Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007772.1 Hibiscus syriacus cultivar Beakdansim tig00110053_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: 1636317
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:785815 original size:106 final size:106
Alignment explanation
Indices: 785631--787224 Score: 2493
Period size: 106 Copynumber: 15.0 Consensus size: 106
785621 GCATTGTTCC
* * * * *
785631 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTAGCTCTGGAATCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
785696 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
785737 GAGTCCAATATCCTTTGTCGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
785802 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
785843 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
785908 CCAGAGGTCCCTTTGTCGTGAAGTTGAACTTGCATTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
785949 GAGTCCAATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTC-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
786013 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
786055 GAGTCCAATATCTTTCGCTGCG-G-AGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCG-T-CGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
*
786118 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
786161 GAGTCCAATATCCTTCG-CTGTGAAATTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTC-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
786225 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
786267 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
786332 CCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
786373 GAGTCCAATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTTGTTGAAA
1 GAGTCCAATATCCTTCGTC-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
786437 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
786479 GAGTCCAATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTC-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
786543 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
786585 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
786650 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
786691 GAGTCCAATATCCTTC-ACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGGCA
1 GAGTCCAATATCCTTCGTC-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
786755 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
786797 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
786862 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
786903 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
786968 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
787009 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGATAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
787074 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
787115 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * * *
787180 CCATCTGTCCCTTCGTTGTGAAGTTAAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
787221 GAGT
1 GAGT
787225 GGCACGATAT
Statistics
Matches: 1386, Mismatches: 89, Indels: 26
0.92 0.06 0.02
Matches are distributed among these distances:
103 1 0.00
104 1 0.00
105 2 0.00
106 1379 0.99
107 1 0.00
108 1 0.00
109 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:788731 original size:16 final size:16
Alignment explanation
Indices: 788682--788736 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 16
788672 TCCCTTTTTC
788682 TTTTTGATTTTTGTTCT
1 TTTTTG-TTTTTGTTCT
*
788699 TTTTTTTATTTTGTTCT
1 TTTTTGT-TTTTGTTCT
788716 TTTTTGTTTCTT-TTCT
1 TTTTTGTTT-TTGTTCT
788732 TTTTT
1 TTTTT
788737 ATGTTTGCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 12 0.35
17 22 0.65
ACGTcount: A:0.04, C:0.07, G:0.07, T:0.82
Consensus pattern (16 bp):
TTTTTGTTTTTGTTCT
Found at i:788741 original size:28 final size:27
Alignment explanation
Indices: 788689--788741 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
788679 TTCTTTTTGA
*
788689 TTTTTGTTCTTTTTTTTATTTTGTTCT
1 TTTTTGTTCTTTTTTTTATTATGTTCT
788716 TTTTTGTTTCTTTTCTTTT-TTATGTT
1 TTTTTG-TTCTTTT-TTTTATTATGTT
788742 TGCCCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 13 0.57
29 4 0.17
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.81
Consensus pattern (27 bp):
TTTTTGTTCTTTTTTTTATTATGTTCT
Found at i:793078 original size:19 final size:19
Alignment explanation
Indices: 793024--793078 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
793014 AACCAATAAT
*
793024 AATAAACATAAAA-CAATTG
1 AATAAA-ATAAAATAAATTG
* *
793043 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
793062 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
793079 GAAGAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
17 4 0.14
18 1 0.04
19 18 0.64
20 5 0.18
ACGTcount: A:0.65, C:0.04, G:0.09, T:0.22
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:793209 original size:21 final size:21
Alignment explanation
Indices: 793164--793230 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
793154 CAAAGAAATT
793164 AAAAATAT-AATGAAAAATAAATA
1 AAAAATATAAAT--AAAAT-AATA
* *
793187 AATAGTATAAATAAAATAATA
1 AAAAATATAAATAAAATAATA
*
793208 AAAAATATATATAAAAT-ATA
1 AAAAATATAAATAAAATAATA
793228 AAA
1 AAA
793231 TGTATGTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
20 6 0.16
21 18 0.47
22 5 0.13
23 6 0.16
24 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (21 bp):
AAAAATATAAATAAAATAATA
Found at i:793230 original size:18 final size:18
Alignment explanation
Indices: 793204--793246 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
793194 TAAATAAAAT
*
793204 AATAAAAAATATATATAA
1 AATATAAAATATATATAA
* * *
793222 AATATAAAATGTATGTAT
1 AATATAAAATATATATAA
793240 AATATAA
1 AATATAA
793247 TAAAATACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
AATATAAAATATATATAA
Found at i:793240 original size:20 final size:21
Alignment explanation
Indices: 793165--793399 Score: 84
Period size: 22 Copynumber: 11.1 Consensus size: 21
793155 AAAGAAATTA
793165 AAAATATA-ATGA-AAAATAA-
1 AAAATATATAT-ATAAAATAAT
*
793184 ATAAATAGTATAAATAAAATAAT
1 A-AAATA-TATATATAAAATAAT
*
793207 AAAAAATATATATAAAAT-AT
1 AAAATATATATATAAAATAAT
* * *
793227 AAAATGTATGTATAATATAAT
1 AAAATATATATATAAAATAAT
*
793248 AAAATACTAAATAGTAATAATAAT
1 AAAATA-TATATA-TAA-AATAAT
*
793272 AATAA-ATAAATGA-AAAATAAAT
1 AA-AATATATAT-ATAAAAT-AAT
* * * *
793294 ATACATATA-ATATTAACTAAA
1 A-AAATATATATATAAAATAAT
793315 AAAATAGTA-ATCATAGAAAT-AT
1 AAAATA-TATAT-ATA-AAATAAT
* *
793337 AAAATA-A-A-ATAAAGTAAG
1 AAAATATATATATAAAATAAT
* *
793355 AATATATATATATATATATATAT
1 AAAATATATATATA-AAATA-AT
*
793378 ATAATA-ATA-ATAATAATAAT
1 AAAATATATATATAA-AATAAT
793398 AA
1 AA
793400 TAGGAAAATA
Statistics
Matches: 162, Mismatches: 29, Indels: 49
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.02
18 9 0.06
19 2 0.01
20 32 0.20
21 41 0.25
22 43 0.27
23 21 0.13
24 9 0.06
25 2 0.01
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (21 bp):
AAAATATATATATAAAATAAT
Found at i:793271 original size:6 final size:6
Alignment explanation
Indices: 793238--793401 Score: 53
Period size: 6 Copynumber: 27.0 Consensus size: 6
793228 AAATGTATGT
* * *
793238 ATAAT- ATAATA A-AATA CTAAATA GTAATA ATAATA ATAAATAA ATGAAAA
1 ATAATA ATAATA ATAATA AT-AATA ATAATA ATAATA AT-AAT-A AT-AATA
* * * *
793288 ATAA-A TATACAT- ATAATA TTAACTA A-AAAA ATAGTA ATCATA GA-AAT-
1 ATAATA -ATA-ATA ATAATA ATAA-TA ATAATA ATAATA ATAATA -ATAATA
* *
793335 ATAA-A ATAA-A ATAA-A GTAAGA AT-ATA TATATATA TATATATA TATAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA -ATA-ATA -ATA-ATA -ATAATA
793384 ATAATA ATAATA ATAATA
1 ATAATA ATAATA ATAATA
793402 GGAAAATAAT
Statistics
Matches: 125, Mismatches: 16, Indels: 35
0.71 0.09 0.20
Matches are distributed among these distances:
4 1 0.01
5 31 0.25
6 55 0.44
7 18 0.14
8 20 0.16
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (6 bp):
ATAATA
Found at i:793363 original size:2 final size:2
Alignment explanation
Indices: 793356--793380 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
793346 TAAAGTAAGA
793356 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
793381 ATAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:793464 original size:23 final size:23
Alignment explanation
Indices: 793430--793493 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
793420 ACGCAAAGAA
793430 AAATGAAA-AAAATTATAA-TAAAT
1 AAAT-AAATAAAA-TATAATTAAAT
793453 AAATAAATAAAATATAATTAAAT
1 AAATAAATAAAATATAATTAAAT
* *
793476 ATATACATATAAATATAA
1 AAATAAATA-AAATATAA
793494 GGGTTAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 8 0.22
23 20 0.56
24 8 0.22
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATAAATAAAATATAATTAAAT
Found at i:793469 original size:19 final size:18
Alignment explanation
Indices: 793447--793490 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
793437 AAAAATTATA
793447 ATAAATAAATAAATAAAAT
1 ATAAATAAATAAAT-AAAT
* * *
793466 ATAATTAAATATATACAT
1 ATAAATAAATAAATAAAT
793484 ATAAATA
1 ATAAATA
793491 TAAGGGTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAAATAAATAAAT
Found at i:793983 original size:37 final size:37
Alignment explanation
Indices: 793886--793983 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
793876 ATGCTTGTGG
* * * * *
793886 ATCATATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCATATTTTTAGGAGTTTGAATCATAGCAAAACTCT
* *
793923 ATCATATTTTTAGGAGTTCGAATCATAGCAAAATTCT
1 ATCATATTTTTAGGAGTTTGAATCATAGCAAAACTCT
*
793960 ATCCTATTTTTAGGAGTTTGAATC
1 ATCATATTTTTAGGAGTTTGAATC
793984 CTAGTAGGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCATAGCAAAACTCT
Found at i:799484 original size:28 final size:28
Alignment explanation
Indices: 799395--799484 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
799385 ATGCGTCTTG
* *
799395 ATTTTGCATGAGATTATATCCTCATCTT
1 ATTTTGCATGAGATTATATCCTTATCCT
* *
799423 GATTCTGCATGAGAATATAT--TTATTCCT
1 -ATTTTGCATGAGATTATATCCTTA-TCCT
* *
799451 ATTTTTGCATGAGGTTATATCCTTGTCCT
1 A-TTTTGCATGAGATTATATCCTTATCCT
799480 ATTTT
1 ATTTT
