Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 62
Found at i:2755353 original size:20 final size:20
Alignment explanation
Indices: 2755328--2755374 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
2755318 GGGACTGTGG
2755328 TGTTTCTGATTTAGTAAAAC
1 TGTTTCTGATTTAGTAAAAC
2755348 TGTTTCTGATTTAGTAAAAC
1 TGTTTCTGATTTAGTAAAAC
2755368 TGTTTCT
1 TGTTTCT
2755375 TTATTTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.49
Consensus pattern (20 bp):
TGTTTCTGATTTAGTAAAAC
Found at i:2755436 original size:19 final size:19
Alignment explanation
Indices: 2755419--2755487 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
2755409 TTAAAAGATT
2755419 TAATAAAATAAAATAGATAA
1 TAAT-AAATAAAATAGATAA
** *
2755439 TAATAAATAAAAGGGAAAA
1 TAATAAATAAAATAGATAA
* *
2755458 TAATAAA-ATAATAAATAA
1 TAATAAATAAAATAGATAA
*
2755476 TAGTAAATAAAA
1 TAATAAATAAAA
2755488 AGGGGTTTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
18 12 0.32
19 22 0.58
20 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
TAATAAATAAAATAGATAA
Found at i:2756140 original size:24 final size:24
Alignment explanation
Indices: 2756113--2756171 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
2756103 AAATCCTAAT
** * *
2756113 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACAAATATAAAA
2756137 TAAAATACCTAAAACAAATATAAAA
1 TAAAATA-CTAAAACAAATATAAAA
2756162 TAAAATACTA
1 TAAAATACTA
2756172 TTTAAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAATATAAAA
Found at i:2758966 original size:21 final size:21
Alignment explanation
Indices: 2758942--2758985 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2758932 GATATAAATT
**
2758942 GTGTATCAATGCACTGCTACA
1 GTGTATCAATAAACTGCTACA
*
2758963 GTGTATCGATAAACTGCTACA
1 GTGTATCAATAAACTGCTACA
2758984 GT
1 GT
2758986 AACTTCGACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (21 bp):
GTGTATCAATAAACTGCTACA
Found at i:2759487 original size:14 final size:14
Alignment explanation
Indices: 2759465--2759505 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
2759455 ACCAATTGTA
*
2759465 ACATATCATATAAT
1 ACATTTCATATAAT
2759479 ACATTTCATATAAT
1 ACATTTCATATAAT
2759493 ACATTTCATATAA
1 ACATTTCATATAA
2759506 CAAAGCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
ACATTTCATATAAT
Found at i:2759719 original size:31 final size:31
Alignment explanation
Indices: 2759681--2759746 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
2759671 ATATAATAAT
*
2759681 CTGTCCATATGTCCAAAAGAACATGGGTAAC
1 CTGTCCATATGTCCAAAAGAACATAGGTAAC
** *
2759712 CTGTCCATATGTCCCGAAGAACATAGGTAAT
1 CTGTCCATATGTCCAAAAGAACATAGGTAAC
2759743 CTGT
1 CTGT
2759747 AACATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (31 bp):
CTGTCCATATGTCCAAAAGAACATAGGTAAC
Found at i:2759960 original size:31 final size:31
Alignment explanation
Indices: 2759922--2759982 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
2759912 CCCGAAGGAC
*
2759922 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2759953 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
2759983 CCCTCGACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2764583 original size:18 final size:19
Alignment explanation
Indices: 2764560--2764604 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
2764550 GAAAAACATT
*
2764560 TATGAACAGTACTATAC-G
1 TATGAACAGTACTATACTA
*
2764578 TATGAATAGTACTATACTA
1 TATGAACAGTACTATACTA
2764597 TATGAACA
1 TATGAACA
2764605 ATATCGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (19 bp):
TATGAACAGTACTATACTA
Found at i:2765498 original size:31 final size:31
Alignment explanation
Indices: 2765400--2765500 Score: 148
Period size: 31 Copynumber: 3.3 Consensus size: 31
2765390 AACTCATATA
*
2765400 ATAATCTGTCCATATGTCCCGAAGAACATGG
1 ATAATCTGTCCATATGTCCCGAAGAACATAG
* * *
2765431 GTAACCTGTCCATATGTCCCGAAGAATATAG
1 ATAATCTGTCCATATGTCCCGAAGAACATAG
* *
2765462 GTAATCTGTCCATATGTCCCAAAGAACATAG
1 ATAATCTGTCCATATGTCCCGAAGAACATAG
2765493 ATAATCTG
1 ATAATCTG
2765501 CAACATATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (31 bp):
ATAATCTGTCCATATGTCCCGAAGAACATAG
Found at i:2765505 original size:16 final size:17
Alignment explanation
Indices: 2765486--2765519 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2765476 TGTCCCAAAG
2765486 AACATAGATAATC-TGC
1 AACATAGATAATCATGC
*
2765502 AACATATATAATCATGC
1 AACATAGATAATCATGC
2765519 A
1 A
2765520 TTTAACACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (17 bp):
AACATAGATAATCATGC
Found at i:2765719 original size:31 final size:31
Alignment explanation
Indices: 2765681--2765768 Score: 131
Period size: 31 Copynumber: 2.8 Consensus size: 31
2765671 AAGGACTAGT
* *
2765681 CCATATGTTCTGAAGAACATAGGTAAACAAC
1 CCATATGTCCCGAAGAACATAGGTAAACAAC
**
2765712 CCATATGTCCCGAAGAACATAGGTAAACAGT
1 CCATATGTCCCGAAGAACATAGGTAAACAAC
*
2765743 CCACATGTCCCGAAGAACATAGGTAA
1 CCATATGTCCCGAAGAACATAGGTAA
2765769 TCCTCAACTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (31 bp):
CCATATGTCCCGAAGAACATAGGTAAACAAC
Found at i:2768305 original size:20 final size:20
Alignment explanation
Indices: 2768268--2768305 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2768258 GAGACCATGA
*
2768268 ATTTCAAATATAAGAAATTG
1 ATTTCAAATATAAAAAATTG
2768288 ATTTCTAAAT-TAAAAAAT
1 ATTTC-AAATATAAAAAAT
2768306 AAAAATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
ATTTCAAATATAAAAAATTG
Found at i:2769136 original size:40 final size:40
Alignment explanation
Indices: 2769081--2769198 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
2769071 AGTATGATAT
* *
2769081 ACTTGAATTTATTAAATTTTATGTGTTACCAACATATTAC
1 ACTTGAATTTATTAAATTTCATGTGTTACTAACATATTAC
2769121 ACTTGAATTTATTAAATTTCATGTGTTACTAACATATTAC
1 ACTTGAATTTATTAAATTTCATGTGTTACTAACATATTAC
*
2769161 ACTTGAATTTATTAAATTTCATGCGTTACTAACATATT
1 ACTTGAATTTATTAAATTTCATGTGTTACTAACATATT
2769199 TGTCATCTAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (40 bp):
ACTTGAATTTATTAAATTTCATGTGTTACTAACATATTAC
Found at i:2769968 original size:3 final size:3
Alignment explanation
Indices: 2769960--2769984 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2769950 GTTTTTATTG
2769960 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
2769985 TTTTTTGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2778015 original size:42 final size:41
Alignment explanation
Indices: 2777968--2778053 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 41
2777958 TGGTAAGTCA
2777968 TTCAGGACATCAGTAAGTCTTTCAAGC-ATGATGATTAAATCC
1 TTCAGGACATCAGTAAGTCTTTCAAGCGA-GATGA-TAAATCC
* * * *
2778010 TTCAGGTCATCTGTAAGTCTTTCGAGCGAGATGATAAGTCC
1 TTCAGGACATCAGTAAGTCTTTCAAGCGAGATGATAAATCC
2778051 TTC
1 TTC
2778054 GGGCCATCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 9 0.23
42 29 0.74
43 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (41 bp):
TTCAGGACATCAGTAAGTCTTTCAAGCGAGATGATAAATCC
Found at i:2778268 original size:42 final size:42
Alignment explanation
Indices: 2778221--2778300 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
2778211 AATTGGTAAG
* * *
2778221 TCATTCGGGCCAT-TAGTAAGTCTTTCGATCATGATGATTAAA
1 TCATTCGAGCCATCT-GTAAGTCTTTCGAGCAAGATGATTAAA
* *
2778263 TCATTCGAGTCATCTGTCAGTCTTTCGAGCAAGATGAT
1 TCATTCGAGCCATCTGTAAGTCTTTCGAGCAAGATGAT
2778301 AAGTCTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 31 0.97
43 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (42 bp):
TCATTCGAGCCATCTGTAAGTCTTTCGAGCAAGATGATTAAA
Found at i:2778304 original size:256 final size:256
Alignment explanation
Indices: 2777848--2778466 Score: 816
Period size: 256 Copynumber: 2.4 Consensus size: 256
2777838 TTCCCATAAC
* * * *
2777848 GAGAAAG-CGATTTCCAAAGTTTCTCATTTATTATTTCCAGAAATAATTTTTTTTGAAAAGTAAG
1 GAGAAAGTC-ATTTCCAAAGTTTCTCATTTAATATTTTCAAAAATAA--ATTTTTGAAAAGTAAG
2777912 AAAGCGATTTCCAAAGTTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCATTCAGGACA
63 AAAGCGATTTCCAAAG-TTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCATTCAGGACA
* *
2777977 TCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGTCTTTCGAGCGAGAT
127 TCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGTAAGTCTTTCGAGCAAGAT
* ** *
2778042 GATAAGTCCTTCGGGCCATCCGTAAAACC-CCGGGTAGGATGTTTTCACATGAATTT-GAAAA-A
192 GATAAGTCCTTCGGGCCATCCATAAAACCTCC-GACAGGATGTTTTCACATGAATTTAAAAAAGA
2778104 T
256 T
* *
2778105 GAGAAAGTCATTTCCAAAGTTTCTCTTTTAGTATTTTCATAAAATGAAATTTTTGAAAAGTAAGA
1 GAGAAAGTCATTTCCAAAGTTTCTCATTTAATATTTTCA-AAAAT-AAATTTTTGAAAAGTAAGA
* * * * *
2778170 AAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCCAAATTGGTAAGTCATTCGGGCCATT
64 AAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCATTCAGGACATC
* * *
2778235 AGTAAGTCTTTCGATCATGATGATTAAATCATTC-GAGTCATCTGTCAGTCTTTCGAGCAAGATG
129 AGTAAGTCTTTCAAGCATGATGATTAAATCATTCAG-GTCATCTGTAAGTCTTTCGAGCAAGATG
* * * * * *
2778299 ATAAGTCTTTCGGGTCATCTATAAGACCTTCGACAGGATGTTTTCACATGATTTTAAAAAAAGAT
193 ATAAGTCCTTCGGGCCATCCATAAAACCTCCGACAGGATGTTTTCACATGAATTT-AAAAAAGAT
* ** * *
2778364 GAGAAAGTGATTTTTAAAGTTTCTCATTTAATGTTTTTAGAAAATTAAATTTTTGAAAAGTAAGA
1 GAGAAAGTCATTTCCAAAGTTTCTCATTTAATATTTTCA-AAAA-TAAATTTTTGAAAAGTAAGA
*
2778429 AAGCGATTTCCAAAGTTTGTTACCCAGTAAACTATTTC
64 AAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTC
2778467 TAAAATCAGA
Statistics
Matches: 317, Mismatches: 36, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
255 1 0.00
256 147 0.46
257 65 0.21
258 9 0.03
259 94 0.30
260 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (256 bp):
GAGAAAGTCATTTCCAAAGTTTCTCATTTAATATTTTCAAAAATAAATTTTTGAAAAGTAAGAAA
GCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCATTCAGGACATCAG
TAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGTAAGTCTTTCGAGCAAGATGATA
AGTCCTTCGGGCCATCCATAAAACCTCCGACAGGATGTTTTCACATGAATTTAAAAAAGAT
Found at i:2778702 original size:38 final size:38
Alignment explanation
Indices: 2778653--2779314 Score: 543
Period size: 38 Copynumber: 16.7 Consensus size: 38
2778643 AATCTTTCAA
* *
2778653 TGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATATT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* *
2778691 TGTTATTCTTGATTTCCTCGTGAAGAGAAATCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
** *
2778729 TG------TT-A-TTCCTCGCAAAGAGAGGTCAATCTTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC-TT
* *
2778760 TGTTATTCTTGAC-TCGCTCCTGAAGAGGAGTCAATCTTTCAT
1 TGTTATTCTTGACTTC-CTCGTGAAGAGAAGTCAATC--T--T
* *
2778802 TGTTATTCTTGACTTCCTCATGAAGAGAAGTCGATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* *
2778840 TGTTATTCTTGACTTCCTCATTAAGAGAAGTCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * *
2778878 TGTTATTCTTGAATCCCTCATGAAGA-AGAGTCAATCTTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGA-AGTCAATC-TT
* * * *
2778917 CAATGTTATTCTTGACTTCATTGTGAAGAGAAGTCAGTCAT
1 ---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* *
2778958 TGTTATCCTTGACTTTCTCGTGAAGAGAAGTCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * * *
2778996 TCAGTATTTTCTTTCTTGACTTCCTTGTGAAGATAAGTCAATCTCCCAA
1 T--G----TT-ATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT----T
*
2779045 TGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * * *
2779083 TGTTATTTTTGACTCCCTCGTAAAGAGGAGTCAATCTTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC-TT
