Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 184 of 203
Found at i:58455140 original size:20 final size:20
Alignment explanation
Indices: 58455117--58455236 Score: 59
Period size: 20 Copynumber: 6.5 Consensus size: 20
58455107 ATAATAACTA
58455117 AATATAAATTATAAATAGAT
1 AATATAAATTATAAATAGAT
58455137 AATAT--A--AT-AATAGAT
1 AATATAAATTATAAATAGAT
* *
58455152 AATAT-AATAATAGATAGAAT
1 AATATAAATTATAAATAG-AT
*
58455172 AATA-AAATAAATAATATAGA-
1 AATATAAAT-TATAA-ATAGAT
* *
58455192 AATATAGATTTATAAATCGA-
1 AATATA-AATTATAAATAGAT
*
58455212 AATAT--ATTA-ATATA-AT
1 AATATAAATTATAAATAGAT
58455228 AATATAAAT
1 AATATAAAT
58455237 ATTATTAATT
Statistics
Matches: 79, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
15 13 0.16
16 11 0.14
17 3 0.04
18 5 0.06
19 4 0.05
20 27 0.34
21 10 0.13
22 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (20 bp):
AATATAAATTATAAATAGAT
Found at i:58455148 original size:15 final size:15
Alignment explanation
Indices: 58455130--58455197 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
58455120 ATAAATTATA
58455130 AATAGATAATATAAT
1 AATAGATAATATAAT
58455145 AATAGATAATATAAT
1 AATAGATAATATAAT
58455160 AATAGATAGA-ATAAT
1 AATAGATA-ATATAAT
58455175 AA-A-ATAA-ATAAT
1 AATAGATAATATAAT
58455187 -ATAGA-AATATA
1 AATAGATAATATA
58455198 GATTTATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.02
12 9 0.18
13 7 0.14
14 1 0.02
15 30 0.61
16 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (15 bp):
AATAGATAATATAAT
Found at i:58455156 original size:35 final size:35
Alignment explanation
Indices: 58455077--58455177 Score: 93
Period size: 35 Copynumber: 2.8 Consensus size: 35
58455067 TACTAAATTT
*
58455077 CTAAATATACTAAATATAAATA-ATAACTAAATAATAA
1 CTAAATATA--AATTATAAATAGATAA-TAAATAATAA
58455114 CTAAATATAAATTATAAATAGATAATATAATAATAGA
1 CTAAATATAAATTATAAATAGATAATA-AATAATA-A
* *
58455151 -T-AATAT-AATAATAGATAGAATAATAAA
1 CTAAATATAAATTATAAATAG-ATAATAAA
58455178 ATAAATAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
34 12 0.21
35 23 0.40
36 12 0.21
37 10 0.18
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (35 bp):
CTAAATATAAATTATAAATAGATAATAAATAATAA
Found at i:58455158 original size:12 final size:10
Alignment explanation
Indices: 58455092--58455187 Score: 63
Period size: 11 Copynumber: 9.0 Consensus size: 10
58455082 TATACTAAAT
58455092 ATAAATAATA
1 ATAAATAATA
58455102 ACTAAATAATA
1 A-TAAATAATA
*
58455113 ACTAAATATAAATT
1 A-T-AA-AT-AATA
58455127 ATAAATAGATA
1 ATAAATA-ATA
58455138 ATATAATAATA
1 ATA-AATAATA
58455149 GATAATATAATA
1 -ATAA-ATAATA
* *
58455161 ATAGAT-AGA
1 ATAAATAATA
58455170 AT-AATAA-A
1 ATAAATAATA
58455178 ATAAATAATA
1 ATAAATAATA
58455188 TAGAAATATA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
8 5 0.07
9 10 0.14
10 5 0.07
11 26 0.37
12 17 0.24
13 3 0.04
14 4 0.06
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (10 bp):
ATAAATAATA
Found at i:58457099 original size:16 final size:16
Alignment explanation
Indices: 58457078--58457128 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
58457068 AAGAAAGAGC
*
58457078 AAATACGATAGTAAAT
1 AAATACGCTAGTAAAT
58457094 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
*
58457110 AAACACGCTAGTAAAT
1 AAATACGCTAGTAAAT
58457126 AAA
1 AAA
58457129 ATACTAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.22
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:58458066 original size:16 final size:17
Alignment explanation
Indices: 58458045--58458078 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
58458035 AATTAGAGAA
58458045 TTCTATTTAA-TTCTAT
1 TTCTATTTAATTTCTAT
58458061 TTCTATTTAATTTCTAT
1 TTCTATTTAATTTCTAT
58458078 T
1 T
58458079 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:58462271 original size:15 final size:15
Alignment explanation
Indices: 58462253--58462420 Score: 80
Period size: 16 Copynumber: 10.7 Consensus size: 15
58462243 TATATTTCTA
58462253 TATTATTTATTTTAT
1 TATTATTTATTTTAT
*
58462268 TATTCTATCTATTATTA-
1 TA-T-TATTTATT-TTAT
*
58462285 TATTATCTATTATTATAT
1 TATTA--T-TTATTTTAT
58462303 TATCTATTTATATATTAT
1 TAT-TATTTAT-T-TTAT
58462321 TATTATTT-TTATATAT
1 TATTATTTATT-T-TAT
* *
58462337 TTTTATTTCTATTTAGT
1 TATTATTTAT-TTTA-T
58462354 TATTATTTA-TTT-T
1 TATTATTTATTTTAT
* *
58462367 TATT-TCTATTTAAT
1 TATTATTTATTTTAT
58462381 TATTATTTATTTTTAT
1 TATTATTTA-TTTTAT
**
58462397 T-TCTATTT-GGTTAT
1 TAT-TATTTATTTTAT
58462411 TATTATTTAT
1 TATTATTTAT
58462421 GAAGAAAATG
Statistics
Matches: 118, Mismatches: 14, Indels: 42
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 7 0.06
14 15 0.13
15 15 0.13
16 30 0.25
17 29 0.25
18 17 0.14
19 2 0.02
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTTATTTTAT
Found at i:58462351 original size:10 final size:9
Alignment explanation
Indices: 58462255--58462398 Score: 54
Period size: 8 Copynumber: 15.7 Consensus size: 9
58462245 TATTTCTATA
58462255 TTATTTATT
1 TTATTTATT
58462264 TTA-TTATT
1 TTATTTATT
* *
58462272 CTATCTATT
1 TTATTTATT
58462281 ATTATATTATCT
1 -TTAT-TTAT-T
*
58462293 ATTA-TTATA
1 -TTATTTATT
*
58462302 TTATCTA-T
1 TTATTTATT
*
58462310 TTATATATT
1 TTATTTATT
58462319 ATTA-TTATT
1 -TTATTTATT
* *
58462328 TT-TATATA
1 TTATTTATT
58462336 TT-TTTATT
1 TTATTTATT
58462344 TCTATTTAGTT
1 T-TATTTA-TT
58462355 ATTATTTA--
1 -TTATTTATT
58462363 TT-TTTATT
1 TTATTTATT
58462371 TCTATTTAATT
1 T-TATTT-ATT
58462382 ATTATTTATTT
1 -TTATTTA-TT
58462393 TTATTT
1 TTATTT
58462399 CTATTTGGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 37
0.67 0.08 0.24
Matches are distributed among these distances:
6 4 0.04
7 2 0.02
8 29 0.28
9 16 0.16
10 24 0.23
11 21 0.20
12 7 0.07
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (9 bp):
TTATTTATT
Found at i:58462359 original size:27 final size:27
Alignment explanation
Indices: 58462329--58462418 Score: 146
Period size: 27 Copynumber: 3.4 Consensus size: 27
58462319 ATTATTATTT
*
58462329 TTATATATTTTTATTTCTATTTAGTTA
1 TTATTTATTTTTATTTCTATTTAGTTA
*
58462356 TTATTTATTTTTATTTCTATTTAATTA
1 TTATTTATTTTTATTTCTATTTAGTTA
*
58462383 TTATTTATTTTTATTTCTATTTGGTTA
1 TTATTTATTTTTATTTCTATTTAGTTA
58462410 TTA-TTATTT
1 TTATTTATTT
58462419 ATGAAGAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 6 0.10
27 53 0.90
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (27 bp):
TTATTTATTTTTATTTCTATTTAGTTA
Found at i:58462365 original size:54 final size:54
Alignment explanation
Indices: 58462300--58462420 Score: 156
Period size: 54 Copynumber: 2.3 Consensus size: 54
58462290 TCTATTATTA
* * *
58462300 TATTATCTATTTATATAT-TATTATTATTTTTATATATTTTTATTTCTATTTAGT
1 TATTATTTATTTATATATCTATT-TAATTATTATATATTTTTATTTCTATTTAGT
* * * *
58462354 TATTATTTATTTTTATTTCTATTTAATTATTATTTATTTTTATTTCTATTTGGT
1 TATTATTTATTTATATATCTATTTAATTATTATATATTTTTATTTCTATTTAGT
58462408 TATTA-TTATTTAT
1 TATTATTTATTTAT
58462421 GAAGAAAATG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 7 0.12
54 47 0.81
55 4 0.07
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (54 bp):
TATTATTTATTTATATATCTATTTAATTATTATATATTTTTATTTCTATTTAGT
Found at i:58462377 original size:39 final size:42
Alignment explanation
Indices: 58462245--58462390 Score: 123
Period size: 39 Copynumber: 3.5 Consensus size: 42
58462235 TATAAATCTA
*
58462245 TATTTCTATATTATTTATTT-TATTATTCTATCTATTATTATATTATC
1 TATTT-TATATTATCTATTTATA-TA-T-TAT-TATTATT-TATTATC
*
58462292 TATTATTATATTATCTATTTATATATTATTATTATTT-TTATA
1 TATT-TTATATTATCTATTTATATATTATTATTATTTATTATC
58462334 TATTTT-TATT-TCTATTTAGT-TATTATTTATT-TTTATT-TC
1 TATTTTATATTATCTATTTA-TATATTA-TTATTATTTATTATC
58462373 TA-TTTA-ATTAT-TATTTAT
1 TATTTTATATTATCTATTTAT
58462391 TTTTATTTCT
Statistics
Matches: 89, Mismatches: 3, Indels: 24
0.77 0.03 0.21
Matches are distributed among these distances:
37 1 0.01
38 12 0.13
39 20 0.22
40 12 0.13
41 2 0.02
42 8 0.09
43 1 0.01
44 7 0.08
45 3 0.03
46 1 0.01
47 19 0.21
48 3 0.03
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (42 bp):
TATTTTATATTATCTATTTATATATTATTATTATTTATTATC
Found at i:58462389 original size:11 final size:10
Alignment explanation
Indices: 58462253--58462420 Score: 99
Period size: 10 Copynumber: 17.0 Consensus size: 10
58462243 TATATTTCTA
58462253 TATTATTTAT
1 TATTATTTAT
58462263 T-TTA-TTAT
1 TATTATTTAT
* *
58462271 T-CTATCTAT
1 TATTATTTAT
58462280 TATTATATTAT
1 TATTAT-TTAT
58462291 CTATTATTATAT
1 -TATTATT-TAT
58462303 TATCTATTTAT
1 TAT-TATTTAT
58462314 ATATTA-TTAT
1 -TATTATTTAT
58462324 TATT-TTTAT
1 TATTATTTAT
58462333 ATATT-TTTAT
1 -TATTATTTAT
58462343 T-TCTATTTAGT
1 TAT-TATTTA-T
58462354 TATTATTTAT
1 TATTATTTAT
* *
58462364 TTTTATTT-C
1 TATTATTTAT
*
58462373 TA-T-TTAAT
1 TATTATTTAT
58462381 TATTATTTAT
1 TATTATTTAT
* *
58462391 TTTTATTT-C
1 TATTATTTAT
58462400 TATT-TGGTTAT
1 TATTAT--TTAT
58462411 TATTATTTAT
1 TATTATTTAT
58462421 GAAGAAAATG
Statistics
Matches: 124, Mismatches: 14, Indels: 40
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.02
8 12 0.10
9 22 0.18
10 46 0.37
11 24 0.19
12 18 0.15
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (10 bp):
TATTATTTAT
Found at i:58462397 original size:21 final size:20
Alignment explanation
Indices: 58462253--58462398 Score: 91
Period size: 23 Copynumber: 6.9 Consensus size: 20
58462243 TATATTTCTA
58462253 TATTATTTATTTTATTATTCTAT
1 TATTATTTA-TTT-TTATT-TAT
* *
58462276 CTATTA-TTA-TATTATCTAT
1 -TATTATTTATTTTTATTTAT
*
58462295 TATTATATTATCTATTTATATAT
1 TATTAT-TTAT-T-TTTATTTAT
*
58462318 TATTA-TTATTTTTATATAT
1 TATTATTTATTTTTATTTAT
* * * *
58462337 TTTTATTTCTATTTAGTTAT
1 TATTATTTATTTTTATTTAT
*
58462357 TATTTATTTTTATTTCTATTTAAT
1 TA-TTA--TTTATTTTTATTT-AT
58462381 TATTATTTATTTTTATTT
1 TATTATTTATTTTTATTT
58462399 CTATTTGGTT
Statistics
Matches: 97, Mismatches: 15, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
18 5 0.05
19 16 0.16
20 19 0.20
21 20 0.21
22 1 0.01
23 27 0.28
24 9 0.09
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (20 bp):
TATTATTTATTTTTATTTAT
Found at i:58462398 original size:6 final size:6
Alignment explanation
Indices: 58462317--58462418 Score: 64
Period size: 6 Copynumber: 16.0 Consensus size: 6
58462307 TATTTATATA
* * *
58462317 TTATTA TTATTT TTA--T ATATTT TTATTT CTATTT AGTTATTAT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT --TTATT-T TTATTT
* * *
58462366 TTATTT CTATTT AATTATTAT TTATTT TTATTT CTATTT GGTTATTA TTATTT
1 TTATTT TTATTT --TTATT-T TTATTT TTATTT TTATTT --TTATTT TTATTT
58462419 ATGAAGAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
4 3 0.04
6 48 0.64
7 10 0.13
8 12 0.16
9 2 0.03
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (6 bp):
TTATTT
Found at i:58463172 original size:20 final size:19
Alignment explanation
Indices: 58463143--58463194 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
