Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_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: 4364108
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 17
Found at i:4023471 original size:271 final size:271
Alignment explanation
Indices: 4022978--4023590 Score: 790
Period size: 271 Copynumber: 2.3 Consensus size: 271
4022968 TAGTCTTTTA
* * * *
4022978 CTCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTTTTAAATGCACATA-T
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACA-ACT
*
4023042 AGACCTCAAAGGCACTTAGCCTTTCATCTAGATCGCATTAATGACACCTTTCAGTCAAATGCACA
65 AGGCCTCAAAGGCACTTAGCCTTTCATCTAGATCGCATTAATGACACCTTTCAGTCAAATGCACA
* * *
4023107 GCTAGGCCTCAAAGGAACTTAACCTTTCATCTAACTAGCATAACTGACACCTTTCTGTCAATTAC
130 GCCAAGCCTCAAAGGAACTTAACCTTTCATCTAACTAGCATAACTGACACCTTTCTGTCAAATAC
* * * * *
4023172 ACAGCTAGGTCTCAAAGGCACTTAGCCTTTCATCTAACT-GCA-TAATTGACACCTTTTTGTCAA
195 ACAGCTAGGCCTCAAAGGCACATAGCCTTTCACCTAACTGGAATTAA-TGACACCTTTCTGTCAA
* *
4023235 ACGCATATCTAGG
259 ACGCACAGCTAGG
* * *
4023248 TCTCAGAGGCACTTAGCCTTTCATCTAACTGGCATTAA-TGACACCTTTCTGCCAAATACACAAC
1 -CTCAAAGGCACTTAGCCTTTCATCTAACTGGCA-TAATTGACACCTTTCTGTCAAATGCACAAC
* * * **
4023312 TAGGCCTCAAAGGCACTTAGCTTTTCATTTA-ACTGGCA-TAATTGACACCTTTCTTTCAAATGC
64 TAGGCCTCAAAGGCACTTAGCCTTTCATCTAGA-TCGCATTAA-TGACACCTTTCAGTCAAATGC
** * * *
4023375 ACAGCCAAGCCTCAAAGGCGCTTAGCCTTTCATCTAACTCGCATAATTGACACCTTTCAT-TCAA
127 ACAGCCAAGCCTCAAAGGAACTTAACCTTTCATCTAACTAGCATAACTGACACCTTTC-TGTCAA
*
4023439 ATACACAGCTAGGCCTGAAAGGCACATAGCCTTTCACCTAACTGGAATTAATGACACCTTTCTGT
191 ATACACAGCTAGGCCTCAAAGGCACATAGCCTTTCACCTAACTGGAATTAATGACACCTTTCTGT
* *
4023504 CAAATGCACGGCTAGG
256 CAAACGCACAGCTAGG
* * *
4023520 CGTCAAAGGCAACTTAGCCTTTTATCTAACTGGCATAATTGACACATTTCTGTGAAATGCACAAC
1 C-TCAAAGGC-ACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAAC
4023585 TAGGCC
64 TAGGCC
4023591 ATTAATCTTT
Statistics
Matches: 295, Mismatches: 37, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
270 5 0.02
271 195 0.66
272 41 0.14
273 54 0.18
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (271 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTA
GGCCTCAAAGGCACTTAGCCTTTCATCTAGATCGCATTAATGACACCTTTCAGTCAAATGCACAG
CCAAGCCTCAAAGGAACTTAACCTTTCATCTAACTAGCATAACTGACACCTTTCTGTCAAATACA
CAGCTAGGCCTCAAAGGCACATAGCCTTTCACCTAACTGGAATTAATGACACCTTTCTGTCAAAC
GCACAGCTAGG
Found at i:4023839 original size:55 final size:54
Alignment explanation
Indices: 4023764--4023962 Score: 204
Period size: 55 Copynumber: 3.6 Consensus size: 54
4023754 TCTACTGCCA
* * * * * **
4023764 ATACGGAAATTCA-CCTACTTATTATGAACTTCTTATATTTGTACATATATTTTCC
1 ATACGGAAATTCATAC-ACTTAGTATGAACTTCTTAT-TTTGCACACATAGTACCC
* * * * * *
4023819 ATATGGAAATTCATACACTTAGTATGAATTTCTCAGTTTGCACACCTAGTGCCC
1 ATACGGAAATTCATACACTTAGTATGAACTTCTTATTTTGCACACATAGTACCC
* *
4023873 ATACGAAAATTCATACACTTAGTATG-ACTTTCTTAGTTTTGCACACATAGCACCC
1 ATACGGAAATTCATACACTTAGTATGAAC-TTCTTA-TTTTGCACACATAGTACCC
*
4023928 ATACGGAAATTCATACACTTAGTATGAATTTCTTA
1 ATACGGAAATTCATACACTTAGTATGAACTTCTTA
4023963 GCTTTTTCAC
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 41 0.35
55 74 0.63
56 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (54 bp):
ATACGGAAATTCATACACTTAGTATGAACTTCTTATTTTGCACACATAGTACCC
Found at i:4023963 original size:55 final size:55
Alignment explanation
Indices: 4023817--4023974 Score: 228
Period size: 55 Copynumber: 2.9 Consensus size: 55
4023807 CATATATTTT
* * * **
4023817 CCATATGGAAATTCATACACTTAGTATGAATTTCTCAG-TTTGCACACCTAGTGC
1 CCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGCAC
* *
4023871 CCATACGAAAATTCATACACTTAGTATGACTTTCTTAGTTTTGCACACATAGCAC
1 CCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGCAC
*
4023926 CCATACGGAAATTCATACACTTAGTATGAATTTCTTAGCTTTTTCACAC
1 CCATACGGAAATTCATACACTTAGTATGAATTTCTTAG-TTTTGCACAC
4023975 TTAGTGTAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 34 0.37
55 49 0.53
56 9 0.10
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (55 bp):
CCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGCAC
Found at i:4028007 original size:45 final size:45
Alignment explanation
Indices: 4027958--4028269 Score: 453
Period size: 45 Copynumber: 6.9 Consensus size: 45
4027948 TCATGCTTAA
* *
4027958 AATGCATCTATATGCATTTCAATTATGGCATCCTTTCATGCCGAG
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAG
* * * * *
4028003 AATGCACCCATATTCATTTAAATTATAGAATCCTTTCATGCCGAT
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAG
*
4028048 AATGTACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAG
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAG
* * * * * *
4028093 AATACACCCATATGCATTTCAATTATGGCATCTTTTCGTACCAAT
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAG
* *
4028138 AATGCACCCATATGAATTTCAATTATGGCATCATTTCATGCCGAG
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAG
*
4028183 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAT
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAG
**
4028228 AATGCACCCATATGCATTTCAATTATGAAATCCTTTCATGCC
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCC
4028270 TTTTATACAC
Statistics
Matches: 235, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 235 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (45 bp):
AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAG
Found at i:4028291 original size:45 final size:45
Alignment explanation
Indices: 4028197--4028503 Score: 393
Period size: 45 Copynumber: 6.8 Consensus size: 45
4028187 CACCCATATG
* ** * * * *
4028197 CATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCA-TATG
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACA-CTATTATA
* **
4028242 CATTTCAATTATGAAATCCTTTCATGCCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
* * *
4028287 CATTTCATTTATAGCA-CCTCATCATGCCTTTTATACATTATTATA
1 CATTTCATTTATGGCATCCT-TTCATGCCTTTTATACACTATTATA
*
4028332 CATTTCATTTATGGCATACTTTCATGCCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
* **
4028377 CATTTCATATATGGCATATTTTCATGCCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
* *
4028422 CATTTCCTTTATGGCATCCTTTTATGCCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
* *
4028467 CATTTCATTTATGACATCCTTTCACGCCTTTTATACA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACA
4028504 ACGTTATGCA
Statistics
Matches: 230, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
44 5 0.02
45 223 0.97
46 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (45 bp):
CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
Found at i:4028312 original size:90 final size:90
Alignment explanation
Indices: 4027958--4028488 Score: 383
Period size: 90 Copynumber: 5.9 Consensus size: 90
4027948 TCATGCTTAA
* * **** * * *
4027958 AATGCATCTATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCA-TATTCATTT
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTTTTATACA-CTATTATACATTT
* * * *
4028022 AAATTATAGAATCC-TTTCATGCCGAT
65 CATTTATGGCA-CCTTTTCATGCCGAT
* **** * *
4028048 AATGTACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATACACCCA-TATGCATTT
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTTTTATACA-CTATTATACATTT
* * * * *
4028112 CAATTATGGCATCTTTTCGTACCAAT
65 CATTTATGGCACCTTTTCATGCCGAT
* * **** * * *
4028138 AATGCACCCATATGAATTTCAATTATGGCATCATTTCATGCCGAGAATGCACCCA-TATGCATTT
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTTTTATACA-CTATTATACATTT
*
4028202 CAATTATGGCATCC-TTTCATGCCGAT
65 CATTTATGGCA-CCTTTTCATGCCGAT
**
4028228 AATGCACCCATATGCATTTCAATTATGAAATCCTTTCATGCCTTTTATACACTATTATACATTTC
1 AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTC
* ** **
4028293 ATTTATAGCACCTCATCATGCCTTT
66 ATTTATGGCACCTTTTCATGCCGAT
* * ** * * *
4028318 TATACA-TTATTATACATTTCATTTATGGCATACTTTCATGCCTTTTATACACTATTATACATTT
1 AATGCACCCA-TATGCATTTCAATTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTT
* ** **
4028382 CATATATGGCATATTTTCATGCCTTT
65 CATTTATGGCACCTTTTCATGCCGAT
* * * * ** *
4028408 TATACA-CTATTATACATTTCCTTTATGGCATCCTTTTATGCCTTTTATACACTATTATACATTT
1 AATGCACCCA-TATGCATTTCAATTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTT
*
4028472 CATTTATGACATCCTTT
65 CATTTATGGCA-CCTTT
4028489 CACGCCTTTT
Statistics
Matches: 375, Mismatches: 60, Indels: 11
0.84 0.13 0.02
Matches are distributed among these distances:
89 6 0.02
90 365 0.97
91 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (90 bp):
AATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTC
ATTTATGGCACCTTTTCATGCCGAT
Found at i:4028312 original size:135 final size:134
Alignment explanation
Indices: 4027967--4028439 Score: 402
Period size: 135 Copynumber: 3.5 Consensus size: 134
4027957 AAATGCATCT
* **** * * * * *
4027967 ATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCA-TATTCATTTAAATTATAG
1 ATATGCATTTCAATTATGGCATCTTTTCATGCCTTTTATACA-CTATTATACATTTCATTTATAG
* * * *
4028031 AATCCTTTCATGCCGATAATGTACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
65 CAT-CATTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATAAT
4028096 ACACCC
129 ACACCC
* * ** * * * * *
4028102 ATATGCATTTCAATTATGGCATCTTTTCGTACCAATAATGCACCCA-TATGA-ATTTCAATTATG
1 ATATGCATTTCAATTATGGCATCTTTTCATGCCTTTTATACA-CTATTAT-ACATTTCATTTATA
*
4028165 GCATCATTTCATGCCGAGAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATAA
64 GCATCA-TTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATAA
*
4028230 TGCACCC
128 TACACCC
** *
4028237 ATATGCATTTCAATTATGAAATCCTTTCATGCCTTTTATACACTATTATACATTTCATTTATAGC
1 ATATGCATTTCAATTATGGCATCTTTTCATGCCTTTTATACACTATTATACATTTCATTTATAGC
** * * ** * * * ** *
4028302 ACCTCA-TCATGCCTTTTATACA-TTATTATACATTTCATTTATGGCATACTTTCATGCCTTTTA
66 A--TCATTCATGCCGATAATGCACCCA-TATGCATTTCAATTATGGCATCCTTTCATGCCGATAA
*
4028365 TACA-CT
128 TACACCC
* * * *
4028371 ATTATACATTTC-ATATATGGCATATTTTCATGCCTTTTATACACTATTATACATTTCCTTTATG
1 A-TATGCATTTCAAT-TATGGCATCTTTTCATGCCTTTTATACACTATTATACATTTCATTTATA
4028435 GCATC
64 GCATC
4028440 CTTTTATGCC
Statistics
Matches: 281, Mismatches: 48, Indels: 20
0.81 0.14 0.06
Matches are distributed among these distances:
133 2 0.01
134 9 0.03
135 267 0.95
137 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (134 bp):
ATATGCATTTCAATTATGGCATCTTTTCATGCCTTTTATACACTATTATACATTTCATTTATAGC
ATCATTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATAATAC
ACCC
Found at i:4028653 original size:68 final size:68
Alignment explanation
Indices: 4028536--4028762 Score: 201
Period size: 68 Copynumber: 3.3 Consensus size: 68
4028526 TAGACTTTTA
* * * * *
4028536 CTCAAAGGCACTTAGACTTTCATCTAACTGGCATAATTGACATCTTTCTGTCAAATGCAAAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATCGACACCATTCTGTCAAATGCAAAGCTA
4028601 GGC
66 GGC
* * * *
4028604 CTCAAAGGCACTTAGCCTTTCATCTAATTGACATTAA-CGTCACCATTCTGTCAAATTCACAGCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGACA-TAATCGACACCATTCTGTCAAATGCAAAGCT
4028668 AGGC
65 AGGC
* * * * * * **
4028672 CTTAAAGACACTTAACCTTTCATTTAACT-AGCATAATTC-ATA-CATTTCTGTCAAACGCACTG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGA-CATAA-TCGACACCA-TTCTGTCAAATGCAAAG
4028734 CTAGGC
63 CTAGGC
** * *
4028740 CTCATTGGCATTTAACCTTTCAT
1 CTCAAAGGCACTTAGCCTTTCAT
4028763 ACAACTAGGC
Statistics
Matches: 130, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
67 6 0.05
68 120 0.92
69 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATCGACACCATTCTGTCAAATGCAAAGCTA
GGC
Found at i:4028835 original size:58 final size:58
Alignment explanation
Indices: 4028767--4028881 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 58
4028757 TTTCATACAA
* *
4028767 CTAGGCCTCAAAGGCACTTAACCTTTCATCTAACAAGCATTAA-TGATACCTTTTTGTG
1 CTAGGCCTCAAAGGCACTTAACCTTTCATCTAACAAGCA-TAATTAACACCTTTTTGTG
* * * * *
4028825 CTAGGTCTCAAAGGTACTTAGCTTTTCATCTAACTAGCATAATTAACACCTTTTTGT
1 CTAGGCCTCAAAGGCACTTAACCTTTCATCTAACAAGCATAATTAACACCTTTTTGT
4028882 CAAATGCACA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
57 3 0.06
58 46 0.94
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (58 bp):