* *
2779122 CAATGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTT
1 ---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * * *
2779163 TGTTATCCTTGACTTTCTCATGAAGAGAAGTCCATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* *
2779201 TCAGTATTGTCTTTCTTGACTTCCTCGTGAAGAGAAGTCAATCTCCCAA
1 T--G---T-T-ATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT----T
2779250 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * *
2779288 TGTTATTCTTAACTCCCTCGCGAAGAG
1 TGTTATTCTTGACTTCCTCGTGAAGAG
2779315 GTGATAACTC
Statistics
Matches: 507, Mismatches: 71, Indels: 92
0.76 0.11 0.14
Matches are distributed among these distances:
30 19 0.04
31 5 0.01
32 2 0.00
37 3 0.01
38 230 0.45
39 19 0.04
40 5 0.01
41 3 0.01
42 150 0.30
43 7 0.01
44 4 0.01
45 56 0.11
47 2 0.00
49 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (38 bp):
TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
Found at i:2778738 original size:30 final size:31
Alignment explanation
Indices: 2778704--2778767 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
2778694 TATTCTTGAT
**
2778704 TTCCTCGTGAAGAGAAATCAATC-TTTGTTA
1 TTCCTCGCAAAGAGAAATCAATCTTTTGTTA
**
2778734 TTCCTCGCAAAGAGAGGTCAATCTTTTGTTA
1 TTCCTCGCAAAGAGAAATCAATCTTTTGTTA
2778765 TTC
1 TTC
2778768 TTGACTCGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (31 bp):
TTCCTCGCAAAGAGAAATCAATCTTTTGTTA
Found at i:2778872 original size:80 final size:80
Alignment explanation
Indices: 2778743--2779288 Score: 511
Period size: 80 Copynumber: 6.7 Consensus size: 80
2778733 ATTCCTCGCA
* * *
2778743 AAGAGAGGTCAATCTTTTGTTATTCTTGAC-TCGCTCCTGAAGAGGAGTCAATCTTTCATTGTTA
1 AAGAGAAGTCAATC-TTTGTTATTCTTGACTTC-CTCGTGAAGAGAAGTCAATCTTTCATTGTTA
2778807 TTCTTGACTTCCTCATG
64 TTCTTGACTTCCTCATG
* * *
2778824 AAGAGAAGTCGATCTTTGTTATTCTTGACTTCCTCATTAAGAGAAGTCAATC--T--TTGTTATT
1 AAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCATTGTTATT
* *
2778885 CTTGAATCCCTCATG
66 CTTGACTTCCTCATG
* * *
2778900 AAGA-AGAGTCAATCTTTCAATGTTATTCTTGACTTCATTGTGAAGAGAAGTC-A---GTCATTG
1 AAGAGA-AGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCATTG
* * *
2778960 TTATCCTTGACTTTCTCGTG
61 TTATTCTTGACTTCCTCATG
* * * ** *
2778980 AAGAGAAGTCAATCTTTCAGTATTTTCTTTCTTGACTTCCTTGTGAAGATAAGTCAATCTCCCAA
1 AAGAGAAGTCAATCTTT--G----TT-ATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCAT
2779045 TGTTATTCTTGACTTCCTCATG
59 TGTTATTCTTGACTTCCTCATG
* * * * * *
2779067 AAGAGAAGTCAATCTTTGTTATTTTTGACTCCCTCGTAAAGAGGAGTCAATCTTTCAATGTCATT
1 AAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCATTGTTATT
* *
2779132 CTTGACTTTCTCGTG
66 CTTGACTTCCTCATG
* * * *
2779147 AAGAGAAGTCAATCTTTGTTATCCTTGACTTTCTCATGAAGAGAAGTCCATCTTTCAGTATTGTC
1 AAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTC---ATTGT-
*
2779212 T-TTCTTGACTTCCTCGTG
62 TATTCTTGACTTCCTCATG
*
2779230 AAGAGAAGTCAATCTCCCAATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT
1 AAGAGAAGTCAATCT----TTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT
2779289 GTTATTCTTA
Statistics
Matches: 382, Mismatches: 54, Indels: 52
0.78 0.11 0.11
Matches are distributed among these distances:
75 1 0.00
76 33 0.09
77 2 0.01
78 3 0.01
79 3 0.01
80 186 0.49
81 17 0.04
82 2 0.01
83 60 0.16
84 1 0.00
85 1 0.00
87 73 0.19
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (80 bp):
AAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTCATTGTTATT
CTTGACTTCCTCATG
Found at i:2779116 original size:205 final size:205
Alignment explanation
Indices: 2778743--2779307 Score: 795
Period size: 205 Copynumber: 2.8 Consensus size: 205
2778733 ATTCCTCGCA
* * * ** * * *
2778743 AAGAGAGGTCAATCTTTTGTTATTCTTGACTCGCTCCTGAAGAGGAGTCAATCTTTCA-T-TGTT
1 AAGAGAAGTCAATC-ATTGTTATCCTTGACTTTCTCATGAAGAGAAGTCAATCTTTCAGTATTTT
* * * * *
2778806 -ATTCTTGACTTCCTCATGAAGAGAAGTCGATCT----TTGTTATTCTTGACTTCCTCATTAAGA
65 CTTTCTTGACTTCCTCGTGAAGAGAAGTCAATCTCCCAATGTTATTCTTGACTTCCTCATGAAGA
* * * *
2778866 GAAGTCAATCTTTGTTATTCTTGAATCCCTCATGAAGAAGAGTCAATCTTTCAATGTTATTCTTG
130 GAAGTCAATCTTTGTTATTCTTGACTCCCTCGTAAAGAAGAGTCAATCTTTCAATGTCATTCTTG
*
2778931 AC-TTCATTGTG
195 ACTTTC-TCGTG
* *
2778942 AAGAGAAGTCAGTCATTGTTATCCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTATTTTC
1 AAGAGAAGTCAATCATTGTTATCCTTGACTTTCTCATGAAGAGAAGTCAATCTTTCAGTATTTTC
* *
2779007 TTTCTTGACTTCCTTGTGAAGATAAGTCAATCTCCCAATGTTATTCTTGACTTCCTCATGAAGAG
66 TTTCTTGACTTCCTCGTGAAGAGAAGTCAATCTCCCAATGTTATTCTTGACTTCCTCATGAAGAG
* *
2779072 AAGTCAATCTTTGTTATTTTTGACTCCCTCGTAAAGAGGAGTCAATCTTTCAATGTCATTCTTGA
131 AAGTCAATCTTTGTTATTCTTGACTCCCTCGTAAAGAAGAGTCAATCTTTCAATGTCATTCTTGA
2779137 CTTTCTCGTG
196 CTTTCTCGTG
* * *
2779147 AAGAGAAGTCAATCTTTGTTATCCTTGACTTTCTCATGAAGAGAAGTCCATCTTTCAGTATTGTC
1 AAGAGAAGTCAATCATTGTTATCCTTGACTTTCTCATGAAGAGAAGTCAATCTTTCAGTATTTTC
*
2779212 TTTCTTGACTTCCTCGTGAAGAGAAGTCAATCTCCCAATGTTATTCTTGACTTCCTCGTGAAGAG
66 TTTCTTGACTTCCTCGTGAAGAGAAGTCAATCTCCCAATGTTATTCTTGACTTCCTCATGAAGAG
*
2779277 AAGTCAATCTTTGTTATTCTTAACTCCCTCG
131 AAGTCAATCTTTGTTATTCTTGACTCCCTCG
2779308 CGAAGAGGTG
Statistics
Matches: 325, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
198 37 0.11
199 13 0.04
200 3 0.01
201 28 0.09
205 241 0.74
206 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.39
Consensus pattern (205 bp):
AAGAGAAGTCAATCATTGTTATCCTTGACTTTCTCATGAAGAGAAGTCAATCTTTCAGTATTTTC
TTTCTTGACTTCCTCGTGAAGAGAAGTCAATCTCCCAATGTTATTCTTGACTTCCTCATGAAGAG
AAGTCAATCTTTGTTATTCTTGACTCCCTCGTAAAGAAGAGTCAATCTTTCAATGTCATTCTTGA
CTTTCTCGTG
Found at i:2779314 original size:125 final size:119
Alignment explanation
Indices: 2778734--2779306 Score: 531
Period size: 125 Copynumber: 4.7 Consensus size: 119
2778724 ATCTTTGTTA
** * * *
2778734 TTCCTCGCAAAGAGAGGTCAATCTTT---TGTTATTCTTGAC-TCGCTCCTGAAGAGGAGTCAAT
1 TTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATTCTTGACTTC-CTCGTGAAGAGAAGTCAAT
*
2778795 CTTTCATTGTTATTCTTGACTTCCTCATGAAGAGAAGTCGATCTTTGTTA-TTCTTGAC
65 C--T--TTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTTCTTGAC
* * * * *
2778853 TTCCTCATTAAGAGAAGTCAATC-TT---TGTTATTCTTGAATCCCTCATGAAGA-AGAGTCAAT
1 TTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGA-AGTCAAT
* ** * * *
2778913 CTTTCAATGTTATTCTTGACTTCATTGTGAAGAGAAGTCAGTCATTGTTA-TCCTTGAC
65 C-TT---TGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTTCTTGAC
* * * * *
2778971 TTTCTCGTGAAGAGAAGTCAATCTTTCAGTATTTTCTTTCTTGACTTCCTTGTGAAGATAAGTCA
1 TTCCTCGTGAAGAGAAGTCAATCTTTCA--ATGTT-ATTCTTGACTTCCTCGTGAAGAGAAGTCA
*
2779036 ATCTCCCAATGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTT-TTGAC
63 ATCT----TTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTTCTTGAC
* * * * *
2779096 TCCCTCGTAAAGAGGAGTCAATCTTTCAATGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATC
1 TTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC
* * * *
2779161 TTTGTTATCCTTGACTTTCTCATGAAGAGAAGTCCATCTTTCAGTATTGTCTTTCTTGAC
66 TTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTT--G---T-TATTTCTTGAC
**
2779221 TTCCTCGTGAAGAGAAGTCAATCTCCCAATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC
1 TTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC
* *
2779286 TTTGTTATTCTTAACTCCCTC
66 TTTGTTATTCTTGACTTCCTC
2779307 GCGAAGAGGT
Statistics
Matches: 372, Mismatches: 57, Indels: 44
0.79 0.12 0.09
Matches are distributed among these distances:
115 1 0.00
117 2 0.01
118 131 0.35
119 22 0.06
120 1 0.00
122 29 0.08
123 4 0.01
124 8 0.02
125 172 0.46
126 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (119 bp):
TTCCTCGTGAAGAGAAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC
TTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTTCTTGAC
Found at i:2786211 original size:45 final size:45
Alignment explanation
Indices: 2786159--2786665 Score: 536
Period size: 45 Copynumber: 11.3 Consensus size: 45
2786149 TTTCAATGTT
* ** * * *
2786159 TTTCTTGACTTTCTCTTGAAGATAAGTCAATCTTTCAGTATTGCC
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
** * * **
2786204 TTTCTTGACTCCCTCGTGAAGAGGAGTTAATCTTTCAACG-T-T-
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
* * * *
2786246 ATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTCTCAGTATTGTC
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
* * ** * * *
2786291 ATTCTTGACTTTCTCGTCAAGATAAATTAATCTTTTAGTATTGT-
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
* *
2786335 TTTCCTTGGCTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTC
1 TTT-CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
* * * *
2786381 CTTCTTGACATTCTCGCGAAGAGGAGTCAATATTTTAGTGTTGTC
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
* *
2786426 TTTCTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTAGTGTTTTC
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
** * *
2786471 TTTCTTGACTTTCTCACGAAGAGGAGTCAATCTTTCAATGTTGTC
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
* * * * *
2786516 TTTCTTGAGTTTTTCGTGAAGAAGAGTCAATATTTTAGTGGTGTC
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
** *
2786561 TTTCTTGACTTTCTCGCAAAGAGGAGTCAATCTTTTAGTGTTGTA
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
* * * **
2786606 TTTCTTGACTTTCTCATAAAGAGAAGTTGATCTTTTAGTGTTGTC
1 TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
*
2786651 TTTTTTGACTTTCTC
1 TTTCTTGACTTTCTC
2786666 ACAAAGAATA
Statistics
Matches: 387, Mismatches: 70, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
42 32 0.08
43 1 0.00
44 4 0.01
45 348 0.90
46 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (45 bp):
TTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
Found at i:2787635 original size:41 final size:41
Alignment explanation
Indices: 2787578--2787655 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
2787568 ACATTCTTCT
*
2787578 TCGATACTGATTCAATCTTCCCTTAAGAGAAGTGAAGCAAA
1 TCGATACTGATTCAATCTTCCCTGAAGAGAAGTGAAGCAAA
* *
2787619 TCGATTCTGATTCAATCTTCCCTGAAGAGCAGTGAAG
1 TCGATACTGATTCAATCTTCCCTGAAGAGAAGTGAAG
2787656 TAGATCAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
TCGATACTGATTCAATCTTCCCTGAAGAGAAGTGAAGCAAA
Found at i:2788048 original size:134 final size:134
Alignment explanation
Indices: 2787451--2788040 Score: 774
Period size: 134 Copynumber: 4.4 Consensus size: 134
2787441 TTCAATTTTT
* * * *
2787451 AGATATGGTCTTCCTGAAGAGCAGCGAAGCAAATC-ACGTTC-GATTCAATCTTTCCTGAAGAGC
1 AGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGA--TTCTGATTCAATCTTCCCTGAAGAAC
* * *
2787514 A-TCGAAGTGGATCAAA-TTTTCTAGAGTCTTATCTCCCCTAAAGAGTAGTGGAGCACATTCTTC
64 AGT-GAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTC
* *
2787577 TTCGATAC
128 TTC-TTTC
* *** * * *
2787585 TGATTCAATCTTCCCTTAAGAGAAGTGAAGCAAATCGATTCTGATTCAATCTTCCCTGAAGAGCA
1 AGATTTGGTCTT-CCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTTCCCTGAAGAACA
* * * * *
2787650 GTGAAGTAGATCAAATTTTTCTCGAGTTTGATCTCCCCTAAAGTGTAGTGGAGTAGATTCTTCTT
65 GTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTT
*
2787715 ATTTC
130 CTTTC
* * * *
2787720 AGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATTGATTTTGAATCAATCTTCCCTGAAGAATAG
1 AGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTTCCCTGAAGAACAG
* * ** *
