Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_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: 4819703
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 21
Found at i:991024 original size:22 final size:22
Alignment explanation
Indices: 990965--991085 Score: 80
Period size: 22 Copynumber: 5.0 Consensus size: 22
990955 CAATAAATTA
990965 TTTAAAATAAATCAATCTACTAATAAT
1 TTTAAAATAAATCAATC--C--AT-AT
*
990992 TATTTAAATAAATCAATCCATAT
1 T-TTAAAATAAATCAATCCATAT
*
991015 TTTAAAATAAATCAATCTATACT
1 TTTAAAATAAATCAATCCATA-T
** *
991038 AATAAATTATTTAAAATAAATCCATAT
1 TTTAAA--A--T-AAATCAATCCATAT
*
991065 TTTAAAGTAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
991086 CTAATAATTA
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
22 30 0.39
23 9 0.12
24 2 0.03
25 1 0.01
26 1 0.01
27 7 0.09
28 26 0.34
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:991027 original size:18 final size:18
Alignment explanation
Indices: 991001--991077 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 18
990991 TTATTTAAAT
*
991001 AAATCAATCCATATTTTA
1 AAATAAATCCATATTTTA
*
991019 AAATAAAT-CA-ATCTATA
1 AAATAAATCCATAT-TTTA
*
991036 CTAATAAAT---TA-TTTA
1 -AAATAAATCCATATTTTA
991051 AAATAAATCCATATTTTA
1 AAATAAATCCATATTTTA
*
991069 AAGTAAATC
1 AAATAAATC
991078 AATCCATACT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
14 7 0.15
15 3 0.07
16 2 0.04
17 8 0.17
18 26 0.57
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (18 bp):
AAATAAATCCATATTTTA
Found at i:991107 original size:31 final size:28
Alignment explanation
Indices: 991065--991268 Score: 117
Period size: 31 Copynumber: 7.5 Consensus size: 28
991055 AAATCCATAT
*
991065 TTTAAAGTAAATCAATCCATACTAATAATTA
1 TTTAAAATAAATCAATCC-TAC-AATAA-TA
991096 TTTAAAATAAATCAATCCATACAACTACA-A
1 TTTAAAATAAATCAATCC-TACAA-TA-ATA
991126 --T--AATAAATCAAT-C--C-AT-AT-
1 TTTAAAATAAATCAATCCTACAATAATA
991144 TTTAAAATAAATCAATCTCTACAAATAAATTA
1 TTTAAAATAAATCAATC-CTAC-AAT-AA-TA
991176 TTTAAAAT-AATCAAT-CTACAATAAATA
1 TTTAAAATAAATCAATCCTACAAT-AATA
991203 TTTAAAATAAATCAAT-C--C----ATA
1 TTTAAAATAAATCAATCCTACAATAATA
991224 TTTAAAA-AAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCC-TAC-AAT-AA-TA
991255 TTTAAAATAAATCA
1 TTTAAAATAAATCA
991269 TATTAAAGTA
Statistics
Matches: 142, Mismatches: 1, Indels: 59
0.70 0.00 0.29
Matches are distributed among these distances:
18 1 0.01
20 10 0.07
21 12 0.08
22 12 0.08
24 2 0.01
25 1 0.01
26 13 0.09
27 10 0.07
28 17 0.12
29 4 0.03
30 5 0.04
31 40 0.28
32 15 0.11
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (28 bp):
TTTAAAATAAATCAATCCTACAATAATA
Found at i:991198 original size:28 final size:29
Alignment explanation
Indices: 991144--991219 Score: 111
Period size: 28 Copynumber: 2.6 Consensus size: 29
991134 CAATCCATAT
991144 TTTAAAATAAATCAATCTCTACAAATAAATTA
1 TTTAAAATAAATCAA--TCTACAAATAAA-TA
991176 TTTAAAAT-AATCAATCTAC-AATAAATA
1 TTTAAAATAAATCAATCTACAAATAAATA
991203 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
991220 CATATTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
27 10 0.23
28 14 0.33
29 5 0.12
31 6 0.14
32 8 0.19
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (29 bp):
TTTAAAATAAATCAATCTACAAATAAATA
Found at i:991236 original size:20 final size:21
Alignment explanation
Indices: 991200--991243 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
991190 TCTACAATAA
991200 ATATTTAAAATAAATCAATCC
1 ATATTTAAAATAAATCAATCC
991221 ATATTTAAAA-AAATCAATCC
1 ATATTTAAAATAAATCAATCC
991241 ATA
1 ATA
991244 CTAATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (21 bp):
ATATTTAAAATAAATCAATCC
Found at i:991349 original size:198 final size:205
Alignment explanation
Indices: 990848--991384 Score: 814
Period size: 209 Copynumber: 2.6 Consensus size: 205
990838 AATCCATACT
* *
990848 AATAAATTAT-TTAAAATAAATCAATCCATACTAATAATTA-TTAAAATAAATCAATCCATACAA
1 AATAAATCATATTAAAGTAAATCAATCCATACTAATAATTATTTAAAATAAATCAAT-CATACAA
*
990911 CTACAATAATAAATCAATCCATGTTTTAAAA-AAATCAATCCATACAATAAATTATTTAAAATAA
65 CTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC-TACAATAAATTATTTAAAATAA
* *
990975 ATCAATCTACTAATAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAA
129 ATCAATCTACTAATAAATATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
991040 TAAATTATTTAA
194 TAAATTATTTAA
991052 AATAAATCCATATTTTAAAGTAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCCATA
1 AATAAAT-CATA--TTAAAGTAAATCAATCCATACTAATAATTATTTAAAATAAATCAAT-CATA
991117 CAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCTCTACAAATAAATTATTTAAA
62 CAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC-CTAC-AATAAATTATTTAAA
991182 AT-AATCAATCTAC-AATAAATATTTAAAATAAATCAATCCATA-TTTAAAA-AAATCAATCCAT
125 ATAAATCAATCTACTAATAAATATTT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
991243 ACTAATAAATTATTTAA
189 ACTAATAAATTATTTAA
*
991260 AATAAATCATATTAAAGT-AATCAAT-CATACTAAAAATTATTTAAAA-AAATC-AT-A-ACAAC
1 AATAAATCATATTAAAGTAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCATACAAC
*
991319 TACAATAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTT-AAATAA
66 TACAATAATAAATCAATCCATATTTTAAAATAAATCAAT-CCTAC-AATAAATTATTTAAAATAA
991383 AT
129 AT
991385 TATTTAAAAA
Statistics
Matches: 314, Mismatches: 8, Indels: 28
0.90 0.02 0.08
Matches are distributed among these distances:
197 4 0.01
198 62 0.20
199 2 0.01
201 2 0.01
202 5 0.02
203 20 0.06
204 14 0.04
205 9 0.03
207 4 0.01
208 64 0.20
209 70 0.22
210 40 0.13
211 18 0.06
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (205 bp):
AATAAATCATATTAAAGTAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCATACAAC
TACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCTACAATAAATTATTTAAAATAAAT
CAATCTACTAATAAATATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
AATTATTTAA
Found at i:991397 original size:15 final size:15
Alignment explanation
Indices: 991365--991524 Score: 148
Period size: 15 Copynumber: 10.5 Consensus size: 15
991355 AATACATACT
991365 AATAAATTA-TTT-A
1 AATAAATTATTTTAA
*
991378 AATAAATTATTTAAA
1 AATAAATTATTTTAA
991393 AATAATCAATCAATATTTT-A
1 AAT-A--AAT---TATTTTAA
* *
991413 TATAATTTATTTTAA
1 AATAAATTATTTTAA
*
991428 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
991443 AATAAATTATTTTTA
1 AATAAATTATTTTAA
*
991458 AAT-AATTATTTTAT
1 AATAAATTATTTTAA
*
991472 AATAAATTATTTTAT
1 AATAAATTATTTTAA
* *
991487 ACTAAATTATTTTAT
1 AATAAATTATTTTAA
991502 AATAAATTATTTTAAA
1 AATAAATTATTTT-AA
991518 AATAAAT
1 AATAAAT
991525 ACCTTATTAA
Statistics
Matches: 122, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
13 9 0.07
14 20 0.16
15 70 0.57
16 9 0.07
17 2 0.02
18 3 0.02
19 1 0.01
20 3 0.02
21 5 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:991454 original size:44 final size:43
Alignment explanation
Indices: 991406--991524 Score: 166
Period size: 44 Copynumber: 2.7 Consensus size: 43
991396 AATCAATCAA
991406 TATTTTATATAATTTATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTATATAA-TTATTTTAAAATAAATTATTTTATAATAAAT
* * *
991450 TATTTTTAAATAATTATTTTATAATAAATTATTTTATACTAAAT
1 TA-TTTTATATAATTATTTTAAAATAAATTATTTTATAATAAAT
991494 TATTTTATAATAAATTATTTTAAAAATAAAT
1 TATTTTAT-AT-AATTATTTT-AAAATAAAT
991525 ACCTTATTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
43 5 0.08
44 35 0.53
45 18 0.27
46 8 0.12
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (43 bp):
TATTTTATATAATTATTTTAAAATAAATTATTTTATAATAAAT
Found at i:991455 original size:30 final size:30
Alignment explanation
Indices: 991365--991524 Score: 184
Period size: 30 Copynumber: 5.2 Consensus size: 30
991355 AATACATACT
*
991365 AATAAATTA-TTTA-AATAAATTATTTAAA
1 AATAAATTATTTTATAATAAATTATTTTAA
*
991393 AATAATCAATCAATATTTTAT-ATAATTTATTTTAA
1 AAT-A--AAT---TATTTTATAATAAATTATTTTAA
*
991428 AATAAATTATTTTATAATAAATTATTTTTA
1 AATAAATTATTTTATAATAAATTATTTTAA
*
991458 AAT-AATTATTTTATAATAAATTATTTTAT
1 AATAAATTATTTTATAATAAATTATTTTAA
*
991487 ACTAAATTATTTTATAATAAATTATTTTAAA
1 AATAAATTATTTTATAATAAATTATTTT-AA
991518 AATAAAT
1 AATAAAT
991525 ACCTTATTAA
Statistics
Matches: 112, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
28 3 0.03
29 35 0.31
30 39 0.35
31 10 0.09
32 3 0.03
34 3 0.03
35 19 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (30 bp):
AATAAATTATTTTATAATAAATTATTTTAA
Found at i:992023 original size:18 final size:19
Alignment explanation
Indices: 992002--992040 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
991992 AATAGGGACC
* *
992002 ATTTTTTCAATACTT-TTT
1 ATTTTTTAAACACTTGTTT
992020 ATTTTTTAAACACTTGTTT
1 ATTTTTTAAACACTTGTTT
992039 AT
1 AT
992041 GATCAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTTTTAAACACTTGTTT
Found at i:993252 original size:22 final size:21
Alignment explanation
Indices: 993220--993261 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
993210 AAGACGAAAC
993220 TTAAAGTAATTATATATAATAAT
1 TTAAAGTAATTAT-T-TAATAAT
993243 TTAAA-TAATTATTTAATAA
1 TTAAAGTAATTATTTAATAA
993262 AAACAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 7 0.37
23 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAAGTAATTATTTAATAAT
Found at i:993792 original size:25 final size:25
Alignment explanation
Indices: 993738--993807 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
993728 TCAAAATGAT
* * *
993738 TATTTTGACTCATATTTTTTTGAAA
1 TATTTTGGCCCATATATTTTTGAAA
* *
993763 CATTTTGGCCCATATATTTTTGAAG
1 TATTTTGGCCCATATATTTTTGAAA
*
993788 TATTTTAGCCCATAATATTT
1 TATTTTGGCCCAT-ATATTT
993808 CATTTTAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 31 0.84
26 6 0.16
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (25 bp):
TATTTTGGCCCATATATTTTTGAAA
Found at i:1003907 original size:33 final size:32
Alignment explanation
Indices: 1003844--1003914 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
1003834 TTTATATATT
* *
1003844 TTTTTAAATTTCATTAATGATTTAATTTTATA
1 TTTTTAAATTTAATTAATGATTTAAATTTATA
*
1003876 TTTTTAAATTTAATATAAT-TTCTTAAATTTATA
