Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 69 of 290
Found at i:20914079 original size:21 final size:21
Alignment explanation
Indices: 20914055--20914100 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
20914045 GACAGTTTTA
* *
20914055 GGAGTGAAATT-AGGGATATAG
1 GGAGTAAAATTGAGGGAT-GAG
20914076 GGAG-AAAATTGAGGGATGAG
1 GGAGTAAAATTGAGGGATGAG
20914096 GGAGT
1 GGAGT
20914101 TAGCAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (21 bp):
GGAGTAAAATTGAGGGATGAG
Found at i:20914097 original size:20 final size:20
Alignment explanation
Indices: 20914061--20914099 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20914051 TTTAGGAGTG
*
20914061 AAATTAGGGATATAGGGAGA
1 AAATTAGGGATAGAGGGAGA
20914081 AAATTGAGGGAT-GAGGGAG
1 AAATT-AGGGATAGAGGGAG
20914100 TTAGCAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (20 bp):
AAATTAGGGATAGAGGGAGA
Found at i:20915883 original size:21 final size:20
Alignment explanation
Indices: 20915826--20915875 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
20915816 TAAGTGAAGT
20915826 TACGGTTTTCCAACACAAGC
1 TACGGTTTTCCAACACAAGC
20915846 TACGGTTTTCCAACACAAGC
1 TACGGTTTTCCAACACAAGC
20915866 TACGGTTTTC
1 TACGGTTTTC
20915876 GAAACACACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (20 bp):
TACGGTTTTCCAACACAAGC
Found at i:20920248 original size:19 final size:19
Alignment explanation
Indices: 20920224--20920271 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
20920214 ATCTTCATGT
20920224 AAATATAAAAAATTTTAAA
1 AAATATAAAAAATTTTAAA
* ***
20920243 AAATATATACTTTTTTAAA
1 AAATATAAAAAATTTTAAA
20920262 AAAT-TAAAAA
1 AAATATAAAAA
20920272 TCTATATATT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATAAAAAATTTTAAA
Found at i:20920277 original size:28 final size:27
Alignment explanation
Indices: 20920229--20920283 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
20920219 CATGTAAATA
20920229 TAAAAAATTTTAAAAAATATATACTTTTT
1 TAAAAAA-TTTAAAAAATATATA-TTTTT
*
20920258 TAAAAAA-TTAAAAATCTATATATTTT
1 TAAAAAATTTAAAAA-ATATATATTTT
20920284 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 11 0.46
28 6 0.25
29 7 0.29
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (27 bp):
TAAAAAATTTAAAAAATATATATTTTT
Found at i:20920404 original size:16 final size:17
Alignment explanation
Indices: 20920380--20920412 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20920370 TATGAATTTT
*
20920380 TTTATAATTTA-TAAAA
1 TTTAAAATTTATTAAAA
20920396 TTTAAAATTTATTAAAA
1 TTTAAAATTTATTAAAA
20920413 GTTCTCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAAAATTTATTAAAA
Found at i:20927015 original size:18 final size:17
Alignment explanation
Indices: 20926990--20927044 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
20926980 AAAAGTACGT
20926990 TAAA-TTATTAATTAATA
1 TAAATTTATT-ATTAATA
*
20927007 TAAATTTATT-TTATTA
1 TAAATTTATTATTAATA
*
20927023 T-ATTTTATTATTTAATA
1 TAAATTTATTA-TTAATA
20927040 TAAAT
1 TAAAT
20927045 ATCTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 7 0.23
16 6 0.20
17 10 0.33
18 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTATTATTAATA
Found at i:20929364 original size:40 final size:40
Alignment explanation
Indices: 20929309--20929389 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
20929299 ATGGAACTCT
20929309 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
20929349 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
20929389 A
1 A
20929390 GTATAACTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (40 bp):
ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
Found at i:20931864 original size:24 final size:25
Alignment explanation
Indices: 20931834--20931904 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 25
20931824 AATAATAATT
20931834 TTATATTAA-AATTATTATTAAAAA
1 TTATATTAATAATTATTATTAAAAA
*
20931858 TTATATTAATAATGTTATT-TTATTAAA
1 TTATATTAATAA--TTATTATTA-AAAA
*
20931885 TTATATTTAATAATAATTAT
1 TTATA-TTAATAATTATTAT
20931905 GTTAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
24 9 0.23
25 2 0.05
26 7 0.18
27 14 0.36
28 7 0.18
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (25 bp):
TTATATTAATAATTATTATTAAAAA
Found at i:20932129 original size:44 final size:46
Alignment explanation
Indices: 20932059--20932152 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
20932049 ATTACAACAT
*
20932059 CATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTTTACTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTC
* *** *
20932103 CATTCCATTCAACTAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTC
20932149 CATT
1 CATT
20932153 ATAACTCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 23 0.55
45 2 0.05
46 17 0.40
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTC
Found at i:20932160 original size:16 final size:16
Alignment explanation
Indices: 20932134--20932187 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
20932124 TGAATTACTG
* *
20932134 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCA
*
20932150 ATTATAACTCTATTCA
1 ATTACAACTCTATTCA
* *
20932166 ATTACAACCCTATTCT
1 ATTACAACTCTATTCA
20932182 ATTACA
1 ATTACA
20932188 GTGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:20935219 original size:14 final size:14
Alignment explanation
Indices: 20935202--20935239 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
20935192 CTTTAGTACG
20935202 ATTTC-TTTCACTTT
1 ATTTCATTTCA-TTT
20935216 ATTTCATTTCATTT
1 ATTTCATTTCATTT
*
20935230 ATTTTATTTC
1 ATTTCATTTC
20935240 TACTGATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTCATTTCATTT
Found at i:20937674 original size:22 final size:22
Alignment explanation
Indices: 20937648--20937730 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 22
20937638 CCCAAATCGG
*
20937648 TTGTTTTGCTACTATTTCGCTA
1 TTGTTTTGCTACTATTTCACTA
** ** * *
20937670 TTGTTTTATTGTTGTTTCACTG
1 TTGTTTTGCTACTATTTCACTA
*
20937692 TTGTTTTGCTACCATTTCACTA
1 TTGTTTTGCTACTATTTCACTA
* * *
20937714 TTATATTGCTATTATTT
1 TTGTTTTGCTACTATTT
20937731 TATTGTTATT
Statistics
Matches: 43, Mismatches: 18, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (22 bp):
TTGTTTTGCTACTATTTCACTA
Found at i:20938215 original size:17 final size:18
Alignment explanation
Indices: 20938185--20938219 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20938175 TTGTTTTCAT
20938185 TATTTTCTAATTTTCAAA
1 TATTTTCTAATTTTCAAA
*
20938203 TATTTT-TATTTTTCAAA
1 TATTTTCTAATTTTCAAA
20938220 AATTATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTCTAATTTTCAAA
Found at i:20947868 original size:3 final size:3
Alignment explanation
Indices: 20947860--20947893 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
20947850 AGGAAAAATA
* *
20947860 AAT AAT AAT AGT AAT AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
20947894 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20948061 original size:3 final size:3
Alignment explanation
Indices: 20948053--20948080 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
20948043 GTAAATAGTG
20948053 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20948081 ATATTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20950752 original size:52 final size:52
Alignment explanation
Indices: 20950605--20950731 Score: 254
Period size: 52 Copynumber: 2.4 Consensus size: 52
20950595 CAAATAAAAT
20950605 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
1 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
20950657 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
1 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
20950709 AAGAATCCATTTTTATGTTCTTC
1 AAGAATCCATTTTTATGTTCTTC
20950732 ATTCGTCTAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (52 bp):
AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
Found at i:20953380 original size:9 final size:9
Alignment explanation
Indices: 20953353--20953397 Score: 63
Period size: 9 Copynumber: 4.8 Consensus size: 9
20953343 TGAGGGTCTA
20953353 GCTATACAT
1 GCTATACAT
20953362 GCCATATACAT
1 G-C-TATACAT
20953373 GCTATACAT
1 GCTATACAT
20953382 GCTATACAT
1 GCTATACAT
*
20953391 GTTATAC
1 GCTATAC
20953398 TATGTTTTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 23 0.70
10 2 0.06
11 8 0.24
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
GCTATACAT
Found at i:20954654 original size:105 final size:105
Alignment explanation
Indices: 20954528--20954740 Score: 336
Period size: 105 Copynumber: 2.0 Consensus size: 105
20954518 AGAATGCAAG
* * *
20954528 ACTGAGTAACACAGCCACTAGAATGAGGCCACGAAGAAATATGGAAAATGCGAGTGGTAATCGCA
1 ACTGAGTAACACAGCCACTAGAAGGAGGCCACAAAGAAATATGGAAAATGCGAGTGGTAATCACA
* *
20954593 GTACTATGAGAGATTCTATAGTAAGATCCGAGGCTAGAGC
66 GTACAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGC
* * * *
20954633 ACTGAGTAACACAGCCACTAGAGGGAGGCCACAAAGAAATGTGGGAAATGCGAGTGGTAATCACG
1 ACTGAGTAACACAGCCACTAGAAGGAGGCCACAAAGAAATATGGAAAATGCGAGTGGTAATCACA
*
20954698 GTTCAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGC
66 GTACAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGC
20954738 ACT
1 ACT
20954741 AATGGGCGTC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 98 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (105 bp):
ACTGAGTAACACAGCCACTAGAAGGAGGCCACAAAGAAATATGGAAAATGCGAGTGGTAATCACA
GTACAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGC
