Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 91
Found at i:6825389 original size:40 final size:43
Alignment explanation
Indices: 6825330--6825438 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 43
6825320 TACTAAAGAT
6825330 GACCAGAACTCTT-TATCACGTATGAGTCGAGTCA-TC-CAG-C
1 GACCAGAACTCTTCT-TCACGTATGAGTCGAGTCACTCGCAGAC
* * * * *
6825370 GACCAGATCTCTTCTTCACGTAGGAGTCGTGTCACTCGTAGAT
1 GACCAGAACTCTTCTTCACGTATGAGTCGAGTCACTCGCAGAC
* *
6825413 GACCAGACCTCTTCTTCACATATGAG
1 GACCAGAACTCTTCTTCACGTATGAG
6825439 CAGTGTCGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
40 29 0.51
41 3 0.05
42 2 0.04
43 23 0.40
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
GACCAGAACTCTTCTTCACGTATGAGTCGAGTCACTCGCAGAC
Found at i:6825604 original size:3 final size:3
Alignment explanation
Indices: 6825598--6825652 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
6825588 AAAAAAAAAC
* * *
6825598 ATT ATT ATT ATA ATA ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6825646 GATT ATT
1 -ATT ATT
6825653 TTAATTACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:6827626 original size:2 final size:2
Alignment explanation
Indices: 6827619--6827663 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6827609 TTTTGAACAT
6827619 TA 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 TA
6827661 TA T
1 TA T
6827664 TATCCTTTCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6827929 original size:68 final size:68
Alignment explanation
Indices: 6827829--6828011 Score: 294
Period size: 68 Copynumber: 2.7 Consensus size: 68
6827819 TAACTGTTCT
* * * * *
6827829 TCTAACTAGCATAATTGACATCTTTCTTTCATATGCACAGTTAGGCCTCTAAGACACTTAGTCTT
1 TCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAGTCTT
6827894 TCA
66 TCA
* *
6827897 TCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAATTAGGCTTCAAAGACACTTAGTCTT
1 TCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAGTCTT
6827962 TCA
66 TCA
*
6827965 TCTAACTGGCATAAATGACACCTTTTTGTCATATGCACAGTTAGGCC
1 TCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCC
6828012 ATTATTCTTT
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 105 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (68 bp):
TCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAGTCTT
TCA
Found at i:6828115 original size:80 final size:81
Alignment explanation
Indices: 6827961--6828172 Score: 336
Period size: 80 Copynumber: 2.6 Consensus size: 81
6827951 CACTTAGTCT
* * *
6827961 TTCATCTAACTGGCATAAATGACACCTTTTTGTCATATGCACAGTTAGGCCATTATTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTATCATATGCACAGTTAGGCCATTATTCTTTTACT
** *
6828026 CAATGGTACTTAACCG
66 CAACAGTACTTAACCA
* *
6828042 TTCATCTAACTGGCATAATTGACACCTTTCTACCA-ATGCATAGTTAGGCCATTATTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTATCATATGCACAGTTAGGCCATTATTCTTTTACT
6828106 CAACAGTACTTAACCA
66 CAACAGTACTTAACCA
*
6828122 TTCATCTAACTGGCATAATTGACATCTTTCTATCATATGCACAGTTAGGCC
1 TTCATCTAACTGGCATAATTGACACCTTTCTATCATATGCACAGTTAGGCC
6828173 TCAAAGACAC
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 74 0.62
81 45 0.38
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTATCATATGCACAGTTAGGCCATTATTCTTTTACT
CAACAGTACTTAACCA
Found at i:6828213 original size:68 final size:68
Alignment explanation
Indices: 6828122--6828258 Score: 220
Period size: 68 Copynumber: 2.0 Consensus size: 68
6828112 TACTTAACCA
* * *
6828122 TTCATCTAACTGGCATAATTGACATCTTTCTATCATATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTATCATAAGCACAGTTAGGCCTCAAAGACACTTAG
6828187 TCT
66 TCT
* * *
6828190 TTCATCTAACTGGCATAAATGACACCTTTTTGTCATAAGCACAGTTAGTCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTATCATAAGCACAGTTAGGCCTCAAAGACACTTAG
6828255 TCT
66 TCT
6828258 T
1 T
6828259 GCTTGTTTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTATCATAAGCACAGTTAGGCCTCAAAGACACTTAG
TCT
Found at i:6828563 original size:22 final size:20
Alignment explanation
Indices: 6828518--6828570 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
6828508 GATGTTGCCT
*
6828518 GGTATCGATACTCTTACCAT
1 GGTATCGATACTCTTACCAA
*
6828538 GGTATCGATACTATCTTACTAA
1 GGTATCGATAC--TCTTACCAA
*
6828560 GGTACCGATAC
1 GGTATCGATAC
6828571 CCCCCACCGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (20 bp):
GGTATCGATACTCTTACCAA
Found at i:6840605 original size:27 final size:27
Alignment explanation
Indices: 6840567--6840622 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
6840557 TTACACAATC
6840567 TTCTATTTTAATTCTAAATCTTAAATT
1 TTCTATTTTAATTCTAAATCTTAAATT
6840594 TTCTATTTTAATTCTAAATCTTAAATT
1 TTCTATTTTAATTCTAAATCTTAAATT
6840621 TT
1 TT
6840623 AAAACCCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (27 bp):
TTCTATTTTAATTCTAAATCTTAAATT
Found at i:6847783 original size:14 final size:13
Alignment explanation
Indices: 6847754--6847780 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6847744 AAATTTTAAG
6847754 ATTTTCTTTGAAA
1 ATTTTCTTTGAAA
6847767 ATTTTCTTTGAAA
1 ATTTTCTTTGAAA
6847780 A
1 A
6847781 ATTACTCCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (13 bp):
ATTTTCTTTGAAA
Found at i:6851380 original size:20 final size:20
Alignment explanation
Indices: 6851355--6851453 Score: 162
Period size: 20 Copynumber: 5.0 Consensus size: 20
6851345 CCGTTAGACA
* *
6851355 GGGGGAATCGGTACCCCCTT
1 GGGGGAATCTGTACCCCCTG
*
6851375 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
6851395 GTGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
6851415 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
6851435 GGGGGAATCTGTACCCCCT
1 GGGGGAATCTGTACCCCCT
6851454 AGACAATATG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.14, C:0.30, G:0.33, T:0.22
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:6852917 original size:19 final size:20
Alignment explanation
Indices: 6852874--6852921 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
6852864 TCTAAATCCT
*
6852874 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
6852894 ATTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
6852913 TTTTCAAAA
1 TTTTCAAAA
6852922 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:6854289 original size:21 final size:21
Alignment explanation
Indices: 6854197--6854296 Score: 139
Period size: 21 Copynumber: 4.8 Consensus size: 21
6854187 CCGTTAGACA
6854197 GGGGGAATCAGTACCCCC-GG
1 GGGGGAATCAGTACCCCCTGG
*
6854217 GGGGGAATCAGAACCCCCTGG
1 GGGGGAATCAGTACCCCCTGG
**
6854238 GGGGGAATCAAAACCCCCTGG
1 GGGGGAATCAGTACCCCCTGG
* *
6854259 GGGGGAATCTGTTCCCCCTGG
1 GGGGGAATCAGTACCCCCTGG
*
6854280 GGGGGAATCTGTACCCC
1 GGGGGAATCAGTACCCC
6854297 TTGGACAATC
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
20 17 0.24
21 55 0.76
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.14
Consensus pattern (21 bp):
GGGGGAATCAGTACCCCCTGG
Found at i:6858183 original size:15 final size:15
Alignment explanation
Indices: 6858165--6858195 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6858155 TTCCATTTCC
6858165 TTCTTTTCTTCATCT
1 TTCTTTTCTTCATCT
*
6858180 TTCTTTTCTTGATCT
1 TTCTTTTCTTCATCT
6858195 T
1 T
6858196 CATCTTCTTT
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:0.06, C:0.23, G:0.03, T:0.68
Consensus pattern (15 bp):
TTCTTTTCTTCATCT
Found at i:6860659 original size:31 final size:30
Alignment explanation
Indices: 6860595--6860668 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
6860585 CTAAGTGATC
**
6860595 ACCAAAACTTAATAAAACGATAATGTAAATG
1 ACCAAAACTT-ATAAAACGATAACATAAATG
* * *
6860626 ACCAGAAATTTATAAAATGATAACATAAGTG
1 ACCA-AAACTTATAAAACGATAACATAAATG
6860657 ACCAAAACTTAT
1 ACCAAAACTTAT
6860669 GTTTTTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 7 0.19
31 24 0.67
32 5 0.14
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.24
Consensus pattern (30 bp):
ACCAAAACTTATAAAACGATAACATAAATG
Found at i:6861899 original size:36 final size:37
Alignment explanation
Indices: 6861859--6861931 Score: 139
Period size: 36 Copynumber: 2.0 Consensus size: 37
6861849 GTAACGGTTA
6861859 AGATTCGAACTTCTAATCTTA-TTTAAAGGATCTAAT
1 AGATTCGAACTTCTAATCTTATTTTAAAGGATCTAAT
6861895 AGATTCGAACTTCTAATCTTATTTTAAAGGATCTAAT
1 AGATTCGAACTTCTAATCTTATTTTAAAGGATCTAAT
6861932 GCTTCATCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 21 0.58
37 15 0.42
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (37 bp):
AGATTCGAACTTCTAATCTTATTTTAAAGGATCTAAT
Found at i:6862171 original size:17 final size:19
Alignment explanation
Indices: 6862131--6862171 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
6862121 TATCAACCAA
*
6862131 AATATAAGAAATTAATATT
1 AATATAAGAAATTAAAATT
*
6862150 TATATAA-AAA-TAAAATT
1 AATATAAGAAATTAAAATT
6862167 AATAT
1 AATAT
6862172 TTTTATCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 10 0.53
18 3 0.16
19 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AATATAAGAAATTAAAATT
Found at i:6862913 original size:12 final size:12
Alignment explanation
Indices: 6862896--6862920 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6862886 TTCGATGAAA
6862896 AAATAATATTTT
1 AAATAATATTTT
6862908 AAATAATATTTT
1 AAATAATATTTT
6862920 A
1 A
6862921 TTAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:6863614 original size:15 final size:15
Alignment explanation
Indices: 6863589--6863658 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 15
6863579 ACCACTGATA
6863589 TTTATTATTTTTTTAT
1 TTTATT-TTTTTTTAT
* *
6863605 TTTATTTTTTTATGT
1 TTTATTTTTTTTTAT
* *
6863620 TGTATCTTTATTTT-T
1 TTTAT-TTTTTTTTAT
** *
6863635 TTTATTTTTAATAAT
1 TTTATTTTTTTTTAT
6863650 TTTATTTTT
1 TTTATTTTT
6863659 ATGATACATT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
14 4 0.10
15 26 0.62
16 12 0.29
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTATTTTTTTTTAT
Found at i:6866978 original size:44 final size:44
Alignment explanation
Indices: 6866929--6867413 Score: 718
Period size: 44 Copynumber: 11.0 Consensus size: 44
6866919 TGTTATCAAA
* * *
6866929 ATAAATGAAAATGCATAACGGCGTATTATTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
6866973 ATAAATGAAAATGCATAACGATGCATTACTAGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
**
6867017 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
6867061 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAAGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * ***
6867105 ATAAATGAAAATGCATAACGATGCATTATTGGTAGAAAGGTTTT
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
6867149 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGTTCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
**
6867193 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTAAC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
6867237 ATAAATGAAAATGCATAACGATGCATTATTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
6867281 ATAAATGAAAATGCATAACAGTGCATTATTGGCACAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
