Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008011.1 Hibiscus syriacus cultivar Beakdansim tig00110474_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: 1648842
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:482494 original size:20 final size:20
Alignment explanation
Indices: 482449--482506 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
482439 CATCATAGTA
*
482449 TTTTAAAATATTTTATTAAT
1 TTTTAAAATATTTTATGAAT
* *
482469 TCTTAAAATTATTTTA-GGAT
1 TTTTAAAA-TATTTTATGAAT
482489 TTTTAAAAATATATTTAT
1 TTTT-AAAATAT-TTTAT
482507 AAAAACATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTAAAATATTTTATGAAT
Found at i:486245 original size:53 final size:53
Alignment explanation
Indices: 486165--486268 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 53
486155 TGGCGGATCT
486165 TTGCTGACACTATTACAAGCTCGATTAGTCCGGTTCAAATCATGGAAAACATA
1 TTGCTGACACTATTACAAGCTCGATTAGTCCGGTTCAAATCATGGAAAACATA
*
486218 TTGCTGACACTATTACAAGCTCGATTAGTCCGGTTCAAATCATGGAGAACA
1 TTGCTGACACTATTACAAGCTCGATTAGTCCGGTTCAAATCATGGAAAACA
486269 ACCAAATGTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (53 bp):
TTGCTGACACTATTACAAGCTCGATTAGTCCGGTTCAAATCATGGAAAACATA
Found at i:491669 original size:3 final size:3
Alignment explanation
Indices: 491661--491700 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
491651 ATTAGAACAT
491661 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
491701 TTATTGTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:492181 original size:18 final size:17
Alignment explanation
Indices: 492157--492220 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
492147 TCACCTTCAA
*
492157 ACCTTCTTCCGTGCTCC
1 ACCTTCTTCCATGCTCC
* *
492174 ACCCTTCTTCCATACTCGT
1 A-CCTTCTTCCATGCTC-C
*
492193 ACCTTCTTCCATGCTCGA
1 ACCTTCTTCCATGCTC-C
492211 ACCTTCTTCC
1 ACCTTCTTCC
492221 TTGTGCACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
17 1 0.03
18 38 0.95
19 1 0.03
ACGTcount: A:0.12, C:0.44, G:0.08, T:0.36
Consensus pattern (17 bp):
ACCTTCTTCCATGCTCC
Found at i:495285 original size:21 final size:20
Alignment explanation
Indices: 495259--495354 Score: 66
Period size: 21 Copynumber: 4.7 Consensus size: 20
495249 TCTGAAATTC
*
495259 AATCGCAACGCGATTCTTGAA
1 AATCGCAACGCGATT-TTCAA
* * *
495280 AATCGCAATGCGATAGTACAA
1 AATCGCAACGCGAT-TTTCAA
* ** *
495301 ATTCGCATTGCGATTTTCCAG
1 AATCGCAACGCGATTTT-CAA
* * *
495322 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGATTTTCAA
495342 AATCGCAACGCGA
1 AATCGCAACGCGA
495355 ACACATAAAT
Statistics
Matches: 57, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 15 0.26
21 42 0.74
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (20 bp):
AATCGCAACGCGATTTTCAA
Found at i:495347 original size:20 final size:20
Alignment explanation
Indices: 495322--495515 Score: 87
Period size: 20 Copynumber: 9.7 Consensus size: 20
495312 GATTTTCCAG
* *
495322 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
495342 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
495362 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
495382 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
495402 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
495422 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
495442 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
495462 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
495483 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
495503 AATCGCAACGCGA
1 AATCGCAACGCGA
495516 TATTTAAAGC
Statistics
Matches: 149, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.02
20 130 0.87
21 15 0.10
22 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:495369 original size:40 final size:39
Alignment explanation
Indices: 495322--495515 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 39
495312 GATTTTCCAG
* ** *
495322 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
495362 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* * *
495402 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
495442 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
495483 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
495516 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.74
41 33 0.25
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:495405 original size:60 final size:60
Alignment explanation
Indices: 495322--495514 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
495312 GATTTTCCAG
* ** *
495322 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
* * * *
495382 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTA
* ** *
495442 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT-AAATCGCAACGCGTATCCGTA
495503 AATCGCAACGCG
1 AATCGCAACGCG
495515 ATATTTAAAG
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.01
60 79 0.70
61 33 0.29
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
Found at i:495929 original size:33 final size:33
Alignment explanation
Indices: 495890--495960 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
495880 TTCACTTAGA
495890 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
495923 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
495956 TTTCA
1 TTTCA
495961 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:496081 original size:32 final size:33
Alignment explanation
Indices: 496029--496096 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 33
496019 GTTTCAATTT
**
496029 GCAACGAGAGAATCGCAACGCGAAATGAAAATC
1 GCAACGAGAGAATCGCAACGCGAAACCAAAATC
496062 GCAACGAGAG-ATCGCAACGCGAAACCAAAATC
1 GCAACGAGAGAATCGCAACGCGAAACCAAAATC
496094 GCA
1 GCA
496097 TTGCGATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 23 0.70
33 10 0.30
ACGTcount: A:0.44, C:0.25, G:0.24, T:0.07
Consensus pattern (33 bp):
GCAACGAGAGAATCGCAACGCGAAACCAAAATC
Found at i:496114 original size:19 final size:19
Alignment explanation
Indices: 496092--496218 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
496082 GAAACCAAAA
*
496092 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
496111 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
496127 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
496144 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
496158 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
496178 ATCTCG-TGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
496197 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
496217 TC
1 TC
496219 AATCAAAGAC
Statistics
Matches: 86, Mismatches: 9, Indels: 26
0.71 0.07 0.21
Matches are distributed among these distances:
14 18 0.21
16 9 0.10
17 9 0.10
19 27 0.31
20 18 0.21
21 5 0.06
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:496133 original size:14 final size:14
Alignment explanation
Indices: 496114--496170 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
496104 TTTCATTTCG
496114 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
496128 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
496145 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTTT
496161 CGTTGCGATT
1 CGTTGCGATT
496171 TTCATTTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:496139 original size:33 final size:33
Alignment explanation
Indices: 496097--496218 Score: 154
Period size: 33 Copynumber: 3.5 Consensus size: 33
496087 CAAAATCGCA
*
496097 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
496130 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
496163 TTGCGATTTTCATTTATCTCGTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGT-TG-C-G--ATTCTCTCG
496203 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
496219 AATCAAAGAC
Statistics
Matches: 79, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
33 44 0.56
34 2 0.03
35 5 0.06
36 1 0.01
37 1 0.01
38 3 0.04
39 2 0.03
40 21 0.27
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:496215 original size:20 final size:20
Alignment explanation
Indices: 496154--496216 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
496144 TCGCGTTGCG
496154 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* ***
496174 ATTTATCTCG-TGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
496194 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
496214 ATT
1 ATT
496217 TCAATCAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 7 0.21
20 19 0.58
21 7 0.21
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:498160 original size:92 final size:93
Alignment explanation
Indices: 497904--498181 Score: 496
Period size: 93 Copynumber: 3.1 Consensus size: 93
497894 TAGATTGCTT
* *
497904 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTA-TC-TTAACACTGTGAAATATTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
497967 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
497994 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
498058 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
498086 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
498151 -TTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
498177 AGTAA
1 AGTAA
498182 TGCAATCCAT
Statistics
Matches: 182, Mismatches: 2, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
89 34 0.19
90 8 0.04
91 34 0.19
92 48 0.26
93 58 0.32
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:498264 original size:19 final size:19
Alignment explanation
Indices: 498224--498352 Score: 107
Period size: 19 Copynumber: 7.3 Consensus size: 19
498214 ATAGTTACTT
* *
498224 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
498244 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
498263 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
498282 TCGCAA--C-AAA--AGAA
1 TCGCAACGCGAAACCAAAA
* **
498296 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
498315 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
498329 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
498348 TCGCA
1 TCGCA
498353 TTGCGATTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 19 0.21
15 1 0.01
16 6 0.07
17 6 0.07
18 1 0.01
19 46 0.50
20 13 0.14
ACGTcount: A:0.48, C:0.26, G:0.16, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:498298 original size:33 final size:33
Alignment explanation
Indices: 498259--498352 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
498249 ACGCGAAACC
498259 AAAATCGCAACGCGAAATGAAAATCGCAAC-AA
1 AAAATCGCAACGCGAAATGAAAATCGCAACGAA
* *
498291 AAGAATCGCAATGCGAAATGAAAATCGCAACGAC
1 AA-AATCGCAACGCGAAATGAAAATCGCAACGAA
**
498325 AAAATCGCAACGCGAAACCAAAATCGCA
