Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 122 of 130
Found at i:24257463 original size:29 final size:30
Alignment explanation
Indices: 24257332--24257451 Score: 95
Period size: 30 Copynumber: 4.0 Consensus size: 30
24257322 ATGCATTATG
* * * *
24257332 TTAAAGATTTATTT-AGTTATATATTAAAAGT
1 TTAAAAATTTATTTGA-ATATAAATTAAAA-A
* *
24257363 TTAAAAACTTATTT-AGATATAAATTAAAGA
1 TTAAAAATTTATTTGA-ATATAAATTAAAAA
* * *
24257393 TCAAAGACTTATTTGAATATAAATTAAAAA
1 TTAAAAATTTATTTGAATATAAATTAAAAA
*
24257423 TTAAAAGTTTATTTGAATAT-AA-TAAAAA
1 TTAAAAATTTATTTGAATATAAATTAAAAA
24257451 T
1 T
24257452 ACAAATATTT
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
28 7 0.09
29 2 0.03
30 41 0.55
31 25 0.33
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (30 bp):
TTAAAAATTTATTTGAATATAAATTAAAAA
Found at i:24257601 original size:49 final size:49
Alignment explanation
Indices: 24257528--24257624 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
24257518 ACTAAAACAT
*
24257528 AGCATTAGTATTCATGCTTCTTTTGCCTACTAATTAAATTCTTGAAAAG
1 AGCATTAGAATTCATGCTTCTTTTGCCTACTAATTAAATTCTTGAAAAG
* * *
24257577 AGCATTAGAATTCATGC-TCTTTTTGCCTGCTGATTAAATTTTTGAAAA
1 AGCATTAGAATTCATGCTTC-TTTTGCCTACTAATTAAATTCTTGAAAA
24257625 TGTATATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 2 0.05
49 41 0.95
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (49 bp):
AGCATTAGAATTCATGCTTCTTTTGCCTACTAATTAAATTCTTGAAAAG
Found at i:24258124 original size:21 final size:24
Alignment explanation
Indices: 24258083--24258126 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
24258073 AGATGCATGC
24258083 TATTATTTGATCTGTTCTTCCTTT
1 TATTATTTGATCTGTTCTTCCTTT
24258107 TATT-TTTGATCT-TT-TTCCTT
1 TATTATTTGATCTGTTCTTCCTT
24258127 GCACTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 8 0.40
24 4 0.20
ACGTcount: A:0.11, C:0.16, G:0.07, T:0.66
Consensus pattern (24 bp):
TATTATTTGATCTGTTCTTCCTTT
Found at i:24262516 original size:2 final size:2
Alignment explanation
Indices: 24262504--24262533 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
24262494 TACGTGGGTG
*
24262504 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24262534 AAATATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:24262718 original size:17 final size:18
Alignment explanation
Indices: 24262691--24262726 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24262681 TATGTTAGCC
*
24262691 TTTTAAATTAATTTTTTA
1 TTTTAAATTAATATTTTA
24262709 TTTT-AATTAATATTTTA
1 TTTTAAATTAATATTTTA
24262726 T
1 T
24262727 CCAAGCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAATTAATATTTTA
Found at i:24268801 original size:3 final size:3
Alignment explanation
Indices: 24268795--24268819 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24268785 CGAACTCAAT
24268795 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
24268820 ACAGAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:24269623 original size:2 final size:2
Alignment explanation
Indices: 24269616--24269647 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24269606 CGATAATGAC
24269616 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24269648 AACAATACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24277735 original size:20 final size:21
Alignment explanation
Indices: 24277679--24277752 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 21
24277669 TTATAAAATA
24277679 AAAATAAT-TATTTTATATAT
1 AAAATAATATATTTTATATAT
* *
24277699 AAATATAATAAAATTTATAT-T
1 AAA-ATAATATATTTTATATAT
* * *
24277720 TAAATAATATATTTTA-AAAA
1 AAAATAATATATTTTATATAT
*
24277740 AAAATGATATATT
1 AAAATAATATATT
24277753 GAACCAATAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 1 0.02
20 25 0.60
21 8 0.19
22 8 0.19
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (21 bp):
AAAATAATATATTTTATATAT
Found at i:24279432 original size:25 final size:25
Alignment explanation
Indices: 24279404--24279452 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
24279394 TTTAATTTTA
24279404 ATTTTAATTTT-TAGATTTAGTTTGC
1 ATTTTAATTTTGT-GATTTAGTTTGC
*
24279429 ATTTTAATTTTGTGATTTATTTTG
1 ATTTTAATTTTGTGATTTAGTTTG
24279453 ATTAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (25 bp):
ATTTTAATTTTGTGATTTAGTTTGC
Found at i:24281909 original size:58 final size:58
Alignment explanation
Indices: 24281839--24282195 Score: 398
Period size: 61 Copynumber: 6.0 Consensus size: 58
24281829 TCTTGTGTAG
24281839 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATCATTTTTTTG-AAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTGAAAATTTATTTTTAA
* * *
24281897 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTTTGAAAATTTACTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTTGAAAATTTATTTTTAA
* * * *
24281958 AAAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTCTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAA---ATTTAT-TTTTAA
* *
24282020 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTTGATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAA-TTT-ATTTTTAA
** ** ***
24282079 GGGAAATTGATACTTTCAACTTTTCTTCAAAAA-CCCTTTTTG-AAATTTATTTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTA-TTTTTAA
* *
24282136 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTAGAAAATTTGATTTTTA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTT-GAAAATTT-ATTTTTA
24282196 TTTAAAGAAA
Statistics
Matches: 253, Mismatches: 29, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
56 1 0.00
57 39 0.15
58 47 0.19
59 49 0.19
60 10 0.04
61 69 0.27
62 38 0.15
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:24282176 original size:57 final size:57
Alignment explanation
Indices: 24281841--24282176 Score: 367
Period size: 57 Copynumber: 5.7 Consensus size: 57
24281831 TTGTGTAGGA
* *
24281841 AAAATTGATACTTTCAACTTTTCCCCAAAAATCATTTTTTTGAAATTTA-TTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAAT-A-TTTTTTGAAATTTATTTTTTAAGG
* * **
24281899 AAAATTGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTTTTGAAAATTTA-CTTTTAAAA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA----TATTTTTTG-AAATTTATTTTTTAAGG
* *
24281960 AAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTCTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT-GAAATTTA---TT-TTTTAAGG
24282022 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTT-TGATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTG-AAATTTAT--TTTTTAAGG
* * ***
24282081 GAAATTGATACTTTCAACTTTT-CTTCAAAAACCCTTTTTGAAATTTATTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTGAAATTTATTTTTTAAGG
24282138 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
24282177 TTAGAAAATT
Statistics
Matches: 237, Mismatches: 22, Indels: 39
0.80 0.07 0.13
Matches are distributed among these distances:
57 56 0.24
58 39 0.16
59 41 0.17
60 8 0.03
61 41 0.17
62 52 0.22
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTTTTAAGG
Found at i:24282217 original size:11 final size:10
Alignment explanation
Indices: 24282210--24282274 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
24282200 AAGAAAATAG
24282210 AATAAA-AAA
1 AATAAATAAA
24282219 AATAAATAAA
1 AATAAATAAA
24282229 AATAAAATAAA
1 AAT-AAATAAA
*
24282240 AA-AAGTAAAA
1 AATAAAT-AAA
24282250 AATAAA-AAA
1 AATAAATAAA
*
24282259 TAAAAAAT-AA
1 -AATAAATAAA
24282269 AATAAA
1 AATAAA
24282275 GATAAAAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
9 17 0.37
10 18 0.39
11 11 0.24
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (10 bp):
AATAAATAAA
Found at i:24282220 original size:14 final size:13
Alignment explanation
Indices: 24282198--24282274 Score: 70
Period size: 12 Copynumber: 6.0 Consensus size: 13
24282188 GATTTTTATT
*
24282198 TAAAGAAAATAGAA
1 TAAAAAAAATA-AA
24282212 TAAAAAAAATAAA
1 TAAAAAAAATAAA
*
24282225 T-AAAAATA-AAA
1 TAAAAAAAATAAA
*
24282236 TAAAAAAAGTAAA
1 TAAAAAAAATAAA
*
24282249 AAATAAAAAATAAA
1 TAA-AAAAAATAAA
*
24282263 -AAATAAAATAAA
1 TAAAAAAAATAAA