6867325 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAAGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
6867369 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
6867413 A
1 A
6867414 CTCATGGTAT
Statistics
Matches: 398, Mismatches: 43, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 398 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:6872432 original size:44 final size:44
Alignment explanation
Indices: 6872384--6873154 Score: 639
Period size: 44 Copynumber: 17.9 Consensus size: 44
6872374 TGTTACCGAA
* *
6872384 ATAAATGAAAATGTATAACGGTGCATTATTGGCATAAATGTA-CC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATG-AGCC
6872428 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
6872472 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAA-GAGGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGA-GCC
* * * * * * *
6872516 ATAATTGTGCATTATTGGCAGAAAGGTGCCATAAAT-G-A-AAAT--G-C
1 ATAA--ATG-A-AAAT-GCATAACGGTG-CATTATTGGCAGAAATGAGCC
* ** ** * *
6872560 AT-AAT---AATGCATTATTG-GCAAAAATGTGCCATAAATGA---
1 ATAAATGAAAATGCATAACGGTGC-ATTAT-TGGCAGAAATGAGCC
* *
6872598 A--------AATGCATAATGGTGCATTATTGGCAGAAATGGGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
* * * * * * *
6872634 ATAAATGAAAATCCATAATGATACTTTATTGGCAGAAAGGTA-CT
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATG-AGCC
* * ** *
6872678 ATAAATGAAAATACATAACGGTGCATTATTGGCAAAAATCTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
* *
6872722 ATAAATGAAAATGCATAACGATGCATTA-TAGCAGAAATGTA-CC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATG-AGCC
** * *
6872765 ATAAATGAAAATGCATAATTGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
** * *
6872809 ATAAATGAAAATGCATAACATTGCATTATTGGCATAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
** * * *
6872853 ATAAATGAAAATGCATAACAATGCATTATTGGTAGAAAGGCGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
* * *
6872897 ATAAATGAAAATGCATAACGGTACATTATTCGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
* * **
6872941 ATAAATAAAAATGCATAACGATGCATTATTGGCAGAAA-GATGTT
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGA-GCC
*
6872985 ATAAATGAAAATGCATAACGGTGCATTAATGGCAGAAATGTA-CC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATG-AGCC
* * *
6873029 ATAAATGAAAATCCATAACGATGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
* * *
6873073 ATAAATGAAAATCCATAACGGTGCATCATTGACAGAAAGTG-GCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAA-TGAGCC
** *
6873117 ATAAATGAAAATGTGTAACGGTGAATTATTGGCAGAAA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAA
6873155 GGTGCCACTC
Statistics
Matches: 591, Mismatches: 98, Indels: 76
0.77 0.13 0.10
Matches are distributed among these distances:
33 10 0.02
34 17 0.03
35 8 0.01
36 3 0.01
37 1 0.00
38 5 0.01
41 1 0.00
43 39 0.07
44 478 0.81
45 4 0.01
46 3 0.01
47 4 0.01
48 3 0.01
49 10 0.02
50 5 0.01
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
Found at i:6872519 original size:30 final size:30
Alignment explanation
Indices: 6872485--6872549 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
6872475 AATGAAAATG
6872485 CATAACGGTGCATTATTGGCAGAAAGAG-GC
1 CATAACGGTGCATTATTGGCAGAAAG-GTGC
**
6872515 CATAATTGTGCATTATTGGCAGAAAGGTGC
1 CATAACGGTGCATTATTGGCAGAAAGGTGC
6872545 CATAA
1 CATAA
6872550 ATGAAAATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (30 bp):
CATAACGGTGCATTATTGGCAGAAAGGTGC
Found at i:6873155 original size:44 final size:45
Alignment explanation
Indices: 6872522--6873161 Score: 756
Period size: 44 Copynumber: 14.6 Consensus size: 45
6872512 GGCCATAATT
**
6872522 GTGCATTATTGGCAGAAAG-GTGCCATAAATGAAAATGCATAATA
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* * *
6872566 ATGCATTATTGGCA-AAAATGTGCCATAAATGAAAATGCATAATG
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* * *
6872610 GTGCATTATTGGCAGAAA-TGGGCCATAAATGAAAATCCATAATG
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* * * * * *
6872654 ATACTTTATTGGCAGAAAG-GTACTATAAATGAAAATACATAACG
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* * *
6872698 GTGCATTATTGGCA-AAAATCTGTCATAAATGAAAATGCATAACG
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* * * **
6872742 ATGCATTA-TAGCAGAAA-TGTACCATAAATGAAAATGCATAATT
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
*
6872785 GTGCATTATTGGCAGAAAG-GTGCCATAAATGAAAATGCATAACA
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* * *
6872829 TTGCATTATTGGCATAAA-TGTGCCATAAATGAAAATGCATAACA
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* * *
6872873 ATGCATTATTGGTAGAAAG-GCGCCATAAATGAAAATGCATAACG
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* * *
6872917 GTACATTATTCGCAGAAA-TGTGCCATAAATAAAAATGCATAACG
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* *
6872961 ATGCATTATTGGCAGAAAGATGT--TATAAATGAAAATGCATAACG
1 GTGCATTATTGGCAGAAAG-TGTGCCATAAATGAAAATGCATAACG
* * *
6873005 GTGCATTAATGGCAGAAA-TGTACCATAAATGAAAATCCATAACG
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* *
6873049 ATGCATTATTGGCAGAAA-TGTGCCATAAATGAAAATCCATAACG
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
* * **
6873093 GTGCATCATTGACAGAAAGTG-GCCATAAATGAAAATGTGTAACG
1 GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
*
6873137 GTGAATTATTGGCAGAAAG-GTGCCA
1 GTGCATTATTGGCAGAAAGTGTGCCA
6873162 CTCATGGTAT
Statistics
Matches: 511, Mismatches: 69, Indels: 32
0.83 0.11 0.05
Matches are distributed among these distances:
42 3 0.01
43 39 0.08
44 461 0.90
45 5 0.01
46 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (45 bp):
GTGCATTATTGGCAGAAAGTGTGCCATAAATGAAAATGCATAACG
Found at i:6879178 original size:19 final size:19
Alignment explanation
Indices: 6879156--6879195 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6879146 TCAAGATTTC
* *
6879156 ATTTTGTTTTCAAAATCAA
1 ATTTTGCTTTCAAAACCAA
*
6879175 ATTTTGCTTTCGAAACCAA
1 ATTTTGCTTTCAAAACCAA
6879194 AT
1 AT
6879196 CATTTTCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.42
Consensus pattern (19 bp):
ATTTTGCTTTCAAAACCAA
Found at i:6885769 original size:17 final size:17
Alignment explanation
Indices: 6885743--6885778 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6885733 TATAGGGATA
6885743 AATTTAAATAATTTTAT
1 AATTTAAATAATTTTAT
* *
6885760 AATTTCAATATTTTTAT
1 AATTTAAATAATTTTAT
6885777 AA
1 AA
6885779 GGTCATGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTAAATAATTTTAT
Found at i:6885882 original size:26 final size:27
Alignment explanation
Indices: 6885834--6885886 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
6885824 ATTTTTCTAA
*
6885834 ATTTTTATATTATAATTTCTAAATAAT
1 ATTTTTATATTATAATTTATAAATAAT
* *
6885861 ATTTTTATCTTCTAA-TTATAAATAAT
1 ATTTTTATATTATAATTTATAAATAAT
6885887 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTTATATTATAATTTATAAATAAT
Found at i:6887183 original size:14 final size:14
Alignment explanation
Indices: 6887160--6887195 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
6887150 TGATCATTTA
6887160 TTTATAAATTTTAAT
1 TTTAT-AATTTTAAT
*
6887175 TTTATAATTTTATT
1 TTTATAATTTTAAT
6887189 TTTATAA
1 TTTATAA
6887196 GACTTTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTATAATTTTAAT
Found at i:6887340 original size:2 final size:2
Alignment explanation
Indices: 6887333--6887362 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6887323 GATGTAAAAT
6887333 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
6887363 ATTTTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6888165 original size:16 final size:16
Alignment explanation
Indices: 6888144--6888194 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
6888134 GTGCAAATCC
6888144 GGTACCCGGATTTTCG
1 GGTACCCGGATTTTCG
*
6888160 GGTACCC-GATTTCCG
1 GGTACCCGGATTTTCG
*
6888175 GGTACTCGGAATTTTCG
1 GGTACCCGG-ATTTTCG
6888192 GGT
1 GGT
6888195 CGACGATTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.43
16 8 0.27
17 9 0.30
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.31
Consensus pattern (16 bp):
GGTACCCGGATTTTCG
Found at i:6888202 original size:32 final size:31
Alignment explanation
Indices: 6888144--6888204 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
6888134 GTGCAAATCC
*
6888144 GGTACCCGGATTTTCGGGTACCCGATTTCCG
1 GGTACCCGGATTTTCGGGTACACGATTTCCG
*
6888175 GGTACTCGGAATTTTCGGGT-CGACGATTTC
1 GGTACCCGG-ATTTTCGGGTAC-ACGATTTC
6888205 TCGGCCTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.31
Consensus pattern (31 bp):
GGTACCCGGATTTTCGGGTACACGATTTCCG
Found at i:6891147 original size:20 final size:20
Alignment explanation
Indices: 6891110--6891147 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6891100 AATAAAAATA
*
6891110 CCGGTTTTTCCTGGTTTTTT
1 CCGGTTTTTCCTGATTTTTT
6891130 CCGGTGTTTTCC-GATTTT
1 CCGGT-TTTTCCTGATTTT
6891148 CAGCCGGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.03, C:0.21, G:0.21, T:0.55
Consensus pattern (20 bp):
CCGGTTTTTCCTGATTTTTT
Found at i:6892133 original size:19 final size:19
Alignment explanation
Indices: 6892109--6892154 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
6892099 TACAAAGTAA
*
6892109 CATTTTATAGTCTAAAAAT
1 CATTTTATAGTCGAAAAAT
6892128 CATTTTATAGTCGAAAAAT
1 CATTTTATAGTCGAAAAAT
6892147 CATTTTAT
1 CATTTTAT
6892155 TACTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (19 bp):
CATTTTATAGTCGAAAAAT
Found at i:6892262 original size:2 final size:2
Alignment explanation
Indices: 6892255--6892297 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
6892245 TTACAAATGA
6892255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6892296 AT
1 AT
6892298 TACAAGCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6892778 original size:24 final size:24
Alignment explanation
Indices: 6892741--6892789 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
6892731 TCGATAAGGT
*
6892741 GTGACCATGCCTTATGACTTACAC
1 GTGACCATACCTTATGACTTACAC
*
6892765 GTGACCATATCTTATGACTTACAC
1 GTGACCATACCTTATGACTTACAC
6892789 G
1 G
6892790 CGTCTGCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (24 bp):
GTGACCATACCTTATGACTTACAC
Found at i:6894850 original size:18 final size:18
Alignment explanation
Indices: 6894829--6894865 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6894819 AAGTCTCTGG
6894829 AAACTTATCTCTTCACTT
1 AAACTTATCTCTTCACTT
6894847 AAACTTATCTCTTCACTT
1 AAACTTATCTCTTCACTT
6894865 A
1 A
6894866 TGAATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (18 bp):
AAACTTATCTCTTCACTT
Found at i:6903207 original size:24 final size:24
Alignment explanation
Indices: 6903180--6903254 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
6903170 AGCTCGTATA
*
6903180 AATTTGCACCAAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
* *
6903204 AATTTATC-CCGAAG-GACCGCGTAG
1 AATTT-GCACCGAAGTG-CCACGTAG
*
6903228 AA-ATGCACCGAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
6903251 AATT
1 AATT
6903255 ACACCGTAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