2787785 TGAAGTGGATCAAAGTTATCTCGAGTCTGATCTCCCCTAAAGAGTGGTGGAGCAGACACATCTTC
66 TGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTC
2787850 TTTC
131 TTTC
* * *
2787854 AGATTTGGTATTCCTGAAGAGCAGTGAAGCAAATCGATTTTGATTCAATCTTCCCTGAAGAATAG
1 AGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTTCCCTGAAGAACAG
* * *
2787919 TGAAGTGGATCAAAGTTTTCTCGAGTCTGGTCTCCCCTAAAGAGTTGTGGAGTAGATTCTTCTTC
66 TGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTC
2787984 TTTC
131 TTTC
2787988 AGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTTC
1 AGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTTC
2788041 TCGGAAGATC
Statistics
Matches: 398, Mismatches: 53, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
134 289 0.73
135 64 0.16
136 45 0.11
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (134 bp):
AGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTTCCCTGAAGAACAG
TGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTC
TTTC
Found at i:2788259 original size:3 final size:3
Alignment explanation
Indices: 2788253--2788291 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
2788243 TTTATTTTTT
* *
2788253 TTA TTA TTA TCA TTA TCA TTA TTA TTTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
2788292 TTCATTTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2790631 original size:16 final size:18
Alignment explanation
Indices: 2790612--2790649 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
2790602 ATATTATAAA
2790612 TTAAAAAT-ATAT-TATT
1 TTAAAAATCATATATATT
*
2790628 TTAAAAATCATTTATATT
1 TTAAAAATCATATATATT
2790646 TTAA
1 TTAA
2790650 TATATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAAAATCATATATATT
Found at i:2791284 original size:25 final size:25
Alignment explanation
Indices: 2791252--2791311 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
2791242 ATTTTTAGTA
2791252 GAAAAATAATATTTATTATAATGAC
1 GAAAAATAATATTTATTATAATGAC
*
2791277 GAAAAATAATATTTTTTATAATGAC
1 GAAAAATAATATTTATTATAATGAC
*
2791302 GAAGAATAAT
1 GAAAAATAAT
2791312 GGCACCATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (25 bp):
GAAAAATAATATTTATTATAATGAC
Found at i:2791619 original size:25 final size:25
Alignment explanation
Indices: 2791587--2791661 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
2791577 AGTAGAAAAA
2791587 ATTTATTATAATGACGAAAAATAAT
1 ATTTATTATAATGACGAAAAATAAT
2791612 ATTTATTATAATGACGAAAAATAAT
1 ATTTATTATAATGACGAAAAATAAT
2791637 ATTTATTATAATGACGAAAAATAAT
1 ATTTATTATAATGACGAAAAATAAT
2791662 GACACCATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (25 bp):
ATTTATTATAATGACGAAAAATAAT
Found at i:2794934 original size:21 final size:21
Alignment explanation
Indices: 2794910--2794979 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
2794900 CTTGTCTTTT
2794910 TTATTTTTTATTTTATTTTGG
1 TTATTTTTTATTTTATTTTGG
* * *
2794931 TTATAATGTT-TTTTATTTTTG
1 TTAT-TTTTTATTTTATTTTGG
*
2794952 TTATTTTATTATTTTAATTATGG
1 TTATTTT-TTATTTT-ATTTTGG
2794975 TTATT
1 TTATT
2794980 AATTGTTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 1 0.03
21 20 0.53
22 7 0.18
23 10 0.26
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (21 bp):
TTATTTTTTATTTTATTTTGG
Found at i:2794995 original size:47 final size:41
Alignment explanation
Indices: 2794906--2794995 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 41
2794896 TGTACTTGTC
* *
2794906 TTTTTTATTTTTTATTTTATTTTGGTTATAATGTTTTTTAT
1 TTTTTTATTTTTTATTTTATTATGGTTATAATGTTTTGTAT
2794947 TTTTGTTATTTTATTATTTTAATTATGGTTATTAATTGTTTTGGTAT
1 TTTT-TTATTTT-TTATTTT-ATTATGGTTA-TAA-TGTTTT-GTAT
2794994 TT
1 TT
2794996 CCATAGCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
41 4 0.10
42 7 0.17
43 7 0.17
44 9 0.22
45 3 0.07
46 6 0.15
47 5 0.12
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (41 bp):
TTTTTTATTTTTTATTTTATTATGGTTATAATGTTTTGTAT
Found at i:2801120 original size:76 final size:73
Alignment explanation
Indices: 2801040--2801200 Score: 202
Period size: 76 Copynumber: 2.2 Consensus size: 73
2801030 AAGCAGACTC
2801040 TGTCTCGCTTGAGATAA-TTTTACTC-AAAAGAAGACATTTCATTTGACAC-CAAGATTATTGTA
1 TGTCTCGCTTGAGATAATTTTTACTCGAAAA-AAGACATTTCATTT--CACTCAAGATTATT-T-
2801102 CTTAAAACAAGATT
61 -TTAAAACAAGATT
* * *
2801116 TGTCTCACTTGAGATAATTTTTACTCGAAAAAAGACATTTTATTTCACTCAAGATTGTTTTTAAA
1 TGTCTCGCTTGAGATAATTTTTACTCGAAAAAAGACATTTCATTTCACTCAAGATTATTTTTAAA
*
2801181 AGAAGATT
66 ACAAGATT
*
2801189 TATCTCGCTTGA
1 TGTCTCGCTTGA
2801201 TATAGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
73 22 0.29
75 4 0.05
76 25 0.33
77 21 0.28
78 4 0.05
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (73 bp):
TGTCTCGCTTGAGATAATTTTTACTCGAAAAAAGACATTTCATTTCACTCAAGATTATTTTTAAA
ACAAGATT
Found at i:2801663 original size:40 final size:39
Alignment explanation
Indices: 2801534--2801866 Score: 488
Period size: 39 Copynumber: 8.5 Consensus size: 39
2801524 AGGGATCAAC
*
2801534 ATCTCACTTGAGATAGTTTCACTCGAAACAGATGATTTT
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTT
** * *
2801573 ATCTCGTTTTAGATAGTTTCACTCGAAACAAAAGATTTT
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTT
**
2801612 ATCTTGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTT
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
*
2801652 ATCTCACTTGAGATAGTTTCACTCGAAACAAAAGATTTT
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTT
**
2801691 ATCTTGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTT
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
2801731 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTTT
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
* *
2801771 ATCTCACTTGAGATAGTTTCACTCGAAATAAAAGATTTT
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
2801810 ATCTCGCTTGAGATAATTTCACTTGAAACAGAAGA-TTT
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
2801848 ATCTCACTTGAGATTGTTT
1 ATCTCACTTGAGATAGTTT
2801867 TTCTTAAAAC
Statistics
Matches: 265, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
38 19 0.07
39 135 0.51
40 111 0.42
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (39 bp):
ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:2801684 original size:79 final size:78
Alignment explanation
Indices: 2801534--2801866 Score: 488
Period size: 79 Copynumber: 4.2 Consensus size: 78
2801524 AGGGATCAAC
* ** *
2801534 ATCTCACTTGAGATAGTTTCACTCGAAACAGATGATTTTATCTCGTTTTAGATAGTTTCACTCGA
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGA
2801599 AACAAAAGATTTT
66 AACAAAAGATTTT
**
2801612 ATCTTGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTTATCTCACTTGAGATAGTTTCACTCG
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGA-TTTTATCTCACTTGAGATAGTTTCACTCG
2801677 AAACAAAAGATTTT
65 AAACAAAAGATTTT
**
2801691 ATCTTGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTTATCTCACTTGAGATAGTTTCACTCG
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGA-TTTTATCTCACTTGAGATAGTTTCACTCG
*
2801756 AAACAGAAGATTTTT
65 AAACAAAAGA-TTTT
* * * * *
2801771 ATCTCACTTGAGATAGTTTCACTCGAAATAAAAGATTTTATCTCGCTTGAGATAATTTCACTTGA
1 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGA
*
2801836 AACAGAAGA-TTT
66 AACAAAAGATTTT
*
2801848 ATCTCACTTGAGATTGTTT
1 ATCTCACTTGAGATAGTTT
2801867 TTCTTAAAAC
Statistics
Matches: 238, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
77 21 0.09
78 32 0.13
79 150 0.63
80 35 0.15
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (78 bp):
ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGA
AACAAAAGATTTT
Found at i:2804206 original size:26 final size:28
Alignment explanation
Indices: 2804176--2804247 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 28
2804166 CTTATACATA
*
2804176 TGTTTATTTTATTTTTTA-TTTTA-TCT
1 TGTTTATTTTATTTTTTATTTTTATTAT
*
2804202 TGTTT-TTACTATTTTTTATTTTTATTAT
1 TGTTTATT-TTATTTTTTATTTTTATTAT
2804230 TG-TTATTTTATTATTTTA
1 TGTTTATTTTATT-TTTTA
2804248 ATTATGTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 2 0.05
26 14 0.37
27 11 0.29
28 11 0.29
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (28 bp):
TGTTTATTTTATTTTTTATTTTTATTAT
Found at i:2804207 original size:22 final size:23
Alignment explanation
Indices: 2804182--2804259 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
2804172 CATATGTTTA
* *
2804182 TTTTATTTTTTATTTTATCTTGTT
1 TTTTATTTTTTATTTTATATT-AT
2804206 TTTACTATTTTTTATTTT-TATTAT
1 TTT--TATTTTTTATTTTATATTAT
*
2804230 TGTTATTTTATTATTTTA-ATTAT
1 TTTTATTTT-TTATTTTATATTAT
*
2804253 GTTTATT
1 TTTTATT
2804260 AATCGTTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 6 0.13
23 17 0.38
24 6 0.13
25 3 0.07
26 13 0.29
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTTATTTTTTATTTTATATTAT
Found at i:2805706 original size:25 final size:25
Alignment explanation
Indices: 2805678--2805831 Score: 128
Period size: 25 Copynumber: 5.7 Consensus size: 25
2805668 TGTTGACGCT
* *
2805678 ATATTTAATGAATATGATTATATGA
1 ATATTTAATGAATGTGATTATATCA
* *
2805703 ATATTGAATTAATGTGATTATATCA
1 ATATTTAATGAATGTGATTATATCA
* * *
2805728 ATATTTAAATTAATAGATAGTATTGTTGATGCT
1 ATATTT-AATGAAT-G-T-G-ATT-AT-AT-CA
2805761 ATATTTAATGAATGTGATTATATCA
1 ATATTTAATGAATGTGATTATATCA
* *
2805786 ATAGTTGAATTAATGTGATTAATATCA
1 ATA-TTTAATGAATGTGATT-ATATCA
2805813 ATATTTGAATGAATGTGAT
1 ATATTT-AATGAATGTGAT
2805832 GGATATTAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 20
0.75 0.10 0.14
Matches are distributed among these distances:
25 30 0.29
26 25 0.24
27 22 0.21
28 4 0.04
29 2 0.02
30 4 0.04
31 2 0.02
32 8 0.08
33 7 0.07
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.44
Consensus pattern (25 bp):
ATATTTAATGAATGTGATTATATCA
Found at i:2805837 original size:27 final size:26
Alignment explanation
Indices: 2805761--2805831 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 26
2805751 TGTTGATGCT
*
2805761 ATATTT-AATGAATGTGATTATATCA
1 ATATTTGAATGAATGTGATAATATCA
* *
2805786 ATAGTTGAATTAATGTGATTAATATCA
1 ATATTTGAATGAATGTGA-TAATATCA
2805813 ATATTTGAATGAATGTGAT
1 ATATTTGAATGAATGTGAT
2805832 GGATATTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 5 0.13
26 11 0.28
27 23 0.59
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (26 bp):
ATATTTGAATGAATGTGATAATATCA
Found at i:2808769 original size:112 final size:112
Alignment explanation
Indices: 2808644--2808848 Score: 292
Period size: 112 Copynumber: 1.8 Consensus size: 112
2808634 ATAAAAATAT
* *
2808644 AATTTAAACTAAACTTACCAAACTAC-TCAAATACAACTT-AATATGTAAAATCAAAATAAATAG
1 AATTTAAACTAAACTTACCAAACAACGT-AAATA-AACTTCAATATGTAAAATCAAAATAAATAA
2808707 TCTAA-TAA-TTATTATTTAAAAATAAAAAATACACTAAAACTTACACGAA
64 TCTAATTAATTTA-TATTT-AAAATAAAAAATACACTAAAACTTACACGAA
* * * *
2808756 AATTTAAATTAAACTTACCAAACAACGTAAATATAGTTCAATATGTAAAATCTAAATAAATAATC
1 AATTTAAACTAAACTTACCAAACAACGTAAATAAACTTCAATATGTAAAATCAAAATAAATAATC
2808821 TAATTAATTTATATTTAAAATAAAAAAT
66 TAATTAATTTATATTTAAAATAAAAAAT
2808849 GAAACAATAA
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
111 3 0.04
112 68 0.82
113 9 0.11
114 3 0.04
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (112 bp):
AATTTAAACTAAACTTACCAAACAACGTAAATAAACTTCAATATGTAAAATCAAAATAAATAATC
TAATTAATTTATATTTAAAATAAAAAATACACTAAAACTTACACGAA
Found at i:2808834 original size:289 final size:286
Alignment explanation