Found at i:20956579 original size:19 final size:19
Alignment explanation
Indices: 20956555--20956592 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
20956545 TTTTATTCAT
20956555 TTATTTATGTACAAGCAAA
1 TTATTTATGTACAAGCAAA
20956574 TTATTTATGTACAAGCAAA
1 TTATTTATGTACAAGCAAA
20956593 CATGTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (19 bp):
TTATTTATGTACAAGCAAA
Found at i:20963194 original size:10 final size:11
Alignment explanation
Indices: 20963171--20963209 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
20963161 CTAATTTAAC
*
20963171 ATAAAATCAAA
1 ATAAAATAAAA
20963182 ATAAAAT-AAA
1 ATAAAATAAAA
20963192 AT-AAATAAAA
1 ATAAAATAAAA
20963202 ATAAAATA
1 ATAAAATA
20963210 TGATCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
10 10 0.38
11 12 0.46
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:20963199 original size:4 final size:5
Alignment explanation
Indices: 20963171--20963209 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
20963161 CTAATTTAAC
20963171 ATAAA ATCAAA ATAAA ATAAA AT-AA ATAAAA ATAAA ATA
1 ATAAA AT-AAA ATAAA ATAAA ATAAA AT-AAA ATAAA ATA
20963210 TGATCTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.13
5 18 0.58
6 9 0.29
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:20967539 original size:21 final size:20
Alignment explanation
Indices: 20967514--20967552 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
20967504 GAGTATTTTT
20967514 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
20967535 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
20967553 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:20970808 original size:21 final size:21
Alignment explanation
Indices: 20970754--20970809 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
20970744 GTGAAGGTCA
*
20970754 CACACGCCCGTATGGAGAAGG
1 CACACGCCCGTGTGGAGAAGG
* *
20970775 CACACGCCTGTGTGGAGAGGG
1 CACACGCCCGTGTGGAGAAGG
20970796 CACACGCCCGTGTG
1 CACACGCCCGTGTG
20970810 AACAGCCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.30, G:0.36, T:0.12
Consensus pattern (21 bp):
CACACGCCCGTGTGGAGAAGG
Found at i:20980010 original size:20 final size:20
Alignment explanation
Indices: 20979985--20980028 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
20979975 CCTCAACCTT
*
20979985 AAAAAAAC-ACCAAATCAAGA
1 AAAAAAACGA-CAAACCAAGA
20980005 AAAAAAACGACAAACCAAGA
1 AAAAAAACGACAAACCAAGA
20980025 AAAA
1 AAAA
20980029 TAAAGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.18, G:0.07, T:0.02
Consensus pattern (20 bp):
AAAAAAACGACAAACCAAGA
Found at i:20980192 original size:25 final size:23
Alignment explanation
Indices: 20980149--20980203 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
20980139 ATATATCATG
* **
20980149 TTTATTTTTTGAATTTAATTTAATT
1 TTTATTTTTTAAAAATAATTT-A-T
20980174 TTTATTTTTTAAAAATAATTTAT
1 TTTATTTTTTAAAAATAATTTAT
20980197 TTTATTT
1 TTTATTT
20980204 ATAAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 8 0.30
24 1 0.04
25 18 0.67
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTATTTTTTAAAAATAATTTAT
Found at i:20984191 original size:22 final size:22
Alignment explanation
Indices: 20984164--20984207 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
20984154 CAAGAAGTAA
20984164 TTTT-AAAAATATTAAAATTATT
1 TTTTAAAAAATA-TAAAATTATT
20984186 TTTTAAAAAATATAAAATTATT
1 TTTTAAAAAATATAAAATTATT
20984208 AAGTGCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTAAAAAATATAAAATTATT
Found at i:20989442 original size:16 final size:16
Alignment explanation
Indices: 20989421--20989452 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20989411 GATTATGTAA
20989421 CGAGGTTAACTATTAT
1 CGAGGTTAACTATTAT
20989437 CGAGGTTAACTATTAT
1 CGAGGTTAACTATTAT
20989453 TGTGTCATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
CGAGGTTAACTATTAT
Found at i:20989603 original size:6 final size:6
Alignment explanation
Indices: 20989592--20989626 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
20989582 AGCAAGTTAT
20989592 ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
20989627 TATTTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:20992444 original size:25 final size:26
Alignment explanation
Indices: 20992381--20992460 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
20992371 TAGATAGCTA
* *
20992381 ATAATAT-TAAAACATATACATAATAAT
1 ATAATATGAAAAACATATATAT-AT-AT
*
20992408 ATAATATTAAAAACATATATATATAT
1 ATAATATGAAAAACATATATATATAT
*
20992434 -TAATATGAAAAATGCATGTATATATAT
1 ATAATATGAAAAA--CATATATATATAT
20992461 GATATAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
25 11 0.24
26 2 0.04
27 21 0.46
28 12 0.26
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (26 bp):
ATAATATGAAAAACATATATATATAT
Found at i:20994827 original size:149 final size:149
Alignment explanation
Indices: 20994655--20995001 Score: 576
Period size: 149 Copynumber: 2.3 Consensus size: 149
20994645 CATGTGACCC
20994655 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
*
20994720 GTGTGTCCTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGA
66 GTGTGTCCTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
* *
20994785 AAATACCTCAACGTGTCTT
131 AAATACCTCAACATCTCTT
* *
20994804 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACGAACTGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
*
20994869 GTGTGTCCTGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
66 GTGTGTCCTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
20994934 AAATACCTCAACATCTCTT
131 AAATACCTCAACATCTCTT
** *
20994953 GA-GCTCAAC-CTATTTCTCGCAATATGAGTTGA-ATTTTGA-AAACAGAAAT
1 GAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAAT
20995002 AAAAACATCA
Statistics
Matches: 186, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
146 8 0.04
147 7 0.04
148 26 0.14
149 145 0.78
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (149 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCA
GTGTGTCCTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
AAATACCTCAACATCTCTT
Found at i:20994961 original size:74 final size:74
Alignment explanation
Indices: 20994630--20995001 Score: 441
Period size: 74 Copynumber: 5.0 Consensus size: 74
20994620 AAAGCAGATT
* * *
20994630 TTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 TTGAAAATACCTC-A-ACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
20994695 ACAA-ACAGAAA
64 A-AAGACAGAAA
* ** * *
20994706 TTGAAATTACCTCAGTGTGTCCTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
*
20994771 AAGATAGAAA
65 AAGACAGAAA
*
20994781 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-A
1 TTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
* *
20994845 CGAACTGAAA
66 AG-ACAGAAA
* ** *
20994855 TTGAAATTACCTCAGTGTGTCCTGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
20994920 AAGACAGAAA
65 AAGACAGAAA
* * * ** *
20994930 TTGAAAATACCTCAACATCTCTTGA-GCTCAAC-CTATTTCTCGCAATATGAGTTGA-ATTTTGA
1 TTGAAAATACCTCAACGTGTCCTGAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTTTGA
20994992 AA-ACAGAAA
65 AAGACAGAAA
20995001 T
1 T
20995002 AAAAACATCA
Statistics
Matches: 257, Mismatches: 33, Indels: 17
0.84 0.11 0.06
Matches are distributed among these distances:
71 8 0.03
72 8 0.03
73 3 0.01
74 127 0.49
75 97 0.38
76 14 0.05
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (74 bp):
TTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
AGACAGAAA
Found at i:20996911 original size:62 final size:62
Alignment explanation
Indices: 20996835--20996966 Score: 228
Period size: 62 Copynumber: 2.1 Consensus size: 62
20996825 CATTTATGAC
* * *
20996835 ATTTTCGTGCAAAACTAATGCAGTCACTTTCCATTATCAGCCAATAATAACCGAGTCTCATA
1 ATTTTCCTGCAAAACTAATACAGTCACTTTCCATCATCAGCCAATAATAACCGAGTCTCATA
*
20996897 ATTTTCCTGCAAAACTAATACAGTCACTTTCCATCATCAGCCAATAATAACCGGGTCTCATA
1 ATTTTCCTGCAAAACTAATACAGTCACTTTCCATCATCAGCCAATAATAACCGAGTCTCATA
20996959 ATTTTCCT
1 ATTTTCCT
20996967 AGCCATAGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.32
Consensus pattern (62 bp):
ATTTTCCTGCAAAACTAATACAGTCACTTTCCATCATCAGCCAATAATAACCGAGTCTCATA
Found at i:21005937 original size:27 final size:25
Alignment explanation
Indices: 21005903--21005966 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 25
21005893 TAGATAGCTA
21005903 ATAATATTAAAACATATACATAATAAT
1 ATAATATTAAAACATATACAT-AT-AT
*
21005930 ATAATATTAAAAACATATATATATAT
1 ATAATATT-AAAACATATACATATAT
21005956 ATATATATTAA
1 ATA-ATATTAA
21005967 TATGAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.21
27 15 0.44
28 12 0.35
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAATATTAAAACATATACATATAT
Found at i:21006070 original size:71 final size:71
Alignment explanation
Indices: 21005988--21006132 Score: 290
Period size: 71 Copynumber: 2.0 Consensus size: 71
21005978 CATGTGTATA
21005988 TATGATAGAGTATTAGAACACTTACATAATATACAAATATAAATACTATTAATGTTAAAAAACTT
1 TATGATAGAGTATTAGAACACTTACATAATATACAAATATAAATACTATTAATGTTAAAAAACTT
21006053 AGTAAT
66 AGTAAT
21006059 TATGATAGAGTATTAGAACACTTACATAATATACAAATATAAATACTATTAATGTTAAAAAACTT
1 TATGATAGAGTATTAGAACACTTACATAATATACAAATATAAATACTATTAATGTTAAAAAACTT
21006124 AGTAAT
66 AGTAAT
21006130 TAT
1 TAT
21006133 ATTACATAGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (71 bp):
TATGATAGAGTATTAGAACACTTACATAATATACAAATATAAATACTATTAATGTTAAAAAACTT