22 1 0.03
23 17 0.44
24 20 0.51
25 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:6903259 original size:23 final size:23
Alignment explanation
Indices: 6903186--6903260 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
6903176 TATAAATTTG
*
6903186 CACCAAAGTGCCACGTAGAATTTA
1 CACCGAAGTGCCACGTAGAA-TTA
* * *
6903210 TC-CCGAAG-GACCGCGTAGAAATG
1 -CACCGAAGTG-CCACGTAGAATTA
6903233 CACCGAAGTGCCACGTAGAATTA
1 CACCGAAGTGCCACGTAGAATTA
6903256 CACCG
1 CACCG
6903261 TAGTTCCATA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
22 1 0.03
23 23 0.57
24 15 0.38
25 1 0.03
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAATTA
Found at i:6903413 original size:25 final size:25
Alignment explanation
Indices: 6903379--6903449 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
6903369 AATACATATA
6903379 TGTCCCGAAGGACCACGTAGAATTT
1 TGTCCCGAAGGACCACGTAGAATTT
6903404 TGTCCCGAAGGACCACGTAGAATTT
1 TGTCCCGAAGGACCACGTAGAATTT
* *
6903429 TATCCCGAAGGACCGCGTAGA
1 TGTCCCGAAGGACCACGTAGA
6903450 CCCTCTACTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.21
Consensus pattern (25 bp):
TGTCCCGAAGGACCACGTAGAATTT
Found at i:6903585 original size:30 final size:30
Alignment explanation
Indices: 6903534--6903596 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
6903524 TCATATCGCG
*
6903534 TAGAAATATTATTTACATACCTTTATCACA
1 TAGAAATATCATTTACATACCTTTATCACA
* *
6903564 TAGACATATCATTTTCATACCTTTATCACA
1 TAGAAATATCATTTACATACCTTTATCACA
6903594 TAG
1 TAG
6903597 CTCATATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (30 bp):
TAGAAATATCATTTACATACCTTTATCACA
Found at i:6903823 original size:54 final size:53
Alignment explanation
Indices: 6903740--6903884 Score: 195
Period size: 54 Copynumber: 2.7 Consensus size: 53
6903730 ATGGCAAGAC
* * * **
6903740 CAGAAGAGGT-TTTCGCATAAGGCGTGGGCACGGCTTATTCATTCTGAGTTATCGT
1 CAGAAGAGGTCTTTAG-TTAAGGCGTGGGCACGTCTTATT-ATTCTGAACTATC-T
6903795 -AGAAGAGGTCTTTAGTTAAGGCGTGGGCACGTCTTAATTATTCTGAACTATCT
1 CAGAAGAGGTCTTTAGTTAAGGCGTGGGCACGTCTT-ATTATTCTGAACTATCT
6903848 CAGAAGAGGTCTTTAGTTAAGGCGTGGGCACGTCTTA
1 CAGAAGAGGTCTTTAGTTAAGGCGTGGGCACGTCTTA
6903885 CTAGTTCGTG
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
53 2 0.02
54 73 0.89
55 7 0.09
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (53 bp):
CAGAAGAGGTCTTTAGTTAAGGCGTGGGCACGTCTTATTATTCTGAACTATCT
Found at i:6906614 original size:39 final size:38
Alignment explanation
Indices: 6906462--6906618 Score: 128
Period size: 37 Copynumber: 4.1 Consensus size: 38
6906452 TATTGTTTTG
* * * * *
6906462 TTATTTAAGGATTTATATTCAATTAAAATGTGAGTATA
1 TTATTTATGAATTTATATTTAATTAAAATATGAATATA
6906500 TTA-TTATGAATTTATATTTGAA--AGAAATA-GAAATATA
1 TTATTTATGAATTTATATTT-AATTA-AAATATG-AATATA
* * **
6906537 TT-TTTTTGTAAATTTATATTTTATT-AAATACAAATATA
1 TTATTTATG--AATTTATATTTAATTAAAATATGAATATA
*
6906575 TTATTTATGAATTTATATTTAATTTAAAATATGCATATA
1 TTATTTATGAATTTATATTTAA-TTAAAATATGAATATA
6906614 TTATT
1 TTATT
6906619 ACAAATTTGC
Statistics
Matches: 94, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
36 2 0.02
37 40 0.43
38 21 0.22
39 31 0.33
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (38 bp):
TTATTTATGAATTTATATTTAATTAAAATATGAATATA
Found at i:6908011 original size:334 final size:345
Alignment explanation
Indices: 6907366--6908044 Score: 1272
Period size: 334 Copynumber: 2.0 Consensus size: 345
6907356 ATGAGACATG
6907366 GTTTCACTAATTTTTGTGTAGGGATTCAAATAATTGCATTCTAAAACTTTTGCAAGATCTTTGTG
1 GTTTCACTAATTTTTGTGTAGGGATTC-AATAATTGCATTCTAAAACTTTTGCAAGATCTTTGTG
6907431 GTTGCGTACTTTGTGGAGCACACCTTGAATCTTGATAGTTTAAATTTTTAATTTTCAACGATAAT
65 GTTGCGTACTTTGTGGAGCACACCTTGAATCTTGATAGTTTAAATTTTTAATTTTCAACGATAAT
6907496 GTTAATAATGATGATCAAGAAATTGATTAGTGAGGTGAAATTTTAATGTTTCCCTTCAATCTGAT
130 GTTAATAATGATGATCAAGAAATTGATTAGTGAGGTGAAATTTTAATGTTTCCCTTCAATCTGAT
6907561 ATGATTCAAAACTCTTTCTTTTACCTTACTATAATCCAATATCATTCAAATATCGTGGTAAAAAT
195 ATGATTCAAAACTCTTTCTTTTACCTTACTATAATCCAATATCATTCAAATATCGTGGTAAAAAT
6907626 AAGATAGCAAATAAATTTGTTTCTGGATTTATCCTGTTATTTTAATGAGTTCGCTTAATCTCAAA
260 AAGATAGCAAATAAATTTGTTTCTGGATTTATCCTGTTATTTTAATGAGTTCGCTTAATCTCAAA
6907691 ATTGACAAATCTGTTTATCAT
325 ATTGACAAATCTGTTTATCAT
6907712 GTTTCA-TAA-TTTTGTGTAGGG-TTC-ATAATTGCATTCTAAAACTTTTGCAAGATCTTTGTGG
1 GTTTCACTAATTTTTGTGTAGGGATTCAATAATTGCATTCTAAAACTTTTGCAAGATCTTTGTGG
6907773 TTGCGTACTTTGTGGAGCACACCTTGAATCTTGATAGTTT-AATTTTTAA-TTTCAACGATAATG
66 TTGCGTACTTTGTGGAGCACACCTTGAATCTTGATAGTTTAAATTTTTAATTTTCAACGATAATG
6907836 TT-A-AATGATGATCAAGAAATTGATTAGTGAGGTGAAATTTTAATG-TTCCCTTCAATCTGATA
131 TTAATAATGATGATCAAGAAATTGATTAGTGAGGTGAAATTTTAATGTTTCCCTTCAATCTGATA
6907898 TGATTC-AAACTCTTTC-TTTACCTTACTATAATCCAATATCATTCAAATATCGTGGTAAAAATA
196 TGATTCAAAACTCTTTCTTTTACCTTACTATAATCCAATATCATTCAAATATCGTGGTAAAAATA
6907961 AGATAGCAAATAAATTTGTTTCTGGATTTATCCTGTTATTTTAATGAGTTCGCTTAATCTCAAAA
261 AGATAGCAAATAAATTTGTTTCTGGATTTATCCTGTTATTTTAATGAGTTCGCTTAATCTCAAAA
6908026 TTGACAAATCTGTTTATCA
326 TTGACAAATCTGTTTATCA
6908045 AAAGTTATCG
Statistics
Matches: 333, Mismatches: 0, Indels: 12
0.97 0.00 0.03
Matches are distributed among these distances:
334 131 0.39
335 10 0.03
336 23 0.07
337 42 0.13
338 1 0.00
339 16 0.05
340 9 0.03
341 77 0.23
343 3 0.01
344 12 0.04
345 3 0.01
346 6 0.02
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (345 bp):
GTTTCACTAATTTTTGTGTAGGGATTCAATAATTGCATTCTAAAACTTTTGCAAGATCTTTGTGG
TTGCGTACTTTGTGGAGCACACCTTGAATCTTGATAGTTTAAATTTTTAATTTTCAACGATAATG
TTAATAATGATGATCAAGAAATTGATTAGTGAGGTGAAATTTTAATGTTTCCCTTCAATCTGATA
TGATTCAAAACTCTTTCTTTTACCTTACTATAATCCAATATCATTCAAATATCGTGGTAAAAATA
AGATAGCAAATAAATTTGTTTCTGGATTTATCCTGTTATTTTAATGAGTTCGCTTAATCTCAAAA
TTGACAAATCTGTTTATCAT
Found at i:6911581 original size:2 final size:2
Alignment explanation
Indices: 6911576--6911609 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6911566 AAAAACATTA
6911576 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
6911610 TAGCCATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6911850 original size:2 final size:2
Alignment explanation
Indices: 6911843--6911910 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
6911833 TGCGTAAATC
6911843 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
6911885 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
6911911 GCGTAAATTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6913538 original size:50 final size:50
Alignment explanation
Indices: 6913458--6913560 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 50
6913448 TGTAAATCCA
* *
6913458 TCTCCTTATGTGATGGAATCGAACGAGATGTCGGTGCTGATCTACCTCAT
1 TCTCATTATGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCAT
* *
6913508 TCTCATTATGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCT
1 TCTCATTATGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCAT
6913558 TCT
1 TCT
6913561 GTGATAGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (50 bp):
TCTCATTATGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCAT
Found at i:6914171 original size:36 final size:36
Alignment explanation
Indices: 6914130--6914309 Score: 225
Period size: 36 Copynumber: 4.9 Consensus size: 36
6914120 ACATTTCTTA
* * * *
6914130 TTTCAAGGGAAACTGTCTCAATACAAACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
*
6914166 TTTCAAGTGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
*
6914202 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* *
6914238 TTTTAAGAGAAACTGTCTCAACAGAGACAAAATTTTATG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA--TT-TG
* * * *
6914277 TTTCGAGGGAAACTATCTCAAGCGAGACAAAAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
6914310 CTTGAGACAA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
36 96 0.76
37 1 0.01
38 2 0.02
39 27 0.21
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
Found at i:6914318 original size:13 final size:13
Alignment explanation
Indices: 6914300--6914325 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6914290 TATCTCAAGC
6914300 GAGACAAAATCTT
1 GAGACAAAATCTT
6914313 GAGACAAAATCTT
1 GAGACAAAATCTT
6914326 CTGTTTCGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
GAGACAAAATCTT
Found at i:6914339 original size:52 final size:52
Alignment explanation
Indices: 6914261--6914361 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
6914251 TGTCTCAACA
*
6914261 GAGACAAAATTTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTT
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTT
* *
6914313 GAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGTGAGACAAAAT
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAAT
6914362 ATTCTTTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (52 bp):
GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTT
Found at i:6914372 original size:39 final size:39
Alignment explanation
Indices: 6914313--6914631 Score: 476
Period size: 39 Copynumber: 8.2 Consensus size: 39
6914303 ACAAAATCTT
* *
6914313 GAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGT
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
* * *
6914352 GAGACAAAATATTCTTTTTCGAGGGAAACTATCTCAAGC
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
*
6914391 GAGAAAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
* *
6914430 GAGACAAAATCTTATGTTTCGAGGGAAATTATCTCAAGA
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
* * * *
6914469 GAGATAAAATCTTCTGTTTGGAGGGAAACTATCTCAAGT
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
* * * *
6914508 GAGACAAAATATTGTATTTCGAGGGAAACTATCGCAAGC
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
* *
6914547 GAGATAAAATCTTATGTTTCGAGGGAAACTATCTCAAGT
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
6914586 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
1 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
6914625 GAGACAA
1 GAGACAA
6914632 TCTTCTTTAA
Statistics
Matches: 250, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 250 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (39 bp):
GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
Found at i:6914430 original size:130 final size:124
Alignment explanation
Indices: 6914189--6914559 Score: 350
Period size: 117 Copynumber: 3.0 Consensus size: 124
6914179 TGTCTCAAGA
* *
6914189 GAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTTAAGAGAAACTGT
1 GAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTTAAGAGAAACTAT
* *
6914254 CTCAACAGAGACAAAATTTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTT
66 CTCAACAGAGAAAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTT
* * * * * *
6914313 GAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGTGAGACAAAATATTCTTTTTCGAGGGA
1 GAGACAAAA--TT-TGTTTCAAGAGAAACTATCTCAAGAGAGAC-AAA-ATTCGTTTT-AAGAGA
6914378 AACTATCTCAAGC-GAGAAAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCT
60 AACTATCTCAA-CAGAGAAAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCT
6914442 T
124 T
* * * * ** *
6914443 --------A--TGTTTCGAGGGAAATTATCTCAAGAGAGATAAAATCTTCTGTTTGGAGGGAAAC
1 GAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA--TTC-GTTTTAAGAGAAAC
** * * * * * *
6914498 TATCTCAAGTGAGACAAAATATTGTATTTCGAGGGAAACTATCGCAAGCGAGATAAAATCTT
63 TATCTCAACAGAGAAAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTT
6914560 ATGTTTCGAG
Statistics
Matches: 214, Mismatches: 22, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
115 1 0.00
116 3 0.01
117 93 0.43
118 3 0.01
122 1 0.00
124 9 0.04
126 2 0.01
127 26 0.12
128 3 0.01
129 8 0.04
130 64 0.30
131 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (124 bp):
GAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTTAAGAGAAACTAT
CTCAACAGAGAAAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTT
Found at i:6914580 original size:22 final size:22
Alignment explanation
Indices: 6914555--6914619 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
6914545 GCGAGATAAA
6914555 ATCTTATGTTTCGAGGGAAACT
1 ATCTTATGTTTCGAGGGAAACT
* * **
6914577 ATCTCAAG--T-GAGACAAA--
1 ATCTTATGTTTCGAGGGAAACT
6914594 ATCTTATGTTTCGAGGGAAACT
1 ATCTTATGTTTCGAGGGAAACT
6914616 ATCT
1 ATCT
6914620 CAAGCGAGAC
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 6 0.20
19 7 0.23
20 7 0.23
22 10 0.33
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (22 bp):
ATCTTATGTTTCGAGGGAAACT
Found at i:6920406 original size:2 final size:2
Alignment explanation
Indices: 6920399--6920435 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6920389 ATAAATACTT
6920399 TA TA TA 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 TA TA TA T
6920436 TCAAATATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6920485 original size:2 final size:2
Alignment explanation
Indices: 6920478--6920511 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6920468 TGCGTAAATC
*
6920478 AT AT AT AT AC 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
6920512 GCGTAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6920617 original size:2 final size:2
Alignment explanation
Indices: 6920610--6920646 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6920600 GGACAATAAA
6920610 AT AT 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 A
6920647 ATACACTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6921149 original size:2 final size:2
Alignment explanation
Indices: 6921142--6921169 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6921132 TTTGGTTCTA
6921142 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
6921170 TATCATAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6928813 original size:29 final size:29
Alignment explanation
Indices: 6928771--6928830 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
6928761 CCCATCCACC
6928771 GAAATTTCTTTAATTTTCAACAATTGTTG
1 GAAATTTCTTTAATTTTCAACAATTGTTG
6928800 GAAATTTCTTTAATTTTCAACAATTGTTG
1 GAAATTTCTTTAATTTTCAACAATTGTTG
6928829 GA
1 GA
6928831 TTGACTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.47
Consensus pattern (29 bp):
GAAATTTCTTTAATTTTCAACAATTGTTG
Found at i:6928840 original size:29 final size:28
Alignment explanation
Indices: 6928773--6928838 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
6928763 CATCCACCGA
*
6928773 AATTTCTTTAATTTTCAACAATTGTTGG
1 AATTACTTTAATTTTCAACAATTGTTGG
*
6928801 AAATTTCTTTAATTTTCAACAATTGTTGG
1 -AATTACTTTAATTTTCAACAATTGTTGG
6928830 -ATTGACTTT
1 AATT-ACTTT
6928839 TATCAAACAG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 3 0.09
28 4 0.11
29 28 0.80
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (28 bp):
AATTACTTTAATTTTCAACAATTGTTGG
Found at i:6930951 original size:68 final size:68
Alignment explanation
Indices: 6930762--6930963 Score: 274
Period size: 63 Copynumber: 3.0 Consensus size: 68
6930752 AATTTTAAAA
6930762 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
1 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
6930827 CCT
66 CCT
** *
6930830 AAATAAATATAT--A-T-A--TGAAC-TATATTAGATAATATATAAGTGACCAAATAGGTAGTTT
1 AAAT-AATA-ATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTT
*
6930888 ATCCT
64 ACCCT
* * *
6930893 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGAGACAAAATAGGTAGTTCAC
1 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
6930958 CCT
66 CCT
6930961 AAA
1 AAA
6930964 AAAATCCCCT
Statistics
Matches: 114, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
61 2 0.02
62 4 0.04
63 46 0.40
64 4 0.04
65 1 0.01
66 1 0.01
67 4 0.04
68 46 0.40
69 4 0.04
70 2 0.02
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (68 bp):
AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
CCT
Found at i:6943214 original size:215 final size:215
Alignment explanation
Indices: 6942776--6943303 Score: 783
Period size: 215 Copynumber: 2.5 Consensus size: 215
6942766 TTCAAAAAAG
* * *
6942776 TATTTTGATTTGATCCCTCATCAATGTTTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTC
1 TATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTTTAATTTC
*
6942841 ATATTTGTTCAATTTAGTCCTTAAAATTATATTTACATCTGAAATTGGCCCATACTTATTACTTA
66 ATATTTGTTCAATTTAGTCCTTAAAATTATATTTACATCTGAAATTAGCCCATACTTATTACTTA
* * * *
6942906 TTTGTATTTTTTTAATTGACCCATAACTTTTTAAATGAGTATAATTTAGTACTTTTTGTATTAAT
131 TTTATATTATTTTAATTGACCAATAACTTTTTAAATGAGTATAATTTAATACTTTTTGTATTAAT
*
6942971 TTAAACCTCACAGTTTAAAT
196 TTAAACCTCACAATTTAAAT
**
6942991 TATTTCGATTTGATCATTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTTTAATTTC
1 TATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTTTAATTTC
* * * ** *
6943056 GTATTTGTTAAATTTTGTCCTTAAAATTATATTTGTATTTGAAATTAGCCCATACTTATTACTTA
66 ATATTTGTTCAATTTAGTCCTTAAAATTATATTTACATCTGAAATTAGCCCATACTTATTACTTA
* *
6943121 TTTATA-TATTTTAATTGGCCAATAACTTTTTAAATGGGTATAATTTAATACTTTTTGTATTAAT
131 TTTATATTATTTTAATTGACCAATAACTTTTTAAATGAGTATAATTTAATACTTTTTGTATTAAT
*
6943185 TTCAACCTCACAATTTAAAAT
196 TTAAACCTCACAATTT-AAAT
* *
6943206 TGTTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATATT-AA-TTTTAATTTTAATTT
1 TATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTAT-TTAAATTTTTATTTTTAATTT
* * **
6943269 CATATTTATTCAATTTAGTTCTTAATTTTATATTT
65 CATATTTGTTCAATTTAGTCCTTAAAATTATATTT
6943304 TTCTTAAAAT
Statistics
Matches: 280, Mismatches: 31, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
214 109 0.39
215 169 0.60
216 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (215 bp):
TATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTTTAATTTC
ATATTTGTTCAATTTAGTCCTTAAAATTATATTTACATCTGAAATTAGCCCATACTTATTACTTA
TTTATATTATTTTAATTGACCAATAACTTTTTAAATGAGTATAATTTAATACTTTTTGTATTAAT
TTAAACCTCACAATTTAAAT
Found at i:6943283 original size:22 final size:22
Alignment explanation
Indices: 6943239--6943284 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
6943229 ATGTGTGTTG
*
6943239 TTTAATTTATATTAATTTTAAT
1 TTTAATTTATATTAATTTCAAT
*
6943261 TTTAATTTCATATTTA-TTCAAT
1 TTTAATTT-ATATTAATTTCAAT
6943283 TT
1 TT
6943285 AGTTCTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTAATTTATATTAATTTCAAT
Found at i:6943615 original size:27 final size:27
Alignment explanation
Indices: 6943577--6943638 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
6943567 TGGAATCGAT
*
6943577 CCGAACTGAAAGTAACCCGACCTGAAC
1 CCGAACTGAAAGTAAACCGACCTGAAC
6943604 CCGAACTGAAAGTAAACCGACCTGAAC
1 CCGAACTGAAAGTAAACCGACCTGAAC
6943631 CCGAACTG
1 CCGAACTG
6943639 TACCTGGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.32, G:0.19, T:0.11
Consensus pattern (27 bp):
CCGAACTGAAAGTAAACCGACCTGAAC
Found at i:6943830 original size:27 final size:27
Alignment explanation
Indices: 6943792--6943846 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
6943782 AAGTGAATGA
6943792 ACCAAAATCAAACACATTTATCTAGGT
1 ACCAAAATCAAACACATTTATCTAGGT
6943819 ACCAAAATCAAACACATTTATCTAGGT
1 ACCAAAATCAAACACATTTATCTAGGT
6943846 A
1 A
6943847 TCACAGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.25
Consensus pattern (27 bp):
ACCAAAATCAAACACATTTATCTAGGT
Found at i:6944327 original size:20 final size:20
Alignment explanation
Indices: 6944302--6944346 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
6944292 TTATCCGGAA
6944302 AAAAATCCGGTATGGGGTTT
1 AAAAATCCGGTATGGGGTTT
6944322 AAAAATCCGGTATGGGGTTT
1 AAAAATCCGGTATGGGGTTT
6944342 AAAAA
1 AAAAA
6944347 ATTGGATGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (20 bp):
AAAAATCCGGTATGGGGTTT
Found at i:6944397 original size:17 final size:18
Alignment explanation
Indices: 6944375--6944411 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6944365 TTACCGGATT
*
6944375 AAAAACC-GGTTTTTTAA
1 AAAAACCAGATTTTTTAA
6944392 AAAAACCAGATTTTTTAA
1 AAAAACCAGATTTTTTAA
6944410 AA
1 AA
6944412 CCGAAACCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (18 bp):
AAAAACCAGATTTTTTAA
Found at i:6946039 original size:23 final size:23
Alignment explanation
Indices: 6945981--6946039 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
6945971 TTGTGACATG
*
6945981 TTTCTCTGCCTTTATGGCACGTT
1 TTTCTCAGCCTTTATGGCACGTT
* * *
6946004 TATCT-ATGTCTTTGTGGCACGTT
1 TTTCTCA-GCCTTTATGGCACGTT
6946027 TTTCTCAGCCTTT
1 TTTCTCAGCCTTT
6946040 TGGTAGCTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.10, C:0.24, G:0.17, T:0.49
Consensus pattern (23 bp):
TTTCTCAGCCTTTATGGCACGTT
Found at i:6946688 original size:2 final size:2
Alignment explanation
Indices: 6946681--6946706 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6946671 ATACTTAAAT
6946681 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
6946707 ATGGAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6948559 original size:32 final size:32
Alignment explanation
Indices: 6948518--6948621 Score: 167
Period size: 32 Copynumber: 3.3 Consensus size: 32
6948508 GAGTCGAGGG
* *
6948518 TTACCTATGTCTTTCGTGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGATATATGGACAGGA
6948550 TTACCTATGTCTTTCGGGATATATGGACAGGA
1 TTACCTATGTCTTTCGGGATATATGGACAGGA
*
6948582 TTACCTATGTCTTTCGGGATATATGGGCA-G-
1 TTACCTATGTCTTTCGGGATATATGGACAGGA
6948612 TTACCTATGT
1 TTACCTATGT
6948622 TCTTAGGAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
30 10 0.14
31 1 0.01
32 58 0.84
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGATATATGGACAGGA
Found at i:6951959 original size:64 final size:62
Alignment explanation
Indices: 6951879--6952032 Score: 229
Period size: 64 Copynumber: 2.5 Consensus size: 62
6951869 GGAGTCGAGG
*
6951879 GTTACCTATGTCTTTCGTGACATATGGACAGGATTACCAATGTCTTTCGGGATATATGGACA
1 GTTACCTATGTCTTTCGGGACATATGGACAGGATTACCAATGTCTTTCGGGATATATGGACA
* *
6951941 GGATTACCTATGTCTTTCGGGATATATGGACAGGATTACCTATGTCTTTCGGGATATATGGACA
1 -G-TTACCTATGTCTTTCGGGACATATGGACAGGATTACCAATGTCTTTCGGGATATATGGACA
* *
6952005 GTTACCTATGT-TCTTAGGAACATATGGA
1 GTTACCTATGTCT-TTCGGGACATATGGA
6952033 TAGGTCATTC
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