1 TTTTTAAATTTAAT-TAATGAT-TTAAATTTATA
*
1003909 TCTTTA
1 TTTTTA
1003915 TATAAAACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (32 bp):
TTTTTAAATTTAATTAATGATTTAAATTTATA
Found at i:1006147 original size:18 final size:17
Alignment explanation
Indices: 1006116--1006150 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1006106 CACTTAAATT
*
1006116 CGATTGATTTGAAGAGC
1 CGATTGATTCGAAGAGC
1006133 CGATTCGATTCGAAGAGC
1 CGATT-GATTCGAAGAGC
1006151 ATATTCTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (17 bp):
CGATTGATTCGAAGAGC
Found at i:1008741 original size:16 final size:15
Alignment explanation
Indices: 1008689--1008742 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
1008679 TGTTTAAAAT
1008689 ATTT-ATATTACATAA
1 ATTTAATATTA-ATAA
*
1008704 ATTTTGATATTAAT-A
1 A-TTTAATATTAATAA
1008719 A-TTAATATTATATAA
1 ATTTAATATTA-ATAA
1008734 ATTTAATAT
1 ATTTAATAT
1008743 ATTTATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
13 8 0.24
14 2 0.06
15 5 0.15
16 12 0.36
17 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTAATATTAATAA
Found at i:1009315 original size:27 final size:29
Alignment explanation
Indices: 1009285--1009349 Score: 98
Period size: 27 Copynumber: 2.3 Consensus size: 29
1009275 AAAAAGTGAG
1009285 AAAACTTAACAACATTT-TATGAACCA-T
1 AAAACTTAACAACATTTATATGAACCATT
1009312 AAAACTTAACAACATTTGATATGAACCATT
1 AAAACTTAACAACATTT-ATATGAACCATT
*
1009342 AAATCTTA
1 AAAACTTA
1009350 TATGGACCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 17 0.50
29 9 0.26
30 8 0.24
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAACTTAACAACATTTATATGAACCATT
Found at i:1013323 original size:7 final size:7
Alignment explanation
Indices: 1013311--1013371 Score: 122
Period size: 7 Copynumber: 8.7 Consensus size: 7
1013301 CTCAAGTACC
1013311 GAAAAGG
1 GAAAAGG
1013318 GAAAAGG
1 GAAAAGG
1013325 GAAAAGG
1 GAAAAGG
1013332 GAAAAGG
1 GAAAAGG
1013339 GAAAAGG
1 GAAAAGG
1013346 GAAAAGG
1 GAAAAGG
1013353 GAAAAGG
1 GAAAAGG
1013360 GAAAAGG
1 GAAAAGG
1013367 GAAAA
1 GAAAA
1013372 AGTTAAGTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (7 bp):
GAAAAGG
Found at i:1026146 original size:20 final size:20
Alignment explanation
Indices: 1026123--1026170 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
1026113 AGTTTCCAAT
1026123 ATCGCAACGCGAATCTGTAA
1 ATCGCAACGCGAATCTGTAA
*
1026143 ATCGCAACGCGAATTTGTAA
1 ATCGCAACGCGAATCTGTAA
1026163 ATCGCAAC
1 ATCGCAAC
1026171 ACAGAAGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAATCTGTAA
Found at i:1026324 original size:61 final size:61
Alignment explanation
Indices: 1026164--1026412 Score: 304
Period size: 61 Copynumber: 4.1 Consensus size: 61
1026154 AATTTGTAAA
* * * * * * *
1026164 TCGCAACACAGAA-GTCAAATTCGCAACGCGATAGTCAAATCCGCAACACAAAAGTCAAAT
1 TCGCAACACTGAATGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAAGTCAAAT
* * * * *
1026224 TCGCAACAC-AAAAGTCAAATCCACAACACAAAAGTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACACTGAATGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAAGTCAAAT
* *
1026284 TCGCAACACTGAATTTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACACTGAATGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAAGTCAAAT
* * *** *
1026345 TCGCAACACTGAATTTCAAATTCGCAACGCGGTAGTCAAATTCGCAAAGCGAAAGTCAAAT
1 TCGCAACACTGAATGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAAGTCAAAT
1026406 TCGCAAC
1 TCGCAAC
1026413 GCGAAACACA
Statistics
Matches: 166, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
59 2 0.01
60 56 0.34
61 108 0.65
ACGTcount: A:0.42, C:0.26, G:0.14, T:0.18
Consensus pattern (61 bp):
TCGCAACACTGAATGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAAGTCAAAT
Found at i:1026416 original size:20 final size:20
Alignment explanation
Indices: 1026164--1026418 Score: 271
Period size: 20 Copynumber: 12.7 Consensus size: 20
1026154 AATTTGTAAA
1026164 TCGCAACAC-AGAAGTCAAAT
1 TCGCAACACGA-AAGTCAAAT
* *
1026184 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
* *
1026204 CCGCAACACAAAAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
*
1026224 TCGCAACACAAAAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
* * *
1026244 CCACAACACAAAAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
* *
1026264 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
**
1026284 TCGCAACACTGAATTTCAAAT
1 TCGCAACAC-GAAAGTCAAAT
*
1026305 TCGCAACACAAAAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
* *
1026325 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
**
1026345 TCGCAACACTGAATTTCAAAT
1 TCGCAACAC-GAAAGTCAAAT
* **
1026366 TCGCAACGCGGTAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
1026386 TCGCAA-AGCGAAAGTCAAAT
1 TCGCAACA-CGAAAGTCAAAT
*
1026406 TCGCAACGCGAAA
1 TCGCAACACGAAA
1026419 CACAATATTA
Statistics
Matches: 193, Mismatches: 37, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
20 159 0.82
21 34 0.18
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.18
Consensus pattern (20 bp):
TCGCAACACGAAAGTCAAAT
Found at i:1026872 original size:18 final size:19
Alignment explanation
Indices: 1026851--1026894 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1026841 AAATCGCAAC
1026851 GCGATTT-AGTTTCGCGTT
1 GCGATTTCAGTTTCGCGTT
*
1026869 GCGATTTCATTTTCGCGTT
1 GCGATTTCAGTTTCGCGTT
1026888 GCGATTT
1 GCGATTT
1026895 TGGTGTTACG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.45
Consensus pattern (19 bp):
GCGATTTCAGTTTCGCGTT
Found at i:1029042 original size:19 final size:20
Alignment explanation
Indices: 1028994--1029088 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 20
1028984 GATGCACTTA
*
1028994 TCATCATTCAAGACG-CCTC
1 TCATCATTCAAGAGGCCCTC
1029013 -CTATCATTCAAGAGGCCCTC
1 TC-ATCATTCAAGAGGCCCTC
1029033 TCATCA-TCAAAGAGGCCCCTC
1 TCATCATTC-AAGAGG-CCCTC
* * *
1029054 CCA-CTGTTCAAGAGGCCTCTG
1 TCATC-ATTCAAGAGGCC-CTC
*
1029075 TCATCGTTCAAGAG
1 TCATCATTCAAGAG
1029089 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
18 1 0.02
19 14 0.23
20 17 0.27
21 27 0.44
22 3 0.05
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (20 bp):
TCATCATTCAAGAGGCCCTC
Found at i:1030503 original size:62 final size:65
Alignment explanation
Indices: 1030377--1030549 Score: 230
Period size: 62 Copynumber: 2.6 Consensus size: 65
1030367 TCTGGGGTAC
*
1030377 ATTTTTTTGCTTGTTTAATTGAATTTTGCATTGAAAGTTGATTT-TTTAATTGATGAGGAAATAA
1 ATTTTTTTGCTTGTTTAATTG-A-TTTG---TAAAAGTTGATTTGTTTAATTGATGAGGAAATAA
1030441 GAATT
61 GAATT
* *
1030446 A-TTTTTTGCTTG-TTAATTGATTT-T-AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAAT
1 ATTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAAT
1030507 T
65 T
1030508 ATTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 ATTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1030550 GTTTTAAATT
Statistics
Matches: 96, Mismatches: 2, Indels: 15
0.85 0.02 0.13
Matches are distributed among these distances:
60 11 0.11
61 6 0.06
62 19 0.20
63 11 0.11
64 11 0.11
65 4 0.04
66 15 0.16
67 7 0.07
68 11 0.11
69 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (65 bp):
ATTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATT
Found at i:1031000 original size:18 final size:18
Alignment explanation
Indices: 1030958--1030993 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1030948 AAGCCGGTTG
*
1030958 TGATTGAGATTTTGATTT
1 TGATTGCGATTTTGATTT
1030976 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
1030994 CTTTTGCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1033432 original size:12 final size:12
Alignment explanation
Indices: 1033411--1033444 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1033401 TGTTGTGGGT
*
1033411 TTTGAGATTGTG
1 TTTGATATTGTG
1033423 TTTGATATTGTG
1 TTTGATATTGTG
*
1033435 TTTGGTATTG
1 TTTGATATTG
1033445 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1034260 original size:19 final size:20
Alignment explanation
Indices: 1034219--1034270 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1034209 ACTAAAACCT
*
1034219 GTTGCGAATTCGAAAATCTA
1 GTTGCGAATTTGAAAATCTA
*
1034239 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAAATCTA
1034258 GTTGCGAATTTGA
1 GTTGCGAATTTGA
1034271 CTTTTGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCTA
Found at i:1034282 original size:39 final size:40
Alignment explanation
Indices: 1034239--1034324 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
1034229 CGAAAATCTA
*
1034239 GTTGCGAATTTGAA-ATTC-AGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAATA-TCGAGTTGCGAATTTGACTTCTGT
* *
1034278 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGAATATCGAGTTGCGAATTTGACTTCTGT
1034318 GTTGCGA
1 GTTGCGA
1034325 TTTACAGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 15 0.36
40 27 0.64
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.41
Consensus pattern (40 bp):
GTTGCGAATTTGAATATCGAGTTGCGAATTTGACTTCTGT
Found at i:1034283 original size:20 final size:20
Alignment explanation
Indices: 1034258--1034324 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
1034248 TTGAAATTCA
1034258 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
1034278 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
1034298 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
1034318 GTTGCGA
1 GTTGCGA
1034325 TTTACAGATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:1034342 original size:20 final size:20
Alignment explanation
Indices: 1034319--1034404 Score: 136
Period size: 20 Copynumber: 4.3 Consensus size: 20
1034309 GACTTCTGTG
1034319 TTGCGATTTACAGATTCGCA
1 TTGCGATTTACAGATTCGCA
* *
1034339 TTGCGATTTACAGATTCACG
1 TTGCGATTTACAGATTCGCA
*
1034359 TTACGATTTACAGATTCGCA
1 TTGCGATTTACAGATTCGCA
*
1034379 TTGCGATTTACAGATTCGCG
1 TTGCGATTTACAGATTCGCA
1034399 TTGCGA
1 TTGCGA
1034405 ATTTGACTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (20 bp):
TTGCGATTTACAGATTCGCA
Found at i:1034343 original size:40 final size:40
Alignment explanation