58463133 TCTTCTGACC
58463143 AAAATAAAAAATAT-ATCAA
1 AAAATAAAAAATATAAT-AA
*
58463162 AAAACTAAAAAGTATAATAA
1 AAAA-TAAAAAATATAATAA
*
58463182 AAAATAATAAATA
1 AAAATAAAAAATA
58463195 AAAAAGTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 11 0.39
20 15 0.54
21 2 0.07
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAATAAAAAATATAATAA
Found at i:58470688 original size:12 final size:12
Alignment explanation
Indices: 58470671--58470695 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58470661 CAGAGGCTAT
58470671 TAACAATATTTA
1 TAACAATATTTA
58470683 TAACAATATTTA
1 TAACAATATTTA
58470695 T
1 T
58470696 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:58470802 original size:21 final size:20
Alignment explanation
Indices: 58470773--58470811 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
58470763 ACGCCTACGA
58470773 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
58470793 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
58470812 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:58471629 original size:6 final size:6
Alignment explanation
Indices: 58471618--58471702 Score: 69
Period size: 6 Copynumber: 15.2 Consensus size: 6
58471608 GGGATCACTA
58471618 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT ACTAAT -CTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* * *
58471661 ACTAAT A-GAAT A-GAAT ACTAAT -CTAAC ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
58471703 GAACAGAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
4 3 0.04
5 26 0.39
6 33 0.49
8 5 0.07
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (6 bp):
ACTAAT
Found at i:58471640 original size:20 final size:21
Alignment explanation
Indices: 58471615--58471659 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
58471605 GCCGGGATCA
58471615 CTAACTAATACTAAT-CTAAT
1 CTAACTAATACTAATACTAAT
58471635 CTAACTAATACTAATACTAAT
1 CTAACTAATACTAATACTAAT
58471656 CTAA
1 CTAA
58471660 TACTAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
CTAACTAATACTAATACTAAT
Found at i:58471661 original size:11 final size:11
Alignment explanation
Indices: 58471614--58471686 Score: 66
Period size: 11 Copynumber: 6.9 Consensus size: 11
58471604 AGCCGGGATC
58471614 ACTAA-CTAAT
1 ACTAATCTAAT
58471624 ACTAATCTAAT
1 ACTAATCTAAT
58471635 -CTAA-CTAAT
1 ACTAATCTAAT
58471644 ACTAATACTAAT
1 ACTAAT-CTAAT
58471656 -CTAATACTAAT
1 ACTAAT-CTAAT
* **
58471667 A-GAATAGAAT
1 ACTAATCTAAT
58471677 ACTAATCTAA
1 ACTAATCTAA
58471687 CACTCTAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
9 5 0.10
10 17 0.33
11 24 0.47
12 5 0.10
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:58471977 original size:14 final size:14
Alignment explanation
Indices: 58471958--58471986 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
58471948 ACAGATGGAT
58471958 TCGTATAATTCTTA
1 TCGTATAATTCTTA
58471972 TCGTATAATTCTTA
1 TCGTATAATTCTTA
58471986 T
1 T
58471987 ATATATATTG
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:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:58473504 original size:13 final size:13
Alignment explanation
Indices: 58473486--58473513 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58473476 GTTATTCATA
58473486 ATTAATATGAATT
1 ATTAATATGAATT
58473499 ATTAATATGAATT
1 ATTAATATGAATT
58473512 AT
1 AT
58473514 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:58476216 original size:40 final size:41
Alignment explanation
Indices: 58476156--58476376 Score: 307
Period size: 40 Copynumber: 5.6 Consensus size: 41
58476146 TATTCGAATG
58476156 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
58476196 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
58476236 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
58476276 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
58476316 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
58476356 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
58476377 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 143 0.88
41 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:58476644 original size:22 final size:22
Alignment explanation
Indices: 58476604--58476645 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
58476594 GAATGTGCAT
*
58476604 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
58476626 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
58476646 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:58479682 original size:40 final size:40
Alignment explanation
Indices: 58479605--58479782 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
58479595 AAACCAAGTA
* *
58479605 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
58479644 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58479684 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58479724 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58479764 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58479783 TTATCATCCG
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 15 0.12
40 115 0.88
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58483430 original size:47 final size:47
Alignment explanation
Indices: 58483346--58483487 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
58483336 GTTGAATTTA
* *
58483346 AAGCTTGTTAAA-TTGCTT-TTAATATTTCTGAATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTG-TTCTTAATATTTCCGGATAAGTTACTTAGTT
*
58483392 AAGCTTGTTAAATTTGTTCTTAATATTTCCGGACAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGTTCTTAATATTTCCGGATAAGTTACTTAGTT
** *
58483439 AAGCTTGTTAAATTTGCCCTTAATATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGTTCTTAATATTTCCGGATAAGTTACTTAGTT
58483486 AA
1 AA
58483488 AGAAAATTCT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
46 14 0.16
47 73 0.84
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGTTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:58484375 original size:45 final size:44
Alignment explanation
Indices: 58484308--58484431 Score: 185
Period size: 45 Copynumber: 2.8 Consensus size: 44
58484298 GTATTATTCG
* *
58484308 GGCCTTTAAGCCTAGCAGGCTATAATGCTGGTGAGATACTACTC
1 GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTACTC
* *
58484352 GGACCTTTGAGCCTAGCAAGCTATAATGCCGGTGAGATACTATTC
1 GG-CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTACTC
*
58484397 GGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 GGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
58484432 AATTATATCA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 6 0.08
45 66 0.92
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (44 bp):
GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTACTC
Found at i:58490738 original size:48 final size:48
Alignment explanation
Indices: 58490618--58490765 Score: 219
Period size: 48 Copynumber: 3.1 Consensus size: 48
58490608 TAAGTTGAAT
* *
58490618 TTAAAGCTTGTTAAA-TTACTCTTAATATTTCCGGATAAGTTACTGAG
1 TTAAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
* *
58490665 TT-AAGCTTGTTAAATTTGCTCTTAATATTTCCAGACAAGTTACTTAG
1 TTAAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
* * *
58490712 TTAAAGCTTGTTAAATTTGCCCTTAATATTTCTGGATAAGTTTCTTAG
1 TTAAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
58490760 TTAAAG
1 TTAAAG
58490766 AAAATTCTGA
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
46 12 0.13
47 32 0.36
48 46 0.51
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (48 bp):
TTAAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
Found at i:58491645 original size:45 final size:44
Alignment explanation
Indices: 58491589--58491752 Score: 208
Period size: 45 Copynumber: 3.7 Consensus size: 44
58491579 ATTATTCGTT
* *
58491589 CCTTTGAGCCTAGTAGGCTATAATGCTGGTGAGATACTATTCGG
1 CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGG
58491633 ACCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGG
1 -CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGG
* * **
58491678 GCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGTTA-TCAGG
1 CCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTC-GG
* *
58491723 -CTTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 CCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
58491753 ATGAATCAAG
Statistics
Matches: 109, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
42 11 0.10
43 14 0.13
44 9 0.08
45 75 0.69
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (44 bp):
CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGG
Found at i:58496006 original size:40 final size:39
Alignment explanation
Indices: 58495972--58496140 Score: 250
Period size: 40 Copynumber: 4.3 Consensus size: 39
58495962 CTAAGATCCA
*
58495972 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCG
1 AAGGCATTTGTGCGAGTTACTAA-TCCGGGCTAAGTCCCG
*
58496011 AAGGCATTTGTGCGAGTTACTACATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAGTCCCG
*
58496051 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACT-AATCCGGGCTAAGTCCCG
* *
58496091 AAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCG
1 AAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAGTCCCG
58496131 AAGGCATTTG
1 AAGGCATTTG
58496141 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
39 32 0.26
40 88 0.73
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
AAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGTCCCG
Found at i:58496158 original size:80 final size:80
Alignment explanation
Indices: 58495972--58496173 Score: 232
Period size: 80 Copynumber: 2.5 Consensus size: 80
58495962 CTAAGATCCA
** * *
58495972 AAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTACA
1 AAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA
* *
58496035 TCCGGGTTAAGTCCCG
65 ACCGGGCTAAGTCCCG
** * *
58496051 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 AAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAA
*
58496116 CCGGGCTATGTCCCG
66 CCGGGCTAAGTCCCG
* * *
58496131 AAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 AAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
58496174 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 46 0.43
80 61 0.56
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
AAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAA
CCGGGCTAAGTCCCG
Found at i:58497394 original size:61 final size:61
Alignment explanation
Indices: 58497277--58497392 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 61
58497267 TGGCCCGACC
58497277 AAAAATTCTAGAAAAAAATATGTAGATGGGAATATGAGTCTAGTTTCATGGAAAAATCATG
1 AAAAATTCTAGAAAAAAATATGTAGATGGGAATATGAGTCTAGTTTCATGGAAAAATCATG
*
58497338 AAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCA-GGAAAAA
1 AAAAATTCTAGAAAAAAATATGTAGATGGGAATATGAGTCTAGTTTCATGGAAAAA