1 AAAATCGCAACGCGAAATGAAAATCGCA
498353 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 2 0.04
33 50 0.91
34 3 0.05
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.10
Consensus pattern (33 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACGAA
Found at i:498370 original size:19 final size:19
Alignment explanation
Indices: 498348--498519 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
498338 GAAACCAAAA
*
498348 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
498367 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
498383 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
* *
498399 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
498415 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
498432 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* **
498451 TCGCATTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
498470 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
498489 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
498509 TCGTGTTGCGA
1 TCGCGTTGCGA
498520 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
14 15 0.12
15 3 0.02
16 11 0.09
17 8 0.06
18 7 0.06
19 70 0.56
20 12 0.10
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:498389 original size:14 final size:14
Alignment explanation
Indices: 498370--498425 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
498360 TTTCATTTCG
498370 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
498384 CGTTGCGATTTCATTT
1 CGTTGCGA-TTC-TTT
*
498400 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
498416 CGTTGCGATT
1 CGTTGCGATT
498426 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 16 0.43
15 3 0.08
16 9 0.24
17 3 0.08
18 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:498434 original size:33 final size:33
Alignment explanation
Indices: 498353--498444 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 33
498343 CAAAATCGCA
*
498353 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
498386 TTGCGA-TTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
498418 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
498445 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:500461 original size:14 final size:14
Alignment explanation
Indices: 500441--500477 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
500431 GATTGTTTAA
500441 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
500454 TATGATTTGTAAAAG
1 T-TGATTTGTAAAAG
500469 TTGATTTGT
1 TTGATTTGT
500478 GTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:500600 original size:19 final size:19
Alignment explanation
Indices: 500584--500681 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
500574 AAAAATGACT
500584 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
500603 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
500622 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
500636 ATCGCAATGCGAAATTAAA
1 ATCGCAATGCGAAATGAAA
500655 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
500675 ATCGCAA
1 ATCGCAA
500682 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.55
20 15 0.22
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:500713 original size:53 final size:53
Alignment explanation
Indices: 500584--500700 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
500574 AAAAATGACT
*
500584 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATTAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
500636 ATCGCAATGCGAAATTAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATTAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
500689 ATCGCAATGCGA
1 ATCGCAATGCGA
500701 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.44
53 35 0.56
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATTAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:500893 original size:86 final size:87
Alignment explanation
Indices: 500714--501031 Score: 387
Period size: 86 Copynumber: 3.7 Consensus size: 87
500704 TAATTTCGCA
*
500714 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA-TCG--TTGCGATT
500773 TTCATTTCCGCATTGCGATTCTCTCG
63 TTCATTT-CGCATTGCGATTCTCTCG
*
500799 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGCGATTTTC
500863 ATTTCGCATTGCGATTCTCTCG
66 ATTTCGCATTGCGATTCTCTCG
*
500885 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGTTGCGATTTTC
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGCGATTTTC
*
500949 ATTTCGCATTGCGATTTTCATTTCCG
66 ATTTCGCATTGCGA--TTC-TCT-CG
* *
500975 CATTGCGATTTTCA--T-G--TTGGGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATT
1 --TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGCGATT
501032 GTAATTTCCG
Statistics
Matches: 214, Mismatches: 6, Indels: 25
0.87 0.02 0.10
Matches are distributed among these distances:
85 26 0.12
86 118 0.55
87 31 0.14
88 5 0.02
89 6 0.03
90 4 0.02
91 12 0.06
92 12 0.06
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (87 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGCGATTTTC
ATTTCGCATTGCGATTCTCTCG
Found at i:500999 original size:53 final size:51
Alignment explanation
Indices: 500690--501017 Score: 310
Period size: 53 Copynumber: 6.3 Consensus size: 51
500680 AACGAGAGAA
* *
500690 TCGCAATGCGATTTTAATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
* *
500741 CTCTCGTTGCGATTTTCA-TTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 -TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATT
* *
500793 CTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 -TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATT
* * * * *
500846 T-TCATGTTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT
1 TCGCA--TTGCGATTTTCATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATT
* * *
500899 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATT-T-TCATTTCGCA-TTGCGATT
* * *
500952 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTC-ATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCAT-TTCGCA-TTGCGATT
501005 TCGCATTGCGATT
1 TCGCATTGCGATT
501018 CTCTCGTTGC
Statistics
Matches: 251, Mismatches: 14, Indels: 21
0.88 0.05 0.07
Matches are distributed among these distances:
51 26 0.10
52 61 0.24
53 152 0.61
54 8 0.03
55 4 0.02
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (51 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
Found at i:501039 original size:139 final size:139
Alignment explanation
Indices: 500718--501031 Score: 621
Period size: 139 Copynumber: 2.3 Consensus size: 139
500708 TTCGCATTGC
500718 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA-TTCGCATTGCGATTTTCATTTCC
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCC
500782 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTT
66 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTT
500847 TCATGTTGG
131 TCATGTTGG
500856 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCC
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCC
500921 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTT
66 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTT
500986 TCATGTTGG
131 TCATGTTGG
500995 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
501032 GTAATTTCCG
Statistics
Matches: 175, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 41 0.23
139 134 0.77
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (139 bp):
GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCC
GCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTT
TCATGTTGG
Found at i:501046 original size:53 final size:53
Alignment explanation
Indices: 500884--501050 Score: 189
Period size: 53 Copynumber: 3.2 Consensus size: 53
500874 CGATTCTCTC
* *
500884 GTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA-TTCTC-T
1 GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTC-CAT
* * *
500936 CGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 -GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCAT
* * * *
500990 GTTGGGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCG-ATTGTAATTTCCGT
1 GTTGCGATTTTCATTTCGCATTGCGATT-T-TCAGTTCCGCATTGCAATTTCCAT
501043 GTTGCGAT
1 GTTGCGAT
501051 AGTCAAATGC
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
53 91 0.90
54 8 0.08
55 2 0.02
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.46
Consensus pattern (53 bp):
GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCAT
Found at i:503542 original size:24 final size:24
Alignment explanation
Indices: 503508--503554 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
503498 CTGAAACATC
503508 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
503532 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
503555 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:504273 original size:20 final size:20
Alignment explanation
Indices: 504245--504473 Score: 253
Period size: 20 Copynumber: 11.4 Consensus size: 20
504235 AAATTTCAGT
* * *
504245 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
504265 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
504285 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
504305 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
504325 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
504345 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
504365 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
504385 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
504405 GTTGCGATTTACGGATGCGC
1 GTTGCGATTTACGGATTCGC
*
504425 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
504445 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
504465 GTTGCGATT
1 GTTGCGATT
504474 CTGGAAAATC
Statistics
Matches: 184, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 183 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:505270 original size:2 final size:2
Alignment explanation
Indices: 505265--505301 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
505255 AACATAAAAT
505265 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
505302 CAGGTTAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:507077 original size:63 final size:63
Alignment explanation
Indices: 506973--507131 Score: 210
Period size: 63 Copynumber: 2.5 Consensus size: 63
506963 AACACCATTT
* * * *
506973 TCCAACTTCTCCGATGCGTAGTCCCGGTGGCACTTACTCATATCAACCGCAAGTGTACGATTA
1 TCCAACTTCTCCAATGCATAGTCCCGGTGGCACTTACTCATATCAACCACAAGTGAACGATTA
* *
507036 TCCACCTTCTCCAATGCATAGTCCTGGTGGCACTTACTCATATCAACCACAAGTGAACGATTA
1 TCCAACTTCTCCAATGCATAGTCCCGGTGGCACTTACTCATATCAACCACAAGTGAACGATTA
