Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 293 of 770
Found at i:89504319 original size:20 final size:21
Alignment explanation
Indices: 89504293--89504338 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
89504283 AGCCGGGATC
89504293 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
89504314 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
89504334 ACTAA
1 ACTAA
89504339 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:89504363 original size:11 final size:11
Alignment explanation
Indices: 89504293--89504339 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
89504283 AGCCGGGATC
89504293 ACTAA-CTAAT
1 ACTAATCTAAT
89504303 ACTAATCTAAT
1 ACTAATCTAAT
89504314 -CTAA-CTAAT
1 ACTAATCTAAT
89504323 ACTAATCTAAT
1 ACTAATCTAAT
89504334 ACTAAT
1 ACTAAT
89504340 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:89504389 original size:14 final size:14
Alignment explanation
Indices: 89504372--89504399 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
89504362 CTCTAATACT
89504372 AATAGAATAGAAAA
1 AATAGAATAGAAAA
89504386 AATAGAATAGAAAA
1 AATAGAATAGAAAA
89504400 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:89512727 original size:18 final size:18
Alignment explanation
Indices: 89512648--89512741 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
89512638 CAAGGTCACG
*
89512648 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
89512666 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
89512684 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
89512702 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
89512720 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
89512735 ATCAATA
1 ATCAATA
89512742 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:89512728 original size:9 final size:9
Alignment explanation
Indices: 89512648--89512728 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
89512638 CAAGGTCACG
*
89512648 ATCAATAGC
1 ATCAATATC
* *
89512657 GTCACTATC
1 ATCAATATC
*
89512666 ATCAATAGC
1 ATCAATATC
* * *
89512675 GTCACTAGC
1 ATCAATATC
89512684 ATCAATATC
1 ATCAATATC
* * *
89512693 GTCACTAGC
1 ATCAATATC
89512702 ATCAATATC
1 ATCAATATC
* *
89512711 GTCACTATC
1 ATCAATATC
89512720 ATCAATATC
1 ATCAATATC
89512729 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:89515137 original size:21 final size:21
Alignment explanation
Indices: 89515107--89515195 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
89515097 CTCACAAAGA
* *
89515107 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
89515127 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
89515148 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
89515169 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
89515193 AAA
1 AAA
89515196 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:89515188 original size:24 final size:21
Alignment explanation
Indices: 89515107--89515175 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
89515097 CTCACAAAGA
* * *
89515107 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
89515127 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
89515148 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
89515169 AAAAAGA
1 AAAAAGA
89515176 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:89519361 original size:14 final size:14
Alignment explanation
Indices: 89519342--89519370 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89519332 TACAATATAT
89519342 ATAAGAATTATACG
1 ATAAGAATTATACG
89519356 ATAAGAATTATACG
1 ATAAGAATTATACG
89519370 A
1 A
89519371 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:89522163 original size:13 final size:15
Alignment explanation
Indices: 89522138--89522177 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
89522128 TATTTTATTA
89522138 AATAAATATTAAATT
1 AATAAATATTAAATT
89522153 AA-AAA-ATTAAATT
1 AATAAATATTAAATT
89522166 AATAAATATTAA
1 AATAAATATTAA
89522178 TAAATTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAATATTAAATT
Found at i:89533928 original size:12 final size:12
Alignment explanation
Indices: 89533911--89533935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89533901 CAGAGGCTAT
89533911 TAACAATATTTA
1 TAACAATATTTA
89533923 TAACAATATTTA
1 TAACAATATTTA
89533935 T
1 T
89533936 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:89536491 original size:21 final size:20
Alignment explanation
Indices: 89536462--89536500 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
89536452 ACGCCTACGA
89536462 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
89536482 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
89536501 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:89536693 original size:15 final size:14
Alignment explanation
Indices: 89536672--89536707 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
89536662 TTATCATTTC
*
89536672 AATATATAATTTAA
1 AATATATAAATTAA
89536686 ATATATATAAATTAA
1 A-ATATATAAATTAA
89536701 AATATAT
1 AATATAT
89536708 TAATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATATATAAATTAA
Found at i:89536703 original size:16 final size:15
Alignment explanation
Indices: 89536673--89536711 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
89536663 TATCATTTCA
*
89536673 ATATATAATTTAAAT
1 ATATATAATTAAAAT
89536688 ATATATAAATTAAAAT
1 ATATAT-AATTAAAAT
89536704 ATAT-TAAT
1 ATATATAAT
89536712 AATATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 7 0.32
16 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATAATTAAAAT
Found at i:89536725 original size:24 final size:25
Alignment explanation
Indices: 89536688--89536741 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
89536678 TAATTTAAAT
89536688 ATATATAAATTAAA-ATATATTAATA
1 ATATATAAATTAAATA-ATATTAATA
*
89536713 ATATTTAAA-TAAATAATATTAATA
1 ATATATAAATTAAATAATATTAATA
89536737 ATATA
1 ATATA
89536742 GAAAGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATATATAAATTAAATAATATTAATA
Found at i:89545731 original size:17 final size:17
Alignment explanation
Indices: 89545711--89545744 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
89545701 TTCGTATATT
*
89545711 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
89545728 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
89545745 GCGAATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:89548620 original size:18 final size:18
Alignment explanation
Indices: 89548597--89548633 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
89548587 ATGAAGCTGG
* *
89548597 TTTATCTCATTTTTCCAC
1 TTTATCTAATTTATCCAC
89548615 TTTATCTAATTTATCCAC
1 TTTATCTAATTTATCCAC
89548633 T
1 T
89548634 GCGTCGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATCTAATTTATCCAC
Found at i:89550408 original size:20 final size:19
Alignment explanation
Indices: 89550338--89550421 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
89550328 ATAGATAAGA
89550338 AATAGATAAATAATATAA-A-
1 AATA-ATAAAT-ATATAATAG
*
89550357 AATAATACTAATATATATTAG
1 AATAATA--AATATATAATAG
89550378 AAT-AT--ATATATAATAG
1 AATAATAAATATATAATAG
89550394 AATAGATAAATATATAATAG
1 AATA-ATAAATATATAATAG
89550414 AATTAATA
1 AA-TAATA
89550422 TTCTAACATC
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 9 0.17
20 22 0.41
21 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (19 bp):
AATAATAAATATATAATAG
Found at i:89553855 original size:15 final size:15
Alignment explanation
Indices: 89553835--89553865 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
89553825 CTGTATCAGT
89553835 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
89553850 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
89553865 A
1 A
89553866 CGGAACCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AATGAATCAGAGCAC
Found at i:89558611 original size:18 final size:18
Alignment explanation
Indices: 89558590--89558632 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
89558580 CCTTTCCCCC
*
89558590 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
89558608 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
89558626 TGCTTTC
1 TTCTTTC
89558633 TTTTTATGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:89559275 original size:15 final size:17
Alignment explanation
Indices: 89559255--89559286 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
89559245 ACGTTTCATT
89559255 TATATAA-T-CATAAAA
1 TATATAACTGCATAAAA
89559270 TATATAACTGCATAAAA
1 TATATAACTGCATAAAA
89559287 AGATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAACTGCATAAAA
Found at i:89559444 original size:17 final size:17
Alignment explanation
Indices: 89559422--89559460 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
89559412 AATTTAGATG
*
89559422 TAAAATATACTA-AAATA
1 TAAAATAAACTAGAAA-A
89559439 TAAAATAAACTAGAAAA
1 TAAAATAAACTAGAAAA
89559456 TAAAA
1 TAAAA
89559461 ATGGAGTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAATAAACTAGAAAA
Found at i:89559544 original size:9 final size:9
Alignment explanation
Indices: 89559530--89559560 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
89559520 ATAAAAAAAG
89559530 ATATTAAAT
1 ATATTAAAT
89559539 ATATTAAAT
1 ATATTAAAT
*
89559548 ATATAAAAT
1 ATATTAAAT
89559557 ATAT
1 ATAT