799485 TTTTTGGGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
27 3 0.06
28 22 0.45
29 22 0.45
30 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (28 bp):
ATTTTGCATGAGATTATATCCTTATCCT
Found at i:800181 original size:21 final size:22
Alignment explanation
Indices: 800157--800198 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
800147 TCAAAAGGGT
*
800157 AATTT-CAAAAGTTTGGTGTTC
1 AATTTCCAAAAGTTAGGTGTTC
800178 AATTTCCAAAAGTTAGGTGTT
1 AATTTCCAAAAGTTAGGTGTT
800199 TTTACCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (22 bp):
AATTTCCAAAAGTTAGGTGTTC
Found at i:803058 original size:21 final size:22
Alignment explanation
Indices: 803014--803058 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
803004 TATATTTTAT
*
803014 TATATTTTTAAAAATTAAAGAA
1 TATATTTTTAAAAATTAAAAAA
803036 TATA-TTTT-AAAATTATAAAAA
1 TATATTTTTAAAAATTA-AAAAA
803057 TA
1 TA
803059 AAAAGATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 10 0.48
22 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TATATTTTTAAAAATTAAAAAA
Found at i:809958 original size:41 final size:40
Alignment explanation
Indices: 809889--809970 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 40
809879 CTATCTTATG
*
809889 GTTAAAATGTAAAATCCCCACTGTTTCCCTTCTTCAATTC
1 GTTAAAATGTAAAACCCCCACTGTTTCCCTTCTTCAATTC
*
809929 GTTAAAATGTAAAACCCCCCACTGTTTCCCTTCTTTAATTC
1 GTTAAAATGTAAAA-CCCCCACTGTTTCCCTTCTTCAATTC
809970 G
1 G
809971 GAATAATAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 14 0.36
41 25 0.64
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.37
Consensus pattern (40 bp):
GTTAAAATGTAAAACCCCCACTGTTTCCCTTCTTCAATTC
Found at i:813870 original size:19 final size:19
Alignment explanation
Indices: 813828--813880 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
813818 TTTCAAAGTG
*
813828 ATGCACCGATGCACCAATCC
1 ATGCATCGATGCA-CAATCC
813848 ATGCATCGATGCAC-ATACC
1 ATGCATCGATGCACAAT-CC
813867 ATGCATCGATGCAC
1 ATGCATCGATGCAC
813881 TCATGCTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 2 0.06
19 17 0.55
20 12 0.39
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (19 bp):
ATGCATCGATGCACAATCC
Found at i:818357 original size:21 final size:22
Alignment explanation
Indices: 818340--818386 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
818330 TAAAATTTCC
*
818340 AAATTATGTTCTTAAATTGACA
1 AAATCATGTTCTTAAATTGACA
818362 AAATCATGTTCTTAAATTGACA
1 AAATCATGTTCTTAAATTGACA
818384 AAA
1 AAA
818387 GCACTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (22 bp):
AAATCATGTTCTTAAATTGACA
Found at i:821364 original size:21 final size:21
Alignment explanation
Indices: 821322--821364 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
821312 ACCCCGGGAG
*
821322 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
821343 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
821364 C
1 C
821365 GGCACCGACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.42, G:0.16, T:0.33
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:826902 original size:41 final size:41
Alignment explanation
Indices: 826826--826909 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
826816 AGTTTGTTTG
* *
826826 AATGTTTTATATTCTGGTTTACATCATATTCAATTTTAATT
1 AATGTCTTATATTCTGATTTACATCATATTCAATTTTAATT
* * *
826867 AATGTCTTATAATT-TGATTTAGATCGTATTTAATTTTAATT
1 AATGTCTTAT-ATTCTGATTTACATCATATTCAATTTTAATT
826908 AA
1 AA
826910 ATTTCAATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 34 0.92
42 3 0.08
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.52
Consensus pattern (41 bp):
AATGTCTTATATTCTGATTTACATCATATTCAATTTTAATT
Found at i:827458 original size:15 final size:15
Alignment explanation
Indices: 827431--827469 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
827421 TATTAAAACG
827431 AATTAATTT-ATTATC
1 AATT-ATTTAATTATC
*
827446 AATTATTTAATTATT
1 AATTATTTAATTATC
827461 AATTATTTA
1 AATTATTTA
827470 TATATAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTATTTAATTATC
Found at i:827835 original size:20 final size:20
Alignment explanation
Indices: 827812--827924 Score: 151
Period size: 20 Copynumber: 5.7 Consensus size: 20
827802 GATTTTGACT
827812 ATCGCATTGCGATTACGTAA
1 ATCGCATTGCGATTACGTAA
* *
827832 ATCGCAATGCGAATTA-GGAA
1 ATCGCATTGCG-ATTACGTAA
*
827852 ATCGCAATGCGATTACGTAA
1 ATCGCATTGCGATTACGTAA
827872 ATCGCATTGCGATTACGT-A
1 ATCGCATTGCGATTACGTAA
*
827891 TTCGCATTGCGATTTACGT-A
1 ATCGCATTGCGA-TTACGTAA
827911 ATCGCATTGCGATT
1 ATCGCATTGCGATT
827925 TACATAGCGC
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
19 18 0.21
20 62 0.74
21 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (20 bp):
ATCGCATTGCGATTACGTAA
Found at i:827837 original size:40 final size:40
Alignment explanation
Indices: 827793--827925 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
827783 GATTCCAGAT
*
827793 TCGCAACGCGATTTTGACTATCGCATTGCGATTACGTAAA
1 TCGCAATGCGATTTTGACTATCGCATTGCGATTACGTAAA
** * *
827833 TCGCAATGCGAATTAGGA-AATCGCAATGCGATTACGTAAA
1 TCGCAATGCG-ATTTTGACTATCGCATTGCGATTACGTAAA
*
827873 TCGCATTGCGA--TT-ACGTATTCGCATTGCGATTTACGT-AA
1 TCGCAATGCGATTTTGAC-TA-TCGCATTGCGA-TTACGTAAA
*
827912 TCGCATTGCGATTT
1 TCGCAATGCGATTT
827926 ACATAGCGCC
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
36 1 0.01
38 1 0.01
39 24 0.32
40 44 0.58
41 6 0.08
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (40 bp):
TCGCAATGCGATTTTGACTATCGCATTGCGATTACGTAAA
Found at i:827857 original size:60 final size:59
Alignment explanation
Indices: 827812--827925 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
827802 GATTTTGACT
* *
827812 ATCGCATTGCGATTACGTAAATCGCAATGCGAATTAGGAAATCGCAATGCGATTACGTAA
1 ATCGCATTGCGATTACGT-AATCGCAATGCGAATTACGAAATCGCAATGCGATTTCGTAA
* * * * *
827872 ATCGCATTGCGATTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGATTT
1 ATCGCATTGCGATTACGTAATCGCAATGCGAATTACGAAATCGCAATGCGATTT
827926 ACATAGCGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 29 0.62
60 18 0.38
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (59 bp):
ATCGCATTGCGATTACGTAATCGCAATGCGAATTACGAAATCGCAATGCGATTTCGTAA
Found at i:827938 original size:20 final size:20
Alignment explanation
Indices: 827874--827934 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
827864 TTACGTAAAT
* **
827874 CGCATTGCGA-TTACGTATT
1 CGCATTGCGATTTACATAAG
* *
827893 CGCATTGCGATTTACGTAAT
1 CGCATTGCGATTTACATAAG
827913 CGCATTGCGATTTACAT-AG
1 CGCATTGCGATTTACATAAG
827932 CGC
1 CGC
827935 CATTCGTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 14 0.37
20 24 0.63
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
CGCATTGCGATTTACATAAG
Found at i:828518 original size:21 final size:21
Alignment explanation
Indices: 828457--828530 Score: 91
Period size: 20 Copynumber: 3.6 Consensus size: 21
828447 TTCTAAACTT
*
828457 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGACGAAAATG
828477 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGACGAAAATG
**
828497 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAACGACGA-AAATG
828518 AAAATCGCAACGA
1 AAAATCGCAACGA
828531 TATAATCGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
20 30 0.64
21 17 0.36
ACGTcount: A:0.51, C:0.19, G:0.18, T:0.12
Consensus pattern (21 bp):
AAAATCGCAACGACGAAAATG
Found at i:828602 original size:33 final size:33
Alignment explanation
Indices: 828560--828653 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
828550 CAAAATCGCA
828560 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
828593 TTGCGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
828626 TTGCGATAGTCATTTCCGCGTTGCGATT
1 TTGCGATTTTCATTT-CGCGTTGCGATT
828654 TTCATTCTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
33 44 0.79
34 12 0.21
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:828658 original size:20 final size:19
Alignment explanation
Indices: 828555--828681 Score: 85
Period size: 20 Copynumber: 7.1 Consensus size: 19
828545 GAAACCAAAA
*
828555 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
828574 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
828588 TCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
828607 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
828621 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
828640 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
* * *
828660 CTCTCTTTACGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
828680 TC
1 TC
828682 AACCAAAAGA
Statistics
Matches: 83, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
14 20 0.24
16 4 0.05
17 5 0.06
19 23 0.28
20 30 0.36
21 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:830615 original size:93 final size:94
Alignment explanation
Indices: 830369--830834 Score: 734
Period size: 94 Copynumber: 5.1 Consensus size: 94
830359 TAGATTGCTT
* * *
830369 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
830430 ATTT-TCTTT-TGTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
830456 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
830521 ATTTGTCTTTGTTTTGTCTTTTTGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
830550 AGTAAATTTGTTCGGTTGCTGCCAATTTTGCTAAACTGTGTATTC-TTAACACTGTGATGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
830614 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
830643 AGTAAATTTGTTCGGTTGTTGCCAATTCTGCTAAACTGTGTATTCTTTAACAATGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
830708 ATTTGTCTTTGTTTTGTCCTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
830737 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTATGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
830802 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
830830 AGTAA
1 AGTAA
830835 TACAATCCAT
Statistics
Matches: 351, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
87 35 0.10
89 3 0.01
90 2 0.01
91 23 0.07
92 5 0.01
93 109 0.31
94 174 0.50
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:830679 original size:187 final size:185
Alignment explanation
Indices: 830369--830834 Score: 742
Period size: 187 Copynumber: 2.5 Consensus size: 185
830359 TAGATTGCTT
* * *