Indices: 2808289--2808846 Score: 831
Period size: 289 Copynumber: 1.9 Consensus size: 286
2808279 CTCAAATACG
2808289 ATTTAATCCCTAAAAAAAATAATTAATAATTTATATTACTCAATAAAAAAAATAAAAAATATAAT
1 ATTTAATCCCTAAAAAAAATAATTAATAATTTATATTACTC-ATAAAAAAAATAAAAAATATAAT
* *
2808354 TTAAACTAAATTTACCAAACTACTCAAATACAACTTAATATGTAAAATCGAAATAAATAGTCTAA
65 TTAAACTAAACTTACCAAACTACTCAAATACAACTTAATATGTAAAATCAAAATAAATAGTCTAA
*
2808419 TAATTATAATTTAAATTAAAAACCAAATTATACTAAAAATTACACGAAAATATAAATTAAAATTA
130 TAATTATAATTTAAA-TAAAAA-CAAATTACACTAAAAATTACACGAAAATATAAATTAAAATTA
* * * *
2808484 GCAAACCACTCAAATATAGTTTAATCTGTAAAATCAAAATAAATAATCTAATTAATTTATATTTA
193 CCAAACAACTCAAATATAGTTCAATATGTAAAATCAAAATAAATAATCTAATTAATTTATATTTA
*
2808549 CAATAAAAACCCTAAACCCTAAATAATAA
258 AAATAAAAACCCTAAACCCTAAATAATAA
* *
2808578 ATTTAATCCCTAAAATAAAAATAATTAGTCTCATAATTTATATTACTC-TATAGAAAAT-AAAAA
1 ATTTAATCCCT-AAA-AAAAATAATTA-----ATAATTTATATTACTCATAAAAAAAATAAAAAA
2808641 TATAATTTAAACTAAACTTACCAAACTACTCAAATACAACTTAATATGTAAAATCAAAATAAATA
59 TATAATTTAAACTAAACTTACCAAACTACTCAAATACAACTTAATATGTAAAATCAAAATAAATA
* * *
2808706 GTCTAATAATTATTATTTAAA-AATAAA-AAA-TACACTAAAACTTACACGAAAATTTAAATTAA
124 GTCTAATAATTATAATTTAAATAA-AAACAAATTACACTAAAAATTACACGAAAATATAAATTAA
* *
2808768 ACTTACCAAACAACGT-AAATATAGTTCAATATGTAAAATCTAAATAAATAATCTAATTAATTTA
188 AATTACCAAACAAC-TCAAATATAGTTCAATATGTAAAATCAAAATAAATAATCTAATTAATTTA
2808832 TATTTAAAATAAAAA
252 TATTTAAAATAAAAA
2808847 ATGAAACAAT
Statistics
Matches: 245, Mismatches: 15, Indels: 18
0.88 0.05 0.06
Matches are distributed among these distances:
289 110 0.45
290 7 0.03
291 13 0.05
292 3 0.01
293 88 0.36
294 8 0.03
296 16 0.07
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.32
Consensus pattern (286 bp):
ATTTAATCCCTAAAAAAAATAATTAATAATTTATATTACTCATAAAAAAAATAAAAAATATAATT
TAAACTAAACTTACCAAACTACTCAAATACAACTTAATATGTAAAATCAAAATAAATAGTCTAAT
AATTATAATTTAAATAAAAACAAATTACACTAAAAATTACACGAAAATATAAATTAAAATTACCA
AACAACTCAAATATAGTTCAATATGTAAAATCAAAATAAATAATCTAATTAATTTATATTTAAAA
TAAAAACCCTAAACCCTAAATAATAA
Found at i:2809082 original size:25 final size:25
Alignment explanation
Indices: 2809030--2809082 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
2809020 CGATGCATTG
* *
2809030 CATTATTGGTGCACAATAATGTCAC
1 CATTATTAGTGCACAATAATGACAC
* *
2809055 CATTATTAGTGCCCAATAATGACTC
1 CATTATTAGTGCACAATAATGACAC
2809080 CAT
1 CAT
2809083 GATTCGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (25 bp):
CATTATTAGTGCACAATAATGACAC
Found at i:2809778 original size:20 final size:20
Alignment explanation
Indices: 2809749--2809788 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2809739 CCCTAGTGGT
2809749 GATAGATTATTCATAAACTC
1 GATAGATTATTCATAAACTC
*
2809769 GATAGGTTATTCATAAACTC
1 GATAGATTATTCATAAACTC
2809789 ACACGTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
GATAGATTATTCATAAACTC
Found at i:2815097 original size:29 final size:31
Alignment explanation
Indices: 2815064--2815125 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
2815054 AGAAATGCAC
*
2815064 ATTAAGAAG-AAA-AAAACTACAAATTTAAT
1 ATTAAAAAGAAAAGAAAACTACAAATTTAAT
2815093 ATTAAAAAGAAAAAGAAAACTACAAATTTAAT
1 ATTAAAAAG-AAAAGAAAACTACAAATTTAAT
2815125 A
1 A
2815126 CATTACCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 8 0.28
31 3 0.10
32 18 0.62
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (31 bp):
ATTAAAAAGAAAAGAAAACTACAAATTTAAT
Found at i:2818030 original size:44 final size:45
Alignment explanation
Indices: 2817955--2818058 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 45
2817945 TGCATAAGTG
* *
2817955 AGTGCATCGATGCATACTTAAATAAATAAACATCGAAGGTAGT-T
1 AGTGCATCGATGCATACTTAAATAAATAAACAACGAAGGTAATAT
* * *
2817999 AGTGCATCGATGCATCCCTTAAGAT-GA-AAACAACGAATGTAATAT
1 AGTGCATCGATGCAT-ACTTAA-ATAAATAAACAACGAAGGTAATAT
*
2818044 A-CGCATCGATGCATA
1 AGTGCATCGATGCATA
2818059 GGTTATGCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
44 40 0.80
45 8 0.16
46 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (45 bp):
AGTGCATCGATGCATACTTAAATAAATAAACAACGAAGGTAATAT
Found at i:2818482 original size:59 final size:60
Alignment explanation
Indices: 2818408--2818775 Score: 225
Period size: 59 Copynumber: 6.3 Consensus size: 60
2818398 TACCGAATGA
* * *
2818408 AGCACTTTGTGTGCTAAAACGATAAGGAAA-CTATACTGAGTGTATAGATTTCCATAT-GG
1 AGCACTTAGTGTGCTAAAATGATAAGGAAATC-ATACTGAGTGTATGGATTTCCATATAGG
* * * *
2818467 AGCACTTAGTGTGCT-AAATGATAAAGAAATCATATTAAAAT-TATGGATTTCCATATAGG
1 AGCACTTAGTGTGCTAAAATGATAAGGAAATCATACT-GAGTGTATGGATTTCCATATAGG
* * * *
2818526 -GCATGTTA-TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCAGATA-A
1 AGCA-CTTAGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATAGG
* * * * * * *
2818584 AGCACTAAG-GATGCTATAAGGATAAGAAAATCATACT-AATGGTAT-GATTTTCACATAGG
1 AGCACTTAGTG-TGCTAAAATGATAAGGAAATCATACTGAGT-GTATGGATTTCCATATAGG
* * ** * * *
2818643 -GCATTTTA-TGTGCTAAAATGGTAACAAAATCATACT-AATGGTATGAATTTTCGA-ATAGG
1 AGCA-CTTAGTGTGCTAAAATGATAAGGAAATCATACTGAGT-GTATGGA-TTTCCATATAGG
* * * *
2818702 -GCACTTCGTGTGCTAAAATGA-AAGAGGAAGCATACT-ATGTGTAT-GATCTTCCAGATA-G
1 AGCACTTAGTGTGCTAAAATGATAAG-GAAATCATACTGA-GTGTATGGAT-TTCCATATAGG
* *
2818760 AGCACTGAGAGTGCTA
1 AGCACTTAGTGTGCTA
2818776 TTATAAAATG
Statistics
Matches: 241, Mismatches: 47, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
57 1 0.00
58 99 0.41
59 136 0.56
60 5 0.02
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (60 bp):
AGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATAGG
Found at i:2818633 original size:117 final size:117
Alignment explanation
Indices: 2818417--2818678 Score: 307
Period size: 117 Copynumber: 2.2 Consensus size: 117
2818407 AAGCACTTTG
* * * ** *
2818417 TGTGCTAAAACGATAAGGAAA-CTATACTGAGTGTATAGATTTCCATATGGAGCACTTAGTGTGC
1 TGTGCTAAAATGGTAAGGAAATC-ATACTGAGTGTATAGATTTCCAGATAAAGCACTAAGTGTGC
* * * *
2818481 TAAATGATAAAGAAATCATATTAAAATTATGGATTTCCATATAGGGCATGTTA
65 TAAAGGATAAAGAAATCATACTAAAAGTATGGATTTCCACATAGGGCATGTTA
*
2818534 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTAAG-GATGC
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAAAGCACTAAGTG-TGC
** * *
2818598 TATAAGGAT-AAGAAAATCATACTAATGGTAT-GATTTTCACATAGGGCATTTTA
65 TA-AAGGATAAAG-AAATCATACTAAAAGTATGGATTTCCACATAGGGCATGTTA
**
2818651 TGTGCTAAAATGGTAACAAAATCATACT
1 TGTGCTAAAATGGTAAGGAAATCATACT
2818679 AATGGTATGA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
116 1 0.01
117 103 0.83
118 20 0.16
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (117 bp):
TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAAAGCACTAAGTGTGCT
AAAGGATAAAGAAATCATACTAAAAGTATGGATTTCCACATAGGGCATGTTA
Found at i:2818716 original size:117 final size:117
Alignment explanation
Indices: 2818440--2818718 Score: 273
Period size: 117 Copynumber: 2.4 Consensus size: 117
2818430 TAAGGAAACT
* * ** * *
2818440 ATACTGAGTGTAT-AGATTTCCATATGGAGCACTTAGTGTGCTAAATGATAAAGAAATCATATTA
1 ATACTAAGTGTATGA-ATTTCCAGATAAAGCACTTAGTGTGCTAAAGGATAAAGAAATCATACTA
* * **
2818504 AAATTATGGATTTCCATATAGGGCATGTTATGTGCTAAAATGGTAAGGAAATC
65 AAAGTATGGATTTCCACATAGGGCATGTTATGTGCTAAAATGGTAACAAAATC
* * *
2818557 ATACTGAGTGTATGGATTTCCAGATAAAGCACTAAG-GATGCTATAAGGAT-AAGAAAATCATAC
1 ATACTAAGTGTATGAATTTCCAGATAAAGCACTTAGTG-TGCTA-AAGGATAAAG-AAATCATAC
** * *
2818620 TAATGGTAT-GATTTTCACATAGGGCATTTTATGTGCTAAAATGGTAACAAAATC
63 TAAAAGTATGGATTTCCACATAGGGCATGTTATGTGCTAAAATGGTAACAAAATC
* ** *
2818674 ATACTAA-TGGTATGAATTTTC-GAATAGGGCACTTCGTGTGCTAAA
1 ATACTAAGT-GTATGAATTTCCAG-ATAAAGCACTTAGTGTGCTAAA
2818719 ATGAAAGAGG
Statistics
Matches: 133, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
116 5 0.04
117 108 0.81
118 20 0.15
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (117 bp):
ATACTAAGTGTATGAATTTCCAGATAAAGCACTTAGTGTGCTAAAGGATAAAGAAATCATACTAA
AAGTATGGATTTCCACATAGGGCATGTTATGTGCTAAAATGGTAACAAAATC
Found at i:2819231 original size:21 final size:21
Alignment explanation
Indices: 2819192--2819233 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2819182 TAATGTAGCA
*
2819192 GTACTGTAGCTATGTATCGAT
1 GTACTGTAGCTATGCATCGAT
2819213 GTACTGTAGC-AGTGCATCGAT
1 GTACTGTAGCTA-TGCATCGAT
2819234 ACACATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (21 bp):
GTACTGTAGCTATGCATCGAT
Found at i:2825131 original size:19 final size:19
Alignment explanation
Indices: 2825107--2825178 Score: 144
Period size: 19 Copynumber: 3.8 Consensus size: 19
2825097 CGAAGGTAGT
2825107 TAGTGCATCGATGCACAGG
1 TAGTGCATCGATGCACAGG
2825126 TAGTGCATCGATGCACAGG
1 TAGTGCATCGATGCACAGG
2825145 TAGTGCATCGATGCACAGG
1 TAGTGCATCGATGCACAGG
2825164 TAGTGCATCGATGCA
1 TAGTGCATCGATGCA
2825179 TCCCTTAAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (19 bp):
TAGTGCATCGATGCACAGG
Found at i:2825222 original size:101 final size:102
Alignment explanation
Indices: 2825046--2825241 Score: 240
Period size: 101 Copynumber: 1.9 Consensus size: 102
2825036 CTGGGCAAGA
* *
2825046 TGCATCGATGCATAAGTGAGTGCACCGATGCATACTTAAATAAATAAACATCGAAGGTAGTTAGT
1 TGCATCGATGCACAAGTGAGTGCACCGATGCATACTTAAATAAATAAACATCGAAGGTAATTAGT
*
2825111 GCATCGATGCACAGG-TAGTGCATCGATGCACAGGTAG
66 GCATCGATGCACAGGTTA-TGCACCGATGCACAGGTAG
* * * * *
2825148 TGCATCGATGCACAGGT-AGTGCATCGATGCATCCCTTAAGAT-GA-AAACATCGAATGTAATAT
1 TGCATCGATGCACAAGTGAGTGCACCGATGCAT-ACTTAA-ATAAATAAACATCGAAGGTAAT-T
*
2825210 A-TGCATCGATGCATAGGTTATGCACCGATGCA
63 AGTGCATCGATGCACAGGTTATGCACCGATGCA
2825242 TCTATGAGAG
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
101 54 0.67
102 25 0.31
103 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (102 bp):
TGCATCGATGCACAAGTGAGTGCACCGATGCATACTTAAATAAATAAACATCGAAGGTAATTAGT
GCATCGATGCACAGGTTATGCACCGATGCACAGGTAG
Found at i:2825744 original size:59 final size:58
Alignment explanation
Indices: 2825585--2825861 Score: 170
Period size: 59 Copynumber: 4.7 Consensus size: 58
2825575 GAGAACTTTG
* * * * * *
2825585 TGTGCTAAAACGATAAGGAAA-CTATATTGAGTGTATAGATTTCCATAT-GGAGCACTTA
1 TGTGCTAAAATGGTAAGGAAATC-ATACTGAATGTATGGATTTCCATATAGG-GCATTTA
* * * * * **
2825643 GTGTGCT-AATTGATAAAGAAATCATATTAAAAATATGGATTTCCATATAGGGCATGTTA
1 -TGTGCTAAAATGGTAAGGAAATCATACTGAATGTATGGATTTCCATATAGGGCAT-TTA
* * * ** **
2825702 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCTAGATAAAGCACTAAA
1 TGTGCTAAAATGGTAAGGAAATCATACTGAATGTATGGATTTCCATATAGGGCA-TTTA
* * * * * *
2825761 GGTGGTATAA-GGATAAGAAAATCATACT-AATGGTATGGATTTTCACATAGGGCATTTTA
1 TGTGCTAAAATGG-TAAGGAAATCATACTGAAT-GTATGGATTTCCATATAGGGCA-TTTA
** *
2825820 TGTGCTAAAATGGTAACAAAATCATACT-AATGGTATGAATTT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAAT-GTATGGATTT
2825862 TTGAATAGGG
Statistics
Matches: 169, Mismatches: 41, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
58 44 0.26
59 122 0.72
60 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.32
Consensus pattern (58 bp):
TGTGCTAAAATGGTAAGGAAATCATACTGAATGTATGGATTTCCATATAGGGCATTTA
Found at i:2825870 original size:59 final size:59
Alignment explanation
Indices: 2825778--2825890 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 59
2825768 TAAGGATAAG
* * *
2825778 AAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTTATGTGCTAAAATGGTAAC
1 AAAATCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGTAAC
* *
2825837 AAAATCATACTAATGGTATGAATTTTTGA-ATAGGGCACTTCGTGTGCTAAAATG
1 AAAATCATACTAATGGTATGAA-TTTTCACATAGGGCACTTCATGTGCTAAAATG
2825891 AAAGAGGAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 43 0.90
60 5 0.10
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (59 bp):
AAAATCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGTAAC
Found at i:2825905 original size:59 final size:59
Alignment explanation
Indices: 2825778--2825916 Score: 140
Period size: 59 Copynumber: 2.4 Consensus size: 59
2825768 TAAGGATAAG
* * * * *
2825778 AAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTTATGTGCTAAAATGGTAAC
1 AAAAGCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGAAAC
* * * *
2825837 AAAATCATACTAATGGTATGAATTTTTGA-ATAGGGCACTTCGTGTGCTAAAAT-GAAAG
1 AAAAGCATACTAATGGTATGAA-TTTTCACATAGGGCACTTCATGTGCTAAAATGGAAAC
*
2825895 AGGAAGCATACT-ATGTGTATGA
1 A-AAAGCATACTAATG-GTATGA
2825917 TCTTCCAGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 7 0.10
59 56 0.82
60 5 0.07
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (59 bp):
AAAAGCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGAAAC
Found at i:2826378 original size:21 final size:21
Alignment explanation
Indices: 2826341--2826380 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2826331 CTGTAGGAGT
*
2826341 ACTGTAGCTATGTATCGATGC
1 ACTGTAGCTATGCATCGATGC
2826362 ACTGTAG-TAGTGCATCGAT
1 ACTGTAGCTA-TGCATCGAT
2826381 ACACATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (21 bp):
ACTGTAGCTATGCATCGATGC
Found at i:2826498 original size:23 final size:22
Alignment explanation
Indices: 2826456--2826499 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2826446 TGCACTGTTC
* *
2826456 ACTGTTCACGGTATTGTTCATT
1 ACTGTTCACGGTACTATTCATT
2826478 ACTGTTCACAGGTACTATTCAT
1 ACTGTTCAC-GGTACTATTCAT
2826500 AAAAGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (22 bp):
ACTGTTCACGGTACTATTCATT
Found at i:2827456 original size:28 final size:26
Alignment explanation
Indices: 2827424--2827489 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 26
2827414 AATTTAAACT
* *
2827424 ATGAAAAAATAATTAATAATAATAATA
1 ATGAAAAAATAAATAATAA-AAAAATA
* *
2827451 ATTGAAACAACAAATAATAAAAAAATA
1 A-TGAAAAAATAAATAATAAAAAAATA
2827478 AT-AAAAAATAAA
1 ATGAAAAAATAAA
2827490 CATAAACATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 8 0.25
26 1 0.03
27 8 0.25
28 15 0.47
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (26 bp):
ATGAAAAAATAAATAATAAAAAAATA
Found at i:2834108 original size:13 final size:13
Alignment explanation
Indices: 2834090--2834115 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2834080 ATACATGTCT
2834090 TTAACATTAGGAA
1 TTAACATTAGGAA
2834103 TTAACATTAGGAA
1 TTAACATTAGGAA
2834116 ATAGGGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
TTAACATTAGGAA
Found at i:2835267 original size:22 final size:20
Alignment explanation
Indices: 2835242--2835284 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2835232 AATTGTAAAT
*
2835242 ATTTTAATATTATTTTATTATA
1 ATTTTAA-ATAATTTT-TTATA
2835264 A-TTTAAATAATTTTTTATA
1 ATTTTAAATAATTTTTTATA
2835283 AT
1 AT
2835285 CATATACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
19 6 0.32
20 7 0.37
21 5 0.26
22 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTAAATAATTTTTTATA
Found at i:2842669 original size:27 final size:27
Alignment explanation
Indices: 2842619--2842670 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2842609 TAATTTAATA
* *
2842619 AATAGTATACAAATTAAAATATAAACT
1 AATAGTATAAAAATTAAAAAATAAACT
2842646 AATAGTA-AAAAATTAAATAAATAAA
1 AATAGTATAAAAATTAAA-AAATAAA
2842671 ACATTCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (27 bp):
AATAGTATAAAAATTAAAAAATAAACT
Found at i:2843733 original size:29 final size:29
Alignment explanation
Indices: 2843712--2843769 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
2843702 AAACTTTGAA
2843712 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
2843741 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
2843770 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:2843759 original size:30 final size:30
Alignment explanation
Indices: 2843712--2843771 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
2843702 AAACTTTGAA
2843712 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
2843741 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
2843772 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:2845090 original size:19 final size:20
Alignment explanation
Indices: 2845047--2845094 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
2845037 TCTAAATCCT
*
2845047 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
2845067 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
2845086 TTTTCAAAA
1 TTTTCAAAA
2845095 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:2846495 original size:21 final size:21
Alignment explanation
Indices: 2846466--2846542 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
2846456 TTAGTGCATG
2846466 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCAGGGA
*
2846487 TGTATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCAGGGA
*
2846508 TGCATAGATGCACTGCAGGGA
1 TGCATGGATGCACTGCAGGGA
2846529 TGCATGGATGCACT
1 TGCATGGATGCACT
2846543 TTGACACCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGA
Found at i:2846673 original size:30 final size:30
Alignment explanation
Indices: 2846622--2846681 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
2846612 AAACTTTGAA
2846622 TAAATTCAATTAAGTCAAAAAA-CATTTTG
1 TAAATTCAATTAAGTCAAAAAACCATTTTG
*
2846651 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCAAAAAACCATTTTG
2846682 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCAAAAAACCATTTTG
Found at i:2846690 original size:34 final size:29
Alignment explanation
Indices: 2846622--2846681 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 29
2846612 AAACTTTGAA
2846622 TAAATTCAATTAAGTCAAAAAACATTTTG
1 TAAATTCAATTAAGTCAAAAAACATTTTG
*
2846651 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGT-CAAAAAACATTTTG
2846682 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 4 0.14
31 13 0.46
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTAAGTCAAAAAACATTTTG
Found at i:2850296 original size:19 final size:19
Alignment explanation
Indices: 2850272--2850308 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2850262 ATGACCAATA
*
2850272 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
2850291 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
2850309 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:2850384 original size:21 final size:19
Alignment explanation
Indices: 2850341--2850419 Score: 68
Period size: 21 Copynumber: 3.9 Consensus size: 19
2850331 GATTCGCAAC
*
2850341 GCGATTTTGACATCGCATT
1 GCGATTTTGAAATCGCATT
*
2850360 GCGATTTTCGAAATCCGCGTT
1 GCGATTTT-GAAAT-CGCATT
*
2850381 GCGATTTTAGATAATCGCAAT
1 GCGATTTT-GA-AATCGCATT
* *
2850402 GCGAATATGTAAATCGCA
1 GCGATTTTG-AAATCGCA
2850420 ATCGAATATG
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.16
20 12 0.24
21 26 0.53
22 3 0.06
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (19 bp):
GCGATTTTGAAATCGCATT
Found at i:2850427 original size:19 final size:20
Alignment explanation
Indices: 2850393--2850439 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
2850383 GATTTTAGAT
2850393 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
2850413 AATCGCAAT-CGAATATGTA
1 AATCGCAATGCGAATATGTA
2850432 AATCGCAA
1 AATCGCAA
2850440 CTCGTGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:2850886 original size:20 final size:20
Alignment explanation
Indices: 2850861--2850909 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2850851 GCGATTATCT
*
2850861 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
**
2850881 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCAAATTCG
*
2850901 TGTTGCGAT
1 CGTTGCGAT
2850910 TTTCATTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:2850920 original size:19 final size:20
Alignment explanation
Indices: 2850877--2850930 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
2850867 GATAGTCAAA
* **
2850877 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
2850897 TTCGTGTTGCGATTTTCA-T
1 TTCGTGTTGCGATTTTCATT
2850916 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
2850931 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:2851683 original size:157 final size:158
Alignment explanation
Indices: 2851374--2851690 Score: 595
Period size: 157 Copynumber: 2.0 Consensus size: 158
2851364 GCGGGAGGAG
2851374 TTTTGCTTAATCACTGGTCTACGCTTCGGACACGATGATGTAGGTCGATACACTAGTCATATTAC
1 TTTTGCTTAATCACTGGTCTACGCTTCGGACACGATGATGTAGGTCGATACACTAGTCATATTAC
2851439 CCTCCATCATGGTTATCCTGGGTTTTTCCTGAGCTGTCAATGGAGAAGCCGAATTTACACGTCGA
66 CCTCCATCATGGTTATCCTGGGTTTTTCCTGAGCTGTCAATGGAGAAGCCGAATTTACACGTCGA
2851504 CGACTGACGAGATTATTTATAAGAAAGA
131 CGACTGACGAGATTATTTATAAGAAAGA
2851532 TTTT-CTTAATCACTGGTCTACGCTTCGGACACGATGATGTAGGTCGATACACTAGTCATATTAC
1 TTTTGCTTAATCACTGGTCTACGCTTCGGACACGATGATGTAGGTCGATACACTAGTCATATTAC
2851596 CCTCCATCATGGTTATCCTGGGTTTTTCCTGAGCTGTCAAT-GAGAAGCCGAA-TTACACGTCGA
66 CCTCCATCATGGTTATCCTGGGTTTTTCCTGAGCTGTCAATGGAGAAGCCGAATTTACACGTCGA
2851659 CGACTTGACGAGATTATTTAATAAGAAAGA
131 CGAC-TGACGAGATTATTT-ATAAGAAAGA
2851689 TT
1 TT
2851691 GTTTTACTCG
Statistics
Matches: 157, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
155 15 0.10
156 25 0.16
157 113 0.72
158 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (158 bp):
TTTTGCTTAATCACTGGTCTACGCTTCGGACACGATGATGTAGGTCGATACACTAGTCATATTAC
CCTCCATCATGGTTATCCTGGGTTTTTCCTGAGCTGTCAATGGAGAAGCCGAATTTACACGTCGA
CGACTGACGAGATTATTTATAAGAAAGA
Found at i:2853151 original size:20 final size:20
Alignment explanation
Indices: 2853126--2853194 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
2853116 GCGATTATCT
2853126 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
2853146 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * **
2853166 TGTTGCGATAATCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
2853186 TGTTGCGAT
1 CGTTGCGAT
2853195 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2853204 original size:20 final size:20
Alignment explanation
Indices: 2853162--2853224 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
2853152 GATAGTCAAA
** * *
2853162 TTCGTGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTAAGT
2853182 TTCGTGTTGCGATTTTAAGT
1 TTCGTGTTGCGATTTTAAGT
*
2853202 TTCGTGTTGTGATTTTAAGT
1 TTCGTGTTGCGATTTTAAGT
2853222 TTC
1 TTC
2853225 AGAAACTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.11, G:0.22, T:0.51
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTAAGT
Found at i:2853779 original size:41 final size:40
Alignment explanation
Indices: 2853702--2853807 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 40
2853692 GACTCACCTG
* * *
2853702 TCATCGTTCAAGAGGCCTCTCCTATCGTTCAAAGGCCCCTA
1 TCATCGTTCAAGAGTCC-CTCCCACCGTTCAAAGGCCCCTA
* *
2853743 TCATCGCTCAAGAGTCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGTCCCTCCCACCGTTCAA-AGGCCCCTA
*
2853784 TCATCGTTGAAGAGGTCCCTCCCA
1 TCATCGTTCAAGA-GTCCCTCCCA
