Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006486.1 Hibiscus syriacus cultivar Beakdansim tig00015762_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: 107053
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:121 original size:24 final size:23
Alignment explanation
Indices: 73--128 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
63 ACGGTAGAAA
73 AATAACAAAATCGAAAACGCCAT
1 AATAACAAAATCGAAAACGCCAT
96 AATAACAAAA-CGTAAAAAC-CCAAT
1 AATAACAAAATCG--AAAACGCC-AT
120 AATAACAAA
1 AATAACAAA
129 CCGGTAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.07
23 12 0.40
24 16 0.53
ACGTcount: A:0.62, C:0.20, G:0.05, T:0.12
Consensus pattern (23 bp):
AATAACAAAATCGAAAACGCCAT
Found at i:4276 original size:42 final size:42
Alignment explanation
Indices: 4207--4288 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
4197 TCGAGGCTAC
4207 AAGAATAGTATAGGTACTTGAAAAACAGTA-TCGATACTGACA
1 AAGAATAGTATAGGTACTTGAAAAACAGTACT-GATACTGACA
* **
4249 AAGAATAGTATCGGTA-TTGGATGAACAGTACTGATACTGA
1 AAGAATAGTATAGGTACTT-GAAAAACAGTACTGATACTGA
4289 GTGCACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.06
42 32 0.91
43 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (42 bp):
AAGAATAGTATAGGTACTTGAAAAACAGTACTGATACTGACA
Found at i:18124 original size:22 final size:22
Alignment explanation
Indices: 18075--18123 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18065 ATAAATTATT
**
18075 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATTCATATAA
*
18097 TAAAATAAATCAATTTATACTAA
1 TAAAATAAATCAATTCATA-TAA
18120 TAAA
1 TAAA
18124 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAAATAAATCAATTCATATAA
Found at i:18133 original size:32 final size:32
Alignment explanation
Indices: 18095--18314 Score: 181
Period size: 32 Copynumber: 7.7 Consensus size: 32
18085 CAATTCATAT
*
18095 TTTAAAATAAATCAATTTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACTAATAAATTA
* *
18127 TTTAAAATAAATCAATCTATACTAACAAGTTA
1 TTTAAAATAAATCAATCTATACTAATAAATTA
18159 TTTAAAATAAATCAATC---A-T--T--A-T-
1 TTTAAAATAAATCAATCTATACTAATAAATTA
18181 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACTAATAAATTA
18213 TTTAAAATAAATCAA--T-T-C--AT--A-T-
1 TTTAAAATAAATCAATCTATACTAATAAATTA
*
18235 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATCTATACTAA-TAAATTA
18265 --T--AATAAATCAATAC-ATACTAATAAATTA
1 TTTAAAATAAATCAAT-CTATACTAATAAATTA
*
18293 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCTATAC
18315 AACTACAATA
Statistics
Matches: 154, Mismatches: 6, Indels: 56
0.71 0.03 0.26
Matches are distributed among these distances:
22 32 0.21
23 2 0.01
24 2 0.01
25 2 0.01
26 22 0.14
27 4 0.03
28 6 0.04
29 2 0.01
30 4 0.03
31 2 0.01
32 76 0.49
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCTATACTAATAAATTA
Found at i:18135 original size:14 final size:15
Alignment explanation
Indices: 18095--18142 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
18085 CAATTCATAT
18095 TTTAAAATAAATCAA
1 TTTAAAATAAATCAA
*
18110 TTTATACTAATAAAT-TA
1 TTTA-A--AATAAATCAA
18127 TTTAAAATAAATCAA
1 TTTAAAATAAATCAA
18142 T
1 T
18143 CTATACTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 2 0.07
17 5 0.19
18 7 0.26
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTAAAATAAATCAA
Found at i:18185 original size:54 final size:53
Alignment explanation
Indices: 18127--18613 Score: 308
Period size: 54 Copynumber: 9.0 Consensus size: 53
18117 TAATAAATTA
18127 TTTAAAATAAATCAATCTATACTAACAAGTTATTTAAAATAAATCAAT-CATTAT
1 TTTAAAATAAATCAATCTATACTAACAA-TTATTTAAAATAAATCAATCCA-TAT
* *
18181 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCTATACTAA-CAATTATTTAAAATAAATCAATCCATAT
* * * * **
18235 TTTAAAATAAATCAATCTATAC-AACTACAATAATAAATCAATACATACTAATAAAT-T
1 TTTAAAATAAATCAATCTATACTAAC-A-ATTATTTAA--AATAAAT-C-AATCCATAT
* *
18292 ATTTAAAATAAATCAATCCATAC-AAC---TA--CAATAATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCTATACTAACAATTATTTAA-AATAAATCAATCCATAT
* * *
18341 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATA-
1 TTTAAAATAAATCAATCTATACTAA-CAATTATTTAAAATAAATCAATCCATAT
* * * * *
18394 -CT--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCTATACT-AA-CAAT---TA-TTTAAAATAAATCAATCCATAT
* *
18449 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCTATACTAA-CAATTATTTAAAATAAATCAATCCATA-T
** * * * * * * *
18504 AATAAATTATTTAAAATAAATCAATTC-ATACAACTA--CACTAATAAATCAATCTATAT
1 TTTAAA--A--T-AAATCAATCTATACTA-ACAATTATTTA-AAATAAATCAATCCATAT
* *
18561 TTTAAAATAAATCAAT-TCATACTAATAAATTATTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCT-ATACTAA-CAATTATTTAAAATAAATCAATCCATA
18614 CAACTACAAT
Statistics
Matches: 341, Mismatches: 52, Indels: 80
0.72 0.11 0.17
Matches are distributed among these distances:
48 27 0.08
49 8 0.02
50 19 0.06
51 2 0.01
52 12 0.04
53 15 0.04
54 147 0.43
55 15 0.04
56 7 0.02
57 9 0.03
58 57 0.17
59 11 0.03
60 12 0.04
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (53 bp):
TTTAAAATAAATCAATCTATACTAACAATTATTTAAAATAAATCAATCCATAT
Found at i:18298 original size:80 final size:79
Alignment explanation
Indices: 18078--18394 Score: 282
Period size: 80 Copynumber: 3.9 Consensus size: 79
18068 AATTATTTAA
* * ** *
18078 AATAAATCAATTCATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATACATACTACAAAATAAATCAA-TCATACTAATAAATTATTTAAAATAAATCAAT
* *
18143 CTATACTAAC-AAGTTATTTAA
65 CCATAC-AACTAA---A---AT
* **