** * * * *
507099 TCCATTTTCGCCCATGCGTAGTCCCGGCGGCAC
1 TCCAACTTCTCCAATGCATAGTCCCGGTGGCAC
507132 GACAATGAAT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 83 1.00
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.26
Consensus pattern (63 bp):
TCCAACTTCTCCAATGCATAGTCCCGGTGGCACTTACTCATATCAACCACAAGTGAACGATTA
Found at i:507788 original size:15 final size:15
Alignment explanation
Indices: 507768--507887 Score: 222
Period size: 15 Copynumber: 8.0 Consensus size: 15
507758 TAATAAGGTT
*
507768 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
507783 ATTTATTATAAAATA
1 ATTTATTATAAAATA
507798 ATTTATTATAAAATA
1 ATTTATTATAAAATA
507813 ATTTATTATAAAATA
1 ATTTATTATAAAATA
507828 ATTTATTATAAAATA
1 ATTTATTATAAAATA
507843 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
507858 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
507873 ATTTATTATAAAATA
1 ATTTATTATAAAATA
507888 TGGATTGATT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 102 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:507804 original size:30 final size:30
Alignment explanation
Indices: 507768--507927 Score: 223
Period size: 30 Copynumber: 5.1 Consensus size: 30
507758 TAATAAGGTT
507768 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
*
507798 ATTTATTATAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
*
507828 ATTTATTATAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
507858 ATTTATTTTAAAATAATTTATTATAAAATATGGA
1 ATTTATTTTAAAATAATTTATTAT-AAA-AT--A
*
507892 TTGATTTATTTTAAAATAATTTATT-TTAAATA
1 ---ATTTATTTTAAAATAATTTATTATAAAATA
507924 ATTT
1 ATTT
507928 GATAGTATGA
Statistics
Matches: 120, Mismatches: 3, Indels: 15
0.87 0.02 0.11
Matches are distributed among these distances:
29 4 0.03
30 82 0.68
31 3 0.03
32 3 0.03
34 3 0.03
35 2 0.02
36 1 0.01
37 22 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATTTATTTTAAAATAATTTATTATAAAATA
Found at i:507825 original size:45 final size:45
Alignment explanation
Indices: 507768--507927 Score: 232
Period size: 45 Copynumber: 3.4 Consensus size: 45
507758 TAATAAGGTT
507768 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATA
*
507813 ATTTATTATAAAATAATTTATTATAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATA
*
507858 ATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTAT-AAA-AT--A---ATTTATTATAAAATA
507910 ATTTATTTT-AAATAATTT
1 ATTTATTTTAAAATAATTT
507928 GATAGTATGA
Statistics
Matches: 105, Mismatches: 3, Indels: 8
0.91 0.03 0.07
Matches are distributed among these distances:
45 67 0.64
46 3 0.03
47 2 0.02
49 1 0.01
51 9 0.09
52 23 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (45 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATA
Found at i:507898 original size:22 final size:22
Alignment explanation
Indices: 507873--507972 Score: 67
Period size: 22 Copynumber: 4.4 Consensus size: 22
507863 TTTTAAAATA
507873 ATTTATTATAAAATATGGATTG
1 ATTTATTATAAAATATGGATTG
* ** *
507895 ATTTATTTTAAAATAATTTATTTTA
1 ATTTATTATAAAAT-ATGGA--TTG
* * * * *
507920 AATAATT-TGATAGTATGAATTG
1 ATTTATTAT-AAAATATGGATTG
*
507942 ATTTATTTTAAAATATGGATTG
1 ATTTATTATAAAATATGGATTG
507964 ATTTATTAT
1 ATTTATTAT
507973 TGTAGTTGTA
Statistics
Matches: 56, Mismatches: 17, Indels: 10
0.67 0.20 0.12
Matches are distributed among these distances:
22 38 0.68
23 4 0.07
24 4 0.07
25 10 0.18
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (22 bp):
ATTTATTATAAAATATGGATTG
Found at i:507915 original size:15 final size:14
Alignment explanation
Indices: 507895--507927 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
507885 ATATGGATTG
507895 ATTTATTTTAAAATA
1 ATTTATTTT-AAATA
507910 ATTTATTTTAAATA
1 ATTTATTTTAAATA
507924 ATTT
1 ATTT
507928 GATAGTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:507924 original size:14 final size:15
Alignment explanation
Indices: 507768--507927 Score: 196
Period size: 15 Copynumber: 10.3 Consensus size: 15
507758 TAATAAGGTT
507768 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
507783 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
507798 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
507813 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
507828 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
507843 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
507858 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
507873 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
507892 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
507910 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
507924 ATTT
1 ATTT
507928 GATAGTATGA
Statistics
Matches: 134, Mismatches: 4, Indels: 15
0.88 0.03 0.10
Matches are distributed among these distances:
14 9 0.07
15 104 0.78
16 4 0.03
17 2 0.01
18 1 0.01
19 1 0.01
20 2 0.01
21 4 0.03
22 7 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:508021 original size:32 final size:31
Alignment explanation
Indices: 507980--508140 Score: 160
Period size: 32 Copynumber: 5.7 Consensus size: 31
507970 TATTGTAGTT
507980 GTATGGATTGATTTATTTTACATAATTTATTA
1 GTATGGATTGATTTATTTTA-ATAATTTATTA
508012 GTATGGATTGATTTA-TTT--TAA---A--A
1 GTATGGATTGATTTATTTTAATAATTTATTA
508035 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTT-AATAATTTATTA
*
508066 GTATAGATTGATTTATTTT-A-AA---A-TA
1 GTATGGATTGATTTATTTTAATAATTTATTA
508091 -TA--GATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTT-AATAATTTATTA
508120 GTATGGATTGATTTATTTTAA
1 GTATGGATTGATTTATTTTAA
508141 AATATGGATT
Statistics
Matches: 108, Mismatches: 1, Indels: 41
0.72 0.01 0.27
Matches are distributed among these distances:
22 28 0.26
23 4 0.04
24 3 0.03
25 5 0.05
26 4 0.04
28 4 0.04
29 5 0.05
30 3 0.03
31 6 0.06
32 46 0.43
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (31 bp):
GTATGGATTGATTTATTTTAATAATTTATTA
Found at i:508038 original size:22 final size:22
Alignment explanation
Indices: 508013--508055 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
508003 AATTTATTAG
508013 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
508035 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
508056 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:508050 original size:54 final size:54
Alignment explanation
Indices: 507981--508158 Score: 329
Period size: 54 Copynumber: 3.3 Consensus size: 54
507971 ATTGTAGTTG
*
507981 TATGGATTGATTTATTTTACATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
508035 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
508089 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
508143 TATGGATTGATTTATT
1 TATGGATTGATTTATT
508159 ATTGTAGTTG
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:508092 original size:22 final size:22
Alignment explanation
Indices: 508067--508109 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
508057 AATTTATTAG
508067 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
508089 TATAGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
508110 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:508132 original size:188 final size:187
Alignment explanation
Indices: 507910--508441 Score: 960
Period size: 188 Copynumber: 2.8 Consensus size: 187
507900 TTTTAAAATA
*
507910 ATTTATTTTAAATAATTTGA-TAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATT
1 ATTTATTTTAAATAATTT-ATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATT
* *
507974 GTAGTTGTATGGATTGATTTATTTTACATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
65 GTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATG
508039 GATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATAGATTG
129 GATTGATTTATTTTAAATAATTTATTAGTAT-GTATTGATTTATTTTAAAATATAGATTG
508098 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
508163 TAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAGTTGATTTATTTTAAAATATGA
66 TAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGA-TTGATTTATTTTAAAATATGG
*
508228 ATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
130 ATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATAGATTG
508286 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
508351 TAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGG
66 TAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGG
508416 ATTGATTTATTTTAAATAATTTATTA
130 ATTGATTTATTTTAAATAATTTATTA
508442 TTGTAGTTGT
Statistics
Matches: 334, Mismatches: 6, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
187 4 0.01
188 328 0.98
189 2 0.01
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (187 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAAATATGGA
TTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATAGATTG
Found at i:508189 original size:80 final size:80
Alignment explanation
Indices: 508089--508238 Score: 275
Period size: 80 Copynumber: 1.9 Consensus size: 80
508079 TATTTTAAAA
*
508089 TATAGATTGATTTATTTTAAATAATTTATTAGTATG-GATTGATTTATTTTAAAATATGGATTGA
1 TATAGATTGATTTATTTTAAATAATTTATTAGTATGAG-TTGATTTATTTTAAAATATGAATTGA
508153 TTTATTATTGTAGTTG
65 TTTATTATTGTAGTTG
508169 TATAGATTGATTTATTTTAAATAATTTATTAGTATGAGTTGATTTATTTTAAAATATGAATTGAT
1 TATAGATTGATTTATTTTAAATAATTTATTAGTATGAGTTGATTTATTTTAAAATATGAATTGAT
508234 TTATT
66 TTATT
508239 TTAAATAATT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
80 67 0.99
81 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
TATAGATTGATTTATTTTAAATAATTTATTAGTATGAGTTGATTTATTTTAAAATATGAATTGAT
TTATTATTGTAGTTG
Found at i:508216 original size:32 final size:31
Alignment explanation
Indices: 508168--508329 Score: 162
Period size: 32 Copynumber: 5.7 Consensus size: 31
508158 TATTGTAGTT
508168 GTATAGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
508200 GTATGAGTTGATTTATTTT-AA-AA--TA-T-
1 GTATGA-TTGATTTATTTTAAATAATTTATTA
508226 G-A--ATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
508254 GTATGTATTGATTTATTTT-AA-AA--TA-T-
1 GTATG-ATTGATTTATTTTAAATAATTTATTA
508280 G---GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
508308 GTATGGATTGATTTATTTTAAA
1 GTAT-GATTGATTTATTTTAAA
508330 ATATGGATTG
Statistics
Matches: 109, Mismatches: 0, Indels: 42
0.72 0.00 0.28
Matches are distributed among these distances:
22 25 0.23
23 6 0.06
24 4 0.04
25 1 0.01
26 6 0.06
27 4 0.04
28 6 0.06
29 1 0.01
30 4 0.04
31 6 0.06
32 46 0.42
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (31 bp):
GTATGATTGATTTATTTTAAATAATTTATTA
Found at i:508226 original size:22 final size:22
Alignment explanation