24282275 GATAAAAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
11 4 0.08
12 20 0.38
13 10 0.19
14 19 0.36
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
TAAAAAAAATAAA
Found at i:24282237 original size:24 final size:24
Alignment explanation
Indices: 24282203--24282281 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
24282193 TTATTTAAAG
*
24282203 AAAATAGAATAAAAAAAATAAATA
1 AAAATAAAATAAAAAAAATAAATA
*
24282227 AAAATAAAATAAAAAAAGTAAA-A
1 AAAATAAAATAAAAAAAATAAATA
*
24282250 AATAA-AAAATAAAAAATA-AAATA
1 AA-AATAAAATAAAAAAAATAAATA
*
24282273 AAGATAAAA
1 AAAATAAAA
24282282 AGAATATTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
22 4 0.09
23 21 0.45
24 22 0.47
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAATAAAATAAAAAAAATAAATA
Found at i:24282253 original size:31 final size:32
Alignment explanation
Indices: 24282215--24282282 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
24282205 AATAGAATAA
24282215 AAAAAATAAATAAA-AATAAAATAAAA-AAAG-T
1 AAAAAATAAA-AAATAA-AAAATAAAATAAAGAT
24282246 AAAAAATAAAAAATAAAAAATAAAATAAAGAT
1 AAAAAATAAAAAATAAAAAATAAAATAAAGAT
24282278 AAAAA
1 AAAAA
24282283 GAATATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 12 0.35
31 16 0.47
32 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (32 bp):
AAAAAATAAAAAATAAAAAATAAAATAAAGAT
Found at i:24282284 original size:8 final size:7
Alignment explanation
Indices: 24282210--24282270 Score: 74
Period size: 7 Copynumber: 9.0 Consensus size: 7
24282200 AAGAAAATAG
24282210 AATAAAA
1 AATAAAA
*
24282217 AA-AATA
1 AATAAAA
24282223 AAT-AAA
1 AATAAAA
24282229 AATAAAA
1 AATAAAA
24282236 TAA-AAAA
1 -AATAAAA
*
24282243 AGTAAAA
1 AATAAAA
24282250 AATAAAA
1 AATAAAA
24282257 AATAAAA
1 AATAAAA
24282264 AATAAAA
1 AATAAAA
24282271 TAAAGATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
6 11 0.24
7 33 0.72
8 2 0.04
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:24282294 original size:34 final size:34
Alignment explanation
Indices: 24282213--24282296 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
24282203 AAAATAGAAT
24282213 AAAAAA-AATAAAT-AAAAATAAAATAAAAAAAG
1 AAAAAATAATAAATAAAAAATAAAATAAAAAAAG
* *
24282245 TAAAAAATAAAAAATAAAAAATAAAATAAAGATAA-
1 -AAAAAATAATAAATAAAAAATAAAATAAA-AAAAG
* *
24282280 AAAGAATATTAAATAAA
1 AAAAAATAATAAATAAA
24282297 CCTAATCTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
33 6 0.14
34 20 0.47
35 14 0.33
36 3 0.07
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.17
Consensus pattern (34 bp):
AAAAAATAATAAATAAAAAATAAAATAAAAAAAG
Found at i:24283252 original size:33 final size:33
Alignment explanation
Indices: 24283175--24283291 Score: 100
Period size: 33 Copynumber: 3.6 Consensus size: 33
24283165 TAAAAATCAA
* *
24283175 ATAAATATAAAAAAAAAA-AGATA-A-T-TAGA
1 ATAAATAAAAAAAAAAAATAGATATATTATAGG
* *
24283204 ACAGATAAAATAAAAAAAATAGATATATTATAGG
1 ATAAATAAAA-AAAAAAAATAGATATATTATAGG
* * *
24283238 ATAAATAAAAAAAAATAACAGATATATAATTA-G
1 ATAAATAAAAAAAAAAAATAGATATATTA-TAGG
*
24283271 ATAAATAAAAATACAAAAATA
1 ATAAATAAAAA-AAAAAAATA
24283292 AATAAAATAT
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
29 7 0.10
30 8 0.12
31 5 0.07
32 1 0.01
33 29 0.42
34 19 0.28
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (33 bp):
ATAAATAAAAAAAAAAAATAGATATATTATAGG
Found at i:24283299 original size:23 final size:24
Alignment explanation
Indices: 24283273--24283329 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 24
24283263 ATAATTAGAT
*
24283273 AAATAAAAATACAAA-AATAA-ATA
1 AAATAAAAA-AAAAATAATAATATA
24283296 AAATATAAAAAAAAATAATAATATA
1 AAATA-AAAAAAAAATAATAATATA
24283321 ATAATAAAA
1 A-AATAAAA
24283330 TATATAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 9 0.31
24 9 0.31
25 7 0.24
26 4 0.14
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (24 bp):
AAATAAAAAAAAAATAATAATATA
Found at i:24283329 original size:20 final size:17
Alignment explanation
Indices: 24283273--24283331 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 17
24283263 ATAATTAGAT
24283273 AAATAAAA-ATACAAAAA
1 AAATAAAATATA-AAAAA
24283290 TAAATAAAATATAAAAAA
1 -AAATAAAATATAAAAAA
*
24283308 AAATAATAATATAATAATA
1 AAATAA-AATATAA-AAAA
24283327 AAATA
1 AAATA
24283332 TATAACTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 6 0.16
18 20 0.54
19 11 0.30
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATAAAATATAAAAAA
Found at i:24283350 original size:19 final size:17
Alignment explanation
Indices: 24283259--24283354 Score: 70
Period size: 17 Copynumber: 5.4 Consensus size: 17
24283249 AAAATAACAG
24283259 ATATATAATTAGATAAATAA
1 ATATATAA-TA-ATAAAT-A
* * *
24283279 AAATACAAAAATAAATA
1 ATATATAATAATAAATA
* * *
24283296 AAATATAAAAAAAAATA
1 ATATATAATAATAAATA
24283313 ATAATATAATAAT-AA-A
1 AT-ATATAATAATAAATA
24283329 ATATATAACTATATAAATA
1 ATATATAA-TA-ATAAATA
24283348 ATATATA
1 ATATATA
24283355 TAAATCTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
15 6 0.10
16 5 0.08
17 21 0.33
18 16 0.25
19 9 0.14
20 6 0.10
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.29
Consensus pattern (17 bp):
ATATATAATAATAAATA
Found at i:24283426 original size:34 final size:33
Alignment explanation
Indices: 24283343--24283432 Score: 90
Period size: 36 Copynumber: 2.6 Consensus size: 33
24283333 ATAACTATAT
* *
24283343 AAATAATATATATAAATCTATTCTAAATAAAAA
1 AAATAATAAATATAAATATATTCTAAATAAAAA
* * *
24283376 AAATAAATACAGATATACATATATTACTACATAATAA
1 AAAT-AATA-A-ATATAAATATATT-CTAAATAAAAA
*
24283413 TAATAATAAATATAAATATA
1 AAATAATAAATATAAATATA
24283433 CATAAAATAC
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
33 4 0.09
34 14 0.30
35 1 0.02
36 15 0.33
37 12 0.26
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (33 bp):
AAATAATAAATATAAATATATTCTAAATAAAAA
Found at i:24283515 original size:19 final size:20
Alignment explanation
Indices: 24283471--24283521 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
24283461 ATTGAATTGG
*
24283471 GCCCAATTGATCTGGGCCAG
1 GCCCAATTGATCTGGGCCAA
24283491 GCCCAATTGATCTGGG-CAA
1 GCCCAATTGATCTGGGCCAA
24283510 GCCCAATTGATC
1 GCCCAATTGATC
24283522 GGACCCTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (20 bp):
GCCCAATTGATCTGGGCCAA
Found at i:24285438 original size:30 final size:31
Alignment explanation
Indices: 24285352--24285454 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 31
24285342 TTATTTAGTT
* *
24285352 TATATATTAAAAGTTTAAAA-ACTTATTT-AGA
1 TATAAATTAAAA-ATTAAAAGACTTATTTGA-A
* *
24285383 TATAAATTAAAGA-TCAAAGACTTATTTGAA
1 TATAAATTAAAAATTAAAAGACTTATTTGAA
*
24285413 TATAAATTAAAAATTAAAAG-TTTATTTGAA
1 TATAAATTAAAAATTAAAAGACTTATTTGAA
24285443 TAT-AA-TAAAAAT
1 TATAAATTAAAAAT
24285455 ACAAATATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
28 7 0.11
29 6 0.10
30 33 0.53
31 16 0.26
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (31 bp):
TATAAATTAAAAATTAAAAGACTTATTTGAA
Found at i:24285466 original size:29 final size:30
Alignment explanation
Indices: 24285334--24285454 Score: 95
Period size: 30 Copynumber: 4.0 Consensus size: 30
24285324 ATGCATTATG
* ** * *
24285334 TTAAAGATTTATTTAGTTTATATATTAAAAGT
1 TTAAAAATTTATTT-GAATATAAATTAAAA-A
* *
24285366 TTAAAAACTTATTT-AGATATAAATTAAAGA
1 TTAAAAATTTATTTGA-ATATAAATTAAAAA
* * *
24285396 TCAAAGACTTATTTGAATATAAATTAAAAA
1 TTAAAAATTTATTTGAATATAAATTAAAAA
*
24285426 TTAAAAGTTTATTTGAATAT-AA-TAAAAA
1 TTAAAAATTTATTTGAATATAAATTAAAAA
24285454 T
1 T
24285455 ACAAATATTT
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
28 7 0.10
29 2 0.03
30 41 0.56
31 11 0.15
32 12 0.16
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (30 bp):
TTAAAAATTTATTTGAATATAAATTAAAAA
Found at i:24285528 original size:14 final size:14
Alignment explanation
Indices: 24285509--24285539 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24285499 ATTATTTTAT
24285509 CTGTTTTTGCTAAG
1 CTGTTTTTGCTAAG
*
24285523 CTGTTTTTGCTTAG
1 CTGTTTTTGCTAAG
24285537 CTG
1 CTG