AGTAAT
Found at i:21006212 original size:15 final size:14
Alignment explanation
Indices: 21006188--21006241 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
21006178 GTGGTAACTA
*
21006188 TAATAATATATTAG
1 TAATAATATAATAG
*
21006202 TAATAAATATAAGAG
1 TAAT-AATATAATAG
* *
21006217 AAATAAAAATAATAG
1 TAAT-AATATAATAG
21006232 TAATAATATA
1 TAATAATATA
21006242 TAAAAAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 9 0.28
15 23 0.72
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (14 bp):
TAATAATATAATAG
Found at i:21007424 original size:8 final size:8
Alignment explanation
Indices: 21007413--21007461 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
21007403 TGGTTGAATT
21007413 TGGGTTAG
1 TGGGTTAG
21007421 TGGGTTAG
1 TGGGTTAG
* *
21007429 TAGGTTAAATT
1 TGGGTT--A-G
21007440 TGGGTTAG
1 TGGGTTAG
21007448 TGGGTTAG
1 TGGGTTAG
21007456 TGGGTT
1 TGGGTT
21007462 TAGTTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 27 0.79
9 1 0.03
10 1 0.03
11 5 0.15
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (8 bp):
TGGGTTAG
Found at i:21007439 original size:27 final size:27
Alignment explanation
Indices: 21007404--21007461 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
21007394 TTGGGTAATT
*
21007404 GGTTGAATTTGGGTTAGTGGGTTAGTA
1 GGTTAAATTTGGGTTAGTGGGTTAGTA
*
21007431 GGTTAAATTTGGGTTAGTGGGTTAGTG
1 GGTTAAATTTGGGTTAGTGGGTTAGTA
21007458 GGTT
1 GGTT
21007462 TAGTTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (27 bp):
GGTTAAATTTGGGTTAGTGGGTTAGTA
Found at i:21007679 original size:32 final size:32
Alignment explanation
Indices: 21007643--21007706 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
21007633 CTGGGGGTAA
21007643 TTTTAATCCTATTTTGGGAATAAATTTGGAAG
1 TTTTAATCCTATTTTGGGAATAAATTTGGAAG
21007675 TTTTAATCCTATTTTGGGAATAAATTTGGAAG
1 TTTTAATCCTATTTTGGGAATAAATTTGGAAG
21007707 GCTCCAGATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (32 bp):
TTTTAATCCTATTTTGGGAATAAATTTGGAAG
Found at i:21015001 original size:18 final size:20
Alignment explanation
Indices: 21014980--21015021 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
21014970 TATTATATAC
21014980 TATAAGATTA-T-TTTATCA
1 TATAAGATTATTATTTATCA
**
21014998 TATATTATTATTATTTATCA
1 TATAAGATTATTATTTATCA
21015018 TATA
1 TATA
21015022 TTATTTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
TATAAGATTATTATTTATCA
Found at i:21015014 original size:20 final size:21
Alignment explanation
Indices: 21014986--21015026 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
21014976 ATACTATAAG
21014986 ATTATTTTATCATATATTATT
1 ATTATTTTATCATATATTATT
21015007 ATTA-TTTATCATATATTATT
1 ATTATTTTATCATATATTATT
21015027 TTTCACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTATTTTATCATATATTATT
Found at i:21015025 original size:17 final size:17
Alignment explanation
Indices: 21015003--21015057 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 17
21014993 TATCATATAT
21015003 TATTATTATTTATCATA
1 TATTATTATTTATCATA
21015020 TATTATT-TTTCA-CA-A
1 TATTATTATTT-ATCATA
21015035 -ATTATTA-TTATCAT-
1 TATTATTATTTATCATA
*
21015049 TATTTTTAT
1 TATTATTAT
21015058 ATAATATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 13
0.69 0.02 0.29
Matches are distributed among these distances:
13 1 0.03
14 10 0.32
15 7 0.23
16 5 0.16
17 8 0.26
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTATTATTTATCATA
Found at i:21015213 original size:23 final size:23
Alignment explanation
Indices: 21015181--21015236 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
21015171 ATATATTCAA
*
21015181 ATTATATTTTATTATATAACATTT
1 ATTAT-TTTTATTATATAACACTT
* **
21015205 ATTATTTTTATTCTATATTACTT
1 ATTATTTTTATTATATAACACTT
21015228 ATTATTTTT
1 ATTATTTTT
21015237 TATATATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTATTTTTATTATATAACACTT
Found at i:21015274 original size:19 final size:19
Alignment explanation
Indices: 21015250--21015294 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21015240 ATATGTTATG
21015250 TATATTATATATTA-TCTAT
1 TATATTATATATTATTC-AT
*
21015269 TATATTATTTATTATTCAT
1 TATATTATATATTATTCAT
21015288 TATATTA
1 TATATTA
21015295 CTTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTATATATTATTCAT
Found at i:21017581 original size:21 final size:20
Alignment explanation
Indices: 21017553--21017595 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
21017543 GTTTTTATAT
21017553 TATTTTTTTGAAATTTAAAA
1 TATTTTTTTGAAATTTAAAA
21017573 TATTTTTTTGAAATTTAAAA
1 TATTTTTTTGAAATTTAAAA
21017593 TAT
1 TAT
21017596 GTAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TATTTTTTTGAAATTTAAAA
Found at i:21018245 original size:19 final size:20
Alignment explanation
Indices: 21018192--21018245 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
21018182 TTTTGGCACA
* *
21018192 CCCTCATAAATTTTTGGTATT
1 CCCTCA-AAAGTTTTGATATT
*
21018213 TCCTCAAAAGTTTTGATATT
1 CCCTCAAAAGTTTTGATATT
21018233 CCCTCAAAA-TTTT
1 CCCTCAAAAGTTTT
21018246 CAGTACTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.14
20 20 0.69
21 5 0.17
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (20 bp):
CCCTCAAAAGTTTTGATATT
Found at i:21023771 original size:21 final size:22
Alignment explanation
Indices: 21023729--21023784 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
21023719 TACGAGGGCT
*
21023729 GTGGAGGTATGGGACTGCTGTA
1 GTGGAGGTATGGGACCGCTGTA
*
21023751 GTGGGGGTATGGG-CCGCTGTA
1 GTGGAGGTATGGGACCGCTGTA
21023772 GTGGAGGTATGGG
1 GTGGAGGTATGGG
21023785 GCTGTTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.14, C:0.09, G:0.52, T:0.25
Consensus pattern (22 bp):
GTGGAGGTATGGGACCGCTGTA
Found at i:21024785 original size:86 final size:88
Alignment explanation
Indices: 21024630--21024828 Score: 217
Period size: 86 Copynumber: 2.2 Consensus size: 88
21024620 GAAAGTAAAA
*
21024630 TTTGAAAAGCATAAATTGAAAAAACGAAAAATTGAAAATACCTCAGCGTACGAGCCGAGGCTCAA
1 TTTGAAAA-CATAAATTG-AAAAACGAAAAATGGAAAATACCTCAGCG-ACGAGCCGAGGCTCAA
* *
21024695 CTCACCTTTAGCAATATGAATTGATT
63 CTCACCTCTAGCAATATAAATTGATT
* * * *
21024721 TTTGAAAACATAAATTGAAAAAC-AGAAATGGAAAATACTTCAGC-ATG-TCCTGAGGCTCAACT
1 TTTGAAAACATAAATTGAAAAACGAAAAATGGAAAATACCTCAGCGACGAGCC-GAGGCTCAACT
* * *
21024783 CACCTCTCGCAGTATAAATTGGTT
65 CACCTCTAGCAATATAAATTGATT
*
21024807 TTTGCCAAACAGT-AATTGAAAA
1 TTTG-AAAACA-TAAATTGAAAA
21024829 TACCTCAGCG
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
85 2 0.02
86 36 0.38
87 14 0.15
88 19 0.20
89 6 0.06
90 9 0.10
91 8 0.09
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (88 bp):
TTTGAAAACATAAATTGAAAAACGAAAAATGGAAAATACCTCAGCGACGAGCCGAGGCTCAACTC
ACCTCTAGCAATATAAATTGATT
Found at i:21024968 original size:159 final size:157
Alignment explanation
Indices: 21024659--21025059 Score: 427
Period size: 159 Copynumber: 2.5 Consensus size: 157
21024649 AAAAACGAAA
** * * * *
21024659 AATTGAAAATACCTCAGCGTACGAGCCGAGGCTCAACTCACCTTTAGCAATATGAATTGATTTTT
1 AATTGAAAATACCTCAGCGT--GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTA
* * * *
21024724 GAAAACATAAATTGAAAAACAGAAATGGAAAATACTTCAGCATGTCCTGAGGCTCAACTCACCTC
63 GAAAACAGAAATTGAAAAACAGAAATGGAAAATACTTCAACATGGCCTAAGGCTCAACTCACCTC
* *
21024789 TCGCAGTATAAATTG-GTTTTTGCCAAA-CAG
128 TCACAATATAAATTGTGTTTTTG--AAAGCAG
*
21024819 TAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTAGA
1 -AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGA
* * *
21024884 AAACAGACA-T-AAAAACAGAAATTGAAAGTGAC-TCAACACGTGAGCC-AAGGCTCAACTCACC
65 AAACAGAAATTGAAAAACAGAAATGGAAAAT-ACTTCAACA--TG-GCCTAAGGCTCAACTCACC
* * * * *
21024945 TTTCACAATATGAGTTGATTTTTTTGAAAGTAG
126 TCTCACAATATAAATTG-TGTTTTTGAAAGCAG
* *
21024978 AATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AA-TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAG
21025043 AAAAACAGAAATTGAAA
64 -AAAACAGAAATTGAAA
21025060 TTACCTCAGC
Statistics
Matches: 203, Mismatches: 25, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
156 22 0.11
157 3 0.01
158 45 0.22
159 90 0.44
160 10 0.05
161 29 0.14
162 1 0.00
163 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (157 bp):
AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAA
AACAGAAATTGAAAAACAGAAATGGAAAATACTTCAACATGGCCTAAGGCTCAACTCACCTCTCA
CAATATAAATTGTGTTTTTGAAAGCAG
Found at i:21025083 original size:73 final size:73
Alignment explanation
Indices: 21024931--21025429 Score: 570
Period size: 73 Copynumber: 6.6 Consensus size: 73
21024921 ACGTGAGCCA
* * ** * *
21024931 AGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
* * *
21024995 GCGTGCCCCG
64 ACGTGTCCTG
* *
21025005 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAAC
21025070 GTGTCCTG
66 GTGTCCTG
*
21025078 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAATAGGAATTGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-T---T--G-A---A-
*
21025143 AATACCTCAACGTGTCTTG
55 AATACCTCAACGTGTCCTG
* *
21025162 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTCA
* *
21025227 ATGTGTCTTG
64 ACGTGTCCTG
* *
21025237 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
*
21025301 GCGTGTCCTG
64 ACGTGTCCTG
** * *
21025311 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAAC
*
21025376 GTGTCTTG
66 GTGTCCTG
** *
21025384 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTATTTAAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTGAAAAACA
21025430 TAATAATGAA
Statistics
Matches: 373, Mismatches: 35, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
72 11 0.03
73 137 0.37
74 97 0.26
75 52 0.14
76 5 0.01
77 1 0.00
79 2 0.01
80 2 0.01
82 1 0.00
83 1 0.00
84 48 0.13
85 4 0.01
86 12 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAAC
GTGTCCTG
Found at i:21025114 original size:147 final size:145
Alignment explanation
Indices: 21024931--21025417 Score: 614
Period size: 147 Copynumber: 3.2 Consensus size: 145
21024921 ACGTGAGCCA
* * *
21024931 AGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-TAGAA-TTGAAAATACCTCAG
* * * *
21024996 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAT
64 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAA
* *
21025061 TACCTCAGCGTGTCCTG
129 TACCTCAACGTGTCTTG
* *
21025078 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAATAGGAATTGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--------T---TGAAATA-GAATTGAA
* *
21025143 AATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGC
54 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAGC
* *
21025208 AGAAATTGAAAATACCTTAATGTGTCTTG
117 AGAAATTGAAAATACCTCAACGTGTCTTG
* *
21025237 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AATAG-AATTGAAAATACCTCAG
** *
21025302 CGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA
64 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAA
21025367 TACCTCAACGTGTCTTG
129 TACCTCAACGTGTCTTG
**
21025384 AGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATT
21025418 ATTTAAAAAA
Statistics
Matches: 296, Mismatches: 28, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
147 103 0.35
148 5 0.02
149 55 0.19
151 1 0.00
155 1 0.00
157 52 0.18
158 10 0.03
159 69 0.23
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (145 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAATAGAATTGAAAATACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAATA
CCTCAACGTGTCTTG
Found at i:21025219 original size:232 final size:230
Alignment explanation
Indices: 21024735--21025522 Score: 798
Period size: 232 Copynumber: 3.4 Consensus size: 230
21024725 AAAACATAAA
* * * * *
21024735 TTGAAAAACAGAAATGGAAAATACTTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATAA
1 TTGAAAAGCAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * ** * * * *
21024800 ATTGGTTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCAACTCTCG
66 GTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAACTCTCG
* * * * * *
21024865 CAATATGAGTTGATTTAG-AAAACAGACATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAG
131 CAATATGAGTTGATTTTGAAAAACAGAAAT-TAAATAGGAATTGAAA-T-ACCTC-A-ACGTG-T
** * * *
21024928 C-CAAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTT
190 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTC
* * * * * *
21024968 TTG-AAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
21025032 GTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
66 GTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAACTCTCG
*
21025097 CAATATGAGTTGATTTTTGAAAAACATAAATTAAATAGGAATTGATAATACCTCAACGTGTCTTG
131 CAATATGAGTTGA-TTTTGAAAAACAGAAATTAAATAGGAATTGA-AATACCTCAACGTGTCTTG
21025162 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTC
194 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTC
* * ** *
21025199 TTGAAAAGCAGAAATTGAAAATACCTTAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* **
21025264 GTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
66 GTTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAACTCT
*
21025328 CGCAATATGAGTTGAATTTTGAAAAGCAGAAA-T---T--G-A---AAATACCTCAACGTGTCTT
129 CGCAATATGAGTTG-ATTTTGAAAAACAGAAATTAAATAGGAATTGAAATACCTCAACGTGTCTT
**
21025383 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTATTTAAAAAAC
193 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTT------C
* * * *
21025429 ATAATAATGAAAA-CAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCACCTCACCTCTCGCA
1 ----T--TGAAAAGCAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
21025493 ATATGAGTTGTTTTTTTGAAAAACAGAAAT
60 ATATGAGTTG-ATTTTTGAAAAACAGAAAT
21025523 CAAAAGGCTT
Statistics
Matches: 473, Mismatches: 57, Indels: 48
0.82 0.10 0.08
Matches are distributed among these distances:
222 49 0.10
223 2 0.00
224 3 0.01
226 1 0.00
227 1 0.00
229 1 0.00
230 2 0.00
231 42 0.09
232 179 0.38
233 98 0.21
234 25 0.05
235 64 0.14
236 6 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (230 bp):
TTGAAAAGCAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAACTCTCG
CAATATGAGTTGATTTTGAAAAACAGAAATTAAATAGGAATTGAAATACCTCAACGTGTCTTGAG
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTC
Found at i:21025259 original size:75 final size:74
Alignment explanation
Indices: 21025136--21025426 Score: 424
Period size: 74 Copynumber: 3.9 Consensus size: 74
21025126 ATTAAATAGG
*
21025136 AATTGATAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TT
21025201 GAAAAGCAGA
65 GAAAAGCAGA
* *
21025211 AATTGAAAATACCTTAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
*
21025276 GACAA-CAGA
65 GAAAAGCAGA
* * * ** *
21025285 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTG
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
21025349 AAAAGCAGA
66 AAAAGCAGA
** * *
21025358 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTATTTA
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
21025423 AAAA
66 AAAA
21025427 ACATAATAAT
Statistics
Matches: 194, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
72 8 0.04
73 59 0.30
74 62 0.32
75 61 0.31
76 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (74 bp):
AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
AAAAGCAGA
Found at i:21025316 original size:306 final size:309
Alignment explanation
Indices: 21024931--21025522 Score: 852
Period size: 306 Copynumber: 1.9 Consensus size: 309
21024921 ACGTGAGCCA
* * * *
21024931 AGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGCAGAAATTGAAAATACCTCAG
* *
21024996 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAT
66 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAA
* *
21025061 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTGAAAAACAT-
131 TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTAAAAAACATA
* * * * * * *
21025124 A-AAT-TAAATAGGAATTGATAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
196 ATAATGAAAACAGAAATGGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
*
21025187 GAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTTAATGTGTCTTG
261 GAGTTG-TTTTCTTGAAAAACAGAAATTGAAAATACCTTAATGTGTCTTG
* *
21025237 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-CAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGA-AAGCAGAAATTGAAAATACCTCA
* * ** *
21025301 GCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAA
65 GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAA
* **
21025366 ATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTATTTAAAAAACAT
130 ATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTAAAAAACAT
*** *
21025431 AATAATGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCACCTCACCTCTCGCAATA
195 AATAATGAAAACAGAAATGGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATA
*
21025496 TGAGTTGTTTTTTTGAAAAACAGAAAT
260 TGAGTTGTTTTCTTGAAAAACAGAAAT
21025523 CAAAAGGCTT
Statistics
Matches: 250, Mismatches: 31, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
306 161 0.64
307 13 0.05
308 1 0.00
309 21 0.08
310 54 0.22
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (309 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGCAGAAATTGAAAATACCTCAG
CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAA
TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTAAAAAACATA
ATAATGAAAACAGAAATGGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGTTTTCTTGAAAAACAGAAATTGAAAATACCTTAATGTGTCTTG
Found at i:21025515 original size:88 final size:87
Alignment explanation
Indices: 21025347--21025615 Score: 276
Period size: 88 Copynumber: 3.1 Consensus size: 87
21025337 AGTTGAATTT
*** * *
21025347 TGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TGAAAAGCAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
21025412 TTGATTATTTAAAAAACATAATAA
66 TTGATTATTTAAAAAACA-AA-AA
* * * *
21025436 TGAAAA-CAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCACCTCACCTCTCGCAATATGAG
1 TGAAAAGCAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
* * * *
21025500 TTGTTTTTTTGAAAAACAGAAA
66 TTGATTATTTAAAAAACAAAAA
* ** * *
21025522 TCAAAAGGC-TTAATTGAAAATATCTCGGCGTGTGTCCTGAGGCTCAACTAATCTCTCGCAATAT
1 TGAAAA-GCAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCATCTCTCGCAATAT
* *
21025586 GAGTTGA--AATTAAAACACAAAAA
63 GAGTTGATTATTTAAAAAACAAAAA
21025609 TTGAAAA
1 -TGAAAA
21025616 TACCTCAGCG
Statistics
Matches: 146, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
86 7 0.05
87 25 0.17
88 71 0.49
89 43 0.29
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (87 bp):
TGAAAAGCAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTATTTAAAAAACAAAAA
Found at i:21026041 original size:72 final size:73
Alignment explanation
Indices: 21025815--21026174 Score: 343
Period size: 72 Copynumber: 4.8 Consensus size: 73
21025805 AGTGTGTAAT
* * * * *
21025815 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCATCTCTCGCAATATAAGTTGA---TATTTT--GAAAACAGAAATTGAAAAT