89559561 AGATAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATTAAAT
Found at i:89559577 original size:19 final size:21
Alignment explanation
Indices: 89559543--89559586 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
89559533 TTAAATATAT
89559543 TAAATATATAAAATATATAGA
1 TAAATATATAAAATATATAGA
*
89559564 TAAATA-AT-AAATATATATA
1 TAAATATATAAAATATATAGA
89559583 TAAA
1 TAAA
89559587 ATTTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 2 0.09
21 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAATATATAAAATATATAGA
Found at i:89559763 original size:13 final size:13
Alignment explanation
Indices: 89559747--89559773 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89559737 TTCGAGTCTC
89559747 TAATTCATATTAA
1 TAATTCATATTAA
89559760 TAATTCATATTAA
1 TAATTCATATTAA
89559773 T
1 T
89559774 TATGAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTCATATTAA
Found at i:89560203 original size:21 final size:23
Alignment explanation
Indices: 89560161--89560216 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
89560151 TTTATTTATC
89560161 TATTTA-ATATTATATTCAA-TT
1 TATTTATATATTATATTCAATTT
*
89560182 TATTTATATATTATA-TCTATTT
1 TATTTATATATTATATTCAATTT
89560204 TATTATATATATT
1 TATT-TATATATT
89560217 CTAAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 9 0.29
22 14 0.45
23 8 0.26
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTATATATTATATTCAATTT
Found at i:89560215 original size:25 final size:25
Alignment explanation
Indices: 89560181--89560296 Score: 81
Period size: 25 Copynumber: 4.9 Consensus size: 25
89560171 TATATTCAAT
* *
89560181 TTATTTATATATTATATCTATTTTA
1 TTATATATATATTATATATATTTTA
89560206 TTATATATAT-TCTA-A-ATATTTTA
1 TTATATATATAT-TATATATATTTTA
* * *
89560229 -TATCTAAATATTTTATATATTTT-
1 TTATATATATATTATATATATTTTA
*
89560252 TATATTTATATATTA-ATAT-TATTT-
1 T-TATATATATATTATATATAT-TTTA
89560276 TTATATAT-TA-TATATATATTT
1 TTATATATATATTATATATATTT
89560297 ATTTCTATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
21 2 0.03
22 16 0.22
23 17 0.23
24 17 0.23
25 21 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATATATATTATATATATTTTA
Found at i:89560236 original size:15 final size:15
Alignment explanation
Indices: 89560211--89560246 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
89560201 TTTTATTATA
89560211 TATATTCTAAATATTT
1 TATA-TCTAAATATTT
89560227 TATATCTAAATATTT
1 TATATCTAAATATTT
89560242 TATAT
1 TATAT
89560247 ATTTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATCTAAATATTT
Found at i:89560278 original size:19 final size:19
Alignment explanation
Indices: 89560239--89560296 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
89560229 TATCTAAATA
89560239 TTTTATATATT--T-TTAT
1 TTTTATATATTAATATTAT
*
89560255 ATTTATATATTAATATTAT
1 TTTTATATATTAATATTAT
89560274 TTTTATATATTATATATATAT
1 TTTTATATATTA-ATAT-TAT
89560295 TT
1 TT
89560297 ATTTCTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 10 0.29
18 1 0.03
19 15 0.43
20 4 0.11
21 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATATATTAATATTAT
Found at i:89560289 original size:9 final size:9
Alignment explanation
Indices: 89560204--89560292 Score: 57
Period size: 9 Copynumber: 10.3 Consensus size: 9
89560194 ATATCTATTT
89560204 TATTATATA
1 TATTATATA
* *
89560213 TATTCTAAA
1 TATTATATA
89560222 TATT-T-TA
1 TATTATATA
89560229 TATCTA-A-A
1 TAT-TATATA
*
89560237 TATTTTATA
1 TATTATATA
*
89560246 TATT-TTTA
1 TATTATATA
89560254 TATT-TATA
1 TATTATATA
89560262 TATTA-ATA
1 TATTATATA
*
89560270 TTATTTTTATA
1 -TA-TTATATA
89560281 TATTATATA
1 TATTATATA
89560290 TAT
1 TAT
89560293 ATTTATTTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
7 5 0.08
8 24 0.38
9 27 0.43
10 4 0.06
11 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTATATA
Found at i:89560290 original size:34 final size:33
Alignment explanation
Indices: 89560239--89560323 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 33
89560229 TATCTAAATA
* *
89560239 TTTTATATATTTTTATATTTATATATTAATATTAT
1 TTTTATATA-TTATATATATATATATTAATATT-T
* **
89560274 TTTTATATATTATATATATATTTATTTCTATTT
1 TTTTATATATTATATATATATATATTAATATTT
*
89560307 TTTGTATACATTATATA
1 TTT-TATATATTATATA
89560324 CAATACAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
33 4 0.09
34 30 0.70
35 9 0.21
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (33 bp):
TTTTATATATTATATATATATATATTAATATTT
Found at i:89561585 original size:14 final size:14
Alignment explanation
Indices: 89561563--89561596 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
89561553 AATAGAAAAC
*
89561563 TTTTCATCACTTTT
1 TTTTTATCACTTTT
89561577 TTTTTATCACTTTT
1 TTTTTATCACTTTT
*
89561591 TCTTTA
1 TTTTTA
89561597 GCCTCCGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTATCACTTTT
Found at i:89562935 original size:16 final size:16
Alignment explanation
Indices: 89562914--89562964 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
89562904 AAGAAAGAGC
89562914 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
89562930 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
*
89562946 AAACACGCTAGTAAAT
1 AAATACGCTAGTAAAT
89562962 AAA
1 AAA
89562965 ATACTAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:89563904 original size:16 final size:17
Alignment explanation
Indices: 89563883--89563916 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
89563873 AATTAGAGAA
89563883 TTCTATTTAA-TTCTAT
1 TTCTATTTAATTTCTAT
89563899 TTCTATTTAATTTCTAT
1 TTCTATTTAATTTCTAT
89563916 T
1 T
89563917 AAATCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCTATTTAATTTCTAT
Found at i:89564607 original size:15 final size:15
Alignment explanation
Indices: 89564589--89564619 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
89564579 ATAACTAAAG
89564589 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
89564604 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
89564619 A
1 A
89564620 GATGAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:89570288 original size:26 final size:26
Alignment explanation
Indices: 89570259--89570347 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
89570249 AAATTACAAG
*
89570259 TTATTAGCAATTAATATTAATTTATA
1 TTATTAGTAATTAATATTAATTTATA
* * **
89570285 TTATTTGTTATTAATATTAA-GAATA
1 TTATTAGTAATTAATATTAATTTATA
*
89570310 TTA--AGTAATTAATAAT-ATTTATA
1 TTATTAGTAATTAATATTAATTTATA
89570333 TTATTA-T-ATTAATAT
1 TTATTAGTAATTAATAT
89570348 ATTTCGATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
22 1 0.02
23 23 0.47
24 1 0.02
25 7 0.14
26 17 0.35
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TTATTAGTAATTAATATTAATTTATA
Found at i:89570339 original size:8 final size:8
Alignment explanation
Indices: 89570328--89570498 Score: 53
Period size: 8 Copynumber: 21.2 Consensus size: 8
89570318 TTAATAATAT
89570328 TTATATTA
1 TTATATTA
89570336 TTATATTA
1 TTATATTA
*
89570344 ATATATTTCGA
1 TTATA-TT--A
*
89570355 TT-TATAAA
1 TTATAT-TA
89570363 TCTATATT-
1 T-TATATTA
89570371 TCTATATTA
1 T-TATATTA
89570380 TT-TATT-
1 TTATATTA
*
89570386 TTATTATTC
1 TTA-TATTA
*
89570395 TATCTATTA
1 T-TATATTA
89570404 TTATATTA
1 TTATATTA
89570412 TCTAT-TTA
1 T-TATATTA
*
89570420 TAAT-TTA
1 TTATATTA
89570427 -TATATTA
1 TTATATTA
89570434 TT-T-TTA
1 TTATATTA
89570440 TATATTATTA
1 T-TA-TATTA
89570450 TTATATATA
1 TTATAT-TA
89570459 TT-T-TTA
1 TTATATTA
*
89570465 -TATATTT
1 TTATATTA
*
89570472 TTATTTCTA
1 TTATAT-TA
89570481 TT-TAGTTA
1 TTATA-TTA
*
89570489 TTATTTTA
1 TTATATTA
89570497 TT
1 TT
89570499 TCTATTTAGT
Statistics
Matches: 124, Mismatches: 14, Indels: 50
0.66 0.07 0.27
Matches are distributed among these distances:
5 1 0.01
6 11 0.09
7 17 0.14
8 57 0.46
9 26 0.21
10 10 0.08
11 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (8 bp):
TTATATTA
Found at i:89570439 original size:13 final size:13
Alignment explanation
Indices: 89570423--89570470 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
89570413 CTATTTATAA
89570423 TTTATATATTATT
1 TTTATATATTATT
89570436 TTTATATATTATT
1 TTTATATATTATT
*
89570449 ATTATATA-TATT
1 TTTATATATTATT
89570461 TTTATATATT
1 TTTATATATT
89570471 TTTATTTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATATATTATT
Found at i:89570446 original size:35 final size:35
Alignment explanation
Indices: 89570405--89570475 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 35
89570395 TATCTATTAT
89570405 TATATTATCTATT-TATA-ATTTATATATTATTTTTA
1 TATATTAT-TATTATATATATTTATATA-TATTTTTA
*
89570440 TATATTATTATTATATATATTTTTATATATTTTTA
1 TATATTATTATTATATATATTTATATATATTTTTA
89570475 T
1 T
89570476 TTCTATTTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
34 4 0.12
35 21 0.64
36 8 0.24
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (35 bp):
TATATTATTATTATATATATTTATATATATTTTTA
Found at i:89570449 original size:38 final size:37
Alignment explanation
Indices: 89570365--89570585 Score: 138
Period size: 38 Copynumber: 5.9 Consensus size: 37
89570355 TTTATAAATC
* * *
89570365 TATATTTCTATATTATTTAT--TTTAT-TATT-CTATC
1 TATATTTAT-TATTATTTATAATTTATATATTATTATT
89570399 TATTATTATATTATCTATTTATAATTTATATATTATT-TT
1 TA-TATT-TATTAT-TATTTATAATTTATATATTATTATT
* * *
89570438 TATATATTATTATTATATATATTTTTATATATTTTTATT