24285540 GTGTCCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.16, G:0.23, T:0.52
Consensus pattern (14 bp):
CTGTTTTTGCTAAG
Found at i:24285855 original size:21 final size:24
Alignment explanation
Indices: 24285814--24285857 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
24285804 AGATGCATGC
24285814 TATTATTTGATCTGTTCTTCCTTT
1 TATTATTTGATCTGTTCTTCCTTT
24285838 TATT-TTTGATCT-TT-TTCCTT
1 TATTATTTGATCTGTTCTTCCTT
24285858 GCACTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 8 0.40
24 4 0.20
ACGTcount: A:0.11, C:0.16, G:0.07, T:0.66
Consensus pattern (24 bp):
TATTATTTGATCTGTTCTTCCTTT
Found at i:24286602 original size:54 final size:54
Alignment explanation
Indices: 24286520--24286633 Score: 219
Period size: 54 Copynumber: 2.1 Consensus size: 54
24286510 TTATTTATCA
24286520 ATGTTTAACTATTCAACAGGTAAGACTTCGTGCTGTTATGTAGTGCTCTATACT
1 ATGTTTAACTATTCAACAGGTAAGACTTCGTGCTGTTATGTAGTGCTCTATACT
24286574 ATGTTTAACTATTCAACAGGTAAGACTTCGTGCTGTTATGTAGTGCTCTATACT
1 ATGTTTAACTATTCAACAGGTAAGACTTCGTGCTGTTATGTAGTGCTCTATACT
*
24286628 TTGTTT
1 ATGTTT
24286634 TTCTACTATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (54 bp):
ATGTTTAACTATTCAACAGGTAAGACTTCGTGCTGTTATGTAGTGCTCTATACT
Found at i:24290487 original size:17 final size:18
Alignment explanation
Indices: 24290460--24290495 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24290450 TATGTTAGCC
*
24290460 TTTTAAATTAATTTTTTA
1 TTTTAAATTAATATTTTA
24290478 TTTT-AATTAATATTTTA
1 TTTTAAATTAATATTTTA
24290495 T
1 T
24290496 CCAAGCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAATTAATATTTTA
Found at i:24299127 original size:60 final size:60
Alignment explanation
Indices: 24299031--24299151 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 60
24299021 ATTTCTGAGA
* * *
24299031 AGATTCAGTAACCCCGCAAATAGACCTGTAAGCAAACCTTTAAACAATGGTAATCGGTGT
1 AGATTAAGGAACCCCGCAAATAGAACTGTAAGCAAACCTTTAAACAATGGTAATCGGTGT
*
24299091 AGATTAAGGAACCCTGCAAATAGAACTGTGAA-CAAACCTTTAAACAATGGTAATCGGTGT
1 AGATTAAGGAACCCCGCAAATAGAACTGT-AAGCAAACCTTTAAACAATGGTAATCGGTGT
24299151 A
1 A
24299152 TTCATGTTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
60 54 0.96
61 2 0.04
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (60 bp):
AGATTAAGGAACCCCGCAAATAGAACTGTAAGCAAACCTTTAAACAATGGTAATCGGTGT
Found at i:24303968 original size:2 final size:2
Alignment explanation
Indices: 24303961--24303995 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24303951 TGACTGCTTC
24303961 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24303996 TCTCTGTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24313038 original size:2 final size:2
Alignment explanation
Indices: 24313031--24313058 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24313021 CTTAAAATAC
24313031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24313059 TTAACTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24321068 original size:27 final size:27
Alignment explanation
Indices: 24321038--24321106 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
24321028 GAATTTGCAT
24321038 GTTGAGAATCTAGTTTTGAAGGGGCTG
1 GTTGAGAATCTAGTTTTGAAGGGGCTG
*
24321065 GTTGAGATTCTAGTTTTGAAGGGGCTG
1 GTTGAGAATCTAGTTTTGAAGGGGCTG
* *
24321092 GTTGGGGATCTAGTT
1 GTTGAGAATCTAGTT
24321107 GCGAATTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.19, C:0.07, G:0.38, T:0.36
Consensus pattern (27 bp):
GTTGAGAATCTAGTTTTGAAGGGGCTG
Found at i:24323296 original size:12 final size:12
Alignment explanation
Indices: 24323281--24323322 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
24323271 AAATTATTTT
24323281 TTTAATTTTATA
1 TTTAATTTTATA
*
24323293 TTTATTTATATATA
1 TTTAATT-T-TATA
24323307 TTTAATTTTATA
1 TTTAATTTTATA
24323319 TTTA
1 TTTA
24323323 TATTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 14 0.54
13 2 0.08
14 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:24323343 original size:19 final size:20
Alignment explanation
Indices: 24323319--24323362 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
24323309 TAATTTTATA
24323319 TTTATA-TTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
24323338 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
24323358 TTTAT
1 TTTAT
24323363 TAATTTCGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:24333831 original size:2 final size:2
Alignment explanation
Indices: 24333777--24333818 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
24333767 TTGAAATCTA
24333777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24333818 A
1 A
24333819 ATACAACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24342849 original size:17 final size:17
Alignment explanation
Indices: 24342804--24342850 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
24342794 TTTTTACTTT
24342804 TTTATATTTATTCTTTAA
1 TTTATATTT-TTCTTTAA
* *
24342822 TTTAAAGTTTTCTTTAA
1 TTTATATTTTTCTTTAA
*
24342839 TTTTTATTTTTC
1 TTTATATTTTTC
24342851 ATTTTTATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTATATTTTTCTTTAA
Found at i:24343392 original size:3 final size:3
Alignment explanation
Indices: 24343384--24343419 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
24343374 GGAGCAGCCA
*
24343384 AGC AGC AGC AGC AGC AGC AGC AAC AGC AGC AAGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC -AGC AG
24343420 TTCGTCTTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.39, C:0.31, G:0.31, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:24343921 original size:2 final size:2
Alignment explanation
Indices: 24343914--24343940 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24343904 GTTTGATGCT
24343914 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
24343941 CAGTACCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24345259 original size:10 final size:10
Alignment explanation
Indices: 24345244--24345288 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
24345234 TATATAGATG
24345244 AAAATAATAA
1 AAAATAATAA
*
24345254 AAAATAATAT
1 AAAATAATAA
*
24345264 AAAATTA-AA
1 AAAATAATAA
24345273 AAAATAGATAA
1 AAAATA-ATAA
24345284 AAAAT
1 AAAAT
24345289 TATTTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 6 0.21
10 16 0.55
11 7 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (10 bp):
AAAATAATAA
Found at i:24345274 original size:18 final size:19
Alignment explanation
Indices: 24345237--24345290 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
24345227 CACAAAATAT
24345237 ATAGATGAAAATAA-TAAAAA
1 ATAGAT-AAAA-AATTAAAAA
*
24345257 ATA-ATATAAAATTAAAAAA
1 ATAGATAAAAAATT-AAAAA
24345276 ATAGATAAAAAATTA
1 ATAGATAAAAAATTA
24345291 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 11 0.38
20 12 0.41
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (19 bp):
ATAGATAAAAAATTAAAAA
Found at i:24345276 original size:19 final size:20
Alignment explanation
Indices: 24345252--24345290 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24345242 TGAAAATAAT
*
24345252 AAAAAATA-ATATAAAATTA
1 AAAAAATAGATAAAAAATTA
24345271 AAAAAATAGATAAAAAATTA
1 AAAAAATAGATAAAAAATTA
24345291 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAAAATAGATAAAAAATTA
Found at i:24345706 original size:2 final size:2
Alignment explanation
Indices: 24345699--24345738 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
24345689 GTTTAGCTTT
24345699 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24345739 CTTATAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24352282 original size:16 final size:16
Alignment explanation
Indices: 24352261--24352292 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24352251 AACAACTAAG
24352261 CAACATAATCTAGCCA
1 CAACATAATCTAGCCA
24352277 CAACATAATCTAGCCA
1 CAACATAATCTAGCCA
24352293 GTCAAGAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.06, T:0.19
Consensus pattern (16 bp):
CAACATAATCTAGCCA
Found at i:24357481 original size:22 final size:24
Alignment explanation