61 1 0.01
62 22 0.27
63 2 0.02
64 58 0.70
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (62 bp):
GTTACCTATGTCTTTCGGGACATATGGACAGGATTACCAATGTCTTTCGGGATATATGGACA
Found at i:6952032 original size:30 final size:32
Alignment explanation
Indices: 6951880--6952015 Score: 231
Period size: 32 Copynumber: 4.3 Consensus size: 32
6951870 GAGTCGAGGG
* *
6951880 TTACCTATGTCTTTCGTGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGATATATGGACAGGA
*
6951912 TTACCAATGTCTTTCGGGATATATGGACAGGA
1 TTACCTATGTCTTTCGGGATATATGGACAGGA
6951944 TTACCTATGTCTTTCGGGATATATGGACAGGA
1 TTACCTATGTCTTTCGGGATATATGGACAGGA
6951976 TTACCTATGTCTTTCGGGATATATGGACA-G-
1 TTACCTATGTCTTTCGGGATATATGGACAGGA
6952006 TTACCTATGT
1 TTACCTATGT
6952016 TCTTAGGAAC
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
30 10 0.10
31 1 0.01
32 89 0.89
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGATATATGGACAGGA
Found at i:6953791 original size:20 final size:20
Alignment explanation
Indices: 6953766--6953838 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
6953756 AAGAATTCAG
6953766 TAGTATCGATACTCAGGGGT
1 TAGTATCGATACTCAGGGGT
*
6953786 TAGTATCGATA-TCTAAGGGT
1 TAGTATCGATACTC-AGGGGT
* *
6953806 TAGTATCGATACCCAGAGGT
1 TAGTATCGATACTCAGGGGT
* *
6953826 CAGTACCGATACT
1 TAGTATCGATACT
6953839 TTATGGGATT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.05
20 41 0.93
21 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (20 bp):
TAGTATCGATACTCAGGGGT
Found at i:6953810 original size:40 final size:42
Alignment explanation
Indices: 6953766--6953860 Score: 113
Period size: 40 Copynumber: 2.3 Consensus size: 42
6953756 AAGAATTCAG
* * * *
6953766 TAGTATCGATACTCAGGGGTTAGTATCGATA-TCTAAGGG-T
1 TAGTATCGATACCCAGAGGTCAGTACCGATACTCTAAGGGAT
* *
6953806 TAGTATCGATACCCAGAGGTCAGTACCGATACTTTATGGGAT
1 TAGTATCGATACCCAGAGGTCAGTACCGATACTCTAAGGGAT
*
6953848 TAGTATCGTTACC
1 TAGTATCGATACC
6953861 TAAGAATGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 27 0.59
41 6 0.13
42 13 0.28
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TAGTATCGATACCCAGAGGTCAGTACCGATACTCTAAGGGAT
Found at i:6955249 original size:203 final size:203
Alignment explanation
Indices: 6954874--6955280 Score: 737
Period size: 203 Copynumber: 2.0 Consensus size: 203
6954864 ACTATAAAGA
* *
6954874 CTAGAATGGCGATAAATAACATTGACTTTTTTCTAATTCTAAAGAAAGCCTATGGCATATGATCC
1 CTAGAATGACGATAAATAACATTGACTTTTTTCTAATTCTAAAGAAAACCTATGGCATATGATCC
*
6954939 AACTTATAGTCAATACAATAGAGATGAGAGTCATATTTCATTTATGGATAACAATAGCAATGGGT
66 AACTTATAGTCAATACAATAGAGATGAGAGTCATATTTCATTTATGGATAACAATAGCAATAGGT
*
6955004 TTAGAAAAAACTAACATGATGTACCAGTAGATGTAGGGGGTCGATGAGGCAATCTTCTTTAGGGA
131 TTAGAAAAAACTAACATGATGTACCAGTAGATGTAGGGGGTCGATGAGGCAATCTTCTTTAGAGA
6955069 CCTTACCT
196 CCTTACCT
6955077 CTAGAATGACGATAAATAACATTGACTTTTTTCTAATTCTAAAGAAAACCTATGGCATATGAT-C
1 CTAGAATGACGATAAATAACATTGACTTTTTTCTAATTCTAAAGAAAACCTATGGCATATGATCC
*
6955141 AACCTTATAGTCAATACAATAGAGATGAGAGTCATATTTCATTTATGGATAACAATAGCGATAGG
66 AA-CTTATAGTCAATACAATAGAGATGAGAGTCATATTTCATTTATGGATAACAATAGCAATAGG
6955206 TTTAGAAAAAAACTAACATGATGTACCAGTAGATGTA-GGGGTCGATGAGGCAATCTTCTTTAGA
130 TTTAG-AAAAAACTAACATGATGTACCAGTAGATGTAGGGGGTCGATGAGGCAATCTTCTTTAGA
6955270 GACCTTACCT
194 GACCTTACCT
6955280 C
1 C
6955281 ATCCCTTAAG
Statistics
Matches: 197, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
202 3 0.02
203 163 0.83
204 31 0.16
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (203 bp):
CTAGAATGACGATAAATAACATTGACTTTTTTCTAATTCTAAAGAAAACCTATGGCATATGATCC
AACTTATAGTCAATACAATAGAGATGAGAGTCATATTTCATTTATGGATAACAATAGCAATAGGT
TTAGAAAAAACTAACATGATGTACCAGTAGATGTAGGGGGTCGATGAGGCAATCTTCTTTAGAGA
CCTTACCT
Found at i:6958682 original size:95 final size:92
Alignment explanation
Indices: 6958578--6958821 Score: 292
Period size: 95 Copynumber: 2.7 Consensus size: 92
6958568 TACAATATTA
* *
6958578 TATATATATAATAAAGCTTGAGTTGTCCTTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGGA
1 TATATATATAATAAAGCTTGA-TTGTCCATCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGA
* *
6958643 TAATATTCAACTAGCCTGATAAAGGTAAT
65 TAATATTCAACTAACCTGATAAAAGT-AT
* *
6958672 TATACTATATAATAAAGTTTGAATTGTTCATCTA-AGGCAATTGGTTAAACGCCCCGGCTTTATG
1 TATA-TATATAATAAAGCTTG-ATTGTCCATCTAGA-GCAATTGGTTAAACGCCCCGGCTTTATG
* *
6958736 GATAATATTCAGCTAACCTGATAAAAGTGT
63 GATAATATTCAACTAACCTGATAAAAGTAT
*
6958766 T-TATATAT--T-AAGC-TGA----CCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
1 TATATATATAATAAAGCTTGATTGTCCATCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
6958822 CTAGCTAGCC
Statistics
Matches: 135, Mismatches: 11, Indels: 19
0.82 0.07 0.12
Matches are distributed among these distances:
83 36 0.27
84 1 0.01
87 1 0.01
88 2 0.01
89 3 0.02
90 1 0.01
92 5 0.04
93 2 0.01
94 7 0.05
95 76 0.56
96 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (92 bp):
TATATATATAATAAAGCTTGATTGTCCATCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
AATATTCAACTAACCTGATAAAAGTAT
Found at i:6960164 original size:84 final size:83
Alignment explanation
Indices: 6959951--6961992 Score: 2094
Period size: 84 Copynumber: 24.7 Consensus size: 83
6959941 TTAAGGCAAA
* * * * *
6959951 ATTTGCAGCATAACTCAA-TGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGT-CGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
*
6960015 CTCAGCTCCAAGGCACATA
65 CTCAGCTCCAAGGCACATC
* * * * * * * * * * * *
6960034 ATTTGCAACATAGCTCAAGGCAAAAAGGGTTATTTGCCAACAAAAGACCCTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
* *
6960099 CTCAGCTTCGAGGGCACATC
65 CTCAGC-TCCAAGGCACATC
* * * * * * * *
6960119 ACTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACCAAAGACGTTCGAGTTCGACTACGT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
6960184 TCAGCTCCAAAGCATATC
66 TCAGCTCCAAGGCACATC
* * *
6960202 ATTTGCTGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
*
6960267 CTCAGCTCCAAGGCGCATC
65 CTCAGCTCCAAGGCACATC
* * * * * *
6960286 ATTTACAACATAACTTAAGTCTAGAAGGGTTATCTG---CCAAAGACCCTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* **
6960348 TCAACTTTAAGGGCACATC
66 TCAGCTCCAA-GGCACATC
* * * *
6960367 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
6960432 TCAGCTCCAAGGCATATA
66 TCAGCTCCAAGGCACATC
* * * *
6960450 ATTTGCAGCATAACTTAAGTCGAGCAGGGTTATCTGCTAACCAAAGACCTTCAAGTTCGACTACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TCACCAAAGACCTTCGAGTTCGACTACG
*
6960515 CTCAGCTCCAAGGCGCATC
65 CTCAGCTCCAAGGCACATC
* * * *
6960534 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTG---CCAAAGA-GTTTGA-TT--AC-A--C
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
6960589 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * *
6960608 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTAC-AGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTT-CGAGTTCGACTACG
* * *
6960672 TTCACCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
* * *
6960691 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAACCAAAGACATTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
*
6960756 CTCAGCTCCAAGGCGCATC
65 CTCAGCTCCAAGGCACATC
* * * * * * * *
6960775 ATTTTCAGCATAGCTTCAGTCGAGAAGGGTTATATG---CCAAAGACCCTCGAGTTCAATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
6960837 TCAACTTCAAGGGCACATC
66 TCAGCTCCAA-GGCACATC
* * * * * * *
6960856 ACTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCTTCGAGTTCGAGTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
*
6960921 TCAGCTCCAAGGCATATC
66 TCAGCTCCAAGGCACATC
** *
6960939 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
*
6961004 CTCAGCTCCAAGGCGCATC
65 CTCAGCTCCAAGGCACATC
** * * * *
6961023 ATTTGTTGCATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* * *
6961085 TCAACTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * * *
6961104 ATTTACAGCATAACTCATGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
*
6961169 TCAGCTCCAAGGCATATC
66 TCAGCTCCAAGGCACATC
* ** *
6961187 ATTTGCAGCATAACTTAAGTCGAAAAGGGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
**
6961252 CTCAGCTCCAAGGCGTATC
65 CTCAGCTCCAAGGCACATC
* ** * *
6961271 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
6961333 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * * * * *
6961352 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTAGACTGCGT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* * *
6961417 TCACCTCCAAGGCATATT
66 TCAGCTCCAAGGCACATC
*
6961435 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCCAACCAAAGACCTTCGAGTTCGTCTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGT-C-ACCAAAGACCTTCGAGTTCGACTAC
*
6961499 GCTCAGCTCCAAGGCGCATC
64 GCTCAGCTCCAAGGCACATC
* * * * * * **
6961519 ATTTGCAGTATAGCTTAAGTTGAGAAGGATTATCTG---CCAAAGACCCTCGAGTTCGATTATAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
** * *
6961581 TCAGCTTTTAGGGCAGATC
66 TCAGC-TCCAAGGCACATC
* * * * * * *
6961600 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGAACTTCAAGTTTGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
*
6961665 TCAGCTCCAAGGCATATC
66 TCAGCTCCAAGGCACATC
* *
6961683 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
* *
6961748 CTCAGCTCGAAGGCGCATC
65 CTCAGCTCCAAGGCACATC
* * *
6961767 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCCTCGAGTTTGATTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
6961829 TCAACTTCAAGGGCACATC
66 TCAGCTCCAA-GGCACATC
* * * * * *
6961848 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGATCTTCGAGTTGGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
*
6961913 TCAGCTCCAAGGCATATC
66 TCAGCTCCAAGGCACATC
* * * ** *
6961931 ATTTGCAGTATAATTTAAGTCGAGAAGGGTTATTTACCAACCAAAAACCTTCGAGTTCGACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACT
6961993 TCGAGTTCGA
Statistics
Matches: 1605, Mismatches: 304, Indels: 99
0.80 0.15 0.05
Matches are distributed among these distances:
73 6 0.00
74 41 0.03
75 1 0.00
76 2 0.00
77 7 0.00
78 5 0.00
79 5 0.00
80 175 0.11
81 229 0.14
82 2 0.00
83 345 0.21
84 746 0.46
85 41 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATC
Found at i:6960399 original size:248 final size:248
Alignment explanation
Indices: 6959951--6962184 Score: 3174
Period size: 248 Copynumber: 9.0 Consensus size: 248
6959941 TTAAGGCAAA
* * *
6959951 ATTTGCAGCATAACTCAA-TGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTAT
1 ATTTGCAGCATAACTTAAGT-CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * * * * * * *
6960014 GCTCAGCTCCAAGGCACATAATTTGCAACATAGCTCAAGGCAAAAAGGGTTATTTGCCAACAAAA
65 GCTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--C-AAA
* * *
6960079 GACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCACTTACAGCATAACTCAAGGCTAAA
126 GACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGA
* * *
6960144 AGGGTTATCTGTCACCAAAGACGTTCGAGTTCGACTACGTTCAGCTCCAAAGCATATC
191 AGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* *