CTAGGCCTCAAAGGCACTTAACCTTTCATCTAACAAGCATAATTAACACCTTTTTGTG
Found at i:4028951 original size:68 final size:68
Alignment explanation
Indices: 4028824--4029103 Score: 337
Period size: 68 Copynumber: 4.1 Consensus size: 68
4028814 ACCTTTTTGT
* * * *
4028824 GCTAGGTCTCAAAGGTACTTAGCTTTTCATCTAACTAGCATAATTAACACCTTTTTGTCAAATGC
1 GCTAGGCCTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGC
4028889 ACA
66 ACA
* * * * * ** * *
4028892 GTTAGGCCACAAAGGCACCTAGCCTTTCATCTAACTGGCATAATTTAGGCATTTCTGTCATATGC
1 GCTAGGCCTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGC
*
4028957 ACG
66 ACA
* * * * *
4028960 GCTAGGCCTTAAAGGGACTTAGCCTTTCATCTAACTCGCATTAA-TGACACCTTTCTTTCAAATG
1 GCTAGGCCTCAAAGGTACTTAGCCTTTCATCTAACTGGCA-TAATTAACACCTTTCTGTCAAATG
4029024 CACA
65 CACA
* * * *
4029028 GCTAGGCCTCAAAGGTACTTAGCCTTTCATCTAACTGGCGTAATTAACAACTTTGTGTCAAATAC
1 GCTAGGCCTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGC
4029093 ACA
66 ACA
4029096 GCTAGGCC
1 GCTAGGCC
4029104 ATTAATCTTT
Statistics
Matches: 174, Mismatches: 36, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
67 3 0.02
68 168 0.97
69 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (68 bp):
GCTAGGCCTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGC
ACA
Found at i:4029440 original size:55 final size:55
Alignment explanation
Indices: 4029317--4029476 Score: 250
Period size: 55 Copynumber: 2.9 Consensus size: 55
4029307 ACATATATTT
**
4029317 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTTGCACACCTAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTG
*
4029371 CCCATACGAAAATTCATACACTTAGTATGAATTTATTAGTTTTGCACACAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTG
* *
4029426 CCCATACGAAAATTCAAACTCTTAGTATGAATTTCTTAGCTTTTTGCACAC
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAG--TTTTGCACAC
4029477 TCAGCGCAAT
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
54 38 0.39
55 49 0.51
57 10 0.10
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (55 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTG
Found at i:4029938 original size:19 final size:19
Alignment explanation
Indices: 4029896--4029946 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
4029886 GTTTTGGAAT
*
4029896 GGTATCAATACCATCCCTTT
1 GGTATCAATACCA-CCCTTC
4029916 GGTATCAATACTC-CCCTTC
1 GGTATCAATAC-CACCCTTC
*
4029935 GGTATCGATACC
1 GGTATCAATACC
4029947 GATCGAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 11 0.39
21 1 0.04
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (19 bp):
GGTATCAATACCACCCTTC
Found at i:4037513 original size:45 final size:45
Alignment explanation
Indices: 4037464--4037816 Score: 474
Period size: 45 Copynumber: 7.9 Consensus size: 45
4037454 TGCTTAAAAG
* *
4037464 GCACCTATATGCATTTCAATTATGGCATCCTTTTATGCCGAGAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
*
4037509 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
*
4037554 GCACCCATATGCA-TTCATTTATGGCATCCTTTCATGCCGAGAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
* ** **
4037598 GCACCCATATGCATTTCAATTATGGAATATTTTCATGGTGAGAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
* * * * *
4037643 GTACCCATATGCATTTCAGTTATGGCATCTTTTCATGCCAATAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
* * * * * * *
4037688 GCACCTATAGGAATTTCAATTATGACATCCTTTCATTCTGAGATT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
*
4037733 GCACCCACATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
** *
4037778 GCACCCATATGCATTTCAATTATGAAATCCATTCATGCC
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCC
4037817 TTTTATACAC
Statistics
Matches: 264, Mismatches: 43, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
44 42 0.16
45 222 0.84
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (45 bp):
GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGAGAAT
Found at i:4037838 original size:45 final size:45
Alignment explanation
Indices: 4037744--4038005 Score: 330
Period size: 45 Copynumber: 5.8 Consensus size: 45
4037734 CACCCACATG
* **** * * *
4037744 CATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCA-TATG
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACA-CTATTATA
* ** *
4037789 CATTTCAATTATGAAATCCATTCATGCCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
*
4037834 CATTTCATTTATGGCA-CCTTTTCATGACTTTTATACACTATTATA
1 CATTTCATTTATGGCATCC-TTTCATGCCTTTTATACACTATTATA
*
4037879 CATTTCATTTATGGCATACTTTCATGCCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
* *
4037924 CATTTCATTTATGGCATCCTTTCATACCTTTTATACACTGTTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
* *
4037969 CATTTCATTTATGGCATCATTTCATGCCTTCTATACA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACA
4038006 ACGTTATGCA
Statistics
Matches: 191, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
44 4 0.02
45 186 0.97
46 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (45 bp):
CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
Found at i:4037838 original size:90 final size:89
Alignment explanation
Indices: 4037465--4037948 Score: 424
Period size: 90 Copynumber: 5.4 Consensus size: 89
4037455 GCTTAAAAGG
* *
4037465 CACCTATATGCATTTCAATTATGGCATCCTTTTATGCCGAGAATGCACCCATATGCATTTCAATT
1 CACC-ATATGCATTTCATTTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
* * *
4037530 ATGGCATCCTTTCATGCCGATAATG
65 ATGGCATCCTTTCATGCCTATTATA
4037555 CACCCATATGCA-TTCATTTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
1 CA-CCATATGCATTTCATTTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
* ** * * *
4037619 ATGGAATATTTTCATG-GTGAGAATGTA
65 ATGGCATCCTTTCATGCCT---ATTATA
* * * * * * *
4037646 C-CCATATGCATTTCAGTTATGGCATCTTTTCATGCCAATAATGCACCTATAGGAATTTCAATTA
1 CACCATATGCATTTCATTTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATTA
* * * *
4037710 TGACATCCTTTCAT-TCTGA-GATTG
66 TGGCATCCTTTCATGCCT-ATTA-TA
* *
4037734 CACCCACATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
1 CA-CCATATGCATTTCATTTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
** * *
4037799 ATGAAATCCATTCATGCCTTTTATA
65 ATGGCATCCTTTCATGCCTATTATA
* * * **** * * * *
4037824 CACTATTATACATTTCATTTATGGCA-CCTTTTCATGACTTTTATACA-CTATTATACATTTCAT
1 CACCA-TATGCATTTCATTTATGGCATCC-TTTCATGCCGAGAATGCACCCA-TATGCATTTCAA
* *
4037887 TTATGGCATACTTTCATGCCTTTTATA
63 TTATGGCATCCTTTCATGCCTATTATA
* *
4037914 CACTATTATACATTTCATTTATGGCATCCTTTCAT
1 CACCA-TATGCATTTCATTTATGGCATCCTTTCAT
4037949 ACCTTTTATA
Statistics
Matches: 322, Mismatches: 57, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
88 4 0.01
89 78 0.24
90 230 0.71
91 10 0.03
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (89 bp):
CACCATATGCATTTCATTTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATTA
TGGCATCCTTTCATGCCTATTATA
Found at i:4037839 original size:135 final size:135
Alignment explanation
Indices: 4037472--4037859 Score: 487
Period size: 135 Copynumber: 2.9 Consensus size: 135
4037462 AGGCACCTAT
*
4037472 ATGCATTTCAATTATGGCATCCTTTTATGCCGAGAATGCACCCATATGCATTTCAATTATGGCAT
1 ATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATTATGGCAT
* * *
4037537 CCTTTCATGCCGATAATGCACCCATATGCA-TTCATTTATGGCATCCTTTCATGCCGAGAATGCA
66 CCTTTCATGCCAATAATGCACCTATATACATTTCATTTATGGCATCCTTTCATGCCGAGAATGCA
*
4037601 CCCAT
131 CCCAC
* ** ** * *
4037606 ATGCATTTCAATTATGGAATATTTTCATGGTGAGAATGTACCCATATGCATTTCAGTTATGGCAT
1 ATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATTATGGCAT
* * * * * * *
4037671 CTTTTCATGCCAATAATGCACCTATAGGA-ATTTCAATTATGACATCCTTTCATTCTGAGATTGC
66 CCTTTCATGCCAATAATGCACCTATA-TACATTTCATTTATGGCATCCTTTCATGCCGAGAATGC
4037735 ACCCAC
130 ACCCAC
**
4037741 ATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATTATGAAAT
1 ATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATTATGGCAT
* ** * *
4037806 CCATTCATGCCTTTTATACA-CTATTATACATTTCATTTATGGCA-CCTTTTCATG
66 CCTTTCATGCCAATAATGCACCTA-TATACATTTCATTTATGGCATCC-TTTCATG
4037860 ACTTTTATAC
Statistics
Matches: 211, Mismatches: 38, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
134 87 0.41
135 124 0.59
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (135 bp):
ATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATTATGGCAT
CCTTTCATGCCAATAATGCACCTATATACATTTCATTTATGGCATCCTTTCATGCCGAGAATGCA
CCCAC
Found at i:4037883 original size:135 final size:135
Alignment explanation
Indices: 4037465--4038005 Score: 479
Period size: 135 Copynumber: 4.0 Consensus size: 135
4037455 GCTTAAAAGG
* * *
4037465 CACCTATATGCATTTCAATTATGGCATCCTTTTATGCCGAGAATGCACCCATATGCATTTCAATT
1 CACCCATATGCATTTCAATTATGGCATACTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
* * * * *
4037530 ATGGCATCCTTTCATGCCGATAATGCACCCATATGCA-TTCATTTATGGCATCCTTTCATGCC-G
66 ATGGCATCCTTTCATGCCTATAATACACCTATATACATTTCATTTATGGCATCCTTTCATGCCTT
* *
4037593 AGAATG
131 A-TATA
* * ** * *
4037599 CACCCATATGCATTTCAATTATGGAATATTTTCATGGTGAGAATGTACCCATATGCATTTCAGTT
1 CACCCATATGCATTTCAATTATGGCATACTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
* * * * * * *
4037664 ATGGCATCTTTTCATGCCAATAATGCACCTATAGGA-ATTTCAATTATGACATCCTTTCAT-TCT
66 ATGGCATCCTTTCATGCCTATAATACACCTATA-TACATTTCATTTATGGCATCCTTTCATGCCT
* * *
4037727 GAGATTG
130 TATA-TA
* *
4037734 CACCCACATGCATTTCAATTATGGCATCCTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
1 CACCCATATGCATTTCAATTATGGCATACTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
** * * * *
4037799 ATGAAATCCATTCATGCCTTTTATACA-CTATTATACATTTCATTTATGGCA-CCTTTTCATGAC
66 ATGGCATCCTTTCATGCCTATAATACACCTA-TATACATTTCATTTATGGCATCC-TTTCATGCC
*
4037862 TTTTATA
129 TTATATA
* * * **** * * * *
4037869 CA-CTATTATACATTTCATTTATGGCATACTTTCATGCCTTTTATACA-CTATTATACATTTCAT
1 CACCCA-TATGCATTTCAATTATGGCATACTTTCATGCCGAGAATGCACCCA-TATGCATTTCAA
* * * * *
4037932 TTATGGCATCCTTTCATACCTTTTATACA-CTGTTATACATTTCATTTATGGCATCATTTCATGC
64 TTATGGCATCCTTTCATGCCTATAATACACCT-ATATACATTTCATTTATGGCATCCTTTCATGC
*
4037996 CTTCTATA
128 CTTATATA
4038004 CA
1 CA
4038006 ACGTTATGCA
Statistics
Matches: 332, Mismatches: 63, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
134 99 0.30
135 229 0.69
136 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.38
Consensus pattern (135 bp):
CACCCATATGCATTTCAATTATGGCATACTTTCATGCCGAGAATGCACCCATATGCATTTCAATT
ATGGCATCCTTTCATGCCTATAATACACCTATATACATTTCATTTATGGCATCCTTTCATGCCTT
ATATA
Found at i:4038150 original size:68 final size:69
Alignment explanation
Indices: 4038038--4038436 Score: 470
Period size: 68 Copynumber: 6.0 Consensus size: 69
4038028 AAGACTCTTA
* * * *
4038038 CTCAAAGGCACTTAGACTTTCATGTAACTGGC-TTAATGGACACCTTTCTGTCAAATGCACAACT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATTAATTGACACCTTTCTGTCAAATGCACAGCT
4038102 AGGC
66 AGGC
* * *
4038106 CTCAAAGGCACTTAGCCTTTTATCTAACTGGCATTAA-CGCCACCTTTCTGTCAAATGCACAGCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATTAATTGACACCTTTCTGTCAAATGCACAGCT
4038170 AGGC
66 AGGC
* *
4038174 CTCAAAGACACTTAGCCTTTCATCTAACTGGCA-TAATTGACACCTTTCTGTCAAACGCACAGCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATTAATTGACACCTTTCTGTCAAATGCACAGCT
4038238 AGGC
66 AGGC
* * ** *
4038242 CTCAAAGGCACTTAACCTTTTATCTAACTAACATTAA-TGACACC--T-T-T---ATG---TGCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATTAATTGACACCTTTCTGTCAAATGCACAGCT
4038296 AGGC
66 AGGC
* * * *
4038300 CTCAAAGGGACTTAGCCTTTCATCTAACTAGCATTAA-TGACACCTTTCTATCAAATGCACAGGT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATTAATTGACACCTTTCTGTCAAATGCACAGCT
4038364 AGGC
66 AGGC
* * * * * *
4038368 CTTAAATGTACTTAGCCTTTCATCTAACTGGC-GTAATTGATAACTTTCTGTCAAATGCACAGCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATTAATTGACACCTTTCTGTCAAATGCACAGCT
4038432 AGGC
66 AGGC
4038436 C
1 C
4038437 ATTAATCTTT
Statistics
Matches: 284, Mismatches: 33, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
58 47 0.17
60 1 0.00
61 3 0.01
62 1 0.00
64 1 0.00
65 4 0.01
66 1 0.00
67 6 0.02
68 213 0.75
69 7 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (69 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATTAATTGACACCTTTCTGTCAAATGCACAGCT