830369 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC-TGT-TTATTAACACTGTGAAGTTAGTAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTGTATTCTTAACACTGTGAAGTTAGTAT
*
830432 TT-TCTTT-TGTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGT
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGT
* * *
830495 GTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTTGTTGAA
131 GTATTCTTTAACAATGTGAAGTTAGTATTTGTCTTTGTTTTGTCCTTTGGTTGAA
* *
830550 AGTAAATTTGTTCGGTTGCTGCCAATTTTGCTAAACTGTGTATTCTTAACACTGTGATGTTAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT-TGTATTCTTAACACTGTGAAGTTAGTA
* *
830615 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGTTGCCAATTCTGCTAAACT
65 TTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACT
830680 GTGTATTCTTTAACAATGTGAAGTTAGTATTTGTCTTTGTTTTGTCCTTTGGTTGAA
129 GTGTATTCTTTAACAATGTGAAGTTAGTATTTGTCTTTGTTTTGTCCTTTGGTTGAA
* * *
830737 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTATGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT-TGTATTC-TTAACACTGTGAAGTTAGT
830802 ATTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAA
64 ATTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAA
830835 TACAATCCAT
Statistics
Matches: 261, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
181 33 0.13
183 3 0.01
184 24 0.09
185 5 0.02
186 15 0.06
187 138 0.53
188 43 0.16
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.47
Consensus pattern (185 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTGTATTCTTAACACTGTGAAGTTAGTAT
TTGTCTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGT
GTATTCTTTAACAATGTGAAGTTAGTATTTGTCTTTGTTTTGTCCTTTGGTTGAA
Found at i:830972 original size:39 final size:38
Alignment explanation
Indices: 830924--831034 Score: 132
Period size: 39 Copynumber: 2.9 Consensus size: 38
830914 TCTTTTGGTT
* **
830924 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGAGA-AACAAAAATCGCAACGC
*
830963 GAAACGAAAATCGCAACGCGAAACAAAAATCGCAACGC
1 GAAACGAAAATCGCAACGAGAAACAAAAATCGCAACGC
* * * *
831001 GAAACCAAAAATCGCAACGCGAAACTATAATCGC
1 GAAA-CGAAAATCGCAACGAGAAACAAAAATCGC
831035 GTTGCGATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
38 19 0.30
39 45 0.70
ACGTcount: A:0.49, C:0.23, G:0.19, T:0.09
Consensus pattern (38 bp):
GAAACGAAAATCGCAACGAGAAACAAAAATCGCAACGC
Found at i:830973 original size:19 final size:19
Alignment explanation
Indices: 830924--831025 Score: 141
Period size: 19 Copynumber: 5.3 Consensus size: 19
830914 TCTTTTGGTT
* *
830924 GAAATGAAAATCGCAACGA
1 GAAACGAAAATCGCAACGC
*
830943 GAGAATGAAAATCGCAACGC
1 GA-AACGAAAATCGCAACGC
830963 GAAACGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
*
830982 GAAACAAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
*
831001 GAAACCAAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGC
831021 GAAAC
1 GAAAC
831026 TATAATCGCG
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
19 41 0.53
20 37 0.47
ACGTcount: A:0.50, C:0.24, G:0.20, T:0.07
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:831076 original size:33 final size:33
Alignment explanation
Indices: 831034--831166 Score: 124
Period size: 33 Copynumber: 3.8 Consensus size: 33
831024 ACTATAATCG
831034 CGTTGCGATTTTCATTCCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTCCGCATTGCGATTCTCT
** *
831067 CGTTGCGATTTTCATTTTGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTCCGCATTGCGATTCTCT
* **
831100 CGTTGCAATTTTTGTTTCGCGTTGCGATTGTC-ATTCTCT
1 CGTTGCGA-TTTTCATTC-C---GC-ATTG-CGATTCTCT
* *
831139 CGTTGCGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTCCGCATTGCGAT
831167 AGTCATTTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
32 1 0.01
33 42 0.54
34 8 0.10
37 1 0.01
38 8 0.10
39 17 0.22
40 1 0.01
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTCCGCATTGCGATTCTCT
Found at i:831091 original size:19 final size:19
Alignment explanation
Indices: 831067--831190 Score: 80
Period size: 19 Copynumber: 6.6 Consensus size: 19
831057 GCGATTCTCT
831067 CGTTGCGATTTTCATTTTG
1 CGTTGCGATTTTCATTTTG
*
831086 CGTTGCGA--TTC--TCT-
1 CGTTGCGATTTTCATTTTG
* ** *
831100 CGTTGCAATTTTTGTTTCG
1 CGTTGCGATTTTCATTTTG
*
831119 CGTTGCGATTGTCATTCTCT-
1 CGTTGCGATTTTCATT-T-TG
*
831139 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTTG
** *
831158 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA-TTTT-G
831179 CGTTGCGATTTT
1 CGTTGCGATTTT
831191 AAGTTCCAGA
Statistics
Matches: 77, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
14 7 0.09
15 2 0.03
16 2 0.03
17 3 0.04
18 1 0.01
19 33 0.43
20 19 0.25
21 10 0.13
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.48
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTTG
Found at i:831136 original size:39 final size:39
Alignment explanation
Indices: 831060--831173 Score: 132
Period size: 39 Copynumber: 3.1 Consensus size: 39
831050 CCGCATTGCG
* *
831060 ATTCTCTCGTTGCGATTTTCATTTTGCGTTGC----G--
1 ATTCTCTCGTTGCAATTTTCATTTCGCGTTGCGATAGTC
** *
831093 ATTCTCTCGTTGCAATTTTTGTTTCGCGTTGCGATTGTC
1 ATTCTCTCGTTGCAATTTTCATTTCGCGTTGCGATAGTC
*
831132 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCAATTTTCATTTCGCGTTGCGATAGTC
831171 ATT
1 ATT
831174 TTTCACGTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
33 28 0.42
37 1 0.01
39 38 0.57
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.47
Consensus pattern (39 bp):
ATTCTCTCGTTGCAATTTTCATTTCGCGTTGCGATAGTC
Found at i:831144 original size:20 final size:19
Alignment explanation
Indices: 831114--831188 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
831104 GCAATTTTTG
*
831114 TTTCGCGTTGCGATTGTCA
1 TTTCACGTTGCGATTGTCA
* *
831133 TTCTCTCGTTGCGATTTTCA
1 TT-TCACGTTGCGATTGTCA
* *
831153 TTTCGCGTTGCGATAGTCA
1 TTTCACGTTGCGATTGTCA
831172 TTTTTCACGTTGCGATT
1 --TTTCACGTTGCGATT
831189 TTAAGTTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 16 0.35
20 17 0.37
21 13 0.28
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
TTTCACGTTGCGATTGTCA
Found at i:831666 original size:21 final size:21
Alignment explanation
Indices: 831642--831708 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
831632 TCATTCCTCG
831642 AGAGTCCCTTCCCACCGTTCA
1 AGAGTCCCTTCCCACCGTTCA
* * *
831663 AGAGGCCACTGT--CATCGTTGA
1 AGAGTCC-CT-TCCCACCGTTCA
*
831684 AGAGGTCCC-TCCCACCATTCA
1 AGA-GTCCCTTCCCACCGTTCA
831705 AGAG
1 AGAG
831709 CCCGATTCAC
Statistics
Matches: 34, Mismatches: 7, Indels: 11
0.65 0.13 0.21
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 26 0.76
22 5 0.15
23 1 0.03
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (21 bp):
AGAGTCCCTTCCCACCGTTCA
Found at i:831668 original size:42 final size:42
Alignment explanation
Indices: 831615--831708 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
831605 TCCACTCTAT
* *
831615 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCTTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGTCCC-TCCCAC
* * *
831657 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
*
831699 CATTCAAGAG
1 CGTTCAAGAG
831709 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 35 0.80
43 5 0.11
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.22
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:832305 original size:14 final size:14
Alignment explanation
Indices: 832286--832321 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
832276 ATTGTTTAAT
832286 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
832300 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
832314 TGATTTGT
1 TGATTTGT
832322 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:832444 original size:19 final size:17
Alignment explanation
Indices: 832428--832507 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 17
832418 AAAAATGACT
832428 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
832447 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
832461 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
832480 ATCGCAA--CGAAA-AA
1 ATCGCAATGCGAAATGA
*
832494 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
832508 CTAAATTCAC
Statistics
Matches: 51, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
14 16 0.31
16 10 0.20
17 10 0.20
19 15 0.29
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.11
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:832470 original size:33 final size:33
Alignment explanation
Indices: 832428--832507 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
832418 AAAAATGACT
* *
832428 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
832461 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
*
832494 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
832508 CTAAATTCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
Found at i:832560 original size:33 final size:33
Alignment explanation
Indices: 832517--832643 Score: 191
Period size: 33 Copynumber: 3.8 Consensus size: 33
832507 ACTAAATTCA
*
832517 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
832550 CGTTGTGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* **
832583 CGTTGCGATTTTCATTTCGCATTGCAATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
832616 CATTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
832644 AGTCATTTCC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:832640 original size:19 final size:19
Alignment explanation
Indices: 832585--832664 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 19
832575 GATTCCCTCG
*
832585 TTGCGATTTTCATTTCGCA
1 TTGCGATATTCATTTCGCA
*
832604 TTGC-A-ATT-A--TCTCA
1 TTGCGATATTCATTTCGCA
*
832618 TTGCGATTTTCATTTCGCA
1 TTGCGATATTCATTTCGCA
* *
832637 TTGCGATAGTCATTTCCGCG
1 TTGCGATATTCATTT-CGCA
832657 TTGCGATA
1 TTGCGATA
832665 GACATTAAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
14 8 0.17
15 1 0.02
16 3 0.06
17 3 0.06
18 1 0.02
19 21 0.44
20 11 0.23
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (19 bp):
TTGCGATATTCATTTCGCA
Found at i:832662 original size:20 final size:20
Alignment explanation
Indices: 832627--832709 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
832617 ATTGCGATTT
*
832627 TCATTT-CGCATTGCGATAG
1 TCATTTCCGCGTTGCGATAG