Indices: 1034259--1034384 Score: 118
Period size: 40 Copynumber: 3.1 Consensus size: 40
1034249 TGAAATTCAG
* * *
1034259 TTGCGAATTTGACTTTTGTGTTGCGAATTTGAC-TA-TCGCG
1 TTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAGATTCGCA
1034299 TTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGCA
1 TTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGCA
** *
1034339 TTGCG-ATTT-ACAGATTC-ACGTTACGATTTACAGATTCGCA
1 TTGCGAATTTGAC---TTCTGTGTTGCGATTTACAGATTCGCA
1034379 TTGCGA
1 TTGCGA
1034385 TTTACAGATT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
38 4 0.05
39 9 0.12
40 58 0.78
41 3 0.04
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.39
Consensus pattern (40 bp):
TTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGCA
Found at i:1035175 original size:69 final size:69
Alignment explanation
Indices: 1035064--1035200 Score: 256
Period size: 69 Copynumber: 2.0 Consensus size: 69
1035054 TCGTGTTGAC
1035064 AATTCATCTAACTATGGTAGTAAAGATGTAACAAACAATGATTGTGATGGGTTTTCTTTGACAAC
1 AATTCATCTAACTATGGTAGTAAAGATGTAACAAACAATGATTGTGATGGGTTTTCTTTGACAAC
1035129 ATAT
66 ATAT
* *
1035133 AATTCATCTAACTATGGTGGTAAGGATGTAACAAACAATGATTGTGATGGGTTTTCTTTGACAAC
1 AATTCATCTAACTATGGTAGTAAAGATGTAACAAACAATGATTGTGATGGGTTTTCTTTGACAAC
1035198 ATA
66 ATA
1035201 AAAGTAATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (69 bp):
AATTCATCTAACTATGGTAGTAAAGATGTAACAAACAATGATTGTGATGGGTTTTCTTTGACAAC
ATAT
Found at i:1036302 original size:64 final size:64
Alignment explanation
Indices: 1036234--1036389 Score: 174
Period size: 64 Copynumber: 2.4 Consensus size: 64
1036224 TTGAAGGTGT
* * ** * *
1036234 ATCGATGCACAGGTAGTGCATCGATGCACTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGTG
1 ATCGATGCACAAGTAATGCATCGATGCACTCCATTAATAAT-AAAACATCGAATGCATATTA-TA
1036297 C
64 C
* * * *
1036298 ATCGATGCATAAG-ACATGCATCGATGAATTCCATTAATAATAAAACATCGAATGCATTTTATAC
1 ATCGATGCACAAGTA-ATGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATAC
1036362 ATCGATGCACAAGTAATGCATCGATGCA
1 ATCGATGCACAAGTAATGCATCGATGCA
1036390 TACCTTCATT
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
63 1 0.01
64 68 0.89
65 7 0.09
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (64 bp):
ATCGATGCACAAGTAATGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATAC
Found at i:1036939 original size:15 final size:15
Alignment explanation
Indices: 1036915--1036948 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1036905 GAGGGTATAA
1036915 TAGTCATTCGGGACG
1 TAGTCATTCGGGACG
* *
1036930 TAGTCCTTCGGGATG
1 TAGTCATTCGGGACG
1036945 TAGT
1 TAGT
1036949 GGCCCTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (15 bp):
TAGTCATTCGGGACG
Found at i:1043141 original size:64 final size:64
Alignment explanation
Indices: 1043073--1043228 Score: 183
Period size: 64 Copynumber: 2.4 Consensus size: 64
1043063 TTGAAGGTGT
** *
1043073 ATCGATGCACAGGTAGTGCATCGATGCACTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGTG
1 ATCGATGCACAGGTAGTGCATCGATGCACTCCATTAATAAT-AAAACATCGAATGCATATTA-TG
1043136 C
64 C
* * * *
1043137 ATCGATGCATAAGGCA-TGCATCGATGCATTCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATGC
* *
1043201 ACCGATGCACAAGTAGTGCATCGATGCA
1 ATCGATGCACAGGTAGTGCATCGATGCA
1043229 TACCTTCATA
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
63 3 0.04
64 64 0.83
65 10 0.13
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:1045026 original size:10 final size:10
Alignment explanation
Indices: 1045012--1045070 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
1045002 AAGACCGATC
1045012 AAACCGGTTCG
1 AAACCGGTT-G
1045023 -AACCGGTTG
1 AAACCGGTTG
*
1045032 AAACCGGTCAG
1 AAACCGGT-TG
1045043 AAA-CGGTTG
1 AAACCGGTTG
1045052 AAAACCGGTT-
1 -AAACCGGTTG
1045062 AAACCGGTT
1 AAACCGGTT
1045071 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
9 11 0.26
10 22 0.52
11 9 0.21
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (10 bp):
AAACCGGTTG
Found at i:1045037 original size:20 final size:21
Alignment explanation
Indices: 1045012--1045070 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
1045002 AAGACCGATC
1045012 AAACCGGTTCGAACCGGTTG-
1 AAACCGGTTCGAACCGGTTGA
*
1045032 AAACCGG-TCAGAAACGGTTGA
1 AAACCGGTTC-GAACCGGTTGA
*
1045053 AAACCGGTT-AAACCGGTT
1 AAACCGGTTCGAACCGGTT
1045071 TCCAGCAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 23 0.70
21 7 0.21
22 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (21 bp):
AAACCGGTTCGAACCGGTTGA
Found at i:1052154 original size:9 final size:9
Alignment explanation
Indices: 1052136--1052205 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
1052126 GGTCGGGTCG
*
1052136 GGTCAGACC
1 GGTCAAACC
1052145 GGTCAAACC
1 GGTCAAACC
* *
1052154 GGTTTAGACC
1 GG-TCAAACC
1052164 GGTCAAACC
1 GGTCAAACC
1052173 GGTCAGAACC
1 GGTCA-AACC
*
1052183 GGTTGAAAACC
1 GG-T-CAAACC
*
1052194 GGTTAAACC
1 GGTCAAACC
1052203 GGT
1 GGT
1052206 TTCCAGCAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 28 0.56
10 14 0.28
11 7 0.14
12 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:1052183 original size:19 final size:18
Alignment explanation
Indices: 1052136--1052185 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
1052126 GGTCGGGTCG
1052136 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
*
1052154 GGTTTAGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
1052173 GGTCAGAACCGGT
1 GGTCAG-ACCGGT
1052186 TGAAAACCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.26, C:0.28, G:0.30, T:0.16
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:1052204 original size:20 final size:21
Alignment explanation
Indices: 1052168--1052206 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1052158 TAGACCGGTC
1052168 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
*
1052189 AAACCGGTTA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
1052207 TCCAGCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:1055993 original size:22 final size:22
Alignment explanation
Indices: 1055968--1056020 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
1055958 TACAAAGCAA
1055968 AAAAATAAAAGAATTTTATTTT
1 AAAAATAAAAGAATTTTATTTT
1055990 AAAAATAAAAGAATTTTATTTT
1 AAAAATAAAAGAATTTTATTTT
1056012 AAAAATAAA
1 AAAAATAAA
1056021 GTAAGAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AAAAATAAAAGAATTTTATTTT
Found at i:1059328 original size:33 final size:34
Alignment explanation
Indices: 1059291--1059397 Score: 98
Period size: 33 Copynumber: 3.2 Consensus size: 34
1059281 GGTAAGAAAT
* *
1059291 TTATTTTTATGTTAATAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
1059324 TTATTTTTATATTAATATATTTATGTAAATATTA
1 TTATTTTTATATTAATATATTTATGTAAATATTA
* * *
1059358 -T-TTTTTAT-TAAAATAATATTTATATAATTATTA
1 TTATTTTTATAT-TAAT-ATATTTATGTAAATATTA
1059391 TTTATTT
1 -TTATTT
1059398 AGAATTATTA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
31 1 0.02
32 10 0.16
33 34 0.55
34 6 0.10
35 8 0.13
36 3 0.05
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:1059388 original size:30 final size:30
Alignment explanation
Indices: 1059322--1059396 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
1059312 TTTAAATAGT
* *
1059322 TATTATTTTTATATTAATATATTTATGTAAA
1 TATTATTTTT-TATTAAAATATATATGTAAA
* *
1059353 TATTATTTTTTATTAAAATA-ATATTTATA
1 TATTATTTTTTATTAAAATATATATGTAAA
*
1059382 TAATTATTATTTATT
1 T-ATTATTTTTTATT
1059397 TAGAATTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 7 0.18
30 21 0.55
31 10 0.26
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (30 bp):
TATTATTTTTTATTAAAATATATATGTAAA
Found at i:1061134 original size:21 final size:21
Alignment explanation
Indices: 1061104--1061151 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1061094 GCAGGGGTAC
* *
1061104 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
1061125 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
1061146 ATGCCA
1 ATGCCA
1061152 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:1061181 original size:21 final size:21
Alignment explanation
Indices: 1061155--1061248 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
1061145 TATGCCATCT
* *
1061155 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
* *
1061176 CCGCAGGGTTACATTCATAGC
1 CCGCAGGGTTACATGCCTAGC
1061197 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
1061218 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
1061239 CCGCAGGGTT
1 CCGCAGGGTT
1061249 TTATACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.19, C:0.34, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:1061830 original size:33 final size:34
Alignment explanation
Indices: 1061771--1061867 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
1061761 AAATGTTTTT
*
1061771 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
1061805 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
1061838 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
1061868 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:1061874 original size:34 final size:33
Alignment explanation
Indices: 1061769--1061874 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
1061759 ATAAATGTTT
*
1061769 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
1061803 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
1061835 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
1061870 TTAAA
1 TTAAA
1061875 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:1066188 original size:22 final size:22
Alignment explanation
Indices: 1066163--1066217 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1066153 ATAATATAAC
* *
1066163 ATATTTCACATTATCACTTTAA
1 ATATGTCACATCATCACTTTAA
*
1066185 ATATGTCACGTCATCACTTTAA
1 ATATGTCACATCATCACTTTAA
* *
1066207 ACATGTGACAT
1 ATATGTCACAT
1066218 GGATCACGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (22 bp):
ATATGTCACATCATCACTTTAA
Found at i:1071399 original size:14 final size:14
Alignment explanation