*
21025880 ACCTCAGCATGTGAAC
61 ACCTCAGC--GTG-TC
* *
21025896 C-GAGGCTCAACTCAACTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCATCTCTCGCAATATAAGTTGA---TATTTTGAAAACAGAAATTGAAAATAC
* *
21025960 CTTAACGTGTC
63 CTCAGCGTGTC
* * * *
21025971 TTGAGGCTCAACTCATTTCTTGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCATCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAATTGAAAATACCTC
21026035 AGCGTGTC
66 AGCGTGTC
* * * * * *
21026043 CTGAGGCTTAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCATCTCTCGCAATATAAGTTGA-TATTTTGAA-AACAGAAATTGAAAATACC
21026108 TCAGCGTGTC
64 TCAGCGTGTC
* * * *
21026118 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG--ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCATCTCTCGCAATATAAGTTGATATTTTG-AAAACAGAAATTGAAAA
21026175 GGCTTAACTC
Statistics
Matches: 245, Mismatches: 29, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
71 3 0.01
72 77 0.31
73 2 0.01
74 6 0.02
75 60 0.24
76 33 0.13
78 24 0.10
80 39 0.16
81 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (73 bp):
CTGAGGCTCAACTCATCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAATTGAAAATACCTC
AGCGTGTC
Found at i:21026119 original size:75 final size:75
Alignment explanation
Indices: 21025815--21026156 Score: 404
Period size: 75 Copynumber: 4.5 Consensus size: 75
21025805 AGTGTGTAAT
* *
21025815 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTTTT--AAAAACAGAAATTGAAAAT
*
21025880 ACCTCAGCATGTGAAC
63 ACCTCAGC--GTG-TC
* * *
21025896 C-GAGGCTCAACTCAACTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTTTTAAAAACAGAAATTGAAAATAC
* *
21025960 CTTAACGTGTC
65 CTCAGCGTGTC
* * * * * * *
21025971 TTGAGGCTCAACTCATTTCTTGCAATATAAGTTGA---ATTTTGAAAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACC
21026033 TCAGCGTGTC
66 TCAGCGTGTC
* * * *
21026043 CTGAGGCTTAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACC
21026108 TCAGCGTGTC
66 TCAGCGTGTC
* *
21026118 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
21026157 GAAAAACAAA
Statistics
Matches: 231, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
72 64 0.28
75 70 0.30
76 33 0.14
78 24 0.10
80 39 0.17
81 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (75 bp):
CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACC
TCAGCGTGTC
Found at i:21026132 original size:147 final size:149
Alignment explanation
Indices: 21025815--21026174 Score: 417
Period size: 147 Copynumber: 2.4 Consensus size: 149
21025805 AGTGTGTAAT
* * * *
21025815 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGA-----TTTT-GAAAAACAGAAATTGAAAAT
21025880 ACCTCAGCATGTGAACCGAGGCTCAACTCAACTCTCGCAATATAAGTTGATTTTTTTTTGAAAAC
60 ACCTCAGCA-GTGAACCGAGGCTCAACTCAACTCTCGCAATATAAGTTGATTTTTTTTTGAAAAC
*
21025945 AGAAATTGAAAATACCTTAACGTGTC
124 AGAAATTGAAAATACCTCAACGTGTC
* ** * *
21025971 TTGAGGCTCAACTCATTTCTTGCAATATAAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTG-ATTTTGAAAAACAGAAATTGAAAATACCTC
* * ** *
21026035 AGC-GTG-TCCTGAGGCTTAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTT-AACAACAGAA
65 AGCAGTGAACC-GAGGCTCAACTCAACTCTCGCAATATAAGTTGATTTTTTTTTGAA-AACAGAA
* *
21026096 ATTGAAATTACCTCAGCGTGTC
128 ATTGAAAATACCTCAACGTGTC
* *
21026118 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAAACAGAAATTGAAAA
21026175 GGCTTAACTC
Statistics
Matches: 177, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
146 11 0.06
147 76 0.43
148 32 0.18
150 25 0.14
152 4 0.02
156 28 0.16
157 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (149 bp):
CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCAACTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATT
GAAAATACCTCAACGTGTC
Found at i:21026322 original size:70 final size:71
Alignment explanation
Indices: 21026174--21026348 Score: 230
Period size: 70 Copynumber: 2.5 Consensus size: 71
21026164 AAAAATTAAA
* * * * **
21026174 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAAAACTAAAAATACCTCAACGT
21026237 GCCCCG
66 GCCCCG
*
21026243 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAAAACTAAAAATACCTCAACGT
* **
21026307 GTCTTG
66 GCCCCG
*
21026313 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
21026349 CCTTGGAAAG
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
69 27 0.29
70 59 0.63
71 7 0.08
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAAAACTAAAAATACCTCAACGT
GCCCCG
Found at i:21039516 original size:22 final size:22
Alignment explanation
Indices: 21039486--21039566 Score: 126
Period size: 22 Copynumber: 3.7 Consensus size: 22
21039476 TACGAGGGCT
* *
21039486 GTGGAGGTATGGGACTGCTGTA
1 GTGGAGGTATGGGGCCGCTGTA
*
21039508 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCCGCTGTA
*
21039530 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCCGCTGTA
21039552 GTGGAGGTATGGGGC
1 GTGGAGGTATGGGGC
21039567 TGTTTCATGG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.12, C:0.11, G:0.53, T:0.23
Consensus pattern (22 bp):
GTGGAGGTATGGGGCCGCTGTA
Found at i:21040027 original size:44 final size:44
Alignment explanation
Indices: 21039964--21040053 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
21039954 TTGTAGAGTT
*
21039964 AATGGGATTGACCTCCATATCTCCATTCAAAAGTCTTAATCAAA
1 AATGGGATTGACCTCCATATCTCCATTCAAAAGTCTTAAGCAAA
* *
21040008 AATGGGGTTGACCTCCATATCTCCATTCAACAGTCTTAAGCAAA
1 AATGGGATTGACCTCCATATCTCCATTCAAAAGTCTTAAGCAAA
21040052 AA
1 AA
21040054 ATGTGACGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (44 bp):
AATGGGATTGACCTCCATATCTCCATTCAAAAGTCTTAAGCAAA
Found at i:21042713 original size:61 final size:60
Alignment explanation
Indices: 21042580--21042742 Score: 154
Period size: 60 Copynumber: 2.7 Consensus size: 60
21042570 ACTGGGCTTA
* *
21042580 AGCCCTATT-CAAGAATCAGAGT-TAATTGGGCCTTAGCCCATATCAATATTAATTTGGGCCAT
1 AGCCCTATTAC-A-AATCAGAGTAT-ATTGGGCC-TAGCCCATATCAATATCAATCTGGGCCAT
* * * * **
21042642 AGCCC-CTTACAATATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGTGCTGT
1 AGCCCTATTACAA-ATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCAT
* *
21042702 AGCCCTATTACAAGTC-GAGATATATTGGGCCTTGCCCATAT
1 AGCCCTATTACAAATCAGAG-TATATTGGGCCTAGCCCATAT
21042743 TAACACAGTT
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
59 3 0.04
60 50 0.60
61 24 0.29
62 7 0.08
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (60 bp):
AGCCCTATTACAAATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCAT
Found at i:21043091 original size:26 final size:27
Alignment explanation
Indices: 21043049--21043099 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
21043039 GTCAAAATTA
* *
21043049 ACCTCAAGGGTATAATGGTCATTTTGC
1 ACCTCAAGGGTAAAATGGTAATTTTGC
21043076 ACCT-AAGGGTAAAATGGTAATTTT
1 ACCTCAAGGGTAAAATGGTAATTTT
21043100 CATACTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (27 bp):
ACCTCAAGGGTAAAATGGTAATTTTGC
Found at i:21046703 original size:13 final size:13
Alignment explanation
Indices: 21046685--21046711 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21046675 AGTTTGAATG
21046685 ATAACACTAATCC
1 ATAACACTAATCC
21046698 ATAACACTAATCC
1 ATAACACTAATCC
21046711 A
1 A
21046712 AAATCGAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAACACTAATCC
Found at i:21054244 original size:19 final size:19
Alignment explanation
Indices: 21054217--21054260 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
21054207 TTGCTTTCAC
*
21054217 TTTTT-ATAACATTTTATA
1 TTTTTAATAACACTTTATA
*
21054235 TTTTTAATAATACTTTATA
1 TTTTTAATAACACTTTATA
*
21054254 TATTTAA
1 TTTTTAA
21054261 AAAATTATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTAATAACACTTTATA
Found at i:21064904 original size:12 final size:12
Alignment explanation
Indices: 21064887--21064919 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
21064877 TGGCCCGTCC
21064887 ATATTAATTTTT
1 ATATTAATTTTT
21064899 ATATT-ATTTTT
1 ATATTAATTTTT
21064910 ATA-TAATTTT
1 ATATTAATTTT
21064920 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:21065102 original size:12 final size:12
Alignment explanation
Indices: 21065082--21065110 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21065072 AAAATGTCTT
21065082 TAAAA-TAATAA
1 TAAAATTAATAA
21065093 TAAAATTAATAA
1 TAAAATTAATAA
21065105 TAAAAT
1 TAAAAT
21065111 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:21065159 original size:22 final size:22
Alignment explanation
Indices: 21065134--21065176 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21065124 TATCCAAACA
21065134 ATAACA-ACAAAATAGTAGCAAC
1 ATAACAGA-AAAATAGTAGCAAC
*
21065156 ATAATAGAAAAATAGTAGCAA
1 ATAACAGAAAAATAGTAGCAA
21065177 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (22 bp):
ATAACAGAAAAATAGTAGCAAC
Found at i:21065180 original size:11 final size:11
Alignment explanation
Indices: 21065141--21065181 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
21065131 ACAATAACAA
21065141 CAAAATAGTAG
1 CAAAATAGTAG
* *
21065152 CAACATAATAG
1 CAAAATAGTAG
*
21065163 AAAAATAGTAG
1 CAAAATAGTAG
21065174 CAAAATAG
1 CAAAATAG
21065182 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.15, T:0.17
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:21065189 original size:22 final size:22
Alignment explanation
Indices: 21065142--21065235 Score: 57
Period size: 22 Copynumber: 4.2 Consensus size: 22
21065132 CAATAACAAC
* **