2853808 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
40 12 0.21
41 34 0.61
42 10 0.18
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.24
Consensus pattern (40 bp):
TCATCGTTCAAGAGTCCCTCCCACCGTTCAAAGGCCCCTA
Found at i:2853791 original size:21 final size:21
Alignment explanation
Indices: 2853698--2853803 Score: 92
Period size: 21 Copynumber: 5.1 Consensus size: 21
2853688 GCCCGACTCA
2853698 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
2853719 TCT-CCTATCGTTCAA-AGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* * *
2853739 CCTATCATCGCTCAAGA-GTC
1 CCTGTCATCGTTCAAGAGGCC
** *
2853759 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
2853780 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
2853801 CCT
1 CCT
2853804 CCCAACATTC
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
20 31 0.48
21 34 0.52
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.25
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:2855364 original size:20 final size:20
Alignment explanation
Indices: 2855339--2855613 Score: 137
Period size: 20 Copynumber: 14.8 Consensus size: 20
2855329 GCGATTTTCT
*
2855339 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
2855359 CGTTGCGATAATCAAATTCT
1 CGTTGCGATAGTCAAATTCG
* *
2855379 CGTTGCGATAGT--TATTTG
1 CGTTGCGATAGTCAAATTCG
* *
2855397 CGTTTCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
*
2855411 CATTGCGATAGTCAAATT-G
1 CGTTGCGATAGTCAAATTCG
*
2855430 CGTTGCGATAGTTAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
2855450 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* ** *
2855470 TGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCG
*
2855490 CATTGCGAT--T---A-TC-
1 CGTTGCGATAGTCAAATTCG
*
2855503 CTGTTGTGATAGTCAAATTCG
1 C-GTTGCGATAGTCAAATTCG
* * * *
2855524 CATTGTGATAGTC-ATTTTG
1 CGTTGCGATAGTCAAATTCG
* *
2855543 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
2855557 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
2855577 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
2855597 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
2855614 GAATGTGTAA
Statistics
Matches: 194, Mismatches: 40, Indels: 42
0.70 0.14 0.15
Matches are distributed among these distances:
13 1 0.01
14 24 0.12
15 1 0.01
16 4 0.02
17 1 0.01
18 12 0.06
19 31 0.16
20 119 0.61
21 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2855365 original size:34 final size:34
Alignment explanation
Indices: 2855305--2855438 Score: 103
Period size: 34 Copynumber: 3.9 Consensus size: 34
2855295 ATCACATTCG
* * * *
2855305 CGTTGCGATAGTCTAATACACTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
*
2855339 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTCT
* * * *
2855379 CGTTGCGATAGT--TATTTGCGTTTCGATTATCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
*
2855411 CATTGCGATAGTCAAATT-GCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
2855439 AGTTAAATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
32 14 0.17
33 9 0.11
34 28 0.35
36 2 0.03
38 11 0.14
40 16 0.20
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
Found at i:2855477 original size:91 final size:93
Alignment explanation
Indices: 2855339--2855537 Score: 226
Period size: 91 Copynumber: 2.2 Consensus size: 93
2855329 GCGATTTTCT
* * *
2855339 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCTCGTTGCGATAGT-TATTTGCGTTTC
1 CGTTGCGATAGTCAAATTCCCATTGCGATAATCAAATTCTCGTTGCGATAGTATATTTGCATTGC
2855403 GATTAT-CTCATTGCGATAGTCAAATT-G
66 GATTATCCT-ATTGCGATAGTCAAATTCG
* * * ** *
2855430 CGTTGCGATAGTTAAATTCGCATTGCGATAGTCATTTTCGT-GTTGCGATAGTCATTTTTGCATT
1 CGTTGCGATAGTCAAATTCCCATTGCGATAATCAAATTC-TCGTTGCGATAGT-ATATTTGCATT
* *
2855494 GCGATTATCCTGTTGTGATAGTCAAATTCG
64 GCGATTATCCTATTGCGATAGTCAAATTCG
* *
2855524 CATTGTGATAGTCA
1 CGTTGCGATAGTCA
2855538 TTTTGCATTG
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
91 44 0.49
92 1 0.01
93 30 0.34
94 14 0.16
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (93 bp):
CGTTGCGATAGTCAAATTCCCATTGCGATAATCAAATTCTCGTTGCGATAGTATATTTGCATTGC
GATTATCCTATTGCGATAGTCAAATTCG
Found at i:2855572 original size:53 final size:53
Alignment explanation
Indices: 2855472--2855605 Score: 178
Period size: 53 Copynumber: 2.5 Consensus size: 53
2855462 CATTTTCGTG
* * *
2855472 TTGCGATAGTCATTTTTGCATTGCGATTATCCTGTTGTGATAGTCAAATTCGCA
1 TTGCGATAGTCA-TTTTGCATTGCGATTATCCCGTTGCGATAGTCAAATTCACA
* * *
2855526 TTGTGATAGTCATTTTGCATTGCGATTATCCCGTTGCGATATTCAAATTCACG
1 TTGCGATAGTCATTTTGCATTGCGATTATCCCGTTGCGATAGTCAAATTCACA
* *
2855579 TTGCGATAGTCATATTCGCGTTGCGAT
1 TTGCGATAGTCAT-TTTGCATTGCGAT
2855606 AGTCAAATGA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
53 48 0.69
54 22 0.31
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (53 bp):
TTGCGATAGTCATTTTGCATTGCGATTATCCCGTTGCGATAGTCAAATTCACA
Found at i:2858959 original size:21 final size:20
Alignment explanation
Indices: 2858931--2859066 Score: 82
Period size: 20 Copynumber: 6.7 Consensus size: 20
2858921 GTTAGTCAGA
2858931 ATCGCGTTGCGATCATGTATT
1 ATCGCGTTGCGATCA-GTATT
* **
2858952 ATCACGTTGCGAT-AGTCAGA
1 ATCGCGTTGCGATCAGT-ATT
2858972 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCA-GTATT
* *
2858993 ATCGCGTTACGAT-AGTCCA-A
1 ATCGCGTTGCGATCAGT--ATT
* * **
2859013 ATCGCATTACGAT-AGTCAGA
1 ATCGCGTTGCGATCAGT-ATT
*
2859033 ATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCA-GTATT
*
2859054 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
2859067 TTACATATTT
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
19 6 0.07
20 42 0.46
21 40 0.43
22 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (20 bp):
ATCGCGTTGCGATCAGTATT
Found at i:2858968 original size:41 final size:41
Alignment explanation
Indices: 2858918--2859017 Score: 148
Period size: 41 Copynumber: 2.4 Consensus size: 41
2858908 AATTCAGTGA
* *
2858918 TGCGTTAGTCAGAATCGCGTTGCGATCATGTATTATCACGT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCACGT
*
2858959 TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCACGT
*
2859000 TACGATAGTCCA-AATCGC
1 TGCGATAGT-CAGAATCGC
2859018 ATTACGATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 52 0.96
42 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCACGT
Found at i:2858981 original size:20 final size:20
Alignment explanation
Indices: 2858918--2859045 Score: 109
Period size: 20 Copynumber: 6.3 Consensus size: 20
2858908 AATTCAGTGA
*
2858918 TGCGTTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
** *
2858938 TGCGATCATGT-ATTATCACGT
1 TGCGAT-A-GTCAGAATCGCGT
2858959 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
**
2858979 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
* *
2859000 TACGATAGTCCA-AATCGCAT
1 TGCGATAGT-CAGAATCGCGT
*
2859020 TACGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
2859040 TGCGAT
1 TGCGAT
2859046 CACGTGTTAT
Statistics
Matches: 86, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
19 6 0.07
20 47 0.55
21 29 0.34
22 4 0.05
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:2859134 original size:21 final size:21
Alignment explanation
Indices: 2859092--2859136 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2859082 GCGAATATCT
*
2859092 AAAATTGCAACGCGGATTTCA
1 AAAATTGCAACGCGGATGTCA
*
2859113 AAAATTGCAATGC-GATGGTCA
1 AAAATTGCAACGCGGAT-GTCA
2859134 AAA
1 AAA
2859137 TCGCGTTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (21 bp):
AAAATTGCAACGCGGATGTCA
Found at i:2859573 original size:3 final size:3
Alignment explanation
Indices: 2859561--2859596 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2859551 CTACAAAAAC
2859561 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2859597 CACATTTGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2861160 original size:20 final size:21
Alignment explanation
Indices: 2861127--2861180 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
2861117 CTTTGACTTT
2861127 TTTTTATTATT-TTTTT-CT-A
1 TTTTTATT-TTGTTTTTACTAA
2861146 TTTTTATTTTGTTTTTACTAA
1 TTTTTATTTTGTTTTTACTAA
*
2861167 CTTTTA-TTTGTTTT
1 TTTTTATTTTGTTTT
2861181 GTTTCAGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 2 0.06
19 13 0.42
20 10 0.32
21 6 0.19
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTTATTTTGTTTTTACTAA
Found at i:2872688 original size:62 final size:63
Alignment explanation
Indices: 2872585--2872714 Score: 244
Period size: 62 Copynumber: 2.1 Consensus size: 63
2872575 GTGGTTCCAT
2872585 AACTTCACATGCGGTTTTAGTGCTCGACGATCTACTCTTTTCCTCGTTGGGGCATTTCCTTCG
1 AACTTCACATGCGGTTTTAGTGCTCGACGATCTACTCTTTTCCTCGTTGGGGCATTTCCTTCG
*
2872648 AACTT-ACATGCGGTTTTAGTGCTCGACGATCTACTCTTTTCCTCGTTGGGGTATTTCCTTCG
1 AACTTCACATGCGGTTTTAGTGCTCGACGATCTACTCTTTTCCTCGTTGGGGCATTTCCTTCG
2872710 AACTT
1 AACTT
2872715 GGCCCACCCA
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 61 0.92
63 5 0.08
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.39
Consensus pattern (63 bp):
AACTTCACATGCGGTTTTAGTGCTCGACGATCTACTCTTTTCCTCGTTGGGGCATTTCCTTCG
Found at i:2879138 original size:21 final size:21
Alignment explanation
Indices: 2879114--2879156 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2879104 TGTGTTGTAT
2879114 TTGGAGTTGATTTGAATGTTC
1 TTGGAGTTGATTTGAATGTTC
2879135 TTGGAGTTGATTTGAATGTTC
1 TTGGAGTTGATTTGAATGTTC
2879156 T
1 T
2879157 CTGGTTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.28, T:0.49
Consensus pattern (21 bp):
TTGGAGTTGATTTGAATGTTC
Found at i:2883967 original size:22 final size:23
Alignment explanation
Indices: 2883918--2883971 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
2883908 TCAGAGGGAT
*
2883918 AAAAATAAAATTTAAAAATTTAA
1 AAAAATAAAATTTAAAAATGTAA
* *
2883941 AAAAATTAAATTT-TAAATGTAA
1 AAAAATAAAATTTAAAAATGTAA
*
2883963 TAAAATAAA
1 AAAAATAAA
2883972 CGGAATTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAATAAAATTTAAAAATGTAA
Found at i:2890492 original size:13 final size:13
Alignment explanation
Indices: 2890471--2890518 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
2890461 GGGCCTGTAA
*
2890471 AATTGTAATAATT
1 AATTATAATAATT
2890484 AATTATAATAATAT
1 AATTATAATAAT-T
*
2890498 AA-TATAATTA-T
1 AATTATAATAATT
2890509 AATTATAATA
1 AATTATAATA
2890519 GTATTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 3 0.10
12 6 0.20
13 18 0.60
14 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
AATTATAATAATT
Found at i:2890796 original size:36 final size:37
Alignment explanation
Indices: 2890744--2890818 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
2890734 TGATCTGATC
2890744 TTGCTTCACTACTC-TTTTGTGAAGGCTAAATTTGCA
1 TTGCTTCACTACTCTTTTTGTGAAGGCTAAATTTGCA
* **
2890780 TTGCTTCACTATTCTTTTTTGTGAAGGCTTGATTTGCA
1 TTGCTTCACTACTC-TTTTTGTGAAGGCTAAATTTGCA
2890818 T
1 T
2890819 GAGAAGAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 13 0.38
38 21 0.62
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (37 bp):
TTGCTTCACTACTCTTTTTGTGAAGGCTAAATTTGCA
Found at i:2903529 original size:13 final size:14
Alignment explanation
Indices: 2903508--2903588 Score: 53
Period size: 13 Copynumber: 5.9 Consensus size: 14
2903498 GGGCCTGCAA
*
2903508 AATTGTAATAAT-T
1 AATTATAATAATAT
2903521 AATTATAATAATAT
1 AATTATAATAATAT