AGGC
Found at i:4038325 original size:58 final size:58
Alignment explanation
Indices: 4038235--4038346 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
4038225 CAAACGCACA
*
4038235 GCTAGGCCTCAAAGGCACTTAACCTTTTATCTAACTAACATTAATGACACCTTTATGT
1 GCTAGGCCTCAAAGGCACTTAACCTTTCATCTAACTAACATTAATGACACCTTTATGT
* * *
4038293 GCTAGGCCTCAAAGGGACTTAGCCTTTCATCTAACTAGCATTAATGACACCTTT
1 GCTAGGCCTCAAAGGCACTTAACCTTTCATCTAACTAACATTAATGACACCTTT
4038347 CTATCAAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (58 bp):
GCTAGGCCTCAAAGGCACTTAACCTTTCATCTAACTAACATTAATGACACCTTTATGT
Found at i:4038393 original size:126 final size:126
Alignment explanation
Indices: 4038167--4038396 Score: 345
Period size: 126 Copynumber: 1.8 Consensus size: 126
4038157 CAAATGCACA
* *
4038167 GCTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAACGC
1 GCTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTATCAAACGC
*
4038232 ACAGCTAGGCCTCAAAGGCACTTAACCTTTTATCTAACTAACATTAATGACACCTTTATGT
66 ACAGCTAGGCCTCAAAGGCACTTAACCTTTCATCTAACTAACATTAATGACACCTTTATGT
** *
4038293 GCTAGGCCTCAAAGGGACTTAGCCTTTCATCTAACTAGCATTAA-TGACACCTTTCTATCAAATG
1 GCTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTAGCA-TAATTGACACCTTTCTATCAAACG
* * * * *
4038357 CACAGGTAGGCCTTAAATGTACTTAGCCTTTCATCTAACT
65 CACAGCTAGGCCTCAAAGGCACTTAACCTTTCATCTAACT
4038397 GGCGTAATTG
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
126 89 0.97
127 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (126 bp):
GCTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTATCAAACGC
ACAGCTAGGCCTCAAAGGCACTTAACCTTTCATCTAACTAACATTAATGACACCTTTATGT
Found at i:4051996 original size:15 final size:15
Alignment explanation
Indices: 4051972--4052001 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4051962 AGTGCATTTA
*
4051972 ATTGTGTAACTATAT
1 ATTGTATAACTATAT
4051987 ATTGTATAACTATAT
1 ATTGTATAACTATAT
4052002 GTTATACTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
ATTGTATAACTATAT
Found at i:4052141 original size:54 final size:54
Alignment explanation
Indices: 4052058--4052480 Score: 564
Period size: 54 Copynumber: 7.8 Consensus size: 54
4052048 TTACCAAATA
* * *
4052058 GGCACTAAGTGTGGAAATCACGGAATTCATCATATATTCATGAATAACCATTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCATTTC
* *
4052112 TGCACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAA-CAGTTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCA-TTTC
* * * * *
4052166 GGCGCTAAGTGTACAAATCACGAAATTCATCATATGTTGGTGAATAACCGTTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCATTTC
* * *
4052220 GGCAATAAGTGTACAAATCACGGAATTCATCATATGTTGATGAATAACCATTAC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCATTTC
* *** *
4052274 GGTACTAAGTGTGCAAATCATATAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCATTTC
* * *
4052328 GGCATTAAGTGTGCAAATCATGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCATTTC
4052382 GGCACTAAGTGTGCAAAGT-ACGGAATTCATCATATGTTGATGAATAACCATTTC
1 GGCACTAAGTGTGCAAA-TCACGGAATTCATCATATGTTGATGAATAACCATTTC
* ** * *
4052436 GGCAC-AATGTGTGCAAACCACAAAATTCATAATATGTTTATGAAT
1 GGCACTAA-GTGTGCAAATCACGGAATTCATCATATGTTGATGAAT
4052481 GACTGTAAGG
Statistics
Matches: 326, Mismatches: 38, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
53 4 0.01
54 320 0.98
55 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (54 bp):
GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCATTTC
Found at i:4052330 original size:162 final size:162
Alignment explanation
Indices: 4052058--4052480 Score: 625
Period size: 162 Copynumber: 2.6 Consensus size: 162
4052048 TTACCAAATA
* * * *
4052058 GGCACTAAGTGTGGAAATCACGGAATTCATCATATATTCATGAATAACCATTTCTGCACTAAGTG
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTG
* *
4052123 TGCAAATCACAGAATTCATCATATGTTGATGAATAACAGTTTCGGCGCTAAGTGTACAAATCACG
66 TGCAAATCACAAAATTCATCATATGTTGATGAATAACAGTTTCGGCACTAAGTGTACAAATCACG
*
4052188 AAATTCATCATATGTTGGTGAATAACCGTTTC
131 AAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
4052220 GGCAATAAGTGTACAAATCACGGAATTCATCATATGTTGATGAATAACCATTACGGTACTAAGTG
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTG
* * * * * *
4052285 TGCAAATCATATAATTCATCATATGTTGATGAATAACCGTTTCGGCATTAAGTGTGCAAATCATG
66 TGCAAATCACAAAATTCATCATATGTTGATGAATAACAGTTTCGGCACTAAGTGTACAAATCACG
*
4052350 GAATTCATCATATGTTGATGAATAACCGTTTC
131 AAATTCATCATATGTTGATGAATAACCGTTTC
4052382 GGCACTAAGTGTGCAAAGT-ACGGAATTCATCATATGTTGATGAATAACCATTTCGGCAC-AATG
1 GGCACTAAGTGTGCAAA-TCACGGAATTCATCATATGTTGATGAATAACCATTTCGGCACTAA-G
* * *
4052445 TGTGCAAACCACAAAATTCATAATATGTTTATGAAT
64 TGTGCAAATCACAAAATTCATCATATGTTGATGAAT
4052481 GACTGTAAGG
Statistics
Matches: 233, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
161 2 0.01
162 230 0.99
163 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (162 bp):
GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTG
TGCAAATCACAAAATTCATCATATGTTGATGAATAACAGTTTCGGCACTAAGTGTACAAATCACG
AAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:4052747 original size:32 final size:32
Alignment explanation
Indices: 4052706--4052766 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
4052696 AGTAACAATA
4052706 TGACATACATGTATACTTTTGATTTATTTTAG
1 TGACATACATGTATACTTTTGATTTATTTTAG
4052738 TGACATACATGTATACTTTTGATTTATTT
1 TGACATACATGTATACTTTTGATTTATTT
4052767 GAATTAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.51
Consensus pattern (32 bp):
TGACATACATGTATACTTTTGATTTATTTTAG
Found at i:4070469 original size:29 final size:29
Alignment explanation
Indices: 4070437--4070492 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
4070427 AATATATTTA
*
4070437 GACCAATTTGA-AATTTTGAAAAAGTTAGG
1 GACCAATTTGATAATTTAG-AAAAGTTAGG
*
4070466 GACCTATTTGATAATTTAGAAAAGTTA
1 GACCAATTTGATAATTTAGAAAAGTTA
4070493 TGGGGTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (29 bp):
GACCAATTTGATAATTTAGAAAAGTTAGG
Found at i:4070577 original size:19 final size:21
Alignment explanation
Indices: 4070544--4070582 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4070534 TGGAAATTAA
*
4070544 TGTTAGAGTGATG-AATTTGG
1 TGTTAGAATGATGAAATTTGG
4070564 TGTTAGAATG-TGAAATTTG
1 TGTTAGAATGATGAAATTTG
4070583 ACCATTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (21 bp):
TGTTAGAATGATGAAATTTGG
Found at i:4072258 original size:28 final size:25
Alignment explanation
Indices: 4072226--4072296 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 25
4072216 AGAATGAATT
*
4072226 ATGAAATGTGAAAGTATAGATTATGAAA
1 ATGAAATGTGAAAG--T-GAATATGAAA
4072254 ATGAAATGTGAAAGTGAATATGAAA
1 ATGAAATGTGAAAGTGAATATGAAA
*
4072279 GTGAAA-GTGAAAGATGAA
1 ATGAAATGTGAAAG-TGAA
4072297 AAATGAGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.17
25 18 0.45
26 1 0.03
28 14 0.35
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (25 bp):
ATGAAATGTGAAAGTGAATATGAAA
Found at i:4072295 original size:19 final size:19
Alignment explanation
Indices: 4072249--4072297 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
4072239 GTATAGATTA
4072249 TGAAAATGAAATGTGAAAG
1 TGAAAATGAAATGTGAAAG
*
4072268 TGAATATGAAA-GTGAAAG
1 TGAAAATGAAATGTGAAAG
4072286 TGAAAGATGAAA
1 TGAAA-ATGAAA
4072298 AATGAGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (19 bp):
TGAAAATGAAATGTGAAAG
Found at i:4072388 original size:39 final size:39
Alignment explanation
Indices: 4072343--4072425 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
4072333 AAAAAAAATA
*
4072343 TGATATGACTATTAAGTATGATATTGTTTATCATGACTT
1 TGATATGACTATTAAGTATGACATTGTTTATCATGACTT
** **
4072382 TGATATGACTATTGTGTATGACATTGTTTATCATGGTTT
1 TGATATGACTATTAAGTATGACATTGTTTATCATGACTT
4072421 TGATA
1 TGATA
4072426 AAATCATGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (39 bp):
TGATATGACTATTAAGTATGACATTGTTTATCATGACTT
Found at i:4078786 original size:21 final size:21
Alignment explanation
Indices: 4078760--4078817 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
4078750 TTTTTAGCTC
4078760 AAAGGATCAATCCCTTTGACT
1 AAAGGATCAATCCCTTTGACT
4078781 AAAGGATCAATCCCTTTGACT
1 AAAGGATCAATCCCTTTGACT
*
4078802 AAAGGATCGATCCCTT
1 AAAGGATCAATCCCTT
4078818 AGATTCCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (21 bp):
AAAGGATCAATCCCTTTGACT
Found at i:4079423 original size:17 final size:17
Alignment explanation
Indices: 4079388--4079431 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
4079378 TTGATAGTAA
4079388 AAGAAAAGGAGAAAGAAG
1 AAGAAAA-GAGAAAGAAG
4079406 AAGAAAAGA-AAGAGAAG
1 AAGAAAAGAGAA-AGAAG
4079423 AAGATAAAG
1 AAGA-AAAG
4079432 GATGTTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (17 bp):
AAGAAAAGAGAAAGAAG
Found at i:4080012 original size:15 final size:17
Alignment explanation
Indices: 4079985--4080017 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4079975 ACTTTCAATA
4079985 TTGAAAAATGAAA-ATT
1 TTGAAAAATGAAATATT
4080001 TTGAAAAA-GAAATATT
1 TTGAAAAATGAAATATT
4080017 T
1 T
4080018 GATTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (17 bp):
TTGAAAAATGAAATATT
Found at i:4083269 original size:21 final size:20
Alignment explanation
Indices: 4083245--4083302 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
4083235 ATTTTTGGCT
4083245 CAAAGGATCGATCCCTTTGA
1 CAAAGGATCGATCCCTTTGA
* *
4083265 GCAAAGGATCAATCCCATTGA
1 -CAAAGGATCGATCCCTTTGA
* * *
4083286 AAAAAGATTGATCCCTT
1 CAAAGGATCGATCCCTT
4083303 GGATTCCAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (20 bp):
CAAAGGATCGATCCCTTTGA
Found at i:4091182 original size:43 final size:43
Alignment explanation
Indices: 4091135--4091231 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
4091125 ACAAACGTTG
4091135 CAAAAGGTCAAGAC-CTATAGCGGCATTTTTCTTTAAAACGCCA
1 CAAAAGGTCAAG-CTCTATAGCGGCATTTTTCTTTAAAACGCCA
* * *
4091178 CAAAAGGTTAAGCTCTATAGCGGCGTTTTTCTTTAAAACGCCG
1 CAAAAGGTCAAGCTCTATAGCGGCATTTTTCTTTAAAACGCCA
*
4091221 CATAAGGTCAA
1 CAAAAGGTCAA
4091232 AAAAATATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (43 bp):
CAAAAGGTCAAGCTCTATAGCGGCATTTTTCTTTAAAACGCCA
Found at i:4092268 original size:40 final size:40
Alignment explanation
Indices: 4092213--4092389 Score: 212
Period size: 40 Copynumber: 4.4 Consensus size: 40
4092203 GTTTGTGCTT
4092213 AAAACGCCACTAAAGTACATTATTTAGCGGCGTTTATACA
1 AAAACGCCACTAAAGTACATTATTTAGCGGCGTTTATACA
* * * * *
4092253 AACACGCCACTAAAGTACTAGCT-TTTAGCGGCGTTTGTGCTT
1 AAAACGCCACTAAAGTAC-A-TTATTTAGCGGCGTTTATAC-A
* *
4092295 AAAACGCCACTAAAGTACATGATTTAGCAGCGTTTATACA
1 AAAACGCCACTAAAGTACATTATTTAGCGGCGTTTATACA
* * * *
4092335 AAAACGCCACTAAAGTAGAATATTTAGTGGCGTTTATATA
1 AAAACGCCACTAAAGTACATTATTTAGCGGCGTTTATACA
*
4092375 AAAATGCCACTAAAG
1 AAAACGCCACTAAAG
4092390 AACAAGTATT
Statistics
Matches: 114, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
40 65 0.57
41 31 0.27
42 18 0.16
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (40 bp):
AAAACGCCACTAAAGTACATTATTTAGCGGCGTTTATACA
Found at i:4092280 original size:41 final size:40
Alignment explanation
Indices: 4092170--4092389 Score: 203
Period size: 40 Copynumber: 5.4 Consensus size: 40
4092160 GTTCCAATGA
* * * * *
4092170 TAAAATGCCACTAAAGTATGAGCATTTAGTGGCGTTTGTGC
1 TAAAACGCCACTAAAGTA-CAGCATTTAGCGGCGTTTATAC
**
4092211 TTAAAACGCCACTAAAGTACATTATTTAGCGGCGTTTATAC
1 -TAAAACGCCACTAAAGTACAGCATTTAGCGGCGTTTATAC
* * *
4092252 -AAACACGCCACTAAAGTACTAGCTTTTAGCGGCGTTTGTGC
1 TAAA-ACGCCACTAAAGTAC-AGCATTTAGCGGCGTTTATAC
*
4092293 TTAAAACGCCACTAAAGTACATG-ATTTAGCAGCGTTTATAC
1 -TAAAACGCCACTAAAGTACA-GCATTTAGCGGCGTTTATAC
* * ** *
4092334 AAAAACGCCACTAAAGTAGAATATTTAGTGGCGTTTATA-
1 TAAAACGCCACTAAAGTACAGCATTTAGCGGCGTTTATAC
*
4092373 TAAAAATGCCACTAAAG
1 T-AAAACGCCACTAAAG
4092390 AACAAGTATT
Statistics
Matches: 148, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
39 3 0.02
40 62 0.42
41 47 0.32
42 33 0.22
43 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (40 bp):
TAAAACGCCACTAAAGTACAGCATTTAGCGGCGTTTATAC
Found at i:4092313 original size:82 final size:82
Alignment explanation