1 TATAT-TTATTATTATTTATA-ATTTATATATTATTATT
* * *
89570477 TCTATTTAGTTATTATTT-TATTTCTATTTAGTTATTATT
1 TATATTTA-TTATTATTTATAATT-TATATA-TTATTATT
* * *
89570516 TATTTTTATT-TCTATTTAGTTA-TTATTTAGTTATTATT
1 TATATTTATTAT-TATTTA-TAATTTATATA-TTATTATT
* *
89570554 TATATTTAGTA-TATTTAGAATTTAT-TATTATT
1 TATATTTATTATTATTTATAATTTATATATTATT
89570586 TAATATTTAA
Statistics
Matches: 151, Mismatches: 18, Indels: 35
0.74 0.09 0.17
Matches are distributed among these distances:
34 2 0.01
35 12 0.08
36 12 0.08
37 21 0.14
38 66 0.44
39 36 0.24
40 2 0.01
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (37 bp):
TATATTTATTATTATTTATAATTTATATATTATTATT
Found at i:89570482 original size:22 final size:22
Alignment explanation
Indices: 89570363--89570532 Score: 84
Period size: 22 Copynumber: 7.3 Consensus size: 22
89570353 GATTTATAAA
* *
89570363 TCTATATTTCTATATTATTTATT
1 TCTATTTTTATATATT-TTTATT
*
89570386 T-TATTATTCTATCTATTATTATATT
1 TCTATT-TT-TATATATT-TT-TATT
* *
89570411 ATCTA--TTTATA-ATTTATATA
1 -TCTATTTTTATATATTTTTATT
*
89570431 T-TATTTTTATATATTATTATTATA
1 TCTATTTTTATATA-T-TT-TTATT
*
89570455 TATATTTTTATATATTTTTATT
1 TCTATTTTTATATATTTTTATT
89570477 TCTATTTAGTTAT-TA-TTTTATT
1 TCTATTT--TTATATATTTTTATT
89570499 TCTATTTAGTTATTATTTATTTTTATT
1 TCTATTT--TTA-TA--TATTTTTATT
89570526 TCTATTT
1 TCTATTT
89570533 AGTTATTATT
Statistics
Matches: 119, Mismatches: 9, Indels: 34
0.73 0.06 0.21
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 9 0.08
21 2 0.02
22 36 0.30
23 13 0.11
24 21 0.18
25 16 0.13
26 3 0.03
27 16 0.13
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (22 bp):
TCTATTTTTATATATTTTTATT
Found at i:89570515 original size:11 final size:11
Alignment explanation
Indices: 89570479--89570555 Score: 68
Period size: 11 Copynumber: 6.5 Consensus size: 11
89570469 TTTTTATTTC
89570479 TATTTAGTTAT
1 TATTTAGTTAT
89570490 TATTTTA-TT-T
1 TA-TTTAGTTAT
89570500 CTATTTAGTTAT
1 -TATTTAGTTAT
*
89570512 TATTTATTTTTATTT
1 TATTTA--GTTA--T
89570527 CTATTTAGTTAT
1 -TATTTAGTTAT
89570539 TATTTAGTTAT
1 TATTTAGTTAT
89570550 TATTTA
1 TATTTA
89570556 TATTTAGTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 5 0.09
11 31 0.56
12 6 0.11
13 3 0.05
14 3 0.05
15 1 0.02
16 6 0.11
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (11 bp):
TATTTAGTTAT
Found at i:89570569 original size:49 final size:47
Alignment explanation
Indices: 89570386--89570569 Score: 151
Period size: 49 Copynumber: 3.7 Consensus size: 47
89570376 ATTATTTATT
* * * * *
89570386 TTATTATTCTATCTATTA-TTATATTATCTATTTATAATTTATATATTA-
1 TTATTATTTTAT-TATTATTTATTTTATATATTT-TTATTTCTAT-TTAG
*
89570434 TTTTTATATATTATTATTATATATATTTTTATATATTTTTATTTCTATTTAG
1 TTATTAT-T-TTATTATTAT-T-TA-TTTTATATATTTTTATTTCTATTTAG
*
89570486 TTATTATTTTATT-TCTATTTAGTTATTATTTATTTTTATTTCTATTTAG
1 TTATTATTTTATTAT-TATTTA-TT-TTATATATTTTTATTTCTATTTAG
89570535 TTATTA-TTTAGTTATTATTTATATTTAGTATATTT
1 TTATTATTTTA-TTATTATTTAT-TTTA-TATATTT
89570570 AGAATTTATT
Statistics
Matches: 113, Mismatches: 10, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
48 18 0.16
49 52 0.46
50 12 0.11
51 5 0.04
52 16 0.14
53 10 0.09
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (47 bp):
TTATTATTTTATTATTATTTATTTTATATATTTTTATTTCTATTTAG
Found at i:89570627 original size:31 final size:33
Alignment explanation
Indices: 89570585--89570658 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 33
89570575 TTATTATTAT
*
89570585 TTAAT-ATTTAATTTAAGT-TAAATAGAA-AAA
1 TTAATAATTTAATTTAAGTATAAATAAAATAAA
*
89570615 TTAATAATTTAATTTAAGTATAATTAAAATAAA
1 TTAATAATTTAATTTAAGTATAAATAAAATAAA
*
89570648 TTATTAATTTA
1 TTAATAATTTA
89570659 TTTTCATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.13
31 13 0.34
32 7 0.18
33 13 0.34
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (33 bp):
TTAATAATTTAATTTAAGTATAAATAAAATAAA
Found at i:89576320 original size:25 final size:25
Alignment explanation
Indices: 89576286--89576335 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
89576276 ATCTAGTTTC
89576286 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
89576311 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
89576336 ATAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATAATATCTATTTATTTCTA
Found at i:89576327 original size:15 final size:15
Alignment explanation
Indices: 89576286--89576328 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
89576276 ATCTAGTTTC
89576286 TTTTTATAATATCTA
1 TTTTTATAATATCTA
89576301 --TTTAT--T-TCTA
1 TTTTTATAATATCTA
89576311 TTTTTATAATATCTA
1 TTTTTATAATATCTA
89576326 TTT
1 TTT
89576329 ATTTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 4 0.17
11 1 0.04
12 5 0.22
13 5 0.22
14 1 0.04
15 7 0.30
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATAATATCTA
Found at i:89576342 original size:21 final size:23
Alignment explanation
Indices: 89576290--89576343 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
89576280 AGTTTCTTTT
*
89576290 TATAATATCTATTTATTTCTATTTT
1 TATAATATCTATTTATTTCTA--TA
89576315 TATAATATCTATTTATTTCTA-A
1 TATAATATCTATTTATTTCTATA
89576337 TA-AATAT
1 TATAATAT
89576344 TTATATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 2 0.07
25 21 0.75
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (23 bp):
TATAATATCTATTTATTTCTATA
Found at i:89592420 original size:28 final size:29
Alignment explanation
Indices: 89592376--89592431 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
89592366 AATAAATTCT
89592376 TTTTTGGAACTAACATAGATCTATGGAAC
1 TTTTTGGAACTAACATAGATCTATGGAAC
89592405 TTTTTGGAACT-ACATAGATCTATGGAA
1 TTTTTGGAACTAACATAGATCTATGGAA
89592432 TCGGTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (29 bp):
TTTTTGGAACTAACATAGATCTATGGAAC
Found at i:89595175 original size:40 final size:39
Alignment explanation
Indices: 89595010--89595193 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
89595000 AAATTGAATG
* * *
89595010 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
89595050 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
89595090 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
89595130 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
89595169 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
89595194 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:89595218 original size:80 final size:81
Alignment explanation
Indices: 89595050--89595238 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
89595040 GCTGGAAATT
* * * *
89595050 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
89595115 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
89595131 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
89595194 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
89595210 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
89595239 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:89596736 original size:28 final size:29
Alignment explanation
Indices: 89596669--89596769 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
89596659 ATAGTGAATC
*
89596669 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
89596698 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
89596726 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
89596756 CGCACACTTAGTGC
1 CGCACACTTAGTGC
89596770 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:89604514 original size:28 final size:29
Alignment explanation
Indices: 89604447--89604547 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
89604437 ATAGTGAATC
*
89604447 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
89604476 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
89604504 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
89604534 CGCACACTTAGTGC
1 CGCACACTTAGTGC
89604548 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:89607652 original size:32 final size:32
Alignment explanation
Indices: 89607589--89607652 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
89607579 TCGATGCCTA
*
89607589 TGTGCCAAACATAATACAGTTACCGATGACTT
1 TGTGCCAAACATAATACAGTTACCGAAGACTT
** *
89607621 TGTGCCAATTATAATACCA-TTACTGAAGACTT
1 TGTGCCAAACATAATA-CAGTTACCGAAGACTT
89607653 AGAGCTGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 25 0.93
33 2 0.07
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (32 bp):
TGTGCCAAACATAATACAGTTACCGAAGACTT
Found at i:89608514 original size:16 final size:17
Alignment explanation
Indices: 89608482--89608514 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
89608472 AAATAAGAAG
89608482 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
89608500 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
89608515 CTTCATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:89609576 original size:25 final size:25
Alignment explanation
Indices: 89609548--89609597 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
89609538 GTTGCTTAAG
*
89609548 GACTATGATTTCACGATAAAGTATC
1 GACTATGATTGCACGATAAAGTATC
*
89609573 GACTATGATTGCATGATAAAGTATC
1 GACTATGATTGCACGATAAAGTATC
89609598 ATCCTAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (25 bp):
GACTATGATTGCACGATAAAGTATC
Found at i:89610199 original size:17 final size:19
Alignment explanation