Indices: 1071380--1071435 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
1071370 CGTTCGTGAA
1071380 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
1071394 CGTTCGGTTATG-T
1 CGTTCGATTATGTT
*
1071407 --TT-GTTTATGTT
1 CGTTCGATTATGTT
1071418 CGTTCGATTATGTT
1 CGTTCGATTATGTT
1071432 CGTT
1 CGTT
1071436 TATGTTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
13 3 0.09
14 23 0.66
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:1071414 original size:24 final size:24
Alignment explanation
Indices: 1071387--1071456 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
1071377 GAACGTTCGA
*
1071387 TTATGTTCGTTCGGTTATGTTTGT
1 TTATGTTCGTTCGATTATGTTTGT
*
1071411 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTTGT
*
1071435 TTATGTTCATTC-ATTTATGTTT
1 TTATGTTCGTTCGA-TTATGTTT
1071457 AACTCAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTTGT
Found at i:1072211 original size:16 final size:16
Alignment explanation
Indices: 1072186--1072228 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
1072176 CCAACGTTTA
1072186 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
1072202 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
1072218 TGTTCGTTTAT
1 TGTTCGTTTAT
1072229 TTATTAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1073516 original size:20 final size:20
Alignment explanation
Indices: 1073491--1073528 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1073481 ATTAATCTCT
1073491 ATTA-TTTATTTATAAAGATA
1 ATTATTTTA-TTATAAAGATA
1073511 ATTATTTTATTATAAAGA
1 ATTATTTTATTATAAAGA
1073529 AAAAGTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTATTTTATTATAAAGATA
Found at i:1074006 original size:43 final size:43
Alignment explanation
Indices: 1073944--1074059 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
1073934 AGACAACACT
* *
1073944 GCAATAGGTTTTGATATTTAGCGGCATTTTTCC-CACAAAC-TCC
1 GCAATAGGTGTTGAGATTTAGCGGC-TTTTTCCTCACAAACGT-C
* * * **
1073987 GCAATAAGTGTTGAGATTTAGCGACGTTTTCCTGGCAAACGTC
1 GCAATAGGTGTTGAGATTTAGCGGCTTTTTCCTCACAAACGTC
*
1074030 GCAATAGGTGTTGAGATTTCGCGGCTTTTT
1 GCAATAGGTGTTGAGATTTAGCGGCTTTTT
1074060 TATACAAACG
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 6 0.10
43 53 0.88
44 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (43 bp):
GCAATAGGTGTTGAGATTTAGCGGCTTTTTCCTCACAAACGTC
Found at i:1074141 original size:44 final size:44
Alignment explanation
Indices: 1074078--1074203 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 44
1074068 CGCAGCTATG
** *
1074078 GTATATAGTGGCGTTTTTAGGATATAAACGCCGCTAAAGGTATA
1 GTATATAGCAGCGTTTTTAGGATACAAACGCCGCTAAAGGTATA
* * *
1074122 GTATATAGC-GTTGTTTTTAGGATACAAATGCCGCTAAAGGTCTA
1 GTATATAGCAG-CGTTTTTAGGATACAAACGCCGCTAAAGGTATA
*
1074166 GTATATAGCAGCGTTTTTAAGATACAAACGCCGCTAAA
1 GTATATAGCAGCGTTTTTAGGATACAAACGCCGCTAAA
1074204 TAACACATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
43 1 0.01
44 70 0.97
45 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (44 bp):
GTATATAGCAGCGTTTTTAGGATACAAACGCCGCTAAAGGTATA
Found at i:1075637 original size:60 final size:59
Alignment explanation
Indices: 1075558--1075745 Score: 193
Period size: 60 Copynumber: 3.1 Consensus size: 59
1075548 GCATCATATG
* * *
1075558 TTCCTAAACTATAACTCTCATTTTAAATTGGTTCTTAAACTTTTGGATATTACAATTTCA
1 TTCCCAAACTATGACTCTCATTTTAAATTGGTTCTTAAACTTTTGAATATT-CAATTTCA
* * * * *
1075618 TTCCCAAACTATGACTCTCATTCTAAATTAGTTCTTAAAATTTTTAACATTCTAATTTCA
1 TTCCCAAACTATGACTCTCATTTTAAATTGGTTCTTAAACTTTTGAATATTC-AATTTCA
* * *
1075678 -TCTCTAAACTATGAGC-CTC-TTTCTCAATTGGTTCTCAAACTTTTGAATATTCCAATTTCA
1 TTC-CCAAACTATGA-CTCTCATTT-TAAATTGGTTCTTAAACTTTTGAATATT-CAATTTCA
*
1075738 TCCCCAAA
1 TTCCCAAA
1075746 TTCATCCAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
59 5 0.05
60 96 0.92
61 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (59 bp):
TTCCCAAACTATGACTCTCATTTTAAATTGGTTCTTAAACTTTTGAATATTCAATTTCA
Found at i:1075960 original size:60 final size:60
Alignment explanation
Indices: 1075867--1075979 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
1075857 GTGTATATGT
*
1075867 ATAATTTGGGATAAAATTAGAAAGTTTAAAAAGTTTGGGAACCAATTTAGAGTTAAGGTA
1 ATAATTTGGGATAAAATTAGAAAGTTTAAAAAGTTTGAGAACCAATTTAGAGTTAAGGTA
* * * *
1075927 ATAATTTGGAGATGAAATT-GAAA-TATTCAAAAGTTTGAGAACTAGTTTAGAGT
1 ATAATTTGG-GATAAAATTAGAAAGT-TTAAAAAGTTTGAGAACCAATTTAGAGT
1075980 AATAGTCATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 1 0.02
60 37 0.80
61 8 0.17
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (60 bp):
ATAATTTGGGATAAAATTAGAAAGTTTAAAAAGTTTGAGAACCAATTTAGAGTTAAGGTA
Found at i:1076438 original size:22 final size:20
Alignment explanation
Indices: 1076391--1076460 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 20
1076381 TATATAGTGC
*
1076391 ATATGTTTATACTATAGTATACT
1 ATATG-TTATA-TATATTATA-T
1076414 ATATGTTCATATATATTAT-T
1 ATATGTT-ATATATATTATAT
1076434 ATATAGTTATATACTATGTAGTAT
1 ATAT-GTTATATA-TAT-TA-TAT
1076458 ATA
1 ATA
1076461 CATTACATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
20 10 0.25
21 6 0.15
22 11 0.28
23 9 0.22
24 4 0.10
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (20 bp):
ATATGTTATATATATTATAT
Found at i:1076492 original size:24 final size:26
Alignment explanation
Indices: 1076464--1076514 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
1076454 GTATATACAT
*
1076464 TACATATTTTATTA-TATT-TTATAA
1 TACATATATTATTATTATTATTATAA
1076488 TACATATATTATTATTATTATTATAA
1 TACATATATTATTATTATTATTATAA
1076514 T
1 T
1076515 TATTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 13 0.54
25 4 0.17
26 7 0.29
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
TACATATATTATTATTATTATTATAA
Found at i:1077775 original size:21 final size:20
Alignment explanation
Indices: 1077749--1077805 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
1077739 TTTCTTATAT
1077749 TTTATTTCTTTGATTTATTA
1 TTTATTTCTTTGATTTATTA
*
1077769 TTCTATTTATTT--TTT-TTA
1 TT-TATTTCTTTGATTTATTA
1077787 TGTT-TTTCTTTGATTTATT
1 T-TTATTTCTTTGATTTATT
1077806 TAATATCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
17 6 0.20
18 5 0.17
19 7 0.23
20 4 0.13
21 8 0.27
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTATTTCTTTGATTTATTA
Found at i:1081922 original size:106 final size:106
Alignment explanation
Indices: 1081403--1082640 Score: 2069
Period size: 106 Copynumber: 11.8 Consensus size: 106
1081393 ACACCTCAAT
* *
1081403 CAACTTCTCAATTTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
1081468 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* *
1081508 CAACTTCTC-A-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
1081571 TGTTCAACTTCACGACGAAGGG-CCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
1081611 CAACTTCTCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1081675 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
1081716 CAACTTCTCAATTTCAGAGCC-ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1081780 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
*
1081821 CAACTTATCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
1081886 AGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
*
1081927 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT-CAGACAACGTA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1081991 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
*
1082032 C-ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
1082096 AGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
1082137 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1082202 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* * * *
1082243 CAACTTCTTAATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCAAGACAACGTA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
1082308 AGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
*
1082349 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
1082414 AGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
** * * * * *
1082455 CAGTTTCCCAATCTCAGGGCCGATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
1082520 AGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
** * * * * * * * *
1082561 CAGTTTCCCAATCTCAGGGCCGATTTCAACTTCACAGCGAATGATATTGGACTCCGGACAACACA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1082626 AGTTCAACTTCACGA
66 AGTTCAACTTCACGA
1082641 TGAATGATAT
Statistics
Matches: 1083, Mismatches: 43, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
102 16 0.01
103 81 0.07
104 125 0.12
105 242 0.22
106 619 0.57
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (106 bp):
CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
Found at i:1082029 original size:316 final size:318
Alignment explanation
Indices: 1081403--1082640 Score: 2069
Period size: 316 Copynumber: 3.9 Consensus size: 318
1081393 ACACCTCAAT
* *
1081403 CAACTTCTCAATTTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
1081468 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-CAACTTCTC-A-TTCAGAGCCAAT
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCCAAT
* * * *
1081530 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGGG-C
131 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGAC
1081594 CGCTGGTTGTCAATAAACAACTTCTCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
196 CGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
1081658 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
261 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
1081716 CAACTTCTCAATTTCAGAGCC-ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
1081780 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTATCAATTTCAGAGCCAAT
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCCAAT
1081845 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGAC
131 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGAC
*
1081910 CGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
196 CGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
*