832646 TCATTTCCGCGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
* ** *
832666 ACA-TTAAGATGATTGCGA-ACG
1 TCATTTCCG-CG-TTGCGATA-G
*
832687 TCATTTCCGTGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
832707 TCA
1 TCA
832710 AATGAATGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.18
20 26 0.52
21 12 0.24
22 3 0.06
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATAG
Found at i:835211 original size:24 final size:24
Alignment explanation
Indices: 835177--835230 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
835167 CTGAAAAATC
835177 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
835201 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
835225 ATCAAA
1 ATCAAA
835231 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:835244 original size:24 final size:24
Alignment explanation
Indices: 835177--835244 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
835167 CTGAAAAATC
* * *
835177 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
835201 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
835225 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
835245 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:836116 original size:20 final size:20
Alignment explanation
Indices: 836093--836219 Score: 98
Period size: 20 Copynumber: 6.3 Consensus size: 20
836083 AGATTCTCGT
836093 TGCGATTTACTAAATCGCAA
1 TGCGATTTACTAAATCGCAA
836113 TGCGA-TTACGTAAATCGCAA
1 TGCGATTTAC-TAAATCGCAA
* *
836133 TGCGA-ATACGT-AATCGCAT
1 TGCGATTTAC-TAAATCGCAA
* * *
836152 TGCGATTTCCTAATTCGCAT
1 TGCGATTTACTAAATCGCAA
**
836172 TGCGATTTAGGAAAATCGCAA
1 TGCGATTTA-CTAAATCGCAA
* ***
836193 CGCGAATTTGGGAAATCGCAA
1 TGCG-ATTTACTAAATCGCAA
836214 TGCGAT
1 TGCGAT
836220 AGTCAGAATC
Statistics
Matches: 88, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
19 17 0.19
20 44 0.50
21 23 0.26
22 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCGATTTACTAAATCGCAA
Found at i:836206 original size:22 final size:21
Alignment explanation
Indices: 836176--836218 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
836166 TCGCATTGCG
836176 ATTTAGGAAAATCGCAACGCGA
1 ATTTAGG-AAATCGCAACGCGA
* *
836198 ATTTGGGAAATCGCAATGCGA
1 ATTTAGGAAATCGCAACGCGA
836219 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (21 bp):
ATTTAGGAAATCGCAACGCGA
Found at i:841341 original size:148 final size:148
Alignment explanation
Indices: 841109--841398 Score: 528
Period size: 148 Copynumber: 2.0 Consensus size: 148
841099 TACTAAATTC
841109 AGTTTATAAAATAGTTGACTCTAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGAA
1 AGTTTATAAAATAGTTGACTCTAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGAA
* *
841174 TTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTAT
66 TTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
841239 TTGATTCTAATTCAGTTT
131 TTGATTCTAATTCAGTTT
841257 AGTTTATAAAATAGTTGACT-TGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGA
1 AGTTTATAAAATAGTTGACTCT-AAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGA
* *
841321 ATTGAATTGAATTTTTGAGTTTTTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTA
65 ATTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTA
841386 TTTGATTCTAATT
130 TTTGATTCTAATT
841399 TAAATAGTTT
Statistics
Matches: 137, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
147 1 0.01
148 136 0.99
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (148 bp):
AGTTTATAAAATAGTTGACTCTAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGAA
TTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
TTGATTCTAATTCAGTTT
Found at i:841938 original size:35 final size:35
Alignment explanation
Indices: 841899--841975 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
841889 GTTGGCCATG
*
841899 TAATTGAAGA-ATTTTGGAATTT-GAGGTTTAGAATA
1 TAATTGAA-ACATTTTAGAATTTAG-GGTTTAGAATA
*
841934 TAATTGAAACATTTTAGAATTTAGGGTTTAGAATG
1 TAATTGAAACATTTTAGAATTTAGGGTTTAGAATA
841969 TAATTGA
1 TAATTGA
841976 TAACTGTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 1 0.03
35 36 0.95
36 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.40
Consensus pattern (35 bp):
TAATTGAAACATTTTAGAATTTAGGGTTTAGAATA
Found at i:843009 original size:18 final size:18
Alignment explanation
Indices: 842986--843038 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
842976 TGACCAGTCA
842986 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
843004 CGACCCGACCCATTGACC
1 CGACCCGACCCGTTGACC
*
843022 CGACCCGA-TCGTTGACC
1 CGACCCGACCCGTTGACC
843039 GTTGACCGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 7 0.22
18 25 0.78
ACGTcount: A:0.19, C:0.47, G:0.21, T:0.13
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:843135 original size:29 final size:29
Alignment explanation
Indices: 843074--843141 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
843064 ATTCGGTTTT
* * **
843074 GGTGCTATTATGGTAATTAATTGGAAATG
1 GGTGCTATTTTGGTAATTAATTGAAAAAA
* *
843103 GGTGCTATTTTGGTAATTATTTTAAAAAA
1 GGTGCTATTTTGGTAATTAATTGAAAAAA
843132 GGTGCTATTT
1 GGTGCTATTT
843142 GTGTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTGAAAAAA
Found at i:847459 original size:18 final size:18
Alignment explanation
Indices: 847438--847479 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
847428 AGTTTGATTA
*
847438 AAAGTAGGGAAATTTATT
1 AAAGTAGAGAAATTTATT
* *
847456 AAAGTAGAGTATTTTATT
1 AAAGTAGAGAAATTTATT
847474 AAAGTA
1 AAAGTA
847480 CTTTTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (18 bp):
AAAGTAGAGAAATTTATT
Found at i:847490 original size:14 final size:16
Alignment explanation
Indices: 847450--847499 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 16
847440 AGTAGGGAAA
*
847450 TTTATTAAAGTAGAGTAT
1 TTTATTAAAGTA-ACT-T
847468 TTTATTAAAGT-ACTT
1 TTTATTAAAGTAACTT
847483 TTTA-TAAAGTAACTT
1 TTTATTAAAGTAACTT
847498 TT
1 TT
847500 ACTTTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 6 0.20
15 11 0.37
16 2 0.07
18 11 0.37
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (16 bp):
TTTATTAAAGTAACTT
Found at i:851427 original size:18 final size:18
Alignment explanation
Indices: 851398--851443 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
851388 TCCTAGTTTG
851398 ATTAATAGTAGAAAACTTT
1 ATTAA-AGTAGAAAACTTT
*
851417 ATTAAAGTAGAATACTTT
1 ATTAAAGTAGAAAACTTT
851435 ATTAAAGTA
1 ATTAAAGTA
851444 CTTTTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (18 bp):
ATTAAAGTAGAAAACTTT
Found at i:852884 original size:20 final size:19
Alignment explanation
Indices: 852846--852884 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
852836 TGCGTTTTCT
*
852846 TTTTTTTTAAATTATATAA
1 TTTTTTTTAAATTAAATAA
*
852865 TTTTTTTTAATTTTAAATAA
1 TTTTTTTTAA-ATTAAATAA
852885 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTTTAAATTAAATAA
Found at i:853902 original size:2 final size:2
Alignment explanation
Indices: 853895--853924 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
853885 AATTGTGATC
853895 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
853925 AGGGTTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:855501 original size:16 final size:16
Alignment explanation
Indices: 855480--855511 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
855470 ATTTTTTTAT
*
855480 ATGATTTCTTTATATC
1 ATGATTTCTCTATATC
855496 ATGATTTCTCTATATC
1 ATGATTTCTCTATATC
855512 CCCGTGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.06, T:0.53
Consensus pattern (16 bp):
ATGATTTCTCTATATC
Found at i:856373 original size:32 final size:31
Alignment explanation
Indices: 856256--856379 Score: 126
Period size: 31 Copynumber: 4.0 Consensus size: 31
856246 CCTCGGCAAC
* * * * *
856256 TGTCCATAGGTCCCGAAGAACCTAGGTAAAC
1 TGTCCATATGTTCCGTAGAACATAGGTAAAT
* *
856287 TGTCCATATGTTCCTTAGAACATAGGTATAT
1 TGTCCATATGTTCCGTAGAACATAGGTAAAT
* *
856318 TGTCCATATG-TCTCG-AAAGACATATGTAAAAT
1 TGTCCATATGTTC-CGTAGA-ACATAGGT-AAAT
856350 TGTCCATATGTTCCGTAGAACATAGGTAAA
1 TGTCCATATGTTCCGTAGAACATAGGTAAA
856380 CCCTCGACTC
Statistics
Matches: 75, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
30 4 0.05
31 45 0.60
32 22 0.29
33 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (31 bp):
TGTCCATATGTTCCGTAGAACATAGGTAAAT
Found at i:861820 original size:31 final size:31
Alignment explanation
Indices: 861782--861909 Score: 114
Period size: 31 Copynumber: 4.1 Consensus size: 31
861772 GAACCTCAAC
* *
861782 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * **
861813 AACTGTCCATATATTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * *
861844 TACTATCCATATGTCTCGAAAG-ACATAGGTAA
1 AACTGTCCATATGTC-CCAAAGAACATAGGT-A
* ***
861876 AACTGTCCATATGTTCTGTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
861907 AAC
1 AAC
861910 CCTCGACTCT
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
31 51 0.68
32 24 0.32
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:861902 original size:32 final size:31
Alignment explanation
Indices: 861801--861909 Score: 116
Period size: 31 Copynumber: 3.5 Consensus size: 31
861791 TAGGTCCCAA
* *
861801 AGAACCTAGGTAAACTGTCCATATATTCCT-T
1 AGAACATAGGTAAACTGTCCATATGTT-CTGT
* *
861832 AGAACATAGGTATACTATCCATATG-TCTCG-
1 AGAACATAGGTAAACTGTCCATATGTTCT-GT
*
861862 AAAGACATAGGTAAAACTGTCCATATGTTCTGT
1 AGA-ACATAGGT-AAACTGTCCATATGTTCTGT
861895 AGAACATAGGTAAAC
1 AGAACATAGGTAAAC
861910 CCTCGACTCT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 33 0.52
32 21 0.33
33 5 0.08
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (31 bp):
AGAACATAGGTAAACTGTCCATATGTTCTGT
Found at i:864277 original size:16 final size:16
Alignment explanation
Indices: 864253--864286 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
864243 ATCGGACATC
* *
864253 GTTTTACCAGATATGT
1 GTTTCACCAGAAATGT
864269 GTTTCACCAGAAATGT
1 GTTTCACCAGAAATGT
864285 GT
1 GT
864287 CGAGTTTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (16 bp):
GTTTCACCAGAAATGT
Found at i:866360 original size:33 final size:32
Alignment explanation
Indices: 866318--866381 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
866308 AGGTTTTGTG
* *