2903535 AA-TATAAT--TAT
1 AATTATAATAATAT
* * *
2903546 AATAATATTTATTAT
1 AATTATA-ATAATAT
* * *
2903561 ATTTATTATGTATAT
1 AATTATAAT-AATAT
2903576 AATTATAATAATA
1 AATTATAATAATA
2903589 ACATATATAT
Statistics
Matches: 50, Mismatches: 12, Indels: 11
0.68 0.16 0.15
Matches are distributed among these distances:
11 5 0.10
12 3 0.06
13 18 0.36
14 7 0.14
15 17 0.34
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
AATTATAATAATAT
Found at i:2903544 original size:19 final size:18
Alignment explanation
Indices: 2903515--2903553 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
2903505 CAAAATTGTA
2903515 ATAATTAATTATAATAAT
1 ATAATTAATTATAATAAT
2903533 ATAATATAATTATAATAAT
1 ATAAT-TAATTATAATAAT
2903552 AT
1 AT
2903554 TTATTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATTAATTATAATAAT
Found at i:2904070 original size:69 final size:69
Alignment explanation
Indices: 2903883--2904321 Score: 702
Period size: 69 Copynumber: 6.4 Consensus size: 69
2903873 CAACTTACAG
* *
2903883 AAGATTGGATTTCAACTTCACAATGAAAGATATCCAACTCAAAGCCAATTTGGTGAAGCAATACA
1 AAGATTGGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCCAATTTGGTGAAGCAATACA
2903948 ACTC
66 ACTC
* * * *
2903952 AA-ATTGTATTTCAACTTAACAATGAAAGATATCAAATTCAAAGCCAATTTGGTGAAGCAATACA
1 AAGATTGGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCCAATTTGGTGAAGCAATACA
2904016 ACTC
66 ACTC
* *
2904020 AAGATTGGATTTCAACTTCACAACGAATGATATCCAATTCAAAGCCAATTTGGTGAAGAAATACA
1 AAGATTGGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCCAATTTGGTGAAGCAATACA
2904085 ACTC
66 ACTC
*
2904089 GAGATTGGATTTCAACTTCACAACG-AAGTATATCCAATTCAAAGCCAATTTGGTGAAGCAATAC
1 AAGATTGGATTTCAACTTCACAACGAAAG-ATATCCAATTCAAAGCCAATTTGGTGAAGCAATAC
2904153 AACTC
65 AACTC
* *
2904158 AAGATTGGATTTCAACTTCACAACGAATGATATCCAATTCAAAGCCAATTTGTTGAAGCAATACA
1 AAGATTGGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCCAATTTGGTGAAGCAATACA
2904223 ACTC
66 ACTC
* * * * *
2904227 GAGATTGGATTTCAACTTCATAACGAAAGATAACCAATTCAAGGCCAATTTGGTGAAGCAATAAA
1 AAGATTGGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCCAATTTGGTGAAGCAATACA
2904292 ACTC
66 ACTC
*
2904296 GAGATTGGATTTCAACTTCACAACGA
1 AAGATTGGATTTCAACTTCACAACGA
2904322 TGGAGTCACA
Statistics
Matches: 343, Mismatches: 24, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
68 66 0.19
69 275 0.80
70 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (69 bp):
AAGATTGGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCCAATTTGGTGAAGCAATACA
ACTC
Found at i:2905101 original size:15 final size:15
Alignment explanation
Indices: 2905067--2905102 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2905057 GAATATAACG
*
2905067 AAGGAGAAAGGAAGT
1 AAGGAGAAAGGAAGA
*
2905082 TAGGAGAAAGGAAGA
1 AAGGAGAAAGGAAGA
2905097 AAGGAG
1 AAGGAG
2905103 TGCTTTCCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.42, T:0.06
Consensus pattern (15 bp):
AAGGAGAAAGGAAGA
Found at i:2913443 original size:12 final size:12
Alignment explanation
Indices: 2913426--2913452 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2913416 AGATCTCCCT
2913426 CGACGCATCAAG
1 CGACGCATCAAG
2913438 CGACGCATCAAG
1 CGACGCATCAAG
2913450 CGA
1 CGA
2913453 ACGGAGGGTC
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:0.33, C:0.33, G:0.26, T:0.07
Consensus pattern (12 bp):
CGACGCATCAAG
Found at i:2916275 original size:3 final size:3
Alignment explanation
Indices: 2916258--2916306 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
2916248 TCTACAAAAC
*
2916258 ATT A-T ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2916303 ATT A
1 ATT A
2916307 CACATTTGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
2 6 0.14
3 36 0.86
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:2919944 original size:32 final size:32
Alignment explanation
Indices: 2919905--2919992 Score: 92
Period size: 32 Copynumber: 2.8 Consensus size: 32
2919895 TAGAAAAATG
*
2919905 TAATAAAATAAATAATAATAATAAACCTAAAA
1 TAATAAAATAAATAATAATAATAAACATAAAA
* *
2919937 TAATAAAAT-AATAAAAATTA-AAACATAAAA
1 TAATAAAATAAATAATAATAATAAACATAAAA
**
2919967 -AATATATGTATAATAATAATAATAAA
1 TAATA-AAATA-AATAATAATAATAAA
2919993 AGGGCTAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
29 4 0.09
30 11 0.24
31 9 0.20
32 18 0.40
33 3 0.07
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (32 bp):
TAATAAAATAAATAATAATAATAAACATAAAA
Found at i:2922100 original size:86 final size:85
Alignment explanation
Indices: 2921907--2922356 Score: 523
Period size: 85 Copynumber: 5.3 Consensus size: 85
2921897 CATATAGTTT
* * * * * * *
2921907 TTCTCGACTTAAGCTATGATGTAAATTTGG-CATGCCCTTGAGCAGAATAG-AATCGAACTCGAA
1 TTCTCGCCTTGAGTTATGCTGTAAA-TTGGATATGCCTTTGAGCTGAAT-GTAATCGAACTCGAA
* *
2921970 GGTATTTGTTGATAGATAACCC
64 GGTCTTTGTTGACAGATAACCC
* * * * *
2921992 TTATCACCTTGAGTTATACTGTAAATAGGATATGCCTTTAAGCTGAATGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
2922057 TCTTTTGTTGACAGATAACCC
66 TC-TTTGTTGACAGATAACCC
* *
2922078 TTCTCGCCTTGAGCTATGCTGTAAATT-CA-ATGCACCTTTGAGCT-AAGTGTAATCGAACTCGA
1 TTCTCGCCTTGAGTTATGCTGTAAATTGGATATG--CCTTTGAGCTGAA-TGTAATCGAACTCGA
* *
2922140 AGGTCTTGGTTGACAAATAACCC
63 AGGTCTTTGTTGACAGATAACCC
* * * * *
2922163 TTCTCGCATTGAGTTATGTTGTAAATTGGATATGCCTTTGAGTTGAATGCAATCGAACTCGAAAG
1 TTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
*
2922228 TCTTTTGTTGACAGATATCCC
66 TC-TTTGTTGACAGATAACCC
* * * * *
2922249 TTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGTCTTTGAGCTGATTGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
*
2922314 TCTTGGTTGACAGATAACCC
66 TCTTTGTTGACAGATAACCC
*
2922334 TTCTCGCCTTGAGTTATGTTGTA
1 TTCTCGCCTTGAGTTATGCTGTA
2922357 CTTGGTTGGG
Statistics
Matches: 308, Mismatches: 47, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
84 7 0.02
85 155 0.50
86 143 0.46
87 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (85 bp):
TTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
TCTTTGTTGACAGATAACCC
Found at i:2922351 original size:171 final size:171
Alignment explanation
Indices: 2921957--2922356 Score: 602
Period size: 171 Copynumber: 2.3 Consensus size: 171
2921947 AGCAGAATAG
* * * * * **
2921957 AATCGAACTCGAAGGTATTTGTTGATAGATAACCCTTATCACCTTGAGTTATACTGTAAATAGGA
1 AATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATAGGA
* *
2922022 TATGCCTTTAAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCT
66 TATGCCTTTAAGCTGAATGCAATCGAACTCGAAAGTCTTTTGTTGACAGATAACCCTTCTCGCCT
2922087 TGAGCTATGCTGTAAATTCAATGCACCTTTGAGCTAAGTGT
131 TGAGCTATGCTGTAAATTCAATGCACCTTTGAGCTAAGTGT
* * *
2922128 AATCGAACTCGAAGGTCTTGGTTGACAAATAACCCTTCTCGCATTGAGTTATGTTGTAAATTGGA
1 AATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATAGGA
* * *
2922193 TATGCCTTTGAGTTGAATGCAATCGAACTCGAAAGTCTTTTGTTGACAGATATCCCTTCTCGCCT
66 TATGCCTTTAAGCTGAATGCAATCGAACTCGAAAGTCTTTTGTTGACAGATAACCCTTCTCGCCT
** *** * *
2922258 TGAGCTATGCTGTAAATTTGATGTGTCTTTGAGCTGATTGT
131 TGAGCTATGCTGTAAATTCAATGCACCTTTGAGCTAAGTGT
2922299 AATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTA
1 AATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTA
2922357 CTTGGTTGGG
Statistics
Matches: 205, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
171 205 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (171 bp):
AATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATAGGA
TATGCCTTTAAGCTGAATGCAATCGAACTCGAAAGTCTTTTGTTGACAGATAACCCTTCTCGCCT
TGAGCTATGCTGTAAATTCAATGCACCTTTGAGCTAAGTGT
Found at i:2922728 original size:123 final size:124
Alignment explanation
Indices: 2922426--2922771 Score: 532
Period size: 124 Copynumber: 2.8 Consensus size: 124
2922416 ATCTATCGGA
*
2922426 CACGATATCCTTCATCGTGAAGTTGAAATCATGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGA
* *
2922491 ATTGGATATCCTTCGTTGTAAAGTTGAAATCCAATCTAGAGATGAATGCTTCTTGTGGG
66 ATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGGG
* * * *
2922550 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGTTCTTTCGTTGTAAAGTTGAGCTTTGA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGA
* * * *
2922615 ATTGGATATCCTTCATTGTGAAGTTGAAATTCAATCTAGAGATG-GTGCTGCTTTTGGG
66 ATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGGG
* * *
2922673 CACGATATCCTTCGTCGTAAAGTTGAAATTATGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGA
* * *
2922738 ATTGGAAATCCTTTGTTGTGAAGTTAAAATCCAA
66 ATTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
2922772 CGGTTGTTTC
Statistics
Matches: 200, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
123 99 0.50
124 101 0.50
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (124 bp):
CACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGA
ATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGGG
Found at i:2922934 original size:64 final size:64
Alignment explanation
Indices: 2922840--2923024 Score: 255
Period size: 64 Copynumber: 2.8 Consensus size: 64
2922830 AATCTTGTGT
* *
2922840 AAGTTGTATTGTTTCGAGTCCAATATCCTTCGCTGTGATGTTGAAATTGACTCTAAATGAAACTG
1 AAGTTG-ATTG-TT-GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATAAAACTG
2922905 GA
63 GA
* * *
2922907 AAGTTGATTGTTGAGTCCAATACCCTTCGCTGTGAAATTGAAATTGACTCTGAATAAAACTGGA
1 AAGTTGATTGTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATAAAACTGGA
* * *
2922971 AAGTT-ATTTGTTGAGTCCAATATCCTTCACTGTGAAGTTAAAATTGACTATAAA
1 AAGTTGA-TTGTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAA
2923025 AGCTGCAAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
63 1 0.01
64 93 0.88
65 2 0.02
66 4 0.04
67 6 0.06
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (64 bp):
AAGTTGATTGTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATAAAACTGGA
Found at i:2924089 original size:95 final size:95
Alignment explanation
Indices: 2923878--2924138 Score: 326
Period size: 95 Copynumber: 2.7 Consensus size: 95
2923868 GGCTAGCTGG
* * * * *
2923878 ATCCATAAAGCCGGGGCGTTTAACCAATTGTTCTAGAGGGATAGCTCAATATCATTGTA-TGGAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTC-A-AGC-TT-TATTGTAT
** * *
2923942 ATTATAATCGTCTTTATTAGGCTAGCTGAATATT
62 ATTATAATCACCTTTATCAGGCTAGCTCAATATT
*
2923976 ATCCATAAAGCCGAGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
*
2924041 TAATCACCTTTATCAGGCTAGCTCAATCTT
66 TAATCACCTTTATCAGGCTAGCTCAATATT
* * * * *
2924071 ATCTATAAAGTCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGTTTTATTATATATAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T
2924136 ATA
65 ATA
2924139 TATAATATTA
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
94 2 0.01
95 92 0.64
96 6 0.04
97 1 0.01
98 43 0.30
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCAGGCTAGCTCAATATT
Found at i:2928514 original size:3 final size:3
Alignment explanation
Indices: 2928506--2928587 Score: 57
Period size: 3 Copynumber: 27.7 Consensus size: 3
2928496 AAAAAATATA
*
2928506 AAT AAT AAT AA- AAT AA- AAT AAAT AAT AAAT AAT AAT AAAT CAAA AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT -AAT -AAT AAT
* * *
2928553 AA- AAA AAT AGT AA- AAT AAT AA- AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2928588 AAACATAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
2 10 0.16
3 42 0.67
4 11 0.17
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:2928526 original size:16 final size:16