Indices: 89610158--89610200 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
89610148 TGAAGTGTTT
*
89610158 TTTGAAAACCATGTTTTTA
1 TTTGAAAACCATGTTCTTA
89610177 -TTGAAAACC-T-TTCTTA
1 TTTGAAAACCATGTTCTTA
89610193 TTTGAAAA
1 TTTGAAAA
89610201 ACTTGAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 8 0.36
18 9 0.41
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (19 bp):
TTTGAAAACCATGTTCTTA
Found at i:89611551 original size:27 final size:27
Alignment explanation
Indices: 89611520--89611581 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
89611510 CAAAACAGTC
* * *
89611520 ATTTTAC-CTTACAGAGGTATTTTGGTA
1 ATTTTACAC-TACAAAGGTATTTCGATA
*
89611547 ATTTTGCACTACAAAGGTATTTCGATA
1 ATTTTACACTACAAAGGTATTTCGATA
89611574 ATTTTACA
1 ATTTTACA
89611582 AACCGGAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAAGGTATTTCGATA
Found at i:89617161 original size:40 final size:39
Alignment explanation
Indices: 89616932--89617154 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 39
89616922 CGAATGATGT
* * *
89616932 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
89616972 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
89617011 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
89617050 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
89617089 TCCGGGTTAAGTCCCGAACGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
89617130 CCGGGCTATGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
89617155 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
38 26 0.16
39 21 0.13
40 108 0.65
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:89617161 original size:80 final size:80
Alignment explanation
Indices: 89616931--89617154 Score: 305
Period size: 78 Copynumber: 2.8 Consensus size: 80
89616921 TCGAATGATG
* * *
89616931 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCAT
89616994 TTGTGCGAGTTACT-AA
64 TTGTGCGAGTTACTAAA
*
89617010 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AGTCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATT
89617073 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* * * * *
89617089 TCCGGGTTAAGTCCCGAACGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCAAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
89617154 G
66 G
89617155 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
77 2 0.02
78 49 0.38
79 30 0.23
80 47 0.36
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:89622659 original size:34 final size:34
Alignment explanation
Indices: 89622580--89622668 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
89622570 TGGATACTGT
* * **
89622580 ACTGAAATGGGCTAAGACCCACATTGATATTGTT
1 ACTGATATGGGCTAAGGCCCACATTGATATTGCG
*
89622614 ACTG-TATTGGGCTAAGGCCCATATTGATATTGCG
1 ACTGATA-TGGGCTAAGGCCCACATTGATATTGCG
*
89622648 ACTGATATGGGCTTAGGCCCA
1 ACTGATATGGGCTAAGGCCCA
89622669 GACTGTTCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 1 0.02
34 44 0.94
35 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (34 bp):
ACTGATATGGGCTAAGGCCCACATTGATATTGCG
Found at i:89624671 original size:15 final size:15
Alignment explanation
Indices: 89624651--89624696 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
89624641 TTATTATTCT
89624651 TTTATATATACATTA
1 TTTATATATACATTA
89624666 TTTATAT-T--ATTA
1 TTTATATATACATTA
89624678 TTTTATATATACATTA
1 -TTTATATATACATTA
89624694 TTT
1 TTT
89624697 CAAATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.15
13 7 0.26
14 2 0.07
15 10 0.37
16 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTATATATACATTA
Found at i:89624682 original size:28 final size:28
Alignment explanation
Indices: 89624642--89624696 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
89624632 TTTCTTATAT
*
89624642 TATTATTCTTTTATATATACATTATTTA
1 TATTATTATTTTATATATACATTATTTA
89624670 TATTATTATTTTATATATACATTATTT
1 TATTATTATTTTATATATACATTATTT
89624697 CAAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
TATTATTATTTTATATATACATTATTTA
Found at i:89624704 original size:28 final size:27
Alignment explanation
Indices: 89624645--89624709 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 27
89624635 CTTATATTAT
*
89624645 TATTCTTTTATATATACATTATTTATAT
1 TATT-TTTTATATATACATTATTTATAA
89624673 TATTATTTTATATATACATTATTTCA-AA
1 TATT-TTTTATATATACATTATTT-ATAA
89624701 TATTTTTTA
1 TATTTTTTA
89624710 AAAAATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 5 0.15
28 28 0.82
29 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (27 bp):
TATTTTTTATATATACATTATTTATAA
Found at i:89629588 original size:27 final size:26
Alignment explanation
Indices: 89629558--89629698 Score: 178
Period size: 27 Copynumber: 5.2 Consensus size: 26
89629548 AGGAAGCGTC
*
89629558 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCT-AT
89629585 CTGGTGGCTCTGCCAC-ATATATCTATT
1 CTGGTGGCTCTGCCACAAT-TATCTA-T
*
89629612 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCT-AT
89629639 CTGGTGGCTCTGCCAC-ATATATCTATT
1 CTGGTGGCTCTGCCACAAT-TATCTA-T
*
89629666 CTGGTGGCTCTGCCACAATATCTCTAT
1 CTGGTGGCTCTGCCACAAT-TATCTAT
89629693 CTGGTG
1 CTGGTG
89629699 ACTTCGTCAC
Statistics
Matches: 103, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.06
27 86 0.83
28 11 0.11
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATTATCTAT
Found at i:89629640 original size:54 final size:54
Alignment explanation
Indices: 89629558--89629698 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
89629548 AGGAAGCGTC
89629558 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
89629612 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* *
89629666 CTGGTGGCTCTGCCACAA-TATCTCTATCTGGTG
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTG
89629699 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
Found at i:89629710 original size:81 final size:80
Alignment explanation
Indices: 89629558--89629716 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 80
89629548 AGGAAGCGTC
*
89629558 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGGTGACTAT
89629623 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
89629639 CTGGTGGCTCTGCCAC-ATATATCT-ATTCTGGTGGCTCTGCCACA-ATATCTCTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGA-TCTGGTGGCTCTGCCACATATATCTAT-TCTGGTGAC
*
89629701 T-TCGTCACAATATCTG
63 TAT-GCCACAATATCTG
89629717 GCAACCTCGC
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
80 17 0.24
81 53 0.76
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGGTGACTAT
GCCACAATATCTGAT
Found at i:89630715 original size:17 final size:16
Alignment explanation
Indices: 89630684--89630714 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89630674 TGGGCTTACA
*
89630684 AAAAACAAAGATTTTC
1 AAAAACAAAAATTTTC
89630700 AAAAACAAAAATTTT
1 AAAAACAAAAATTTT
89630715 TTTGCGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAACAAAAATTTTC
Found at i:89633922 original size:3 final size:3
Alignment explanation
Indices: 89633911--89634147 Score: 65
Period size: 3 Copynumber: 76.7 Consensus size: 3
89633901 AAAAAAGAAG
* * * * * *
89633911 TAA TGA TAA TAA TAA TAG GAG TAA TAA TAA TAA T-A TAA TGA TGA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * * *
89633959 CAA TAA TAA -AA GGAA CAA AAA TAA TAG TAA TAA TAA -AGA TATT TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA
* ** * *
89634005 TAA TAG TAA TAA TAA CGA TGA T-A TAAA TAA TAA TATA TACA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A TAA TAA
* * * *
89634052 TAA -AA GTTAGA -AA TAA AAA TAA TGGAA GTAG TAA TAA CAA TAG TAA
1 TAA TAA --TA-A TAA TAA TAA TAA T--AA -TAA TAA TAA TAA TAA TAA
* * * * *
89634098 TAG TAA TAA -AGA TAA CAG GAA GAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
89634143 TAA TA
1 TAA TA
89634148 TATTTAATTC
Statistics
Matches: 174, Mismatches: 41, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
2 11 0.06
3 142 0.82
4 16 0.09
5 3 0.02
6 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.11, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:89635558 original size:41 final size:42
Alignment explanation
Indices: 89635503--89635626 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 42
89635493 CGTGACTTCA
89635503 ATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTTG
1 ATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTTG
* *
89635545 ATTAA-TCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTCG
1 ATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTTG
* *
89635586 ATCAATTCCACTGAAACTTCAAGGAGATCTACTGTGGCTTT
1 ATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTT
89635627 TAGCTGCTCC
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
41 39 0.52
42 36 0.48
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (42 bp):
ATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTTG
Found at i:89635775 original size:42 final size:44
Alignment explanation
Indices: 89635668--89635787 Score: 129
Period size: 42 Copynumber: 2.8 Consensus size: 44
89635658 TATTTGATTT
* * *
89635668 TCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCA
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAACA
** * * *
89635712 TTGATCTGTTTCCCTACTGCTTAGGGGTTT-A-GATCTGTAAAC-
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCT-TGTAAACA
*