18164 AATAAATCAAT-CATTATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATACA-TACTACAAAATAAATCAATC-ATACTAATAAATTATTTAAAATAAATCAA
* ***
18228 TTCATA-TTTTAAAAT
64 TCCATACAACTAAAAT
* *
18243 AAATCAATCTATACA-ACTACAATAATAAATCAATACATACTAATAAATTATTTAAAATAAATCA
1 -AATAAATCAATACATACTACAA-AATAAATCAAT-CATACTAATAAATTATTTAAAATAAATCA
*
18307 ATCCATACAACTACAAT
63 ATCCATACAACTAAAAT
* * ** *
18324 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATACATACTACAAAATAAATCAAT-CATACTAATAAATTATTTAAAATAAATCAAT
18389 CCATAC
65 CCATAC
18395 TAATAAATTA
Statistics
Matches: 197, Mismatches: 25, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
79 5 0.03
80 112 0.57
81 12 0.06
82 1 0.01
85 5 0.03
86 62 0.31
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (79 bp):
AATAAATCAATACATACTACAAAATAAATCAATCATACTAATAAATTATTTAAAATAAATCAATC
CATACAACTAAAAT
Found at i:18336 original size:26 final size:26
Alignment explanation
Indices: 18240--18339 Score: 103
Period size: 26 Copynumber: 3.6 Consensus size: 26
18230 CATATTTTAA
*
18240 AATAAATCAATCTATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
* *
18266 AATAAATCAATACATACTAA-TAAATTATTT
1 AATAAATCAATCCATAC-AACTACA--A--T
18296 AAAATAAATCAATCCATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
18324 AATAAATCAATCCATA
1 AATAAATCAATCCATA
18340 TTTTAAAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
26 34 0.56
27 2 0.03
28 2 0.03
30 2 0.03
31 2 0.03
32 19 0.31
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:18370 original size:22 final size:22
Alignment explanation
Indices: 18297--18370 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
18287 AAATTATTTA
*
18297 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
18322 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
18344 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
18367 AAAT
1 AAAT
18371 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:18380 original size:32 final size:32
Alignment explanation
Indices: 18341--18534 Score: 230
Period size: 32 Copynumber: 6.7 Consensus size: 32
18331 CAATCCATAT
*
18341 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
18373 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
18405 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
18427 TTTAAAATAAATCAATCCATA-T---------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
18449 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
18481 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
18513 TTTAAAATAAATCAATTCATAC
1 TTTAAAATAAATCAATCCATAC
18535 AACTACACTA
Statistics
Matches: 145, Mismatches: 2, Indels: 30
0.82 0.01 0.17
Matches are distributed among these distances:
22 37 0.26
23 3 0.02
24 1 0.01
26 2 0.01
28 1 0.01
31 1 0.01
32 100 0.69
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:18400 original size:112 final size:112
Alignment explanation
Indices: 18218--18614 Score: 589
Period size: 112 Copynumber: 3.6 Consensus size: 112
18208 AATTATTTAA
* * * *
18218 AATAAATCAATTCATATTTTAAAATAAATCAATCTATACAACTACA--A--T--AATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
*
18277 ACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
66 CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
18324 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
* **
18389 CCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-
66 CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
*
18432 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
* *
18497 CCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACACT
66 CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
* * *
18544 AATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
*
18609 TCATAC
66 CCATAC
18615 AACTACAATA
Statistics
Matches: 264, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
106 42 0.16
108 100 0.38
109 4 0.02
110 1 0.00
111 3 0.01
112 114 0.43
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (112 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
Found at i:18478 original size:22 final size:22
Alignment explanation
Indices: 18405--18469 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
18395 TAATAAATTA
18405 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
18427 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
18449 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
18470 CTAATAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:18582 original size:80 final size:80
Alignment explanation
Indices: 18477--18693 Score: 368
Period size: 80 Copynumber: 2.7 Consensus size: 80
18467 ATACTAATAA
*
18477 ATTA-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTAC
1 ATTATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTAC
*
18541 ACTAATAAATCAATC
66 AATAATAAATCAATC
18556 -TATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTA
1 AT-TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTA
18620 CAATAATAAATCAATC
65 CAATAATAAATCAATC
*
18636 ATTATTTTAAAATAAATCAA-TCTATACTAATAAATTATTTAAAATAAATCAATCCATA
1 ATTATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATTCATA
18694 TTTTAAAATA
Statistics
Matches: 131, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
78 1 0.01
79 4 0.03
80 125 0.95
81 1 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (80 bp):
ATTATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTAC
AATAATAAATCAATC
Found at i:18587 original size:18 final size:18
Alignment explanation