Indices: 508201--508243 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
508191 AATTTATTAG
*
508201 TATGAGTTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
508223 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
508244 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:508237 original size:54 final size:54
Alignment explanation
Indices: 508173--508346 Score: 307
Period size: 54 Copynumber: 3.2 Consensus size: 54
508163 TAGTTGTATA
508173 GATTGATTTATTTTAAATAATTTATTAGTATGAGTTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGAGTTGATTTATTTTAAAATATG
*
508227 AATTGATTTATTTTAAATAATTTATTAGTATGTA-TTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG-AGTTGATTTATTTTAAAATATG
508281 GATTGATTTATTTTAAATAATTTATTAGTATG-GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGAG-TTGATTTATTTTAAAATATG
508335 GATTGATTTATT
1 GATTGATTTATT
508347 ATTGTAGTTG
Statistics
Matches: 115, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
54 114 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGAGTTGATTTATTTTAAAATATG
Found at i:508239 original size:134 final size:135
Alignment explanation
Indices: 508039--508426 Score: 505
Period size: 134 Copynumber: 2.9 Consensus size: 135
508029 TTAAAATATG
508039 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATAT-AGATTGATTTA
1 GATTGATTTATTTTAAATAATTTATTAGTATAG-TTGATTTATTTTAAAATATGA-ATTGATTTA
508103 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT-AT-TGTAG
64 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTA-
508166 TT-GTATA
128 TTAGTATA
508173 GATTGATTTATTTTAAATAATTTATTAGTATGAGTTGATTTATTTTAAAATATGAATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT-AGTTGATTTATTTTAAAATATGAATTGATTTAT
* *
508238 TTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT
65 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT-AAT-ATG
*
508303 TATTAGTATG
126 TATTAGTATA
** * *
508313 GATTGATTTATTTTAAA-ATATGGATT-GATTTA-TT-ATTGTAGTTGT---ATA-G-ATTGATT
1 GATTGATTTATTTTAAATA-ATTTATTAG-TATAGTTGATT-TA-TTTTAAAATATGAATTGATT
*
508369 TATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
62 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
508427 TTAAATAATT
Statistics
Matches: 232, Mismatches: 9, Indels: 28
0.86 0.03 0.10
Matches are distributed among these distances:
132 2 0.01
134 173 0.75
135 4 0.02
136 5 0.02
137 3 0.01
138 6 0.03
139 8 0.03
140 31 0.13
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (135 bp):
GATTGATTTATTTTAAATAATTTATTAGTATAGTTGATTTATTTTAAAATATGAATTGATTTATT
TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTATTA
GTATA
Found at i:508271 original size:22 final size:22
Alignment explanation
Indices: 508255--508297 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
508245 AATTTATTAG
*
508255 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
508277 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
508298 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:508323 original size:18 final size:18
Alignment explanation
Indices: 508300--508347 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
508290 ATTTTAAATA
*
508300 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
508318 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
508340 ATTTATTA
1 ATTTATTA
508348 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:508403 original size:18 final size:17
Alignment explanation
Indices: 508354--508404 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
508344 ATTATTGTAG
508354 TTGTATAGATTGATTTA
1 TTGTATAGATTGATTTA
* *
508371 TT-T-TA-AATAATTTA
1 TTGTATAGATTGATTTA
508385 TTAGTATAGATTGATTTA
1 TT-GTATAGATTGATTTA
508403 TT
1 TT
508405 TTAAAATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
14 9 0.35
15 2 0.08
16 2 0.08
17 4 0.15
18 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
TTGTATAGATTGATTTA
Found at i:508490 original size:31 final size:31
Alignment explanation
Indices: 508455--508514 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
508445 TAGTTGTATG
* *
508455 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
508486 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
508515 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:518436 original size:32 final size:32
Alignment explanation
Indices: 518400--518476 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 32
518390 GTGACATAGT
**
518400 TGAGGGACTAAAATCGAACGGGAATTAATGGC
1 TGAGGGACTAAAATCGAACGACAATTAATGGC
518432 TGAGGGACTAAAATCGAACGACAATTAATGGC
1 TGAGGGACTAAAATCGAACGACAATTAATGGC
* *
518464 TGAAGGATTAAAA
1 TGAGGGACTAAAA
518477 CCAAATGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (32 bp):
TGAGGGACTAAAATCGAACGACAATTAATGGC
Found at i:520247 original size:11 final size:11
Alignment explanation
Indices: 520205--520276 Score: 51
Period size: 11 Copynumber: 6.6 Consensus size: 11
520195 TGATATAAAA
520205 ATAAT-ATTTT
1 ATAATAATTTT
* *
520215 TTAATAAATTT
1 ATAATAATTTT
* *
520226 AAAGATTATTTT
1 ATA-ATAATTTT
*
520238 ATAATAATTTG
1 ATAATAATTTT
520249 AT-A-AATTTT
1 ATAATAATTTT
*
520258 AATAATTATTTT
1 -ATAATAATTTT
520270 ATAATAA
1 ATAATAA
520277 CGTAATAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
9 5 0.11
10 7 0.16
11 20 0.44
12 13 0.29
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (11 bp):
ATAATAATTTT
Found at i:520268 original size:21 final size:20
Alignment explanation
Indices: 520233--520273 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
520223 TTTAAAGATT
520233 ATTTTATAATAATTTGATAA
1 ATTTTATAATAATTTGATAA
* *
520253 ATTTTAATAATTATTTTATAA
1 ATTTT-ATAATAATTTGATAA
520274 TAACGTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTTATAATAATTTGATAA
Found at i:520285 original size:32 final size:31
Alignment explanation
Indices: 520216--520285 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
520206 TAATATTTTT
**
520216 TAATAAATTTAAAGATTATTTTATAATAATT
1 TAATAAATTTAAAGATTATTTTATAATAACG
*
520247 TGATAAATTTTAATA-ATTATTTTATAATAACG
1 TAATAAA-TTTAA-AGATTATTTTATAATAACG
520279 TAATAAA
1 TAATAAA
520286 ATATAATATC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.18
32 26 0.79
33 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (31 bp):
TAATAAATTTAAAGATTATTTTATAATAACG
Found at i:520293 original size:32 final size:32
Alignment explanation
Indices: 520230--520293 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
520220 AAATTTAAAG
** * * *
520230 ATTATTTTATAATAATTTGATAAATTTTAATA
1 ATTATTTTATAATAACGTAATAAAATATAATA
520262 ATTATTTTATAATAACGTAATAAAATATAATA
1 ATTATTTTATAATAACGTAATAAAATATAATA
520294 TCAATTTCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (32 bp):
ATTATTTTATAATAACGTAATAAAATATAATA
Found at i:526372 original size:11 final size:11
Alignment explanation
Indices: 526329--526370 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
526319 GCATTGATGC
526329 ACTGCTACAAT
1 ACTGCTACAAT
526340 ACTGCTACAAT
1 ACTGCTACAAT
* * *
526351 ATTGTTACAGT
1 ACTGCTACAAT
526362 ACTGCTACA
1 ACTGCTACA
526371 GTGATTTCGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (11 bp):
ACTGCTACAAT
Found at i:530628 original size:35 final size:35
Alignment explanation
Indices: 530587--530655 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
530577 AAAAACTTGT
* *
530587 TGCTCGTTGCTCGCCTCTTTGCTCGTTAAGCTCAA
1 TGCTCGTTGCTCGCCTCGTTGCTCGTTAACCTCAA
* *
530622 TGCTCGTTGCTTGCCTCGTTGCTTGTTAACCTCA
1 TGCTCGTTGCTCGCCTCGTTGCTCGTTAACCTCA
530656 CTAAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.10, C:0.30, G:0.20, T:0.39
Consensus pattern (35 bp):
TGCTCGTTGCTCGCCTCGTTGCTCGTTAACCTCAA
Found at i:543441 original size:33 final size:35
Alignment explanation
Indices: 543397--543487 Score: 143
Period size: 33 Copynumber: 2.7 Consensus size: 35
543387 TTGCATAGTT
543397 TTATTACGTCATTTATAATACTTTCCATA-TTTTA
1 TTATTACGTCATTTATAATACTTTCCATATTTTTA
*
543431 TTA-TACGTCATTTATAATACTTTGCATATTTTTTA
1 TTATTACGTCATTTATAATACTTTCCATA-TTTTTA
543466 TTATTACGTCATTTA-AATACTT
1 TTATTACGTCATTTATAATACTT
543488 AACGTATTAG
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
33 24 0.45
34 3 0.06
35 15 0.28
36 11 0.21
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.53
Consensus pattern (35 bp):
TTATTACGTCATTTATAATACTTTCCATATTTTTA
Found at i:543739 original size:10 final size:10
Alignment explanation
Indices: 543726--543761 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
543716 CTTTCGGTAA
543726 TATGTTCGTT
1 TATGTTCGTT
*
543736 TATGTTCATT
1 TATGTTCGTT
543746 TATGTTCGTT
1 TATGTTCGTT
543756 TATGTT
1 TATGTT
543762 GTTAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.14, C:0.08, G:0.17, T:0.61
Consensus pattern (10 bp):
TATGTTCGTT
Found at i:543951 original size:10 final size:10
Alignment explanation
Indices: 543938--544066 Score: 51
Period size: 10 Copynumber: 11.5 Consensus size: 10
543928 ATTATTTTCA
543938 TTTATGTTCG
1 TTTATGTTCG
** *
543948 TTTACATTCA
1 TTTATGTTCG
*
543958 TTTATGTTCATT
1 TTTATGTTC--G
543970 TATTATGTTCG
1 T-TTATGTTCG
543981 TTTATGTTCGTTCG
1 TTTA---T-GTTCG
* *
543995 TTTGTGTTTG
1 TTTATGTTCG
*
544005 TTTACGTTCG
1 TTTATGTTCG
544015 TTTATTGTGTTCG
1 TTTA---TGTTCG
*
544028 TTTATGTTTG
1 TTTATGTTCG
*
544038 TTTACATCTATTCG
1 TTT--A--TGTTCG
544052 TTTATGTTCG
1 TTTATGTTCG
544062 TTTAT
1 TTTAT
544067 CATTTAAATG
Statistics
Matches: 88, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
10 50 0.57
11 2 0.02
12 3 0.03
13 18 0.20
14 15 0.17
ACGTcount: A:0.13, C:0.11, G:0.16, T:0.60
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:543959 original size:20 final size:20
Alignment explanation
Indices: 543934--543971 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
543924 AAAAATTATT
*
543934 TTCATTTATGTTCGTTTACA
1 TTCATTTATGTTCATTTACA
543954 TTCATTTATGTTCATTTA
1 TTCATTTATGTTCATTTA
543972 TTATGTTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (20 bp):
TTCATTTATGTTCATTTACA
Found at i:543986 original size:23 final size:23
Alignment explanation
Indices: 543958--544066 Score: 112
Period size: 24 Copynumber: 4.7 Consensus size: 23
543948 TTTACATTCA
* *
543958 TTTATGTTCATTTATTATGTTCG
1 TTTATGTTCGTTTATTGTGTTCG
*
543981 TTTATGTTCGTTCGT-TTGTGTTTG
1 TTTATGTTCGTT--TATTGTGTTCG
*
544005 TTTACGTTCGTTTATTGTGTTCG
1 TTTATGTTCGTTTATTGTGTTCG
* * * *
544028 TTTATGTTTGTTTACATCTATTCG
1 TTTATGTTCGTTTA-TTGTGTTCG
544052 TTTATGTTCGTTTAT
1 TTTATGTTCGTTTAT
544067 CATTTAAATG
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.01
23 31 0.44
24 37 0.53
25 1 0.01
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.61
Consensus pattern (23 bp):