21065142 AAAATAGTAGCAACATA-ATAG
1 AAAATAGTAGCAAAATAGGGAG
21065163 AAAAATAGTAGCAAAATAGGGAG
1 -AAAATAGTAGCAAAATAGGGAG
* * *** *
21065186 AAAACAATAAG-AAAATAATATTAA
1 AAAATAGT-AGCAAAAT-A-GGGAG
21065210 AAAATAGTAGCAAAATAGGGAG
1 AAAATAGTAGCAAAATAGGGAG
21065232 AAAA
1 AAAA
21065236 CAATAAGAAA
Statistics
Matches: 52, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
22 32 0.62
23 8 0.15
24 12 0.23
ACGTcount: A:0.62, C:0.05, G:0.17, T:0.16
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAGGGAG
Found at i:21065214 original size:46 final size:46
Alignment explanation
Indices: 21065163--21065260 Score: 196
Period size: 46 Copynumber: 2.1 Consensus size: 46
21065153 AACATAATAG
21065163 AAAAATAGTAGCAAAATAGGGAGAAAACAATAAGAAAATAATATTA
1 AAAAATAGTAGCAAAATAGGGAGAAAACAATAAGAAAATAATATTA
21065209 AAAAATAGTAGCAAAATAGGGAGAAAACAATAAGAAAATAATATTA
1 AAAAATAGTAGCAAAATAGGGAGAAAACAATAAGAAAATAATATTA
21065255 AAAAAT
1 AAAAAT
21065261 TTTGTCATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.64, C:0.04, G:0.14, T:0.17
Consensus pattern (46 bp):
AAAAATAGTAGCAAAATAGGGAGAAAACAATAAGAAAATAATATTA
Found at i:21065559 original size:20 final size:20
Alignment explanation
Indices: 21065534--21065572 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21065524 TTTGTGTTTT
*
21065534 TGTGTTTTCTTGTCAATCAG
1 TGTGTTTTATTGTCAATCAG
21065554 TGTGTTTTATTGTCAATCA
1 TGTGTTTTATTGTCAATCA
21065573 TTATGTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (20 bp):
TGTGTTTTATTGTCAATCAG
Found at i:21065579 original size:20 final size:20
Alignment explanation
Indices: 21065536--21065579 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
21065526 TGTGTTTTTG
* *
21065536 TGTTTTCTTGTCAATCAGTG
1 TGTTTTATTGTCAATCAGTA
*
21065556 TGTTTTATTGTCAATCATTA
1 TGTTTTATTGTCAATCAGTA
21065576 TGTT
1 TGTT
21065580 CTAATCTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (20 bp):
TGTTTTATTGTCAATCAGTA
Found at i:21067060 original size:22 final size:22
Alignment explanation
Indices: 21067032--21067103 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
21067022 AGCTAAAACA
21067032 TAATTATAAATTATTTGAGCTC
1 TAATTATAAATTATTTGAGCTC
* * * *
21067054 TAATTATATAAGCTA---AAAC-A
1 TAATTATA-AA-TTATTTGAGCTC
21067074 TAATTATAAATTATTTGAGCTC
1 TAATTATAAATTATTTGAGCTC
21067096 TAATTATA
1 TAATTATA
21067104 TATGTTAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 8 0.22
21 4 0.11
22 16 0.44
23 2 0.06
24 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (22 bp):
TAATTATAAATTATTTGAGCTC
Found at i:21067068 original size:42 final size:42
Alignment explanation
Indices: 21067021--21067105 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
21067011 AATAGGCGAA
21067021 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
1 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
21067063 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
1 AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
21067105 A
1 A
21067106 TGTTAAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (42 bp):
AAGCTAAAACATAATTATAAATTATTTGAGCTCTAATTATAT
Found at i:21067465 original size:16 final size:18
Alignment explanation
Indices: 21067438--21067470 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21067428 TAGAATTGGG
21067438 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
21067455 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
21067471 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:21082091 original size:19 final size:19
Alignment explanation
Indices: 21082067--21082105 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21082057 TAAGATAAAT
21082067 ATATATACAAAAT-ATCGAA
1 ATATATA-AAAATAATCGAA
*
21082086 ATATATAATAATAATCGAA
1 ATATATAAAAATAATCGAA
21082105 A
1 A
21082106 AGGAATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (19 bp):
ATATATAAAAATAATCGAA
Found at i:21085326 original size:18 final size:19
Alignment explanation
Indices: 21085303--21085339 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21085293 TAAAAAAATA
21085303 TTAAAT-TAATTATATATG
1 TTAAATATAATTATATATG
21085321 TTAAATAATAATTATATAT
1 TTAAAT-ATAATTATATAT
21085340 TTATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTAAATATAATTATATATG
Found at i:21085539 original size:39 final size:39
Alignment explanation
Indices: 21085461--21085548 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
21085451 AAAAATAATA
* * * *
21085461 TTTAATACAATAAAATATTTATTATATTTATTTGTATTT
1 TTTAATATAATAAAACATTTATTATATTTATATGAATTT
*
21085500 TTTAGTATAATAAAACATTTATTATATTTATAAT-AATTT
1 TTTAATATAATAAAACATTTATTATATTTAT-ATGAATTT
21085539 TTTAATATAA
1 TTTAATATAA
21085549 ATATATTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 41 0.98
40 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATATGAATTT
Found at i:21087079 original size:11 final size:11
Alignment explanation
Indices: 21087063--21087090 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
21087053 TAATCTGCTA
21087063 ATTTAAAATAC
1 ATTTAAAATAC
21087074 ATTTAAAATAC
1 ATTTAAAATAC
21087085 ATTTAA
1 ATTTAA
21087091 TATTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTTAAAATAC
Found at i:21087868 original size:14 final size:15
Alignment explanation
Indices: 21087841--21087869 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21087831 CCAACCTTTA
21087841 TTCAATAATATCTAT
1 TTCAATAATATCTAT
21087856 TTCAATAAT-TCTAT
1 TTCAATAATATCTAT
21087870 ATCCCCAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (15 bp):
TTCAATAATATCTAT
Found at i:21090046 original size:19 final size:19
Alignment explanation
Indices: 21090022--21090067 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
21090012 CTCTCTTTCT
21090022 TTTGCATT-CATTCCACGCA
1 TTTGCATTGCATTCCA-GCA
* *
21090041 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCAGCA
21090060 TTTGCATT
1 TTTGCATT
21090068 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCAGCA
Found at i:21092276 original size:16 final size:15
Alignment explanation
Indices: 21092244--21092282 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
21092234 CAAAAAAAAG
*
21092244 AAAAAA-AGAAAATA
1 AAAAAAGAGAAAACA
21092258 AAAAAAGAGAAACACA
1 AAAAAAGAGAAA-ACA
21092274 AAAAAAGAG
1 AAAAAAGAG
21092283 GGGAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAAAGAGAAAACA
Found at i:21092276 original size:21 final size:21
Alignment explanation
Indices: 21092236--21092276 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21092226 AAATGCAGCA
*
21092236 AAAAAAAGAAAAAAAGAAAAT
1 AAAAAAAGAAAAAAACAAAAT
* *
21092257 AAAAAAAGAGAAACACAAAA
1 AAAAAAAGAAAAAAACAAAA
21092277 AAAGAGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (21 bp):
AAAAAAAGAAAAAAACAAAAT
Found at i:21093760 original size:46 final size:46
Alignment explanation
Indices: 21093684--21093951 Score: 340
Period size: 46 Copynumber: 5.8 Consensus size: 46
21093674 TTATGTCATA
* * * * *
21093684 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* * *** *
21093730 GTATCTTTCAACCATGGTCTTATTAATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
21093777 GTATCTTTCAACCATGGTCTTACTCATTTCATATTAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
21093823 GTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * **
21093869 GTATTTTTCAACCATGGTCTTACACATTTCATATCAGGTTTTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
21093915 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
21093952 AGAGCACACT
Statistics
Matches: 198, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
46 160 0.81
47 38 0.19
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:21096515 original size:39 final size:39
Alignment explanation
Indices: 21096471--21096548 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
21096461 GGTCCTCAAG
*
21096471 AAGTTGGTACAGAGAAGCTCAAGCTGCGATGTCTGGGGC
1 AAGTTGGAACAGAGAAGCTCAAGCTGCGATGTCTGGGGC
*
21096510 AAGTTGGAATAGAGAAGCTCAAGCTGCGATGTCTGGGGC
1 AAGTTGGAACAGAGAAGCTCAAGCTGCGATGTCTGGGGC
21096549 GCCTAGTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.17, G:0.36, T:0.21
Consensus pattern (39 bp):
AAGTTGGAACAGAGAAGCTCAAGCTGCGATGTCTGGGGC
Found at i:21097599 original size:64 final size:64
Alignment explanation
Indices: 21097412--21097603 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
21097402 ACATTCATAA
* * *
21097412 CACATCTAGTTAGGAGTATTTGATTCATTTCGATCATAGCATCCTAATTATTTAACAGAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTAACATAAGCAT
21097476 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTAACATAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTAACATAAGCAT
* * * **
21097540 CACATCTAGTTAGGAGCATCTAATTCATTTTGATCATAACATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTAACATAAGCAT
21097604 AGATACATGA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 120 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTAACATAAGCAT
Found at i:21097811 original size:88 final size:87
Alignment explanation
Indices: 21097698--21098103 Score: 352
Period size: 88 Copynumber: 4.6 Consensus size: 87
21097688 AGTTGCAGCG
*
21097698 GAGCAAATCGAAGACAGTAAGCCTTAACCCCATAAGTAGTAGGGTAACAGGCTGAAGATTGTAGA
1 GAGCAAATCGAAGA-AGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGA
*
21097763 CCTTGTCTCCCTAAACAGTAGTA
65 TCTTGTCTCCCTAAACAGTAGTA
* * * *
21097786 GAGCAAATCGAATATGGTAAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTATAGA
1 GAGCAAATCGAAGA-AGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGA
*
21097851 TCTTGTCTCCCTAAACAGTAGTG
65 TCTTGTCTCCCTAAACAGTAGTA
* * * * * * * *
21097874 GAGCAAATTGAAGAAGCAAGCCATAACCCCCTAAGTAGTAGGGTAACGGGCTAAATATTGCAAAT
1 GAGCAAATCGAAGAAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGAT
** *
21097939 CTTGTCTCCC-AGAAGTTGTAGTG
66 CTTGTCTCCCTA-AA-CAGTAGTA
* * * * * ** * * * * **
21097962 GAACAGATCAAAGACGGTGAGCCTCGACCCTCTAAGCAGTAGGGTAACATGTTG-A-ATTACAGA
1 GAGCAAATCGAAGA-AGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGA
* * *
21098025 TCTTATCTCCCTAAGCAGTAGTT
65 TCTTGTCTCCCTAAACAGTAGTA
* ** * ** *
21098048 GAGCGAATAAAAGACAGCGAA-CCTTAACCCCCTAAACAATAGGGTAACAGGCTGAA
1 GAGCAAATCGAAGA-AG-TAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAA
21098104 AATTACAAGT
Statistics
Matches: 253, Mismatches: 59, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
86 44 0.17
87 72 0.28
88 110 0.43
89 27 0.11
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (87 bp):
GAGCAAATCGAAGAAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGAT
CTTGTCTCCCTAAACAGTAGTA
Found at i:21097863 original size:44 final size:44
Alignment explanation
Indices: 21097730--21097864 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 44
21097720 CTTAACCCCA
21097730 TAAGTAGTAGGGTAACAGGCTGAAGATTGTAGACCTTGTCTCCC
1 TAAGTAGTAGGGTAACAGGCTGAAGATTGTAGACCTTGTCTCCC
* * * * * * ** *
21097774 TAAACAGTAGTAGAGCAA-A-TC-GAATATGGTAAACCTTAACCCCC
1 T--A-AGTAGTAGGGTAACAGGCTGAAGATTGTAGACCTTGTCTCCC
* *
21097818 TAAGTAGTAGGGTAACAGGCTGAAGATTATAGATCTTGTCTCCC
1 TAAGTAGTAGGGTAACAGGCTGAAGATTGTAGACCTTGTCTCCC
21097862 TAA
1 TAA
21097865 ACAGTAGTGG
Statistics
Matches: 65, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
41 11 0.17
42 2 0.03
43 1 0.02
44 37 0.57
45 1 0.02
46 2 0.03
47 11 0.17
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (44 bp):
TAAGTAGTAGGGTAACAGGCTGAAGATTGTAGACCTTGTCTCCC
Found at i:21098320 original size:88 final size:88
Alignment explanation
Indices: 21098159--21098479 Score: 437
Period size: 88 Copynumber: 3.6 Consensus size: 88
21098149 TCAACAGTAG
* * * * * *
21098159 ATCTCCTTGAAGTTTCAACGGAATAGATC-AAGGCAACAAATCTCTTCTCCTTGGAATGGCGTTG
1 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAA-GCTACAAATCTCTTCTCCCTGAAATGGCATTG
* *
21098223 GAGCAGCTCGAAGCCACAATTCGT
65 GAGCGGCTCGAAGCCACAATTCTT
* ** * * *
21098247 ATCTCCTTGAAGTTTCGGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTGA
1 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
* *
21098312 AGCGGCTCGAAGTCGCAATTCTT
66 AGCGGCTCGAAGCCACAATTCTT
* * * *
21098335 ATCTCGTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATTTTTTCTCCCTGAAATGGCATTGG
1 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
*
21098400 AGTGGCTCGAAGCCACAATTCTT
66 AGCGGCTCGAAGCCACAATTCTT
21098423 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
1 ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
21098480 TACAATGGAA
Statistics
Matches: 205, Mismatches: 27, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
88 203 0.99
89 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (88 bp):
ATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
AGCGGCTCGAAGCCACAATTCTT
Found at i:21098322 original size:44 final size:43
Alignment explanation
Indices: 21098267--21098479 Score: 149
Period size: 44 Copynumber: 4.8 Consensus size: 43
21098257 AGTTTCGGCA
* *
21098267 GAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTG
1 GAGTAGATCGAAGCTACAAATCT-TTCTCCTTGAAATGCCATCG
* ** * * * * * * *
21098311 AAGCGGCTCGAAG-TCGCAATTCTTATCTCGTTGAAGTTCCAGCG
1 GAGTAGATCGAAGCT-ACAAATCTT-TCTCCTTGAAATGCCATCG
* * * *
21098355 GAGTAGATCGAAGCTACAAATTTTTTCTCCCTGAAATGGCATTG
1 GAGTAGATCGAAGCTACAAA-TCTTTCTCCTTGAAATGCCATCG
* * * * * * *
21098399 GAGTGGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAACG
1 GAGTAGATCGAAGCTACAAATCTT-TCTCCTTGAAATGCCATCG
*
21098443 GAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
1 GAGTAGATCGAAGCTACAAATCT-TTCTCCTTGAAAT
21098480 TACAATGGAA
Statistics
Matches: 120, Mismatches: 43, Indels: 12
0.69 0.25 0.07
Matches are distributed among these distances:
43 5 0.04
44 110 0.92
45 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
GAGTAGATCGAAGCTACAAATCTTTCTCCTTGAAATGCCATCG
Found at i:21102242 original size:17 final size:17
Alignment explanation
Indices: 21102210--21102245 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
21102200 ATTTTACAAC
21102210 AATTTTTTTATATTTTA
1 AATTTTTTTATATTTTA
21102227 AATTTGTTTTAT-TTTTA
1 AATTT-TTTTATATTTTA
21102244 AA
1 AA
21102246 AAAGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
AATTTTTTTATATTTTA
Found at i:21104685 original size:14 final size:16
Alignment explanation
Indices: 21104666--21104698 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
21104656 TTCATATAGC
21104666 TTTATGTA-A-ATATT
1 TTTATGTATATATATT
21104680 TTTATGTATATATATT
1 TTTATGTATATATATT
21104696 TTT
1 TTT
21104699 TGCCCTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
TTTATGTATATATATT
Found at i:21106965 original size:21 final size:23
Alignment explanation
Indices: 21106920--21106965 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
21106910 AAGAAAGAAA
* *
21106920 ATTCTCTTTAGTGGTATCGCGAT
1 ATTCTCTTTAGTGGTATCACAAT
21106943 ATTCTCTTT-G-GGTATCACAAT
1 ATTCTCTTTAGTGGTATCACAAT
21106964 AT
1 AT
21106966 CCACCCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 1 0.05
23 9 0.43
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (23 bp):
ATTCTCTTTAGTGGTATCACAAT
Found at i:21107303 original size:9 final size:9
Alignment explanation
Indices: 21107289--21107365 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
21107279 ATAAGTATAA
21107289 AATTAACCG
1 AATTAACCG
21107298 AATTAACCG
1 AATTAACCG
21107307 AATTAACCG
1 AATTAACCG
* *
21107316 AATTACCCA
1 AATTAACCG
* *
21107325 AATTACCCA
1 AATTAACCG
*
21107334 AATTAACCT
1 AATTAACCG
*
21107343 AATTAACCA
1 AATTAACCG
21107352 AATTAACCG
1 AATTAACCG
21107361 AATTA
1 AATTA
21107366 TTTGTATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:21107394 original size:6 final size:6
Alignment explanation
Indices: 21107383--21107431 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
21107373 AAAATTATAT
* * *
21107383 TTTTTA TTTTTA GTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTT
21107432 CTTTATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 29 0.78
7 7 0.19
8 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:21109630 original size:23 final size:24
Alignment explanation
Indices: 21109594--21109645 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
21109584 TGTTATTGAA
*
21109594 AGATGTTTTGGGTTATTAAAACTT
1 AGATGTTTTAGGTTATTAAAACTT
21109618 AGAT-TTTTAGGTTATTAAAACTT
1 AGATGTTTTAGGTTATTAAAACTT
21109641 AGATG
1 AGATG
21109646 GGGAATACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (24 bp):
AGATGTTTTAGGTTATTAAAACTT
Found at i:21109739 original size:16 final size:16
Alignment explanation
Indices: 21109718--21109749 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21109708 GCTTGCTCCA
21109718 TATTTTATTTGAACCT
1 TATTTTATTTGAACCT
21109734 TATTTTATTTGAACCT
1 TATTTTATTTGAACCT
21109750 ATATGAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
TATTTTATTTGAACCT
Found at i:21135221 original size:42 final size:42
Alignment explanation
Indices: 21135161--21135248 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
21135151 TGAATAAACT
* * *
21135161 GAAGCAAATATACCAGCACAAAAGTGCACCATTAGCCAAGTC
1 GAAGCAAATATACCAGCACAAAAGTGCACCATCAGACAAGCC
* * *
21135203 GAAGCAAATATACTAGCACATAAGTGCATCATCAGACAAGCC
1 GAAGCAAATATACCAGCACAAAAGTGCACCATCAGACAAGCC
21135245 GAAG
1 GAAG
21135249 TATAAACCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.15
Consensus pattern (42 bp):
GAAGCAAATATACCAGCACAAAAGTGCACCATCAGACAAGCC
Found at i:21149638 original size:23 final size:23
Alignment explanation
Indices: 21149612--21149666 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
21149602 ATATACTAAA
* *
21149612 TATATATATTTTTTATTTTTAAT
1 TATATATATATTTTATTTTCAAT
* *
21149635 TATATTTCTATTTTATTTTCAAT
1 TATATATATATTTTATTTTCAAT
*
21149658 TTTA-ATATA
1 TATATATATA
21149667 ATCACTTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (23 bp):
TATATATATATTTTATTTTCAAT
Found at i:21152122 original size:20 final size:20
Alignment explanation
Indices: 21152097--21152137 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21152087 TGAGAACCAT
21152097 GAAAGCAGGAGCTTTATATG
1 GAAAGCAGGAGCTTTATATG
21152117 GAAAGCAGGAGCTTTATATG
1 GAAAGCAGGAGCTTTATATG
21152137 G
1 G
21152138 TTATCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (20 bp):
GAAAGCAGGAGCTTTATATG
Found at i:21156553 original size:42 final size:42
Alignment explanation
Indices: 21156501--21156601 Score: 193
Period size: 42 Copynumber: 2.4 Consensus size: 42
21156491 TCATAAATAC
*
21156501 TTGAATATAATTTCATTAAATTCCAGTTTCGTAAGCATAAGT
1 TTGAATATAATTTCATTAAATTCCAGTTTCATAAGCATAAGT
21156543 TTGAATATAATTTCATTAAATTCCAGTTTCATAAGCATAAGT
1 TTGAATATAATTTCATTAAATTCCAGTTTCATAAGCATAAGT
21156585 TTGAATATAATTTCATT
1 TTGAATATAATTTCATT
21156602 CTTCAAAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (42 bp):
TTGAATATAATTTCATTAAATTCCAGTTTCATAAGCATAAGT