Indices: 18565--18616 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
18555 CTATATTTTA
18565 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
18583 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
18597 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
18615 AA
1 AA
18617 CTACAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
17 5 0.19
18 9 0.35
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATTCATAC
Found at i:18606 original size:300 final size:300
Alignment explanation
Indices: 18064--18759 Score: 862
Period size: 300 Copynumber: 2.3 Consensus size: 300
18054 CAATTACAAT
* ** * ** *
18064 AATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTTATACTAATAAATTA-T
1 AATAAATTATTTAAAATAAATCAATCCATATAATAAAATAAATAAATAAATACTAATAAAATATT
** * * * *
18128 TTAAAATAAATCAAT-C-TATACTAACAAGTTATTTAA--AATA--AATCAATCATTATTTTAAA
66 TTAAAATAAATCAATCCATATTTTAA-AA-TAAATCAATCCATACTAAT-AA--ATTATTTTAAA
* ***
18187 ATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATC
126 ATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAAACTAAAATAAATCAATC
18252 TATACAACTACAATAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAA
191 TAT--AACTACAATAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAA
18317 CTACAATAATAAATCAATCCA-TATTTTAAAATAAATCAATCCATACA
254 CTACAATAATAAATCAAT-CATTATTTTAAAATAAATCAATCCATACA
* ** **
18364 AATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AAT-CCATA
1 AATAAATTATTTAAAATAAATCAATCCATA-TAATAAAATAAAT-AAATAAATACTAATAAAATA
18426 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATA
64 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTTAAAATA
18490 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACACTAATAAATCAAT
129 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA-AACTA-A--AATAAATCAAT
* ** * *
18555 CTAT-ATTTTAA-AATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATTCATACAAC
190 CTATAACTACAATAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
* *
18618 TACAATAATAAATCAATCATTATTTTAAAATAAATCAATCTATACT
255 TACAATAATAAATCAATCATTATTTTAAAATAAATCAATCCATACA
** * *
18664 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAAATATT
1 AATAAATTATTTAAAATAAATCAATCCATATAATAAAATAAATAAATAAATACTAATAAAATATT
*
18729 TTAAAATAAATCAATCCATATTTTATAATAA
66 TTAAAATAAATCAATCCATATTTTAAAATAA
18760 TTTATTTTAA
Statistics
Matches: 340, Mismatches: 39, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
298 6 0.02
299 13 0.04
300 229 0.67
301 57 0.17
302 15 0.04
303 2 0.01
304 18 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (300 bp):
AATAAATTATTTAAAATAAATCAATCCATATAATAAAATAAATAAATAAATACTAATAAAATATT
TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAAACTAAAATAAATCAATCTATAA
CTACAATAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
AATAAATCAATCATTATTTTAAAATAAATCAATCCATACA
Found at i:18631 original size:26 final size:26
Alignment explanation
Indices: 18518--18634 Score: 82
Period size: 26 Copynumber: 4.4 Consensus size: 26
18508 AATTATTTAA
*
18518 AATAAATCAATTCATACAACTACACT
1 AATAAATCAATTCATACAACTACAAT
* * **
18544 AATAAATCAA-TC-TA-TATTTTAA-
1 AATAAATCAATTCATACAACTACAAT
*
18566 AATAAATCAATTCATACTAA-TAAATTATTT
1 AATAAATCAATTCATAC-AACTACA--A--T
18596 AAAATAAATCAATTCATACAACTACAAT
1 --AATAAATCAATTCATACAACTACAAT
18624 AATAAATCAAT
1 AATAAATCAAT
18635 CATTATTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
22 10 0.14
23 5 0.07
24 4 0.06
25 4 0.06
26 22 0.31
27 1 0.01
28 1 0.01
30 1 0.01
31 2 0.03
32 20 0.29
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (26 bp):
AATAAATCAATTCATACAACTACAAT
Found at i:18699 original size:22 final size:22
Alignment explanation
Indices: 18673--18715 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
18663 TAATAAATTA
*
18673 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
18695 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
18716 CTAATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:18706 original size:54 final size:54
Alignment explanation
Indices: 18063--18759 Score: 273
Period size: 54 Copynumber: 12.8 Consensus size: 54
18053 ACAATTACAA
* *
18063 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
** * * * ** *
18117 TAATAAATTATTTAAAATAAATCAAT-C-TATACTAACAAGTTATTTAAAATA-AA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAA-AA-TAAATCAATCTATAC
* * * * * * * ** *
18170 TCAAT-CATTATTTTAAAATAAATCAATCTATA-CTAATAAATTATTTAAAATA-AA
1 T-AATAAATTA-TTTAAAATAAATCAATCCATATTTTA-AAATAAATCAATCTATAC
** * * **
18224 TCAATTCA-TATTTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATAC-ATAC
1 T-AATAAATTA-TTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAAT-CTATAC
* ** *
18283 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCTATAC
** * ** * ** ** *
18340 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCTATAC
*
18395 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
** * ** * ** ** *
18448 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCTATAC
* *** *
18503 TAATAAATTATTTAAAATAAATCAATTCATACAACTACACTAATAAATCAATCTATATTT
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTA-A--AATAAATCAATCTATA--C
* * * * *
18563 TAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAATCAAT-TCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCT-ATAC
*
18615 -AACTACA--A--T--AATAAATCAAT-CATTATTTTAAAATAAATCAATCTATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCA-TATTTTAAAATAAATCAATCTATAC