89635754 TCAACCTGTTACCCTACTGCTTAGGGTTTTAAGG
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
89635788 TTTGAAAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
42 27 0.45
43 7 0.12
44 26 0.43
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (44 bp):
TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAACA
Found at i:89636233 original size:43 final size:44
Alignment explanation
Indices: 89636151--89636234 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 44
89636141 ACATTTAGTA
* *
89636151 TGCTCCACTACGACTTCAAGGAGATGAGACTTGTAACTTCAGTC
1 TGCTCCACTACGACTTCAAGGAGATAAGACTAGTAACTTCAGTC
* * *
89636195 TGCTCCACTGC-ACTTC-AGAGAGATAAGGCTAGTGACTTCA
1 TGCTCCACTACGACTTCAAG-GAGATAAGACTAGTAACTTCA
89636235 ATATGCTTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.06
43 22 0.65
44 10 0.29
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (44 bp):
TGCTCCACTACGACTTCAAGGAGATAAGACTAGTAACTTCAGTC
Found at i:89642382 original size:19 final size:21
Alignment explanation
Indices: 89642335--89642384 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
89642325 TTTTGCAGCA
*
89642335 CTGTTTTGAGTTCTTCTATATT
1 CTGTTTTGAGTTCTTC-AGATT
*
89642357 CTCTTTTGA-TTCTTC-GATT
1 CTGTTTTGAGTTCTTCAGATT
89642376 CTGTTTTGA
1 CTGTTTTGA
89642385 CTAGCTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 11 0.44
21 6 0.24
22 8 0.32
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.58
Consensus pattern (21 bp):
CTGTTTTGAGTTCTTCAGATT
Found at i:89646085 original size:39 final size:39
Alignment explanation
Indices: 89646031--89646125 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
89646021 GAATCACGTA
*
89646031 CCTTCGGGAT-TTAACCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCGGATATAACAACAAGCACAATTG
* *** **
89646070 CCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCTTCGGGTCTTAA-CCGGATATAACAACAAGCACAATTG
89646110 CCTTCGGGTCTTAACC
1 CCTTCGGGTCTTAACC
89646126 CGGGTTTAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.02
39 14 0.30
40 32 0.68
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (39 bp):
CCTTCGGGTCTTAACCGGATATAACAACAAGCACAATTG
Found at i:89646105 original size:40 final size:40
Alignment explanation
Indices: 89646061--89646183 Score: 185
Period size: 40 Copynumber: 3.1 Consensus size: 40
89646051 ATAACCACAA
* *
89646061 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTAACTC
*
89646101 GCACAATTGCCTTCGGGTCTTAACCCGGGTTTAGTAACTC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTAACTC
* * *
89646141 GCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTAACTC
89646180 GCAC
1 GCAC
89646184 GAACGCCTTC
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 23 0.30
40 53 0.70
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTAACTC
Found at i:89650125 original size:28 final size:28
Alignment explanation
Indices: 89650093--89650191 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
89650083 GCAATAAGCC
*
89650093 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
89650121 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
89650149 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
89650178 CGCACACTTAGTGC
1 CGCACACTTAGTGC
89650192 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:89656293 original size:39 final size:40
Alignment explanation
Indices: 89656178--89656358 Score: 159
Period size: 40 Copynumber: 4.5 Consensus size: 40
89656168 CAAGCATAAT
* * *
89656178 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAT
1 TGCCTTCGGGTCTTAACCCGGATTTAGTAACTCGCACAAA
* *
89656218 TGCCTTCGGGTCTTAACCCGGGTTTAGTAACCCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATTTAGTAACTCGCACAAA
* * * *
89656258 TGCCTTCAGG-CTTAGCCCGGATTTATTAACTCGCACGAA
1 TGCCTTCGGGTCTTAACCCGGATTTAGTAACTCGCACAAA
* * * ** * * **
89656297 CGCCTTCGGATCTCAGTCCGGATATAGTCACTTAACACAAA
1 TGCCTTCGGGTCTTAACCCGGATTTAGTAAC-TCGCACAAA
* *
89656338 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGTCTTAACCCGGA
89656359 CATCATTCAA
Statistics
Matches: 113, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 31 0.27
40 76 0.67
41 6 0.05
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAACCCGGATTTAGTAACTCGCACAAA
Found at i:89663424 original size:46 final size:46
Alignment explanation
Indices: 89663374--89663548 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
89663364 TGGTTGAGCA
89663374 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
89663420 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
89663465 CATCCGAGCTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
89663512 -CCTGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89663549 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 23 0.21
46 46 0.42
47 25 0.23
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:89663529 original size:92 final size:93
Alignment explanation
Indices: 89663371--89663541 Score: 283
Period size: 92 Copynumber: 1.8 Consensus size: 93
89663361 GGATGGTTGA
*
89663371 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
89663436 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
89663464 GCATCCGAGCTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
89663527 TTGAGTCCAAGTTCG
65 TTGAGTCCAAGTTCG
89663542 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
91 2 0.03
92 46 0.63
93 25 0.34
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:89669263 original size:28 final size:26
Alignment explanation
Indices: 89669232--89669295 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
89669222 AATTGCTTGA
* **
89669232 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
* *
89669260 ATACCTCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
89669286 ATACCCCTAG
1 ATACCCCTAG
89669296 GGTTACTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 21 0.70
27 1 0.03
28 8 0.27
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:89669441 original size:27 final size:27
Alignment explanation
Indices: 89669400--89669539 Score: 169
Period size: 27 Copynumber: 5.2 Consensus size: 27
89669390 AGGAAGCGTC
* *
89669400 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
89669427 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
89669454 CTGGTGGCTATGCCACGAT-TATCTAAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
* *
89669481 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
89669508 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
89669535 -TGGTG
1 CTGGTG
89669540 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.14
27 81 0.84
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:89669488 original size:54 final size:54
Alignment explanation
Indices: 89669400--89669524 Score: 198
Period size: 54 Copynumber: 2.3 Consensus size: 54
89669390 AGGAAGCGTC
*
89669400 CTGGTGGCTATGCCACATTTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACATTTATCTAATCTAGTGGCTCTGCCACATATATCTGTT
* *
89669454 CTGGTGGCTATGCCACGA-TTATCTAATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCAC-ATTTATCTAATCTAGTGGCTCTGCCACATATATCTGTT
*
89669508 CTGGTGGCTCTGCCACA
1 CTGGTGGCTATGCCACA
89669525 ATATCTGTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
53 1 0.02
54 64 0.97
55 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACATTTATCTAATCTAGTGGCTCTGCCACATATATCTGTT
Found at i:89673560 original size:52 final size:49
Alignment explanation
Indices: 89673390--89673569 Score: 172
Period size: 47 Copynumber: 3.7 Consensus size: 49
89673380 ATATCACATA
* ** * * *
89673390 CCGAGGCCATAGCCCAGCCATGGTCTTACACGG-ATCACATATCACACT
1 CCGATGCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCTCACT
* * * *
89673438 --GATGCCATATCCCAGATATGGTCTTATACAGTAGCACATA--TCACA
1 CCGATGCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCTCACT
* *
89673483 CCGATGCCATATCCCGGATATGGTCTTATACGGAAGCACATATCTCATTTCT
1 CCGATGCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCTCA---CT
* *
89673535 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CCGATGCCATAGCCCAGATATGGTCTTATACGGAA
89673570 ATCACATTTC
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 3 0.03
46 25 0.23
47 44 0.41
49 3 0.03
52 32 0.30
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
CCGATGCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCTCACT
Found at i:89676123 original size:30 final size:30
Alignment explanation
Indices: 89676071--89676167 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
89676061 TTATGGAGCA
89676071 AAGATAAGAAGAAAACC-GAATAAAGAAATCC
1 AAGAT-AG-AGAAAACCAGAATAAAGAAATCC
*
89676102 AAGATAGAGAAACCCAGAATAAAGAAAT-C
1 AAGATAGAGAAAACCAGAATAAAGAAATCC
* * * * * *
89676131 TAGAATAAAGAGATCCAGGATAAAGAAACCC
1 AAG-ATAGAGAAAACCAGAATAAAGAAATCC
89676162 AAGATA
1 AAGATA
89676168 CGATACTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
29 10 0.18
30 37 0.67
31 8 0.15
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (30 bp):
AAGATAGAGAAAACCAGAATAAAGAAATCC
Found at i:89676127 original size:15 final size:15
Alignment explanation
Indices: 89676079--89676158 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
89676069 CAAAGATAAG
*
89676079 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
89676093 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