Indices: 24357439--24357484 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
24357429 TCGTATCAAA
24357439 TTTAAAATTAATGAAATATTATTT
1 TTTAAAATTAATGAAATATTATTT
*
24357463 TTTAAAA-T-ATGTAATATTATTT
1 TTTAAAATTAATGAAATATTATTT
24357485 ATAAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 1 0.05
24 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTAAAATTAATGAAATATTATTT
Found at i:24357485 original size:19 final size:18
Alignment explanation
Indices: 24357458--24357504 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
24357448 AATGAAATAT
* *
24357458 TATTTTTTAAAATATGTAA
1 TATTATTTAAAATAT-AAA
24357477 TATTATTTATAAATATAAA
1 TATTATTTA-AAATATAAA
24357496 TA-TATTTAA
1 TATTATTTAA
24357505 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 6 0.24
19 12 0.48
20 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TATTATTTAAAATATAAA
Found at i:24357652 original size:20 final size:21
Alignment explanation
Indices: 24357627--24357665 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24357617 AATTTTAAAA
*
24357627 TATCAAAT-TGGATCAAAACC
1 TATCAAATATAGATCAAAACC
24357647 TATCAAATATAGATCAAAA
1 TATCAAATATAGATCAAAA
24357666 TACCTTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.26
Consensus pattern (21 bp):
TATCAAATATAGATCAAAACC
Found at i:24358010 original size:20 final size:20
Alignment explanation
Indices: 24357950--24358001 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
24357940 TTTTATATCT
*
24357950 ATATAAAT-TATAACATATA
1 ATATAAATATATAAAATATA
* *
24357969 AT-T-TATATATAAAATATG
1 ATATAAATATATAAAATATA
24357987 ATATAAATATATAAA
1 ATATAAATATATAAA
24358002 TTTTAATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 2 0.08
18 12 0.46
19 3 0.12
20 9 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
ATATAAATATATAAAATATA
Found at i:24364843 original size:116 final size:116
Alignment explanation
Indices: 24364638--24364872 Score: 425
Period size: 116 Copynumber: 2.0 Consensus size: 116
24364628 ATAATAAGCA
*
24364638 CAGCAAGTATGTTTACCATGAAAATTTACATGAGTGCATATTCATATTTCTTTTGGGTTTATTGG
1 CAGCAAGTATGTTTACCATGAAAATTTACATGAGTCCATATTCATATTTCTTTTGGGTTTATTGG
* *
24364703 CATTCCATTATATGATTAAGTCACATTGACTTAAAAGCTAATATTTACTTT
66 CATTCCAATATATGATTAAATCACATTGACTTAAAAGCTAATATTTACTTT
*
24364754 CAGCAAGTATGTTTACCATGATAATTTACATGAGTCCATATTCATATTTCTTTTGGGTTTATTGG
1 CAGCAAGTATGTTTACCATGAAAATTTACATGAGTCCATATTCATATTTCTTTTGGGTTTATTGG
*
24364819 CATTCCAATATATGATTAAATCACATTGATTTAAAAGCTAATATTTACTTT
66 CATTCCAATATATGATTAAATCACATTGACTTAAAAGCTAATATTTACTTT
24364870 CAG
1 CAG
24364873 GTCTATGTTA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.41
Consensus pattern (116 bp):
CAGCAAGTATGTTTACCATGAAAATTTACATGAGTCCATATTCATATTTCTTTTGGGTTTATTGG
CATTCCAATATATGATTAAATCACATTGACTTAAAAGCTAATATTTACTTT
Found at i:24370042 original size:94 final size:94
Alignment explanation
Indices: 24369881--24370074 Score: 334
Period size: 94 Copynumber: 2.1 Consensus size: 94
24369871 TTTTGACTAT
* * * *
24369881 TCATAATAAAAAAATGCTTACATGATTACATTATATACCTTATCTATACATTTATAGAATGGAAG
1 TCATAATAAAAAAATACTTACATGATTACATTACATACCTTATCTATACAGTTATAGAATGAAAG
*
24369946 TGACTGAATTGGTTTCATGAGTTAAAAAA
66 TGACTGAATTGATTTCATGAGTTAAAAAA
*
24369975 TCATAATAAATAAATACTTACATGATTACATTACATACCTTATCTATACAGTTATAGAATGAAAG
1 TCATAATAAAAAAATACTTACATGATTACATTACATACCTTATCTATACAGTTATAGAATGAAAG
24370040 TGACTGAATTGATTTCATGAGTTAAAAAA
66 TGACTGAATTGATTTCATGAGTTAAAAAA
24370069 TCATAA
1 TCATAA
24370075 AAGTATGGAA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (94 bp):
TCATAATAAAAAAATACTTACATGATTACATTACATACCTTATCTATACAGTTATAGAATGAAAG
TGACTGAATTGATTTCATGAGTTAAAAAA
Found at i:24371006 original size:22 final size:22
Alignment explanation
Indices: 24370963--24371023 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
24370953 CTCTTTTTTT
24370963 TTTTAATTAAAATATTAGAATA
1 TTTTAATTAAAATATTAGAATA
* * *
24370985 TTTTATTTAAAAATTTTAAATATA
1 TTTTAATT-AAAATATTAGA-ATA
24371009 TTTCTAAATTAAAAT
1 TTT-T-AATTAAAAT
24371024 TAATAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 7 0.23
23 9 0.29
24 6 0.19
25 6 0.19
26 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTAATTAAAATATTAGAATA
Found at i:24383267 original size:13 final size:13
Alignment explanation
Indices: 24383249--24383282 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24383239 TAAAATTATC
*
24383249 ATTTAATATTTTA
1 ATTTAATATATTA
24383262 ATTTAATATATTA
1 ATTTAATATATTA
*
24383275 ACTTAATA
1 ATTTAATA
24383283 CAAATACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTAATATATTA
Found at i:24384726 original size:28 final size:28
Alignment explanation
Indices: 24384656--24384727 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
24384646 TATAAACAAA
24384656 ATTTTAATAATAAATAGTATTATTTAAAT
1 ATTTTAATAATAAA-AGTATTATTTAAAT
** * *
24384685 ATTTTTGTATTAAAA-TATTATTTTTAAT
1 ATTTTAATAATAAAAGTATTA-TTTAAAT
24384713 ATTTTAATAATAAAA
1 ATTTTAATAATAAAA
24384728 ACTATTACTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
27 5 0.14
28 19 0.54
29 11 0.31
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
ATTTTAATAATAAAAGTATTATTTAAAT
Found at i:24385427 original size:3 final size:3
Alignment explanation
Indices: 24385414--24385531 Score: 51
Period size: 3 Copynumber: 38.3 Consensus size: 3
24385404 GAAGTTGAGG
* * * * * * *
24385414 AGA AAA AGA AGA AGA AGA AGA AGG AGA AAA ATA AGA AGG TGA AGA GTGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA
* * * * *
24385463 AGA TGA TG- AGA AGCA AGA GGA AGA GGAA AGTA ATGA AGA AGA AGA CGA
1 AGA AGA AGA AGA AG-A AGA AGA AGA AG-A AG-A A-GA AGA AGA AGA AGA
* *
24385511 AGA AAA AGA AGG AG- AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA A
24385532 AGAGATAAAG
Statistics
Matches: 84, Mismatches: 25, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
2 3 0.04
3 69 0.82
4 11 0.13
5 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.34, T:0.06
Consensus pattern (3 bp):
AGA
Found at i:24390698 original size:4 final size:4
Alignment explanation
Indices: 24390683--24390716 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
24390673 TATATATATA
* *
24390683 TATG TATT TATG TATG TATG TGTG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
24390717 AATATGTGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:24394860 original size:2 final size:2
Alignment explanation
Indices: 24394853--24394881 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24394843 GCCATCAAAG
24394853 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24394882 AATGTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24396375 original size:2 final size:2
Alignment explanation
Indices: 24396368--24396395 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24396358 AGTTTGTCCA
24396368 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24396396 TATCCGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24408372 original size:14 final size:14
Alignment explanation
Indices: 24408353--24408380 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24408343 AATTATTTAC
24408353 TAAATATATATATA
1 TAAATATATATATA
24408367 TAAATATATATATA
1 TAAATATATATATA
24408381 AAGAACGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:24408373 original size:12 final size:12
Alignment explanation
Indices: 24408358--24408382 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24408348 TTTACTAAAT
24408358 ATATATATATAA
1 ATATATATATAA
24408370 ATATATATATAA
1 ATATATATATAA
24408382 A
1 A
24408383 GAACGAATAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATATAA
Found at i:24417348 original size:78 final size:80
Alignment explanation
Indices: 24417260--24417420 Score: 256
Period size: 80 Copynumber: 2.0 Consensus size: 80
24417250 TGGTTTCGAG
24417260 GGGGGA-TTTTTTTTTGTTTTT-TATATATG-CTCATAATTTACTTTGGAAACATAGCTTCTCTC
1 GGGGGATTTTTTTTTTGTTTTTGTATATATGCCT-ATAATTTACTTTGGAAACATAGCTTCTCTC
*
24417322 ATTCAATGTTTGCTTT
65 ATTCAATGTTTACTTT