866318 TTTCAAGAGAAATATTTTCCAAAGGTTTTTTTA
1 TTTCAAGAGAAACAATTT-CAAAGGTTTTTTTA
866351 TTTCAAGAGAAACAATTTCAAAGGTTTTTTT
1 TTTCAAGAGAAACAATTTCAAAGGTTTTTTT
866382 CAAGAGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (32 bp):
TTTCAAGAGAAACAATTTCAAAGGTTTTTTTA
Found at i:866387 original size:28 final size:31
Alignment explanation
Indices: 866307--866391 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 31
866297 ATCGAACTCG
* * *
866307 AAGGTTTTGTGTTTCAAGAGAAATATTTTCCA
1 AAGGTTTT-TATTTCAAGAGAAACAATTTCCA
866339 AAGGTTTTTTTATTTCAAGAGAAACAATTT-CA
1 AAGG--TTTTTATTTCAAGAGAAACAATTTCCA
866371 AAGG-TTTT-TTTCAAGAGAAAC
1 AAGGTTTTTATTTCAAGAGAAAC
866392 TGTCTCAAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 13 0.27
29 4 0.08
32 10 0.21
33 17 0.35
34 4 0.08
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.39
Consensus pattern (31 bp):
AAGGTTTTTATTTCAAGAGAAACAATTTCCA
Found at i:866429 original size:65 final size:66
Alignment explanation
Indices: 866351--866489 Score: 192
Period size: 67 Copynumber: 2.1 Consensus size: 66
866341 GGTTTTTTTA
* * * *
866351 TTTCAAGAGAAACA-ATTTCAAAGGTT-TTTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATA
1 TTTCAAGAAAAACATA-TTCAAAGATTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATA
866414 TG
65 TG
* *
866416 TTTCAAGAAAAACATATTCAAAGATTGGTGTTTCAAGAGAAGCTGTCTCAAGAGAGACAAAAATT
1 TTTCAAGAAAAACATATTCAAAGATT-GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATA
866481 TG
65 TG
866483 TTTCAAG
1 TTTCAAG
866490 GGAAACTGCC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 22 0.34
66 1 0.02
67 42 0.65
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (66 bp):
TTTCAAGAAAAACATATTCAAAGATTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATAT
G
Found at i:867136 original size:21 final size:21
Alignment explanation
Indices: 867110--867171 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
867100 GGAAACTGTC
867110 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
867131 TC-A-AGAG---AAA-TTGTC
1 TCAAGAGAGACAAAATTTGTT
867146 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
867167 TCAAG
1 TCAAG
867172 GGAAACAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 6 0.18
16 4 0.12
17 4 0.12
19 4 0.12
20 4 0.12
21 11 0.33
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.27
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:867185 original size:36 final size:36
Alignment explanation
Indices: 866444--867177 Score: 1035
Period size: 36 Copynumber: 20.4 Consensus size: 36
866434 CAAAGATTGG
* *
866444 TGTTTCAAGAGAAGCTGTCTCAAGAGAGACAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATT
*
866481 TGTTTCAAGGGAAACTGCCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
866517 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
866553 TGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* **
866589 TGTTTCAAGGGAAACCGTCTCAAGAGAGATGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * *
866625 TGTTTCAAGGGAAACCGTCCCAAGGGAGAC-GAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
866660 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
866696 TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
866732 TGTTTCAAGGGAAACTATCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
866768 TGTTTTAAGGGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * *
866804 TGTGTAAAGGGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
866840 TGTTTCAAGGGAAACTGTCTCAAGGGAGAC-GAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
866875 ATGTTTAAAGGGAAGCTGTCTCAAGAGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
866912 TGTTTAAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
866948 T-TTTTAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
866983 TGTTTCAAGGGAAACTATCTTAATG-GAGACAAAATA
1 TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATT
*
867019 TGTTTCAAGGGAAACTGTCTCAAGAGATACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
867055 TGCTTCAAGGGAAACTTTCTCAAGCGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
867091 TGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
867127 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
867163 TGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
867178 AATCTCAAAG
Statistics
Matches: 634, Mismatches: 57, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
35 70 0.11
36 532 0.84
37 32 0.05
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:867471 original size:84 final size:83
Alignment explanation
Indices: 867363--868061 Score: 453
Period size: 84 Copynumber: 8.4 Consensus size: 83
867353 ACAATTTTAT
* * *
867363 TGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAAATGACT-TGCCTTTGAGCTGAGTGGAA
1 TGACAGATAACCCTTCTTGCCTTGAGTTATACTGTAAAATGA-TGTGCCTTTGAGCTGAGTGTAA
*
867427 TCGAACTCAAAGGTATTGG
65 TCGAACTCGAAGGTATTGG
* ** * * * * * * *
867446 CTGACAAATAACCCTTCTTGCCTTGAGTTATGTTATAAATTGGATATGCCTTTTAGCTAAATTTA
1 -TGACAGATAACCCTTCTTGCCTTGAGTTATACTGTAAAAT-GATGTGCCTTTGAGCTGAGTGTA
* *
867511 ATCGAACTCGGAGGTCTTCGG
64 ATCGAACTCGAAGGTATT-GG
* * * * * * * * *
867532 TTGGCAGATAACCCTTCTCGACTTAAATTATACT-TTAAATGATGTGCCTTGGAGCTGAGCGTAG
1 -TGACAGATAACCCTTCTTGCCTTGAGTTATACTGTAAAATGATGTGCCTTTGAGCTGAGTGTAA
*
867596 TCGAACTCGAAGGTCTTTGG
65 TCGAACTCGAAGGT-ATTGG
* * *
867616 TGACAGATAACCCTTCTAGCCTTGAGTTATACTGT-AAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TGACAGATAACCCTTCTTGCCTTGAGTTATACTGTAAAATGATGTGCCTTTG-AGCTGAGTGTAA
* *
867680 TCGAACTCGAGGGTCTT--
65 TCGAACTCGAAGGTATTGG
* * * * * * * * * *
867697 TGGCAGATAGCCCTTCTCGACTTAAGCTATGC--TACAAATGATGTGCCTTAGAGCTGAGCGTAG
1 TGACAGATAACCCTTCTTGCCTTGAGTTATACTGTA-AAATGATGTGCCTTTGAGCTGAGTGTAA
*
867760 TCGAACTCGAAGGTCGTTTGG
65 TCGAACTCGAAGGT--ATTGG
* * * * * * * * *
867781 TCACAGATAACCCTTCTAGCCTTGAGTTATGCTG-CATATGATATACCCTCGAAGCTGAGTGTAA
1 TGACAGATAACCCTTCTTGCCTTGAGTTATACTGTAAAATGATGTGCCTTTG-AGCTGAGTGTAA
* *
867845 TCGAACTCGAGGGTCTT--
65 TCGAACTCGAAGGTATTGG
* * * * * * * * * *
867862 TGGCAGATAGCCCTTCTCGACTTAAGCTATACTG-CAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TGACAGATAACCCTTCTTGCCTTGAGTTATACTGTAAAATGATGTGCCTTTGAGCTGAGTGTAAT
867926 CTG-ACTCGAAGGTCTTTATTGG
66 C-GAACTCGAAGG----TATTGG
* * * *
867948 T-A-A-ATAGA-CCTTCTTGCCTTGAGCTATA-T-TACAAATAATGTGCCTTGGAGCTGAGCGTA
1 TGACAGATA-ACCCTTCTTGCCTTGAGTTATACTGTA-AAATGATGTGCCTTTGAGCTGAGTGTA
* **
868007 GTCGAACTCGAAGGTATTTT
64 ATCGAACTCGAAGGTATTGG
* *
868027 TTAGCAGATAACCCTTCTAGCCTTGAGTTATACTG
1 TGA-CAGATAACCCTTCTTGCCTTGAGTTATACTG
868062 CAAATGTTGT
Statistics
Matches: 479, Mismatches: 103, Indels: 65
0.74 0.16 0.10
Matches are distributed among these distances:
79 6 0.01
80 44 0.09
81 78 0.16
82 6 0.01
83 125 0.26
84 132 0.28
85 60 0.13
86 28 0.06
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (83 bp):
TGACAGATAACCCTTCTTGCCTTGAGTTATACTGTAAAATGATGTGCCTTTGAGCTGAGTGTAAT
CGAACTCGAAGGTATTGG
Found at i:867864 original size:165 final size:164
Alignment explanation
Indices: 867532--867942 Score: 671
Period size: 165 Copynumber: 2.5 Consensus size: 164
867522 AGGTCTTCGG
* ** **
867532 TTGGCAGATAACCCTTCTCGACTTAAATTATACTTTAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * *
867597 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGC
66 CGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATAC
867662 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
131 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
* *
867696 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTAGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
* *
867761 CGAACTCGAAGGTCGTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCATATGATATA
66 CGAACTCGAAGGTC-TTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATA
867826 CCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
130 CCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
*
867861 TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
867926 CTG-ACTCGAAGGTCTTT
66 C-GAACTCGAAGGTCTTT
867943 ATTGGTAAAT
Statistics
Matches: 229, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
164 75 0.33
165 153 0.67
166 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (164 bp):
TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATAC
CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
Found at i:867983 original size:248 final size:248
Alignment explanation
Indices: 867584--868063 Score: 612
Period size: 248 Copynumber: 1.9 Consensus size: 248
867574 TGTGCCTTGG
* * * *
867584 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACT
1 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGCTATACT
* * * * *
867649 GTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCT
66 GCAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAAATAGACCTTCT
* * *
867714 CGACTTAAGCTATGCTACAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCGTTT
131 CGACTTAAGCTATACTACAAATAATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGT-ATTT
*
867779 GGTCA-CAGATAACCCTTCTAGCCTTGAGTTATGCTGCATATGATATACCCTCGA
195 -GTCAGCAGATAACCCTTCTAGCCTTGAGTTATACTGCATATGATATACCCTCGA
* * * *
867833 AGCTGAGTGTAATCGAACTCGAGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATACT
1 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGCTATACT
* * * *
867895 GCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCTG-ACTCGAAGGTCTTTATTGGTAAATAGACC
66 GCAAATGATGTGCCCTCGAAGCTGAGCGTAATC-GAACTCGAAGGTC--T-TTGGCAAATAGACC
* * * * *
867958 TTCTTGCCTTGAGCTATATTACAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTA
127 TTCTCGACTTAAGCTATACTACAAATAATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTA
* *
868023 TTTTTTAGCAGATAACCCTTCTAGCCTTGAGTTATACTGCA
192 TTTGTCAGCAGATAACCCTTCTAGCCTTGAGTTATACTGCA
868064 AATGTTGTCT
Statistics
Matches: 198, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
245 26 0.13
246 39 0.20
247 37 0.19
248 69 0.35
249 27 0.14
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (248 bp):
AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGCTATACT
GCAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAAATAGACCTTCT
CGACTTAAGCTATACTACAAATAATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTATTTG
TCAGCAGATAACCCTTCTAGCCTTGAGTTATACTGCATATGATATACCCTCGA
Found at i:867989 original size:83 final size:80
Alignment explanation
Indices: 867568--868067 Score: 468
Period size: 83 Copynumber: 6.1 Consensus size: 80
867558 ATTATACTTT
867568 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATA-ACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G-G-CAGATAGA-CCTTC
* *
867632 TAGCCTTGAGTTATACTGT
62 TAGCCTTGAGCTATACTGC
* * * * * * *
867651 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGACCTTCTAG
* * * *
867716 ACTTAAGCTATGCTAC
65 CCTTGAGCTATACTGC
*
867732 AAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCGTTTGGTCACAGATA-ACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG---CAGATAGA-CCTT
* *
867796 CTAGCCTTGAGTTATGCTGC
61 CTAGCCTTGAGCTATACTGC
* * * * * * * * * *
867816 ATATGATATACCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGACCTTCTAG
* *
867881 ACTTAAGCTATACTGC
65 CCTTGAGCTATACTGC
* *
867897 AAATGATGTGCCTTGGAGCTGAGCGTAGTCTG-ACTCGAAGGTCTTTATTGGTAAATAGACCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTC-GAACTCGAAGGTC--T-TTGGCAGATAGACCTTC
* * *
867961 TTGCCTTGAGCTATATTAC
62 TAGCCTTGAGCTATACTGC
* * *
867980 AAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTTTAGCAGATA-ACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG---TCTTTGGCAGATAGA-CCTTC
*
868044 TAGCCTTGAGTTATACTGC
62 TAGCCTTGAGCTATACTGC
868063 AAATG
1 AAATG
868068 TTGTCTTAAA
Statistics
Matches: 333, Mismatches: 66, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
80 53 0.16
81 71 0.21
82 4 0.01
83 108 0.32
84 69 0.21
85 27 0.08
86 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (80 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGACCTTCTAGC
CTTGAGCTATACTGC
Found at i:873439 original size:19 final size:17
Alignment explanation
Indices: 873417--873451 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
873407 AATAACAAAA
873417 TAATAAAGGAAAAGAAATG
1 TAATAAA-GAAAA-AAATG
873436 TAATAAAGAAAAAAAT
1 TAATAAAGAAAAAAAT
873452 AAATAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (17 bp):
TAATAAAGAAAAAAATG
Found at i:873455 original size:21 final size:22
Alignment explanation
Indices: 873437--873483 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
873427 AAAGAAATGT
873437 AATA-AAGAAAAAAATAAATAG
1 AATACAAGAAAAAAATAAATAG
*
873458 AATACAATAAAAAAATTAAATA-
1 AATACAAGAAAAAAA-TAAATAG
873480 AATA
1 AATA
873484 GTTAAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 13 0.57
23 6 0.26
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (22 bp):
AATACAAGAAAAAAATAAATAG
Found at i:873532 original size:20 final size:19
Alignment explanation
Indices: 873485--873536 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
873475 AAATAAATAG
*
873485 TTAAAAAAC-AAATGTTAA
1 TTAAAAAACAAAACGTTAA
*
873503 ATAAATAAACAAAACGTTAA
1 TTAAA-AAACAAAACGTTAA
873523 CTTAAAAAACAAAA
1 -TTAAAAAACAAAA
873537 AGAAACCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.14
19 4 0.14
20 16 0.57
21 4 0.14
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.21
Consensus pattern (19 bp):
TTAAAAAACAAAACGTTAA
Found at i:877921 original size:21 final size:23
Alignment explanation
Indices: 877877--877921 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
877867 CTTCTCCCCC
*
877877 CTTACTTTTTGATATTCTATATTT
1 CTTACTTTTT-ATATTCTAAATTT
877901 CTTACTTTTT-T-TTCTAAATTT
1 CTTACTTTTTATATTCTAAATTT
877922 TTTTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 1 0.05
24 10 0.50
ACGTcount: A:0.20, C:0.13, G:0.02, T:0.64
Consensus pattern (23 bp):
CTTACTTTTTATATTCTAAATTT
Found at i:878924 original size:20 final size:21
Alignment explanation
Indices: 878899--878944 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
878889 AATATTATTA
878899 TTTTTAAATATTAAA-ATAAT
1 TTTTTAAATATTAAATATAAT
* *
878919 TTTTT-ATTATTAAATATTAT
1 TTTTTAAATATTAAATATAAT
878939 TTTTTA
1 TTTTTA
878945 TAATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTAAATATTAAATATAAT
Found at i:878945 original size:20 final size:20
Alignment explanation
Indices: 878894--878945 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
878884 AACTTAATAT
* *
878894 TATTATTTTTAAATATTAAA
1 TATTATTTTTTATTATTAAA
*
878914 -ATAATTTTTTATTATTAAA
1 TATTATTTTTTATTATTAAA
878933 TATTATTTTTTAT
1 TATTATTTTTTAT
878946 AATTTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTATTTTTTATTATTAAA
Found at i:878964 original size:30 final size:31
Alignment explanation
Indices: 878930--879002 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 31
878920 TTTTATTATT
**
878930 AAATATTAT-TTTTTATAATTTTATT-AATAA
1 AAATATTATATTGGTAT-ATTTTATTAAATAA
878960 AAATATTAATATTGGTATATTTTATTGAAATAA
1 AAATATT-ATATTGGTATATTTTATT-AAATAA
878993 AAATATTATA
1 AAATATTATA
879003 AATTATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
30 7 0.19
31 10 0.27
32 8 0.22
33 12 0.32
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (31 bp):
AAATATTATATTGGTATATTTTATTAAATAA
Found at i:879010 original size:31 final size:29
Alignment explanation
Indices: 878904--879011 Score: 71
Period size: 31 Copynumber: 3.7 Consensus size: 29
878894 TATTATTTTT
* * *
878904 AAATATTAA-AATAATTTTTTATT-AT-T
1 AAATATTAATAATTATATTTTATTAATAA
* **
878930 AAATATTATTTTTTATAATTTTATTAATAA
1 AAATATTAATAATTAT-ATTTTATTAATAA
*
878960 AAATATTAATATTGGTATATTTTATTGAAATAA
1 AAATATTAATAAT--TATATTTTATT--AATAA
878993 AAATATT-ATAAATTATATT
1 AAATATTAAT-AATTATATT
879012 AATTATTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
26 8 0.12
27 3 0.05
28 7 0.11
29 2 0.03
30 11 0.17
31 14 0.22
32 5 0.08
33 14 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
AAATATTAATAATTATATTTTATTAATAA
Found at i:879085 original size:23 final size:23
Alignment explanation
Indices: 879041--879085 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
879031 AGTGTTATAT
*
879041 TATATTTTAAAAATGTTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
879064 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
879086 AAATATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:879091 original size:23 final size:23
Alignment explanation
Indices: 879042--879110 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
879032 GTGTTATATT
* * * **
879042 ATATTTTAAAAATGTTAATTAGT
1 ATATTTTAAATATATTTATTAAA
879065 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTTATTAAA
*
879088 ATATTATTATAT-TATTATATTAA
1 ATATT-TTAAATATATT-TATTAA
879111 TATTAAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 27 0.71
24 11 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
ATATTTTAAATATATTTATTAAA
Found at i:879300 original size:22 final size:22
Alignment explanation
Indices: 879269--879331 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
879259 TTTATTATAA
879269 TATTAAAAATA-TAATATAATAT
1 TATTAAAAATATTAATA-AATAT
*
879291 TATTAGAAATATTAATAAATAT
1 TATTAAAAATATTAATAAATAT
* * *
879313 ATTTTAAATATTTTAATAA
1 -TATTAAAAATATTAATAA
879332 TTAATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 15 0.44
23 19 0.56
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTAAAAATATTAATAAATAT
Found at i:879315 original size:21 final size:22
Alignment explanation
Indices: 879268--879324 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
879258 TTTTATTATA
879268 ATATTAAAAATA-TAATATAAT
1 ATATTAAAAATATTAATATAAT
*
879289 ATTATTAGAAATATTAATA-AAT
1 A-TATTAAAAATATTAATATAAT
**
879311 ATATTTTAAATATT
1 ATATTAAAAATATT
879325 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 12 0.39
22 14 0.45
23 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATTAAAAATATTAATATAAT
Found at i:881921 original size:3 final size:3
Alignment explanation
Indices: 881913--881947 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
881903 ATGAAAGCTA
881913 AAT AAT AAT AAAT AA- AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AA
881948 AAGACTAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:881979 original size:9 final size:9
Alignment explanation
Indices: 881967--882140 Score: 50
Period size: 9 Copynumber: 18.0 Consensus size: 9
881957 CTCAAAAAAG
881967 AAAAAAATA
1 AAAAAAATA
881976 AAAAAAATA
1 AAAAAAATA
*
881985 AAACACAA-A
1 AAA-AAAATA
* *
881994 AAATAAGTA
1 AAAAAAATA
*
882003 AAATAAATA
1 AAAAAAATA
*
882012 AAACAAGATA
1 AAA-AAAATA
882022 GAATAAGATAA-A
1 -AA-AA-A-AATA
882034 AATAAAAATA
1 AA-AAAAATA
882044 AGGAAAAAATTGA
1 A--AAAAAA-T-A
* * *
882057 AGAAGACT-
1 AAAAAAATA
* *
882065 AAAAACAGA
1 AAAAAAATA
*
882074 AACAAAATA
1 AAAAAAATA
882083 AAAAACAA-A
1 AAAAA-AATA
882092 AGAAAAGAATA
1 A-AAAA-AATA
882103 GAAAAAAATA
1 -AAAAAAATA
882113 AAATAAAATA
1 AAA-AAAATA
* *
882123 AAATATATA
1 AAAAAAATA
*
882132 TAAAAAATA
1 AAAAAAATA
882141 TAGTCTTTAA
Statistics
Matches: 121, Mismatches: 26, Indels: 36
0.66 0.14 0.20
Matches are distributed among these distances:
8 4 0.03
9 55 0.45
10 32 0.26
11 21 0.17
12 6 0.05
13 3 0.02
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (9 bp):
AAAAAAATA
Found at i:882011 original size:27 final size:25
Alignment explanation
Indices: 881967--882016 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
881957 CTCAAAAAAG
881967 AAAAAAATAAAAAAAATAAAACACA
1 AAAAAAATAAAAAAAATAAAACACA
*
881992 AAAAATAAGTAAAATAAATAAAACA
1 AAAAA-AA-TAAAAAAAATAAAACA
882017 AGATAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 2 0.09
27 15 0.68
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.12
Consensus pattern (25 bp):
AAAAAAATAAAAAAAATAAAACACA
Found at i:882031 original size:10 final size:10
Alignment explanation
Indices: 881993--882034 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
881983 TAAAACACAA
881993 AAAATAAG-T
1 AAAATAAGAT
882002 AAAATAA-AT
1 AAAATAAGAT
*
882011 AAAACAAGAT
1 AAAATAAGAT
*
882021 AGAATAAGAT
1 AAAATAAGAT
882031 AAAA
1 AAAA
882035 ATAAAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 14 0.52
10 13 0.48
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (10 bp):
AAAATAAGAT
Found at i:882041 original size:27 final size:23
Alignment explanation
Indices: 881968--882041 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 23