1081975 GGACT-CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
261 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
*
1082032 C-ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
1082096 AGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCCAAT
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCCAAT
*
1082161 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
131 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGAC
* * *
1082226 CGCTGGTTGTCAATAACCAACTTCTTAATTTCAGAGCCAATTTCAACTTCACAACGAATGATATT
196 CGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * *
1082291 GGACTCAAGACAACGTAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAC
261 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
*
1082349 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* * ** * * * *
1082414 AGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAATAAACAGTTTCCCAATCTCAGGGCCGAT
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCCAAT
*
1082479 TTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACAAAGGGAC
131 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGAC
** * * * * * *
1082544 CGCTGGTTGTCAATAAACAGTTTCCCAATCTCAGGGCCGATTTCAACTTCACAGCGAATGATATT
196 CGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* *
1082609 GGACTCCGGACAACACAAGTTCAACTTCACGA
261 GGACTCCAGACAACGCAAGTTCAACTTCACGA
1082641 TGAATGATAT
Statistics
Matches: 875, Mismatches: 42, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
312 81 0.09
313 28 0.03
314 1 0.00
315 90 0.10
316 317 0.36
317 92 0.11
318 266 0.30
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (318 bp):
CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCCAAT
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGAC
CGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
Found at i:1083585 original size:18 final size:19
Alignment explanation
Indices: 1083519--1083587 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 19
1083509 TGCATATGTT
*
1083519 TATACTATATAGTA-TACTA
1 TATAGTATATA-TATTACTA
*
1083538 TAT-GTTCATATATATTATTA
1 TATAG-T-ATATATATTACTA
1083558 TATAGT-TATATA-TACTA
1 TATAGTATATATATTACTA
*
1083575 TGTAGTATATATA
1 TATAGTATATATA
1083588 CATTACATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
17 9 0.22
18 12 0.29
19 6 0.15
20 13 0.32
21 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (19 bp):
TATAGTATATATATTACTA
Found at i:1083630 original size:3 final size:3
Alignment explanation
Indices: 1083622--1083652 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1083612 ATAATACATA
*
1083622 TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1083653 TAATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1084943 original size:42 final size:40
Alignment explanation
Indices: 1084856--1084952 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 40
1084846 TTATTTTGTT
* *
1084856 TTTATTTATTTCTTATATTTTTATTCTTTGATTATTATTCTA
1 TTTATTT-TTT-TTATATGTTTATTCTTTGATTATTATTCCA
1084898 TTTATTTTTTTT-TATGTTT-TTCTTTGATTTATTTAATATCCA
1 TTTATTTTTTTTATATGTTTATTCTTTGA-TTA-TT-AT-TCCA
*
1084940 TTTATTATTTTTA
1 TTTATTTTTTTTA
1084953 ATCTAACATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
38 8 0.17
39 9 0.19
40 4 0.09
41 5 0.11
42 21 0.45
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (40 bp):
TTTATTTTTTTTATATGTTTATTCTTTGATTATTATTCCA
Found at i:1086174 original size:16 final size:17
Alignment explanation
Indices: 1086136--1086180 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
1086126 GAAATTATTG
1086136 AATATATATATATATATA
1 AATATATA-ATATATATA
* *
1086154 TATATATAATATTTA-A
1 AATATATAATATATATA
1086170 AATATATAATA
1 AATATATAATA
1086181 ATTTTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 6 0.25
18 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATATAATATATATA
Found at i:1086177 original size:2 final size:2
Alignment explanation
Indices: 1086137--1086165 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1086127 AAATTATTGA
1086137 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1086166 TTAAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1086190 original size:18 final size:20
Alignment explanation
Indices: 1086151--1086189 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1086141 ATATATATAT
1086151 ATATATATATAATATTTAAA
1 ATATATATATAATATTTAAA
*
1086171 ATATATA-ATAATTTTTAAA
1 ATATATATATAATATTTAAA
1086190 TGGAATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATATATATAATATTTAAA
Found at i:1091301 original size:2 final size:2
Alignment explanation
Indices: 1091294--1091338 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1091284 TTCTCTAATC
1091294 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
1091336 TA T
1 TA T
1091339 CTTCATATTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1091402 original size:2 final size:2
Alignment explanation
Indices: 1091395--1091431 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1091385 TAAAATTAAA
1091395 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1091432 TATTTTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1094948 original size:56 final size:56
Alignment explanation
Indices: 1094881--1094989 Score: 218
Period size: 56 Copynumber: 1.9 Consensus size: 56
1094871 TGTCATATAA
1094881 TATATTTAGCTAGTAGGTCATGTAGGTTTACCGATAATCATATCAAGGTAATGTAT
1 TATATTTAGCTAGTAGGTCATGTAGGTTTACCGATAATCATATCAAGGTAATGTAT
1094937 TATATTTAGCTAGTAGGTCATGTAGGTTTACCGATAATCATATCAAGGTAATG
1 TATATTTAGCTAGTAGGTCATGTAGGTTTACCGATAATCATATCAAGGTAATG
1094990 AAACAGAGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (56 bp):
TATATTTAGCTAGTAGGTCATGTAGGTTTACCGATAATCATATCAAGGTAATGTAT
Found at i:1095663 original size:31 final size:30
Alignment explanation
Indices: 1095598--1095675 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
1095588 TCAATTTGAT
* *
1095598 ATTTTATCTAAAGTTTATGGTTAAAATAAT
1 ATTTTATCTAAAGTTTAGGGTTAAAATAAC
* * *
1095628 ATTTTATCTAAAGTTTAAGGGTTAGAGTAGC
1 ATTTTATCTAAAGTTT-AGGGTTAAAATAAC
*
1095659 ATTTTTGTCTAAAGTTT
1 A-TTTTATCTAAAGTTT
1095676 TGGGGTCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 16 0.40
31 10 0.25
32 14 0.35
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (30 bp):
ATTTTATCTAAAGTTTAGGGTTAAAATAAC
Found at i:1099598 original size:103 final size:103
Alignment explanation
Indices: 1099419--1099622 Score: 381
Period size: 103 Copynumber: 2.0 Consensus size: 103
1099409 CATCAATTGG
*
1099419 GAAAACCTCGATGAAAAGAGCAAAAAAGCTTATGGGTTCAGTTAGGGTAAATAAAACTTAGCTCT
1 GAAAACATCGATGAAAAGAGCAAAAAAGCTTATGGGTTCAGTTAGGGTAAATAAAACTTAGCTCT
1099484 ACTTTAAAAAATTAAATTTTTTAATTCAATTTAATAAT
66 ACTTTAAAAAATTAAATTTTTTAATTCAATTTAATAAT
* *
1099522 GAAAACATCGATGGAAATAGCAAAAAAGCTTATGGGTTCAGTTAGGGTAAATAAAACTTAGCTCT
1 GAAAACATCGATGAAAAGAGCAAAAAAGCTTATGGGTTCAGTTAGGGTAAATAAAACTTAGCTCT
1099587 ACTTTAAAAAATTAAATTTTTTAATTCAATTTAATA
66 ACTTTAAAAAATTAAATTTTTTAATTCAATTTAATA
1099623 TTAAAAACTC
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (103 bp):
GAAAACATCGATGAAAAGAGCAAAAAAGCTTATGGGTTCAGTTAGGGTAAATAAAACTTAGCTCT
ACTTTAAAAAATTAAATTTTTTAATTCAATTTAATAAT
Found at i:1105106 original size:199 final size:199
Alignment explanation
Indices: 1104766--1105170 Score: 801
Period size: 199 Copynumber: 2.0 Consensus size: 199
1104756 GGTTTTGTTT
1104766 TGTCTGTACTGAATTTAATGATTTCTTTTAGGTTGCATTTGGGAATTGGATTTGAAAAGATAAAT
1 TGTCTGTACTGAATTTAATGATTTCTTTTAGGTTGCATTTGGGAATTGGATTTGAAAAGATAAAT
*
1104831 TTCGATTTCAAAGTAGTATAAGTTATGTGATGAAATACCTGTAAATATAACATACGTGATTATTT
66 TTCGATTTCAAAGTAGTACAAGTTATGTGATGAAATACCTGTAAATATAACATACGTGATTATTT
1104896 CATTTTTTTGTCTAAATGTACGGATTTCTTAGATGTTTATCAGGAGTGAATTTGAACTACCTCTG
131 CATTTTTTTGTCTAAATGTACGGATTTCTTAGATGTTTATCAGGAGTGAATTTGAACTACCTCTG
1104961 CGTG
196 CGTG
1104965 TGTCTGTACTGAATTTAATGATTTCTTTTAGGTTGCATTTGGGAATTGGATTTGAAAAGATAAAT
1 TGTCTGTACTGAATTTAATGATTTCTTTTAGGTTGCATTTGGGAATTGGATTTGAAAAGATAAAT
1105030 TTCGATTTCAAAGTAGTACAAGTTATGTGATGAAATACCTGTAAATATAACATACGTGATTATTT
66 TTCGATTTCAAAGTAGTACAAGTTATGTGATGAAATACCTGTAAATATAACATACGTGATTATTT
1105095 CATTTTTTTGTCTAAATGTACGGATTTCTTAGATGTTTATCAGGAGTGAATTTGAACTACCTCTG
131 CATTTTTTTGTCTAAATGTACGGATTTCTTAGATGTTTATCAGGAGTGAATTTGAACTACCTCTG
1105160 CGTG
196 CGTG
1105164 TGTCTGT
1 TGTCTGT
1105171 GTGAATATGA
Statistics
Matches: 205, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
199 205 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (199 bp):
TGTCTGTACTGAATTTAATGATTTCTTTTAGGTTGCATTTGGGAATTGGATTTGAAAAGATAAAT
TTCGATTTCAAAGTAGTACAAGTTATGTGATGAAATACCTGTAAATATAACATACGTGATTATTT
CATTTTTTTGTCTAAATGTACGGATTTCTTAGATGTTTATCAGGAGTGAATTTGAACTACCTCTG
CGTG
Found at i:1107963 original size:2 final size:2
Alignment explanation
Indices: 1107956--1107990 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1107946 TAATTCTTCT
1107956 TA TA TA TA TA -A 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
1107991 ATGTTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1111952 original size:17 final size:18
Alignment explanation
Indices: 1111925--1111961 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1111915 TTGTTTGAAA
*
1111925 CATCGAATGCACTCTATG
1 CATCGAATGCACTCAATG
1111943 CATC-AATGCACTCAATG
1 CATCGAATGCACTCAATG
1111960 CA
1 CA
1111962 CCAACCCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (18 bp):
CATCGAATGCACTCAATG
Found at i:1111957 original size:9 final size:9
Alignment explanation
Indices: 1111930--1111962 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1111920 TGAAACATCG
1111930 AATGCACTC
1 AATGCACTC
*
1111939 TATGCA-TC
1 AATGCACTC
1111947 AATGCACTC
1 AATGCACTC
1111956 AATGCAC
1 AATGCAC
1111963 CAACCCTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.24
Consensus pattern (9 bp):
AATGCACTC
Found at i:1114417 original size:12 final size:12
Alignment explanation
Indices: 1114380--1114422 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
1114370 CCGATTTTTT
*
1114380 ACCGGATAAAAA
1 ACCGGTTAAAAA