58497393 ATTTACGGAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
60 7 0.13
61 47 0.87
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (61 bp):
AAAAATTCTAGAAAAAAATATGTAGATGGGAATATGAGTCTAGTTTCATGGAAAAATCATG
Found at i:58500108 original size:25 final size:25
Alignment explanation
Indices: 58500073--58500185 Score: 93
Period size: 25 Copynumber: 4.6 Consensus size: 25
58500063 TCACCAATTT
* *
58500073 CAGCTCTTATGAGCTTCCCGTTCTA
1 CAGCTCATATGAGCTTCCCGTTATA
* ** * *
58500098 CAGCTCATATGAGTTTCTTGTGATT
1 CAGCTCATATGAGCTTCCCGTTATA
* *
58500123 CAGCTCACATGAGCTTCCCGTTATT
1 CAGCTCATATGAGCTTCCCGTTATA
** * *
58500148 CAGCTCGGAGGAGCTTCCCATT-TA
1 CAGCTCATATGAGCTTCCCGTTATA
*
58500172 CAGCTCGTATGAGC
1 CAGCTCATATGAGC
58500186 ATACATGTAC
Statistics
Matches: 69, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
24 13 0.19
25 56 0.81
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.33
Consensus pattern (25 bp):
CAGCTCATATGAGCTTCCCGTTATA
Found at i:58501073 original size:30 final size:30
Alignment explanation
Indices: 58501039--58501095 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
58501029 CTCAGCCGTG
*
58501039 TGTGACACATTGCCAGGTGAAACGGCCATA
1 TGTGACACACTGCCAGGTGAAACGGCCATA
*
58501069 TGTGACACACTGCCAGGTGACACGGCC
1 TGTGACACACTGCCAGGTGAAACGGCC
58501096 GTGTGTCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (30 bp):
TGTGACACACTGCCAGGTGAAACGGCCATA
Found at i:58506320 original size:40 final size:40
Alignment explanation
Indices: 58506262--58506386 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
58506252 GATTTAAGTA
* *
58506262 CAATGGCAT-GTCTTACATGCTTATGGAAACATAATCAATT
1 CAATGGCATGGT-TAACATGCTTATGGTAACATAATCAATT
*
58506302 CAATGGCATGGTTAACATGCTTATGGTAACGTAATCAATT
1 CAATGGCATGGTTAACATGCTTATGGTAACATAATCAATT
* * *
58506342 CAATGGCATGCTTAACATGCTTATAGTAACATAATCAAGT
1 CAATGGCATGGTTAACATGCTTATGGTAACATAATCAATT
58506382 CAATG
1 CAATG
58506387 CATTGCAAGC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 75 0.97
41 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (40 bp):
CAATGGCATGGTTAACATGCTTATGGTAACATAATCAATT
Found at i:58507762 original size:20 final size:20
Alignment explanation
Indices: 58507737--58507775 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
58507727 TTACTTCATC
58507737 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
58507757 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
58507776 ACTAGCTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:58507764 original size:12 final size:12
Alignment explanation
Indices: 58507749--58507788 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
58507739 TACTTACTCT
*
58507749 CTTACTTGTTTA
1 CTTACTTGCTTA
58507761 CTTACTTGCTTA
1 CTTACTTGCTTA
*
58507773 CTTACTAGCTTA
1 CTTACTTGCTTA
58507785 CTTA
1 CTTA
58507789 AATAACTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.20, C:0.23, G:0.07, T:0.50
Consensus pattern (12 bp):
CTTACTTGCTTA
Found at i:58508130 original size:50 final size:50
Alignment explanation
Indices: 58507988--58508229 Score: 209
Period size: 50 Copynumber: 4.7 Consensus size: 50
58507978 GATAATAACA
* * ** * * *
58507988 TGCCAAAGCCATTTCCCAGACATGGTCTTACATGGGATGTTTCCTCTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
58508037 TGCCAATGTCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
58508087 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** **
58508137 TGCCAACGCCATGTCCCAGACATAATCTTACATGGGACCTCTCATAATCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
58508193 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
58508230 TCTCATCCCC
Statistics
Matches: 153, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 79 0.52
53 2 0.01
56 34 0.22
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:58532856 original size:22 final size:25
Alignment explanation
Indices: 58532807--58532864 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
58532797 TTTAAATAAA
* *
58532807 AATTTTATTTATTTATATAATAAGT
1 AATTTTATATATTTATATAACAAGT
58532832 AATTTTATAT-TTTATA-AACAA-T
1 AATTTTATATATTTATATAACAAGT
*
58532854 AATTTTTTATA
1 AATTTTATATA
58532865 ATATAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 10 0.34
23 4 0.14
24 6 0.21
25 9 0.31
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
AATTTTATATATTTATATAACAAGT
Found at i:58534565 original size:8 final size:8
Alignment explanation
Indices: 58534552--58534579 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
58534542 GATTTTTAAA
58534552 TATTATTT
1 TATTATTT
58534560 TATTATTT
1 TATTATTT
58534568 TATTATTT
1 TATTATTT
58534576 TATT
1 TATT
58534580 GTTTAGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTATTT
Found at i:58546970 original size:23 final size:24
Alignment explanation
Indices: 58546920--58546974 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
58546910 TTTCTATTGA
* *
58546920 AAATTTTTAAAATTTTTAAATCTC
1 AAATTTTAAAAATTTTTAAATATC
58546944 AAATTTTAAAATATTTTTAAA-AT-
1 AAATTTTAAAA-ATTTTTAAATATC
58546967 AAATTTTA
1 AAATTTTA
58546975 TTTTCCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.29
24 11 0.39
25 9 0.32
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATTTTAAAAATTTTTAAATATC
Found at i:58550907 original size:37 final size:37
Alignment explanation
Indices: 58550857--58550935 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
58550847 TTATTACGAA
* * * * *
58550857 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAACCCCCACACGAAGTCATCAG
*
58550894 GTCTTACCCGGACAAAACCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAACCCCCACACGAAGTCATCAG
58550931 GTCTT
1 GTCTT
58550936 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAACCCCCACACGAAGTCATCAG
Found at i:58551140 original size:47 final size:47
Alignment explanation
Indices: 58551079--58551181 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 47
58551069 ACATCGGCAC
* * * *
58551079 CCATCACGTTGGCCACTCGGCCCTGTCACATATATACACT-TTCACAT
1 CCATCACATCGGCCACTAGGCCCTATCACATATATACA-TGTTCACAT
* * * *
58551126 TCATCACATCGGCCATTAGGCCTTATCACATATATGCATGTTCACAT
1 CCATCACATCGGCCACTAGGCCCTATCACATATATACATGTTCACAT
58551173 CCATCACAT
1 CCATCACAT
58551182 AGAATCCTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
46 1 0.02
47 45 0.98
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.29
Consensus pattern (47 bp):
CCATCACATCGGCCACTAGGCCCTATCACATATATACATGTTCACAT
Found at i:58558434 original size:23 final size:23
Alignment explanation
Indices: 58558362--58558436 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
58558352 GTATTATTGA
*
58558362 TCAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* * * *
58558385 TCAATGGTAGCTACGGCTACGTA
1 TCAGTGGTAGCTTCGGCTACATT
58558408 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
58558431 TCAGTG
1 TCAGTG
58558437 TGGCACTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:58559684 original size:49 final size:49
Alignment explanation
Indices: 58559626--58559803 Score: 320
Period size: 49 Copynumber: 3.6 Consensus size: 49
58559616 TATGTAATTT
* *
58559626 CGTGTAAGACCATAGCTAGCCTATGGCATCGGTATATGTTATGAGATTA
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
58559675 CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
58559724 CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
* *
58559773 CGTGTAAGACCATAGTTGGACTATGGCATCG
1 CGTGTAAGACCATAGCTGGGCTATGGCATCG
58559804 AGAAAATAAA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 125 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (49 bp):
CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGTTATGAGATTA
Found at i:58570827 original size:26 final size:29
Alignment explanation
Indices: 58570771--58570827 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 29
58570761 TATAATTTAA
**
58570771 TAAAATTAAATTTTCATCTATTTATTGAAT
1 TAAAATTAAATTTTCA-CTATTTATACAAT
58570801 TAAAATT-AATTTT-A-TATTTATACAAT
1 TAAAATTAAATTTTCACTATTTATACAAT
58570827 T
1 T
58570828 GCACCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 11 0.44
28 1 0.04
29 6 0.24
30 7 0.28
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (29 bp):
TAAAATTAAATTTTCACTATTTATACAAT
Found at i:58578922 original size:12 final size:12
Alignment explanation
Indices: 58578905--58578934 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
58578895 AACCAAATGC
58578905 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
58578917 CCGTGTGCTAGG
1 CCGTGTGCCAGG
58578929 CCGTGT
1 CCGTGT
58578935 AACAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:58580179 original size:25 final size:25
Alignment explanation
Indices: 58580151--58580242 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
58580141 TCATGTACAT
58580151 GTATGCTCAT-ACGAGCTGTAAATCG
1 GTATGCTC-TCACGAGCTGTAAATCG
**
58580176 GTATGCTCAT-TTGAGCTG-AAGATCG
1 GTATGCTC-TCACGAGCTGTAA-ATCG
* *
58580201 GTATGCTCTCACGAGCTATGAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
*
58580226 ATATGCTCTCACGAGCT
1 GTATGCTCTCACGAGCT
58580243 ACAAATCGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 3 0.05
25 53 0.93
26 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:58580243 original size:25 final size:25
Alignment explanation
Indices: 58580197--58580253 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
58580187 TGAGCTGAAG
* **
58580197 ATCGGTATGCTCTCACGAGCTATGA
1 ATCGATATGCTCTCACGAGCTACAA
58580222 ATCGATATGCTCTCACGAGCTACAA
1 ATCGATATGCTCTCACGAGCTACAA
58580247 ATCGATA
1 ATCGATA
58580254 ACCCTAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (25 bp):
ATCGATATGCTCTCACGAGCTACAA
Found at i:58587844 original size:25 final size:25
Alignment explanation
Indices: 58587781--58587852 Score: 101
Period size: 24 Copynumber: 2.9 Consensus size: 25
58587771 TTGAAGATCG
*
58587781 GTATGCTCTCACGAGCTATGAATGA
1 GTATGCTCTCACGAGCTATAAATGA
* *
58587806 -TATGCTCTTACGAGCTATAAATTA
1 GTATGCTCTCACGAGCTATAAATGA
*
58587830 GTATACTCTCACGAGCTATAAAT
1 GTATGCTCTCACGAGCTATAAAT
58587853 CGGCAACCCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 21 0.51
25 20 0.49
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATGA
Found at i:58608112 original size:21 final size:21
Alignment explanation
Indices: 58608080--58608120 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
58608070 GAACATTTGG
58608080 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
58608101 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
58608121 CTTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:58611671 original size:32 final size:32
Alignment explanation
Indices: 58611611--58611671 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
58611601 AAAATTTTCA
* *
58611611 ATTTTAAATTAAATAAATTTAATGGATAAAAT
1 ATTTTAAATTAAATAAAGTTAATAGATAAAAT
*
58611643 ATTTTATATTAAA-AAAGTTAATTAGATAA
1 ATTTTAAATTAAATAAAGTTAA-TAGATAA