18663 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATAC-ATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-CTATAC
* *
18717 TAATAAAATATTTTAAAATAAATCAATCCATATTTTATAATAA
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAA
18760 TTTATTTTAA
Statistics
Matches: 499, Mismatches: 88, Indels: 111
0.71 0.13 0.16
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
47 3 0.01
48 23 0.05
49 5 0.01
50 4 0.01
52 12 0.02
53 20 0.04
54 224 0.45
55 63 0.13
56 20 0.04
57 14 0.03
58 77 0.15
59 6 0.01
60 1 0.00
62 13 0.03
63 6 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
Found at i:18730 original size:33 final size:35
Alignment explanation
Indices: 18691--18776 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 35
18681 AAATCAATCC
18691 ATATTTTAAAATAAATCAATACATA-CTAATAA-A
1 ATATTTTAAAATAAATCAATACATATCTAATAATA
* * *
18724 ATATTTTAAAATAAATCAATCCATATTTTATAATA
1 ATATTTTAAAATAAATCAATACATATCTAATAATA
18759 ATTTATTTTAAAATAAAT
1 A--TATTTTAAAATAAAT
18777 TATTTTATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
33 24 0.52
34 5 0.11
35 2 0.04
37 15 0.33
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (35 bp):
ATATTTTAAAATAAATCAATACATATCTAATAATA
Found at i:18801 original size:12 final size:15
Alignment explanation
Indices: 18747--18821 Score: 123
Period size: 15 Copynumber: 5.0 Consensus size: 15
18737 AATCAATCCA
*
18747 TATTTTATAATAATT
1 TATTTTATAATAAAT
*
18762 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
18777 TATTTTATAATAAAT
1 TATTTTATAATAAAT
18792 TATTTTATAATAAAT
1 TATTTTATAATAAAT
*
18807 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
18822 AACCTTATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 56 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:20525 original size:6 final size:6
Alignment explanation
Indices: 20514--20544 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
20504 TGGACACCGC
20514 GAATCT GAATCT GAATCT GAATCT GAATCT G
1 GAATCT GAATCT GAATCT GAATCT GAATCT G
20545 CAACTGCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (6 bp):
GAATCT
Found at i:23351 original size:3 final size:3
Alignment explanation
Indices: 23345--23510 Score: 280
Period size: 3 Copynumber: 55.7 Consensus size: 3
23335 TTTTTATCCA
23345 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
23392 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
23440 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
23488 TAT TAT CAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
23511 AATATATTAA
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
2 2 0.01
3 150 0.99
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:24939 original size:21 final size:22
Alignment explanation
Indices: 24909--24950 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24899 AATATTTTTA
**
24909 TTTTATTATATTGTTAAATATT
1 TTTTATTATATTCATAAATATT
24931 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
24951 ACTTATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTATTATATTCATAAATATT
Found at i:35930 original size:7 final size:7
Alignment explanation
Indices: 35918--35999 Score: 80
Period size: 7 Copynumber: 11.6 Consensus size: 7
35908 ATTATGCTTG
35918 AAGAAAA
1 AAGAAAA
35925 AAGAAAA
1 AAGAAAA
*
35932 GAAAAAGAA
1 -AAGAA-AA
35941 AAGAAAGAA
1 AAG-AA-AA
35950 AAGAAAA
1 AAGAAAA
35957 AAGAAAA
1 AAGAAAA
35964 AAG--AA
1 AAGAAAA
35969 AAGAAAA
1 AAGAAAA
35976 AA-AAAA
1 AAGAAAA
*
35982 TAGAAAA
1 AAGAAAA
*
35989 TAGAAAA
1 AAGAAAA
35996 AAGA
1 AAGA
36000 GAAGAAAAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.08
6 5 0.08
7 37 0.57
8 8 0.12
9 10 0.15
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:35933 original size:5 final size:5
Alignment explanation
Indices: 35923--36012 Score: 75
Period size: 5 Copynumber: 18.6 Consensus size: 5
35913 GCTTGAAGAA
35923 AAAAG AAAAG AAAAAG AAAAG -AAAG AAAAG AAAA- AAGAA- AAAAG AAAAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG AAAAG
* * * *
35972 AAAA- AAAA- AATAG AAAAT AGAA- AAAAG AGAAG AAAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAA
36013 GGGGGTCAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
4 18 0.25
5 44 0.62
6 9 0.13
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:35949 original size:20 final size:18
Alignment explanation
Indices: 35921--36012 Score: 103
Period size: 19 Copynumber: 4.8 Consensus size: 18
35911 ATGCTTGAAG
35921 AAAAAAGAAAAGAAAAAGA
1 AAAAAAGAAAAGAAAAA-A
35940 AAAGAAAGAAAAGAAAAAA
1 AAA-AAAGAAAAGAAAAAA
35959 GAAAAAAGAAAAGAAAAAA
1 -AAAAAAGAAAAGAAAAAA
* *
35978 AAAATAGAAAATAGAAAAA
1 AAAAAAGAAAAGA-AAAAA
* *
35997 AGAGAAGAAAAAGAAA
1 AAAAAAG-AAAAGAAA
36013 GGGGGTCAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
18 11 0.17
19 30 0.48
20 22 0.35
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAAGAAAAAA
Found at i:35955 original size:32 final size:31
Alignment explanation
Indices: 35918--36013 Score: 81
Period size: 32 Copynumber: 2.9 Consensus size: 31
35908 ATTATGCTTG
*
35918 AAGAAAAAAGAAAAGAAAA-AGAAAAGAAAGAA
1 AAGAAAAAAGAAAAAAAAAGA-AAA-GAAAGAA
35950 AAGAAAAAAGAAAAAAGAAAAGAAAA-AAA-AA
1 AAGAAAAAAG-AAAAA-AAAAGAAAAGAAAGAA
*
35981 ATAGAAAATAGAAAAAAGAGAAGAAAAAGAAAG
1 A-AGAAAAAAGAAAAAA-A-AAG-AAAAGAAAG
36014 GGGGTCAAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
30 1 0.02
31 9 0.17
32 24 0.45
33 8 0.15
34 10 0.19
35 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (31 bp):