1114392 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
1114407 ACCGGTTAAAAA
1 ACCGGTTAAAAA
1114419 ACCG
1 ACCG
1114423 ATTTTTATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 14 0.52
13 1 0.04
14 2 0.07
15 10 0.37
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.14
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:1116755 original size:21 final size:21
Alignment explanation
Indices: 1116731--1116770 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1116721 TTTATTTTAT
1116731 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
1116752 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
1116771 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:1116818 original size:33 final size:33
Alignment explanation
Indices: 1116765--1116863 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
1116755 TTTGTTTCAA
1116765 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1116797 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
1116830 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1116863 T
1 T
1116864 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:1116892 original size:13 final size:13
Alignment explanation
Indices: 1116849--1116903 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
1116839 TTGGAAGTAT
1116849 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
1116862 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
1116876 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
1116889 TTAAGTATTTGAA
1 TTAAGTATTTCAA
1116902 TT
1 TT
1116904 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:1117126 original size:21 final size:21
Alignment explanation
Indices: 1117100--1117156 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
1117090 GGAGCGTGGG
*
1117100 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
1117121 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
1117142 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
1117157 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:1117346 original size:15 final size:15
Alignment explanation
Indices: 1117321--1117376 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
1117311 ATCTGGAATA
*
1117321 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
1117336 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
1117351 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
1117368 TTAAAACCG
1 TTAAAACCG
1117377 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:1117385 original size:21 final size:18
Alignment explanation
Indices: 1117340--1117373 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1117330 GTTTTTTTAT
1117340 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
1117357 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
1117374 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:1121797 original size:15 final size:15
Alignment explanation
Indices: 1121777--1121808 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1121767 ACCCAACCTT
1121777 CTAATCCCGTTCCTC
1 CTAATCCCGTTCCTC
*
1121792 CTAATCTCGTTCCTC
1 CTAATCCCGTTCCTC
1121807 CT
1 CT
1121809 CAACCTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.44, G:0.06, T:0.38
Consensus pattern (15 bp):
CTAATCCCGTTCCTC
Found at i:1135550 original size:2 final size:2
Alignment explanation
Indices: 1135543--1135569 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1135533 AAGTAAAACA
1135543 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1135570 ATAACTTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1138647 original size:54 final size:54
Alignment explanation
Indices: 1138565--1138701 Score: 231
Period size: 54 Copynumber: 2.5 Consensus size: 54
1138555 CACCATAGGA
*
1138565 CATGTAAATAAGGAAATTTAGCATATTTAACTCAAATAATGAGATTTGGATGGG
1 CATGTAAATAAGGAAATTTACCATATTTAACTCAAATAATGAGATTTGGATGGG
*
1138619 CATGTAAATAAGGAAATTTACCGTATTTAACTCAAATAATGAGATTTGGATGGG
1 CATGTAAATAAGGAAATTTACCATATTTAACTCAAATAATGAGATTTGGATGGG
*
1138673 CATGTAAATAAGGAAAATTT-GCATATTTA
1 CATGTAAATAAGG-AAATTTACCATATTTA
1138702 GTAAAATATT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 72 0.92
55 6 0.08
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (54 bp):
CATGTAAATAAGGAAATTTACCATATTTAACTCAAATAATGAGATTTGGATGGG
Found at i:1138955 original size:23 final size:23
Alignment explanation
Indices: 1138929--1138973 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1138919 GGGCGGATAT
*
1138929 ATTTAATAT-ATTATATAATTTTA
1 ATTTAAAATAATTAT-TAATTTTA
1138952 ATTTAAAATAATTATTAATTTT
1 ATTTAAAATAATTATTAATTTT
1138974 TTTTTCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTAAAATAATTATTAATTTTA
Found at i:1142854 original size:12 final size:12
Alignment explanation
Indices: 1142837--1142879 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
1142827 ACAACAAAGG
*
1142837 TGGTGGCGACGA
1 TGGTGGCAACGA
1142849 TGGTGGCAACGA
1 TGGTGGCAACGA
1142861 TGGTGGCAACGA
1 TGGTGGCAACGA
*
1142873 CGGTGGC
1 TGGTGGC
1142880 GTGTGATCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.47, T:0.16
Consensus pattern (12 bp):
TGGTGGCAACGA
Found at i:1153851 original size:35 final size:35
Alignment explanation
Indices: 1153812--1153878 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
1153802 ACAGTAAGAC
*
1153812 CCTGAGCACAAAGCCGAAGAGCCTGCAAGTAAGGT
1 CCTGAGCACAAAGCCGAAGAGCCTCCAAGTAAGGT
*
1153847 CCTGAGCACAAAGCCGAGGAGCCTCCAAGTAA
1 CCTGAGCACAAAGCCGAAGAGCCTCCAAGTAA
1153879 TCTTCCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.28, G:0.27, T:0.10
Consensus pattern (35 bp):
CCTGAGCACAAAGCCGAAGAGCCTCCAAGTAAGGT
Found at i:1153983 original size:24 final size:23
Alignment explanation
Indices: 1153956--1154046 Score: 101
Period size: 24 Copynumber: 3.8 Consensus size: 23
1153946 CATAATTCAA
*
1153956 GTCACGTATCATATCAGAATCCAG
1 GTCA-GTATCAGATCAGAATCCAG
*
1153980 GTCATGTATCAGATCAGAATCCAT
1 GTCA-GTATCAGATCAGAATCCAG
* *
1154004 GTCAATATTAGATCAGAATCCAG
1 GTCAGTATCAGATCAGAATCCAG
* *
1154027 GTCAGGTATCATAACAGAAT
1 GTCA-GTATCAGATCAGAAT
1154047 TCAAATCAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.36
24 36 0.64
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (23 bp):
GTCAGTATCAGATCAGAATCCAG
Found at i:1154020 original size:23 final size:24
Alignment explanation
Indices: 1153962--1154030 Score: 95
Period size: 23 Copynumber: 2.9 Consensus size: 24
1153952 TCAAGTCACG
* *
1153962 TATCATATCAGAATCCAGGTCATG
1 TATCAGATCAGAATCCAGGTCATA
*
1153986 TATCAGATCAGAATCCATGTCA-A
1 TATCAGATCAGAATCCAGGTCATA
*
1154009 TATTAGATCAGAATCCAGGTCA
1 TATCAGATCAGAATCCAGGTCA
1154031 GGTATCATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 20 0.50
24 20 0.50
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (24 bp):
TATCAGATCAGAATCCAGGTCATA
Found at i:1157113 original size:23 final size:23
Alignment explanation
Indices: 1157087--1157149 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1157077 ATTATTATAT
1157087 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * *
1157110 GGCACTACGGTACAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
1157133 GGCACTTCGGTGCATTT
1 GGCACTTCGGTGCATTT
1157150 ATACAAGCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:1159800 original size:16 final size:16
Alignment explanation
Indices: 1159779--1159821 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1159769 GGTAATTAAA
1159779 GATTGATAAGGAATTT
1 GATTGATAAGGAATTT
* *
1159795 GATTGATTAATGATTTT
1 GATTGA-TAAGGAATTT
*
1159812 GAGTGATAAG
1 GATTGATAAG
1159822 AACTGATGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (16 bp):
GATTGATAAGGAATTT
Found at i:1161145 original size:2 final size:2
Alignment explanation
Indices: 1161138--1161203 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
1161128 GGTATATGTG
1161138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1161180 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
1161204 GTATTAAATG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1162227 original size:23 final size:23
Alignment explanation
Indices: 1162201--1162265 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
1162191 ACATTATTAT
1162201 ATGGCACTTCGGTGCATTTCTAC
1 ATGGCACTTCGGTGCATTTCTAC
* * *
1162224 ATGGCAATACGGTGCAATTCTAC
1 ATGGCACTTCGGTGCATTTCTAC
*
1162247 GTGGCACTTCGGTGCATTT
1 ATGGCACTTCGGTGCATTT
1162266 ATAGAAGCTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (23 bp):
ATGGCACTTCGGTGCATTTCTAC
Found at i:1163896 original size:13 final size:13
Alignment explanation
Indices: 1163878--1163920 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
1163868 ATGGTCAATG
*
1163878 GGTCAACGGGTCT
1 GGTCAACGGGTCA
*
1163891 GGTCAACGAGTCA
1 GGTCAACGGGTCA
*
1163904 AGTCAACGGGTCA
1 GGTCAACGGGTCA
1163917 GGTC
1 GGTC
1163921 GGGTTGTAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (13 bp):
GGTCAACGGGTCA
Found at i:1174311 original size:127 final size:127
Alignment explanation
Indices: 1174162--1174538 Score: 603
Period size: 127 Copynumber: 3.0 Consensus size: 127
1174152 AAAGTACGTA
* *
1174162 AAATTATAAATTAGTTAAAAATCTAAATATAATTTAATTAAAATATAATATTTATACAATATTAT
1 AAATTATAAATTAGTTAAAAATCTAAATATAATTTAATTAAAATACAATATTTATACAATATTAG
*
1174227 TTTTTATAATCTTATTTTAATTATAATTAGATCACATTAATATGGGAAATTTATAAAATGTC
66 TTTTTATAATCTTATTTTAATTATAATTAGATCACATTAATATGAGAAATTTATAAAATGTC
*
1174289 AAATCATAAATTAGTTAAAAATCTAAATATAATTTAATTAAAATACAATATTTATACAATATTAG
1 AAATTATAAATTAGTTAAAAATCTAAATATAATTTAATTAAAATACAATATTTATACAATATTAG
* * *
1174354 TTTTTATAATCTTATTTTAATTATAATTAGATCACATTAATATGAGAAATTGACAAAATGTT
66 TTTTTATAATCTTATTTTAATTATAATTAGATCACATTAATATGAGAAATTTATAAAATGTC
* *
1174416 AAATTATAAATTAGTT-AAAATCTAAATATAATTTAATTAAAATACAATATTTATATAACATTAG
1 AAATTATAAATTAGTTAAAAATCTAAATATAATTTAATTAAAATACAATATTTATACAATATTAG
* * * * *
1174480 GTTTTATAATCATATTTTAATTATAATTAGATCGCATATTAATTTGTGAAATTTATAAA
66 TTTTTATAATCTTATTTTAATTATAATTAGAT--CACATTAATATGAGAAATTTATAAA
1174539 CCTTAATTTA
Statistics
Matches: 231, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