* * *
24417338 GGGGGATTTTTTTTTTTTTTTTGTATTTATGCCTATAATTTACTTTGGAAACATAGCTTCTCTTA
1 GGGGGATTTTTTTTTTGTTTTTGTATATATGCCTATAATTTACTTTGGAAACATAGCTTCTCTCA
24417403 TTCAATGTTTACTTT
66 TTCAATGTTTACTTT
24417418 GGG
1 GGG
24417421 ACTCAAAATT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
78 6 0.08
79 14 0.18
80 54 0.71
81 2 0.03
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (80 bp):
GGGGGATTTTTTTTTTGTTTTTGTATATATGCCTATAATTTACTTTGGAAACATAGCTTCTCTCA
TTCAATGTTTACTTT
Found at i:24422906 original size:16 final size:17
Alignment explanation
Indices: 24422878--24422911 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
24422868 TTTTTGAGTT
24422878 AATTTGAATTAATTTAA
1 AATTTGAATTAATTTAA
24422895 AATTTG-ATTAATTTAA
1 AATTTGAATTAATTTAA
24422911 A
1 A
24422912 GTAAATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
AATTTGAATTAATTTAA
Found at i:24429454 original size:12 final size:12
Alignment explanation
Indices: 24429437--24429471 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
24429427 TACAAAACAA
24429437 AGAAGAACAAGT
1 AGAAGAACAAGT
24429449 AGAAGAACAAGT
1 AGAAGAACAAGT
24429461 AGAAGAACAAG
1 AGAAGAACAAG
24429472 AAGGTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.60, C:0.09, G:0.26, T:0.06
Consensus pattern (12 bp):
AGAAGAACAAGT
Found at i:24435809 original size:13 final size:14
Alignment explanation
Indices: 24435791--24435820 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
24435781 TTAAAATATA
24435791 ATAAAACTC-AAAT
1 ATAAAACTCAAAAT
24435804 ATAAAACTCAAAAT
1 ATAAAACTCAAAAT
24435818 ATA
1 ATA
24435821 TGGAGTATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAAACTCAAAAT
Found at i:24439756 original size:20 final size:19
Alignment explanation
Indices: 24439714--24439758 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
24439704 CTCTTAAAAA
*
24439714 TAAATATTAATAAATTTATT
1 TAAA-ATTAATAAATTTAAT
*
24439734 TAAAATTAATTAATTATAAT
1 TAAAATTAATAAATT-TAAT
24439754 TAAAA
1 TAAAA
24439759 CTTTTCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATTAATAAATTTAAT
Found at i:24446442 original size:18 final size:18
Alignment explanation
Indices: 24446417--24446467 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
24446407 ATTCTTTTTC
24446417 AATAAAAAACAAAAACTA
1 AATAAAAAACAAAAACTA
* *
24446435 ATTAAAAAATAAAAA-TA
1 AATAAAAAACAAAAACTA
**
24446452 AATCGAAAACAAAAAC
1 AATAAAAAACAAAAAC
24446468 AAAGATTTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.14
Consensus pattern (18 bp):
AATAAAAAACAAAAACTA
Found at i:24452769 original size:58 final size:59
Alignment explanation
Indices: 24452617--24453004 Score: 405
Period size: 58 Copynumber: 6.5 Consensus size: 59
24452607 TTTTTCTTGT
* * * ** **
24452617 TTTTTTTGAGAATTTTATTTTTAAGGAAAATTGGTACTTTCCAACTTTTCCTCAAATGCTTT
1 TTTTTTAGA-AATTTTATTTTTAAGAAAAATTGATACTTT-CAACTTTTCCTCAAA-AATAA
* * * *
24452679 TTTTTTTGAAAATTTTATTTTCAA-AGAAAATTGATACTTTCAACTTTACCTTAAAAAT-A
1 TTTTTTAG-AAATTTTATTTTTAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATAA
* * *
24452738 TTTTTTAGAAAGTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATT
1 TTTTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-A
*
24452798 TTTTTTAGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTT-TTCAAAAATAA
1 TTTTTTAG-AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAA
* * * *
24452857 TTTTTAAAAAATTTTTGTTTTTAA-AAAAATTGATACTTTCAACTTTTCTTCAAAAATAA
1 TTTTTTAGAAA-TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAA
* * * *
24452916 TTTTTAAAAAATTTTTATTTTTAATG-AAAATTGACACTTTCAACTTTTTCTCAAAAATAAA
1 TTTTTTAGAAA-TTTTATTTTTAA-GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-AA
24452977 TTTTTTTA-AAATTTTA-TTTT-AGAAAAAT
1 -TTTTTTAGAAATTTTATTTTTAAGAAAAAT
24453005 CATTGAAAAA
Statistics
Matches: 286, Mismatches: 27, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
57 1 0.00
58 74 0.26
59 63 0.22
60 52 0.18
61 55 0.19
62 40 0.14
63 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (59 bp):
TTTTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAA
Found at i:24452809 original size:17 final size:18
Alignment explanation
Indices: 24452789--24452829 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
24452779 ATTTTTCCTC
24452789 AAAAATATTT-TTTTT-AG
1 AAAAAT-TTTATTTTTAAG
24452806 -AAAATTTTATTTTTAAG
1 AAAAATTTTATTTTTAAG
24452823 AAAAATT
1 AAAAATT
24452830 GATACTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 10 0.48
17 2 0.10
18 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
AAAAATTTTATTTTTAAG
Found at i:24452830 original size:119 final size:117
Alignment explanation
Indices: 24452618--24453004 Score: 414
Period size: 119 Copynumber: 3.2 Consensus size: 117
24452608 TTTTCTTGTT
* * * **
24452618 TTTTTTGAGAATTTTATTTTTAAGGAAAATTGGTACTTTCCAACTTTTCCTCAAATGCT-TTTTT
1 TTTTTT-AAAATTTTATTTTTAAGAAAAATTGATACTTT-CAACTTTTCCTCAAA-AATATTTTT
* *
24452682 TTTTGAAAATTTTATTTTCAA-AGAAAATTGATACTTTCAACTTTACCTTAAAAAT-A
63 TTTAGAAAATTTTATTTTTAAGA-AAAATTGATACTTTCAACTTT--CTTAAAAATAA
* *
24452738 TTTTTTAGAAAGTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTT
1 TTTTTTA-AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
*
24452803 TAGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTCAAAAATAA
65 TAGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCTT-AAAAATAA
* * * *
24452857 TTTTTAAAAAATTTTTGTTTTTAA-AAAAATTGATACTTTCAACTTTTCTTCAAAAATA--ATTT
1 TTTTT-TAAAA-TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
* * *
24452919 TTAAAAAATTTTTATTTTTAATG-AAAATTGACACTTTCAACTTTTTCTCAAAAATAAA
64 TTAGAAAA-TTTTATTTTTAA-GAAAAATTGATACTTTCAAC--TTTCTTAAAAAT-AA
24452977 TTTTTTTAAAATTTTA-TTTT-AGAAAAAT
1 -TTTTTTAAAATTTTATTTTTAAGAAAAAT
24453005 CATTGAAAAA
Statistics
Matches: 231, Mismatches: 22, Indels: 30
0.82 0.08 0.11
Matches are distributed among these distances:
117 13 0.06
118 46 0.20
119 112 0.48
120 55 0.24
121 5 0.02
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (117 bp):
TTTTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
AGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCTTAAAAATAA
Found at i:24453104 original size:11 final size:10
Alignment explanation
Indices: 24453085--24453110 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24453075 TAATAATAAT
24453085 AATAAAAAAA
1 AATAAAAAAA
24453095 AATAAAAAAA
1 AATAAAAAAA
24453105 AATAAA
1 AATAAA
24453111 TAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:24453416 original size:20 final size:20
Alignment explanation
Indices: 24453388--24453425 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24453378 CACTGAATTT
24453388 TGGAAAAATACATCGAAATC
1 TGGAAAAATACATCGAAATC
*
24453408 TGGATAAATACATCGAAA
1 TGGAAAAATACATCGAAA
24453426 AAAATCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (20 bp):
TGGAAAAATACATCGAAATC
Found at i:24454036 original size:43 final size:43
Alignment explanation
Indices: 24453959--24454163 Score: 208
Period size: 43 Copynumber: 4.9 Consensus size: 43
24453949 AATAAAGCTA
* * * * *
24453959 TTCTAAATAGAGGC-TCAACAACTTTGGAACAATAAATTGCTC
1 TTCTAAACAGAGGCAACCACAACTTTTGAAAAATAAATTGCTC
* * *
24454001 TTCTAAACAGAAGCAACCATAACTTTTGAAAAATAAATTGCTT
1 TTCTAAACAGAGGCAACCACAACTTTTGAAAAATAAATTGCTC
* *
24454044 TTCTAAACAGAGGC-ACCACAAC-TTAGAAAAATAAATTACTC
1 TTCTAAACAGAGGCAACCACAACTTTTGAAAAATAAATTGCTC
* * *
24454085 ATCTAAACAGAGGCAACCACGACTTTTGGAAAAATAAATTACTCC
1 TTCTAAACAGAGGCAACCACAACTTTT-GAAAAATAAATTGCT-C
* *
24454130 TT-TAAATAAAGGC-ACCACAAC-TTTGAAAAA-AAAT
1 TTCTAAACAGAGGCAACCACAACTTTTGAAAAATAAAT
24454164 AAAATGCTAT
Statistics
Matches: 138, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
40 4 0.03
41 35 0.25
42 29 0.21
43 44 0.32
44 24 0.17
45 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (43 bp):
TTCTAAACAGAGGCAACCACAACTTTTGAAAAATAAATTGCTC
Found at i:24454101 original size:84 final size:86
Alignment explanation
Indices: 24453959--24454163 Score: 247