89676108 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
89676123 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
89676138 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
89676153 AAGAAA
1 AAGAAA
89676159 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:89676167 original size:15 final size:15
Alignment explanation
Indices: 89676090--89676167 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
89676080 AGAAAACCGA
*
89676090 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
89676105 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
89676119 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
89676134 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
89676150 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
89676165 ATA
1 ATA
89676168 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:89679889 original size:52 final size:49
Alignment explanation
Indices: 89679706--89679910 Score: 197
Period size: 47 Copynumber: 4.2 Consensus size: 49
89679696 TGCACATAGT
* ** * *
89679706 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
89679754 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
89679801 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * *
89679848 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGAAAT
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
*
89679900 CACATTTCACA
1 CACATATCACA
89679911 TGCTGCCATG
Statistics
Matches: 131, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
46 25 0.19
47 54 0.41
48 11 0.08
49 1 0.01
52 40 0.31
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:89679911 original size:52 final size:52
Alignment explanation
Indices: 89679770--89679911 Score: 152
Period size: 52 Copynumber: 2.8 Consensus size: 52
89679760 TCACACTGAT
* * *
89679770 GCCATATCCCAGATATGGTCTTATAC-AGTAGCACATATCACA-----CCGAT
1 GCCATAGCCCAGATATGGTCTTATACGA-AAGCACATATCACATTTCTCCGAA
* * *
89679817 GCCATATCCCGGATATGGTCTTATACGGAAGCACATATCACATTTCTCCGAA
1 GCCATAGCCCAGATATGGTCTTATACGAAAGCACATATCACATTTCTCCGAA
* * *
89679869 GCCATAGCCCAGCTATGGTCTTATACGAAATCACATTTCACAT
1 GCCATAGCCCAGATATGGTCTTATACGAAAGCACATATCACAT
89679912 GCTGCCATGG
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
47 38 0.48
52 41 0.52
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (52 bp):
GCCATAGCCCAGATATGGTCTTATACGAAAGCACATATCACATTTCTCCGAA
Found at i:89686181 original size:31 final size:31
Alignment explanation
Indices: 89686137--89686200 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
89686127 CCTTTTCATA
*
89686137 TTTCATATCTCATAACACTGGGCCGAAGCCT
1 TTTCAAATCTCATAACACTGGGCCGAAGCCT
* **
89686168 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATCTCATAACACTGGGCCGAAGCCT
89686199 TT
1 TT
89686201 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (31 bp):
TTTCAAATCTCATAACACTGGGCCGAAGCCT
Found at i:89686447 original size:23 final size:24
Alignment explanation
Indices: 89686392--89686555 Score: 239
Period size: 23 Copynumber: 7.0 Consensus size: 24
89686382 GCTTTATCAT
* *
89686392 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
89686417 ATAACTGGGGCAAAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
89686440 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
89686463 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89686487 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89686510 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89686533 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89686556 TCACTTCCTC
Statistics
Matches: 131, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
22 3 0.02
23 83 0.63
24 33 0.25
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:89686491 original size:70 final size:70
Alignment explanation
Indices: 89686392--89686555 Score: 235
Period size: 70 Copynumber: 2.3 Consensus size: 70
89686382 GCTTTATCAT
*
89686392 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT-ATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACT-GGGCAAAAGCCCTTTTGATAACT-GGGCATAA
89686455 GCCC-TTTA
62 GCCCTTTTA
* *
89686463 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGCATAAGCCCTTTTGATAACTGGGCATAAGCCC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAAGCCCTTTTGATAACTGGGCATAAGCCC
*
89686528 TTTTG
66 TTTTA
89686533 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89686556 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
69 27 0.31
70 47 0.55
71 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (70 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAAGCCCTTTTGATAACTGGGCATAAGCCC
TTTTA
Found at i:89686630 original size:20 final size:20
Alignment explanation
Indices: 89686605--89686665 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
89686595 TTATGATTAC
89686605 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
89686625 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
89686645 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
89686665 A
1 A
89686666 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:89686740 original size:25 final size:25
Alignment explanation
Indices: 89686708--89686755 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89686698 ATACATAAAC
* * *
89686708 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
89686733 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
89686756 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:89688013 original size:27 final size:27
Alignment explanation
Indices: 89687993--89688310 Score: 360
Period size: 27 Copynumber: 11.9 Consensus size: 27
89687983 AGGGTATTTT
*
89687993 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
89688020 AATAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89688047 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
89688074 GGTAATTCTGTAAATCGAGGATGAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
89688101 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
89688128 -GATAATTATGTAAATCG-GGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
89688154 GGTAATTATGTAAAT-TAGGGGT-AAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* *
89688180 AGTAATTCTTTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
89688207 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
89688234 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* **
89688261 -GATAATTTTACAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
89688288 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
89688311 CTTTGGTAAT
Statistics
Matches: 252, Mismatches: 29, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
26 45 0.18
27 205 0.81
28 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:89688212 original size:133 final size:135
Alignment explanation
Indices: 89687995--89688310 Score: 467
Period size: 133 Copynumber: 2.4 Consensus size: 135
89687985 GGTATTTTAG
** *
89687995 TAATTTTGTAAATCGAGGGTAAAACAATAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
* *
89688060 ATCGAGGGTAAAATGGTAATTCTGTAAA-TCGAGGATGAAACGGTAATTCTGTAAATCGAGGGTA
66 ATCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGATAAAACGGTAATTCTGTAAATCGAGGGTA
89688124 AAACGA
130 AAACGA
* * * *
89688130 TAATTATGTAAATCG-GGGTAAAACGGTAATTATGTAAATTAGGGGT-AAACAGTAATTCTTTAA
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
*
89688193 ATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
66 ATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGATAAAACGGTAATTCTGTAAATCGAGGGTAA
89688258 AACGA
131 AACGA
** * * *
89688263 TAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCAAGGGTA
89688311 CTTTGGTAAT
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
133 93 0.58
134 53 0.33
135 14 0.09
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (135 bp):
TAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGATAAAACGGTAATTCTGTAAATCGAGGGTAA
AACGA
Found at i:89688304 original size:160 final size:162
Alignment explanation
Indices: 89687994--89688310 Score: 428
Period size: 160 Copynumber: 2.0 Consensus size: 162
89687984 GGGTATTTTA
* *
89687994 GTAATTTTGTAAATCGAGGGTAAAACAATAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATAGAGGGTAAAACAATAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * * **
89688059 AATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGATGAAACGGTAATTCTGTAAATCGAGGGTA
66 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGATAAAACGATAATTCTACAAATCGAGGGTA
*
89688124 AAACGATAATTATGTAAATCG-GGGTAAAACG
131 AAACGATAATTATATAAATCGAGGGTAAAACG
* * * *
89688155 GTAATTATGTAAATTAG-GGGT-AAACAGTAATTCTT-TAAATCGAGGGTAAAATAGTAATTCTG
1 GTAATTATGTAAA-TAGAGGGTAAAACAATAATT-TTGTAAATCAAGGGTAAAACAGTAATTCTA
* *
89688217 TAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTACAAATCGAGG
64 TAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGATAAAACGATAATTCTACAAATCGAGG
* *
89688281 GTAAAACGGTAATTCTATAAATCGAGGGTA
128 GTAAAACGATAATTATATAAATCGAGGGTA
89688311 CTTTGGTAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
159 1 0.01
160 110 0.81
161 23 0.17
162 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (162 bp):
GTAATTATGTAAATAGAGGGTAAAACAATAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGATAAAACGATAATTCTACAAATCGAGGGTA