58611672 GTATAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (32 bp):
ATTTTAAATTAAATAAAGTTAATAGATAAAAT
Found at i:58617102 original size:6 final size:6
Alignment explanation
Indices: 58617091--58617131 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
58617081 TATCATCCCT
* * *
58617091 ATTTTC ATTTTC ATTTTC ATTTTT ATTTCC ATTTCC ATTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
58617132 TGGAAACCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTTC
Found at i:58621938 original size:21 final size:21
Alignment explanation
Indices: 58621900--58621941 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58621890 ACATGATTAT
**
58621900 GTGTTATTAAAGGTTTAATTG
1 GTGTTATTAAAGACTTAATTG
*
58621921 GTGTTATTAATGACTTAATTG
1 GTGTTATTAAAGACTTAATTG
58621942 CATATTGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (21 bp):
GTGTTATTAAAGACTTAATTG
Found at i:58627062 original size:11 final size:11
Alignment explanation
Indices: 58627046--58627079 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
58627036 CATGCTGTAG
58627046 ATATTAAAATA
1 ATATTAAAATA
58627057 ATATTAAAATA
1 ATATTAAAATA
*
58627068 AAATTAAAATA
1 ATATTAAAATA
58627079 A
1 A
58627080 ATTTTACGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATTAAAATA
Found at i:58634699 original size:46 final size:46
Alignment explanation
Indices: 58634573--58634722 Score: 135
Period size: 46 Copynumber: 3.2 Consensus size: 46
58634563 TCGTTTTCTC
* **
58634573 GATGCCATAGTCCA-ACTATGGTCTTACACATAATCACATAAT-ACAT
1 GATGCCATAGCCCAGA-TATGGTCTTACACGGAATCACAT-ATCACAT
* *
58634619 ACAGATGCCATAGCCCAGCTATGGTCTTACACGG-ATCGCATATCACACT
1 ---GATGCCATAGCCCAGATATGGTCTTACACGGAATCACATATCACA-T
* **
58634668 GATGCCATATCCCAGATATGGTCTTGTACGGAAATCACATATCACAT
1 GATGCCATAGCCCAGATATGGTCTTACACGG-AATCACATATCACAT
*
58634715 GTTGCCAT
1 GATGCCAT
58634723 GGTCCAACCA
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
46 27 0.32
47 10 0.12
48 21 0.25
49 27 0.32
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (46 bp):
GATGCCATAGCCCAGATATGGTCTTACACGGAATCACATATCACAT
Found at i:58638709 original size:7 final size:7
Alignment explanation
Indices: 58638692--58638720 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
58638682 GGTCGAAACC
58638692 ATCTC-T
1 ATCTCAT
58638698 ATCTCAT
1 ATCTCAT
58638705 ATCTCAT
1 ATCTCAT
58638712 ATCTCAT
1 ATCTCAT
58638719 AT
1 AT
58638721 AGATGTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (7 bp):
ATCTCAT
Found at i:58645044 original size:22 final size:22
Alignment explanation
Indices: 58645006--58645050 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
58644996 TTAGCATTAC
*
58645006 ATAATATAAATATTATAAAATA
1 ATAATATAAATAATATAAAATA
*
58645028 ATAATA-AAATAGATATATAATA
1 ATAATATAAATA-ATATAAAATA
58645050 A
1 A
58645051 GATAAGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
ATAATATAAATAATATAAAATA
Found at i:58654315 original size:26 final size:26
Alignment explanation
Indices: 58654268--58654323 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
58654258 TAAAACAATT
** *
58654268 TTGACGATTTTGCCTTTGGTAAAATG
1 TTGACGATTTTGCCACTAGTAAAATG
* *
58654294 TTGACGATTTTGTCACTAGTAAAATT
1 TTGACGATTTTGCCACTAGTAAAATG
58654320 TTGA
1 TTGA
58654324 GAAAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.43
Consensus pattern (26 bp):
TTGACGATTTTGCCACTAGTAAAATG
Found at i:58654484 original size:6 final size:6
Alignment explanation
Indices: 58654468--58654516 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
58654458 TATAAATGGA
* * * *
58654468 TCATTT CCATTT TCATTT TCATTT TCATTT TCAATA TCATTT CCATTT
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
58654516 T
1 T
58654517 TGGAAACCTA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.59
Consensus pattern (6 bp):
TCATTT
Found at i:58654491 original size:18 final size:18
Alignment explanation
Indices: 58654467--58654516 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
58654457 TTATAAATGG
*
58654467 ATCATTTCCATTTTCATT
1 ATCATTTCCATTTTCAAT
* *
58654485 TTCATTTTCATTTTCAAT
1 ATCATTTCCATTTTCAAT
58654503 ATCATTTCCATTTT
1 ATCATTTCCATTTT
58654517 TGGAAACCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (18 bp):
ATCATTTCCATTTTCAAT
Found at i:58657902 original size:177 final size:177
Alignment explanation
Indices: 58657606--58657955 Score: 628
Period size: 177 Copynumber: 2.0 Consensus size: 177
58657596 GGATTTGATG
58657606 TATGGGTCTTATGTGATACATGATTTATCTCTTGTTTATTGTTGATTACTAAGTGGAAATTGTGG
1 TATGGGTCTTATGTGATACATGATTTATCTCTTGTTTATTGTTGATTACTAAGTGGAAATTGTGG
*
58657671 CTTTTATTTATTTTCTTGTTTGAGGGTCTTTACTTTATTGTTCGTTGTTGAGACATTATACACTC
66 CTTTTATTTATTTTATTGTTTGAGGGTCTTTACTTTATTGTTCGTTGTTGAGACATTATACACTC
*
58657736 TAAAAAATTACCTTGAGTAAAAAAAACCTGTGTAAGCCAAAATAATA
131 TAAAAAATTACCTTGAGTAAAAAAAACATGTGTAAGCCAAAATAATA
* *
58657783 TATGGGTCTTATGTGATACATGATTTATCTCTTGTTTATTTTTTATTACTAAGTGGAAATTGTGG
1 TATGGGTCTTATGTGATACATGATTTATCTCTTGTTTATTGTTGATTACTAAGTGGAAATTGTGG
* * *
58657848 CTTTTATTTATTTTATTGTTTGAGGGTCTTTACTTTGTTGTTTGTTGTTGAGACATTATACACTT
66 CTTTTATTTATTTTATTGTTTGAGGGTCTTTACTTTATTGTTCGTTGTTGAGACATTATACACTC
*
58657913 TAAAAAATTTCCTTGAGTAAAAAAAACATGTGTAAGCCAAAAT
131 TAAAAAATTACCTTGAGTAAAAAAAACATGTGTAAGCCAAAAT
58657956 CGAGATTCGA
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
177 165 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (177 bp):
TATGGGTCTTATGTGATACATGATTTATCTCTTGTTTATTGTTGATTACTAAGTGGAAATTGTGG
CTTTTATTTATTTTATTGTTTGAGGGTCTTTACTTTATTGTTCGTTGTTGAGACATTATACACTC
TAAAAAATTACCTTGAGTAAAAAAAACATGTGTAAGCCAAAATAATA
Found at i:58661429 original size:55 final size:56
Alignment explanation
Indices: 58661345--58661468 Score: 196
Period size: 55 Copynumber: 2.2 Consensus size: 56
58661335 TAAAAGAGTC
* *
58661345 CACATATAACAGACTTTGTCATGAAGGCGCATTTAACAAAATCAG-CACAATGGCT
1 CACATATAACAGACTTTGTCACGAAGGCGCATTTAACAAAATCAGCCACAACGGCT
* *
58661400 CACATATAACATACTTTGTCACGAAGGCGCATTTAACAGAATCAGCCACAACGGCT
1 CACATATAACAGACTTTGTCACGAAGGCGCATTTAACAAAATCAGCCACAACGGCT
*
58661456 CACGTATAACAGA
1 CACATATAACAGA
58661469 GAATAGCCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 42 0.68
56 20 0.32
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (56 bp):
CACATATAACAGACTTTGTCACGAAGGCGCATTTAACAAAATCAGCCACAACGGCT
Found at i:58661501 original size:30 final size:30
Alignment explanation
Indices: 58661465--58661549 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
58661455 TCACGTATAA
*
58661465 CAGAGAATAGCCACATAGGCTTCCACTTAT
1 CAGAGAATAGCCACAAAGGCTTCCACTTAT
** * *
58661495 TTGAGAATAGCAACAAAGGCTTCTACTTAT
1 CAGAGAATAGCCACAAAGGCTTCCACTTAT
* *
58661525 CAGAGAACAGCCACAGAGGCTTCCA
1 CAGAGAATAGCCACAAAGGCTTCCA
58661550 TATTCTGATA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (30 bp):
CAGAGAATAGCCACAAAGGCTTCCACTTAT
Found at i:58666651 original size:13 final size:13
Alignment explanation
Indices: 58666635--58666774 Score: 63
Period size: 13 Copynumber: 10.5 Consensus size: 13
58666625 TGAAAATAAA
58666635 TATATGAAATGGT
1 TATATGAAATGGT
58666648 TATAT-AAATCGGT
1 TATATGAAAT-GGT
** *
58666661 TATCTAAAAAAAT-GA
1 TA--T-ATGAAATGGT
*
58666676 TATATGAATTGGT
1 TATATGAAATGGT
***
58666689 TATATAGAAATAAA
1 TATAT-GAAATGGT
*
58666703 TATATAAAATGGT
1 TATATGAAATGGT
*
58666716 TATA-CAAATCGGT
1 TATATGAAAT-GGT
*
58666729 TATATGAAAAAT-GA
1 TATATG--AAATGGT
*
58666743 TATATGAAATAGT
1 TATATGAAATGGT
* *
58666756 TATACGAACTGGT
1 TATATGAAATGGT
58666769 TATATG
1 TATATG
58666775 GAAAAAGATA
Statistics
Matches: 93, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
12 16 0.17
13 48 0.52
14 16 0.17
15 4 0.04
16 5 0.05
17 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (13 bp):
TATATGAAATGGT
Found at i:58666680 original size:28 final size:28
Alignment explanation
Indices: 58666648--58666719 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
58666638 ATGAAATGGT
*
58666648 TATATAAATCGGTTATCTA-AAA-AAATGA
1 TATATAAAT-GGTTATATAGAAATAAAT-A
*
58666676 TATATGAATTGGTTATATAGAAATAAATA
1 TATAT-AAATGGTTATATAGAAATAAATA
58666705 TATA-AAATGGTTATA
1 TATATAAATGGTTATA
58666720 CAAATCGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 10 0.26
28 13 0.34
29 11 0.29
30 4 0.11
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.36
Consensus pattern (28 bp):
TATATAAATGGTTATATAGAAATAAATA
Found at i:58666713 original size:68 final size:67
Alignment explanation
Indices: 58666628--58666759 Score: 201
Period size: 68 Copynumber: 2.0 Consensus size: 67
58666618 GTGTAAATGA
* * * * *
58666628 AAATAAATATATGAAATGGTTATATAAATCGGTTATCTAAAAAAATGATATATGAATTGGTTATA
1 AAATAAATATATAAAATGGTTATACAAATCGGTTATAT-AAAAAATGATATATGAAATAGTTATA
58666693 TAG
65 TAG
*
58666696 AAATAAATATATAAAATGGTTATACAAATCGGTTATATGAAAAATGATATATGAAATAGTTATA
1 AAATAAATATATAAAATGGTTATACAAATCGGTTATATAAAAAATGATATATGAAATAGTTATA
58666760 CGAACTGGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
67 23 0.40
68 35 0.60
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.34
Consensus pattern (67 bp):
AAATAAATATATAAAATGGTTATACAAATCGGTTATATAAAAAATGATATATGAAATAGTTATAT
AG
Found at i:58666746 original size:40 final size:40
Alignment explanation
Indices: 58666685--58666794 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
58666675 ATATATGAAT
58666685 TGGTTATATAGAAATAA-ATATATAAAATGGTTATACAAA-
1 TGGTTATATAGAAA-AAGATATATAAAATGGTTATACAAAC
* * *
58666724 TCGGTTATAT-GAAAAATGATATATGAAATAGTTATACGAAC
1 T-GGTTATATAGAAAAA-GATATATAAAATGGTTATACAAAC
*
58666765 TGGTTATATGGAAAAAGATATATAAAATGG
1 TGGTTATATAGAAAAAGATATATAAAATGG
58666795 AACACTGGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
38 2 0.03
39 5 0.08
40 47 0.77
41 7 0.11
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (40 bp):
TGGTTATATAGAAAAAGATATATAAAATGGTTATACAAAC
Found at i:58692957 original size:16 final size:16
Alignment explanation
Indices: 58692936--58692971 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
58692926 GCATAGTCAA
58692936 ATTGTGAACATGGGTT
1 ATTGTGAACATGGGTT
58692952 ATTGTGAACATGGGTT
1 ATTGTGAACATGGGTT
58692968 -TTGT
1 ATTGT
58692972 TTTTCTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.42
Consensus pattern (16 bp):
ATTGTGAACATGGGTT
Found at i:58700400 original size:51 final size:51
Alignment explanation
Indices: 58700327--58700440 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 51
58700317 TATGGAGATT
** * *
58700327 CAGGTGTGTTT-TGGAGAGATGTGTAGCCTATGGGCTTTGCATTCAATGCC
1 CAGGTGTGTTTCTGGAGAGATGTGTAGCCTACAGGCTTGGCACTCAATGCC
*
58700377 CAGGTGTGTTTCTGGAGGGATGTGTAGCCTACAGGCTTGGCACTCAATGCC
1 CAGGTGTGTTTCTGGAGAGATGTGTAGCCTACAGGCTTGGCACTCAATGCC
*
58700428 TAGGTGTGTTTCT
1 CAGGTGTGTTTCT
58700441 AGATGGTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 11 0.19
51 46 0.81
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (51 bp):