Period size: 85 Copynumber: 2.4 Consensus size: 86
24453949 AATAAAGCTA
* * * * * * *
24453959 TTCTAAATAGAGGCTCAACAACTTTGGAACAATAAATTGCTCTTCTAAACAGAAGCAACCATAAC
1 TTCTAAATAGAGGCACCACAAC-TTAGAAAAATAAATTACTCATCTAAACAGAAGCAACCACAAC
* *
24454024 TTTT-GAAAAATAAATTGCT-T
65 TTTTGGAAAAATAAATTACTCC
* * *
24454044 TTCTAAACAGAGGCACCACAACTTAGAAAAATAAATTACTCATCTAAACAGAGGCAACCACGACT
1 TTCTAAATAGAGGCACCACAACTTAGAAAAATAAATTACTCATCTAAACAGAAGCAACCACAACT
24454109 TTTGGAAAAATAAATTACTCC
66 TTTGGAAAAATAAATTACTCC
* *
24454130 TT-TAAATAAAGGCACCACAACTTTGAAAAA-AAAT
1 TTCTAAATAGAGGCACCACAACTTAGAAAAATAAAT
24454164 AAAATGCTAT
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
84 43 0.42
85 58 0.56
86 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (86 bp):
TTCTAAATAGAGGCACCACAACTTAGAAAAATAAATTACTCATCTAAACAGAAGCAACCACAACT
TTTGGAAAAATAAATTACTCC
Found at i:24465720 original size:58 final size:58
Alignment explanation
Indices: 24465658--24466105 Score: 388
Period size: 60 Copynumber: 7.3 Consensus size: 58
24465648 TTTTCTTTTG
* *
24465658 TTTTTTAGAATTTTATTTTTAAGAAAAATTTG-TACTTCCAACTTTTCCTCAAAATACTTTT
1 TTTTTTAGAATTTTATTTTTAAGAAAAA-TTGATACTTTCAACTTTTCCTCAAAA-A--TAT
* * * *
24465719 TTTTTTGGAAATTTTATTTTCAAG-AAAATTGATACTTTCAATTTTTCCTTAAAAATAT
1 TTTTTTAG-AATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
*
24465777 TTTTTT-GAAATTTTATTTTTTTA-AAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
1 TTTTTTAG-AATTTTA-TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
* * *
24465835 TTTTTAAAAATTTTTATTTTTAAGAAAAATTGATAATTTCAACTTTTCCTCAAAAATAT
1 TTTTTTAGAA-TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
* ** * * *
24465894 TTTTTTAGAAATATT-TTTTT-AGAAATTTTTTTAAGAAAAATTGATACTTTTAACTTTTCTTCA
1 TTTTTTAG-AATTTTATTTTTAAGAAA---AATT--G-ATACTT--T-C----AACTTTTCCTCA
*
24465957 AAAATAA
52 AAAATAT
* *
24465964 TTTTTTAGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAA
1 TTTTTTAG-AA-TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
*
24466024 TTTTTTAGAAATTTCTATTTTTAAGAAAAATTGATACTTTCAACTCTTT-CTTAAAAATAATT
1 TTTTTTAG-AATTT-TATTTTTAAGAAAAATTGATACTTTCAACT-TTTCCTCAAAAAT-A-T
*
24466086 TTTTTTAAAAATTTTATTTT
1 TTTTTT-AGAATTTTATTTT
24466106 AGGAAAATCA
Statistics
Matches: 325, Mismatches: 33, Indels: 58
0.78 0.08 0.14
Matches are distributed among these distances:
57 14 0.04
58 63 0.19
59 51 0.16
60 74 0.23
61 40 0.12
62 26 0.08
63 6 0.02
64 1 0.00
65 2 0.01
66 1 0.00
67 4 0.01
68 1 0.00
70 30 0.09
71 3 0.01
72 5 0.02
73 4 0.01
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (58 bp):
TTTTTTAGAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
Found at i:24465912 original size:13 final size:14
Alignment explanation
Indices: 24465888--24465931 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
24465878 TTTTCCTCAA
24465888 AAATATTTTTTTAG
1 AAATATTTTTTTAG
24465902 AAATATTTTTTTAG
1 AAATATTTTTTTAG
*
24465916 AAAT-TTTTTTAAG
1 AAATATTTTTTTAG
24465929 AAA
1 AAA
24465932 AATTGATACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
AAATATTTTTTTAG
Found at i:24466190 original size:3 final size:3
Alignment explanation
Indices: 24466182--24466222 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
24466172 AATAAGTAGA
* *
24466182 AAT AAT AAT AAT AAT AAT AGT AAT AAT ATT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24466223 AAAATAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:24466236 original size:21 final size:20
Alignment explanation
Indices: 24466164--24466246 Score: 55
Period size: 21 Copynumber: 4.1 Consensus size: 20
24466154 TAATTTAATC
* *
24466164 AATAAATAAATAAGTAGAAAT
1 AATAAATAAATAA-TATAAAA
**
24466185 AAT-AAT-AATAATA-ATAGT
1 AATAAATAAATAATATA-AAA
*
24466203 AATAATATTAATAATAATAAAA
1 AATAA-ATAAATAAT-ATAAAA
*
24466225 AATAAATAAATAATGTAAAA
1 AATAAATAAATAATATAAAA
24466245 AA
1 AA
24466247 AAACCTTGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
17 1 0.02
18 7 0.14
19 6 0.12
20 12 0.24
21 17 0.33
22 7 0.14
23 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AATAAATAAATAATATAAAA
Found at i:24470701 original size:5 final size:5
Alignment explanation
Indices: 24470679--24470715 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
24470669 TTTGAAAATG
24470679 AGAAA A-AAA AGTAAA AGAAA AGAAA AGAAA AGAAA AG
1 AGAAA AGAAA AG-AAA AGAAA AGAAA AGAAA AGAAA AG
24470716 TAAGAAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 21 0.70
6 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (5 bp):
AGAAA
Found at i:24471659 original size:49 final size:50
Alignment explanation
Indices: 24471550--24471660 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 50
24471540 AGAGAAGATG
* *
24471550 AAGAATTTTAAAATTCTTAAGCCTCTGCTTAAGGGAGCTTTTTTCAAAAT
1 AAGAATTTTAAAATTCTTAAGCCTCTACTTAAGGAAGCTTTTTTCAAAAT
* * * * *
24471600 AAAAATTTTAAAGTTGTTGAGCCTCTACTT-AGAGAAG-TTTTTTCTAAAT
1 AAGAATTTTAAAATTCTTAAGCCTCTACTTAAG-GAAGCTTTTTTCAAAAT
24471649 AAGAATTTTAAA
1 AAGAATTTTAAA
24471661 TTTTTAAAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
49 24 0.46
50 28 0.54
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.39
Consensus pattern (50 bp):
AAGAATTTTAAAATTCTTAAGCCTCTACTTAAGGAAGCTTTTTTCAAAAT
Found at i:24472805 original size:12 final size:13
Alignment explanation
Indices: 24472788--24472817 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
24472778 TACAACTTAA
24472788 AAAAAAAAAAC-T
1 AAAAAAAAAACAT
24472800 AAAAAAAAAACAT
1 AAAAAAAAAACAT
24472813 AAAAA
1 AAAAA
24472818 GCATCATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAAAAAAACAT
Found at i:24477644 original size:2 final size:2
Alignment explanation
Indices: 24477637--24477673 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
24477627 CACCCTCAGA
24477637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
24477674 TCTGACACGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24481054 original size:13 final size:13
Alignment explanation
Indices: 24481036--24481061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24481026 TCTACCCAGA
24481036 GACTTGGTTAGTC
1 GACTTGGTTAGTC
24481049 GACTTGGTTAGTC
1 GACTTGGTTAGTC
24481062 TCTAACTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (13 bp):
GACTTGGTTAGTC
Found at i:24481563 original size:34 final size:34
Alignment explanation
Indices: 24481525--24481600 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
24481515 TAAAATACAG
**
24481525 CTATATTAACAGTGTTTGT-TTGTGAAAAATGCCA
1 CTATATTAACAGCATTTGTATT-TGAAAAATGCCA
*
24481559 CTATATTAACAGCATTTGTATTTGAAAAATGTCA
1 CTATATTAACAGCATTTGTATTTGAAAAATGCCA
*
24481593 TTATATTA
1 CTATATTA
24481601 GAGGTATTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 35 0.95
35 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.41
Consensus pattern (34 bp):
CTATATTAACAGCATTTGTATTTGAAAAATGCCA
Found at i:24481622 original size:34 final size:34
Alignment explanation
Indices: 24481584--24481649 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
24481574 TTGTATTTGA
* *
24481584 AAAATGTCATTATATTAGAGGTATTTGTATCTAG
1 AAAATATCACTATATTAGAGGTATTTGTATCTAG
* * *
24481618 AAAATATCGCTATTTTAGCGGTATTTGTATCT
1 AAAATATCACTATATTAGAGGTATTTGTATCT
24481650 TTGAGGTGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (34 bp):
AAAATATCACTATATTAGAGGTATTTGTATCTAG
Found at i:24487387 original size:187 final size:187
Alignment explanation
Indices: 24487023--24487514 Score: 578
Period size: 187 Copynumber: 2.6 Consensus size: 187
24487013 TGTTTTATTT
* * * *
24487023 TTTTTAAAAATTTATTGAAGGCGTCTTCTAGTGCAAAATG-TTTTCAATATTCAACTATTCAAAT
1 TTTTT-AAAA-TTATTAAAGGCGTCTTCTAGTGAAAAATGCATTT-AATATTCTACTATTCAAAT
* * * * * ** *
24487087 TTTAAGATAGTTAGTGAATGTATTTATTCTAGAAAAAATGCCTTCACTAATTTTTTTTTATTTTA
63 TTTAAGACAGTTAGTGAAAGCATTTATTTTAGAAAAAATACCTTCACTAATTTTCATTTAATTTA
* *
24487152 TGTACATAATTATTGAAAGCGTTTTTTAGAACAAACGCCTTCAATAATTTTTTTTTAAAA
128 TGTACATAATTATTGAAAGCGTTTTTTAGAACAAACACCTTCAATAATTTTATTTTAAAA