Indices: 4092171--4092369 Score: 294
Period size: 82 Copynumber: 2.4 Consensus size: 82
4092161 TTCCAATGAT
* * *
4092171 AAAATGCCACTAAAGTATGAGCATTTAGTGGCGTTTGTGCTTAAAACGCCACTAAAGTACATTAT
1 AAAACGCCACTAAAGTATGAGCATTTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACATGAT
*
4092236 TTAGCGGCGTTTATACA
66 TTAGCAGCGTTTATACA
* *
4092253 AACACGCCACTAAAGTACT-AGCTTTTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACATGA
1 AAAACGCCACTAAAGTA-TGAGCATTTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACATGA
4092317 TTTAGCAGCGTTTATACA
65 TTTAGCAGCGTTTATACA
** *
4092335 AAAACGCCACTAAAGTA-GAATATTTAGTGGCGTTT
1 AAAACGCCACTAAAGTATGAGCATTTAGCGGCGTTT
4092370 ATATAAAAAT
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
81 13 0.12
82 90 0.87
83 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (82 bp):
AAAACGCCACTAAAGTATGAGCATTTAGCGGCGTTTGTGCTTAAAACGCCACTAAAGTACATGAT
TTAGCAGCGTTTATACA
Found at i:4115858 original size:29 final size:29
Alignment explanation
Indices: 4115826--4115883 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
4115816 TTGTTTAATC
4115826 GGTTTCTAATTTGTATCTTGTATTTATTT
1 GGTTTCTAATTTGTATCTTGTATTTATTT
*
4115855 GGTTTCTAATTTGTATGTTGTATTTATTT
1 GGTTTCTAATTTGTATCTTGTATTTATTT
4115884 CAGTCTATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.05, G:0.16, T:0.62
Consensus pattern (29 bp):
GGTTTCTAATTTGTATCTTGTATTTATTT
Found at i:4118197 original size:25 final size:25
Alignment explanation
Indices: 4118163--4118212 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
4118153 ATCCCCACGA
4118163 TTTTTTAAACAGGGACG-GGTACGGG
1 TTTTTTAAACAGGGACGAGG-ACGGG
*
4118188 TTTTTTAAACGGGGACGAGGACGGG
1 TTTTTTAAACAGGGACGAGGACGGG
4118213 AGGACCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.24, C:0.12, G:0.38, T:0.26
Consensus pattern (25 bp):
TTTTTTAAACAGGGACGAGGACGGG
Found at i:4118793 original size:28 final size:26
Alignment explanation
Indices: 4118690--4118814 Score: 109
Period size: 28 Copynumber: 4.8 Consensus size: 26
4118680 ATATTATATA
*
4118690 ATATATTAATA-ATTACTTT-AAAACT
1 ATATA-TAATATATTATTTTAAAAACT
* *
4118715 ATA-AAAATAT-TTATTTTAAAAAATGT
1 ATATATAATATATTATTTT-AAAAA-CT
4118741 ATATATAATATATTATTTTAAAAACT
1 ATATATAATATATTATTTTAAAAACT
4118767 ATATATAATATATACTAATTTT-AAAACT
1 ATATATAATATAT--T-ATTTTAAAAACT
*
4118795 ATACCAT-ATATATTATTTTA
1 ATA-TATAATATATTATTTTA
4118815 TTTTTGAAAT
Statistics
Matches: 83, Mismatches: 6, Indels: 21
0.75 0.05 0.19
Matches are distributed among these distances:
23 10 0.12
24 1 0.01
25 12 0.14
26 19 0.23
27 11 0.13
28 23 0.28
29 7 0.08
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.45
Consensus pattern (26 bp):
ATATATAATATATTATTTTAAAAACT
Found at i:4119773 original size:43 final size:42
Alignment explanation
Indices: 4119698--4119791 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 42
4119688 TCATTTTCCT
* *
4119698 GTGTTTAATTGTTGGAAAATATTTTTCGGAAAATGTTTTCATA
1 GTGTTTGATTGCTGGAAAATATTTTTCGGAAAATGTTTTC-TA
*
4119741 -TGTTTGATTGCTGGAAAAATATTTTTTGGAAAATGTTTTCTA
1 GTGTTTGATTGCTGG-AAAATATTTTTCGGAAAATGTTTTCTA
4119783 GTGTTTGAT
1 GTGTTTGAT
4119792 AGTTGTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
42 14 0.30
43 32 0.70
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (42 bp):
GTGTTTGATTGCTGGAAAATATTTTTCGGAAAATGTTTTCTA
Found at i:4120059 original size:23 final size:22
Alignment explanation
Indices: 4120010--4120063 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
4120000 AAATTTAATA
4120010 ATATTATA-TTAATATGTACTC
1 ATATTATATTTAATATGTACTC
*
4120031 AT-TTATATTATAATAATGTA-TT
1 ATATTATATT-TAAT-ATGTACTC
4120053 ATATTATATTT
1 ATATTATATTT
4120064 TTAATTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 5 0.18
21 3 0.11
22 8 0.29
23 12 0.43
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (22 bp):
ATATTATATTTAATATGTACTC
Found at i:4120183 original size:52 final size:50
Alignment explanation
Indices: 4120041--4120184 Score: 117
Period size: 47 Copynumber: 2.9 Consensus size: 50
4120031 ATTTATATTA
* * *
4120041 TAATAATGTATTATATTATATTT-TTAATTTAATA-ATATATAATAA-ATTAT
1 TAATAATGAATAATATTA-ATTTATT-ATTTAATATA-ATATAATAATTTTAT
* * *
4120091 TAAT-AT-AGTTAATATT-ATCTATTATTT-TTATAA-AT-ATAATTTTAT
1 TAATAATGA-ATAATATTAATTTATTATTTAATATAATATAATAATTTTAT
4120136 TAATAATGAATAATATTAATTTATTCATTTAATATTAATATAATAATTT
1 TAATAATGAATAATATTAATTTATT-ATTTAATA-TAATATAATAATTT
4120185 AGTGTTATGT
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
44 4 0.05
45 10 0.14
46 12 0.16
47 15 0.21
48 6 0.08
49 10 0.14
50 7 0.10
51 2 0.03
52 7 0.10
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (50 bp):
TAATAATGAATAATATTAATTTATTATTTAATATAATATAATAATTTTAT
Found at i:4120184 original size:19 final size:19
Alignment explanation
Indices: 4120146--4120185 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4120136 TAATAATGAA
* * *
4120146 TAATATTAATTTATTCATT
1 TAATATTAATATAATAATT
4120165 TAATATTAATATAATAATT
1 TAATATTAATATAATAATT
4120184 TA
1 TA
4120186 GTGTTATGTT
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:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATATTAATATAATAATT
Found at i:4121751 original size:20 final size:20
Alignment explanation
Indices: 4121722--4121795 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
4121712 GTATCCTTCG
* *
4121722 TGCATGGATGCACATCAGGA
1 TGCATCGATGCACACCAGGA
**
4121742 TGCATCGATGCACAACCTTGA
1 TGCATCGATGCAC-ACCAGGA
* **
4121763 TGCATTGATGCACAGAAGGA
1 TGCATCGATGCACACCAGGA
4121783 TGCATCGATGCAC
1 TGCATCGATGCAC
4121796 TAATTGCATT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (20 bp):
TGCATCGATGCACACCAGGA
Found at i:4121841 original size:20 final size:20
Alignment explanation
Indices: 4121816--4121935 Score: 127
Period size: 20 Copynumber: 5.8 Consensus size: 20
4121806 CGGTGTTTGA
* *
4121816 GTGCATGGATGAACTACATG
1 GTGCATCGATGCACTACATG
4121836 GTGCATCGATGCACTAGTGCA-G
1 GTGCATCGATGCACTA---CATG
* *
4121858 GTGCATGGATGCACTGCATG
1 GTGCATCGATGCACTACATG
4121878 GTGCATCGATGCACTAGTGCA-G
1 GTGCATCGATGCACTA---CATG
*
4121900 GTGCATGGATGCACTACATG
1 GTGCATCGATGCACTACATG
4121920 GTGCATCGATGCACTA
1 GTGCATCGATGCACTA
4121936 GTGCAGATGC
Statistics
Matches: 84, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
19 4 0.05
20 45 0.54
22 31 0.37
23 4 0.05
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (20 bp):
GTGCATCGATGCACTACATG
Found at i:4121863 original size:22 final size:22
Alignment explanation
Indices: 4121835--4121956 Score: 148
Period size: 22 Copynumber: 5.7 Consensus size: 22
4121825 TGAACTACAT
4121835 GGTGCATCGATGCACTAGTGCA
1 GGTGCATCGATGCACTAGTGCA
*
4121857 GGTGCATGGATGCAC---TGCA
1 GGTGCATCGATGCACTAGTGCA
4121876 TGGTGCATCGATGCACTAGTGCA
1 -GGTGCATCGATGCACTAGTGCA
*
4121899 GGTGCATGGATGCACTA---CA
1 GGTGCATCGATGCACTAGTGCA
4121918 TGGTGCATCGATGCACTAGTGCA
1 -GGTGCATCGATGCACTAGTGCA
* *
4121941 GATGCATGGATGCACT
1 GGTGCATCGATGCACT
4121957 GTAGGGATGC
Statistics
Matches: 86, Mismatches: 6, Indels: 16
0.80 0.06 0.15
Matches are distributed among these distances:
19 6 0.07
20 30 0.35
22 44 0.51
23 6 0.07
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (22 bp):
GGTGCATCGATGCACTAGTGCA
Found at i:4121863 original size:42 final size:42
Alignment explanation
Indices: 4121816--4121956 Score: 255
Period size: 42 Copynumber: 3.4 Consensus size: 42
4121806 CGGTGTTTGA
*
4121816 GTGCATGGATGAACTACATGGTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGCAG
*
4121858 GTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGCAG
4121900 GTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGCAG
*
4121942 ATGCATGGATGCACT
1 GTGCATGGATGCACT
4121957 GTAGGGATGC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 95 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (42 bp):
GTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGCAG
Found at i:4121904 original size:84 final size:85
Alignment explanation
Indices: 4121816--4121977 Score: 272
Period size: 84 Copynumber: 1.9 Consensus size: 85
4121806 CGGTGTTTGA
* *
4121816 GTGCATGGATGAACTACATGGTGCATCGATGCACTAGTGCAGGTGCATGGATGCACTGCATGG-T
1 GTGCATGGATGAACTACATGGTGCATCGATGCACTAGTGCAGATGCATGGATGCACTGCAGGGAT
4121880 GCATCGATGCACTAGTGCAG
66 GCATCGATGCACTAGTGCAG
* *
4121900 GTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGCAGATGCATGGATGCACTGTAGGGAT
1 GTGCATGGATGAACTACATGGTGCATCGATGCACTAGTGCAGATGCATGGATGCACTGCAGGGAT
*
4121965 GCATGGATGCACT
66 GCATCGATGCACT
4121978 GCAGGGGTGC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
84 59 0.82
85 13 0.18
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (85 bp):
GTGCATGGATGAACTACATGGTGCATCGATGCACTAGTGCAGATGCATGGATGCACTGCAGGGAT
GCATCGATGCACTAGTGCAG
Found at i:4121989 original size:42 final size:41
Alignment explanation
Indices: 4121816--4121994 Score: 227
Period size: 42 Copynumber: 4.3 Consensus size: 41
4121806 CGGTGTTTGA
* *
4121816 GTGCATGGATGAACTACATGGTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTG-AG
4121858 GTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTG-AG
*
4121900 GTGCATGGATGCACTACATGGTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTG-AG
* * * *
4121942 ATGCATGGATGCACTGTAGGGATGCATGGATGCACTGCAG-G-G
1 GTGCATGGATGCACTGCATGG-TGCATCGATGCACT--AGTGAG
4121984 GTGCATGGATG
1 GTGCATGGATG
4121995 TACTTTGACA
Statistics
Matches: 125, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
42 109 0.87
43 13 0.10
44 1 0.01
45 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (41 bp):
GTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTGAG
Found at i:4122799 original size:21 final size:21
Alignment explanation
Indices: 4122774--4122813 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4122764 AATTTGAAAT
*
4122774 GTGTATCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
4122795 GTGTACCGATGCACTGCTA
1 GTGTACCGATGCACTGCTA
4122814 TAATAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (21 bp):
GTGTACCGATGCACTGCTACA
Found at i:4123631 original size:22 final size:22
Alignment explanation
Indices: 4123603--4123663 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
4123593 GGCATGTGAA
4123603 ATTTGTCCCGAAGGACCTATGT
1 ATTTGTCCCGAAGGACCTATGT
* *
4123625 ATTTGTCCCGAAGAACCTTTGT
1 ATTTGTCCCGAAGGACCTATGT
* *
4123647 ATATATCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
4123664 ACGTAGAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCTATGT
Found at i:4146213 original size:28 final size:28
Alignment explanation
Indices: 4146182--4146245 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
4146172 AAATATTTAG
*
4146182 TTTAAAAATGTATAT-ATAGTATATTATT
1 TTTAAAAATGTATATAAT-GTATACTATT
*
4146210 TTTAAAACTGTATATAATGTATACTATT
1 TTTAAAAATGTATATAATGTATACTATT
4146238 TTTAAAAA
1 TTTAAAAA
4146246 CATACCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (28 bp):
TTTAAAAATGTATATAATGTATACTATT
Found at i:4147372 original size:22 final size:25
Alignment explanation
Indices: 4147347--4147391 Score: 69
Period size: 22 Copynumber: 1.9 Consensus size: 25
4147337 TTATTAAAGT
4147347 ATTTAAT-ATA-TATA-TAATATAA
1 ATTTAATAATATTATATTAATATAA
4147369 ATTTAATAATATTATATTAATAT
1 ATTTAATAATATTATATTAATAT
4147392 GTACTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 4 0.20
25 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTAATAATATTATATTAATATAA
Found at i:4147433 original size:13 final size:13
Alignment explanation
Indices: 4147350--4147422 Score: 50
Period size: 13 Copynumber: 5.9 Consensus size: 13
4147340 TTAAAGTATT
4147350 TAATATATATATAA
1 TAATATAT-TATAA
*
4147364 T-ATAAATT-TAA
1 TAATATATTATAA
*
4147375 T-A-ATATTATAT
1 TAATATATTATAA
* *
4147386 TAATAT-GTACTCA
1 TAATATATTA-TAA
4147399 -AATATATTATAA
1 TAATATATTATAA
4147411 TAATATATTATA
1 TAATATATTATA
4147423 TTATATTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 13
0.68 0.12 0.20
Matches are distributed among these distances:
10 4 0.09
11 8 0.18
12 11 0.24
13 21 0.47
14 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (13 bp):