6960202 ATTTGCTGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
6960267 CTCAGCTCCAAGGCGCATCATTTACAACATAACTTAAGTCTAGAAGGGTTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
**
6960332 TCGAGTTCGATTACACTCAACTTTAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
*
6960397 TATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATA
196 TATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * * *
6960450 ATTTGCAGCATAACTTAAGTCGAGCAGGGTTATCTGCTAACCAAAGACCTTCAAGTTCGACTACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
6960515 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCC-AA-A---
66 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
* *
6960575 --GAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* *
6960638 TATCTGTCACCAAAGACCTTAC-AGTTCGACTACGTTCACCTCCAAGGCATATC
196 TATCTGTCACCAAAGACCTT-CGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* *
6960691 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAACCAAAGACATTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * * *
6960756 CTCAGCTCCAAGGCGCATCATTTTCAGCATAGCTTCAGTCGAGAAGGGTTATATGCCAAAGACCC
66 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
* * *
6960821 TCGAGTTCAATTACACTCAACTTCAAGGGCACATCACTTACAGCATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* *
6960886 TATCTGTTACCAAAGACCTTCGAGTTCGAGTACGCTCAGCTCCAAGGCATATC
196 TATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* *
6960939 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
** *
6961004 CTCAGCTCCAAGGCGCATCATTTGTTGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
*
6961069 TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCATGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
*
6961134 TATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
196 TATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * *
6961187 ATTTGCAGCATAACTTAAGTCGAAAAGGGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
6961252 CTCAGCTCCAAGGCGTATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
* * *
6961317 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* * * * *
6961382 TATCTGTCACCAAAGACCTTCGAGTTAGACTGCGTTCACCTCCAAGGCATATT
196 TATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* *
6961435 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGTCTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * * *
6961500 CTCAGCTCCAAGGCGCATCATTTGCAGTATAGCTTAAGTTGAGAAGGATTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
* * ** *
6961565 TCGAGTTCGATTATACTCAGCTTTTAGGGCAGATCATTTACAGCATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* * *
6961630 TATCTGTCACCAAAGAACTTCAAGTTTGACTACGCTCAGCTCCAAGGCATATC
196 TATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
*
6961683 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
6961748 CTCAGCTCGAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
* * *
6961813 TCGAGTTTGATTACGCTCAACTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* *
6961878 TATCTGTCACCAAAGATCTTCGAGTTGGACTACGCTCAGCTCCAAGGCATATC
196 TATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * * * *
6961931 ATTTGCAGTATAATTTAAGTCGAGAAGGGTTATTTACCAACCAAAAACCTTCGAGTTCGACTTCG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGAC-T--
* * * * * * *
6961996 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTAT
63 A---CG------CTCAGC-TCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
* * ** * *
6962061 CTGTCACCAAAGACCTTCGAGTTCGACTATGCTCAACTTCGAGGGCACATCATTTGCAGCATAGC
118 CTG---CCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAAC
* * * * * * *
6962126 TTAAGTCGAGAAGGGCTATCTGCCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
180 TCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
6962185 AGAGGCAAAC
Statistics
Matches: 1793, Mismatches: 162, Indels: 42
0.90 0.08 0.02
Matches are distributed among these distances:
241 217 0.12
242 3 0.00
243 1 0.00
246 1 0.00
247 3 0.00
248 1308 0.73
249 2 0.00
251 37 0.02
252 69 0.04
254 2 0.00
260 6 0.00
261 43 0.02
264 71 0.04
265 30 0.02
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (248 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
TATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
Found at i:6962058 original size:97 final size:95
Alignment explanation
Indices: 6961895--6962088 Score: 226
Period size: 96 Copynumber: 2.0 Consensus size: 95
6961885 CACCAAAGAT
* * * * * * * *
6961895 CTTCGAGTTGGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTATAATTTAAGTCGAGAAGGG
1 CTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGG
*
6961960 TTATTTACCAACCAAAAACCTTCGAGTTCGA
66 TTATCTACC-ACCAAAAACCTTCGAGTTCGA
* * * *
6961991 CTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
1 CTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGG
** *
6962056 GTTATCTGTCACCAAAGACCTTCGAGTTCGA
65 GTTATCTACCACCAAAAACCTTCGAGTTCGA
6962087 CT
1 CT
6962089 ATGCTCAACT
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
96 42 0.52
97 39 0.48
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (95 bp):
CTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGG
TTATCTACCACCAAAAACCTTCGAGTTCGA
Found at i:6962138 original size:84 final size:85
Alignment explanation
Indices: 6961991--6962233 Score: 276
Period size: 84 Copynumber: 2.9 Consensus size: 85
6961981 TCGAGTTCGA
* * *
6961991 CTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
1 CTTCGAGTTCGACTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGG
* *
6962056 GTTATCTGTC-ACCAAAGAC
66 GCTATCTGCCTACCAAAGAC
** * * * *
6962075 CTTCGAGTTCGACTATGCTCAACTTCGAGGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
1 CTTCGAGTTCGACTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGG
6962140 GCTATCTGCCTACCAAAGAC
66 GCTATCTGCCTACCAAAGAC
* * * * * **
6962160 CTTCGAGTTCGATTACACTCAGC-TC-AGAGGCAAACCAAATTTACAGAATAACTCAAGGTAAGA
1 CTTCGAGTTCGACTACACTCAACTTCGAG-GGCACATC--ATTTACAGCATAACTCAAGGCGAGA
6962223 AGGGCTATCTG
63 AGGGCTATCTG
6962234 TCAATAAAAT
Statistics
Matches: 131, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
83 2 0.02
84 72 0.55
85 28 0.21
86 29 0.22
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (85 bp):
CTTCGAGTTCGACTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGG
GCTATCTGCCTACCAAAGAC
Found at i:6962863 original size:38 final size:39
Alignment explanation
Indices: 6962811--6963036 Score: 205
Period size: 39 Copynumber: 6.2 Consensus size: 39
6962801 TTTATCATAT
* *
6962811 ATATATATAGTATATAG-TTTGAAAACATTTTTAAAAAC
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAAAC
*
6962849 ATATATATAATATATAGTTTTGAAAACATGTTTGAAAAC
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAAAC
* * *
6962888 ATTTATATATTATATAGTTTTTAAAACA-TTTTG-----
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAAAC
*
6962921 A-A-A-AT-ATATATAGTTTTTAAAA-ATATTTTGAAAAC
1 ATATATATAATATATAGTTTTGAAAACAT-TTTTGAAAAC
* * *
6962956 ATATATATATTATATAATTTTGAAATCA-TTTTGAAAA-
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAAAC
* * * *
6962993 AT-TATGTAGTATATAGTTTTAAAAACATTTATGAAAAC
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAAAC
6963031 -TATATA
1 ATATATA
6963037 ATTTTGAAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 32
0.75 0.10 0.16
Matches are distributed among these distances:
28 1 0.01
29 16 0.11
30 7 0.05
31 1 0.01
33 1 0.01
35 1 0.01
36 21 0.14
37 12 0.08
38 34 0.22
39 57 0.38
40 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.43
Consensus pattern (39 bp):
ATATATATAATATATAGTTTTGAAAACATTTTTGAAAAC
Found at i:6962940 original size:29 final size:30
Alignment explanation
Indices: 6962898--6962962 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
6962888 ATTTATATAT
*
6962898 TATATAGTTTTT-AAAACATTTTGAAAATA
1 TATATAGTTTTTAAAAACATTTTGAAAACA
*
6962927 TATATAGTTTTTAAAAATATTTTGAAAACA
1 TATATAGTTTTTAAAAACATTTTGAAAACA
6962957 TATATA
1 TATATA
6962963 TATTATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (30 bp):
TATATAGTTTTTAAAAACATTTTGAAAACA
Found at i:6962951 original size:68 final size:68
Alignment explanation
Indices: 6962858--6962992 Score: 200
Period size: 68 Copynumber: 2.0 Consensus size: 68
6962848 CATATATATA
* * *
6962858 ATATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAACATTTTGAA
1 ATATATAGTTTTGAAAACATGTTTGAAAACATATATATATTATATAATTTTGAAAACATTTTGAA
6962923 AAT
66 AAT
* * *
6962926 ATATATAGTTTTTAAAA-ATATTTTGAAAACATATATATATTATATAATTTTGAAATCATTTTGA
1 ATATATAGTTTTGAAAACAT-GTTTGAAAACATATATATATTATATAATTTTGAAAACATTTTGA
6962990 AAA
65 AAA
6962993 ATTATGTAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 2 0.03
68 58 0.97
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (68 bp):
ATATATAGTTTTGAAAACATGTTTGAAAACATATATATATTATATAATTTTGAAAACATTTTGAA
AAT
Found at i:6963106 original size:36 final size:36
Alignment explanation
Indices: 6963031--6963106 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 36
6963021 TTATGAAAAC
*
6963031 TATATAATTTTGAAAACATTTTTTTAAAATATATAA
1 TATATAATTTTGAAAACATTTTTTAAAAATATATAA
* * *
6963067 TATATAATTTT-AAAATA-TTTTTAAAAATATTTAT
1 TATATAATTTTGAAAACATTTTTTAAAAATATATAA
6963101 TATATA
1 TATATA
6963107 GGGTTTTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 20 0.56
35 5 0.14
36 11 0.31
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (36 bp):
TATATAATTTTGAAAACATTTTTTAAAAATATATAA
Found at i:6963171 original size:10 final size:10
Alignment explanation
Indices: 6963156--6963208 Score: 54
Period size: 10 Copynumber: 5.0 Consensus size: 10
6963146 ATTAACTTTG
6963156 TTATTTATTT
1 TTATTTATTT
6963166 TTATTTATTT
1 TTATTTATTT
6963176 TTATCTT-TTAT
1 TTAT-TTATT-T
*
6963187 TAATTTCATTT
1 TTATTT-ATTT
6963198 TTATTTCATTT
1 TTATTT-ATTT
6963209 CAGGTCCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
10 18 0.49
11 17 0.46
12 2 0.05
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTTATTT
Found at i:6963210 original size:16 final size:15
Alignment explanation
Indices: 6963156--6963210 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
6963146 ATTAACTTTG
6963156 TTATTT-ATTTTTAT
1 TTATTTCATTTTTAT
*
6963170 TTATTTTTATCTTTTAT
1 TTA-TTTCAT-TTTTAT
*
6963187 TAATTTCATTTTTAT
1 TTATTTCATTTTTAT
6963202 TTCATTTCA
1 TT-ATTTCA
6963211 GGTCCAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 13 0.38
17 8 0.24
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTCATTTTTAT
Found at i:6964504 original size:25 final size:25
Alignment explanation
Indices: 6964437--6964509 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
6964427 GTTTAACTTG
6964437 TTTATTTCATCTTT-CTTATTA-ATTT
1 TTTATTTCAT-TTTACTT-TTATATTT
* *
6964462 TTCA-TT--TTTTA-TTATATATTT
1 TTTATTTCATTTTACTTTTATATTT
6964483 TTTATTTCATTTTACTTTTATATTT
1 TTTATTTCATTTTACTTTTATATTT
6964508 TT
1 TT
6964510 AACCTTTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
20 2 0.05
21 12 0.32
22 3 0.08
24 7 0.18
25 14 0.37