126 76 0.33
127 135 0.58
128 20 0.09
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (127 bp):
AAATTATAAATTAGTTAAAAATCTAAATATAATTTAATTAAAATACAATATTTATACAATATTAG
TTTTTATAATCTTATTTTAATTATAATTAGATCACATTAATATGAGAAATTTATAAAATGTC
Found at i:1174455 original size:22 final size:23
Alignment explanation
Indices: 1174415--1174458 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1174405 GACAAAATGT
*
1174415 TAAATTATAAATTAGTTAAAATC
1 TAAATTATAAATTAATTAAAATC
*
1174438 TAAA-TATAATTTAATTAAAAT
1 TAAATTATAAATTAATTAAAAT
1174459 ACAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAATTATAAATTAATTAAAATC
Found at i:1176407 original size:20 final size:19
Alignment explanation
Indices: 1176382--1176424 Score: 77
Period size: 20 Copynumber: 2.2 Consensus size: 19
1176372 CATATACCCA
1176382 TATAGTTTAGATATTTCTAT
1 TATAGTTTAGATATTTCT-T
1176402 TATAGTTTAGATATTTCTT
1 TATAGTTTAGATATTTCTT
1176421 TATA
1 TATA
1176425 TTATCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (19 bp):
TATAGTTTAGATATTTCTT
Found at i:1181883 original size:19 final size:20
Alignment explanation
Indices: 1181849--1181886 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1181839 GTACATGTTA
1181849 AAGAATGCATCGATGCACTG
1 AAGAATGCATCGATGCACTG
1181869 AAGAATGCA-CGATGCACT
1 AAGAATGCATCGATGCACT
1181887 TCAATGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (20 bp):
AAGAATGCATCGATGCACTG
Found at i:1195304 original size:22 final size:22
Alignment explanation
Indices: 1195287--1195353 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1195277 CTCGTATAAA
1195287 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1195309 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1195331 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1195353 T
1 T
1195354 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1195657 original size:29 final size:28
Alignment explanation
Indices: 1195615--1195685 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
1195605 TTTTCTGCAT
* *
1195615 ATTCATATCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATA-CA
*
1195644 ATTCATGTCATGTAATACATTTAATACA
1 ATTCATGTCATGTAATACATATAATACA
1195672 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1195686 TCATAATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 15 0.38
29 24 0.62
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (28 bp):
ATTCATGTCATGTAATACATATAATACA
Found at i:1196134 original size:68 final size:69
Alignment explanation
Indices: 1195987--1196161 Score: 210
Period size: 69 Copynumber: 2.6 Consensus size: 69
1195977 TTTTCTCATG
* * * *
1195987 GGGGAATCGGTTCCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAGTCTGGAATTTCATATACGA
1 GGGGTATCGGTTCCCCCCCATAGGGGTACCGATTCCCCTCAAGCAGTCTGGAATATCATATACGA
*
1196052 TGAG
66 TGAA
* * * * *
1196056 GGGGTATCGGTTCCCCCCCATGGGGGTACCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGT
1 GGGGTATCGGTTCCCCCCCATAGGGGTACCGATTCCCCTCAAGCAGTCTGGAATATCATATACGA
1196120 TGAA
66 TGAA
*** *
1196124 GGGGTATCGGTTCCCCTTGA-ATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCCATAGGGGTACCGATTCCCCT
1196162 AACCCAGAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
67 16 0.18
68 28 0.31
69 47 0.52
ACGTcount: A:0.19, C:0.27, G:0.26, T:0.27
Consensus pattern (69 bp):
GGGGTATCGGTTCCCCCCCATAGGGGTACCGATTCCCCTCAAGCAGTCTGGAATATCATATACGA
TGAA
Found at i:1196149 original size:21 final size:21
Alignment explanation
Indices: 1196119--1196161 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1196109 ATCATATTCG
* *
1196119 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1196140 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1196161 T
1 T
1196162 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1202216 original size:22 final size:22
Alignment explanation
Indices: 1202199--1202265 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1202189 CTCGTATAAA
1202199 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1202221 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1202243 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1202265 T
1 T
1202266 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1202569 original size:29 final size:28
Alignment explanation
Indices: 1202527--1202597 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
1202517 TTTTCTGCAT
* *
1202527 ATTCATATCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATA-CA
*
1202556 ATTCATGTCATGTAATACATTTAATACA
1 ATTCATGTCATGTAATACATATAATACA
1202584 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1202598 TCATAATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 15 0.38
29 24 0.62
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (28 bp):
ATTCATGTCATGTAATACATATAATACA
Found at i:1203029 original size:69 final size:70
Alignment explanation
Indices: 1202900--1203054 Score: 206
Period size: 69 Copynumber: 2.2 Consensus size: 70
1202890 TTTTTCTCAT
* * * *
1202900 GGGGGAATCGGTT-CCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAGTCTGGAATTTCATATAC
1 GGGGGTATCGGTTCCCCCCCCATAGGGGTACCGATTCCCCTCAAGCAGTCTGGAATATCATATAC
1202964 GATGA
66 GATGA
* * * *
1202969 GGGGGTATCGGTTCCCCCCCCATGGGGGTACCGATTCCCCTCTAGCATTCTGGAA-ATCATATTC
1 GGGGGTATCGGTTCCCCCCCCATAGGGGTACCGATTCCCCTCAAGCAGTCTGGAATATCATATAC
*
1203033 GTTGA
66 GATGA
*
1203038 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1203055 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
69 39 0.52
70 36 0.48
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (70 bp):
GGGGGTATCGGTTCCCCCCCCATAGGGGTACCGATTCCCCTCAAGCAGTCTGGAATATCATATAC
GATGA
Found at i:1203064 original size:21 final size:21
Alignment explanation
Indices: 1203034--1203076 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1203024 ATCATATTCG
* *
1203034 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1203055 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1203076 T
1 T
1203077 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1205682 original size:12 final size:12
Alignment explanation
Indices: 1205665--1205690 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1205655 AAGTGATCGA
1205665 AATATAATTTTT
1 AATATAATTTTT
1205677 AATATAATTTTT
1 AATATAATTTTT
1205689 AA
1 AA
1205691 AAATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATATAATTTTT
Found at i:1208136 original size:61 final size:61
Alignment explanation
Indices: 1208040--1208162 Score: 176
Period size: 61 Copynumber: 2.0 Consensus size: 61
1208030 CAACAAATAA
* * *
1208040 ACTTATCTGAGAATTGGAAATTTCCTTGATATTGAACTTAAGTGTTGCTGGCTAGCTGCTC
1 ACTTATCTGAGAACTGAAAATTTCCTTGATATTGAACTTAAGTGTAGCTGGCTAGCTGCTC
* * *
1208101 ACTTATCTGAGAACTGAAAATTT-CTTGAATTTTGAACTTAAGTGTAGGTGGTTAGCTGCTC
1 ACTTATCTGAGAACTGAAAATTTCCTTG-ATATTGAACTTAAGTGTAGCTGGCTAGCTGCTC
1208162 A
1 A
1208163 AACTTCACCT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 4 0.07
61 51 0.93
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (61 bp):
ACTTATCTGAGAACTGAAAATTTCCTTGATATTGAACTTAAGTGTAGCTGGCTAGCTGCTC
Found at i:1209282 original size:37 final size:38
Alignment explanation
Indices: 1209236--1209307 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
1209226 GTCACATGTT
*
1209236 TAAAGTGATAACGTGGTACA-TACCACATATATATATAA
1 TAAAGTGATAACGTAGTACATTA-CACATATATATATAA
* *
1209274 TAAA-TGATAATGTAGTACATTACACATGTATATA
1 TAAAGTGATAACGTAGTACATTACACATATATATA
1209308 ACTGATGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 24 0.80
38 6 0.20
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (38 bp):
TAAAGTGATAACGTAGTACATTACACATATATATATAA
Found at i:1209340 original size:32 final size:32
Alignment explanation
Indices: 1209297--1209358 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
1209287 AGTACATTAC
1209297 ACATGTATATAACTGATGACATGA-CACATAGT
1 ACATGTATATAACTGATGACAT-ATCACATAGT
* *
1209329 ACATGTGTATAAGTGATGACATATCACATA
1 ACATGTATATAACTGATGACATATCACATA
1209359 TATCATCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (32 bp):
ACATGTATATAACTGATGACATATCACATAGT
Found at i:1213229 original size:32 final size:32
Alignment explanation
Indices: 1213169--1213265 Score: 106
Period size: 32 Copynumber: 3.1 Consensus size: 32
1213159 ATAATACTTG
*
1213169 TAACAATTCGAT-AAATTTAATGATCATTTTA
1 TAACAATTCGATAAAATTTAATGACCATTTTA
* * *
1213200 TAACAGTTCGATAAAATTTTATGACCATTTTG
1 TAACAATTCGATAAAATTTAATGACCATTTTA
* * * * *
1213232 TAACATTTTGATAAAATTTATTGAACGTTTTA
1 TAACAATTCGATAAAATTTAATGACCATTTTA
1213264 TA
1 TA
1213266 TTTTTTGGGA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
31 11 0.20
32 43 0.80
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.43
Consensus pattern (32 bp):
TAACAATTCGATAAAATTTAATGACCATTTTA
Found at i:1213690 original size:128 final size:128
Alignment explanation
Indices: 1213462--1213702 Score: 428
Period size: 128 Copynumber: 1.9 Consensus size: 128
1213452 TATTTCATCA
*
1213462 ACATCGCATCGAATCAACAACCACCCACCCAATCACTTATTTCATCAACATATTTTTATTACTCG
1 ACATCGCATCGAATCAACAACCACCCACCCAATCACTTATTTCATCAACATATTTTCATTACTCG
*
1213527 ATTGTCCCTTTATCGTCACACGAAATTTCTAAATCTTTCAATTAGTAAAATATTAAATCCCTC
66 ATTGTCCCTTTATCGTCACACGAAATTCCTAAATCTTTCAATTAGTAAAATATTAAATCCCTC
* *
1213590 ACATCGCATCGAATCAACAACCACCCAGCCATTCACTTATTTCATCAACATATTTTCATTACTCG
1 ACATCGCATCGAATCAACAACCACCCACCCAATCACTTATTTCATCAACATATTTTCATTACTCG
* *
1213655 ATTGTCCCTTTATCGTCGCATGAAATTCCTAAATCTTTCAATTAGTAA
66 ATTGTCCCTTTATCGTCACACGAAATTCCTAAATCTTTCAATTAGTAA
1213703 TTTATAAAAA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 107 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (128 bp):
ACATCGCATCGAATCAACAACCACCCACCCAATCACTTATTTCATCAACATATTTTCATTACTCG
ATTGTCCCTTTATCGTCACACGAAATTCCTAAATCTTTCAATTAGTAAAATATTAAATCCCTC
Found at i:1213733 original size:128 final size:128
Alignment explanation
Indices: 1213473--1213733 Score: 344
Period size: 128 Copynumber: 2.0 Consensus size: 128
1213463 CATCGCATCG