Alignment explanation
Indices: 2928432--2928602 Score: 88
Period size: 16 Copynumber: 10.4 Consensus size: 16
2928422 AAATATTAGG
*
2928432 TAAAACAAAA-AATAA
1 TAAAATAAAATAATAA
*
2928447 -AAAATAAAATAA-AG
1 TAAAATAAAATAATAA
* *
2928461 TAAAATATATATATTAA
1 TAAAATA-AAATAATAA
* *
2928478 CGTATAAATAAACATTAGAA
1 --TA-AAATAAA-ATAATAA
2928498 -AAAATATAAATAATAA
1 TAAAATA-AAATAATAA
2928514 TAAAATAAAATAAATAA
1 TAAAATAAAAT-AATAA
*
2928531 T-AAATAATAATAAATCA
1 TAAAATAA-AAT-AATAA
* *
2928548 -AAAATAAAAAAATAG
1 TAAAATAAAATAATAA
2928563 TAAAATAATAA-AATAA
1 TAAAATAA-AATAATAA
2928579 TAAAAATAAAA-ACATAA
1 T-AAAATAAAATA-ATAA
*
2928596 AAAAATA
1 TAAAATA
2928603 TATGTATAAT
Statistics
Matches: 122, Mismatches: 17, Indels: 33
0.71 0.10 0.19
Matches are distributed among these distances:
14 9 0.07
15 11 0.09
16 47 0.39
17 43 0.35
19 3 0.02
20 9 0.07
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (16 bp):
TAAAATAAAATAATAA
Found at i:2928536 original size:33 final size:32
Alignment explanation
Indices: 2928499--2928622 Score: 94
Period size: 33 Copynumber: 3.8 Consensus size: 32
2928489 ACATTAGAAA
2928499 AAATATAAATAATAATAAAATAAAATAAATAAT
1 AAATATAAATAATAATAAAATAAAA-AAATAAT
* *
2928532 AAATA-ATAATAAATCA-AAAATAAAAAAATAGT
1 AAATATA-AAT-AATAATAAAATAAAAAAATAAT
* *
2928564 AAA-ATAATAAAATAATAAAAATAAAAACATAA-
1 AAATATAA-ATAATAAT-AAAATAAAAAAATAAT
* * *
2928596 AAAAATATATGTATAATAATAATAAAA
1 AAATATAAAT-AATAATAA-AATAAAA
2928623 GGGCTAATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
31 6 0.08
32 18 0.25
33 45 0.62
34 4 0.05
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (32 bp):
AAATATAAATAATAATAAAATAAAAAAATAAT
Found at i:2928614 original size:41 final size:41
Alignment explanation
Indices: 2928525--2928602 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
2928515 AAAATAAAAT
*
2928525 AAATAAT-AAATAATAATAAATCAAAAATAAAAAAATAGTA
1 AAATAATAAAATAATAATAAATAAAAAATAAAAAAATAGTA
2928565 AAATAATAAAATAATAA-AAATAAAAACATAAAAAAATA
1 AAATAATAAAATAATAATAAATAAAAA-ATAAAAAAATA
2928603 TATGTATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
40 15 0.43
41 20 0.57
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.21
Consensus pattern (41 bp):
AAATAATAAAATAATAATAAATAAAAAATAAAAAAATAGTA
Found at i:2931372 original size:21 final size:21
Alignment explanation
Indices: 2931339--2931378 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2931329 CCGTTAAATA
2931339 ACAAAAATAAAATAATTTATT
1 ACAAAAATAAAATAATTTATT
* *
2931360 ACAAGAATTAAATAATTTA
1 ACAAAAATAAAATAATTTA
2931379 GAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (21 bp):
ACAAAAATAAAATAATTTATT
Found at i:2938648 original size:31 final size:31
Alignment explanation
Indices: 2938613--2938714 Score: 186
Period size: 31 Copynumber: 3.3 Consensus size: 31
2938603 CTGAATAACC
*
2938613 TAGGTAATCAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
2938644 TAGGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
*
2938675 TAAGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
2938706 TAGGTAAAC
1 TAGGTAAAC
2938715 CCTCGACCCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
TAGGTAAACAGTCCATATGTCCCGAAGAACA
Found at i:2942931 original size:3 final size:3
Alignment explanation
Indices: 2942923--2943005 Score: 150
Period size: 3 Copynumber: 27.7 Consensus size: 3
2942913 GCAGTTGTGC
2942923 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
2942971 AAG AAG AAG AAG AAG AAG -AG AAG AAAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AA
2943006 TGGGGAGTTA
Statistics
Matches: 78, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 73 0.94
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2944136 original size:196 final size:194
Alignment explanation
Indices: 2943690--2944234 Score: 494
Period size: 196 Copynumber: 2.8 Consensus size: 194
2943680 GCAAGAATTT
* * * * *
2943690 ATAGACATGTTCGAGGGGTATTTTCGAGAAGTTAATATGAAA-ATTTCATAATTTATAAGATTAG
1 ATAGACATATTCGAGGGGTATTTTAG-GTAGTT-ATAT-AAATTTTTTATAATTTATAAGATTAG
* * * *
2943754 AGGCGTAATATTGGAACTTATCTTTCT-ATTGATGCCAATAACGAGACATACGGTTTATTGTAAG
63 AGGCGTAGTATTGGAACTTATCTTT-TAATTGAGGCCAATAACGACACATACGGTATATTGTAAG
* * * * * *
2943818 CGGTGTAAGAATTACGTTGAAAATGGTTCCAAATCATGTTTTGTGCATGAAGAAGCTAAAATGGC
127 CGGTGTAAAAATTACATTGAAAATGATTCCAAAGCATGTTTTGTGCATGAAGAAACTAAAATGAC
2943883 TTG
192 TTG
* * * *
2943886 ATATACATGTTCGAGGGGGTATTTTAGGTAGTTATTCTAAATTTTTTGTAATTTATAAGATTAGA
1 ATAGACATATTCGA-GGGGTATTTTAGGTAGTTA-TATAAATTTTTTATAATTTATAAGATTAGA
* * * *
2943951 GACATAGTATTGGAACTTATCTTTTAATTGAGGCCAATATCGACACATATGAG-ATATTGTAAGC
64 GGCGTAGTATTGGAACTTATCTTTTAATTGAGGCCAATAACGACACATACG-GTATATTGTAAGC
*
2944015 GG-GTAAAAATCT-CATTGAAAATGATTCCAAAGCTTGGTTTTGTGCATGAAGAAAAAACTAAAA
128 GGTGTAAAAAT-TACATTGAAAATGATTCCAAAGCAT-GTTTTGTGCATGAAG---AAACTAAAA
2944078 TGACTTG
188 TGACTTG
* * * * ** * * *
2944085 ATAGGCATATTCGA-TGGTTTTTTTGGATAGTTA-ATATTTTTTTTATAATTTATATGATCAGTG
1 ATAGACATATTCGAGGGGTATTTTAGG-TAGTTATATAAATTTTTTATAATTTATAAGATTAGAG
* * * * * * * * * * *
2944148 GCGTAGTATTAGAACTTATCTTTCAATAGAGGCTAATACCGGCATAAACCAG-ATGTTATAAGCG
65 GCGTAGTATTGGAACTTATCTTTTAATTGAGGCCAATAACGACACATA-CGGTATATTGTAAGCG
* *
2944212 GTGTAAAATTTGCATTGAAAATG
129 GTGTAAAAATTACATTGAAAATG
2944235 GTTTGAAACC
Statistics
Matches: 285, Mismatches: 50, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
195 31 0.11
196 184 0.65
197 39 0.14
198 6 0.02
199 25 0.09
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (194 bp):
ATAGACATATTCGAGGGGTATTTTAGGTAGTTATATAAATTTTTTATAATTTATAAGATTAGAGG
CGTAGTATTGGAACTTATCTTTTAATTGAGGCCAATAACGACACATACGGTATATTGTAAGCGGT
GTAAAAATTACATTGAAAATGATTCCAAAGCATGTTTTGTGCATGAAGAAACTAAAATGACTTG
Found at i:2945912 original size:80 final size:80
Alignment explanation
Indices: 2945772--2946006 Score: 312
Period size: 80 Copynumber: 2.9 Consensus size: 80
2945762 GCTATGATGA
* * * *
2945772 TCGATACTTTAACTTTTGAAAACGTCAATGAATAAAAGATC-ACTAGTTAAGTTTAAATATCGAT
1 TCGATACTTTAAATTTTGAAAACGTCAATGAATATAAGATCGA-TAGTTAATTTTAAATATCAAT
*
2945836 ACTTAATTTATAAGAT
65 ACTTAATCTATAAGAT
* * ** *
2945852 TTGATATTTTAAATTTTGAAAAATTCAATGAAGATAAGATCGATAGTTAATTTTAAATATCAATA
1 TCGATACTTTAAATTTTGAAAACGTCAATGAATATAAGATCGATAGTTAATTTTAAATATCAATA
*
2945917 CTTAATCTATAAGGT
66 CTTAATCTATAAGAT
* * *
2945932 TCAATACTTTAGAA-TTTGAAAACGTCAATGAATATAAGATTGATAGTTTATTTTAAATATCAAT
1 TCGATACTTTA-AATTTTGAAAACGTCAATGAATATAAGATCGATAGTTAATTTTAAATATCAAT
2945996 ACTTAATCTAT
65 ACTTAATCTAT
2946007 GAGGTTCAAT
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 131 0.98
81 3 0.02
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.39
Consensus pattern (80 bp):
TCGATACTTTAAATTTTGAAAACGTCAATGAATATAAGATCGATAGTTAATTTTAAATATCAATA
CTTAATCTATAAGAT
Found at i:2946303 original size:35 final size:36
Alignment explanation
Indices: 2946220--2946305 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 36
2946210 ACCATGTATA
* *
2946220 ATGGAATAAGAAG-GTTCTCGAGAAGGCCAGATTTG
1 ATGGAAGAAGAAGTTTTCTCGAGAAGGCCAGATTTG
* * *
2946255 ATGGAACG-AGAAGTTTTCT-GAGAATGCTAGGTTTG
1 ATGGAA-GAAGAAGTTTTCTCGAGAAGGCCAGATTTG
2946290 ATGGAAGAAGAAGTTT
1 ATGGAAGAAGAAGTTT
2946306 CACGATACCA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
34 1 0.02
35 38 0.88
36 4 0.09
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (36 bp):
ATGGAAGAAGAAGTTTTCTCGAGAAGGCCAGATTTG
Found at i:2951138 original size:35 final size:35
Alignment explanation
Indices: 2951085--2951159 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
2951075 TTCATGTTCA
*
2951085 AAATTCCAAAACACTTTAATTACATTCTAAATCCC-
1 AAATTCCAAAACAATTTAATTACATTCTAAA-CCCT
* * *
2951120 AAATTCTAAAATAATTTAATTACATTTTAAACCCT
1 AAATTCCAAAACAATTTAATTACATTCTAAACCCT
2951155 AAATT
1 AAATT
2951160 AAAGTATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 3 0.09
35 32 0.91
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (35 bp):
AAATTCCAAAACAATTTAATTACATTCTAAACCCT
Found at i:2952537 original size:10 final size:10
Alignment explanation
Indices: 2952522--2952553 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2952512 TAATACTTAC
2952522 TTTATATATA
1 TTTATATATA
2952532 TTTATATATA
1 TTTATATATA
2952542 --TATATATA
1 TTTATATATA
2952550 TTTA
1 TTTA
2952554 AAACAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTATATATA
Found at i:2955749 original size:18 final size:18
Alignment explanation
Indices: 2955723--2955791 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
2955713 CACTAACTTA
*
2955723 AAACTATAAATTATACCT
1 AAACCATAAATTATACCT
**
2955741 AAACCATAACCCTATTACCTCT
1 AAACCATAA-ATTA-TA-C-CT
*
2955763 AAATCATAAATTATACCT
1 AAACCATAAATTATACCT
*
2955781 AAACCTTAAAT
1 AAACCATAAAT
2955792 CCTAAATCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
18 19 0.49
19 3 0.08
20 4 0.10
21 3 0.08
22 10 0.26
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (18 bp):
AAACCATAAATTATACCT
Found at i:2956055 original size:25 final size:26
Alignment explanation
Indices: 2956017--2956069 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
2956007 GAGTTGATTC
*
2956017 TAAAGGACAGATTTATAAAATTTAAA
1 TAAAGGACAAATTTATAAAATTTAAA
*
2956043 TAAA-GACAAATTTATAAAATTTTAA
1 TAAAGGACAAATTTATAAAATTTAAA
2956068 TA
1 TA
2956070 GAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.34
Consensus pattern (26 bp):
TAAAGGACAAATTTATAAAATTTAAA
Found at i:2956080 original size:19 final size:21
Alignment explanation
Indices: 2956058--2956101 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
2956048 ACAAATTTAT
*
2956058 AAAATTT-TAATAGAAATA-A
1 AAAATTTCTAATAAAAATATA
2956077 AAAATTTCTAATAAAAATATA
1 AAAATTTCTAATAAAAATATA
2956098 AAAA
1 AAAA
2956102 AGTATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 10 0.45
21 5 0.23
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATTTCTAATAAAAATATA
Found at i:2956356 original size:16 final size:16
Alignment explanation
Indices: 2956335--2956367 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2956325 TAATAAATAA
2956335 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2956351 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2956367 A
1 A
2956368 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2956458 original size:16 final size:16
Alignment explanation
Indices: 2956433--2956475 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
2956423 CATTTAATAA
2956433 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
2956449 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
*
2956465 ATAAACAAACA
1 ATAAACGAACA
2956476 TAAACGTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.60, C:0.21, G:0.09, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:2956471 original size:22 final size:20
Alignment explanation
Indices: 2956429--2956481 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
2956419 CGTTCATTTA
*
2956429 ATAAATAAACGAACACGAAC
1 ATAAATAAACGAACACAAAC
*
2956449 ATAAATGAACACGAACATAAAC
1 ATAAAT-AA-ACGAACACAAAC
2956471 A-AACATAAACG
1 ATAA-ATAAACG
2956482 TTGGAGACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 9 0.32
21 6 0.21
22 13 0.46
ACGTcount: A:0.60, C:0.19, G:0.09, T:0.11
Consensus pattern (20 bp):
ATAAATAAACGAACACAAAC
Done.