCAAAATTAACACAA
*
4856736 GGGTATCGATACC
1 GGGTATCGGTACC
4856749 TCCCTATTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (54 bp):
GGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCGGAGCCAAAATTAACACAA
Found at i:4858346 original size:31 final size:31
Alignment explanation
Indices: 4858306--4858380 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
4858296 TCACCCTTGT
*
4858306 ACTTTAGATAAAATATTGATTTAATCCTTAA
1 ACTTTAGATAAAATATTGATTTAACCCTTAA
* *
4858337 ATTTTAGATAAAATATTGTTTTAACCCTTAA
1 ACTTTAGATAAAATATTGATTTAACCCTTAA
*
4858368 ACTTTAGAAAAAA
1 ACTTTAGATAAAA
4858381 CCAATTTGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (31 bp):
ACTTTAGATAAAATATTGATTTAACCCTTAA
Found at i:4859324 original size:12 final size:12
Alignment explanation
Indices: 4859307--4859350 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
4859297 TTTTAATATT
*
4859307 TATCGGGTCGGG
1 TATCGGGCCGGG
*
4859319 TATCGGGCCGTG
1 TATCGGGCCGGG
4859331 TATCGGGCCGGG
1 TATCGGGCCGGG
4859343 TAATCGGG
1 T-ATCGGG
4859351 TAATCGGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 22 0.79
13 6 0.21
ACGTcount: A:0.11, C:0.20, G:0.45, T:0.23
Consensus pattern (12 bp):
TATCGGGCCGGG
Found at i:4860049 original size:30 final size:31
Alignment explanation
Indices: 4860014--4860073 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
4860004 CGGGTCAATG
*
4860014 TCGGATCGGTTG-GTTTCGGGTCGGATCAAA
1 TCGGATCAGTTGAGTTTCGGGTCGGATCAAA
* *
4860044 TCGGATCAGTTGATTTTTGGGTCGGATCAA
1 TCGGATCAGTTGAGTTTCGGGTCGGATCAA
4860074 CGTCAGATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.18, C:0.15, G:0.33, T:0.33
Consensus pattern (31 bp):
TCGGATCAGTTGAGTTTCGGGTCGGATCAAA
Done.