CAGGTGTGTTTCTGGAGAGATGTGTAGCCTACAGGCTTGGCACTCAATGCC
Found at i:58703355 original size:18 final size:17
Alignment explanation
Indices: 58703327--58703361 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58703317 ATTATTAAGA
*
58703327 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58703344 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58703362 TTAATAATAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58703622 original size:16 final size:16
Alignment explanation
Indices: 58703597--58703664 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
58703587 GATTTGCTAT
58703597 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
58703613 TACTCCTCTAATCCAA
1 TACACCTCTAATCCAA
58703629 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58703645 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58703661 TACA
1 TACA
58703665 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58710162 original size:16 final size:16
Alignment explanation
Indices: 58710141--58710172 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58710131 GTTTTGTTGC
*
58710141 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
58710157 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
58710173 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:58710458 original size:51 final size:51
Alignment explanation
Indices: 58710400--58710590 Score: 203
Period size: 51 Copynumber: 3.8 Consensus size: 51
58710390 CCGGTTCACA
*
58710400 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATGCACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGATGCACG
* * * *
58710451 TAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTATC-CA-GTACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCTGATGCACG
* * * * * *
58710500 CATAGTAGCCTCCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACATG
1 --TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGATGCACG
*
58710552 TAGTAGCCTGCACATAGTACTACACACGTGACCAGCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
58710591 TTCACTTTCA
Statistics
Matches: 113, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
49 7 0.06
50 35 0.31
51 67 0.59
52 3 0.03
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGATGCACG
Found at i:58710579 original size:101 final size:102
Alignment explanation
Indices: 58710398--58710582 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
58710388 TACCGGTTCA
* * *
58710398 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATGCACGTAGTAGCCTGCA
1 CATAGTAGCCTCCACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
58710463 CATAGTACTACACACGTGATCAAAGCTATCCAGTACG
66 CATAGTACTACACACGTGATCAAAGCTATCCAGTACG
* *
58710500 CATAGTAGCCTCCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACATGTAGTAGCCTGC
1 CATAGTAGCCTCCACATAGTACTACACATGCGACC-ATCACTATCTGATACACGTAGTAGCCTGC
58710563 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
58710583 CCAGCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 39 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTCCACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAGCTATCCAGTACG
Found at i:58715037 original size:288 final size:287
Alignment explanation
Indices: 58714521--58715091 Score: 989
Period size: 288 Copynumber: 2.0 Consensus size: 287
58714511 AGCCACAACG
* *
58714521 AAAATGTCTCAGCCTCTACGTAGTCCACCCCGTTAAAAACAAACAACCACTTTATTTTGAAATTT
1 AAAATGTCTCAGCCTCTACATAGTCCACCCAGTTAAAAACAAACAACCACTTTATTTTGAAATTT
* * *
58714586 TTAAAGAGAATTAAAAACAATTGTTAGACCTTTTAAATTATTAAGTTGGTAGCATTAACACACTA
66 TCAAAGAGAATTAAAAACAATTGCTAGACCTTTTAAATTATTAAGTTGGTAACATTAACACACTA
58714651 AGGGACTATCATCCTTTTATCCTCTTTGATATCACATATTAAAAAGGAAAACCGGGACTATTCCT
131 AGGGACTATCATCCTTTTATCCTCTTTGATATCACATATTAAAAAGGAAAACCGGGACTATTCCT
58714716 TTATTAATGGAGAAGGCAAATGGAAAGTTAGAAAAGAAATTATATTCTTTCCAAAAGAATATTAA
196 TTATTAATGGAGAAGGCAAATGGAAAGTTAGAAAAGAAATTATATTCTTTCCAAAAGAATATTAA
58714781 TTTCCATGCCTTTTATAATTTTGAAAAT
261 TTTCCATGCCTTTTAT-ATTTTGAAAAT
* * * * *
58714809 AAAATGTCTCGGCCTTTACATAGTCCACCCAGTTAAAAACGAACAACCACTTTCTTTTGAACTTT
1 AAAATGTCTCAGCCTCTACATAGTCCACCCAGTTAAAAACAAACAACCACTTTATTTTGAAATTT
*
58714874 TCAAAGAGAATTAAAAACAGTTGCTAGACCTTTTAAATTATTAAGTTGGTAACATTAACACACTA
66 TCAAAGAGAATTAAAAACAATTGCTAGACCTTTTAAATTATTAAGTTGGTAACATTAACACACTA
*
58714939 AGGGACTATCATCCTTTTATCCTCTTTGATATCACATATTAAAAAGGAAAACCGGGATTATTCCT
131 AGGGACTATCATCCTTTTATCCTCTTTGATATCACATATTAAAAAGGAAAACCGGGACTATTCCT
* * *
58715004 TTATTAATGGAGAAGGCAAATGGAAAGTTAGAAAATAAATTATTTTTTTTCCAAAAGAATATTAA
196 TTATTAATGGAGAAGGCAAATGGAAAGTTAGAAAAGAAATTATATTCTTTCCAAAAGAATATTAA
*
58715069 TTTCCATGTCTTTTATATTTTGA
261 TTTCCATGCCTTTTATATTTTGA
58715092 CCGAAATTAA
Statistics
Matches: 267, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
287 7 0.03
288 260 0.97
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (287 bp):
AAAATGTCTCAGCCTCTACATAGTCCACCCAGTTAAAAACAAACAACCACTTTATTTTGAAATTT
TCAAAGAGAATTAAAAACAATTGCTAGACCTTTTAAATTATTAAGTTGGTAACATTAACACACTA
AGGGACTATCATCCTTTTATCCTCTTTGATATCACATATTAAAAAGGAAAACCGGGACTATTCCT
TTATTAATGGAGAAGGCAAATGGAAAGTTAGAAAAGAAATTATATTCTTTCCAAAAGAATATTAA
TTTCCATGCCTTTTATATTTTGAAAAT
Found at i:58731973 original size:26 final size:26
Alignment explanation
Indices: 58731933--58731983 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
58731923 ATCATTATTA
58731933 TTTTATATGTAAAATATTTCAAATAT
1 TTTTATATGTAAAATATTTCAAATAT
*
58731959 TTTTATATGTGAAATATTTCAAATA
1 TTTTATATGTAAAATATTTCAAATA
58731984 CACATACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (26 bp):
TTTTATATGTAAAATATTTCAAATAT
Found at i:58732711 original size:41 final size:43
Alignment explanation
Indices: 58732632--58732715 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 43
58732622 AATAAAAGAG
58732632 TTATTAATTAAAAATATGAATTAAAAAAATTGAAAACAATATAT
1 TTATTAATTAAAAATATGAA-TAAAAAAATTGAAAACAATATAT
58732676 TTATTAATTAAAAAT-T-AA-AAAAAAAGCTTG-AAACAATATA
1 TTATTAATTAAAAATATGAATAAAAAAA--TTGAAAACAATATA
58732716 AAAAAATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
40 7 0.18
41 10 0.26
42 5 0.13
43 1 0.03
44 15 0.39
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (43 bp):
TTATTAATTAAAAATATGAATAAAAAAATTGAAAACAATATAT
Found at i:58733289 original size:14 final size:14
Alignment explanation
Indices: 58733272--58733301 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58733262 GTTTGACCAA
*
58733272 AAGAATTCTTTTTC
1 AAGAATTCATTTTC
58733286 AAGAATTCATTTTC
1 AAGAATTCATTTTC
58733300 AA
1 AA
58733302 ACACATGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (14 bp):
AAGAATTCATTTTC
Found at i:58735242 original size:90 final size:90
Alignment explanation
Indices: 58735089--58735253 Score: 303
Period size: 90 Copynumber: 1.8 Consensus size: 90
58735079 ATATTTTAAT
*
58735089 ATTATTTTGTGTGTTTACTATGTGTGAATTTAATTGTATGAAATTTTCGTGTTTTAATTTCGTCG
1 ATTATTTTGTGTGTTTACTATGTGTGAATTTAATTGTATGAAATTTTCATGTTTTAATTTCGTCG
58735154 TTTGAGTGTCCGATTAAATAAAAGG
66 TTTGAGTGTCCGATTAAATAAAAGG
* *
58735179 ATTATTTTGTGTGTTTATTATGTGTGAATTTAATTTTATGAAATTTTCATGTTTTAATTTCGTCG
1 ATTATTTTGTGTGTTTACTATGTGTGAATTTAATTGTATGAAATTTTCATGTTTTAATTTCGTCG
58735244 TTTGAGTGTC
66 TTTGAGTGTC
58735254 TATTATGTGT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.24, C:0.06, G:0.19, T:0.52
Consensus pattern (90 bp):
ATTATTTTGTGTGTTTACTATGTGTGAATTTAATTGTATGAAATTTTCATGTTTTAATTTCGTCG
TTTGAGTGTCCGATTAAATAAAAGG
Found at i:58735267 original size:60 final size:60
Alignment explanation
Indices: 58735184--58735313 Score: 215
Period size: 60 Copynumber: 2.2 Consensus size: 60
58735174 AAAGGATTAT
* * * *
58735184 TTTGTGTGTTTATTATGTGTGAATTTAATTTTATGAAATTTTCATGTTTTAATTTCGTCG
1 TTTGAGTGTCTATTATGTGTGAATTTAATTGTATGAAATTTTCATGTTTTAATTTCGTCA
*
58735244 TTTGAGTGTCTATTATGTGTGAATTTAATTGTATGAAATTTTCGTGTTTTAATTTCGTCA
1 TTTGAGTGTCTATTATGTGTGAATTTAATTGTATGAAATTTTCATGTTTTAATTTCGTCA
58735304 TTTGAGTGTC
1 TTTGAGTGTC
58735314 CGATTAAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.22, C:0.06, G:0.18, T:0.54
Consensus pattern (60 bp):
TTTGAGTGTCTATTATGTGTGAATTTAATTGTATGAAATTTTCATGTTTTAATTTCGTCA
Found at i:58737186 original size:66 final size:66
Alignment explanation
Indices: 58737080--58737212 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
58737070 ATCTCGGTAT
58737080 TAAAACGTTTAAATTTTAACTTATGACATGTATAGGCTAAATAAAATTTTGGGAGTCGTACTTTA
1 TAAAACGTTTAAATTTTAACTTATGACATGTATAGGCTAAATAAAATTTTGGGAGTCGTACTTTA
58737145 A
66 A
*
58737146 TAAAACGTTTAAATTTTAACTTATGGCATGTATAGGCTAAATAAAATTTTGGGAGTCGTACTTTA
1 TAAAACGTTTAAATTTTAACTTATGACATGTATAGGCTAAATAAAATTTTGGGAGTCGTACTTTA
58737211 A
66 A
58737212 T
1 T
58737213 GTACTGTATA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (66 bp):
TAAAACGTTTAAATTTTAACTTATGACATGTATAGGCTAAATAAAATTTTGGGAGTCGTACTTTA
A
Found at i:58744257 original size:41 final size:41
Alignment explanation
Indices: 58744200--58744308 Score: 191
Period size: 41 Copynumber: 2.6 Consensus size: 41
58744190 GACTATACGT
*
58744200 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
58744241 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
58744282 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
58744309 TTAAATTAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 60 0.92
42 5 0.08
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:58749894 original size:14 final size:15
Alignment explanation
Indices: 58749872--58749906 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
58749862 AATCATGCTA
*
58749872 TAAATAAAT-TTTTT
1 TAAAAAAATATTTTT
58749886 TAAAAAAATATTTTT
1 TAAAAAAATATTTTT
58749901 TAAAAA
1 TAAAAA
58749907 TAAATTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAAAAAATATTTTT
Found at i:58750021 original size:22 final size:22
Alignment explanation
Indices: 58749991--58750034 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
58749981 TACACCAAAA
* *
58749991 TAGGTCTTTAGCGGCGTTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
58750013 TAGGCCTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
58750035 AACGCCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:58750172 original size:43 final size:42
Alignment explanation
Indices: 58750124--58750371 Score: 417
Period size: 42 Copynumber: 5.9 Consensus size: 42
58750114 GCGTTTACAA
58750124 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
58750166 AAAAAAAACGCCGCTAAAGACCATATTCTTTAGCGGCGCTTAG
1 -AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
58750209 AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
58750251 AAAAAAAACGCCGCTAAAGACCATATTCTTTAGCGGCGCTTAG
1 -AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
58750294 AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
58750336 AAAAAAACGCCGCTAAAGATCATGTT-TTGTAGCGGC