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTATTTCATTTTACTTTTATATTT
Found at i:6964543 original size:12 final size:11
Alignment explanation
Indices: 6964520--6964572 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
6964510 AACCTTTTGT
6964520 TTTTTTACTTTA
1 TTTTTTA-TTTA
6964532 TTTTGTTATTTA
1 TTTT-TTATTTA
6964544 TTTATTTATTTA
1 TTT-TTTATTTA
6964556 TTGTTTT-TATTA
1 TT-TTTTAT-TTA
6964568 TTTTT
1 TTTTT
6964573 ATTATTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.11
12 28 0.76
13 5 0.14
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:6964566 original size:9 final size:9
Alignment explanation
Indices: 6964552--6964601 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
6964542 TATTTATTTA
*
6964552 TTTATTGTT
1 TTTATTATT
6964561 TTTATTATT
1 TTTATTATT
6964570 TTTATTA-T
1 TTTATTATT
*
6964578 TATATTCATT
1 TTTATT-ATT
6964588 TTTATTATT
1 TTTATTATT
6964597 TTTAT
1 TTTAT
6964602 CTTTATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 6 0.17
9 24 0.67
10 6 0.17
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTATT
Found at i:6966315 original size:19 final size:18
Alignment explanation
Indices: 6966276--6966310 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6966266 TTCCATTTGA
*
6966276 ATTTATATATATTGATAT
1 ATTTATATATAATGATAT
6966294 ATTT-TATATAATGATAT
1 ATTTATATATAATGATAT
6966311 TTATTGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
ATTTATATATAATGATAT
Found at i:6966387 original size:5 final size:5
Alignment explanation
Indices: 6966379--6966502 Score: 120
Period size: 5 Copynumber: 25.6 Consensus size: 5
6966369 TATAAAACAA
*
6966379 TTATT TTATT TTATT TTTTAT TTATT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TTATT TTATT
* * *
6966430 TTATT TT-TT ATT-TT TTA-T TTATT TATTTT TTATT TT-TT ATATT TT-TA
1 TTATT TTATT -TTATT TTATT TTATT T-TATT TTATT TTATT TTATT TTATT
6966477 TT-TT TTATT TT-TT ATT-TT TTATT TTA
1 TTATT TTATT TTATT -TTATT TTATT TTA
6966503 CAGGTACAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
4 21 0.21
5 73 0.72
6 8 0.08
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:6966399 original size:7 final size:7
Alignment explanation
Indices: 6966387--6966501 Score: 148
Period size: 7 Copynumber: 16.3 Consensus size: 7
6966377 AATTATTTTA
6966387 TTTTATT
1 TTTTATT
6966394 TTTTATT
1 TTTTATT
*
6966401 TATTT-TA
1 T-TTTATT
6966408 TTTTA--
1 TTTTATT
6966413 TTTTATT
1 TTTTATT
6966420 TTATT-TT
1 TT-TTATT
6966427 ATTTTATT
1 -TTTTATT
6966435 TTTTATT
1 TTTTATT
6966442 TTTTATT
1 TTTTATT
6966449 TATTTATT
1 T-TTTATT
6966457 TTTTATT
1 TTTTATT
6966464 TTTTATAT
1 TTTTAT-T
6966472 TTTTATT
1 TTTTATT
6966479 TTTTATT
1 TTTTATT
6966486 TTTTATT
1 TTTTATT
6966493 TTTTATT
1 TTTTATT
6966500 TT
1 TT
6966502 ACAGGTACAA
Statistics
Matches: 98, Mismatches: 1, Indels: 18
0.84 0.01 0.15
Matches are distributed among these distances:
5 5 0.05
6 3 0.03
7 67 0.68
8 23 0.23
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTATT
Found at i:6966444 original size:1 final size:1
Alignment explanation
Indices: 6966382--6966501 Score: 51
Period size: 1 Copynumber: 120.0 Consensus size: 1
6966372 AAAACAATTA
* * * * * * * * * * * *
6966382 TTTTATTTTATTTTTTATTTATTTTATTTTATTTTATTTTATTTTATTTTATTTTTTATTTTTTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * *
6966447 TTTATTTATTTTTTATTTTTTATATTTTTATTTTTTATTTTTTATTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6966502 ACAGGTACAA
Statistics
Matches: 77, Mismatches: 42, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (1 bp):
T
Found at i:6968659 original size:13 final size:13
Alignment explanation
Indices: 6968634--6968680 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
6968624 AACGGTCAAC
6968634 GGTC-GGTCAATG
1 GGTCGGGTCAATG
*
6968646 GGTCGGGTCGATG
1 GGTCGGGTCAATG
*
6968659 GCTCGGGTCAATG
1 GGTCGGGTCAATG
6968672 GGTCGGGTC
1 GGTCGGGTC
6968681 GGTTAAGACC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 4 0.13
13 26 0.87
ACGTcount: A:0.11, C:0.19, G:0.47, T:0.23
Consensus pattern (13 bp):
GGTCGGGTCAATG
Found at i:6975850 original size:18 final size:18
Alignment explanation
Indices: 6975823--6975857 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6975813 AGGTCAGGTC
*
6975823 GGGTCGGACCGGTCAAAT
1 GGGTCAGACCGGTCAAAT
6975841 GGGTCAGACCGGTCAAA
1 GGGTCAGACCGGTCAAA
6975858 CTGCCCCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.37, T:0.14
Consensus pattern (18 bp):
GGGTCAGACCGGTCAAAT
Found at i:6982230 original size:20 final size:21
Alignment explanation
Indices: 6982197--6982245 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
6982187 ATTTGTTGTA
*
6982197 TTTTGCATATGCATTT-TTATT
1 TTTTGCATACGCATTTATT-TT
6982218 TTTTGCA-ACGCATTTAATTTT
1 TTTTGCATACGCATTT-ATTTT
6982239 TTTTGCA
1 TTTTGCA
6982246 CCGTATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 16 0.64
22 2 0.08
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (21 bp):
TTTTGCATACGCATTTATTTT
Found at i:6990216 original size:55 final size:55
Alignment explanation
Indices: 6990122--6990647 Score: 554
Period size: 55 Copynumber: 9.5 Consensus size: 55
6990112 ATCAATCTCG
* * * * **
6990122 AGTCATATACTCCCTGAAAGAAGAGCGAGCGGGCTCATTTTTCGAAGATTGTTTG
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCA
* * * * *
6990177 AGTCCTATACTCCCTGAAAGAGGAGGGAGTGGACCCATTTTCCAAAGATTGTTCG
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCA
* * * *
6990232 AGTCCTATACTACCTGAAAGAGGAGGGAGCGGACCCATTTCTTCAAAGATTGTTCG
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTT-TTCGAAGATTGTTCA
* * * ** *
6990288 AGTTCTATACTCCCTGAAAGAAGAGAGAGCGTACTTATTTTTCGAAGATTGTTCG
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCA
* * * * *
6990343 AGTCCTATACCCCCTAAAAGAAGATGGAGCAGACCCATTTTTCGAAGATTGTTTA
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCA
* * * * * **
6990398 AGTCCTAGAATCCTTGACAGAAGAAGGAGCATACCCA-TTTTCTGAAGATT-TTCCA
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTTTTC-GAAGATTGTT-CA
* ** ** * *
6990453 AGTCCTATACTCCCTGAAAGAATAGGGAGCAAACCCGGTTTCCAAAGAATT-TTCA
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAG-ATTGTTCA
* * * *
6990508 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGAACCCATTTTCCAAAGATTTTTCA
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCA
* * * *
6990563 ACTCCTATACTCCCTGAAAAAAGAGGGAGTGGACCCATTTTTCGAAGATTTTTCA
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCA
*
6990618 AGTCTTATACTCCCTGAAAGAAGAGGGAGC
1 AGTCCTATACTCCCTGAAAGAAGAGGGAGC
6990648 ATACCCGTCT
Statistics
Matches: 401, Mismatches: 64, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
54 10 0.02
55 335 0.84
56 56 0.14
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (55 bp):
AGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCA
Found at i:6990957 original size:16 final size:16
Alignment explanation
Indices: 6990936--6990969 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6990926 TATAAAATAA
6990936 TTATTTAATTTTTTAT
1 TTATTTAATTTTTTAT
6990952 TTATTTAATTTTTTAT
1 TTATTTAATTTTTTAT
6990968 TT
1 TT
6990970 TACAGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTAATTTTTTAT
Found at i:6999434 original size:22 final size:20
Alignment explanation
Indices: 6999408--6999455 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
6999398 TTTGATTTGT
6999408 TTTAATTTAGTCCTATTTTATG
1 TTTAATTTAGTCC-ATTTTA-G
* *
6999430 TTTAATTTATTCCCTTTTAG
1 TTTAATTTAGTCCATTTTAG
6999450 TTTAAT
1 TTTAAT
6999456 AATTTAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 5 0.21
22 12 0.50
ACGTcount: A:0.23, C:0.10, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTAATTTAGTCCATTTTAG
Found at i:7007543 original size:55 final size:55
Alignment explanation
Indices: 7007364--7007634 Score: 213
Period size: 51 Copynumber: 5.0 Consensus size: 55
7007354 TTGATGACAG
* * * * * *
7007364 TTTCAAATAAATTTATAAAAGAAGCTAAGCCTAATTTTTA-TGGTTTCTTGATAT
1 TTTCAAATGAATTTTTAAAAGAAACTAAGCCTAAATTTTAGGGGTTTCTTGATGT
* * *
7007418 TTTCAAATGAGTTTTT---AGAAACTAAGACTGAATTTTAGGGGTTTCTTGATGAT
1 TTTCAAATGAATTTTTAAAAGAAACTAAGCCTAAATTTTAGGGGTTTCTTGATG-T
* * *
7007471 GATTTCCAATGAATTTTTAAAAGAAACTAATCCTAAATTTTAGGGGTTTATTGATGT
1 --TTTCAAATGAATTTTTAAAAGAAACTAAGCCTAAATTTTAGGGGTTTCTTGATGT
* * * * *
7007528 TTTCAAATGAGTTTTT---AGAAATTAAGCAT-GATTTTCA-AGGTTTCTTGATGATT
1 TTTCAAATGAATTTTTAAAAGAAACTAAGCCTAAATTTT-AGGGGTTTCTTGATG--T
* * *
7007581 ATTTCCAAAT-AATTTTT-AAAGAAATTAAGCCTAATTTTTAAGGGTTTCTTGATG
1 -TTT-CAAATGAATTTTTAAAAGAAACTAAGCCTAAATTTTAGGGGTTTCTTGATG
7007635 ATAACTAAAA
Statistics
Matches: 173, Mismatches: 28, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
51 33 0.19
52 22 0.13
53 2 0.01
54 22 0.13
55 33 0.19
56 13 0.08
57 17 0.10
58 31 0.18
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (55 bp):
TTTCAAATGAATTTTTAAAAGAAACTAAGCCTAAATTTTAGGGGTTTCTTGATGT
Found at i:7007562 original size:109 final size:108
Alignment explanation
Indices: 7007341--7007634 Score: 355
Period size: 109 Copynumber: 2.7 Consensus size: 108
7007331 CATGTCTGGT
* * * * *
7007341 TTTTAGAGGCTTCTTGATGA-CAGTTTCAAATAAATTTATAAAAGAAGCTAAGCCTAATTTTTAT
1 TTTTAGAGGTTTCTTGATGATCA-TTTCCAAT-AATTTTTAAAAGAAACTAAGCCTAATTTTTAG
*
7007405 GGTTTCTTGATATTTTCAAATGAGTTTTTAGAAACTAAGACTGAA
64 GGTTTCTTGATGTTTTCAAATGAGTTTTTAGAAACTAAGACTGAA
* * * *
7007450 TTTTAGGGGTTTCTTGATGATGATTTCCAATGAATTTTTAAAAGAAACTAATCCTAAATTTTAGG
1 TTTTAGAGGTTTCTTGATGATCATTTCCAAT-AATTTTTAAAAGAAACTAAGCCTAATTTTTA-G
* *
7007515 GGTTTATTGATGTTTTCAAATGAGTTTTTAGAAATTAAG-CATG-A
64 GGTTTCTTGATGTTTTCAAATGAGTTTTTAGAAACTAAGAC-TGAA
* *
7007559 TTTTCA-AGGTTTCTTGATGATTATTTCCAAATAATTTTT-AAAGAAATTAAGCCTAATTTTTAA
1 TTTT-AGAGGTTTCTTGATGATCATTTCC-AATAATTTTTAAAAGAAACTAAGCCTAATTTTT-A
7007622 GGGTTTCTTGATG
63 GGGTTTCTTGATG
7007635 ATAACTAAAA
Statistics
Matches: 160, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
108 31 0.19
109 86 0.54
110 43 0.27
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (108 bp):
TTTTAGAGGTTTCTTGATGATCATTTCCAATAATTTTTAAAAGAAACTAAGCCTAATTTTTAGGG
TTTCTTGATGTTTTCAAATGAGTTTTTAGAAACTAAGACTGAA
Found at i:7007747 original size:42 final size:41
Alignment explanation
Indices: 7007689--7007806 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 41
7007679 AGGGTTTCTT
* *
7007689 GATGAGTAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGCAT
1 GATGA-TAAATCCTTCGGGCCATCTA-TAAGTCTTTCGAGCAA
* **
7007731 GATGCTTAAATCCTTCGGGTTATCTATAAGTCTTTCGAGCAA
1 GATG-ATAAATCCTTCGGGCCATCTATAAGTCTTTCGAGCAA
* * *
7007773 GATGATAAGTCTTTCGGGCCATCCATAAGATCTT
1 GATGATAAATCCTTCGGGCCATCTATAAG-TCTT
7007807 CGGGCAGGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 19 0.31
42 42 0.68
43 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (41 bp):
GATGATAAATCCTTCGGGCCATCTATAAGTCTTTCGAGCAA
Found at i:7009541 original size:22 final size:20
Alignment explanation
Indices: 7009515--7009562 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