TTTATGTTCGTTTATTGTGTTCG
Found at i:544036 original size:33 final size:34
Alignment explanation
Indices: 543976--544042 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 34
543966 CATTTATTAT
*
543976 GTTCGTTTATGTTCGTTCGTTTGTGTTTGTTTAC
1 GTTCGTTTATGTTCGTTCGTTTATGTTTGTTTAC
544010 GTTCGTTTAT-TGT-GTTCGTTTATGTTTGTTTAC
1 GTTCGTTTATGT-TCGTTCGTTTATGTTTGTTTAC
544043 ATCTATTCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 20 0.65
34 11 0.35
ACGTcount: A:0.07, C:0.10, G:0.22, T:0.60
Consensus pattern (34 bp):
GTTCGTTTATGTTCGTTCGTTTATGTTTGTTTAC
Found at i:560450 original size:11 final size:11
Alignment explanation
Indices: 560434--560470 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
560424 GCAAATCTTC
560434 GTTTGAAGTTT
1 GTTTGAAGTTT
*
560445 GTTTGAAGTTC
1 GTTTGAAGTTT
560456 GTTTGAAGTTT
1 GTTTGAAGTTT
560467 GTTT
1 GTTT
560471 TGATTATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.16, C:0.03, G:0.27, T:0.54
Consensus pattern (11 bp):
GTTTGAAGTTT
Found at i:562310 original size:32 final size:31
Alignment explanation
Indices: 562230--562339 Score: 82
Period size: 32 Copynumber: 3.5 Consensus size: 31
562220 TAATTGTTAA
* * *
562230 TTTATCAAA-TGCTTATAGAACGAATATTATTT
1 TTTATCAAACTG-TTATA-AAAGATTATTAATT
* * *
562262 TTTATTAAATTATTATATAAAGATTATTAATT
1 TTTATCAAACTGTTATA-AAAGATTATTAATT
** *
562294 TTTATCAAACTGTTATAACTTGATTATTAA-A
1 TTTATCAAACTGTTATAA-AAGATTATTAATT
562325 TTTATCAAACT-TTAT
1 TTTATCAAACTGTTAT
562340 GATCATAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
30 4 0.06
31 12 0.19
32 47 0.73
33 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTATCAAACTGTTATAAAAGATTATTAATT
Found at i:563704 original size:4 final size:4
Alignment explanation
Indices: 563695--566654 Score: 5112
Period size: 4 Copynumber: 753.2 Consensus size: 4
563685 CTACCATCCC
563695 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
563743 TACA TACA TACA TACA TACA TACC TACA TAC- TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
563790 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
563838 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
563886 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
563933 TACA TACA TACA TACA TACA -ACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
563980 TACA TACA TAC- -ACA TACA TACA TACA T--A TACA TACA TACA -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
564023 TACA TA-A -ACA CACC TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
564069 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA CATA CACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
564117 TACA TACA TACA TACA TACA TACA TACA TACA -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
564164 TACA TACC TACA TACA TACA TACA TACA TACA T--A TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
564210 TACA TACA TACA TACA TACA TATCA TACA TACA TACA TACA TACA GACA
1 TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA TACA TACA
564259 TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
564305 TACA TACA TAC- TACA TACA TACA TACA TACA TACA TACA -ACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
564351 TACA TACA TACA TACA TACA TACA TACA TACA TTACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA -TACA TACA TACA TACA
564400 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
564447 TACA T--A TACA TACA TACA TACA GACA TACCA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA
564494 TACA TACA TACA TACA TAC- TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
564541 TA-A TACA -AC- TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
564586 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
564633 TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA TACA TACC
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
564680 TACA T--A TACA TACA TACA TACA TACA CATA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
564726 TACA TACA -ACA T--A TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
564771 -ACA TACA TACA TACA TACA TACA TACA GACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
564818 TACA -ACA TACA TACA TACA TACA GACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
564865 TACA TACA TACA TAACA TACA TACA TACA TACA AACA TACA TACA TAC-
1 TACA TACA TACA T-ACA TACA TACA TACA TACA TACA TACA TACA TACA
564913 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
564961 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
565009 TACA TACA TACA TACA TACA TACA TACA TACA TACC TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
565057 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA-A TAAA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
565104 TACA TACA TACA TACA TAC- -ACA TACA TACA TACA T-CA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
565149 TACA TACA TACA TACA TACA TACA TAC- TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
565196 TACA TACA TACA TACA TACC TACA TACA TACA TACA TACA TAC- TACCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA-CA
565244 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
565292 TACA TACA TACAA TACA TACA TACA T--A TACA TACA TACA TACA TACA
1 TACA TACA TAC-A TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
565339 TCCA TACA TACA TACA TACA GACCA T-CA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA TACA TACA
565387 TACA -ACA TACA T--A TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
565432 TACA TACA TACA TACA TACA TACA TACTA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TAC-A TACA TACA TACA TACA TACA
565481 TAC- -ACA TACA TACA TACA TACA TACA TACA TA-A TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
565526 TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
565573 TACA TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
565619 TACA TAC- TACA TACA TCCA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
565666 TACA TACA TACC TACA TACA TAC- TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
565713 TACA TACA TACA TACA TAC- TACA TACA TACC TACA GACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
565760 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
565808 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACC TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
565856 TACA TACA TACA TACA TACA TAACC TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA T-ACA TACA TACA TACA TACA TACA TACA
565905 TACA TACA TACA TACA TACA TACA -AC- TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
565951 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
565999 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566047 TACA TACA TACA TACA TACA TACA TACA TACA TACA T--A TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566093 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566141 TACA TACA TACA TACA CTACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA -TACA TACA TACA TACA TACA TACA TACA TACA
*
566190 TACA TACA TACA TACA TAC- TACA TACA TACA TACA TACA GACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566237 TACA TAC- TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566284 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
566332 TACA TACA TACC TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566380 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566428 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566476 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566523 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TCACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T-ACA
*
566572 TACA TACA TACA TACA TACA TACA TACA TACC TAC- -ACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
566618 TACA TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA T
566655 GAGATAGATT
Statistics
Matches: 2828, Mismatches: 53, Indels: 150
0.93 0.02 0.05
Matches are distributed among these distances:
2 29 0.01
3 99 0.04
4 2661 0.94
5 39 0.01
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:567567 original size:42 final size:42
Alignment explanation
Indices: 567469--567650 Score: 222
Period size: 43 Copynumber: 4.3 Consensus size: 42
567459 TGGTAACAAA
*** * **
567469 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTGTTGGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TTCCAC
* * *
567512 AAACGCCGCAATAGGTGTTAATATTTGGTGGC-TTTTTCCAAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCC-AC
567554 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGTCCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTT-TCCAC
*
567597 AAACGCCGCAATAGGTCTTGATATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTT-CCAC
*
567640 AAACACCGCAA
1 AAACGCCGCAA
567651 AAGATCTGGT
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
41 2 0.02
42 35 0.29
43 81 0.67
44 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (42 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAC
Found at i:567612 original size:85 final size:86
Alignment explanation
Indices: 567469--567650 Score: 233
Period size: 85 Copynumber: 2.1 Consensus size: 86
567459 TGGTAACAAA
** *
567469 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTGTTGGACAAACGCCGCAATAGGTGTTAAT
1 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTGTTCCACAAACGCCGCAATAGGTCTTAAT
* *
567534 ATTTGGTGGC-TTTTTCCAAC
66 ATTTAGCGGCGTTTTTCCAAC
*** * *
567554 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TGTCCACAAACGCCGCAATAGGTCTTGA
1 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTGT-TCCACAAACGCCGCAATAGGTCTTAA
*
567618 TATTTAGCGGCGTTTTTCCCAC
65 TATTTAGCGGCGTTTTTCCAAC
*
567640 AAACACCGCAA
1 AAACGCCGCAA
567651 AAGATCTGGT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 1 0.01
85 63 0.76
86 19 0.23
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (86 bp):
AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTGTTCCACAAACGCCGCAATAGGTCTTAAT
ATTTAGCGGCGTTTTTCCAAC
Found at i:567668 original size:85 final size:86
Alignment explanation
Indices: 567488--567675 Score: 229
Period size: 85 Copynumber: 2.2 Consensus size: 86
567478 AATAGGTAAC
** * * *
567488 GATATATAGCGGCG-TTTGTTGGACAAACGCCGCAATAGGTGTTAATATTTGGTGGCTTTTTCCA
1 GATATATAGCGGCGTTTTGTTCCACAAACGCCGCAATAGGTCTTAATATTTAGCGGCTTTTTCCA
* * * *
567552 ACAAACGCCGCAATAGGTGTT
66 ACAAACACCGCAAAAGATGCT
* *
567573 GATATTTAGCGGCGTTTTG-TCCACAAACGCCGCAATAGGTCTTGATATTTAGCGGCGTTTTTCC
1 GATATATAGCGGCGTTTTGTTCCACAAACGCCGCAATAGGTCTTAATATTTAGCGGC-TTTTTCC
*