** * * *
24487212 TTTTTAGGATTATTAAAGGCATCTT-TCAGTGAAAAATGCCTTTAATATTCTACTACTCAAATTT
1 TTTTTAAAATTATTAAAGGCGTCTTCT-AGTGAAAAATGCATTTAATATTCTACTATTCAAATTT
* * * *
24487276 TAATACGGTTAGTGAAAGCGTTTATTTTAGAAAAAATACCTTCACTGA-TTTCATTTAATTTATG
65 TAAGACAGTTAGTGAAAGCATTTATTTTAGAAAAAATACCTTCACTAATTTTCATTTAATTTATG
* * *
24487340 TACATAATTATTGAAGGCGTTTTTTGAGAATAAACACCTTTAATAATTTTATTTTAAAA
130 TACATAATTATTGAAAGCGTTTTTT-AGAACAAACACCTTCAATAATTTTATTTTAAAA
* * * * *
24487399 TTTTTAAAATTATTAAAAGCGTCTTCTAGTGAAAAACGCATTCAATATAT-TAGTATTCGAATTT
1 TTTTTAAAATTATTAAAGGCGTCTTCTAGTGAAAAATGCATTTAATAT-TCTACTATTCAAATTT
* * * * *
24487463 TAAGACAGTTAGTGAAGGCATTTATTTCAAAAAAAATACCTTTAATAATTTT
65 TAAGACAGTTAGTGAAAGCATTTATTTTAGAAAAAATACCTTCACTAATTTT
24487515 TTAAAACTTT
Statistics
Matches: 253, Mismatches: 44, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
186 38 0.15
187 200 0.79
188 10 0.04
189 5 0.02
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (187 bp):
TTTTTAAAATTATTAAAGGCGTCTTCTAGTGAAAAATGCATTTAATATTCTACTATTCAAATTTT
AAGACAGTTAGTGAAAGCATTTATTTTAGAAAAAATACCTTCACTAATTTTCATTTAATTTATGT
ACATAATTATTGAAAGCGTTTTTTAGAACAAACACCTTCAATAATTTTATTTTAAAA
Found at i:24488316 original size:179 final size:176
Alignment explanation
Indices: 24488010--24488351 Score: 501
Period size: 179 Copynumber: 1.9 Consensus size: 176
24488000 TTTTTTGTAG
24488010 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTTCAAGGAAA
* * *
24488075 ATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTATTTCTGAGGAAAATT
66 ATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGGAA-TATTTATTTCTAAGGAAAATT
24488140 GATACTTTCAACTCTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
128 GATACTTTCAACTCTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
* *
24488189 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTT-ATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTTGA-TTTTC----A
*
24488253 AGGAAAATTGATACTTTTAACTTTTCCCTAAAAATA-TTTTTTGGAA-ATTTATTTCTAAGGAAA
60 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAATATTTATTTCTAAGGAAA
* * *
24488316 ATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTT
125 ATTGATACTTTCAACTCTTCCCCAAAAATATTTTTT
24488352 TGGAATTTTT
Statistics
Matches: 148, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
179 83 0.56
180 20 0.14
181 10 0.07
184 35 0.24
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (176 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAATATTTATTTCTAAGGAAAATTGAT
ACTTTCAACTCTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
Found at i:24488367 original size:122 final size:123
Alignment explanation
Indices: 24488010--24488381 Score: 555
Period size: 122 Copynumber: 3.1 Consensus size: 123
24488000 TTTTTTGTAG
24488010 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTT-TCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAATTT-ATTTCT-AAGGAA
* *
24488074 AATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTA--TTTC--TGA
62 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTATTTTTCTTTAA
*
24488132 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATT
*
24488197 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAA--ATTTATTTTTCTTTTAA
66 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTATTTTTC-TTTAA
* * *
24488254 GGAAAATTGATACTTTTAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATT
*
24488319 GATACTTTCAACTTTTCCCT-AAAA-ATTTTTTTTTGGAATTTTTTATTTTTATTTAA
66 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTATTTTTCTTTAA
*
24488375 AGAAAAT
1 GGAAAAT
24488382 AAAATAATAA
Statistics
Matches: 231, Mismatches: 11, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
117 4 0.02
119 57 0.25
120 29 0.13
121 15 0.06
122 126 0.55
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.47
Consensus pattern (123 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTATTTTTCTTTAA
Found at i:24488818 original size:19 final size:19
Alignment explanation
Indices: 24488794--24488831 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24488784 GGTGCCGAAT
24488794 TCTGGAAAATTCACCGGAA
1 TCTGGAAAATTCACCGGAA
* *
24488813 TCTGGAAATTTCTCCGGAA
1 TCTGGAAAATTCACCGGAA
24488832 GTTGGCCGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (19 bp):
TCTGGAAAATTCACCGGAA
Found at i:24489010 original size:25 final size:25
Alignment explanation
Indices: 24488964--24489011 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
24488954 AATCTGGAAA
*
24488964 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAGAAATTTCCAAAAAAATT
*
24488989 TTTCGCCA-AAATTTCTAAAAAAA
1 TTTC-CCAGAAATTTCCAAAAAAA
24489012 ATTCTCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (25 bp):
TTTCCCAGAAATTTCCAAAAAAATT
Found at i:24489759 original size:7 final size:7
Alignment explanation
Indices: 24489742--24489803 Score: 65
Period size: 7 Copynumber: 8.9 Consensus size: 7
24489732 CAACTCAACA
*
24489742 TTTTTAT
1 TTTTTGT
24489749 TTTTTGAT
1 TTTTTG-T
24489757 TTTTT-T
1 TTTTTGT
**
24489763 TTTTTAAA
1 TTTTT-GT
24489771 TTTTTGT
1 TTTTTGT
24489778 TTTTTGT
1 TTTTTGT
24489785 TTTTTGT
1 TTTTTGT
24489792 TTTTT-T
1 TTTTTGT
24489798 TTTTTG
1 TTTTTG
24489804 CCGAAGTTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
6 12 0.26
7 24 0.51
8 11 0.23
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (7 bp):
TTTTTGT
Found at i:24489878 original size:42 final size:42
Alignment explanation
Indices: 24489811--24490057 Score: 358
Period size: 42 Copynumber: 5.9 Consensus size: 42
24489801 TTGCCGAAGT
24489811 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
* * * *
24489853 TCCTTTCAACAGAGGCACCATGACTTT-GAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
* * *
24489894 TCCTCTCAACAGAGGTACCACGACTTTGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
*
24489936 TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
* *
24489978 TCCTCTAAATAGAGGTACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
24490020 TCCTCTAAACAGAGGCA--ACGGAACTTT-GAAAAATAAAT
1 TCCTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAATAAAT
24490058 ACTCCTAGAC
Statistics
Matches: 190, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.01
41 49 0.26
42 139 0.73
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (42 bp):
TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
Found at i:24490009 original size:84 final size:83
Alignment explanation
Indices: 24489811--24490057 Score: 372
Period size: 83 Copynumber: 3.0 Consensus size: 83
24489801 TTGCCGAAGT
* * * *
24489811 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTTTCAACAGAGGCACCATGA
1 TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
*
24489876 CTTTGAAAAGTAAATTGC
66 CTTTGAAAAATAAATTGC
* * *
24489894 TCCTCTCAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
24489959 CTTTGGAAAAATAAATTGC
66 CTTT-GAAAAATAAATTGC
*
24489978 TCCTCTAAATAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGG
1 TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC-G
24490041 AACTTTGAAAAATAAAT
65 -ACTTTGAAAAATAAAT
24490058 ACTCCTAGAC
Statistics
Matches: 149, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
82 2 0.01
83 74 0.50
84 73 0.49
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (83 bp):
TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGAAAAATAAATTGC
Found at i:24491307 original size:8 final size:8
Alignment explanation
Indices: 24491294--24491369 Score: 79
Period size: 8 Copynumber: 9.6 Consensus size: 8
24491284 TTTGGTTCTC
24491294 TTTTTTCA
1 TTTTTTCA
24491302 TTTTTTCA
1 TTTTTTCA
24491310 TTTTTTCA
1 TTTTTTCA
24491318 TTTTTTCA
1 TTTTTTCA
*
24491326 TTTTTTCCC
1 TTTTTT-CA
24491335 TTTTTT--
1 TTTTTTCA
*
24491341 TTTTTT-T
1 TTTTTTCA
24491348 TTTTTTC-
1 TTTTTTCA
24491355 TCTTTTCTCA
1 T-TTTT-TCA
24491365 TTTTT
1 TTTTT
24491370 CATCCAGTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
6 6 0.10
7 7 0.11
8 34 0.56
9 13 0.21
10 1 0.02