Found at i:21158720 original size:15 final size:15
Alignment explanation
Indices: 21158700--21158756 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
21158690 CGATGAATTT
*
21158700 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
21158715 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
21158730 ATTGAAATTATATTG
1 ATTGAAATTATATTG
21158745 ATTG-AATTATAT
1 ATTGAAATTATAT
21158757 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:21159154 original size:21 final size:21
Alignment explanation
Indices: 21159128--21159192 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
21159118 GACTTTATCG
*
21159128 ATCAGGCACTTTATATGTCGT
1 ATCAGGCACTTTATGTGTCGT
**
21159149 ATCAGGCACTTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
* *
21159170 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
21159191 AT
1 AT
21159193 ACTGATCAGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.40
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:21164110 original size:20 final size:20
Alignment explanation
Indices: 21164067--21164129 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
21164057 ATTTTTCAAT
*
21164067 ATTTAA-ATATTTAATATTATA
1 ATTTAATATTTTTAAT-TTA-A
**
21164088 ATTTTCTATTTTTAATTTAA
1 ATTTAATATTTTTAATTTAA
*
21164108 ATTTAATATTTTTATTTTAA
1 ATTTAATATTTTTAATTTAA
21164128 AT
1 AT
21164130 AAACTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 20 0.57
21 7 0.20
22 8 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTAATATTTTTAATTTAA
Found at i:21165041 original size:19 final size:19
Alignment explanation
Indices: 21164989--21165041 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
21164979 AAAAGAAGAG
*
21164989 AATTATTTAAAAATTATTTAG
1 AATTA-TTAAAAA-TATTTAA
*
21165010 AATCA-TAAAAATATTTAA
1 AATTATTAAAAATATTTAA
21165028 AATTATTAAAAATA
1 AATTATTAAAAATA
21165042 ACATCCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 10 0.36
19 14 0.50
21 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTATTAAAAATATTTAA
Found at i:21165149 original size:10 final size:10
Alignment explanation
Indices: 21165136--21165224 Score: 63
Period size: 10 Copynumber: 8.9 Consensus size: 10
21165126 TCTTAAATGG
21165136 TTATAAAAAA
1 TTATAAAAAA
21165146 TTATAAAAAA
1 TTATAAAAAA
* *
21165156 TTGTTTAAAAA
1 TT-ATAAAAAA
* *
21165167 TTATTAAGAA
1 TTATAAAAAA
*
21165177 TTATAAGAAA
1 TTATAAAAAA
*
21165187 TTATAAATAA
1 TTATAAAAAA
* **
21165197 TAATTGAAAA
1 TTATAAAAAA
* *
21165207 TT-TTAAAAG
1 TTATAAAAAA
21165216 TTATAAAAA
1 TTATAAAAA
21165225 CTATATGTAT
Statistics
Matches: 60, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
9 7 0.12
10 45 0.75
11 8 0.13
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:21165585 original size:50 final size:52
Alignment explanation
Indices: 21165528--21165627 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 52
21165518 AAAAAAAAAC
*
21165528 TTTCTTATAAATTTT-A-ATTTTTAAATAATTTTCTATAATA-TTTTTAATCA
1 TTTCTTATAAATTTTAATATTTTTAAACAATTTTCTATAA-AGTTTTTAATCA
*
21165578 TTTCTTATAGATTTTAATTATTTTTAAACAATTTTCTATAAAGTTTTTAA
1 TTTCTTATAAATTTTAA-TATTTTTAAACAATTTTCTATAAAGTTTTTAA
21165628 GAACTATGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
50 14 0.32
51 1 0.02
52 1 0.02
53 28 0.64
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (52 bp):
TTTCTTATAAATTTTAATATTTTTAAACAATTTTCTATAAAGTTTTTAATCA
Found at i:21168076 original size:15 final size:15
Alignment explanation
Indices: 21168056--21168092 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
21168046 CTCTCGAACT
21168056 AATGCTTATCAGTAA
1 AATGCTTATCAGTAA
21168071 AATGCTTATCAGTAA
1 AATGCTTATCAGTAA
21168086 AATGCTT
1 AATGCTT
21168093 CATACGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (15 bp):
AATGCTTATCAGTAA
Found at i:21169536 original size:17 final size:18
Alignment explanation
Indices: 21169506--21169551 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
21169496 ATTTAAATTG
21169506 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
21169524 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
21169540 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
21169552 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:21171344 original size:13 final size:14
Alignment explanation
Indices: 21171326--21171367 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
21171316 TAAAATGTAC
21171326 AATATAATTAAA-T
1 AATATAATTAAATT
21171339 AATATAAATTAAATT
1 AATAT-AATTAAATT
21171354 AA-ATAATT-AATT
1 AATATAATTAAATT
21171366 AA
1 AA
21171368 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.22
13 9 0.33
14 9 0.33
15 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:21173850 original size:3 final size:3
Alignment explanation
Indices: 21173842--21173949 Score: 90
Period size: 3 Copynumber: 36.0 Consensus size: 3
21173832 GTAAAAAATT
* **
21173842 TAA TAA TAA TAA TAC TGG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * ** *
21173890 TAA TAA TAA TCA TGA TGA TGA TGA TGA TGA TGG TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
21173938 TAA CAA TAA TAA
1 TAA TAA TAA TAA
21173950 AAATCTTAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21176923 original size:23 final size:22
Alignment explanation
Indices: 21176856--21176962 Score: 130
Period size: 23 Copynumber: 4.9 Consensus size: 22
21176846 CTTGATCATT
21176856 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATGAAGTGCCTGA
*
21176877 A-ACGACACATGAGGTGCCTG-
1 ATACGACACATGAAGTGCCTGA
* *
21176897 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATGAAGTGCCTG-A
*
21176920 ATACGACACATAAAGTGCCTGA
1 ATACGACACATGAAGTGCCTGA
*
21176942 TATACGACACATAAAGTGCCT
1 -ATACGACACATGAAGTGCCT
21176963 AATCAGAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
20 10 0.13
21 27 0.36
22 1 0.01
23 38 0.50
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (22 bp):
ATACGACACATGAAGTGCCTGA
Found at i:21176938 original size:44 final size:42
Alignment explanation
Indices: 21176856--21176962 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 42
21176846 CTTGATCATT
* * *
21176856 ATACGACACATAAGTGCCTGAAACGACACATGAGGTGCCTG-
1 ATACGACACAGAAGTGCCTGAAACGACACATAAAGTGCCTGA
*
21176897 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGA
1 ATACGACACA-GAAGTGCCTG-AA-ACGACACATAAAGTGCCTGA
*
21176942 TATACGACACATAAAGTGCCT
1 -ATACGACACA-GAAGTGCCT
21176963 AATCAGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
41 10 0.19
42 8 0.15
43 2 0.04
44 17 0.31
46 17 0.31
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (42 bp):
ATACGACACAGAAGTGCCTGAAACGACACATAAAGTGCCTGA
Found at i:21178266 original size:15 final size:16
Alignment explanation
Indices: 21178234--21178267 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21178224 ACCCTAATTT
*
21178234 TTCCCTTTTTCTTTTC
1 TTCCCCTTTTCTTTTC
21178250 TTCCCCTTTTC-TTTC
1 TTCCCCTTTTCTTTTC
21178265 TTC
1 TTC
21178268 TTGTTTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCCCCTTTTCTTTTC
Found at i:21178310 original size:14 final size:15
Alignment explanation
Indices: 21178286--21178314 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21178276 GAATGGCTTA
21178286 TGCTATTCTTTCTTT
1 TGCTATTCTTTCTTT
21178301 TGCT-TTCTTTCTTT
1 TGCTATTCTTTCTTT
21178315 ATTTCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.21, G:0.07, T:0.69
Consensus pattern (15 bp):
TGCTATTCTTTCTTT
Found at i:21179600 original size:27 final size:26
Alignment explanation
Indices: 21179563--21179677 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
21179553 AGCATGGCTG
* *
21179563 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
21179589 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
21179617 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * * * *
21179644 CTAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
21179671 CCAGAAC
1 CCAGAAC
21179678 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.73
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:21179622 original size:54 final size:54
Alignment explanation
Indices: 21179563--21179677 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
21179553 AGCATGGCTG
* *
21179563 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
21179617 CCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
21179671 CCAGAAC
1 CCAGAAC
21179678 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 37 0.70
55 16 0.30
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:21181405 original size:26 final size:26
Alignment explanation
Indices: 21181296--21181397 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
21181286 CATGAAATTC
21181296 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
21181322 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
21181348 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
21181374 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
21181398 TTTTATCAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:21182045 original size:20 final size:19
Alignment explanation
Indices: 21181999--21182045 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
21181989 AGTCCTTTTT
*
21181999 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
21182019 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
21182039 CCTAATT
1 CCTAATT
21182046 AAACACACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Done.