567637 CACAAACACCGCAAAAGAT-CT
65 AACAAACACCGCAAAAGATGCT
*
567658 GGTATATAGCGGCGTTTT
1 GATATATAGCGGCGTTTT
567676 AAGATACAAC
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 61 0.70
86 26 0.30
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (86 bp):
GATATATAGCGGCGTTTTGTTCCACAAACGCCGCAATAGGTCTTAATATTTAGCGGCTTTTTCCA
ACAAACACCGCAAAAGATGCT
Found at i:570583 original size:18 final size:18
Alignment explanation
Indices: 570569--570602 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
570559 AATAAAATCA
570569 AAAATT-GAAGCAAAAAC
1 AAAATTAGAAGCAAAAAC
*
570586 AAGATTAGAAGCAAAAA
1 AAAATTAGAAGCAAAAA
570603 TTAAAGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.09, G:0.15, T:0.12
Consensus pattern (18 bp):
AAAATTAGAAGCAAAAAC
Found at i:572245 original size:42 final size:42
Alignment explanation
Indices: 572188--572551 Score: 445
Period size: 42 Copynumber: 8.8 Consensus size: 42
572178 TATGACAATT
572188 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* * * * *
572230 GCGACGTTTGTTATTAAAACGCCACAAAAGTATGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
*
572272 GCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGAATCTATA
1 GCGGCGTTTG-GTATTAAAACGCCACTAAAGTACGAGTCTATA
* *
572313 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* *
572355 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* *
572397 GCGGCGTTTGTGTA--AAAATGCCACTAAAGTATGAGTCTATA
1 GCGGCGTTTG-GTATTAAAACGCCACTAAAGTACGAGTCTATA
** * *
572438 GCATCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* * * * * *
572480 GCAGCGTTT-GTATAAAAACGCCACTACATTACGATTCTTTA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
*
572521 GCGGCGTTT-TTA-TACAAACGCCACTAAAGTA
1 GCGGCGTTTGGTATTA-AAACGCCACTAAAGTA
572552 TAGTATTTTG
Statistics
Matches: 278, Mismatches: 37, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
40 7 0.03
41 113 0.41
42 153 0.55
43 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (42 bp):
GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
Found at i:572303 original size:83 final size:83
Alignment explanation
Indices: 572188--572551 Score: 418
Period size: 83 Copynumber: 4.4 Consensus size: 83
572178 TATGACAATT
572188 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGACGTTTGTTATTAAAACGCC
1 GCGGCGTTTGGTA-TAAAACGCCACTAAAGTACGAGTCTATAGCGACGTTTGTTATTAAAACGCC
*
572253 ACAAAAGTATGTGTCTATA
65 ACAAAAGTACGTGTCTATA
* * *
572272 GCGGCGTTTGTGTA-AAAACGCCACTAAAGTACGAATCTATAGCGGCGTTTGGTATTAAAACGCC
1 GCGGCGTTTG-GTATAAAACGCCACTAAAGTACGAGTCTATAGCGACGTTTGTTATTAAAACGCC
572336 ACAAAAGTACGTGTCTATA
65 ACAAAAGTACGTGTCTATA
* * * *
572355 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTA--AAAATGC
1 GCGGCGTTTGGTA-TAAAACGCCACTAAAGTACGAGTCTATAGCGACGTTTGT-TATTAAAACGC
* * *
572418 CACTAAAGTATGAGTCTATA
64 CACAAAAGTACGTGTCTATA
** * * *
572438 GCATCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGC-AGCGTTTG-TATAAAAACGC
1 GCGGCGTTTGGTA-TAAAACGCCACTAAAGTACGAGTCTATAGCGA-CGTTTGTTATTAAAACGC
* * * *
572501 CACTACATTACGAT-TCTTTA
64 CACAAAAGTACG-TGTCTATA
*
572521 GCGGCGTTT-TTATACAAACGCCACTAAAGTA
1 GCGGCGTTTGGTATA-AAACGCCACTAAAGTA
572552 TAGTATTTTG
Statistics
Matches: 246, Mismatches: 25, Indels: 20
0.85 0.09 0.07
Matches are distributed among these distances:
81 4 0.02
82 20 0.08
83 173 0.70
84 44 0.18
85 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (83 bp):
GCGGCGTTTGGTATAAAACGCCACTAAAGTACGAGTCTATAGCGACGTTTGTTATTAAAACGCCA
CAAAAGTACGTGTCTATA
Found at i:572343 original size:125 final size:124
Alignment explanation
Indices: 572188--572551 Score: 525
Period size: 125 Copynumber: 2.9 Consensus size: 124
572178 TATGACAATT
* *
572188 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGACGTTTGTTATTAAAACGCC
1 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGACGTTTG-TATTAAAACGCC
*
572253 ACAAAAGTATGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATCTATA
65 ACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATCTATA
*
572313 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCC
1 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGACGTTT-GTATTAAAACGCC
* * *
572378 ACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTATGAGTCTATA
65 ACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATCTATA
** *
572438 GCATCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGC-AGCGTTTGTATAAAAACGCC
1 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGA-CGTTTGTATTAAAACGCC
* * * * * * *
572502 ACTACATTACGAT-TCTTTAGCGGCGTTTTTATACAAACGCCACTAAAGTA
65 ACAAAAGTACG-TGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTA
572552 TAGTATTTTG
Statistics
Matches: 217, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
124 52 0.24
125 164 0.76
126 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (124 bp):
GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGACGTTTGTATTAAAACGCCA
CAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAATCTATA
Found at i:573567 original size:20 final size:19
Alignment explanation
Indices: 573542--573594 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
573532 ACGAAATAAA
573542 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
573562 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
573582 AATCGCAACGCGA
1 AATCGCAACGCGA
573595 ATATGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.04
20 22 0.85
21 3 0.12
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:573605 original size:20 final size:20
Alignment explanation
Indices: 573582--573715 Score: 101
Period size: 20 Copynumber: 6.6 Consensus size: 20
573572 CAGTTCCCAG
573582 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGAA
* *
573602 AATCGCAACGCAAACAT-ATA
1 AATCGCAACGCGAATATGA-A
* * *
573622 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGAATATGAA
* * *
573642 TATCGCAACGAGTATATGTAA
1 AATCGCAACGCGAATATG-AA
* * ** *
573663 AATCGTAACGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
573683 AATCGCAACGAC-AATATGTAA
1 AATCGCAACG-CGAATATG-AA
573704 AATCGCAACGCG
1 AATCGCAACGCG
573716 TATCCGTAAA
Statistics
Matches: 84, Mismatches: 24, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
19 1 0.01
20 56 0.67
21 27 0.32
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATATGAA
Found at i:573674 original size:41 final size:41
Alignment explanation
Indices: 573643--573730 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
573633 GATTCTGACT
** *
573643 ATCGCAACGAGTATATGTAAAATCGTAACGCGTATCCGTAA
1 ATCGCAACGACAATATGTAAAATCGCAACGCGTATCCGTAA
573684 ATCGCAACGACAATATGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATATGTAAAATCGCAACGCGTATCCGTAA
573725 ATCGCA
1 ATCGCA
573731 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (41 bp):
ATCGCAACGACAATATGTAAAATCGCAACGCGTATCCGTAA
Found at i:573728 original size:20 final size:21
Alignment explanation
Indices: 573643--573730 Score: 85
Period size: 21 Copynumber: 4.3 Consensus size: 21
573633 GATTCTGACT
* **
573643 ATCGCAACGAGTATATGTAAA
1 ATCGCAACGCGTATCCGTAAA
*
573664 ATCGTAACGCGTATCCGT-AA
1 ATCGCAACGCGTATCCGTAAA
*
573684 ATCGCAACGACAATAT--GTAAA
1 ATCGCAACG-C-GTATCCGTAAA
573705 ATCGCAACGCGTATCCGT-AA
1 ATCGCAACGCGTATCCGTAAA
573725 ATCGCA
1 ATCGCA
573731 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
19 3 0.05
20 21 0.38
21 28 0.51
22 3 0.05
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGTATCCGTAAA
Found at i:573753 original size:19 final size:19
Alignment explanation
Indices: 573726--573790 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
573716 TATCCGTAAA
*
573726 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
573745 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
573759 TCTCGTTACGATTTTCATT
1 TCGCGTTGCGATTTTCATT
573778 TCGCGTTGCGATT
1 TCGCGTTGCGATT
573791 CTCTCGTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
16 3 0.08
17 3 0.08
19 21 0.58
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:573771 original size:33 final size:33
Alignment explanation
Indices: 573734--573823 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
573724 AATCGCATTG
573734 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTA
1 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTA
*
573767 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTA
**
573800 CGATAGTCATTTTCGCGTTGCGAT
1 CGATTTTCA-TTTCGCGTTGCGAT
573824 AGTCATTCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 39 0.74
34 14 0.26
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (33 bp):
CGATTTTCATTTCGCGTTGCGATTCTCTCGTTA
Found at i:573840 original size:20 final size:20
Alignment explanation
Indices: 573788--573843 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
573778 TCGCGTTGCG
573788 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
* *
573808 ATTTTCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
*
573828 ATTCTCTCATTGCGAT
1 ATTCTCTCGTTGCGAT
573844 TTTTATTAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:575702 original size:94 final size:94
Alignment explanation
Indices: 575541--575920 Score: 593
Period size: 94 Copynumber: 4.1 Consensus size: 94
575531 TAGATTGCTT
* * *
575541 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
575606 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
575635 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
575700 ATTTATCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * * * *
575729 AGTAAATTTGTTCGGTTGCTGTCAATTATGCTAAATTGTGTATTCTTTAACACTATGAAATTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
575794 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
575823 AGTAAATTTGTTCGGTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
575888 ATTTCTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
575916 AGTAA
1 AGTAA
575921 TGCAATCCAT
Statistics
Matches: 265, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
93 26 0.10
94 239 0.90
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:576093 original size:14 final size:14
Alignment explanation
Indices: 576074--576161 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
576064 TCATTTCGCA
576074 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
576088 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
576107 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
576121 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
576140 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
576154 TTGCGATT
1 TTGCGATT
576162 TTCATTTCGC
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 28 0.47
16 6 0.10