AAACGATAATTATATAAATCGAGGGTAAAACG
Found at i:89688332 original size:27 final size:27
Alignment explanation
Indices: 89688263--89688511 Score: 218
Period size: 27 Copynumber: 9.3 Consensus size: 27
89688253 GGTAAAACGA
****
89688263 TAATTTTACAAATCGAGGGTAAAACGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* * *
89688290 TAATTCTATAAATCGAGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* ***
89688317 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTTGG
** *
89688344 TAATTTTACAGGTCGAGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGG
* *
89688371 TAATTTCACAAAT-TAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
* *
89688398 TAATTTTACAAA-CTAGGGGTATTTTGA
1 TAATTTTACAAATCGA-GGGTATTTTGG
* *
89688425 TAATTTTACAAA-CTAGGGGTATTTTGA
1 TAATTTTACAAATCGA-GGGTATTTTGG
* * * *
89688452 TAATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
89688479 TAATTTTACAAAGC-AGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
89688505 TAATTTT
1 TAATTTT
89688512 GTAAACCAAA
Statistics
Matches: 189, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 19 0.10
27 168 0.89
28 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTTGG
Found at i:89688348 original size:54 final size:54
Alignment explanation
Indices: 89687983--89688383 Score: 186
Period size: 54 Copynumber: 7.5 Consensus size: 54
89687973 TCACAAACCA
* * ** * * *
89687983 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAATAATTTTGTAAATCA
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCG
**** * * *** *
89688037 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCG
* ** * ** * * *
89688091 AGGATGAA-ACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCG
1 AGGGT-AATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCG
*** * * * *
89688145 -GGGTAAAACGGTAATTATGTA-AATTAG-GGGT-AAACAGTAATTCTTTAAATCG
1 AGGGTAATTTGGTAATT-T-TACAAATCGAGGGTAAAACAATAATTCTATAAATCG
** * * ** *
89688197 AGGGTAAAATAGTAATTCTGTA-AACT-GAGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATT-T-TACAAATCGAGGGTAAAACAATAATTCTATAAATCG
*** * **
89688251 AGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCG
* * *** * * **
89688305 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCG
* * *
89688359 AGGGTATTTTAGTAATTTCACAAAT
1 AGGGTAATTTGGTAATTTTACAAAT
89688384 TAGGGGTATT
Statistics
Matches: 282, Mismatches: 56, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
52 22 0.08
53 45 0.16
54 212 0.75
55 3 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (54 bp):
AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCG
Found at i:89688525 original size:26 final size:26
Alignment explanation
Indices: 89688388--89688528 Score: 129
Period size: 27 Copynumber: 5.3 Consensus size: 26
89688378 ACAAATTAGG
* * *
89688388 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
89688415 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
*
89688442 GGTATTTTGATAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
89688468 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
89688495 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
89688521 AGTATTTT
1 GGTATTTT
89688529 AAATAGGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:89691676 original size:24 final size:24
Alignment explanation
Indices: 89691568--89691731 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
89691558 GCTTTATCAT
* *
89691568 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
89691593 ATAACTGGGGCAAAAG-CCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
89691615 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
89691638 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89691661 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89691685 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
89691709 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89691732 TCACTTCCTC
Statistics
Matches: 130, Mismatches: 4, Indels: 11
0.90 0.03 0.08
Matches are distributed among these distances:
22 30 0.23
23 22 0.17
24 68 0.52
25 10 0.08
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:89691806 original size:20 final size:20
Alignment explanation
Indices: 89691781--89691841 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
89691771 TTATGATTAC
89691781 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
89691801 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
89691821 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
89691841 A
1 A
89691842 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:89691916 original size:25 final size:25
Alignment explanation
Indices: 89691884--89691931 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89691874 ATACATAAAC
* * *
89691884 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
89691909 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
89691932 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:89693498 original size:27 final size:27
Alignment explanation
Indices: 89693169--89693487 Score: 390
Period size: 27 Copynumber: 11.8 Consensus size: 27
89693159 GGGTATTTTA
* * *
89693169 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
89693196 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
**
89693223 GTAATTCTATAAATCGAGGGTAAAATT
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
89693250 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
89693277 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
89693304 ATAATTATGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
89693331 ATAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
89693358 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
89693385 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
89693412 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
89693439 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
89693466 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
89693488 CTTTGGTAAT
Statistics
Matches: 260, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.01
27 256 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:89693509 original size:27 final size:27
Alignment explanation
Indices: 89693411--89693688 Score: 213
Period size: 27 Copynumber: 10.3 Consensus size: 27
89693401 AGGGTAAAAC
* * ****
89693411 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
89693438 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
89693465 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
89693492 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
89693519 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
89693546 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
89693573 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
89693600 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * * *
89693627 GATAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
89693654 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
89693680 GGTAATTTT
1 GGTAATTTT
89693689 GTAAACCAAA
Statistics
Matches: 216, Mismatches: 32, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
26 19 0.09
27 195 0.90
28 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:89693702 original size:26 final size:26
Alignment explanation
Indices: 89693565--89693705 Score: 129
Period size: 27 Copynumber: 5.3 Consensus size: 26
89693555 ACAAATTAGG
* * *
89693565 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
89693592 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
*
89693619 GGTATTTTGATAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
89693645 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
89693672 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
89693698 AGTATTTT
1 GGTATTTT
89693706 AAATAGGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:89696546 original size:42 final size:42
Alignment explanation
Indices: 89696487--89696649 Score: 134
Period size: 42 Copynumber: 3.9 Consensus size: 42
89696477 TCGGCATCAG
* **
89696487 TATGAG-TTATCATGTAAGAGCATATCTGGGATATGGCGTTTA
1 TATGAGATT-TCATGTAAGACCATATCTGGGATATGGCGTCGA
* *
89696529 TATGAGATTTCATGTAAGACCATGTCTGGGACATGGCGTCGA
1 TATGAGATTTCATGTAAGACCATATCTGGGATATGGCGTCGA
* * ** *
89696571 AATGAGAATT--TGTATAGGACCATATCTGGGATATGGAATTGA
1 TATGAGATTTCATGTA-A-GACCATATCTGGGATATGGCGTCGA
* ** ** *
89696613 TGTGAGATCCCATGTAAGACCACGTCTGGGACATGGC
1 TATGAGATTTCATGTAAGACCATATCTGGGATATGGC
89696650 ATTGGAATCT
Statistics
Matches: 95, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
40 4 0.04
41 1 0.01
42 83 0.87
43 3 0.03
44 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATATCTGGGATATGGCGTCGA
Found at i:89698745 original size:27 final size:27
Alignment explanation
Indices: 89698715--89698768 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
89698705 TCATACAACC
* *
89698715 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
89698742 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
89698769 TCACATAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:89700721 original size:40 final size:40
Alignment explanation
Indices: 89700655--89700821 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
89700645 AAATTGAATG
* * *
89700655 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