TAATATATTATAA
Found at i:4147541 original size:13 final size:13
Alignment explanation
Indices: 4147522--4147562 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
4147512 ATAATGAATA
4147522 ATATTAATTTATT
1 ATATTAATTTATT
*
4147535 CAT-TTAATTTAAT
1 -ATATTAATTTATT
4147548 ATATTAATTTATT
1 ATATTAATTTATT
4147561 AT
1 AT
4147563 CATGTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTAATTTATT
Found at i:4149441 original size:21 final size:21
Alignment explanation
Indices: 4149424--4149464 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4149414 AACTATTTTT
4149424 TTTATATTATATTATATTATA
1 TTTATATTATATTATATTATA
*
4149445 TTTATTTTATA-TATGATTAT
1 TTTATATTATATTAT-ATTAT
4149465 TTGAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTATATTATATTATATTATA
Found at i:4150470 original size:60 final size:59
Alignment explanation
Indices: 4150357--4150473 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 59
4150347 TTTGATAAGG
* * * * *
4150357 TGCCTTCAAGTTACAGGGGAGGCATTCAAATGCGAGCTTCTTCGACCTCAATGTCGAGA
1 TGCCTTCAAGTTACAGGGGAGGCATGCAAATACCAACTTCTTCGACCTAAATGTCGAGA
* *
4150416 TGCCTTCAAGTT-CAAGGGGAAGGCATGCAACTACCAACTTGTTCGACCTAAATGTCGA
1 TGCCTTCAAGTTAC-AGGGG-AGGCATGCAAATACCAACTTCTTCGACCTAAATGTCGA
4150474 CATTGTGGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 1 0.02
59 17 0.35
60 31 0.63
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (59 bp):
TGCCTTCAAGTTACAGGGGAGGCATGCAAATACCAACTTCTTCGACCTAAATGTCGAGA
Found at i:4155151 original size:124 final size:125
Alignment explanation
Indices: 4154902--4155354 Score: 546
Period size: 125 Copynumber: 3.7 Consensus size: 125
4154892 GATTAAGATG
* * ** *
4154902 AAAATGTTGAACAAGTTCTTCTTATTATGAACTTCTTC-T--TCTTCGGATGAGTTCTTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
* ** * * * *
4154964 ACGAACTCCTTTTTGGAAACATTGTTGAT-GT--TATATCTCCTTCTGTGATAGAGTCGAGC-
66 ACGAACTCCTTTCTGG-AA-A-TGACGATACTACTCTATCTCCTTCTGCGATAGAGTCAAGCA
* *
4155023 AAAAGGTTGAATATGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
*
4155088 ACGAACT-CTTTCTGGAAATGACGATACTACTCTATCTCCTTCTGCGATAGAGTTAAGCA
66 ACGAACTCCTTTCTGGAAATGACGATACTACTCTATCTCCTTCTGCGATAGAGTCAAGCA
* **
4155147 AAAAGGTTGAATACGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCAGATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
* * * * ** * *
4155212 ATGAACTCCTGTCCGGAAATGGCTCTATTACTCTATCTTCTTCTGCGATAGAGTCAAGCA
66 ACGAACTCCTTTCTGGAAATGACGATACTACTCTATCTCCTTCTGCGATAGAGTCAAGCA
* *
4155272 AAGAGGTTGAATAAGTTCTTCATATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
* *
4155337 ACAAACT-CTATCTGGAAA
66 ACGAACTCCTTTCTGGAAA
4155355 CGTTTTAAGA
Statistics
Matches: 287, Mismatches: 37, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
120 5 0.02
121 35 0.12
122 3 0.01
123 31 0.11
124 104 0.36
125 109 0.38
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (125 bp):
AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
ACGAACTCCTTTCTGGAAATGACGATACTACTCTATCTCCTTCTGCGATAGAGTCAAGCA
Found at i:4155539 original size:73 final size:73
Alignment explanation
Indices: 4155356--4155682 Score: 509
Period size: 73 Copynumber: 4.5 Consensus size: 73
4155346 ATCTGGAAAC
** *
4155356 GTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTATATTT-AGAGTGAAACTTCCTC-AAGCGA
1 GTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCA-AGTGAAACTTTCTCTAA-CGA
*
4155419 TAAAAAGTTT
64 GAAAAAGTTT
*
4155429 GTTTTAA-AAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAACGTGA
1 GTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAACGAGA
4155493 AAAAGTTT
66 AAAAGTTT
* * *
4155501 ATTTTAAGAAAAACAATCTCAAGTGAGATAATTTGCTATTTCAAGTGAAACTTTCTCTAGCGAGA
1 GTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAACGAGA
4155566 AAAAGTTT
66 AAAAGTTT
* *
4155574 GTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAATTTTCTCTAGCGAG-
1 GTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAACGAGA
4155638 AAAAGTTT
66 AAAAGTTT
*
4155646 GTTTTCAGAAAAACAATCTCAAGTGAGATAAATTGCT
1 GTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCT
4155683 TTAAGACATC
Statistics
Matches: 238, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
72 105 0.44
73 133 0.56
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (73 bp):
GTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAACGAGA
AAAAGTTT
Found at i:4155642 original size:145 final size:145
Alignment explanation
Indices: 4155357--4155682 Score: 514
Period size: 145 Copynumber: 2.2 Consensus size: 145
4155347 TCTGGAAACG
* *
4155357 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTT-ATATTTAGAGTGAAACTTCCTCAAGCGATA
1 TTTTAAGAAAAACAATCTCAAGTGAGAT-AATTTGCTATTTAGAGTGAAACTTCCTCAAGCGAGA
4155421 AAAAGTTTGTTTTAAAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCT
65 AAAAGTTTGTTTTAAAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCT
*
4155486 AACGTGAAAAAGTTTA
130 AACGAGAAAAAGTTTA
* *
4155502 TTTTAAGAAAAACAATCTCAAGTGAGATAATTTGCTATTTCA-AGTGAAACTTTCTCTAGCGAGA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAATTTGCTATTT-AGAGTGAAACTTCCTCAAGCGAGA
*
4155566 AAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAATTTTCTC
65 AAAAGTTTGTTTTAA-AAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTC
* *
4155631 TAGCGAG-AAAAGTTTG
129 TAACGAGAAAAAGTTTA
* *
4155647 TTTTCAGAAAAACAATCTCAAGTGAGATAAATTGCT
1 TTTTAAGAAAAACAATCTCAAGTGAGATAATTTGCT
4155683 TTAAGACATC
Statistics
Matches: 168, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
144 5 0.03
145 109 0.65
146 54 0.32
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (145 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAATTTGCTATTTAGAGTGAAACTTCCTCAAGCGAGAA
AAAGTTTGTTTTAAAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTA
ACGAGAAAAAGTTTA
Found at i:4155777 original size:20 final size:20
Alignment explanation
Indices: 4155752--4155796 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
4155742 TGCCCAGAGA
4155752 TCTTATAGATGG-CCTGGAGG
1 TCTTATAGATGGTCC-GGAGG
4155772 TCTTATAGATGGTCCGGAGG
1 TCTTATAGATGGTCCGGAGG
*
4155792 ACTTA
1 TCTTA
4155797 CAAATCAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (20 bp):
TCTTATAGATGGTCCGGAGG
Found at i:4157696 original size:104 final size:101
Alignment explanation
Indices: 4157533--4157755 Score: 288
Period size: 104 Copynumber: 2.2 Consensus size: 101
4157523 AGGTGAGCTA
* * *
4157533 TTCAAAATGCCCCACATTGATCACTTCTGCATTTTTCATGCTAATGTGAGCCTTTAAGATGCCCC
1 TTCAAGATGCCCCACA-TGATCACTTCTGCATTTTTCATGCTAATGTGAGCCTTCAAGAT-ACCC
* * * *
4157598 ACATGGATTACTTCTGTCTTTTTCATGCTGACGTGAGCC
64 ACATGGATAACTTCTATC-GTTTCATGCTGACGTGAGAC
* *
4157637 TTCAAGATGCCCCACATGAGTTACTTCTATC-TTTTTCATGCTAATGTGAGCCTTCAAGATACCC
1 TTCAAGATGCCCCACATGA-TCACTTCT-GCATTTTTCATGCTAATGTGAGCCTTCAAGATACCC
*
4157701 ACATGGATAACTTCTATCGTTTCATGCTGATGTGAGAC
64 ACATGGATAACTTCTATCGTTTCATGCTGACGTGAGAC
*
4157739 TTCAAGAT-ACCCACATG
1 TTCAAGATGCCCCACATG
4157756 GATAATATGG
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
101 8 0.08
102 25 0.24
103 22 0.21
104 50 0.47
105 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (101 bp):
TTCAAGATGCCCCACATGATCACTTCTGCATTTTTCATGCTAATGTGAGCCTTCAAGATACCCAC
ATGGATAACTTCTATCGTTTCATGCTGACGTGAGAC
Found at i:4157742 original size:50 final size:52
Alignment explanation
Indices: 4157533--4157760 Score: 259
Period size: 52 Copynumber: 4.4 Consensus size: 52
4157523 AGGTGAGCTA
* * * * *
4157533 TTCAAAATGCCCCACATTGATCACTTCT-GCATTTTTCATGCTAATGTGAGCC
1 TTCAAGATGACCCACATGGATAACTTCTATC-TTTTTCATGCTAATGTGAGCC
* * * * * *
4157585 TTTAAGATGCCCCACATGGATTACTTCTGTCTTTTTCATGCTGACGTGAGCC
1 TTCAAGATGACCCACATGGATAACTTCTATCTTTTTCATGCTAATGTGAGCC
* *
4157637 TTCAAGATGCCCCACAT-GAGTTACTTCTATCTTTTTCATGCTAATGTGAGCC
1 TTCAAGATGACCCACATGGA-TAACTTCTATCTTTTTCATGCTAATGTGAGCC
* * *
4157689 TTCAAGAT-ACCCACATGGATAACTTCTATC-GTTTCATGCTGATGTGAGAC
1 TTCAAGATGACCCACATGGATAACTTCTATCTTTTTCATGCTAATGTGAGCC
4157739 TTCAAGAT-ACCCACATGGATAA
1 TTCAAGATGACCCACATGGATAA
4157761 TATGGACCTT
Statistics
Matches: 157, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
50 39 0.25
51 19 0.12
52 98 0.62
53 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
TTCAAGATGACCCACATGGATAACTTCTATCTTTTTCATGCTAATGTGAGCC
Found at i:4159241 original size:7 final size:7
Alignment explanation
Indices: 4159229--4159345 Score: 116
Period size: 7 Copynumber: 16.4 Consensus size: 7
4159219 CTTGATTCAA
4159229 TTTCTTT
1 TTTCTTT
4159236 TTTCTTCT
1 TTTCTT-T
4159244 TTTC-TT
1 TTTCTTT
4159250 TTTCTTT
1 TTTCTTT
*
4159257 ATTCTTT
1 TTTCTTT
4159264 TCTT-TTT
1 T-TTCTTT
4159271 TTCTCTTT
1 TT-TCTTT
*
4159279 TATCTTT
1 TTTCTTT
*
4159286 TATCTTT
1 TTTCTTT
4159293 TTTC-TT
1 TTTCTTT
4159299 TTTC-TT
1 TTTCTTT
4159305 TTTCTTT
1 TTTCTTT
*
4159312 TTTTTTT
1 TTTCTTT
4159319 TTTCTTTTT
1 TTTC--TTT
4159328 TTCTCTTT
1 TT-TCTTT
4159336 TTTCTTT
1 TTTCTTT
4159343 TTT
1 TTT
4159346 TCTCTGATAT
Statistics
Matches: 95, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
6 18 0.19
7 54 0.57
8 16 0.17
9 5 0.05
10 2 0.02
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:4159295 original size:43 final size:42
Alignment explanation
Indices: 4159229--4159344 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 42
4159219 CTTGATTCAA
*
4159229 TTTCTTTTTTCTTCTTTTC-TTTTTCTTTATTC-TTTTCTTTTT
1 TTTCTTTTTTCTT-TTATCTTTTTTCTTT-TTCTTTTTCTTTTT
*
4159271 TTCTCTTTTATCTTTTATCTTTTTTCTTTTTCTTTTTCTTTTT
1 TT-TCTTTTTTCTTTTATCTTTTTTCTTTTTCTTTTTCTTTTT
* * *
4159314 TTTTTTTTCTTTTTTTCTCTTTTTTCTTTTT
1 TTTCTTTT-TTCTTTTATCTTTTTTCTTTTT
4159345 TTCTCTGATA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
42 14 0.22
43 50 0.78
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (42 bp):
TTTCTTTTTTCTTTTATCTTTTTTCTTTTTCTTTTTCTTTTT
Found at i:4159301 original size:1 final size:1
Alignment explanation
Indices: 4159290--4159346 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
4159280 ATCTTTTATC
* * * * * * *
4159290 TTTTTTCTTTTTCTTTTTCTTTTTTTTTTTTTCTTTTTTTCTCTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4159347 CTCTGATATA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:4159322 original size:57 final size:57
Alignment explanation
Indices: 4159231--4159343 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
4159221 TGATTCAATT
4159231 TCTTTTTTCTTCTTTTCTTTTTCTTTATTCTTTTCTTTTTTTCTCTTTTATCTTTTA
1 TCTTTTTTCTTCTTTTCTTTTTCTTTATTCTTTTCTTTTTTTCTCTTTTATCTTTTA
* * *
4159288 TCTTTTTTC-T-TTTTCTTTTTCTTTTTTTTTTTTTCTTTTTTTCTCTTTTTTCTTTT
1 TCTTTTTTCTTCTTTTCTTTTTC--TTTATTCTTTTCTTTTTTTCTCTTTTATCTTTT
4159344 TTTCTCTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 11 0.22
56 1 0.02
57 39 0.76
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (57 bp):
TCTTTTTTCTTCTTTTCTTTTTCTTTATTCTTTTCTTTTTTTCTCTTTTATCTTTTA
Found at i:4162367 original size:42 final size:41
Alignment explanation
Indices: 4162297--4162378 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 41
4162287 TAATTTGGTC
* * *
4162297 ATTTGTTCCTTTGAATCATCTTGAAACTTTTTTGCTTGATCA
1 ATTTGTTCATTTGAATAATCTAGAAACTTTTTT-CTTGATCA
4162339 ATTTGTTCATTTGAATAATCCTAG-AACTTTTTTCTTGATC
1 ATTTGTTCATTTGAATAAT-CTAGAAACTTTTTTCTTGATC
4162379 GACCATCTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 7 0.19
42 26 0.72
43 3 0.08
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (41 bp):
ATTTGTTCATTTGAATAATCTAGAAACTTTTTTCTTGATCA
Found at i:4162734 original size:14 final size:16
Alignment explanation
Indices: 4162704--4162736 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
4162694 TGAAAATGTA
4162704 AAAAATACAGAAATGC
1 AAAAATACAGAAATGC
4162720 AAAAATA-AG-AATGC
1 AAAAATACAGAAATGC
4162734 AAA
1 AAA
4162737 TTGTGCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.67, C:0.09, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAAATACAGAAATGC
Found at i:4165535 original size:21 final size:22
Alignment explanation
Indices: 4165497--4165541 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
4165487 TTACCCTAAT
4165497 ATATATATATAAACATAATACTA