17 6 0.10
19 20 0.33
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:576095 original size:33 final size:33
Alignment explanation
Indices: 576053--576179 Score: 245
Period size: 33 Copynumber: 3.8 Consensus size: 33
576043 ACTATAATCG
*
576053 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
576086 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
576119 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
576152 CGTTGCGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
576180 AGTCATTTTT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 93 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:576187 original size:19 final size:19
Alignment explanation
Indices: 576050--576179 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
576040 GAAACTATAA
576050 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
576069 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
576083 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
576102 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
576116 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
576135 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
576149 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
576168 TCGCGTTGCGAT
1 TCGCGTTGCGAT
576180 AGTCATTTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
14 29 0.33
16 9 0.10
17 9 0.10
19 41 0.47
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:576680 original size:21 final size:21
Alignment explanation
Indices: 576656--576722 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
576646 TCATTCCTCG
576656 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
576677 AGAGGCCACTGTCATCGTTTA
1 AGAGTCCCCTCCCACCGTTCA
*
576698 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
576719 AGAG
1 AGAG
576723 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:576680 original size:42 final size:42
Alignment explanation
Indices: 576604--576722 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
576594 GACACGCCTG
* * *
576604 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * *
576646 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
** * *
576688 TCATCGTTTAAGAGGTCC-CTCCCACCATTCAAGAG
1 TCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
576723 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 58 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:578089 original size:14 final size:14
Alignment explanation
Indices: 578070--578104 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
578060 ATTGTTTAAT
578070 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
578084 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
578098 TGATTTG
1 TGATTTG
578105 ATTAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:578354 original size:20 final size:19
Alignment explanation
Indices: 578282--578382 Score: 86
Period size: 20 Copynumber: 5.5 Consensus size: 19
578272 GCGATTCTCT
* *
578282 CGTTGCGATTTTCATTTCA
1 CGTTGCGATATTCATTTCG
* *
578301 CATTGCGATAGTCATTTTCG
1 CGTTGCGATATTCA-TTTCG
578321 CGTTGCGATATTCATATTCG
1 CGTTGCGATATTCAT-TTCG
*
578341 CGTTGCG--A-T--TTTCA
1 CGTTGCGATATTCATTTCG
*
578355 CGTTGCGATTTTCATTTCG
1 CGTTGCGATATTCATTTCG
*
578374 CATTGCGAT
1 CGTTGCGAT
578383 TCTATCGTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
14 10 0.15
15 1 0.02
17 2 0.03
18 1 0.02
19 24 0.37
20 27 0.42
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.43
Consensus pattern (19 bp):
CGTTGCGATATTCATTTCG
Found at i:578360 original size:14 final size:14
Alignment explanation
Indices: 578341--578368 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
578331 TTCATATTCG
578341 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
578355 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
578369 TTTCGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:578380 original size:33 final size:33
Alignment explanation
Indices: 578264--578415 Score: 153
Period size: 33 Copynumber: 4.4 Consensus size: 33
578254 CGAAACTAAA
* *
578264 TTCGCGTTGCGATTCTCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTCTCACGTTGCGATTTTCAT
* * *
578297 TTCACATTGCGATAGTCATTTTCGCGTTGCGATATTCAT
1 TTCGCATTGCGAT--TC----TCACGTTGCGATTTTCAT
* *
578336 ATTCGCGTTGCGATTTTCACGTTGCGATTTTCAT
1 -TTCGCATTGCGATTCTCACGTTGCGATTTTCAT
578370 TTCGCATTGCGATTCT-ATCGTTGCGATTTTCAT
1 TTCGCATTGCGATTCTCA-CGTTGCGATTTTCAT
*
578403 TTCGTATTGCGAT
1 TTCGCATTGCGAT
578416 AGACATTAAG
Statistics
Matches: 99, Mismatches: 12, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
32 1 0.01
33 52 0.53
34 16 0.16
35 2 0.02
38 1 0.01
39 16 0.16
40 11 0.11
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (33 bp):
TTCGCATTGCGATTCTCACGTTGCGATTTTCAT
Found at i:580966 original size:24 final size:24
Alignment explanation
Indices: 580939--581004 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
580929 CAAAATTCGA
580939 GTATTGACCAAGATCAAAGTCCGG
1 GTATTGACCAAGATCAAAGTCCGG
580963 GTATTGACCAAGATCAAAGTCCGG
1 GTATTGACCAAGATCAAAGTCCGG
*
580987 GTATTGACCAATATCAAA
1 GTATTGACCAAGATCAAA
581005 TTTCGAATAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTCCGG
Found at i:581901 original size:19 final size:20
Alignment explanation
Indices: 581866--581934 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
581856 GAATCTCGTT
*
581866 GCGATTTAC-TAAATCGCAAC
1 GCGATTTACGT-ATTCGCAAC
***
581886 GCGA-TTACGTATTCGCGTT
1 GCGATTTACGTATTCGCAAC
**
581905 GCGATTTACGTATTCGCATT
1 GCGATTTACGTATTCGCAAC
581925 GCGATTTACG
1 GCGATTTACG
581935 GATACGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.31
20 29 0.69
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (20 bp):
GCGATTTACGTATTCGCAAC
Found at i:581907 original size:39 final size:40
Alignment explanation
Indices: 581862--581951 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 40
581852 GTCAGAATCT
* *
581862 CGTTGCGATTTAC-TAAATCGCAACGCGA-TTACGTATTCG
1 CGTTGCGATTTACGT-AATCGCAACGCGATTTACGGATACG
* **
581901 CGTTGCGATTTACGTATTCGCATTGCGATTTACGGATACG
1 CGTTGCGATTTACGTAATCGCAACGCGATTTACGGATACG
581941 CGTTGCGATTT
1 CGTTGCGATTT
581952 TACTTATTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
39 23 0.52
40 21 0.48
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (40 bp):
CGTTGCGATTTACGTAATCGCAACGCGATTTACGGATACG
Found at i:581915 original size:20 final size:20
Alignment explanation
Indices: 581886--582031 Score: 143
Period size: 20 Copynumber: 7.3 Consensus size: 20
581876 AAATCGCAAC
581886 GCGA-TTACGTATTCGCGTT
1 GCGATTTACGTATTCGCGTT
*
581905 GCGATTTACGTATTCGCATT
1 GCGATTTACGTATTCGCGTT
* *
581925 GCGATTTACGGATACGCGTT
1 GCGATTTACGTATTCGCGTT
*
581945 GCGATTTTACTTATT-GTCGTT
1 GCGA-TTTACGTATTCG-CGTT
* *
581966 GCGATTTACGAATACGCGTT
1 GCGATTTACGTATTCGCGTT
* **
581986 TCGATTTATATATTCGCGTT
1 GCGATTTACGTATTCGCGTT
* * * *
582006 GTGATTTTCATAATCGCGTT
1 GCGATTTACGTATTCGCGTT
582026 GCGATT
1 GCGATT
582032 CTGGGAACTG
Statistics
Matches: 102, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
19 4 0.04
20 82 0.80
21 16 0.16
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (20 bp):
GCGATTTACGTATTCGCGTT
Found at i:581945 original size:40 final size:39
Alignment explanation
Indices: 581862--582031 Score: 139
Period size: 40 Copynumber: 4.3 Consensus size: 39
581852 GTCAGAATCT
* ** * *
581862 CGTTGCGATTTACTAAATCGCAACGCGA-TTACGTATTCG
1 CGTTGCGATTTACT-ATTCGCATTGCGATTTACGAATACG
*
581901 CGTTGCGATTTACGTATTCGCATTGCGATTTACGGATACG
1 CGTTGCGATTTAC-TATTCGCATTGCGATTTACGAATACG
*
581941 CGTTGCGATTTTACTTATT-GTCGTTGCGATTTACGAATACG
1 CGTTGCGA-TTTAC-TATTCG-CATTGCGATTTACGAATACG
* * * * * *
581982 CGTTTCGATTTATATATTCGCGTTGTGATTTTCATAAT-CG
1 CGTTGCGATTTA-CTATTCGCATTGCGATTTAC-GAATACG
582022 CGTTGCGATT
1 CGTTGCGATT
582032 CTGGGAACTG
Statistics
Matches: 110, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
39 23 0.21
40 49 0.45
41 38 0.35
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (39 bp):
CGTTGCGATTTACTATTCGCATTGCGATTTACGAATACG
Found at i:582067 original size:20 final size:19
Alignment explanation
Indices: 582018--582071 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
582008 GATTTTCATA
582018 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
582037 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
582058 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
582072 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:582429 original size:21 final size:21
Alignment explanation
Indices: 582367--582484 Score: 116
Period size: 21 Copynumber: 5.7 Consensus size: 21
582357 ATTCTGACTA
* *
582367 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTACCTAAT
* *
582388 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCTAAT
*
582409 TCGCATTGCGATTTACGTAA-
1 TCGCATTGCGATTTACCTAAT
* * *
582429 TAGAATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCTAAT
*
582450 TCGCACTT-CGATTTACGTAA-
1 TCGCA-TTGCGATTTACCTAAT
*
582470 TCGCATTACGATTTA
1 TCGCATTGCGATTTA
582485 GTAAATCGCA
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.03
20 28 0.35
21 48 0.60
22 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTACCTAAT
Found at i:582437 original size:62 final size:60
Alignment explanation
Indices: 582371--582488 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 60
582361 TGACTATCGC
* * *
582371 ATTGCGATTTCCCAAATTCGC-GTTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATAGA
1 ATTGCGATTTCCCAAATTCGCACTT-CGATTTACCTAA-TCGCATTACGATTTA-GTAATAGA
* * *
582433 ATTGCGATTTTCCTAATTCGCACTTCGATTTACGTAATCGCATTACGATTTAGTAA
1 ATTGCGATTTCCCAAATTCGCACTTCGATTTACCTAATCGCATTACGATTTAGTAA
582489 ATCGCAACGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 4 0.08
61 14 0.29
62 29 0.59
63 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (60 bp):
ATTGCGATTTCCCAAATTCGCACTTCGATTTACCTAATCGCATTACGATTTAGTAATAGA
Found at i:582438 original size:41 final size:41
Alignment explanation
Indices: 582393--582470 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
582383 CAAATTCGCG
582393 TTGCGATTTTCCTAATTCGCA-TTGCGATTTACGTAATAGAA
1 TTGCGATTTTCCTAATTCGCACTT-CGATTTACGTAATAGAA
582434 TTGCGATTTTCCTAATTCGCACTTCGATTTACGTAAT
1 TTGCGATTTTCCTAATTCGCACTTCGATTTACGTAAT
582471 CGCATTACGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 34 0.94
42 2 0.06
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.41
Consensus pattern (41 bp):
TTGCGATTTTCCTAATTCGCACTTCGATTTACGTAATAGAA
Found at i:582449 original size:20 final size:20
Alignment explanation