1 AAAAAAACGCCGCTAAAGACCATGTTCTT-TAGCGGC
58750372 ATTTTTATAC
Statistics
Matches: 194, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
41 2 0.01
42 111 0.57
43 81 0.42
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
Found at i:58750225 original size:85 final size:85
Alignment explanation
Indices: 58750124--58750371 Score: 446
Period size: 85 Copynumber: 2.9 Consensus size: 85
58750114 GCGTTTACAA
*
58750124 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCA
1 AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCA
58750189 TATTCTTTAGCGGCGCTTAG
66 TATTCTTTAGCGGCGCTTAG
58750209 AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCA
1 AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCA
58750274 TATTCTTTAGCGGCGCTTAG
66 TATTCTTTAGCGGCGCTTAG
*
58750294 AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCA
1 AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCA
*
58750358 TGTT-TTGTAGCGGC
66 TATTCTT-TAGCGGC
58750372 ATTTTTATAC
Statistics
Matches: 159, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
83 2 0.01
84 31 0.19
85 126 0.79
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (85 bp):
AAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCA
TATTCTTTAGCGGCGCTTAG
Found at i:58756150 original size:9 final size:9
Alignment explanation
Indices: 58756132--58756365 Score: 204
Period size: 9 Copynumber: 25.8 Consensus size: 9
58756122 TGATATATTT
58756132 TTATGTAAG
1 TTATGTAAG
*
58756141 TTATGCAAG
1 TTATGTAAG
*
58756150 TTTATGTATG
1 -TTATGTAAG
58756160 TTATGTAAG
1 TTATGTAAG
*
58756169 TTACT-TAAT
1 TTA-TGTAAG
58756178 TTATGTAAG
1 TTATGTAAG
*
58756187 TTATGGAAG
1 TTATGTAAG
* *
58756196 TTATTTAAT
1 TTATGTAAG
*
58756205 TTATGTAGG
1 TTATGTAAG
58756214 TTATGTAAG
1 TTATGTAAG
* *
58756223 TTATTTAAT
1 TTATGTAAG
*
58756232 TTATGCAAG
1 TTATGTAAG
*
58756241 TTTATGTATG
1 -TTATGTAAG
*
58756251 TTATGTAGG
1 TTATGTAAG
*
58756260 TTACT-TAAT
1 TTA-TGTAAG
58756269 TTATGTAAG
1 TTATGTAAG
58756278 TTATGTAAG
1 TTATGTAAG
* *
58756287 TTATTTAAT
1 TTATGTAAG
*
58756296 TTATGTAGG
1 TTATGTAAG
58756305 TTATGTAAG
1 TTATGTAAG
*
58756314 TTATGTAAC
1 TTATGTAAG
* *
58756323 TTATTTAAT
1 TTATGTAAG
58756332 TTAT-TCAAG
1 TTATGT-AAG
58756341 TTATGTAAG
1 TTATGTAAG
* * *
58756350 TAATTTAAT
1 TTATGTAAG
58756359 TTATGTA
1 TTATGTA
58756366 TAATCTTGTA
Statistics
Matches: 177, Mismatches: 40, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
8 3 0.02
9 157 0.89
10 17 0.10
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.50
Consensus pattern (9 bp):
TTATGTAAG
Found at i:58759234 original size:25 final size:26
Alignment explanation
Indices: 58759203--58759254 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
58759193 TATCGTAAAC
*
58759203 ATTAACCATAAATCTTAAACCC-TAA
1 ATTAACCATAAATATTAAACCCGTAA
58759228 ATTAACCATAAATATTAAACCCGTAA
1 ATTAACCATAAATATTAAACCCGTAA
58759254 A
1 A
58759255 CCACAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (26 bp):
ATTAACCATAAATATTAAACCCGTAA
Found at i:58760264 original size:114 final size:114
Alignment explanation
Indices: 58760013--58760803 Score: 1348
Period size: 114 Copynumber: 6.9 Consensus size: 114
58760003 TAATAATGTG
* *
58760013 CTTCAGCGGCGTTTTTATAGAAACGCCACCAATTCTACTATACCTCAATTTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
58760078 TGTTTAACATTTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACA-TTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
* * *
58760128 CTTCAGCGGCATTTTTACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* *
58760193 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTATTTATCCA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
58760242 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* *
58760307 TGTTTAACATTTTTTGCGGCGCTTACAAGCAAACGCTGCTAATGATCCA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
* * *
58760356 CTTTAGCGGCGTTTTGACAGAAACGCCACCAATTCTACTATACCTCAATCCTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* * *
58760421 TCTTTAACATTTTTTGCGGCGCTTACAAACAAATGCCGCTAATGATACA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
* *
58760470 CTTCAGCGGCGTTTTGACAGAAACGCCACCAATTCTACTATACCTCAATCCTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* * *
58760535 TCTTTAACATTTTTTGCGGCGCTTACAAACAAATGCCGCTAATGATACA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
*
58760584 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTACGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
*
58760649 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACACCGCTAATGATCCA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
58760698 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* * *
58760763 TGTTTAATATTGTTTGCGGCGCTTACAAACAAACGCTGCTA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTA
58760804 CTGCCGCTAT
Statistics
Matches: 641, Mismatches: 35, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
114 572 0.89
115 69 0.11
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (114 bp):
CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
Found at i:58762866 original size:29 final size:30
Alignment explanation
Indices: 58762834--58762892 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
58762824 TATAGTTTAA
*
58762834 TGTGCAATTGTAAACATG-AATTTTTATTT
1 TGTGCAATTGTAAACATGAAATTTTGATTT
* *
58762863 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTAAACATGAAATTTTGATTT
58762893 GATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTAAACATGAAATTTTGATTT
Found at i:58765558 original size:20 final size:20
Alignment explanation
Indices: 58765535--58765575 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
58765525 AATTAAACCG
58765535 AGCTCAAACGAGCTAAATTA
1 AGCTCAAACGAGCTAAATTA
***
58765555 AGCTCATGTGAGCTAAATTA
1 AGCTCAAACGAGCTAAATTA
58765575 A
1 A
58765576 AATTAGGTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (20 bp):
AGCTCAAACGAGCTAAATTA
Found at i:58767493 original size:13 final size:12
Alignment explanation
Indices: 58767443--58767494 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 12
58767433 ATTCTTTTTT
58767443 TTTCTTTTTC-A
1 TTTCTTTTTCAA
*
58767454 TTTC--CTTCAA
1 TTTCTTTTTCAA
58767464 TTTC--TTTCAA
1 TTTCTTTTTCAA
58767474 TTTCTTTTTCAA
1 TTTCTTTTTCAA
58767486 TGTTCTTTT
1 T-TTCTTTT
58767495 CTTGCTCACA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 14 0.40
11 4 0.11
12 7 0.20
13 7 0.20
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:58768534 original size:33 final size:33
Alignment explanation
Indices: 58768491--58768557 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
58768481 AACTTCACTC
* *
58768491 TTTTTAAATTTTTTTTTGAATTTCCTCTTTTTT
1 TTTTTAAATTTCTTTTCGAATTTCCTCTTTTTT
* * *
58768524 TTTTTGAATTTCTTTTCGAATTTCTTGTTTTTT
1 TTTTTAAATTTCTTTTCGAATTTCCTCTTTTTT
58768557 T
1 T
58768558 CAAAATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.13, C:0.09, G:0.06, T:0.72
Consensus pattern (33 bp):
TTTTTAAATTTCTTTTCGAATTTCCTCTTTTTT
Found at i:58772814 original size:22 final size:22
Alignment explanation
Indices: 58772775--58772817 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
58772765 TGGAAATTGA
58772775 GTAATTTTTAAAGTTAGGTAAGG
1 GTAATTTTTAAAG-TAGGTAAGG
58772798 GTAATTTTGTAAA-TAGGTAA
1 GTAATTTT-TAAAGTAGGTAA
58772818 AAAGGTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (22 bp):
GTAATTTTTAAAGTAGGTAAGG
Found at i:58773766 original size:25 final size:24
Alignment explanation
Indices: 58773721--58773782 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
58773711 TTCCAACTCT
*
58773721 TATGAGCTTACTGATACTCAGCTCG
1 TATGAGCTTAC-CATACTCAGCTCG
*
58773746 TATGAGCTTACCATTATTCAGCTCG
1 TATGAGCTTACCA-TACTCAGCTCG
* *
58773771 GAGGAGCTTACC
1 TATGAGCTTACC
58773783 CGGAAGAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (24 bp):
TATGAGCTTACCATACTCAGCTCG
Found at i:58774024 original size:25 final size:25
Alignment explanation
Indices: 58773985--58774034 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
58773975 ATGATGGTAC
* *
58773985 ATGATATATTGATATATTGTAATGG
1 ATGATATATTGATATAATGAAATGG
58774010 ATGATATA-TGTATATAATGAAATGG
1 ATGATATATTG-ATATAATGAAATGG
58774035 TAAGATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (25 bp):
ATGATATATTGATATAATGAAATGG
Found at i:58790734 original size:21 final size:21
Alignment explanation
Indices: 58790709--58790759 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
58790699 CCCCTATCAG
*
58790709 TCAACTCTTGCAAAACT-ATT
1 TCAACTCTTGAAAAACTGATT
*
58790729 TCCAACTCTTGAAAAACTGCTT
1 T-CAACTCTTGAAAAACTGATT
58790751 TCAACTCTT
1 TCAACTCTT
58790760 TTAACTCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (21 bp):
TCAACTCTTGAAAAACTGATT
Found at i:58793324 original size:27 final size:25
Alignment explanation
Indices: 58793280--58793329 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
58793270 TGCAATCACA
*
58793280 ATTTTGTTTTTATTTTATTTTATAT
1 ATTTTGTTTTTATTTTATCTTATAT
*
58793305 ATTTTTTTATTTATTATTATCTTAT
1 ATTTTGTT-TTTATT-TTATCTTAT
58793330 TAAACTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 6 0.29
27 8 0.38
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (25 bp):
ATTTTGTTTTTATTTTATCTTATAT
Found at i:58794176 original size:22 final size:24
Alignment explanation
Indices: 58794148--58794191 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
58794138 ATTTTGTTCA
58794148 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
58794170 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
58794192 CTTATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:58794310 original size:32 final size:33
Alignment explanation
Indices: 58794274--58794336 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
58794264 TAATAAATTT
*
58794274 CTCCCCTTA-ATAAAATTCATCTTCAATTTAGG
1 CTCCCCCTATATAAAATTCATCTTCAATTTAGG
*
58794306 CTCCCCCTATATAAAATTCATTTTCAATTTA
1 CTCCCCCTATATAAAATTCATCTTCAATTTA
58794337 AAGCTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (33 bp):
CTCCCCCTATATAAAATTCATCTTCAATTTAGG
Found at i:58797339 original size:21 final size:21
Alignment explanation
Indices: 58797310--58797351 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58797300 AATACCTAGT
* *
58797310 AAAAAGTATCGATACTTTTTG
1 AAAAAGTATCAATAATTTTTG
*
58797331 AAAAGGTATCAATAATTTTTG
1 AAAAAGTATCAATAATTTTTG
58797352 TAAATCAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (21 bp):
AAAAAGTATCAATAATTTTTG
Found at i:58797592 original size:22 final size:23
Alignment explanation
Indices: 58797564--58797609 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
58797554 ATTTTGTTCA
58797564 ACTTTAACTT-TTAT-TCAAGAAC
1 ACTTTAACTTGTTATATCAA-AAC
*
58797586 ACTTTAATTTGTTATATCAAAAC
1 ACTTTAACTTGTTATATCAAAAC
58797609 A
1 A
58797610 TATTATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 8 0.38