881958 TCAAAAAAGA
*
881968 AAAAAATAA-AAAAAATAAAACAC
1 AAAAAATAAGTAAAAATAAAA-AC
*
881991 AAAAAATAAGTAAAATAAATAAAAC
1 AAAAAATAAGTAAAA-ATA-AAAAC
882016 AAGATAGAATAAGATAAAAATAAAAA
1 AA-A-A-AATAAG-TAAAAATAAAAA
882042 TAAGGAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
23 9 0.22
24 4 0.10
25 6 0.15
26 4 0.10
27 5 0.12
28 8 0.20
29 5 0.12
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAAAATAAGTAAAAATAAAAAC
Found at i:883313 original size:10 final size:9
Alignment explanation
Indices: 883297--883329 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
883287 AAATAAAAAG
883297 AATATATAT
1 AATATATAT
883306 -ATATATAT
1 AATATATAT
883314 AATACTATAT
1 AATA-TATAT
883324 AATATA
1 AATATA
883330 CGCATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (9 bp):
AATATATAT
Found at i:883692 original size:2 final size:2
Alignment explanation
Indices: 883685--883795 Score: 132
Period size: 2 Copynumber: 60.0 Consensus size: 2
883675 TAATAAAATA
* *
883685 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A- AA AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
883725 A- AT AT AT AT AT A- AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
883764 AT AT AT AT AT A- AT AC A- AT AT A- AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
883796 GAATATAAAT
Statistics
Matches: 98, Mismatches: 2, Indels: 18
0.83 0.02 0.15
Matches are distributed among these distances:
1 9 0.09
2 89 0.91
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:883783 original size:59 final size:61
Alignment explanation
Indices: 883685--883807 Score: 200
Period size: 59 Copynumber: 2.1 Consensus size: 61
883675 TAATAAAATA
883685 ATATATATATATATATATATATATAATATATAAAAAATATAATAT-ATATAT-AATATATA
1 ATATATATATATATATATATATATAATATATAAAAAATATAATATAATATATGAATATATA
*
883744 ATATATATATATATATATATATAT-ATATATAATACAATATAATATAATATATGAATATA-A
1 ATATATATATATATATATATATATAATATATAA-AAAATATAATATAATATATGAATATATA
883804 ATAT
1 ATAT
883808 GAATACAATA
Statistics
Matches: 60, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
58 8 0.13
59 35 0.58
60 11 0.18
61 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (61 bp):
ATATATATATATATATATATATATAATATATAAAAAATATAATATAATATATGAATATATA
Found at i:883800 original size:18 final size:17
Alignment explanation
Indices: 883677--883819 Score: 122
Period size: 18 Copynumber: 8.5 Consensus size: 17
883667 AACATAACTA
*
883677 ATAAAATAATATAT-AT
1 ATAATATAATATATAAT
883693 ATATATATATATATATAAT
1 ATA-ATATA-ATATATAAT
* *
883712 AT-ATAAAAAATATAAT
1 ATAATATAATATATAAT
883728 ATATATATAATATATAAT
1 ATA-ATATAATATATAAT
883746 AT-ATAT-ATATAT-AT
1 ATAATATAATATATAAT
883760 AT-ATATATATATATAAT
1 ATAATATA-ATATATAAT
*
883777 ACAATATAATATA-ATAT
1 ATAATATAATATATA-AT
883794 ATGAATATAA-ATATGAAT
1 AT-AATATAATATAT-AAT
*
883812 ACAATATA
1 ATAATATA
883820 CGTAACGTAT
Statistics
Matches: 106, Mismatches: 8, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
14 8 0.08
15 6 0.06
16 24 0.23
17 28 0.26
18 35 0.33
19 5 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (17 bp):
ATAATATAATATATAAT
Found at i:883802 original size:8 final size:7
Alignment explanation
Indices: 883682--883807 Score: 115
Period size: 8 Copynumber: 18.0 Consensus size: 7
883672 AACTAATAAA
883682 ATAATAT
1 ATAATAT
883689 AT-ATAT
1 ATAATAT
883695 AT-ATAT
1 ATAATAT
883701 AT-ATAT
1 ATAATAT
883707 ATAATAT
1 ATAATAT
883714 ATAA-A-
1 ATAATAT
883719 A-AATAT
1 ATAATAT
883725 AATATATAT
1 -ATA-ATAT
883734 ATAATAT
1 ATAATAT
883741 ATAATAT
1 ATAATAT
883748 ATATATAT
1 ATA-ATAT
883756 ATATATAT
1 ATA-ATAT
883764 ATATATAT
1 ATA-ATAT
*
883772 ATAATAC
1 ATAATAT
883779 A-ATATAAT
1 ATA-AT-AT
883787 ATAATAT
1 ATAATAT
883794 ATGAATAT
1 AT-AATAT
883802 A-AATAT
1 ATAATAT
883808 GAATACAATA
Statistics
Matches: 106, Mismatches: 2, Indels: 23
0.81 0.02 0.18
Matches are distributed among these distances:
4 2 0.02
5 2 0.02
6 25 0.24
7 35 0.33
8 37 0.35
9 5 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (7 bp):
ATAATAT
Found at i:883807 original size:12 final size:11
Alignment explanation
Indices: 883677--883812 Score: 104
Period size: 10 Copynumber: 12.1 Consensus size: 11
883667 AACATAACTA
883677 ATAAA-ATAAT
1 ATAAATATAAT
*
883687 ATATATAT-AT
1 ATAAATATAAT
*
883697 ATATATAT-AT
1 ATAAATATAAT
883707 ATAATATATAA-
1 ATAA-ATATAAT
883718 A-AAATATAAT
1 ATAAATATAAT
*
883728 ATATATATAAT
1 ATAAATATAAT
883739 ATATAATATATAT
1 ATA-AATATA-AT
883752 ATATATATATATAT
1 ATA-A-ATATA-AT
*
883766 ATATATATAAT
1 ATAAATATAAT
*
883777 A-CAATATAAT
1 ATAAATATAAT
883787 ATAATATATGAAT
1 ATAA-ATAT-AAT
883800 ATAAATATGAAT
1 ATAAATAT-AAT
883812 A
1 A
883813 CAATATACGT
Statistics
Matches: 107, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
9 6 0.06
10 30 0.28
11 22 0.21
12 24 0.22
13 14 0.13
14 11 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:885599 original size:17 final size:18
Alignment explanation
Indices: 885570--885603 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
885560 ACCCACATTA
885570 TTTTCTTTCTTTTTTTCT
1 TTTTCTTTCTTTTTTTCT
885588 TTTTCTTT-TTTTTTTC
1 TTTTCTTTCTTTTTTTC
885604 AATTTAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTCTTTCTTTTTTTCT
Found at i:892800 original size:21 final size:20
Alignment explanation
Indices: 892774--892814 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
892764 ATGAATGTAA
892774 AAACATGGAAAATAGAAAAAT
1 AAACATGGAAAA-AGAAAAAT
*
892795 AAACATGGAAAAATAAAAAT
1 AAACATGGAAAAAGAAAAAT
892815 GCAAAGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (20 bp):
AAACATGGAAAAAGAAAAAT
Found at i:896222 original size:15 final size:14
Alignment explanation
Indices: 896202--896236 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
896192 GACTAATATC
*
896202 AAAAAAAAAAGAAA
1 AAAAAAAAAACAAA
896216 AACAAAAAAAACAAA
1 AA-AAAAAAAACAAA
896231 AAAAAA
1 AAAAAA
896237 TAAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:896225 original size:9 final size:9
Alignment explanation
Indices: 896201--896235 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
896191 AGACTAATAT
896201 CAAAAAAAA
1 CAAAAAAAA
*
896210 -AAGAAAAA
1 CAAAAAAAA
896218 CAAAAAAAA
1 CAAAAAAAA
896227 CAAAAAAAA
1 CAAAAAAAA
896236 ATAAGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.89, C:0.09, G:0.03, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:896245 original size:10 final size:10
Alignment explanation
Indices: 896120--896254 Score: 69
Period size: 10 Copynumber: 12.8 Consensus size: 10
896110 AAATGAGGTA
896120 AAATAAAAAT
1 AAATAAAAAT
* *
896130 ATATAAAACCCT
1 AAATAAAA--AT
*
896142 AAATAAAAGCT
1 AAATAAAA-AT
*
896153 AAATAATAAT
1 AAATAAAAAT
896163 AAATAAAAAT
1 AAATAAAAAT
896173 AATAATAAAAAT
1 -A-AATAAAAAT
896185 -AATAAAAGACT
1 AAATAAAA-A-T
*
896196 AATATCAAAAAAA
1 AA-AT--AAAAAT
* *
896209 AAAGAAAAAC
1 AAATAAAAAT
*
896219 AAA-AAAAAC
1 AAATAAAAAT
*
896228 AAAAAAAAAT
1 AAATAAAAAT
*
896238 AAGT-AAAAT
1 AAATAAAAAT
896247 AAATAAAA
1 AAATAAAA
896255 GAAGATAGAA
Statistics
Matches: 99, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
9 24 0.24
10 36 0.36
11 11 0.11
12 19 0.19
13 4 0.04
14 1 0.01
15 4 0.04
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:896271 original size:10 final size:10
Alignment explanation
Indices: 896233--896274 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
896223 AAAACAAAAA
896233 AAAATAAG-T
1 AAAATAAGAT
896242 AAAATAA-AT
1 AAAATAAGAT
*
896251 AAAAGAAGAT
1 AAAATAAGAT
*
896261 AGAATAAGAT
1 AAAATAAGAT
896271 AAAA
1 AAAA
896275 ATAAAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 14 0.52
10 13 0.48
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (10 bp):
AAAATAAGAT
Found at i:896319 original size:10 final size:10
Alignment explanation
Indices: 896304--896328 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
896294 GAAGAAGATT
896304 AAAAAATAGA
1 AAAAAATAGA
896314 AAAAAATAGA
1 AAAAAATAGA
896324 AAAAA
1 AAAAA
896329 TAAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:896328 original size:19 final size:18
Alignment explanation
Indices: 896304--896339 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
896294 GAAGAAGATT
896304 AAAAAATAGAAAAAAATAG
1 AAAAAATA-AAAAAAATAG
*
896323 AAAAAATAAAAATAATA
1 AAAAAATAAAAAAAATA
896340 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAAAATAAAAAAAATAG
Found at i:896466 original size:2 final size:2
Alignment explanation
Indices: 896459--896489 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
896449 ATAATAAATA
*
896459 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
896490 AAAAACGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:898778 original size:17 final size:18
Alignment explanation
Indices: 898753--898790 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
898743 GTTTAATCAC
* *
898753 TATTTATTATATTATT-A
1 TATTAATTATAATATTGA
898770 TATTAATTATAATATTGA
1 TATTAATTATAATATTGA
898788 TAT
1 TAT
898791 ATTAAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATTAATTATAATATTGA
Found at i:905909 original size:20 final size:20
Alignment explanation
Indices: 905883--905972 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
905873 ATTTCACATG
* *
905883 AATTTGTAAAACCTTCGGGT
1 AATTTGTAAAGCCTCCGGGT
*
905903 CATTTGTAAAGCCTCCGGGT
1 AATTTGTAAAGCCTCCGGGT
* *
905923 CATTTGTAAAGCCTCTGGGT
1 AATTTGTAAAGCCTCCGGGT
*
905943 AATTTGTAAAGCCTCCAGGT
1 AATTTGTAAAGCCTCCGGGT
905963 AATTTGTAAA
1 AATTTGTAAA
905973 TTCCTTGAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (20 bp):
AATTTGTAAAGCCTCCGGGT
Found at i:906201 original size:107 final size:107
Alignment explanation
Indices: 906056--906267 Score: 311
Period size: 107 Copynumber: 2.0 Consensus size: 107
906046 AGTGGAACCA
*
906056 AGTTCAACCTTGAATATGATCTTCACAGAAAAGTAGTGAAATTAGATCCTTATCAAGACAATCAG
1 AGTTCAACCTTGAATATGATCTTCACAGAAAAGTAGTGAAATTAGATCCTCATCAAGACAATCA-
* *
906121 TT-TCAGTCTTCACGGAAGAGTAGTGAAGCA-AAAGCAGAAGCC
65 TTCTCAGTCTTCAAGAAAGAGTAGTGAAGCAGAAA-CAGAAGCC
* ** * * *
906163 AGTTCAACCTTGAATCTGATCTTCATGGAAGAGTAGTGAAATTAGATTCTCATCAAGTCAATCAT