AAGAAAAAAGAAAAAAAAAGAAAAGAAAGAA
Found at i:35962 original size:39 final size:39
Alignment explanation
Indices: 35918--36012 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 39
35908 ATTATGCTTG
35918 AAGAAAAAAGAAAAGAAAAAGAAAAGAAAG-AAA-AGAAAA
1 AAGAAAAAAGAAAAGAAAAA-AAAA-AAAGAAAATAGAAAA
*
35957 AAGAAAAAAGAAAAGAAAAAAAAAATAGAAAATAGAAAA
1 AAGAAAAAAGAAAAGAAAAAAAAAAAAGAAAATAGAAAA
* *
35996 AAGAGAAGA-AAAAGAAA
1 AAGAAAAAAGAAAAGAAA
36013 GGGGGTCAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
37 3 0.06
38 15 0.29
39 33 0.65
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (39 bp):
AAGAAAAAAGAAAAGAAAAAAAAAAAAGAAAATAGAAAA
Found at i:36373 original size:18 final size:18
Alignment explanation
Indices: 36337--36381 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
36327 CTATTTCAAG
*
36337 TTCAATTTA--TTTGAGA
1 TTCAATTTATTTTTGAAA
36353 TTCAATTTATTTTTGAAA
1 TTCAATTTATTTTTGAAA
36371 TTCAATTTATT
1 TTCAATTTATT
36382 CTTTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
18 17 0.65
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TTCAATTTATTTTTGAAA
Found at i:37365 original size:84 final size:82
Alignment explanation
Indices: 37146--37612 Score: 719
Period size: 81 Copynumber: 5.7 Consensus size: 82
37136 CATTAACTGA
37146 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
* *
37210 AACCAATCATT-AACTGA
65 AACCAATCATTGAATTGG
* *
37227 AAGATGAATTTGCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
37292 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATT-GG
* * *
37310 AAGAGGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAG
1 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
* *
37375 AACCAATCATT-AACTGA
65 AACCAATCATTGAATTGG
*
37392 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
37457 ACCAATCATTGAATTTGG
66 ACCAATCATTGAA-TTGG
37475 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACA
1 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CA
* *
37539 GAA-CAATCATTGAGTTTAG
64 GAACCAATCATTGA-ATTGG
*
37558 AAGATGAATTTGCCGATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
37613 ATTCAGTAGG
Statistics
Matches: 358, Mismatches: 19, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
81 129 0.36
82 61 0.17
83 60 0.17
84 108 0.30
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (82 bp):
AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
ACCAATCATTGAATTGG
Found at i:37491 original size:165 final size:165
Alignment explanation
Indices: 37146--37615 Score: 793
Period size: 165 Copynumber: 2.8 Consensus size: 165
37136 CATTAACTGA
37146 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
*
37210 AACCAATCATTAACTGAAAGATGAATTTGCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATC
66 AACCAATCATTAACTGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
37275 TGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
131 TGATCTGATTTAGCAGAACCAATCATTGAATTGGG
* * *
37310 AAGAGGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-TAGCA
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CA
37374 GAACCAATCATTAACTGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
65 GAACCAATCATTAACTGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* *
37439 CTGATCTGATTTGGCAGAACCAATCATTGAATTTGG
130 CTGATCTGATTTAGCAGAACCAATCATTGAATTGGG
37475 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
** * *
37540 AA-CAATCATTGAGTTTAGAAGATGAATTTGCCGATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
66 AACCAATCATT-AACTGA-AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
37604 TCTGATCTGATT
129 TCTGATCTGATT
37616 CAGTAGGAAC
Statistics
Matches: 287, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
164 20 0.07
165 209 0.73
166 58 0.20
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (165 bp):
AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
AACCAATCATTAACTGAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGATTTAGCAGAACCAATCATTGAATTGGG
Found at i:38556 original size:113 final size:113
Alignment explanation
Indices: 38344--38785 Score: 805
Period size: 113 Copynumber: 3.9 Consensus size: 113
38334 TCAAATCCAC
*
38344 TTGATGGATCATACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCA-ACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
38409 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
65 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*
38458 TTGATGGATCAATATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
38523 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*
38571 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
38636 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*
38684 TTGATGGATCAACATTGCCAGAGAAATTTCATAAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAACATTGCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* *
38749 AAGTTCATAATGAGAAGAGCTTGTTCAAC-CTTTGTTT
65 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
38786 GATACTATCA
Statistics
Matches: 319, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
113 248 0.78
114 71 0.22
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (113 bp):
TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
Found at i:39106 original size:3 final size:3
Alignment explanation
Indices: 39100--39254 Score: 256
Period size: 3 Copynumber: 51.7 Consensus size: 3
39090 TTTTTATCCA
*
39100 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
39148 TAT TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