7009505 TTCGATTTGT
7009515 TTTAATTTAGTCCTATTTTATG
1 TTTAATTTAGTCC-ATTTTA-G
* *
7009537 TTTAATTTATTCCCTTTTAG
1 TTTAATTTAGTCCATTTTAG
7009557 TTTAAT
1 TTTAAT
7009563 AATTTAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 5 0.21
22 12 0.50
ACGTcount: A:0.23, C:0.10, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTAATTTAGTCCATTTTAG
Found at i:7009592 original size:11 final size:11
Alignment explanation
Indices: 7009573--7009615 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
7009563 AATTTAATAG
7009573 TTATGTTTATT
1 TTATGTTTATT
*
7009584 TTATTTTTATT
1 TTATGTTTATT
*
7009595 TTATGTTGTTTT
1 TTATGTT-TATT
7009607 TTACTGTTT
1 TTA-TGTTT
7009616 TTAATTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 16 0.59
12 7 0.26
13 4 0.15
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.74
Consensus pattern (11 bp):
TTATGTTTATT
Found at i:7009639 original size:22 final size:21
Alignment explanation
Indices: 7009590--7009643 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
7009580 TATTTTATTT
7009590 TTATTTT-ATGTTGTTTTTTAC
1 TTATTTTAAT-TTGTTTTTTAC
*
7009611 TGT-TTTTAATTTGTTATTTTAG
1 T-TATTTTAATTTGTT-TTTTAC
7009633 TTATTTTAATT
1 TTATTTTAATT
7009644 AAGTTTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (21 bp):
TTATTTTAATTTGTTTTTTAC
Found at i:7015366 original size:22 final size:21
Alignment explanation
Indices: 7015341--7015381 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7015331 TATAAAAAAT
7015341 TATTTTTATTAAATATTTTTGG
1 TATTTTTATTAAAT-TTTTTGG
*
7015363 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
7015382 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGG
Found at i:7018591 original size:5 final size:5
Alignment explanation
Indices: 7018581--7018627 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
7018571 AACGGTCAAT
* *
7018581 GGTCG GGTCG GGTCG GGTCG GGTCG GGT-T GGTCG GGTCG GGTGG GGT
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGT
7018628 TAGACCGGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
4 3 0.08
5 35 0.92
ACGTcount: A:0.00, C:0.15, G:0.62, T:0.23
Consensus pattern (5 bp):
GGTCG
Found at i:7018615 original size:19 final size:19
Alignment explanation
Indices: 7018581--7018628 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
7018571 AACGGTCAAT
*
7018581 GGTCGGGTCGGGTCGGGTCG
1 GGTCGGGT-TGGTCGGGTCG
7018601 GGTCGGGTTGGTCGGGTCG
1 GGTCGGGTTGGTCGGGTCG
*
7018620 GGTGGGGTT
1 GGTCGGGTT
7018629 AGACCGGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.00, C:0.15, G:0.60, T:0.25
Consensus pattern (19 bp):
GGTCGGGTTGGTCGGGTCG
Found at i:7018651 original size:19 final size:19
Alignment explanation
Indices: 7018629--7018680 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
7018619 GGGTGGGGTT
*
7018629 AGACCGGTCAAATCAGTTC
1 AGACCGGTCAAAACAGTTC
*
7018648 AGACCGGTCAAAACGGTTC
1 AGACCGGTCAAAACAGTTC
7018667 -GAACCGGTCAAAAC
1 AG-ACCGGTCAAAAC
7018681 CGGTCGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 1 0.03
19 29 0.97
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (19 bp):
AGACCGGTCAAAACAGTTC
Found at i:7018681 original size:10 final size:10
Alignment explanation
Indices: 7018650--7018724 Score: 66
Period size: 10 Copynumber: 7.6 Consensus size: 10
7018640 ATCAGTTCAG
7018650 ACCGGTCAAA
1 ACCGGTCAAA
*
7018660 A-CGGTTC-GA
1 ACCGG-TCAAA
7018669 ACCGGTCAAA
1 ACCGGTCAAA
*
7018679 ACCGGTCGAA
1 ACCGGTCAAA
7018689 ACCGGTCAAA
1 ACCGGTCAAA
* *
7018699 CCCGGTTGAAA
1 ACCGG-TCAAA
*
7018710 ACAGGTC-AA
1 ACCGGTCAAA
7018719 ACCGGT
1 ACCGGT
7018725 TTCCAGCAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
9 14 0.27
10 30 0.59
11 7 0.14
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.13
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:7018691 original size:20 final size:20
Alignment explanation
Indices: 7018650--7018724 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
7018640 ATCAGTTCAG
7018650 ACCGGTCAAAA-CGGTTCG-A
1 ACCGGTCAAAACCGG-TCGAA
7018669 ACCGGTCAAAACCGGTCGAA
1 ACCGGTCAAAACCGGTCGAA
* *
7018689 ACCGGTCAAACCCGGTTGAAA
1 ACCGGTCAAAACCGGTCG-AA
*
7018710 ACAGGTC-AAACCGGT
1 ACCGGTCAAAACCGGT
7018725 TTCCAGCAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 14 0.29
20 27 0.55
21 8 0.16
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.13
Consensus pattern (20 bp):
ACCGGTCAAAACCGGTCGAA
Found at i:7025906 original size:9 final size:9
Alignment explanation
Indices: 7025868--7025941 Score: 67
Period size: 9 Copynumber: 7.7 Consensus size: 9
7025858 ATCGGTCCAG
7025868 ACCGGTCAA
1 ACCGGTCAA
7025877 ATCCGGTCAAA
1 A-CCGGTC-AA
* *
7025888 AACTGTCAA
1 ACCGGTCAA
7025897 ACCGGTCAA
1 ACCGGTCAA
7025906 ACCGGTCAAA
1 ACCGGTC-AA
* *
7025916 ACCAGTTGAAA
1 ACC-GGT-CAA
7025927 ACCGGTCAA
1 ACCGGTCAA
7025936 ACCGGT
1 ACCGGT
7025942 TTCCAGCAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
9 25 0.48
10 17 0.33
11 10 0.19
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.15
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:7025931 original size:30 final size:28
Alignment explanation
Indices: 7025868--7025941 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 28
7025858 ATCGGTCCAG
* *
7025868 ACCGGTCAAATCCGGTCAAAAACTGTCAA
1 ACCGGTCAAA-CCGGTCAAAAACAGTAAA
*
7025897 ACCGGTCAAACCGGTCAAAACCAGTTGAAA
1 ACCGGTCAAACCGGTCAAAAACAG-T-AAA
7025927 ACCGGTCAAACCGGT
1 ACCGGTCAAACCGGT
7025942 TTCCAGCAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 12 0.30
29 11 0.28
30 17 0.43
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.15
Consensus pattern (28 bp):
ACCGGTCAAACCGGTCAAAAACAGTAAA
Found at i:7026412 original size:17 final size:17
Alignment explanation
Indices: 7026385--7026417 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7026375 GTTTCAAAAC
7026385 GACGATCGGAATTCGGAT
1 GACGATCGGAA-TCGGAT
7026403 GACG-TCGGAATCGGA
1 GACGATCGGAATCGGA
7026418 GTTGGAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.18
Consensus pattern (17 bp):
GACGATCGGAATCGGAT
Found at i:7026754 original size:2 final size:2
Alignment explanation
Indices: 7026747--7026780 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7026737 TTTGCCGTGG
7026747 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
7026781 CTATTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7027085 original size:3 final size:3
Alignment explanation
Indices: 7027077--7027109 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7027067 CATTTTATTA
7027077 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7027110 TATTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7027691 original size:22 final size:21
Alignment explanation
Indices: 7027650--7027692 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7027640 ATTTATTATA
*
7027650 ATTTTAATAATGAAATAATAT
1 ATTTTAATAATGAAAAAATAT
7027671 ATTTTAATATTAT-AAAAAATAT
1 ATTTTAATA--ATGAAAAAATAT
7027693 TGAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 8 0.42
23 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTTTAATAATGAAAAAATAT
Found at i:7030646 original size:79 final size:76
Alignment explanation
Indices: 7030335--7030686 Score: 370
Period size: 79 Copynumber: 4.5 Consensus size: 76
7030325 TTTTTGAGCT
* ** *
7030335 ACAAGTTCTTCTCATTATGAACTTCTTCTTTGGAAATGTTGATCCACCTTTTTTTGTGATGGATG
1 ACAAGTTCTTCTCATTATGAACTTCTTCTTTGGAAATGTTGATCCAACTCCTTTTGTGATGAATG
7030400 AGTCAAGGTTGA
66 AG-CAAGGTTGA
* * * *
7030412 ACAAGTTTTTCTCATTATGAACTTCTTCTCTTGTAAATGTTGATCCACCT-CTTTCTGTGATGGA
1 ACAAGTTCTTCTCATTATGAACTTCTTCT-TTGGAAATGTTGATCCAACTCCTTT-TGTGATGAA
* *
7030476 TGAG-GATGTTGA
64 TGAGCAAGGTTGA
* * * * * * * * *
7030488 ACAAGCTCTTGTTATTATGAGCTTATT-TTCAGGGAAATGCTAATCCAACTCCTTATGTGATGGA
1 ACAAGTTCTTCTCATTATGAACTTCTTCTT--TGGAAATGTTGATCCAACTCCTTTTGTGAT-GA
7030552 ATTGAGCATAGGTTGA
63 A-TGAGCA-AGGTTGA
* *
7030568 ACAAGTTCTTCTCATTATGAACTTCTTCTTTGGGAAATGTTG-TCTAACTCCTTTTGTGACAGAA
1 ACAAGTTCTTCTCATTATGAACTTCTTCTTT-GGAAATGTTGATCCAACTCCTTTTGTGA-TGAA
7030632 TCGAGCAAAGGTTGA
64 T-GAGC-AAGGTTGA
*
7030647 ACAAGTTCTTCTCATTGTGAACTTCTTCTTTGGAAATGTT
1 ACAAGTTCTTCTCATTATGAACTTCTTCTTTGGAAATGTT
7030687 ACTCTTTCTT
Statistics
Matches: 229, Mismatches: 32, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
74 1 0.00
75 1 0.00
76 47 0.21
77 36 0.16
78 46 0.20
79 59 0.26
80 37 0.16
81 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (76 bp):
ACAAGTTCTTCTCATTATGAACTTCTTCTTTGGAAATGTTGATCCAACTCCTTTTGTGATGAATG
AGCAAGGTTGA
Found at i:7043517 original size:6 final size:6
Alignment explanation
Indices: 7043499--7043529 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
7043489 GATCATGTGG
*
7043499 ATGCAA ATCCAA ATGCAA ATGCAA ATGCAA A
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA A
7043530 AATGTACCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.19, G:0.13, T:0.16
Consensus pattern (6 bp):
ATGCAA
Found at i:7053914 original size:24 final size:23
Alignment explanation
Indices: 7053879--7053926 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
7053869 AAAAATGTCT
7053879 TAAAAATAATTTTAAAAAATAAA
1 TAAAAATAATTTTAAAAAATAAA
* **
7053902 TAAATAATCATTTTTTAAAATAAA
1 TAAA-AATAATTTTAAAAAATAAA
7053926 T
1 T
7053927 TGGTCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAAAATAATTTTAAAAAATAAA
Found at i:7056391 original size:3 final size:3
Alignment explanation
Indices: 7056383--7056407 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7056373 TCTCAAAATG
7056383 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
7056408 GAAAAATGTG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7056837 original size:23 final size:23
Alignment explanation
Indices: 7056781--7056830 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
7056771 AGCATCTCCA
7056781 TTCATGAAAAATAGTTAAGTATT
1 TTCATGAAAAATAGTTAAGTATT
7056804 TTCATGAAAAATAGTTAAGTATT
1 TTCATGAAAAATAGTTAAGTATT
7056827 TTCA
1 TTCA
7056831 CTCAAAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (23 bp):
TTCATGAAAAATAGTTAAGTATT
Found at i:7056837 original size:24 final size:23
Alignment explanation
Indices: 7056781--7056838 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
7056771 AGCATCTCCA
*
7056781 TTCATGAAAAATAGTTAAGTATT
1 TTCATCAAAAATAGTTAAGTATT
*
7056804 TTCATGAAAAATAGTTAAGTATT
1 TTCATCAAAAATAGTTAAGTATT
7056827 TTCACTCAAAAA
1 TTCA-TCAAAAA
7056839 GTCAAGTCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 27 0.82
24 6 0.18
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (23 bp):
TTCATCAAAAATAGTTAAGTATT
Found at i:7063524 original size:14 final size:15
Alignment explanation
Indices: 7063499--7063527 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7063489 CACCCAAAAA
7063499 GTTAAGTCTTTTCAT
1 GTTAAGTCTTTTCAT
7063514 GTTAA-TCTTTTCAT
1 GTTAAGTCTTTTCAT
7063528 CAAAAGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.55
Consensus pattern (15 bp):
GTTAAGTCTTTTCAT
Done.