1 ATATATATATAAACATAATA-TA
*
4165520 ATATA-ATA-AAATATAATATA
1 ATATATATATAAACATAATATA
4165540 AT
1 AT
4165542 TCAAACACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 3 0.14
23 5 0.24
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATATATATAAACATAATATA
Found at i:4166965 original size:4 final size:4
Alignment explanation
Indices: 4166956--4166985 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
4166946 TAATAATAAT
4166956 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
4166986 ATGGGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:4167488 original size:17 final size:17
Alignment explanation
Indices: 4167466--4167503 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
4167456 AGAAAACGAT
4167466 ACAACTAAAAAATAAAA
1 ACAACTAAAAAATAAAA
*
4167483 ACAACTAAATAATAAAA
1 ACAACTAAAAAATAAAA
4167500 ACAA
1 ACAA
4167504 TTCGAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (17 bp):
ACAACTAAAAAATAAAA
Found at i:4167517 original size:26 final size:25
Alignment explanation
Indices: 4167482--4167530 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
4167472 AAAAAATAAA
4167482 AACAACTAAATAATAAAAACAATTCG
1 AACAACTAAATAATAAAAA-AATTCG
*
4167508 AACAATTAAATAATAAAAAAATT
1 AACAACTAAATAATAAAAAAATT
4167531 AAGAAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.22
Consensus pattern (25 bp):
AACAACTAAATAATAAAAAAATTCG
Found at i:4167580 original size:19 final size:19
Alignment explanation
Indices: 4167542--4167580 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4167532 AGAAACAAAA
* *
4167542 TAAATAAAAAGTTCATAAT
1 TAAATAAAAACTTCACAAT
*
4167561 TAAATAAAAACTTTACAAT
1 TAAATAAAAACTTCACAAT
4167580 T
1 T
4167581 GCTGGTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAATAAAAACTTCACAAT
Found at i:4168122 original size:21 final size:21
Alignment explanation
Indices: 4168067--4168123 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4168057 GCTATAGTGG
*
4168067 CATATGAAATGGTTGCGGTGC
1 CATATAAAATGGTTGCGGTGC
* *
4168088 CATCTAATATGGTTGCGGTGC
1 CATATAAAATGGTTGCGGTGC
*
4168109 CATATAAAACGGTTG
1 CATATAAAATGGTTG
4168124 TAGAATGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (21 bp):
CATATAAAATGGTTGCGGTGC
Found at i:4170826 original size:17 final size:17
Alignment explanation
Indices: 4170804--4170838 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4170794 CATGAATTAA
4170804 AATATTATAAATAATAT
1 AATATTATAAATAATAT
* *
4170821 AATATTTTAAATTATAT
1 AATATTATAAATAATAT
4170838 A
1 A
4170839 CAACTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATTATAAATAATAT
Found at i:4172800 original size:17 final size:18
Alignment explanation
Indices: 4172766--4172800 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4172756 ATAATCAGCT
4172766 AAGAACATAAATAGAAAA
1 AAGAACATAAATAGAAAA
*
4172784 AAGAACCTAAA-AGAAAA
1 AAGAACATAAATAGAAAA
4172801 TGAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.09, G:0.11, T:0.09
Consensus pattern (18 bp):
AAGAACATAAATAGAAAA
Found at i:4178355 original size:20 final size:20
Alignment explanation
Indices: 4178314--4178361 Score: 87
Period size: 21 Copynumber: 2.4 Consensus size: 20
4178304 TTAACCCGAC
4178314 AAAATATTGACCTAACTAAA
1 AAAATATTGACCTAACTAAA
4178334 AAAACTATTGACCTAACTAAA
1 AAAA-TATTGACCTAACTAAA
4178355 AAAATAT
1 AAAATAT
4178362 AAAGAGGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.56, C:0.15, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAATATTGACCTAACTAAA
Found at i:4179413 original size:13 final size:13
Alignment explanation
Indices: 4179395--4179430 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4179385 TTTTTAAGAA
4179395 TATATTTGTATAT
1 TATATTTGTATAT
* *
4179408 TATATTTATATGT
1 TATATTTGTATAT
4179421 TATATTTGTA
1 TATATTTGTA
4179431 AGAATATAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (13 bp):
TATATTTGTATAT
Found at i:4179992 original size:2 final size:2
Alignment explanation
Indices: 4179985--4180011 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4179975 TGCTTGTGAG
4179985 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 A
4180012 ATTGAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4182064 original size:14 final size:14
Alignment explanation
Indices: 4182035--4182075 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4182025 TGATAATATT
4182035 ATTAAAATATTTAAA
1 ATTAAAATA-TTAAA
*
4182050 ATTATAATATTAAA
1 ATTAAAATATTAAA
*
4182064 ATAAAAATATTA
1 ATTAAAATATTA
4182076 TATTATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTAAAATATTAAA
Found at i:4182157 original size:24 final size:25
Alignment explanation
Indices: 4182112--4182158 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
4182102 AATATTCAAT
* *
4182112 AATTCAATAATATTATTTTATATGA
1 AATTAAATAATATTATTATATATGA
4182137 AATTAAATAAT-TTATTATATAT
1 AATTAAATAATATTATTATATAT
4182159 TATTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
AATTAAATAATATTATTATATATGA
Found at i:4192041 original size:28 final size:28
Alignment explanation
Indices: 4191987--4192041 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
4191977 GGGTTTTAAT
*
4191987 TTTGAATTAATTAAATTCCAATTTAATTA
1 TTTGAATTAA-TAAATTCCAAATTAATTA
4192016 TTTGAATTAA-AATATTCCAAATTAAT
1 TTTGAATTAATAA-ATTCCAAATTAAT
4192042 AAACTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 2 0.08
28 12 0.50
29 10 0.42
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (28 bp):
TTTGAATTAATAAATTCCAAATTAATTA
Found at i:4212869 original size:14 final size:14
Alignment explanation
Indices: 4212850--4212881 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4212840 TTTTCTTGAC
4212850 ATTTATTTTTATTT
1 ATTTATTTTTATTT
4212864 ATTTATTTTTATTT
1 ATTTATTTTTATTT
4212878 ATTT
1 ATTT
4212882 CTATTTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTATTTTTATTT
Found at i:4215430 original size:194 final size:195
Alignment explanation
Indices: 4215101--4215489 Score: 771
Period size: 194 Copynumber: 2.0 Consensus size: 195
4215091 GAAGTGGATT
4215101 TAACCACATGGAAGCAAGATTGTAACATTAAAGAGCCTGGTCAGCTGATGGTAGGACAAAGTCGA
1 TAACCACATGGAAGCAAGATTGTAACATTAAAGAGCCTGGTCAGCTGATGGTAGGACAAAGTCGA
4215166 CCAGGATAATCTAAGAAAAGAATCACCATATCCTAAGAACTACGATGTTGAAGCTGTTAGCTGTT
66 CCAGGATAATCTAAGAAAAGAATCACCATATCCTAAGAACTACGATGTTGAAGCTGTTAGCTGTT
4215231 ACCACATAAGAAGACCCAAACATTCCTCTGAGAACTAT-AGGTGCTGAAGCGCAAGATCCAAAAC
131 ACCACATAAGAAGACCCAAACATTCCTCTGAGAACTATAAGGTGCTGAAGCGCAAGATCCAAAAC
4215295 TAACCACATGGAAGCAAGATTGTAACATTAAAGAGCCTGGTCAGCTGATGGTAGGACAAAGTCGA
1 TAACCACATGGAAGCAAGATTGTAACATTAAAGAGCCTGGTCAGCTGATGGTAGGACAAAGTCGA
4215360 CCAGGATAATCTAAGAAAAGAATCACCATATCCTAAGAACTACGATGTTGAAGCTGTTAGCTGTT
66 CCAGGATAATCTAAGAAAAGAATCACCATATCCTAAGAACTACGATGTTGAAGCTGTTAGCTGTT
4215425 ACCACATAAGAAGACCCAAACATTCCTCTGAGAACTATAAGGTGCTGAAGCGCAAGATCCAAAAC
131 ACCACATAAGAAGACCCAAACATTCCTCTGAGAACTATAAGGTGCTGAAGCGCAAGATCCAAAAC
4215490 CTGATGGATT
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
194 168 0.87
195 26 0.13
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (195 bp):
TAACCACATGGAAGCAAGATTGTAACATTAAAGAGCCTGGTCAGCTGATGGTAGGACAAAGTCGA
CCAGGATAATCTAAGAAAAGAATCACCATATCCTAAGAACTACGATGTTGAAGCTGTTAGCTGTT
ACCACATAAGAAGACCCAAACATTCCTCTGAGAACTATAAGGTGCTGAAGCGCAAGATCCAAAAC
Found at i:4216444 original size:21 final size:21
Alignment explanation
Indices: 4216420--4216467 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
4216410 TCAAGAACAA
4216420 AAAAGAA-AAGAAGCAAAAAAG
1 AAAAGAACAAGAA-CAAAAAAG
*
4216441 AAAA-AACAAGAACATAAAAG
1 AAAAGAACAAGAACAAAAAAG
4216461 AAAAGAA
1 AAAAGAA
4216468 GCAAAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAGAACAAGAACAAAAAAG
Found at i:4218365 original size:37 final size:37
Alignment explanation
Indices: 4218295--4218366 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
4218285 TGGAACTAAG
* * *
4218295 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAAA
* *
4218332 TTTTGTCTCCCTTGAGACCGTTTCTCATGAAACAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAA
4218367 CAGATATCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAAA
Found at i:4218885 original size:106 final size:106
Alignment explanation
Indices: 4218749--4219169 Score: 602
Period size: 106 Copynumber: 4.0 Consensus size: 106
4218739 ATCGCGCCAC
* * *
4218749 CGAGACAACACAAGTTCAACTTCACAACGAATGGACGGTTGGTTGTCAACAAACAACTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
4218814 TTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* * * *
4218855 CAATACAACACAAGTTCAACTTCATAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * **
4218920 TTCAGAGCCAATTTCAACTTCACAACGAAGGGCATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* *
4218961 CGAGACAGCACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAA----CCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
4219022 TTTAGAACCAATTTCAACTTCACAGCGAAGGATATTGGATT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* * *
4219063 CGAGGCAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCCAGT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
*
4219128 TCCAGAACCAATTTCAACTTCAC-G-GAGAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGA-AGGATATTGGACT
4219168 CG
1 CG
4219170 GAACAATACA
Statistics
Matches: 281, Mismatches: 29, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
102 94 0.33
104 2 0.01
105 15 0.05
106 170 0.60
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (106 bp):
CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
Found at i:4219111 original size:208 final size:209
Alignment explanation
Indices: 4218749--4219150 Score: 617
Period size: 208 Copynumber: 1.9 Consensus size: 209
4218739 ATCGCGCCAC
* *
4218749 CGAGACAACACAAGTTCAACTTCACAACGAATGGACGGTTGGTTGTCAACAAACAACTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA---CCCAAT
* * *
4218814 TTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAATACAACACAAGTTCAACTTCA
63 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCA
* * * *
4218879 TAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
128 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAACCAATTTCAACTTCACA
4218944 ACGAAGGGCATTGGACT
193 ACGAAGGGCATTGGACT
* * *
4218961 CGAGACAGCACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAA-CCAATTTT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACCCAATTTC
* * *
4219025 AGAACCAATTTCAACTTCACAGCGAAGGATATTGGATTCGAGGCAACACAAGTTCAACTTCACAA
66 AGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAA
* *
4219090 CGAAGGGATGGCTGGTTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTTCAC
131 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAACCAATTTCAACTTCAC
4219151 GGAGAGGATA
Statistics
Matches: 173, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
208 121 0.70
212 52 0.30
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (209 bp):
CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACCCAATTTC
AGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAA
CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAACCAATTTCAACTTCACAACG
AAGGGCATTGGACT
Found at i:4220539 original size:22 final size:24
Alignment explanation
Indices: 4220493--4220539 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4220483 CTTCTTATTT
*
4220493 TATTTAATATTACATTATAGTATA
1 TATTTAATATTACATCATAGTATA
*
4220517 TATTTGATATTAC-TCA-AGTATA
1 TATTTAATATTACATCATAGTATA
4220539 T
1 T
4220540 TATTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 2 0.10
24 12 0.57
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (24 bp):
TATTTAATATTACATCATAGTATA
Found at i:4222321 original size:113 final size:112
Alignment explanation
Indices: 4222100--4222358 Score: 349
Period size: 113 Copynumber: 2.3 Consensus size: 112
4222090 TTTCAACAAA
* ** * ** *
4222100 GTATCGATACATGTACAAAAAGTATCGATACTTTCAACATATCCGGTATCTCTTTATCGGTTTTG
1 GTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCAATATCTCTTTACCGGTTTTG
4222165 TCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGTTAT
66 TCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGTTAT
** * *
4222212 GTATTTATATATTTTTATAAAGTATCGATACTTTCAACATATCCAATAGT-TCTTTGCCGGTTTT
1 GTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCAATA-TCTCTTTACCGG-TTT
* * *
4222276 TTTCATTATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTTAT
64 TGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGTTAT
**
4222325 GTATCGATACATTTTTATAAAGTATTAATACTTT
1 GTATCGATACATTTTTATAAAGTATCGATACTTT
4222359 ATAGACACTA
Statistics
Matches: 126, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
112 47 0.37
113 79 0.63
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (112 bp):
GTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCAATATCTCTTTACCGGTTTTG
TCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGTTAT
Found at i:4222641 original size:73 final size:72
Alignment explanation
Indices: 4222449--4223375 Score: 1129
Period size: 73 Copynumber: 12.7 Consensus size: 72
4222439 CAGTAGGTAG
* * *
4222449 TTTAATGTATTAGGTAGCGCCTATTTTTTTTTTACCGTTTACATTATTAGCAACCTTCAAAAAAA
1 TTTAATGTAATAGGTAGCGCCTA---TTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAA
4222514 CCGGTAAGTAT
63 CCGGT-AGTAT
** * *
4222525 TTTAATGTAATAGGTAGCGGTTATTTTTTTTACTGTTTACATTATTAACAACCTTCAAAAAAACC
1 TTTAATGTAATAGGTAGCGCCTA-TTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACC
4222590 GGTAGCTAT
65 GGTAG-TAT
4222599 TTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCG
1 TTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCG
4222664 GTAAGTAT
66 GT-AGTAT
* * * *
4222672 TTTAATATAATAGGTAGCACCTATTTTTTTTACCGTTTACATTATTAACAA-CTTTAAAAAAATC
1 TTTAATGTAATAGGTAGCGCCTA-TTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACC
*
4222736 GATAGATAT
65 GGTAG-TAT
*
4222745 TTTAATGTAATAGGTAGCCGCTATATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAAC
1 TTTAATGTAATAGGTAG-CGC-CTATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAAC
* *
4222810 TGGTATATAT
64 CGGTA-GTAT
* * *
4222820 TTTAATGTAATAGGTAGCACCTATTTTTTTACGGTTTACATTATTAACAACCTTAAAAAAAACCA
1 TTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCG
4222885 GTAGGTAT
66 GTA-GTAT
* * * * *
4222893 TTTAATGTAATAGGTAGCACCTATTTTATTTTATCGTTTACATTATTAGCAATCATT-AAACAAA
1 TTTAATGTAATAGGTAGCGCCTA-TTT-TTTTACCGTTTACATTATTAACAA-CCTTAAAAAAAA
4222957 CCGGTAGGTAT
63 CCGGTA-GTAT
* *
4222968 TTTAATGTAATAGGTAGCGCCTA-TTTTTTACC-ATTACATTATTAGCAACCTTAAAAAAAACCG
1 TTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCG
*
4223031 GTATGTAG
66 GTA-GTAT
* * * *
4223039 TTTAATATAATATGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTCAAAAAAACTG
1 TTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCG
4223104 GTAAGTAT
66 GT-AGTAT
* * **
4223112 TTTAATGTAATAGGT--CGCATA-TTTTTTGCCGTTTACATTATTAGTAACCTTAAAAAAAA-CG
1 TTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCG
4223173 GTATGTAT
66 GTA-GTAT
* * ** * * *
4223181 CTTAATGTAATAGGTAGCACCTATTTTAATTTTACCGTTTACATTATTAGTAATCTTTAAACAAA
1 TTTAATGTAATAGGTAGCGCCTA-TTT--TTTTACCGTTTACATTATTAACAACCTTAAAAAAAA
4223246 CCGGTAGGTAT
63 CCGGTA-GTAT
*
4223257 TTTAATATAATAGGTAGCG-CTATTTTTTTACCGTTTACATTATTAACAACCTT--AAAAAACCG
1 TTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCG
*
4223319 GTAGGTAG
66 GTA-GTAT
* **
4223327 TTTAATATAATAGGTAGTACCTATTTTTTTTACCGTTTACATTATTAAC
1 TTTAATGTAATAGGTAGCGCCTA-TTTTTTTACCGTTTACATTATTAAC
4223376 CGTTTTTAAC
Statistics
Matches: 751, Mismatches: 75, Indels: 54
0.85 0.09 0.06
Matches are distributed among these distances:
68 1 0.00
69 21 0.03
70 69 0.09
71 63 0.08
72 67 0.09
73 219 0.29
74 134 0.18
75 129 0.17
76 48 0.06
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (72 bp):
TTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACCG
GTAGTAT
Found at i:4222698 original size:147 final size:145
Alignment explanation
Indices: 4222449--4223375 Score: 1167
Period size: 147 Copynumber: 6.3 Consensus size: 145
4222439 CAGTAGGTAG
* * *
4222449 TTTAATGTATTAGGTAGCGCCTATTTTTTTTTTACCGTTTACATTATTAGCAACCTTCAAAAAAA
1 TTTAATGTAATAGGTAGCGCCTA--TTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAA
*** *
4222514 CCGGTAAGTATTTTAATGTAATAGGTAGCGGTTATTTTTTTTACTGTTTACATTATTAACAACCT
64 CCGGTAAGTATTTTAATGTAATAGGTAGCACCTA-TTTTTTTACCGTTTACATTATTAACAACCT
4222579 TCAAAAAAACCGGTAGCTAT
128 T-AAAAAAACCGGTAG-TAT
4222599 TTTAATGTAATAGGTAGCGCCTA-TTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACC
1 TTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACC
* *
4222663 GGTAAGTATTTTAATATAATAGGTAGCACCTATTTTTTTTACCGTTTACATTATTAACAACTTTA
66 GGTAAGTATTTTAATGTAATAGGTAGCACCTA-TTTTTTTACCGTTTACATTATTAACAACCTTA
* *
4222728 AAAAAATCGATAGATAT
130 AAAAAACCGGTAG-TAT
4222745 TTTAATGTAATAGGTAGC-CGCTATATTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAA
1 TTTAATGTAATAGGTAGCGC-CTAT-TTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAA
* *
4222809 CTGGTATA-TATTTTAATGTAATAGGTAGCACCTATTTTTTTACGGTTTACATTATTAACAACCT
64 CCGGTA-AGTATTTTAATGTAATAGGTAGCACCTATTTTTTTACCGTTTACATTATTAACAACCT
*
4222873 TAAAAAAAACCAGTAGGTAT
128 T-AAAAAAACCGGTA-GTAT
* * * * *
4222893 TTTAATGTAATAGGTAGCACCTATTTTATTTTATCGTTTACATTATTAGCAATCATT-AAACAAA
1 TTTAATGTAATAGGTAGCGCCTATTTT-TTTTACCGTTTACATTATTAACAA-CCTTAAAAAAAA
* * * *
4222957 CCGGTAGGTATTTTAATGTAATAGGTAGCGCCTA-TTTTTTACC-ATTACATTATTAGCAACCTT
64 CCGGTAAGTATTTTAATGTAATAGGTAGCACCTATTTTTTTACCGTTTACATTATTAACAACCTT
*
4223020 AAAAAAAACCGGTATGTAG
129 -AAAAAAACCGGTA-GTAT
* * * *
4223039 TTTAATATAATATGTAGCGCCTA-TTTTTTTACCGTTTACATTATTAACAACCTTCAAAAAAACT
1 TTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACC
* * **
4223103 GGTAAGTATTTTAATGTAATAGGTCGCA--TA-TTTTTTGCCGTTTACATTATTAGTAACCTTAA
66 GGTAAGTATTTTAATGTAATAGGTAGCACCTATTTTTTTACCGTTTACATTATTAACAACCTTAA
*
4223165 AAAAAACGGTATGTAT
131 AAAAACCGGTA-GTAT
* * ** * * *
4223181 CTTAATGTAATAGGTAGCACCTATTTTAATTTTACCGTTTACATTATTAGTAATCTTTAAACAAA
1 TTTAATGTAATAGGTAGCGCCTATTTT--TTTTACCGTTTACATTATTAACAACCTTAAAAAAAA
* * *
4223246 CCGGTAGGTATTTTAATATAATAGGTAGC-GCTATTTTTTTACCGTTTACATTATTAACAACCTT
64 CCGGTAAGTATTTTAATGTAATAGGTAGCACCTATTTTTTTACCGTTTACATTATTAACAACCTT
*
4223310 -AAAAAACCGGTAGGTAG
129 AAAAAAACCGGTA-GTAT
* **
4223327 TTTAATATAATAGGTAGTACCTATTTTTTTTACCGTTTACATTATTAAC
1 TTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAAC
4223376 CGTTTTTAAC
Statistics
Matches: 687, Mismatches: 72, Indels: 42
0.86 0.09 0.05
Matches are distributed among these distances:
142 45 0.07
143 24 0.03
144 74 0.11
145 60 0.09
146 130 0.19
147 164 0.24
148 162 0.24
149 6 0.01
150 22 0.03
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (145 bp):
TTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAACAACCTTAAAAAAAACC
GGTAAGTATTTTAATGTAATAGGTAGCACCTATTTTTTTACCGTTTACATTATTAACAACCTTAA
AAAAACCGGTAGTAT
Found at i:4223769 original size:40 final size:41
Alignment explanation
Indices: 4223721--4223818 Score: 128
Period size: 45 Copynumber: 2.3 Consensus size: 41
4223711 TTGGGTGTAA
*
4223721 GTAATCGGATCAATCAGGT-AAAATTTAGTCAAATGGGTAG
1 GTAATCGGATCAATCAGGTCAAAATGTAGTCAAATGGGTAG
*
4223761 GTAATCGGATCAATCAGGTCAGGCAAAATGTGGTCAAATGGGTAG
1 GTAATCGGATCAATCAGGT----CAAAATGTAGTCAAATGGGTAG
4223806 GTAA-CGGATCAAT
1 GTAATCGGATCAAT
4223819 AATTGGGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
40 19 0.37
44 9 0.18
45 23 0.45
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (41 bp):
GTAATCGGATCAATCAGGTCAAAATGTAGTCAAATGGGTAG
Found at i:4223789 original size:45 final size:44
Alignment explanation
Indices: 4223734--4223818 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
4223724 ATCGGATCAA
* *
4223734 TCAGGTAAAATTTAGTCAAATGGGTAGGTAATCGGATCAATCAGG
1 TCAGGCAAAATGTAGTCAAATGGGTAGGTAA-CGGATCAATCAGG
*
4223779 TCAGGCAAAATGTGGTCAAATGGGTAGGTAACGGATCAAT
1 TCAGGCAAAATGTAGTCAAATGGGTAGGTAACGGATCAAT
4223819 AATTGGGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 9 0.24
45 28 0.76
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (44 bp):
TCAGGCAAAATGTAGTCAAATGGGTAGGTAACGGATCAATCAGG
Found at i:4224825 original size:63 final size:62
Alignment explanation
Indices: 4224735--4224858 Score: 171
Period size: 63 Copynumber: 2.0 Consensus size: 62
4224725 ACAAATAATA
* *
4224735 ATATTTTTTAATTTGAAATATTCAAAAG-ATATAGA-AATCTTTTACTATTCAAACTTAAAAAG
1 ATATTTTTTAATTTGAAATATTAAAAAGTATATA-ATAATC-TTTAATATTCAAACTTAAAAAG
* *
4224797 ATATTATTTTAATTTGAAATATTAAAAAGTATATAATTATCTTTAATATTCAAAGTTAAAAA
1 ATATT-TTTTAATTTGAAATATTAAAAAGTATATAATAATCTTTAATATTCAAACTTAAAAA
4224859 TATAATAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
62 5 0.09
63 42 0.76
64 8 0.15
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (62 bp):
ATATTTTTTAATTTGAAATATTAAAAAGTATATAATAATCTTTAATATTCAAACTTAAAAAG
Found at i:4224842 original size:34 final size:35
Alignment explanation
Indices: 4224799--4224897 Score: 89
Period size: 34 Copynumber: 2.9 Consensus size: 35
4224789 TTAAAAAGAT
4224799 ATTAT-TTTAATTTGAAATATTAAAAAGTAT-ATA
1 ATTATCTTTAATTTGAAATATTAAAAAGTATAATA
* *
4224832 ATTATCTTTAATATTCAAA-GTTAAAAA-TATAATA
1 ATTATCTTTAAT-TTGAAATATTAAAAAGTATAATA
* * * *
4224866 AATACCTTTTAATTTGATATATTCAAAGAGTA
1 ATTATC-TTTAATTTGAAATATT-AAAAAGTA
4224898 ATTATCCTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
33 8 0.16
34 24 0.47
35 13 0.25
36 4 0.08
37 2 0.04
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (35 bp):
ATTATCTTTAATTTGAAATATTAAAAAGTATAATA
Found at i:4228809 original size:23 final size:23
Alignment explanation
Indices: 4228777--4228834 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
4228767 ATACACTTAG
*
4228777 ACATAATCAATGATACAAAGTAAA
1 ACAT-ATCAATGATACAAAATAAA
*
4228801 ACATATCAATGATATAAAATAAA
1 ACATATCAATGATACAAAATAAA
*
4228824 TCATAT-AATGA
1 ACATATCAATGA
4228835 AAATACAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 5 0.16
23 22 0.71
24 4 0.13
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (23 bp):
ACATATCAATGATACAAAATAAA
Found at i:4235584 original size:64 final size:62
Alignment explanation
Indices: 4235515--4235693 Score: 182
Period size: 64 Copynumber: 2.8 Consensus size: 62
4235505 TGGAACACTT
* * * **
4235515 AGTGCATCAGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATC-GTGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* * * *
4235579 AGTGCATCGGTGCAT-TGCTTGTGCCTGGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATC-GTGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
*
4235643 AGTGCATCGATGCATAGAGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCG-TGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
4235694 CAATTTATTC
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 90 0.95
65 2 0.02
66 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (62 bp):
AGTGCATCGTGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:4236062 original size:12 final size:12
Alignment explanation
Indices: 4236045--4236072 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4236035 TTTCTTTGAA
4236045 AAATAAATTTTG
1 AAATAAATTTTG
4236057 AAATAAATTTTG
1 AAATAAATTTTG
4236069 AAAT
1 AAAT
4236073 TACCCCCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (12 bp):
AAATAAATTTTG
Found at i:4242256 original size:22 final size:21
Alignment explanation
Indices: 4242214--4242253 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4242204 AAGACTATTT
4242214 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
4242235 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
4242254 ATAGAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:4244016 original size:64 final size:63
Alignment explanation
Indices: 4243948--4244127 Score: 211
Period size: 64 Copynumber: 2.8 Consensus size: 63
4243938 TGGAACACTT
* * * **
4243948 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* * *
4244012 AGTGCATCGGTGCAT-TGCTTGTGCATCAATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* *
4244076 AGTGCATCGATGCATAGAGAGTGCATCGATGCATGAAATGCATTCGATGTTT
1 AGTGCATCGGTGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
4244128 AATTTATTCA
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