*
1213473 AATCAACAACCACCCACCCAATCACTTATTTCATCAACATATTTTTATTACTCGATTGTCCCTTT
1 AATCAACAACCACCCACCCAATCACTTATTTCATCAACATATTTTCATTACTCGATTGTCCCTTT
* * * * * ***
1213538 ATCGTCACACGAAATTTCTAAATCTTTCAATTAGTAAAATATTAAATCCCTCACATCGCATCG
66 ATCGTCACACGAAATTCCTAAATCTTTCAATTAGTAAAATATAAAATCCATCAAATCGAAAAA
* *
1213601 AATCAACAACCACCCAGCCATTCACTTATTTCATCAACATATTTTCATTACTCGATTGTCCCTTT
1 AATCAACAACCACCCACCCAATCACTTATTTCATCAACATATTTTCATTACTCGATTGTCCCTTT
* * ** * * *
1213666 ATCGTCGCATGAAATTCCTAAATCTTTCAATTAGTAATTTATAAAAAT-TATTAAATCTAAAAA
66 ATCGTCACACGAAATTCCTAAATCTTTCAATTAGTAAAATAT-AAAATCCATCAAATCGAAAAA
1213729 AATCA
1 AATCA
1213734 TAAATATTTT
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
128 110 0.96
129 4 0.04
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (128 bp):
AATCAACAACCACCCACCCAATCACTTATTTCATCAACATATTTTCATTACTCGATTGTCCCTTT
ATCGTCACACGAAATTCCTAAATCTTTCAATTAGTAAAATATAAAATCCATCAAATCGAAAAA
Found at i:1214026 original size:27 final size:27
Alignment explanation
Indices: 1213996--1214094 Score: 94
Period size: 26 Copynumber: 3.7 Consensus size: 27
1213986 TTTTTTCTTC
*
1213996 AAAATTTTAAGATTTTTTTAAAAAATA
1 AAAATTTTAAGATTTTTTTAAAAATTA
* * * *
1214023 AAAA-TGTAAGGTTGTTTGAAAAATTA
1 AAAATTTTAAGATTTTTTTAAAAATTA
* *
1214049 AAGATTTTAA-ATTTCATTTAAAAGATTA
1 AAAATTTTAAGATTT-TTTTAAAA-ATTA
*
1214077 AAATTTTTAAGATTTTTT
1 AAAATTTTAAGATTTTTT
1214095 AAATTAAAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
26 22 0.41
27 14 0.26
28 14 0.26
29 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.44
Consensus pattern (27 bp):
AAAATTTTAAGATTTTTTTAAAAATTA
Found at i:1215676 original size:227 final size:229
Alignment explanation
Indices: 1214963--1216353 Score: 2433
Period size: 227 Copynumber: 6.1 Consensus size: 229
1214953 GTTATATTGT
* * * *
1214963 AAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1215027 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAA
1215092 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTTGTAGGTGGAAAACATGAAACACTATT
130 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATA-TTGTAGGTGGAAAACATGAAACACTATT
1215157 AAAAAAAATTGAAACATAAATTACATAACTTT-AAA
194 AAAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
1215192 AAAGTATATATCATTTTTATAAAAGTGTCCATACTT-TTTCAATGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1215256 ATCTTTGGTTAATATTGTT-AATTTAAATTCT--A-AATATTTTATAAAATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
*
1215317 TAA-TTT-TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAA
131 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
1215380 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
* *
1215414 AAAGTATATATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGGAAAACATTTTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
1215479 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATAAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
* *
1215544 TAATTTTGTGTTTAAATGAAATTATTAAAATAATATTGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
1215608 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
1215642 AAAGTATATATCA-TTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
1215706 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAATATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
1215771 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
*
1215835 AAAAAATTGAAACATAAATTATATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
1215869 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
1215934 ATC-TTGGTTAATATTGTTAAATTTAAATTCTAAAT-A-ATTTTAT-AAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
*
1215995 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAA
131 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
*
1216060 AAAAAATTGAAACATAAATTATATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
* *
1216094 AAAGTATATATTATTTTTATAAAAGTGTCCATACGTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
1216159 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
1216224 TAATTTTGTGTGTAAATG-AA--ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
*
1216286 AAGAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
1216320 AAAGTATATATCATTTTTATAAAAGTGTCTATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1216354 GTATAAAAGT
Statistics
Matches: 1115, Mismatches: 32, Indels: 33
0.94 0.03 0.03
Matches are distributed among these distances:
221 59 0.05
222 65 0.06
223 48 0.04
224 100 0.09
225 129 0.12
226 140 0.13
227 284 0.25
228 133 0.12
229 157 0.14
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:1216346 original size:451 final size:455
Alignment explanation
Indices: 1214963--1216347 Score: 2424
Period size: 451 Copynumber: 3.1 Consensus size: 455
1214953 GTTATATTGT
* * *
1214963 AAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
1215027 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAA
1215092 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTTGTAGGTGGAAAACATGAAACACTATT
130 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATA-TTGTAGGTGGAAAACATGAAACACTATT
1215157 AAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATATATCATTTTTATAAAAGTGTC
194 AAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATATATCATTTTTATAAAAGTGTC
* *
1215221 CATACTTTTTCAATGTGGAAAACATATTTATTATTATCTTTGGTTAATATTGTT-AATTTAAATT
259 CATACTATTTCACTGTGGAAAACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATT
1215285 CT--A-AATATTTTATAAAATATCAAAAAATCAAATAA-TTT-TGTGTAAATGAAATTATTAAAT
324 CTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTGTGTGTAAATGAAA-TATTAAAT
*
1215345 TAATATTGTAGGTGGAAAATATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTT
388 TAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTT
1215410 AAAA
452 AAAA
* *
1215414 AAAGTATATATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGGAAAACATTTTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
1215479 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATAAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
* *
1215544 TAATTTTGTGTTTAAATGAAATTATTAAAATAATATTGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
1215608 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATATATCA-TTTTATAAAAGTGTCCA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATATATCATTTTTATAAAAGTGTCCA
1215672 TACTTATTTCACTGTGGAAAACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
261 TAC-TATTTCACTGTGGAAAACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
*
1215737 TAAATAATATTTTATAATATATCAAAAAATCAAATAATTTTGTGTGTAAATGAAATTATTAAATT
325 TAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTGTGTGTAAATGAAA-TATTAAATT
*
1215802 AATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTATATAACTTTAA
389 AATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAA
1215867 AA
454 AA
1215869 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
1215934 ATC-TTGGTTAATATTGTTAAATTTAAATTCTAAAT-A-ATTTTAT-AAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
*
1215995 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAA
131 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
* *
1216060 AAAAAATTGAAACATAAATTATATAACTTTAAAAAAAGTATATATTATTTTTATAAAAGTGTCCA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATATATCATTTTTATAAAAGTGTCCA
1216125 TACGTATTTCACTGTGGAAAACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
261 TAC-TATTTCACTGTGGAAAACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
*
1216190 TAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTGTGTGTAAATG-AA-ATTAAATTA
325 TAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTGTGTGTAAATGAAATATTAAATTA
1216253 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAGAAATTGAAACATAAATTACATAACTTTAA
390 ATATTGTAGGTGGAAAACATGAAACACTATTAAAA-AAATTGAAACATAAATTACATAACTTTAA
1216318 AA
454 AA
1216320 AAAGTATATATCATTTTTATAAAAGTGT
1 AAAGTATATATCATTTTTATAAAAGTGT
1216348 CTATACGTAT
Statistics
Matches: 896, Mismatches: 26, Indels: 24
0.95 0.03 0.03
Matches are distributed among these distances:
449 51 0.06
450 135 0.15
451 228 0.25
452 129 0.14
453 133 0.15
454 63 0.07
455 103 0.11
456 54 0.06
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (455 bp):
AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATATATCATTTTTATAAAAGTGTCCA
TACTATTTCACTGTGGAAAACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCT
AAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTGTGTGTAAATGAAATATTAAATTAA
TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:1216425 original size:20 final size:19
Alignment explanation
Indices: 1216402--1216447 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1216392 CGATATACCA
1216402 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
1216422 GGTAACAAATGATAAAACC
1 GGTAAAAAATGATAAAACC
1216441 GGTAAAA
1 GGTAAAA
1216448 CATTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1216612 original size:20 final size:19
Alignment explanation
Indices: 1216570--1216625 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
1216560 GATCCACAAC
*
1216570 GATATAACAGGTAAAATAT
1 GATAAAACAGGTAAAATAT
1216589 GATAAAACAGGTATCAAA-AT
1 GATAAAACAGGTA--AAATAT
*
1216609 GATAAAACCGGTAAAAT
1 GATAAAACAGGTAAAAT
1216626 GGTACCGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 3 0.09
19 12 0.38
20 14 0.44
21 3 0.09
ACGTcount: A:0.54, C:0.09, G:0.16, T:0.21
Consensus pattern (19 bp):
GATAAAACAGGTAAAATAT
Found at i:1218969 original size:33 final size:32
Alignment explanation
Indices: 1218915--1218979 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1218905 GAAAAAATAG
*
1218915 AGTGGTGAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1218947 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTG-AAGAAGTAGAGGTGTTAAGGGGTGA
1218980 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 7 0.24
33 22 0.76
ACGTcount: A:0.28, C:0.00, G:0.49, T:0.23
Consensus pattern (32 bp):
AGTGGTGAAGAAGTAGAGGTGTTAAGGGGTGA
Done.