1 AGTTCAACCTTGAATATGATCTTCACAGAAAAGTAGTGAAATTAGATCCTCATCAAGACAATCAT
906228 TCTCAGTCTTCAAGAAAGAGTAGTGAAGCAGAAACAGAAG
66 TCTCAGTCTTCAAGAAAGAGTAGTGAAGCAGAAACAGAAG
906268 AAAGAGCAAG
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
106 2 0.02
107 89 0.95
108 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (107 bp):
AGTTCAACCTTGAATATGATCTTCACAGAAAAGTAGTGAAATTAGATCCTCATCAAGACAATCAT
TCTCAGTCTTCAAGAAAGAGTAGTGAAGCAGAAACAGAAGCC
Found at i:909392 original size:23 final size:23
Alignment explanation
Indices: 909324--909384 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
909314 ACATTTTATA
*
909324 TGGCACTTCGATGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
909347 CGGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
909370 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
909385 TTTATACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:912826 original size:31 final size:30
Alignment explanation
Indices: 912791--912871 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
912781 GATAATTTTT
*
912791 ATTAAATACAAAGTATTAACTCATACATCAC
1 ATTAAATACAAA-CATTAACTCATACATCAC
* * *
912822 ATTAAATTAGAAACATTAACTCCTACATTAC
1 ATTAAA-TACAAACATTAACTCATACATCAC
912853 ATTACAATACAAACATTAA
1 ATTA-AATACAAACATTAA
912872 GTTACCCACA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 36 0.84
32 7 0.16
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (30 bp):
ATTAAATACAAACATTAACTCATACATCAC
Found at i:918476 original size:22 final size:22
Alignment explanation
Indices: 918448--918492 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
918438 TAATACCTAT
918448 CCTATAGTCAGAGGAACATTTG
1 CCTATAGTCAGAGGAACATTTG
918470 CCTATAGTCAGAGGAACATTTG
1 CCTATAGTCAGAGGAACATTTG
918492 C
1 C
918493 GTTCTTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (22 bp):
CCTATAGTCAGAGGAACATTTG
Found at i:929044 original size:33 final size:33
Alignment explanation
Indices: 928980--929045 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
928970 AGTCTCATGC
* **
928980 ACCTGAACAACCTGTAGCTGAGCCGGTTGTGGT
1 ACCTGAACAACCCGTAGCTGAGCCGACTGTGGT
* *
929013 ACCTGAACAGCCCGTAGTTGAGCCGACTGTGGT
1 ACCTGAACAACCCGTAGCTGAGCCGACTGTGGT
929046 GTCACAACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (33 bp):
ACCTGAACAACCCGTAGCTGAGCCGACTGTGGT
Found at i:936747 original size:25 final size:25
Alignment explanation
Indices: 936709--936756 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
936699 TTAAACTATC
936709 AAAGTTCGAATTAAACTCAAAAATT
1 AAAGTTCGAATTAAACTCAAAAATT
* * *
936734 AAAGTTGGATTTAAGCTCAAAAA
1 AAAGTTCGAATTAAACTCAAAAA
936757 AATTCAACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAGTTCGAATTAAACTCAAAAATT
Found at i:948626 original size:16 final size:16
Alignment explanation
Indices: 948605--948635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
948595 CCCCTTTTGT
*
948605 CCAGGTTCTTTGAAGC
1 CCAGGTTCTTGGAAGC
948621 CCAGGTTCTTGGAAG
1 CCAGGTTCTTGGAAG
948636 AGCCTACACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (16 bp):
CCAGGTTCTTGGAAGC
Found at i:951330 original size:21 final size:21
Alignment explanation
Indices: 951281--951351 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
951271 GTGAGTTTGG
951281 GATCGATCA--TTTGAAGCAAGA
1 GATCGATCATTTTTG-AG-AAGA
* * *
951302 GATTGATCATTTTTGGGAAGG
1 GATCGATCATTTTTGAGAAGA
* *
951323 GGTCGATCTTTTTTGAGAAGA
1 GATCGATCATTTTTGAGAAGA
951344 GATCGATC
1 GATCGATC
951352 CTTTCACCCA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 34 0.87
22 1 0.03
23 4 0.10
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.32
Consensus pattern (21 bp):
GATCGATCATTTTTGAGAAGA
Found at i:953478 original size:14 final size:14
Alignment explanation
Indices: 953414--953480 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 14
953404 ATTAAACTCA
*
953414 TATTTT-AATATAT
1 TATTTTAAATATTT
*
953427 TATTTTAAATATTA
1 TATTTTAAATATTT
*
953441 TATTTT--AT-CTT
1 TATTTTAAATATTT
* **
953452 TGTTTTAGGTATTT
1 TATTTTAAATATTT
953466 TATTTTAAATATTT
1 TATTTTAAATATTT
953480 T
1 T
953481 TAAGTGTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
11 6 0.15
12 2 0.05
13 7 0.17
14 25 0.62
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (14 bp):
TATTTTAAATATTT
Found at i:953597 original size:82 final size:82
Alignment explanation
Indices: 953423--953584 Score: 261
Period size: 82 Copynumber: 2.0 Consensus size: 82
953413 ATATTTTAAT
* * * * * * *
953423 ATATTATTTTAAATATTATATTTTATCTTTGTTTTAGGTATTTTATTTTAAATATTTTTAAGTGT
1 ATATTATTTTAAATAATATATTTTATCTCTGATTTAGGTATTTTAGTTTAAATAATTTTAAATAT
953488 TTTAATTAGGATTTAGG
66 TTTAATTAGGATTTAGG
953505 ATATTATTTTAAATAATATATTTTATCTCTGATTTAGGTATTTTAGTTTAAATAATTTTAAATAT
1 ATATTATTTTAAATAATATATTTTATCTCTGATTTAGGTATTTTAGTTTAAATAATTTTAAATAT
953570 TTTAATTAGGATTTA
66 TTTAATTAGGATTTA
953585 TTTCTTTATT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (82 bp):
ATATTATTTTAAATAATATATTTTATCTCTGATTTAGGTATTTTAGTTTAAATAATTTTAAATAT
TTTAATTAGGATTTAGG
Found at i:957373 original size:12 final size:12
Alignment explanation
Indices: 957356--957382 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
957346 AGTAGAAAAG
957356 AAAGAAATTCAA
1 AAAGAAATTCAA
957368 AAAGAAATTCAA
1 AAAGAAATTCAA
957380 AAA
1 AAA
957383 CTCCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAGAAATTCAA
Found at i:959416 original size:16 final size:16
Alignment explanation
Indices: 959397--959430 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
959387 CAAATTTTAT
*
959397 ATGACACAACGGTGCA
1 ATGACACAACAGTGCA
959413 ATGACACAACAGTGCA
1 ATGACACAACAGTGCA
959429 AT
1 AT
959431 TCTACGTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.15
Consensus pattern (16 bp):
ATGACACAACAGTGCA
Found at i:959448 original size:23 final size:23
Alignment explanation
Indices: 959422--959477 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
959412 AATGACACAA
959422 CAGTGCAATTCTACGTGACACTT
1 CAGTGCAATTCTACGTGACACTT
*
959445 CAGTGCAATTCTACGTGGCACTT
1 CAGTGCAATTCTACGTGACACTT
*
959468 CGGTGCAATT
1 CAGTGCAATT
959478 TATACGAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (23 bp):
CAGTGCAATTCTACGTGACACTT
Found at i:969968 original size:478 final size:478
Alignment explanation
Indices: 969066--970025 Score: 1697
Period size: 478 Copynumber: 2.0 Consensus size: 478
969056 GCTTCATGTT
969066 AATTCATGGATTGTTCTTAATTATTTTGATCTCTTGTTTTGGCATTTTAAACCTTTCTTTTTGGA
1 AATTCATGGATTGTTCTTAATTATTTTGATCTCTTGTTTTGGCATTTTAAACCTTTCTTTTTGGA
* * * *
969131 CTTTTCCCTATCTTAACCTAAGCCCTGTTGCACCTTGTTTAAGACCCCTTGATTATTGTATTATG
66 CTTTTCCCTACCCTAACCTAAGCCCTGTTACACCTTGTTTAAGACCCCTTGATTATTGCATTATG
969196 TTCATTTTTAGTAGTGGAAACTTGATTGGATTCCAAGCCTATGGTAATATTTTGGTTAGTTTCAG
131 TTCATTTTTAGTAGTGGAAACTTGATTGGATTCCAAGCCTATGGTAATATTTTGGTTAGTTTCAG
* *
969261 TTTGAGCGATTTTATTTACCCCAAACACTTTGAGCGGATATGTGTGAATCTTTGTGAGGTATTGA
196 TTTGAGCGATTTTATTTACCCCAAACACTTTGAGCGGATATGTGTGAATCTTTGTAAGGTATTAA
*
969326 GTCATGTTTCATTGAAGTTGGAAATTAATTGGGATATCTTGCTTACTTTAAATTTTCTTAGTTGT
261 GTCATGTTTCATTGAAGTTGGAAATTAATTGGGATATCTTGCTTACTTTAAATTTTCTTAGTTAT
* *
969391 GTCTTTGCTTGATTGTAACTTGAATTCAGCAAATGTCATGGACTTAGTTCGATTGGAAGTTTGAG
326 ATCTTTGCTTGATTGTAACTTGAATTCAGCAAATATCATGGACTTAGTTCGATTGGAAGTTTGAG
*
969456 AAATAAATTGAATTTGAAGATGGAAACTTATGATTTTGATGTATTAATTGATGAATACTTGAGGA
391 AAATAAATTGAAGTTGAAGATGGAAACTTATGATTTTGATGTATTAATTGATGAATACTTGAGGA
969521 CAAGCATTGAATAAGTGAGGGGG
456 CAAGCATTGAATAAGTGAGGGGG
* *
969544 AATTCGTGGATTGTTCTTAATTATTTTGATCTCTTGTTTTGGCATTTTAAACCTTTCTTTTTGGT
1 AATTCATGGATTGTTCTTAATTATTTTGATCTCTTGTTTTGGCATTTTAAACCTTTCTTTTTGGA
969609 CTTTTCCCTACCCTAACCTAAG-CCTCGTTACACCTTGTTTAAGACCCCTTGATTATTGCATTAT
66 CTTTTCCCTACCCTAACCTAAGCCCT-GTTACACCTTGTTTAAGACCCCTTGATTATTGCATTAT
* *
969673 GTTCTTTTTTAGTAGTGGAGACTTGATTGGATTCCAAGCCTATGGTAATATTTTGGTTAGTTTCA
130 GTTCATTTTTAGTAGTGGAAACTTGATTGGATTCCAAGCCTATGGTAATATTTTGGTTAGTTTCA
*
969738 GTTTGAGTGATTTTATTTACCCCAAACACTTTGAGCGGATATGTGTGAATCTTTGTAAGGTATTA
195 GTTTGAGCGATTTTATTTACCCCAAACACTTTGAGCGGATATGTGTGAATCTTTGTAAGGTATTA
*
969803 AGTCATGTTTCATTGAAGTTGGCAATTAATTGGGATATCTTGCTTACTTTAAATTTTCTTAGTTA
260 AGTCATGTTTCATTGAAGTTGGAAATTAATTGGGATATCTTGCTTACTTTAAATTTTCTTAGTTA
* * *
969868 TATCTTTGCTTGATTGTGACTTGAATTCGGCAAATATCATGGACTTAGTTTGATTGGAAGTTTGA
325 TATCTTTGCTTGATTGTAACTTGAATTCAGCAAATATCATGGACTTAGTTCGATTGGAAGTTTGA
* * *
969933 GAAATAAATTGAAGTTGAAGATTGCAACTTATGATTTTGATGTATTAATTGATGAATGCTTGAGG
390 GAAATAAATTGAAGTTGAAGATGGAAACTTATGATTTTGATGTATTAATTGATGAATACTTGAGG
*
969998 ACGAGCATTGAATAAGTGAGGGGG
455 ACAAGCATTGAATAAGTGAGGGGG
970022 AATT
1 AATT
970026 TGATAAGTGC
Statistics
Matches: 458, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
477 3 0.01
478 455 0.99
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.42
Consensus pattern (478 bp):
AATTCATGGATTGTTCTTAATTATTTTGATCTCTTGTTTTGGCATTTTAAACCTTTCTTTTTGGA
CTTTTCCCTACCCTAACCTAAGCCCTGTTACACCTTGTTTAAGACCCCTTGATTATTGCATTATG
TTCATTTTTAGTAGTGGAAACTTGATTGGATTCCAAGCCTATGGTAATATTTTGGTTAGTTTCAG
TTTGAGCGATTTTATTTACCCCAAACACTTTGAGCGGATATGTGTGAATCTTTGTAAGGTATTAA
GTCATGTTTCATTGAAGTTGGAAATTAATTGGGATATCTTGCTTACTTTAAATTTTCTTAGTTAT
ATCTTTGCTTGATTGTAACTTGAATTCAGCAAATATCATGGACTTAGTTCGATTGGAAGTTTGAG
AAATAAATTGAAGTTGAAGATGGAAACTTATGATTTTGATGTATTAATTGATGAATACTTGAGGA
CAAGCATTGAATAAGTGAGGGGG
Found at i:970525 original size:82 final size:82
Alignment explanation
Indices: 970337--970504 Score: 284
Period size: 82 Copynumber: 2.0 Consensus size: 82
970327 AAACTCATGT
*
970337 TTTAGGATATTATTTTAAATATTATATTTAATCGTTATTTTAGGTGTTTTAGTTTAAATAGTTTT
1 TTTAGGATATTATTTTAAATATTATATTTAATCGTTATTTTAGGTATTTTAGTTTAAATAGTTTT
970402 AAGTATTTTAATAAGGA
66 AAGTATTTTAATAAGGA
* * *
970419 TTTAGGATATTATTTTAAATATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTT
1 TTTAGGATATTATTTTAAATATTATATTTAATCGTTATTTTAGGTATTTTAGTTTAAATAGTTTT
970484 AAGTATTTTAATTAA-GA
66 AAGTATTTTAA-TAAGGA
970501 TTTA
1 TTTA
970505 TTTCTTTATT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 78 0.96
83 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (82 bp):
TTTAGGATATTATTTTAAATATTATATTTAATCGTTATTTTAGGTATTTTAGTTTAAATAGTTTT
AAGTATTTTAATAAGGA
Done.