Indices: 582393--582449 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
582383 CAAATTCGCG
* *
582393 TTGCGATTTTCCTAATTCGCA
1 TTGCGATTTTCCTAA-TAGAA
* *
582414 TTGCGATTTACGTAATAGAA
1 TTGCGATTTTCCTAATAGAA
582434 TTGCGATTTTCCTAAT
1 TTGCGATTTTCCTAAT
582450 TCGCACTTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.42
Consensus pattern (20 bp):
TTGCGATTTTCCTAATAGAA
Found at i:582482 original size:41 final size:41
Alignment explanation
Indices: 582396--582483 Score: 133
Period size: 41 Copynumber: 2.1 Consensus size: 41
582386 ATTCGCGTTG
*
582396 CGATTTTCCTAATTCGCATTGCGATTTACGTAATAGAATTG
1 CGATTTTCCTAATTCGCATTGCGATTTACGTAATAGAATTA
* *
582437 CGATTTTCCTAATTCGCACTT-CGATTTACGTAATCGCATTA
1 CGATTTTCCTAATTCGCA-TTGCGATTTACGTAATAGAATTA
582478 CGATTT
1 CGATTT
582484 AGTAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 41 0.95
42 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (41 bp):
CGATTTTCCTAATTCGCATTGCGATTTACGTAATAGAATTA
Found at i:583267 original size:24 final size:24
Alignment explanation
Indices: 583240--583305 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
583230 GTATTCGAAA
*
583240 TTTGATATTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
583264 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
583288 TTTGATCTTGGTCAATAC
1 TTTGATCTTGGTCAATAC
583306 TCGAATTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:583315 original size:24 final size:24
Alignment explanation
Indices: 583235--583317 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
583225 AGTCAGTATT
* *
583235 CGAAATTTGATATTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
*
583259 CGGACTTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
* *
583283 CGGACTTTGATCTTGGTCAATACT
1 CGAACTTTGATCTTGGTCAATACC
*
583307 CGAATTTTGAT
1 CGAACTTTGAT
583318 GATTTTTCAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:583526 original size:15 final size:14
Alignment explanation
Indices: 583508--583543 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
583498 GAAAAAGAAG
583508 AAGAAGAAATCCCCA
1 AAGAA-AAATCCCCA
*
583523 AAGAAAAGTCCCCA
1 AAGAAAAATCCCCA
583537 AAGAAAA
1 AAGAAAA
583544 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:585519 original size:20 final size:19
Alignment explanation
Indices: 585491--585545 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
585481 CAATCATCTT
*
585491 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
585511 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
585530 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
585546 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:585533 original size:19 final size:20
Alignment explanation
Indices: 585452--585545 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
585442 GGCATTCATT
*
585452 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* **
585472 TGACGT-TCGCAATCATC-TTAA
1 TGAC-TATCGCAA-C-GCGGAAA
*
585493 TGTCTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
*
585513 TGACTATCGCAATGC-GAAA
1 TGACTATCGCAACGCGGAAA
**
585532 TGAAAATCGCAACG
1 TGACTATCGCAACG
585546 AGAGAATCGC
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
19 16 0.28
20 27 0.47
21 13 0.23
22 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:585562 original size:33 final size:33
Alignment explanation
Indices: 585518--585611 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
585508 GGAAATGACT
*
585518 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATTGCAACGAGAGA
* *
585551 ATCGCATTGCGAAATGAAAATTGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATTGCAACGAGAGA
*
585584 ATCGCAAAGCGAAATGAAAATTGCAACG
1 ATCGCAATGCGAAATGAAAATTGCAACG
585612 CGAATTTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATTGCAACGAGAGA
Found at i:585664 original size:19 final size:19
Alignment explanation
Indices: 585640--585686 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
585630 GCGATTGTGT
585640 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
585659 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
585678 CATTGCGAT
1 CGTTGCGAT
585687 AGTCATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:585692 original size:19 final size:19
Alignment explanation
Indices: 585651--585694 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
585641 GTTGCGATTT
* **
585651 TCATTTCGCGTTGCGATTT
1 TCATTTCGCATTGCGATAG
585670 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
585689 TCATTT
1 TCATTT
585695 TTGCCTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:585812 original size:14 final size:14
Alignment explanation
Indices: 585793--585843 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
585783 TATCAATTAA
585793 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
585807 ACAAATCATCTTTT
1 ACAAATCAACTTTT
*
585821 ACAAATCATCTTTT
1 ACAAATCAACTTTT
585835 ACAAATCAA
1 ACAAATCAA
585844 TTAAACAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:587761 original size:19 final size:18
Alignment explanation
Indices: 587737--587816 Score: 68
Period size: 14 Copynumber: 4.8 Consensus size: 18
587727 AAAAATGACT
587737 ATCGCAACGCGAAACGAAA
1 ATCGCAACGCGAAA-GAAA
*
587756 ATCGCAA--CG--AGAGA
1 ATCGCAACGCGAAAGAAA
587770 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAA-GAAA
*
587789 ATCACAA--CG-AA-AAA
1 ATCGCAACGCGAAAGAAA
587803 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
587817 CTATAATCGC
Statistics
Matches: 49, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
14 19 0.39
15 1 0.02
16 6 0.12
17 6 0.12
18 1 0.02
19 16 0.33
ACGTcount: A:0.49, C:0.24, G:0.20, T:0.07
Consensus pattern (18 bp):
ATCGCAACGCGAAAGAAA
Found at i:587779 original size:33 final size:33
Alignment explanation
Indices: 587737--587826 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
587727 AAAAATGACT
* *
587737 ATCGCAACGCGAAACGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAACGAAAATCGCAACGAAAAA
* *
587770 ATCGCAACGCGAAATGAAAATCACAACGAAAAA
1 ATCGCAACGCGAAACGAAAATCGCAACGAAAAA
* *
587803 ATCGCAACGCGAAACTATAATCGC
1 ATCGCAACGCGAAACGAAAATCGC
587827 GTTGCGATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAACGAAAATCGCAACGAAAAA
Found at i:587908 original size:20 final size:20
Alignment explanation
Indices: 587853--587914 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
587843 TCGCGTTGCG
587853 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* *
587873 GTT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
587892 ATTCTCTCGTAGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
587912 ATT
1 ATT
587915 TCAACCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:588119 original size:94 final size:94
Alignment explanation
Indices: 588007--588476 Score: 772
Period size: 94 Copynumber: 5.1 Consensus size: 94
587997 ATGGATTGTA
* *
588007 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
588071 TTAGCAGAATTGGTAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * *
588100 TTACTTTCAACCAAAAGACAAAACAAAGATAAATACTAACTTCGCAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
588165 TTAGCAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
588194 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
588259 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
588288 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
588353 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
588382 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
588442 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
588472 TTACT
1 TTACT
588477 AAGCAATCTA
Statistics
Matches: 361, Mismatches: 13, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
90 41 0.11
93 23 0.06
94 297 0.82
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:590206 original size:39 final size:33
Alignment explanation
Indices: 590163--590250 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 33
590153 TCTTTTGGTT
590163 GAAATGAAAATCGCAACGCAGAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACG-AG--A-GA--ATCGCAACGC
* * *
590202 GAAATAAAAATCGAAATGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
590235 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
590251 TGCGATTATC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 24 0.55
35 2 0.05
36 1 0.02
38 2 0.05
39 15 0.34
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:590248 original size:19 final size:19
Alignment explanation
Indices: 590163--590255 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
590153 TCTTTTGGTT
590163 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
590182 AGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
* **
590202 GAAATAAAAATCG-AA-AT
1 GAAATGAAAATCGCAACGC
*
590219 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
590235 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
590254 GA
1 GA
590256 TTATCTCGTT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
14 6 0.11
15 3 0.05
16 1 0.02
17 1 0.02
18 3 0.05
19 24 0.44
20 17 0.31
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:590316 original size:14 final size:14
Alignment explanation
Indices: 590251--590313 Score: 99
Period size: 14 Copynumber: 4.5 Consensus size: 14
590241 AAAATCGCAA
590251 TGCGATTATCTCGT
1 TGCGATTATCTCGT
590265 TGCGATTATCTCGT
1 TGCGATTATCTCGT
*
590279 TGCGATTATCTCAT
1 TGCGATTATCTCGT
* *
590293 TGCGATTCTCTTGT
1 TGCGATTATCTCGT
590307 TGCGATT
1 TGCGATT
590314 CTCATTTCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 45 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (14 bp):
TGCGATTATCTCGT
Found at i:590337 original size:33 final size:34
Alignment explanation
Indices: 590292--590366 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
590282 GATTATCTCA
*
590292 TTGCGATTCTCTTGTTGCGATTCTCATTT-CGCG
1 TTGCGATTCTCTTGTTGCGATACTCATTTCCGCG
* *
590325 TTTCGATTCTCTTGTTGCGATAGTCATTTCCGCG
1 TTGCGATTCTCTTGTTGCGATACTCATTTCCGCG
590359 TTGCGATT
1 TTGCGATT
590367 TTCATTCTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 26 0.70
34 11 0.30
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (34 bp):
TTGCGATTCTCTTGTTGCGATACTCATTTCCGCG
Found at i:590799 original size:27 final size:27
Alignment explanation
Indices: 590768--590830 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
590758 GGGACTGAGT
590768 GTTGTGATTTTAGGTTTGAGGTTATGA
1 GTTGTGATTTTAGGTTTGAGGTTATGA
590795 GTTGTGATTTTAGGTTTGAGGTTATGA
1 GTTGTGATTTTAGGTTTGAGGTTATGA
*
590822 GTTGCGATT
1 GTTGTGATT
590831 ACTATGGACG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (27 bp):
GTTGTGATTTTAGGTTTGAGGTTATGA
Done.