39196 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
39244 TAC TAT TAT TA
1 TAT TAT TAT TA
39255 AATATATTAA
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 140 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:40692 original size:20 final size:21
Alignment explanation
Indices: 40655--40694 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
40645 AATATTTTTA
**
40655 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
40676 TTTTA-TATATTCATAAATA
1 TTTTATTATATTCATAAATA
40695 CTTATAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:43833 original size:16 final size:16
Alignment explanation
Indices: 43800--43859 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
43790 CCCTAACCTT
* *
43800 CAAAAAATCAAAAACC
1 CAAAAAATCATAACCC
43816 CAAAAAATCATAACCC
1 CAAAAAATCATAACCC
*
43832 CATTGAAAATCATAACCAC
1 CA--AAAAATCATAACC-C
*
43851 CACAAAATC
1 CAAAAAATC
43860 GTTTTGTCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 16 0.43
17 6 0.16
18 12 0.32
19 3 0.08
ACGTcount: A:0.57, C:0.28, G:0.02, T:0.13
Consensus pattern (16 bp):
CAAAAAATCATAACCC
Found at i:51315 original size:44 final size:43
Alignment explanation
Indices: 51232--51321 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 43
51222 GTAAAGTTAC
* * *
51232 ACATACAAAATAACCCAATTTTTCAAAACACACAGAGCTTAAA
1 ACATACAAAATAACCCAATCTTACAAAACACACAAAGCTTAAA
* *
51275 ACATACACAACATAACCCAA-CTTACAAAACATACAAAGCTTATA
1 ACATACA-AA-ATAACCCAATCTTACAAAACACACAAAGCTTAAA
51319 ACA
1 ACA
51322 CACCTTGATG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 7 0.17
44 24 0.60
45 9 0.22
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (43 bp):
ACATACAAAATAACCCAATCTTACAAAACACACAAAGCTTAAA
Found at i:53455 original size:31 final size:33
Alignment explanation
Indices: 53399--53462 Score: 87
Period size: 31 Copynumber: 1.9 Consensus size: 33
53389 GTCCACTGTG
*
53399 AGACTAAAACTAATTAAAAATTTAGATATTAAAAC
1 AGACTAAAACTAATT--AAATTTAGATACTAAAAC
53434 AGACTAAAACTAA-T-AATTTAGATACTAAA
1 AGACTAAAACTAATTAAATTTAGATACTAAA
53463 CACTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 14 0.50
34 1 0.04
35 13 0.46
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.28
Consensus pattern (33 bp):
AGACTAAAACTAATTAAATTTAGATACTAAAAC
Found at i:62619 original size:2 final size:2
Alignment explanation
Indices: 62612--62637 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62602 AGTAAAAGGC
62612 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
62638 CAATGGGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:63191 original size:15 final size:15
Alignment explanation
Indices: 63171--63201 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63161 TTTAAATTTA
63171 AAATATAAAAAAATT
1 AAATATAAAAAAATT
*
63186 AAATATAAAAATATT
1 AAATATAAAAAAATT
63201 A
1 A
63202 TTAATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATAAAAAAATT
Found at i:63250 original size:17 final size:19
Alignment explanation
Indices: 63229--63283 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 19
63219 TGATTAAATA
63229 AAAATTA-TATTTAATTTT
1 AAAATTACTATTTAATTTT
*
63247 AAATATTATTATTTAA-TTT
1 AAA-ATTACTATTTAATTTT
* *
63266 -AATTTACTATTTTATTTT
1 AAAATTACTATTTAATTTT
63284 CTATTGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 9 0.29
18 8 0.26
19 7 0.23
20 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
AAAATTACTATTTAATTTT
Found at i:63252 original size:37 final size:38
Alignment explanation
Indices: 63183--63256 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 38
63173 ATATAAAAAA
63183 ATTAAATATAAAAATATTATTAATTATTAATATTATTG
1 ATTAAATATAAAAATATTATTAATTATTAATATTATTG
*
63221 ATTAAATA-AAAATTA-TATTTAATT-TTAAATATTATT
1 ATTAAATATAAAAATATTA-TTAATTATT-AATATTATT
63257 ATTTAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 21 0.64
38 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (38 bp):
ATTAAATATAAAAATATTATTAATTATTAATATTATTG
Found at i:63254 original size:19 final size:20
Alignment explanation
Indices: 63227--63265 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
63217 ATTGATTAAA
63227 TAAAAATTA-TATTTAATTT
1 TAAAAATTATTATTTAATTT
*
63246 TAAATATTATTATTTAATTT
1 TAAAAATTATTATTTAATTT
63266 AATTTACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAAAATTATTATTTAATTT
Found at i:68115 original size:90 final size:90
Alignment explanation
Indices: 67962--68143 Score: 328
Period size: 90 Copynumber: 2.0 Consensus size: 90
67952 ATAGTCCACT
* * *
67962 TACACCCAGTGTAAAAATAATTTTTTTACACCATTTTAGGACCATTGGATTAAAGGAAATCAAAG
1 TACACCCAATGTAAAAATAATTTGTTTACACCATTTTAGAACCATTGGATTAAAGGAAATCAAAG
*
68027 GACATCTAATGGTCCTATAAAGGTG
66 GACATCTAATGGTCCTATAAAGATG
68052 TACACCCAATGTAAAAATAATTTGTTTACACCATTTTAGAACCATTGGATTAAAGGAAATCAAAG
1 TACACCCAATGTAAAAATAATTTGTTTACACCATTTTAGAACCATTGGATTAAAGGAAATCAAAG
68117 GACATCTAATGGTCCTATAAAGATG
66 GACATCTAATGGTCCTATAAAGATG
68142 TA
1 TA
68144 AAACTTTTAA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (90 bp):
TACACCCAATGTAAAAATAATTTGTTTACACCATTTTAGAACCATTGGATTAAAGGAAATCAAAG
GACATCTAATGGTCCTATAAAGATG
Found at i:68212 original size:10 final size:10
Alignment explanation
Indices: 68199--68228 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
68189 TATATATATA
68199 TATATGTGTG
1 TATATGTGTG
68209 TATATGTGTG
1 TATATGTGTG
*
68219 TATCTGTGTG
1 TATATGTGTG
68229 GTGGGGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.30, T:0.50