62 1 0.01
64 95 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (63 bp):
AGTGCATCGGTGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:4244145 original size:64 final size:63
Alignment explanation
Indices: 4243968--4244154 Score: 175
Period size: 64 Copynumber: 2.9 Consensus size: 63
4243958 TGCACCAAGT
* * * * **
4243968 GTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAGCC--TGAGTGCATCGGTGCATTGCT
1 GTGCATCGATGCATGAAATGCATTCGATGTTT-AATATA-CCAATG-GTGCATCGATGCATAGAG
*
4244031 T
63 A
* *
4244032 GTGCATCAATGCATGAAATGCATTCGATGTTTTAATAAAACCCAA--GTGCATCGATGCATAGAG
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTAAT-ATA-CCAATGGTGCATCGATGCATAGAG
4244095 A
63 A
* * *
4244096 GTGCATCGATGCATGAAATGCATTCGATGTTTAATTTATTCAATGGTGCATTGATGCAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTAATATA-CCAATGGTGCATCGATGCAT
4244155 GGATTGATGC
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
62 4 0.04
63 6 0.06
64 84 0.83
65 7 0.07
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTAATATACCAATGGTGCATCGATGCATAGAGA
Found at i:4244881 original size:20 final size:20
Alignment explanation
Indices: 4244858--4244903 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
4244848 AGTAGTTACA
*
4244858 AAACTTTCATCAAAGTTTTT
1 AAACTTTCATCAAAGTTTTG
* * *
4244878 AAACTCTCTTTAAAGTTTTG
1 AAACTTTCATCAAAGTTTTG
4244898 AAACTT
1 AAACTT
4244904 AGGGTTCTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (20 bp):
AAACTTTCATCAAAGTTTTG
Found at i:4245502 original size:77 final size:77
Alignment explanation
Indices: 4245375--4245528 Score: 263
Period size: 77 Copynumber: 2.0 Consensus size: 77
4245365 AGAAAGTTAG
* *
4245375 AACAAATTAGTGAATTTTTTTAAATCCTTAGTCTAGAAGCTAAGTTAGTGAATGTAGACTTCAGT
1 AACAAATTAGTGAATTTTTTGAAATCCTTAGTCTAGAAGCTAAGTTAGTGAATGTAGACTTCAAT
*
4245440 GAGGAATTTGAA
66 GAGGAAGTTGAA
* *
4245452 AACAAATTAGTGAATTTTTTGAAATCCTTAGTGTGGAAGCTAAGTTAGTGAATGTAGACTTCAAT
1 AACAAATTAGTGAATTTTTTGAAATCCTTAGTCTAGAAGCTAAGTTAGTGAATGTAGACTTCAAT
4245517 GAGGAAGTTGAA
66 GAGGAAGTTGAA
4245529 CCACTCTAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.34
Consensus pattern (77 bp):
AACAAATTAGTGAATTTTTTGAAATCCTTAGTCTAGAAGCTAAGTTAGTGAATGTAGACTTCAAT
GAGGAAGTTGAA
Found at i:4260845 original size:56 final size:57
Alignment explanation
Indices: 4260774--4260932 Score: 205
Period size: 56 Copynumber: 2.8 Consensus size: 57
4260764 GCACTAATGT
4260774 ATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCGGAATTGCATTAAAG
1 ATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCGGAATT-CATTAAAG
* * * * *
4260832 -T-ATTAGTACATATGGTGGGAACGACCTTATGTGTCATATTCGGGACTTCATTAAAG
1 ATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTC-GGAATTCATTAAAG
* * *
4260888 CATAACTAGTGCAGATGGTGGTCACTACCTTATGTGTCATACTCG
1 -ATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCG
4260933 AGTTAGCACT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
56 44 0.52
57 6 0.07
58 2 0.02
59 33 0.39
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (57 bp):
ATAACTAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCGGAATTCATTAAAG
Found at i:4260925 original size:59 final size:58
Alignment explanation
Indices: 4260751--4260928 Score: 218
Period size: 59 Copynumber: 3.1 Consensus size: 58
4260741 CAACAGGTTG
* *
4260751 CATATTCGGGATTGCACTAATGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGATTGCATTAAAG-ATAACTAGTGCATATGGTGGGCACGACCTTATGTGT
* * * * *
4260810 CATACTCGGAATTGCATTAAAG-T-ATTAGTACATATGGTGGGAACGACCTTATGTGT
1 CATATTCGGGATTGCATTAAAGATAACTAGTGCATATGGTGGGCACGACCTTATGTGT
* * *
4260866 CATATTCGGGACTT-CATTAAAGCATAACTAGTGCAGATGGTGGTCACTACCTTATGTGT
1 CATATTCGGGA-TTGCATTAAAG-ATAACTAGTGCATATGGTGGGCACGACCTTATGTGT
4260925 CATA
1 CATA
4260929 CTCGAGTTAG
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
56 47 0.47
57 3 0.03
58 1 0.01
59 49 0.49
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (58 bp):
CATATTCGGGATTGCATTAAAGATAACTAGTGCATATGGTGGGCACGACCTTATGTGT
Found at i:4262535 original size:59 final size:58
Alignment explanation
Indices: 4262462--4262631 Score: 164
Period size: 56 Copynumber: 2.9 Consensus size: 58
4262452 GTATATTCGG
* *
4262462 GATTGCACTAAAGTACAACTAGTGCATATGTTAGGCACGTCCTTATATGTCATACTCAA
1 GATTGCACTAAAGTA-AACTAGTGCATATGGTAGGCACGACCTTATATGTCATACTCAA
* * * * * * *
4262521 GATTGCCCTAAAGT--ATTAGTGCATATGGTGGGCACGACCTTATGTGTTATATTCCA
1 GATTGCACTAAAGTAAACTAGTGCATATGGTAGGCACGACCTTATATGTCATACTCAA
* * * * * * *
4262577 GACTGCACTAAAGTATAACTAGTGCAGATTGTGGGCAAGACCTTATGTTTCATAC
1 GATTGCACTAAAGTA-AACTAGTGCATATGGTAGGCACGACCTTATATGTCATAC
4262632 ACGGGTTACC
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
56 46 0.51
59 44 0.49
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (58 bp):
GATTGCACTAAAGTAAACTAGTGCATATGGTAGGCACGACCTTATATGTCATACTCAA
Found at i:4265052 original size:20 final size:20
Alignment explanation
Indices: 4265027--4265080 Score: 99
Period size: 20 Copynumber: 2.6 Consensus size: 20
4265017 AGTGGTGTCA
4265027 TTGTGTTGTATATAGCTCAC
1 TTGTGTTGTATATAGCTCAC
4265047 TTGTGTTGTATATAGCTCAC
1 TTGTGTTGTATATAGCTCAC
4265067 TTGTGTTGGTATAT
1 TTGTGTT-GTATAT
4265081 GAGCGTGAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 27 0.82
21 6 0.18
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (20 bp):
TTGTGTTGTATATAGCTCAC
Found at i:4289391 original size:11 final size:12
Alignment explanation
Indices: 4289375--4289453 Score: 61
Period size: 12 Copynumber: 6.3 Consensus size: 12
4289365 AATTATTAAC
4289375 ATATTTAA-AAT
1 ATATTTAATAAT
4289386 ATATTTAATAAT
1 ATATTTAATAAT
* *
4289398 ATTTTTATTAAT
1 ATATTTAATAAT
*
4289410 ATTATATAATAAT
1 A-TATTTAATAAT
*
4289423 AATTATTACAATAAT
1 -A-TATT-TAATAAT
* *
4289438 ATACTTAATTAT
1 ATATTTAATAAT
4289450 ATAT
1 ATAT
4289454 AATAAAATAT
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
11 8 0.15
12 22 0.42
13 11 0.21
14 6 0.11
15 6 0.11
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:4289606 original size:23 final size:21
Alignment explanation
Indices: 4289579--4289633 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
4289569 CTTTTATTTA
4289579 ATATTATAAAAATTCCTTAAAAT
1 ATATTATAAAAATT--TTAAAAT
*
4289602 ATATTTATTAATAATTTTAAAAT
1 ATA-TTA-TAAAAATTTTAAAAT
*
4289625 ATAATATAA
1 ATATTATAA
4289634 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 13 0.46
24 3 0.11
25 7 0.25
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTATAAAAATTTTAAAAT
Found at i:4289634 original size:21 final size:23
Alignment explanation
Indices: 4289595--4289641 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
4289585 TAAAAATTCC
*
4289595 TTAAAATATATTTATTAATAATT
1 TTAAAATATATATATTAATAATT
*
4289618 TTAAAATATA-ATA-TAATATTT
1 TTAAAATATATATATTAATAATT
4289639 TTA
1 TTA
4289642 TTTTAATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATATATATTAATAATT
Found at i:4289696 original size:29 final size:29
Alignment explanation
Indices: 4289615--4289698 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
4289605 TTTATTAATA
*
4289615 ATTT-TAAAA-TATA-ATATAATATTTTT
1 ATTTATAAAATTATAGAAATAATATTTTT
* **
4289641 ATTTTAATAGAATATACTAGAGTTAATATTTTT
1 A-TTT-ATAAAAT-TA-TAGAAATAATATTTTT
4289674 ATTTATAAAATTATAGAAATAATAT
1 ATTTATAAAATTATAGAAATAATAT
4289699 CTTAATAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
26 1 0.02
27 3 0.07
29 14 0.31
30 2 0.04
31 8 0.18
32 5 0.11
33 12 0.27
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (29 bp):
ATTTATAAAATTATAGAAATAATATTTTT
Found at i:4289798 original size:23 final size:21
Alignment explanation
Indices: 4289745--4289799 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
4289735 ATTATTCTAA
*
4289745 TATTTTTAAAATAATAATATT
1 TATTTTTATAATAATAATATT
*
4289766 AAGTTTTTATAATAAATAATATT
1 TA-TTTTTATAAT-AATAATATT
4289789 TATTTATTATA
1 TATTT-TTATA
4289800 TTTATATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.04
22 12 0.43
23 15 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTTTTATAATAATAATATT
Found at i:4290303 original size:18 final size:15
Alignment explanation
Indices: 4290280--4290333 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 15
4290270 TTTGTCCCAT
4290280 TTATTATAATAATAATAA
1 TTATTAT-AT-ATAAT-A
4290298 TTATTATATATAATA
1 TTATTATATATAATA
* *
4290313 TTATTAT-TTTATTA
1 TTATTATATATAATA
4290327 TTATTAT
1 TTATTAT
4290334 TAAATGATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 12 0.35
15 8 0.24
16 5 0.15
17 2 0.06
18 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATATAATA
Found at i:4294638 original size:42 final size:42
Alignment explanation
Indices: 4294581--4294662 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
4294571 GAGATGATCA
* * *
4294581 ATCAAGCAAAAAAGTTCCAGGATGATTCGAAGGAACAAATTG
1 ATCAAGAAAAAAAGTTCCAAGATGATTCAAAGGAACAAATTG
* *
4294623 ATCAAGAAAAAAAGTTTCAAGATGATTCAAATGAACAAAT
1 ATCAAGAAAAAAAGTTCCAAGATGATTCAAAGGAACAAAT
4294663 GACCAAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (42 bp):
ATCAAGAAAAAAAGTTCCAAGATGATTCAAAGGAACAAATTG
Found at i:4295130 original size:165 final size:165
Alignment explanation
Indices: 4294858--4295191 Score: 650
Period size: 165 Copynumber: 2.0 Consensus size: 165
4294848 CAGAGGTCAT
4294858 GTTGAAGAGAAGCATGGAAGAAGTTCAAGTTTCATTCAAAAAAGCTAAACAAAGCAAAAATCTAG
1 GTTGAAGAGAAGCATGGAAGAAGTTCAAGTTTCATTCAAAAAAGCTAAACAAAGCAAAAATCTAG
*
4294923 ACGATCATTCATAAAGTTTTCAAGATGATGGCAAAGAGAAAATTAGGTCAAAGGAATTTCTACCC
66 ACGATCATTCACAAAGTTTTCAAGATGATGGCAAAGAGAAAATTAGGTCAAAGGAATTTCTACCC
4294988 AATTTTCCTTCAGTTTCGTGCAAGTTATATTACAA
131 AATTTTCCTTCAGTTTCGTGCAAGTTATATTACAA
*
4295023 GTTGAAGAGAAGCATGGAAGAAGTTCAAGTTTCATTCAAGAAAGCTAAACAAAGCAAAAATCTAG
1 GTTGAAGAGAAGCATGGAAGAAGTTCAAGTTTCATTCAAAAAAGCTAAACAAAGCAAAAATCTAG
4295088 ACGATCATTCACAAAGTTTTCAAGATGATGGCAAAGAGAAAATTAGGTCAAAGGAATTTCTACCC
66 ACGATCATTCACAAAGTTTTCAAGATGATGGCAAAGAGAAAATTAGGTCAAAGGAATTTCTACCC
4295153 AATTTTCCTTCAGTTTCGTGCAAGTTATATTACAA
131 AATTTTCCTTCAGTTTCGTGCAAGTTATATTACAA
4295188 GTTG
1 GTTG
4295192 CTCCATGTCG
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 167 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (165 bp):
GTTGAAGAGAAGCATGGAAGAAGTTCAAGTTTCATTCAAAAAAGCTAAACAAAGCAAAAATCTAG
ACGATCATTCACAAAGTTTTCAAGATGATGGCAAAGAGAAAATTAGGTCAAAGGAATTTCTACCC
AATTTTCCTTCAGTTTCGTGCAAGTTATATTACAA
Found at i:4297787 original size:7 final size:7
Alignment explanation
Indices: 4297775--4297898 Score: 90
Period size: 7 Copynumber: 16.9 Consensus size: 7
4297765 AAAAGAGAGA
4297775 AAAAAAG
1 AAAAAAG
4297782 AAAAAAG
1 AAAAAAG
4297789 AGAAAAA-
1 A-AAAAAG
4297796 AAGGAAAA-
1 AA--AAAAG
*
4297804 AAGAAAG
1 AAAAAAG
*
4297811 AGAAAAG
1 AAAAAAG
4297818 AAAGAAAG
1 AAA-AAAG
*
4297826 AAAAAGAT
1 AAAAA-AG
4297834 AGAAAAAG
1 A-AAAAAG
*
4297842 AGAAAAG
1 AAAAAAG
*
4297849 AGAAAAG
1 AAAAAAG
*
4297856 AGAAAAG
1 AAAAAAG
4297863 AAAAAAGG
1 AAAAAA-G
*
4297871 AGAAAAG
1 AAAAAAG
*
4297878 AGAAAAG
1 AAAAAAG
4297885 AAAAGAAG
1 AAAA-AAG
4297893 AAAAAA
1 AAAAAA
4297899 AAATTGAATC
Statistics
Matches: 98, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
6 4 0.04
7 55 0.56
8 35 0.36
9 4 0.04
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:4297791 original size:29 final size:28
Alignment explanation
Indices: 4297758--4297899 Score: 124
Period size: 29 Copynumber: 4.8 Consensus size: 28
4297748 CTCATCCATC
4297758 AGAGAAAAAAAGAGAGAAAAAAAGAAAAA
1 AGAGAAAAAAA-AGAGAAAAAAAGAAAAA
* *
4297787 AGAGAAAAAAAGGAAAAAAGAAAGAGAAAA
1 AGAGAAAAAAAAGAGAAAA-AAAGA-AAAA
* * * *
4297817 GAAAGAAAGAAAAAGATAGAAAAAGAGAAA
1 -AGAGAAA-AAAAAGAGAAAAAAAGAAAAA
* *
4297847 AGAGAAAAGAGAAA-AGAAAAAAGGAGAAA
1 AGAGAAAA-A-AAAGAGAAAAAAAGAAAAA
4297876 AGAGAAAAGAAAAGAAGAAAAAAA
1 AGAGAAAA-AAAAG-AGAAAAAAA
4297900 AATTGAATCA
Statistics
Matches: 93, Mismatches: 12, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
28 10 0.11
29 45 0.48
30 18 0.19
31 11 0.12
32 9 0.10
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (28 bp):
AGAGAAAAAAAAGAGAAAAAAAGAAAAA
Done.