24 4 0.19
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.41
Consensus pattern (23 bp):
ACTTTAACTTGTTATATCAAAAC
Found at i:58799850 original size:9 final size:9
Alignment explanation
Indices: 58799836--58799878 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
58799826 TATAGTTTGA
58799836 TATTCGAAT
1 TATTCGAAT
58799845 TATTCGAAT
1 TATTCGAAT
58799854 TATTCG-A-
1 TATTCGAAT
58799861 -ATTCGAAT
1 TATTCGAAT
58799869 TATTCGAAT
1 TATTCGAAT
58799878 T
1 T
58799879 CGAAAAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 5 0.16
7 1 0.03
8 1 0.03
9 24 0.77
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:58799866 original size:15 final size:15
Alignment explanation
Indices: 58799846--58799882 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
58799836 TATTCGAATT
58799846 ATTCGAATTATTCGA
1 ATTCGAATTATTCGA
58799861 ATTCGAATTATTCGA
1 ATTCGAATTATTCGA
58799876 ATTCGAA
1 ATTCGAA
58799883 AAATCAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
ATTCGAATTATTCGA
Found at i:58808596 original size:37 final size:36
Alignment explanation
Indices: 58808554--58808627 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
58808544 ATTTTACACT
**
58808554 AATATTTCATATAT-TTTATAATTAAAATTTAATTAAA
1 AATATTT-ATATATATAAATAATT-AAATTTAATTAAA
* *
58808591 AATATTTTTATATATAAATAATTTAATTTAATTAAA
1 AATATTTATATATATAAATAATTAAATTTAATTAAA
58808627 A
1 A
58808628 TTGTTTGTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 18 0.56
37 14 0.44
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
AATATTTATATATATAAATAATTAAATTTAATTAAA
Found at i:58814438 original size:13 final size:13
Alignment explanation
Indices: 58814406--58814438 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58814396 CCTGACTTGG
*
58814406 GCCACATGGCCTA
1 GCCACATGGCCAA
58814419 G-CACATGGCCAA
1 GCCACATGGCCAA
58814431 GCCACATG
1 GCCACATG
58814439 CCCGTGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.27, C:0.36, G:0.24, T:0.12
Consensus pattern (13 bp):
GCCACATGGCCAA
Found at i:58815503 original size:25 final size:25
Alignment explanation
Indices: 58815475--58815548 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
58815465 TAAGCTTCTC
* * *
58815475 CGAGCTAAATAACAGAAAGCTCATG
1 CGAGCTGAATAACGGGAAGCTCATG
*
58815500 CGAGTTGAATAACGGGAAGCTCATG
1 CGAGCTGAATAACGGGAAGCTCATG
*
58815525 CAAGCTGAATAACGGGAAGCTCAT
1 CGAGCTGAATAACGGGAAGCTCAT
58815549 AAGAGCTGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.18
Consensus pattern (25 bp):
CGAGCTGAATAACGGGAAGCTCATG
Found at i:58818884 original size:20 final size:20
Alignment explanation
Indices: 58818861--58818899 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
58818851 AAACAATATA
58818861 TAAAAAAAATCATTTACAAT
1 TAAAAAAAATCATTTACAAT
*
58818881 TAAAATAAATCATTTACAA
1 TAAAAAAAATCATTTACAA
58818900 AGCAAGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAAAAATCATTTACAAT
Found at i:58820209 original size:208 final size:208
Alignment explanation
Indices: 58819851--58820476 Score: 1225
Period size: 208 Copynumber: 3.0 Consensus size: 208
58819841 TTGAATGAGT
58819851 GTCCGTAAAAAAATTACAAAGTTTTAGCCTTTTGTTTTATAGGCTGGAAAAAATAAAGATAAAAC
1 GTCCGTAAAAAAATTACAAAGTTTTAGCCTTTTGTTTTATAGGCTGGAAAAAATAAAGATAAAAC
58819916 AACATCAAAAAATGAAATACAATTTTTCTCCTTTCTGCTGCGTTGTTTGGCTCTATTTGCAGGTA
66 AACATCAAAAAATGAAATACAATTTTTCTCCTTTCTGCTGCGTTGTTTGGCTCTATTTGCAGGTA
58819981 CGACGTACGGCGAGGGATGTGGTGTGTACGGAGGTGCAGACGTGGCATGTACGGAGGTGTGCGTG
131 CGACGTACGGCGAGGGATGTGGTGTGTACGGAGGTGCAGACGTGGCATGTACGGAGGTGTGCGTG
58820046 GCTGGGGAGAGCG
196 GCTGGGGAGAGCG
58820059 GTCCGTAAAAAAATTACAAAGTTTTAGCCTTTTGTTTTATAGGCTGGAAAAAATAAAGATAAAAC
1 GTCCGTAAAAAAATTACAAAGTTTTAGCCTTTTGTTTTATAGGCTGGAAAAAATAAAGATAAAAC
58820124 AACATCAAAAAATGAAATACAATTTTTCTCCTTTCTGCTGCGTTGTTTGGCTCTATTTGCAGGTA
66 AACATCAAAAAATGAAATACAATTTTTCTCCTTTCTGCTGCGTTGTTTGGCTCTATTTGCAGGTA
58820189 CGACGTACGGCGAGGGATGTGGTGTGTACGGAGGTGCAGACGTGGCATGTACGGAGGTGTGCGTG
131 CGACGTACGGCGAGGGATGTGGTGTGTACGGAGGTGCAGACGTGGCATGTACGGAGGTGTGCGTG
58820254 GCTGGGGAGAGCG
196 GCTGGGGAGAGCG
58820267 GTCCGTAAAAAAATTACAAAGTTTTAGCCTTTTGTTTTATAGGCTGGAAAAAATAAAGATAAAAC
1 GTCCGTAAAAAAATTACAAAGTTTTAGCCTTTTGTTTTATAGGCTGGAAAAAATAAAGATAAAAC
58820332 AACATCAAAAAATGAAATACAATTTTTCTCCTTTCTGCTGCGTTGTTTGGCTCTATTTGCAGGTA
66 AACATCAAAAAATGAAATACAATTTTTCTCCTTTCTGCTGCGTTGTTTGGCTCTATTTGCAGGTA
* * *
58820397 CGACGTACGGCGAGGGACGTGGCGTGTACGGAGGCGCAGACGTGGCATGTACGGAGGTGTGCGTG
131 CGACGTACGGCGAGGGATGTGGTGTGTACGGAGGTGCAGACGTGGCATGTACGGAGGTGTGCGTG
58820462 GCTGGGGAGAGCG
196 GCTGGGGAGAGCG
58820475 GT
1 GT
58820477 GCTGGAGGTC
Statistics
Matches: 415, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
208 415 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (208 bp):
GTCCGTAAAAAAATTACAAAGTTTTAGCCTTTTGTTTTATAGGCTGGAAAAAATAAAGATAAAAC
AACATCAAAAAATGAAATACAATTTTTCTCCTTTCTGCTGCGTTGTTTGGCTCTATTTGCAGGTA
CGACGTACGGCGAGGGATGTGGTGTGTACGGAGGTGCAGACGTGGCATGTACGGAGGTGTGCGTG
GCTGGGGAGAGCG
Found at i:58821194 original size:50 final size:50
Alignment explanation
Indices: 58821133--58821296 Score: 184
Period size: 50 Copynumber: 3.3 Consensus size: 50
58821123 TGCACCGCCT
* *
58821133 GGGAAGTAAGATTCACCGTTGTAGCTTTAATTTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
** * * ** * * *
58821183 GGGAAGCAAGATTTGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCT
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
** * * *
58821233 GCAAAGTAAGATTTACCGTTGTAGCTTTAATCTTTTTAACTACAATGTCG
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
58821283 GGGAAGCAAGATTC
1 GGGAAGCAAGATTC
58821297 GTTATTCTCA
Statistics
Matches: 87, Mismatches: 27, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 87 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
Found at i:58821210 original size:99 final size:100
Alignment explanation
Indices: 58821041--58821295 Score: 351
Period size: 100 Copynumber: 2.6 Consensus size: 100
58821031 TAACTTTTGG
* * * * *
58821041 AAAGTAAGATTCGCCATTGTAGCTTCAATATTTTTAACCGC-A----GGGGAAGCAAGATTTGTC
1 AAAGTAAGATTCACCGTTGTAGCTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGATTTGCC
*
58821101 GTTGTGGCTTTAATATG-TCCACTGCACCGCCTGG
66 GTTGTGGCTTTAATATGTTCCACTGCACCGCCTGC
* *
58821135 GAAGTAAGATTCACCGTTGTAGCTTTAATTTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGCC
1 AAAGTAAGATTCACCGTTGTAGCTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGATTTGCC
* *
58821200 GTTGTGGCTTTAATCTGTTCCACTGCACTGCCTGC
66 GTTGTGGCTTTAATATGTTCCACTGCACCGCCTGC
* * *
58821235 AAAGTAAGATTTACCGTTGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATT
1 AAAGTAAGATTCACCGTTGTAGCTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGATT
58821296 CGTTATTCTC
Statistics
Matches: 141, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
94 35 0.25
95 1 0.01
99 33 0.23
100 72 0.51
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (100 bp):
AAAGTAAGATTCACCGTTGTAGCTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGATTTGCC
GTTGTGGCTTTAATATGTTCCACTGCACCGCCTGC
Found at i:58821464 original size:85 final size:85
Alignment explanation
Indices: 58821355--58821638 Score: 250
Period size: 85 Copynumber: 3.3 Consensus size: 85
58821345 TTCTCAGTCT
* * *
58821355 GCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGAGCTACTCTAATGCAACTTCAGAGAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACCTGATGCGAGCTACTCTACTGCAACTTCAGAGAGAT
58821420 AAGATCTTTTATTTTAATCC
66 AAGATCTTTTATTTTAATCC
* ** * * * * * * *
58821440 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATG-TACTCCACTGTAAC-CCTAGG
1 GCTCCACTGCAACTTCAGGGAGATAAGA--CCT-GATGCGA-GCTACTCTACTGCAACTTC-AGA
* * *** * * *
58821503 GAGGTAAAAT-TCGCCATCTTCAGTCT
61 GAGATAAGATCT-TTTAT-TTTAATCC
* * *
58821529 GCCCCACTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTTAGAGAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACCTGATGCGAGCTACTCTACTGCAACTTCAGAGAGAT
58821594 AAGATCTTTTATTTTAATCC
66 AAGATCTTTTATTTTAATCC
* *
58821614 GCTCTACTGCAACTTTAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
58821639 GGATTAGTGG
Statistics
Matches: 144, Mismatches: 45, Indels: 20
0.69 0.22 0.10
Matches are distributed among these distances:
85 52 0.36
86 28 0.19
87 5 0.03
88 27 0.19
89 32 0.22
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (85 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACCTGATGCGAGCTACTCTACTGCAACTTCAGAGAGAT
AAGATCTTTTATTTTAATCC
Found at i:58821548 original size:89 final size:89
Alignment explanation
Indices: 58821443--58821727 Score: 240
Period size: 89 Copynumber: 3.2 Consensus size: 89
58821433 TTAATCCGCT
58821443 CCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCCACTGTAACCCTAGGGAGGT
1 CCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCCACTGTAACCCTAGGGAGGT
58821508 AAAATTCGCCATCTTCAGTCTGCC
66 AAAATTCGCCATCTTCAGTCTGCC
* ** * * * * * * ** * *
58821532 CCACTGCAACTTCAGGGAGATAAGA--CCT-GATGCGATCTACTCTACTGCAACTTTAGAGAGAT
1 CCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCCACTGTAACCCTAGGGAGGT
* *** * * * *
58821594 AAGA-TCTTTTAT-TTTAATCCGCT
66 AAAATTC-GCCATCTTCAGTCTGCC
* * * *
58821617 CTACTGCAACTTTAGGGAGATAGGATTAGTGGCTTCAATGTATTCCACTATAA-CCTCAGGGAGG
1 CCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCCACTGTAACCCT-AGGGAGG
* * *
58821681 TAAAATCCGCCATCTTCTGTCTACC
65 TAAAATTCGCCATCTTCAGTCTGCC
* *
58821706 CCACTGCAACTTTAGGGGGATA
1 CCACTGCAACTTCAGGGAGATA
58821728 AGACTTGCTT
Statistics
Matches: 138, Mismatches: 51, Indels: 14
0.68 0.25 0.07
Matches are distributed among these distances:
85 31 0.22
86 29 0.21
87 3 0.02
88 25 0.18
89 50 0.36
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (89 bp):
CCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCCACTGTAACCCTAGGGAGGT
AAAATTCGCCATCTTCAGTCTGCC
Found at i:58821557 original size:174 final size:174
Alignment explanation
Indices: 58821348--58821731 Score: 617
Period size: 174 Copynumber: 2.2 Consensus size: 174
58821338 ACTTGTTTTC
* * *
58821348 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGAGCTACTCTAATGCAACTTCA
1 TCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACCTGATGCGAGCTACTCTAATGCAACTTCA
58821413 GAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTT
66 GAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTT
* *
58821478 CAATGTACTCCACTGTAACC-CTAGGGAGGTAAAATTCGCCATCT
131 CAATGTACTCCACTATAACCTC-AGGGAGGTAAAATCCGCCATCT
* * *
58821522 TCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTTA
1 TCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACCTGATGCGAGCTACTCTAATGCAACTTCA
* *
58821587 GAGAGATAAGATCTTTTATTTTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAGTGGCTT
66 GAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTT
*
58821652 CAATGTATTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCT
131 CAATGTACTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCT
* * * *
58821696 TCTGTCTACCCCACTGCAACTTTAGGGGGATAAGAC
1 TCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGAC
58821732 TTGCTTACTC
Statistics
Matches: 194, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
174 193 0.99
175 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (174 bp):
TCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACCTGATGCGAGCTACTCTAATGCAACTTCA
GAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTT
CAATGTACTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCT
Found at i:58821785 original size:218 final size:218
Alignment explanation
Indices: 58821522--58822362 Score: 1222
Period size: 218 Copynumber: 3.9 Consensus size: 218
58821512 TTCGCCATCT
* * * *
58821522 TCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTTA
1 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
* * *
58821587 GAGAGATAAGATCTTTTATTTTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAGTGGCTT
66 GAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTAGTGGCTT
* * * *
58821652 CAATGTATTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCTTCTGTCTACCCCACTGCAACT
131 CAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCATCTTCAGTCTGCCCCACTGCAACT
* *
58821717 TTAGGGGGATAAGACTTGCTTAC
196 TCAGGGGGATAAGACCTGCTTAC
* *
58821740 TCAGTTTGCTCTGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
1 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
*
58821805 GAGAGATAAGATCTTTTATTTTAATCCG--CCGCTGCAACCTCAGGGAGATAGGATTAGTGGCTT
66 GAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTAGTGGCTT
* *
58821868 CAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGTCATCTTCAGTCTGCCCCACTGCAACC
131 CAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCATCTTCAGTCTGCCCCACTGCAACT
*
58821933 TCAGGGGGATAAAACCTGCTTAC
196 TCAGGGGGATAAGACCTGCTTAC
58821956 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
1 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
* * * * * *
58822021 GAAAGATAAGATCTTTTATTTTAATCTGTTCCGCTACAACCTCAAGGAGATAGGATTAGTGGCTT
66 GAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTAGTGGCTT
* * *
58822086 CAATGTATTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCAGTCTGCCCCACTGCAACT
131 CAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCATCTTCAGTCTGCCCCACTGCAACT
*
58822151 TCAGAGGGATAAGACCTGCTTAC
196 TCAGGGGGATAAGACCTGCTTAC
58822174 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
1 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
* ** * * * * *
58822239 GATAGATAAGATCCATTATTTTTATCTGCTCCACTGCAACTTAAGGGATATAGGATTA-TGGGCT
66 GAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTAGT-GGCT
* * ** * * * * *
58822303 TCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATTTTC-GATCTGCTCCACT
130 TCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCATCTTCAG-TCTGCCCCACT
58822363 ACTGCTTAGG
Statistics
Matches: 566, Mismatches: 53, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
216 199 0.35
217 2 0.00
218 365 0.64
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (218 bp):
TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
GAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTAGTGGCTT
CAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCATCTTCAGTCTGCCCCACTGCAACT
TCAGGGGGATAAGACCTGCTTAC
Found at i:58821795 original size:174 final size:174
Alignment explanation
Indices: 58821361--58821812 Score: 498
Period size: 174 Copynumber: 2.6 Consensus size: 174
58821351 GTCTGCTCCG
* * * * * *
58821361 CTGCAACCTCAGGGAGATAAGACCTGATGCGAGCTACTCTAATGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTCAGGGAGATAAGACCTGATACCATCTACTCTACTGCAACCTCAGAGAGATAAGATC
* * ** * *
58821426 TTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCCAC
66 TCTGATTGCAATCCACTCTACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCCAC
* * *
58821491 TGTAACCCTAGGGAGGTAAAATTCGCCATCTTCAGTCTGCCCCA
131 TATAACCCTAGGGAGGTAAAATCCGCCATCTTCAGTCTACCCCA
* * * *
58821535 CTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTTAGAGAGATAAGATC
1 CTGCAACTTCAGGGAGATAAGACCTGATACCATCTACTCTACTGCAACCTCAGAGAGATAAGATC
* * ** * * *
58821600 TTTTATTTTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAGTGGCTTCAATGTATTCCAC
66 TCTGATTGCAATCCACTCTACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCCAC
*
58821665 TATAA-CCTCAGGGAGGTAAAATCCGCCATCTTCTGTCTACCCCA
131 TATAACCCT-AGGGAGGTAAAATCCGCCATCTTCAGTCTACCCCA
* * * * * * * *
58821709 CTGCAACTTTAGGGGGATAAGACTTGCTTACTCAGTTTGCTCTGCTGCAACCTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAAGACCTG-ATAC-CA-TCTACTCTACTGCAACCTCAGAGAGATAAG
* * *
58821774 A-C-CTGA-TGCGATCTACTCTACTGCAACTTCAGAGAGATA
63 ATCTCTGATTGCAATCCACTCTACTGCAACTTCAGGGAGATA
58821813 AGATCTTTTA
Statistics
Matches: 242, Mismatches: 32, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
173 3 0.01
174 208 0.86
175 4 0.02
176 2 0.01
177 25 0.10
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (174 bp):
CTGCAACTTCAGGGAGATAAGACCTGATACCATCTACTCTACTGCAACCTCAGAGAGATAAGATC
TCTGATTGCAATCCACTCTACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCCAC
TATAACCCTAGGGAGGTAAAATCCGCCATCTTCAGTCTACCCCA
Found at i:58821933 original size:45 final size:45
Alignment explanation
Indices: 58821884--58821994 Score: 131
Period size: 44 Copynumber: 2.5 Consensus size: 45
58821874 ACTCCACTAT
*
58821884 AACCTCAGGGAGG-TAAAATCTGTCAT-CTTCAGTCTGCCCCACTGC
1 AACCTCAGGGAGGATAAAACCTG-CATAC-TCAGTCTGCCCCACTGC
* * *
58821929 AACCTCAGGG-GGATAAAACCTGCTTACTCAGTCTGCTCCGCTGC
1 AACCTCAGGGAGGATAAAACCTGCATACTCAGTCTGCCCCACTGC
*
58821973 AACCTCAGGGA-GATAAGACCTG
1 AACCTCAGGGAGGATAAAACCTG
58821995 ATGCGATCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
44 39 0.67
45 19 0.33
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (45 bp):
AACCTCAGGGAGGATAAAACCTGCATACTCAGTCTGCCCCACTGC
Found at i:58822249 original size:434 final size:435
Alignment explanation
Indices: 58821522--58822331 Score: 1264
Period size: 434 Copynumber: 1.9 Consensus size: 435
58821512 TTCGCCATCT
* *
58821522 TCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTTA
1 TCAGTCTGCCCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
* * * * * *
58821587 GAGAGATAAGATCTTTTATTTTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAGTGGCTT
66 GAAAGATAAGATCTTTTATTTTAATCCGCTCCACTACAACCTCAAGGAGATAGGATTAGTGGCTT
*
58821652 CAATGTATTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCTTCTGTCTACCCCACTGCAACT
131 CAATGTATTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCTTCAGTCTACCCCACTGCAACT
* * * * *
58821717 TTAGGGGGATAAGACTTGCTTACTCAGTTTGCTCTGCTGCAACCTCAGGGAGATAAGACCTGATG
196 TCAGAGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATG
** * *
58821782 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTTTTATTTTAATC-CGCCGCTGCAACCTC
261 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCATTATTTTAATCGCGCCACTGCAACCTA
* *
58821846 AGGGAGATAGGATTA-GTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGTCAT
326 AGGGAGATAGGATTATG-GGCTTCAATCTACTCCACTACAACCTCAGGGAGGTAAAATCTGTCAT
58821910 CTTCAGTCTGCCCCACTGCAACCTCAGGGGGATAAAACCTGCTTAC
390 CTTCAGTCTGCCCCACTGCAACCTCAGGGGGATAAAACCTGCTTAC
* *
58821956 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
1 TCAGTCTGCCCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
* * *
58822021 GAAAGATAAGATCTTTTATTTTAATCTGTTCCGCTACAACCTCAAGGAGATAGGATTAGTGGCTT
66 GAAAGATAAGATCTTTTATTTTAATCCGCTCCACTACAACCTCAAGGAGATAGGATTAGTGGCTT
* * * *
58822086 CAATGTATTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCAGTCTGCCCCACTGCAACT
131 CAATGTATTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCTTCAGTCTACCCCACTGCAACT
58822151 TCAGAGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATG
196 TCAGAGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATG
* * * *
58822216 CGATCTACTCTACTGCAACTTCAGATAGATAAGATCCATTATTTTTATCTGCTCCACTGCAACTT
261 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCATTATTTTAATC-GCGCCACTGCAACCT
* * *
58822281 AAGGGATATAGGATTATGGGCTTCAATCTGCTCCACTGCAACCTCAGGGAG
325 AAGGGAGATAGGATTATGGGCTTCAATCTACTCCACTACAACCTCAGGGAG
58822332 ATAAGATTTG
Statistics
Matches: 337, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
434 282 0.84
436 54 0.16
437 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (435 bp):
TCAGTCTGCCCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
GAAAGATAAGATCTTTTATTTTAATCCGCTCCACTACAACCTCAAGGAGATAGGATTAGTGGCTT
CAATGTATTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCTTCAGTCTACCCCACTGCAACT
TCAGAGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATG
CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCATTATTTTAATCGCGCCACTGCAACCTA
AGGGAGATAGGATTATGGGCTTCAATCTACTCCACTACAACCTCAGGGAGGTAAAATCTGTCATC
TTCAGTCTGCCCCACTGCAACCTCAGGGGGATAAAACCTGCTTAC
Found at i:58822381 original size:44 final size:44
Alignment explanation
Indices: 58822302--58822775 Score: 135
Period size: 44 Copynumber: 10.8 Consensus size: 44
58822292 GATTATGGGC
* ** *
58822302 TTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATT
1 TTCAATCTGCTCCACTAC-TGCTTAGGGAGATAAGATTTGCCATT
* * *
58822347 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT
1 TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATT
* * ** * * *
58822391 TCCAACCTATTCCACTGCTGAC-CAGGGAGAT-AGCACTTGTGGC---
1 TTCAATCTGCTCCACTACTG-CTTAGGGAGATAAG-A-TT-TGCCATT
* * * * *
58822434 TTAAATCTGCTTCC-CTACT-CCTAGGGAAGATAAGATTCGCCGTC
1 TTCAATCTGC-TCCACTACTGCTTAGGG-AGATAAGATTTGCCATT
* * **
58822478 TTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTT-TAATT
1 TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATT
* * ** * * * *
58822522 TCCAACCTATTCCACTGCTGAC-CAGGGAGATAATACTTGTGGC---
1 TTCAATCTGCTCCACTACTG-CTTAGGGAGATAAGA-TT-TGCCATT
* * * *
58822565 TTAAATCTGCTTCC-CTACT-CCTAGGGACGATAAGATTTGCCGTC
1 TTCAATCTGC-TCCACTACTGCTTAGGGA-GATAAGATTTGCCATT
* * * * *** *
58822609 TTCGATCTGCTCTACTACTGCTTAGGGAGATAAGGTCTATAATC
1 TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATT
* ** * *
58822653 TTCAACCTATTCCACTGCTG-TCCAGGGAGAT-AGAGTTTG---TT
1 TTCAATCTGCTCCACTACTGCT-TAGGGAGATAAGA-TTTGCCATT
* * ** *
58822694 GCTTAAATCTGCTTCC-CTACTCCTGGGGGAGATAAGATTCGCCATCT
1 --TTCAATCTGC-TCCACTACTGCTTAGGGAGATAAGATTTGCCAT-T
* *
58822741 TT-GATTTGCTCCACTACTGCTTAGGGAGATAAGAT
1 TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
58822776 CTGTAATTTC
Statistics
Matches: 301, Mismatches: 90, Indels: 77
0.64 0.19 0.16
Matches are distributed among these distances:
41 8 0.03
42 13 0.04
43 62 0.21
44 177 0.59
45 37 0.12
46 3 0.01
47 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (44 bp):
TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATT
Done.