Consensus pattern (10 bp):
TATATGTGTG
Found at i:69708 original size:2 final size:2
Alignment explanation
Indices: 69703--69771 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
69693 TGTGTGTGTG
69703 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
69745 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
69772 GCAAAACTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:69917 original size:29 final size:29
Alignment explanation
Indices: 69872--69929 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
69862 GTGTTGGCCG
*
69872 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* * *
69901 TAGGTCTCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
69930 AAGAGATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.36, G:0.26, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:69982 original size:10 final size:10
Alignment explanation
Indices: 69969--70038 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 10
69959 ACACGCTTGG
69969 CATCCGAGGC
1 CATCCGAGGC
69979 CATCCGACCGAGGC
1 CAT-C--C-GAGGC
69993 CAT-CGAGAG-
1 CATCCGAG-GC
70002 CATCCGAGGC
1 CATCCGAGGC
*
70012 CATCCG-GGAG
1 CATCCGAGG-C
70022 CATCCGAGGC
1 CATCCGAGGC
70032 CATCCGA
1 CATCCGA
70039 CCGAGGCCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
9 9 0.18
10 28 0.57
11 3 0.06
13 1 0.02
14 8 0.16
ACGTcount: A:0.23, C:0.37, G:0.30, T:0.10
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:69991 original size:14 final size:14
Alignment explanation
Indices: 69972--70057 Score: 55
Period size: 14 Copynumber: 5.4 Consensus size: 14
69962 CGCTTGGCAT
69972 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
69986 CCGAGGCCATCGAGAGCA
1 CCGAGGCCATC---CG-A
70004 TCCGAGGCCATCCGGGA
1 -CCGAGGCCATCC--GA
70021 GCATCCGAGGCCATCCGA
1 -C--C-GAGGCCATCCGA
70039 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
70053 ACGAG
1 CCGAG
70058 CTATGCGAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 27 0.47
15 1 0.02
17 4 0.07
18 4 0.07
19 12 0.21
20 10 0.17
ACGTcount: A:0.23, C:0.37, G:0.31, T:0.08
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:70024 original size:20 final size:20
Alignment explanation
Indices: 69986--70038 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
69976 GGCCATCCGA
69986 CCGAGGCCAT-CGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
*
70005 CCGAGGCCATCCGGGAGCAT
1 CCGAGGCCATCCGAGAGCAT
70025 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
70039 CCGAGGCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.23, C:0.36, G:0.32, T:0.09
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:70052 original size:10 final size:10
Alignment explanation
Indices: 69986--70038 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
69976 GGCCATCCGA
69986 CCGAGGCCAT
1 CCGAGGCCAT
69996 -CGAGAG-CAT
1 CCGAG-GCCAT
70005 CCGAGGCCAT
1 CCGAGGCCAT
*
70015 CCG-GGAGCAT
1 CCGAGG-CCAT
70025 CCGAGGCCAT
1 CCGAGGCCAT
70035 CCGA
1 CCGA
70039 CCGAGGCCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
9 10 0.28
10 24 0.67
11 2 0.06
ACGTcount: A:0.23, C:0.36, G:0.32, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:73341 original size:10 final size:10
Alignment explanation
Indices: 73326--73366 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
73316 TTGTTTGTGT
73326 TGTTCGTTTA
1 TGTTCGTTTA
**
73336 TGTTCGTTCG
1 TGTTCGTTTA
73346 TGTTCGTTTA
1 TGTTCGTTTA
73356 TGTTCGTTTA
1 TGTTCGTTTA
73366 T
1 T
73367 TATTTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.07, C:0.12, G:0.22, T:0.59
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:73351 original size:20 final size:20
Alignment explanation
Indices: 73326--73363 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
73316 TTGTTTGTGT
73326 TGTTCGTTTATGTTCGTTCG
1 TGTTCGTTTATGTTCGTTCG
73346 TGTTCGTTTATGTTCGTT
1 TGTTCGTTTATGTTCGTT
73364 TATTATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.13, G:0.24, T:0.58
Consensus pattern (20 bp):
TGTTCGTTTATGTTCGTTCG
Found at i:78714 original size:21 final size:21
Alignment explanation
Indices: 78687--78821 Score: 234
Period size: 21 Copynumber: 6.4 Consensus size: 21
78677 CAAAATCGCA
78687 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
* *
78708 TTACGATAGCAATGTTCACCG
1 TTGCGATAGCACTGTTCACCG
*
78729 TTACGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
78750 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
78771 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
*
78792 TTGCGATAGCACTGTTCACCA
1 TTGCGATAGCACTGTTCACCG
78813 TTGCGATAG
1 TTGCGATAG
78822 TGATCAAAAT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 109 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:79529 original size:21 final size:21
Alignment explanation
Indices: 79503--79558 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
79493 GCAATGTGAG
79503 CAGTGTTATCGCAACGATGAA
1 CAGTGTTATCGCAACGATGAA
* *
79524 CAGTGTTATCACAACGGTGAA
1 CAGTGTTATCGCAACGATGAA
*
79545 CAGTGCTATCGCAA
1 CAGTGTTATCGCAA
79559 TGCGATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (21 bp):
CAGTGTTATCGCAACGATGAA
Found at i:79574 original size:21 final size:21
Alignment explanation
Indices: 79552--79626 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
79542 GAACAGTGCT
* **
79552 ATCGCAATGCGATTTTGGACT
1 ATCGCAATGCGAATTTGGAAA
*
79573 ATCGCATTGCGAATTTGGAAA
1 ATCGCAATGCGAATTTGGAAA
* *
79594 ATCGCAACGCGAATTTAGAAA