89700694 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
89700734 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
89700774 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
89700814 ATATCCGG
1 ATATCCGG
89700822 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:89708695 original size:40 final size:40
Alignment explanation
Indices: 89708629--89708795 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
89708619 AAATTGAATG
* * *
89708629 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
89708668 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
89708708 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
89708748 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
89708788 ATATCCGG
1 ATATCCGG
89708796 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:89712395 original size:47 final size:47
Alignment explanation
Indices: 89712325--89712450 Score: 216
Period size: 47 Copynumber: 2.7 Consensus size: 47
89712315 CCCTTCGGGA
* * *
89712325 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
89712372 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
89712419 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATTCATCA
89712451 ATTTCATCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:89712425 original size:22 final size:22
Alignment explanation
Indices: 89712353--89712428 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
89712343 TTTCACATCC
*
89712353 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
89712375 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
89712399 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
89712422 ATCACAT
1 ATCACAT
89712429 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 5 0.12
24 5 0.12
25 11 0.28
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:89715924 original size:28 final size:28
Alignment explanation
Indices: 89715892--89715985 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 28
89715882 TTCACGCACT
* *
89715892 TAGTGCCCACTGACCGATCTCGCACACA
1 TAGTGCCCAATGACAGATCTCGCACACA
* * *
89715920 TAGTGCTCAGTTGA-AGAACTCGCACACA
1 TAGTGCCCA-ATGACAGATCTCGCACACA
* * * *
89715948 CAGTGCCTCAATTACTGATTTCGCACACA
1 TAGTGCC-CAATGACAGATCTCGCACACA
89715977 TAGTGCCCA
1 TAGTGCCCA
89715986 TATTCATTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 29 0.57
29 22 0.43
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (28 bp):
TAGTGCCCAATGACAGATCTCGCACACA
Found at i:89716173 original size:43 final size:43
Alignment explanation
Indices: 89716114--89716382 Score: 457
Period size: 43 Copynumber: 6.3 Consensus size: 43
89716104 CCTTGCTCGA
** **
89716114 ATCACCGGCATTAAGCCTGCTAGGCACGAAAACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* * *
89716157 ATTATCGGCACAAAGCCTGCTAGGCACGAAGGCCTGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
89716200 ATCATCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
89716243 ATCATCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
89716286 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
89716329 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
89716372 ATCACCGGCAC
1 ATCACCGGCAC
89716383 GAATGCTCTT
Statistics
Matches: 216, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 216 1.00
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:89718433 original size:47 final size:47
Alignment explanation
Indices: 89718363--89718535 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
89718353 CCCTTCGGGA
* *
89718363 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
89718410 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
89718457 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
89718504 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATCCATCA
89718536 ATTTCATCAT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:89718510 original size:22 final size:22
Alignment explanation
Indices: 89718438--89718513 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
89718428 CTTCACATCC
*
89718438 ATCACATCGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
89718460 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
89718484 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
89718507 ATCACAT
1 ATCACAT
89718514 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:89721455 original size:27 final size:27
Alignment explanation
Indices: 89721421--89721672 Score: 319
Period size: 27 Copynumber: 9.4 Consensus size: 27
89721411 TGGATAAGTT
* *
89721421 GTAGAATTACCGAAATATCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
89721448 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
89721475 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
89721502 GTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* **
89721529 ATAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
89721556 GTAGAATTACAGAAATA-CCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** *
89721582 ATAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
89721609 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
89721636 GTAG-ATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
89721662 GTAAAATTACC
1 GTAGAATTACC
89721673 ATTTTGCCTC
Statistics
Matches: 193, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 43 0.22
27 150 0.78
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:89725025 original size:49 final size:49
Alignment explanation
Indices: 89724966--89725314 Score: 612
Period size: 49 Copynumber: 7.2 Consensus size: 49
89724956 CTTCCACTTC
* * * *
89724966 CATCACATTGGCCATTCGACCTTATCATATATATATATACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
* *
89725015 CATTACATTGGCCATTCGGCCTTATCACATATACATACACTTTCGCATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
89725064 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
*
89725113 CATCACATTGGCCATTCGGCCTTATCCCATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
*
89725162 CATCACATTGGCCATTCGGCCTTATCGCATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
89725211 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
89725260 CATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
89725307 CATCACAT
1 CATCACAT
89725315 AAAATCCTAA
Statistics
Matches: 289, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
47 27 0.09
49 262 0.91
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (49 bp):
CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
Found at i:89725068 original size:27 final size:27
Alignment explanation
Indices: 89725038--89725120 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
89725028 ATTCGGCCTT
89725038 ATCACATATACATACACTTTCGCATTC
1 ATCACATATACATACACTTTCGCATTC
* *
89725065 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-GCATTC
*
89725087 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCGCATTC
89725114 ATCACAT
1 ATCACAT
89725121 TGGCCATTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 18
0.65 0.08 0.28
Matches are distributed among these distances:
22 11 0.26
23 5 0.12
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.43
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCGCATTC
Found at i:89734625 original size:37 final size:37
Alignment explanation
Indices: 89734575--89734649 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
89734565 ATCGAGTATT
89734575 AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
1 AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
89734612 AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
1 AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
89734649 A
1 A
89734650 TGTGTCTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.27
Consensus pattern (37 bp):
AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
Found at i:89736263 original size:27 final size:27
Alignment explanation
Indices: 89736225--89736282 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
89736215 TGGTGAGGAG
*
89736225 TGAAGTATTTAATGTCCCAAAAAGATT
1 TGAAGAATTTAATGTCCCAAAAAGATT
* *
89736252 TGAAGAATTTAATGTTCCAAAAATATT
1 TGAAGAATTTAATGTCCCAAAAAGATT
89736279 TGAA
1 TGAA
89736283 TTTATGACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (27 bp):
TGAAGAATTTAATGTCCCAAAAAGATT
Found at i:89739809 original size:37 final size:37
Alignment explanation
Indices: 89739762--89739864 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 37
89739752 AAAGTGTGGA
*
89739762 ATGTAAGACCATAACTGGACTATGGCATCGTAATGAC
1 ATGTAAGACCATAGCTGGACTATGGCATCGTAATGAC
* * * ***
89739799 ATGTAAGACCATAGCTGGGCTATGGCATTGTGATTTT
1 ATGTAAGACCATAGCTGGACTATGGCATCGTAATGAC
* *
89739836 GTGTAAGACCATAGTTGGACTATGGCATC
1 ATGTAAGACCATAGCTGGACTATGGCATC
89739865 AAGTAAACGA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (37 bp):
ATGTAAGACCATAGCTGGACTATGGCATCGTAATGAC
Found at i:89741931 original size:27 final size:28
Alignment explanation
Indices: 89741901--89741970 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
89741891 ATAGTGAATC
*
89741901 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
89741928 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
89741956 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89741971 GTACAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Done.