1 ATCGCAATGCGAATTTGGAAA
79615 ATCGCAATGCGA
1 ATCGCAATGCGA
79627 TAGTCAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (21 bp):
ATCGCAATGCGAATTTGGAAA
Found at i:81183 original size:24 final size:24
Alignment explanation
Indices: 81151--81199 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
81141 ATTACCAACA
* *
81151 TCTGTTTGTCCCGATGTTAATATC
1 TCTGATTGTCCCGAGGTTAATATC
* *
81175 TCTGATTGTCTCGAGGTTATTATC
1 TCTGATTGTCCCGAGGTTAATATC
81199 T
1 T
81200 TTGTTGTAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.47
Consensus pattern (24 bp):
TCTGATTGTCCCGAGGTTAATATC
Found at i:83941 original size:59 final size:60
Alignment explanation
Indices: 83876--83996 Score: 147
Period size: 59 Copynumber: 2.0 Consensus size: 60
83866 AACATAATGA
* * * *
83876 ATAGTCGG-ATGACCATCTTGTAAATTTTAATAGTC-GGGGACTCAACAAAATAACATCTT
1 ATAGTCGGAAT-ACCATCTTATAAATTTTAATAGTCAAGAGAATCAACAAAATAACATCTT
* * * *
83935 ATAGTCGGAATACCATTTTATAACTTTTAATAGTCAAGAGAATCAACAAAGTAATATCTT
1 ATAGTCGGAATACCATCTTATAAATTTTAATAGTCAAGAGAATCAACAAAATAACATCTT
83995 AT
1 AT
83997 GGTCAGTGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
59 29 0.56
60 23 0.44
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (60 bp):
ATAGTCGGAATACCATCTTATAAATTTTAATAGTCAAGAGAATCAACAAAATAACATCTT
Found at i:87943 original size:29 final size:28
Alignment explanation
Indices: 87906--88026 Score: 73
Period size: 29 Copynumber: 4.1 Consensus size: 28
87896 TAAAGTGTAA
87906 GTATCATATTAAATCTTTTAAAAGTACAT
1 GTATCATATTAAAT-TTTTAAAAGTACAT
* * * * * *
87935 GTATTATATTAGATATTTTCATAGAACAA
1 GTATCATATTAAAT-TTTTAAAAGTACAT
* *
87964 GTATCACATTAAATATTTTTAAAAG-ATAT
1 GTATCATATT-AA-ATTTTTAAAAGTACAT
* * *
87993 ATATTATATTGGATATTTTATAAAAGTACAT
1 GTATCATATT--AAATTTT-TAAAAGTACAT
88024 GTA
1 GTA
88027 CAAAATTTAT
Statistics
Matches: 66, Mismatches: 21, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
29 44 0.67
30 15 0.23
31 7 0.11
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (28 bp):
GTATCATATTAAATTTTTAAAAGTACAT
Found at i:87953 original size:60 final size:59
Alignment explanation
Indices: 87875--88019 Score: 145
Period size: 58 Copynumber: 2.5 Consensus size: 59
87865 GATAGTGAAA
* * * *
87875 GTATTATATTATACATTTTATTAAAGTGTAAGTATCATATTAAAT-CTTTTAAAAGTACAT
1 GTATTATATTAGATATTTTATTAAAGT-CAAGTATCACATTAAATACTTTTAAAAG-ACAT
* *
87935 GTATTATATTAGATATTTTCA-TAGAA--CAAGTATCACATTAAATATTTTTAAAAGATAT
1 GTATTATATTAGATATTTT-ATTA-AAGTCAAGTATCACATTAAATACTTTTAAAAGACAT
* * *
87993 ATATTATATTGGATATTTTATAAAAGT
1 GTATTATATTAGATATTTTATTAAAGT
88020 ACATGTACAA
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
57 3 0.04
58 36 0.51
59 9 0.13
60 19 0.27
61 3 0.04
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (59 bp):
GTATTATATTAGATATTTTATTAAAGTCAAGTATCACATTAAATACTTTTAAAAGACAT
Found at i:88379 original size:28 final size:28
Alignment explanation
Indices: 88309--88380 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 28
88299 GATCAATCGC
* **
88309 TTAGGGCCCTTATTTTTTTTATTTATAA
1 TTAGGGCCCCTAAATTTTTTATTTATAA
* *
88337 TTAGGG-TCCT-CATTTTTTATTT-TCAA
1 TTAGGGCCCCTAAATTTTTTATTTAT-AA
88363 TTAGGGCCCCTAAATTTT
1 TTAGGGCCCCTAAATTTT
88381 ATAATTTCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 1 0.03
26 18 0.51
27 5 0.14
28 11 0.31
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.51
Consensus pattern (28 bp):
TTAGGGCCCCTAAATTTTTTATTTATAA
Found at i:95744 original size:76 final size:76
Alignment explanation
Indices: 95542--95746 Score: 267
Period size: 75 Copynumber: 2.7 Consensus size: 76
95532 CCGTTGTACA
* * *
95542 AGGGGGGAATCGGTACCCCCT-TGGGGGG-ATCGGTTCCCTCCGAGC-ATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCGGA
** *
95604 ACAAAACTGTTT
65 ACAAAACCATTC
95616 AGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAG-AATTCTGGAAATCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAA-TCTGGAAATCTCGGA
* *
95679 GCCAAACCATTC
65 ACAAAACCATTC
* *
95691 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGATTCCCTCTGAGCAATCTGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAA
95747 TTTTTGGCTT
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
74 24 0.21
75 61 0.53
76 28 0.24
77 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAA
CAAAACCATTC
Found at i:103968 original size:76 final size:76
Alignment explanation
Indices: 103767--103970 Score: 279
Period size: 75 Copynumber: 2.7 Consensus size: 76
103757 CGTTGTACAA
* * * *
103767 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGC-ATACTGGAATTCTCGGAAC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCGGAAC
** *
103830 AAAACTGTTTAG
65 AAAACCATTCAG
* * *
103842 GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAACA
103906 AAACCATTCAG
66 AAACCATTCAG
*
103917 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAA
103971 TTTTTGGCTT
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
75 82 0.72
76 32 0.28
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAACA
AAACCATTCAG
Found at i:104904 original size:21 final size:21
Alignment explanation
Indices: 104880--104922 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
104870 CTAAACCATT
104880 TGACATAAAACGCTCACACCC
1 TGACATAAAACGCTCACACCC
104901 TGACATAAAACGCTCACACCC
1 TGACATAAAACGCTCACACCC
104922 T
1 T
104923 TAACATTTTT
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:0.37, C:0.37, G:0.09, T:0.16
Consensus pattern (21 bp):
TGACATAAAACGCTCACACCC
Done.