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:24495274 original size:60 final size:60
Alignment explanation
Indices: 24495160--24495522 Score: 468
Period size: 60 Copynumber: 6.0 Consensus size: 60
24495150 TTTTTTGTAG
*
24495160 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTT-ATTTTCAA
24495221 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTT-ATTTTCAA
* * * * *
24495281 GGAAAATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTAT-TTTC-AA
* *
24495343 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATA--TTTTTTGGAAA-TTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTATTTTC-AA
*
24495400 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAA-TTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTT-GAAATTTTA-TTTTC----A
24495464 A
60 A
* * *
24495465 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTTTTTATTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAA-ATTTTATTTT
24495523 TATTTAAAGA
Statistics
Matches: 271, Mismatches: 18, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
57 39 0.14
59 9 0.03
60 76 0.28
61 53 0.20
62 37 0.14
64 3 0.01
65 50 0.18
66 4 0.01
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.48
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTATTTTCAA
Found at i:24495376 original size:122 final size:120
Alignment explanation
Indices: 24495147--24495515 Score: 516
Period size: 122 Copynumber: 3.0 Consensus size: 120
24495137 GGAAAAAATG
* * *
24495147 AATTTT-TTTGTAGGGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTTT-GAAAT
1 AATTTTATTTCTAAGGAAAATTGATACTTTCAA-TTTTTCCCTAAAAATATTTTTTTTTGGAATT
*
24495209 TTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGA
65 TTTTATTTT-AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGA
24495266 AATTTTGATTT-TCAAGGAAAATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTTTTGGAAT
1 AATTTT-ATTTCT-AAGGAAAATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTTTTGGAAT
* * *
24495330 TTTTTATTTCTGAGGAAAATTGATACTTTCAACTCTTCCCCAAAAATA-TTTTTTGGA
64 TTTTTATTT-TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGA
*
24495387 AA-TTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATT
1 AATTTTATTTCTAAGGAAAATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTTTTGG-AA--
* * *
24495451 TATTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGG
63 T-TTTTTATTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGA
24495510 AATTTT
1 AATTTT
24495516 TTATTTTTAT
Statistics
Matches: 224, Mismatches: 13, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
119 57 0.25
120 15 0.07
121 49 0.22
122 82 0.37
123 18 0.08
124 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.48
Consensus pattern (120 bp):
AATTTTATTTCTAAGGAAAATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTTTTGGAATTT
TTTATTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGA
Found at i:24495976 original size:19 final size:19
Alignment explanation
Indices: 24495952--24495996 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
24495942 GAACACCGGT
*
24495952 GCCGGATTCTGGAAAATTC
1 GCCGGAATCTGGAAAATTC
*
24495971 GCCGGAATCTGGAAATTTC
1 GCCGGAATCTGGAAAATTC
24495990 GCCGGAA
1 GCCGGAA
24495997 GTTGGCCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (19 bp):
GCCGGAATCTGGAAAATTC
Found at i:24496089 original size:31 final size:31
Alignment explanation
Indices: 24496051--24496109 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
24496041 TGGGCACTTC
* *
24496051 GTCGAAAACTTCAAAG-TTGGCCGGAATTGTA
1 GTCGAAAAATTC-AAGTTTCGCCGGAATTGTA
24496082 GTCGAAAAATTCAAGTTTCGCCGGAATT
1 GTCGAAAAATTCAAGTTTCGCCGGAATT
24496110 TTCGTCGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (31 bp):
GTCGAAAAATTCAAGTTTCGCCGGAATTGTA
Found at i:24496164 original size:25 final size:25
Alignment explanation
Indices: 24496128--24496175 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
24496118 AATCTGGAAA
24496128 TTTCCCAGAAATTTCCAAAAAAATT
1 TTTCCCAGAAATTTCCAAAAAAATT
*
24496153 TTTCGCCA-AAATTTCTAAAAAAA
1 TTTC-CCAGAAATTTCCAAAAAAA
24496176 ATTCTTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (25 bp):
TTTCCCAGAAATTTCCAAAAAAATT
Found at i:24497432 original size:186 final size:182
Alignment explanation
Indices: 24496828--24497837 Score: 983
Period size: 187 Copynumber: 5.4 Consensus size: 182
24496818 GGTGTCTACA
* * * ** *
24496828 TACATAATTATTGAAGGCATATTTTGAGAATAAATGCTTTCAATAATTTTCTCTT-AAAATTTTT
1 TACATAATTATTGAAGGCATTTTTTAAGAACAAACACCTTCAATAATTTT-T-TTAAAAATTTTT
* * *
24496892 AAGATTATTAAAGGCATCTT-TCAGTGAAAAATGCCTTTAATATTCCACTACTCAAATTTTAATA
64 -AGATTATTAAAGGCATCTTCT-AGTGAAAAATGCCTTCAATATTTCACTACTCAAATTTTAAGA
* * * * *
24496956 CGGTTAAATGAAGGCATTTATTCTAGAAAAATGCCTTCACTGATTTCATTTAATTTATG
127 CGGTT-AGTGAAGGCATTTATTCTAAAAAAATACCTTCAAT-AATTCATTTAATTT-TG
* * * * * *
24497015 TACATAATTATTGAATGCGTTTTTTAAGAATAAACACCTTTAACAATTTTATTTTAAAATTTTTT
1 TACATAATTATTGAAGGCATTTTTTAAGAACAAACACCTTCAATAA-TTT-TTTTAAAAATTTTT
* * * * * **
24497080 AGATTATTAAAGGCGTCTTCTAGTGAAAAACGCCTTCAATATATCAGTACTCAAAATTTAAGATA
64 AGATTATTAAAGGCATCTTCTAGTGAAAAATGCCTTCAATATTTCACTACTCAAATTTTAAGACG
* * **
24497145 GTTAGTGAAGGCATTTATTTCAAAAAAAATACTTTCAATAAATTTTTTTAAATTTTG
129 GTTAGTGAAGGCATTTA-TTCTAAAAAAATACCTTCAAT-AATTCATTT-AATTTTG
* * *
24497202 TACATAATTATTGGAGGTATTTTTTGAGAACAAACACCTTCAATAATTTTTTTAAAAATTTTGTA
1 TACATAATTATTGAAGGCATTTTTTAAGAACAAACACCTTCAATAATTTTTTTAAAAATTTT-TA
** * *
24497267 GGATTATTAAAGGTGTCTT-TCAGTGAAAAATACCTTCAATATTTCACTACTCAAATTTTAAGAT
65 -GATTATTAAAGGCATCTTCT-AGTGAAAAATGCCTTCAATATTTCACTACTCAAATTTTAAGAC
* * * *
24497331 GGTTAGTGAAGGCGTTTATTCTAAAAAAATGCCTTCACTTATTCCATTTAATTTATG
128 GGTTAGTGAAGGCATTTATTCTAAAAAAATACCTTCAATAATT-CATTTAATTT-TG
* *
24497388 TACATAATTATTGAAGGCATTTTTTCAGAACAAAC-CCATTCAATATTTTTATTTTAAAAATTTT
1 TACATAATTATTGAAGGCATTTTTTAAGAACAAACACC-TTCAATA-ATTT-TTTTAAAAATTTT
* * * * *
24497452 TAAGAATATTAAAGGTATCTTCTAGTGAAAAA-GCTTTCAATATATT-AGTACTTAAATTTTAAG
63 T-AGATTATTAAAGGCATCTTCTAGTGAAAAATGCCTTCAATAT-TTCACTACTCAAATTTTAAG
* * * **
24497515 AGGGTTAGTGAAGGCATTTATTCCATAAAAACT-CCTTCAATAATTTTTTTAAAATTTTG
126 ACGGTTAGTGAAGGCATTTATTCTA-AAAAAATACCTTCAATAATTCATTT--AATTTTG
* * *
24497574 TACATAATTATTAAAGGTATTTTTTAAGAACAAACGCCTTCAATAATTTTTTTAAAAATTTTTTT
1 TACATAATTATTGAAGGCATTTTTTAAGAACAAACACCTTCAATAATTTTTTTAAAAA--TTTTT
* * * * * * * *
24497639 GAGATAATTAAAGGCATCTTCTAGTGTAAAATGCATTTAATATTCCACTATTTAAATTTTAATAC
64 -AGATTATTAAAGGCATCTTCTAGTGAAAAATGCCTTCAATATTTCACTACTCAAATTTTAAGAC
* * * * **
24497704 GGTTAGTGAATGCATTTATTTTAGAAAAATACATTCGTTAATTCATTTTAATTTTTG
128 GGTTAGTGAAGGCATTTATTCTAAAAAAATACCTTCAATAATTCA-TTTAA-TTTTG
** *
24497761 TACATAATTATTGAAGGTGTTTTTT-AGAACAAACGCCTTCAATAATTTCTTTTTAAAAAATTTT
1 TACATAATTATTGAAGGCATTTTTTAAGAACAAACACCTTCAATAA-TT-TTTTT-AAAAATTTT
* *
24497825 GAGATTAGTAAAG
63 TAGATTATTAAAG
24497838 CACTATTTTA
Statistics
Matches: 689, Mismatches: 103, Indels: 63
0.81 0.12 0.07
Matches are distributed among these distances:
184 9 0.01
185 28 0.04
186 246 0.36
187 359 0.52
188 41 0.06
189 6 0.01
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (182 bp):
TACATAATTATTGAAGGCATTTTTTAAGAACAAACACCTTCAATAATTTTTTTAAAAATTTTTAG
ATTATTAAAGGCATCTTCTAGTGAAAAATGCCTTCAATATTTCACTACTCAAATTTTAAGACGGT
TAGTGAAGGCATTTATTCTAAAAAAATACCTTCAATAATTCATTTAATTTTG
Found at i:24497532 original size:373 final size:370
Alignment explanation
Indices: 24496828--24497824 Score: 1272
Period size: 373 Copynumber: 2.7 Consensus size: 370
24496818 GGTGTCTACA
* * * * *
24496828 TACATAATTATTGAAGGCATATTTTGAGAATAAATGCTTTCAATAATTTTCTCTT-AAAATTTTT
1 TACATAATTATTGAAGGTATTTTTTGAGAACAAACGCCTTCAATAATTTT-T-TTAAAAATTTTT
*
24496892 AAGATTATTAAAGGCATCTTTCAGTGAAAAATGCCTTTAATATTCCACTACTCAAATTTTAATAC
64 AGGATTATTAAAGGCATCTTTCAGTGAAAAATGCCTTTAATATTCCACTACTCAAATTTTAATAC
* *
24496957 GGTTAAATGAAGGCATTTATTCTAGAAAAATGCCTTCACTGATTTCATTTAATTTATGTACATAA
129 GGTT-AGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTTA-TTCATTTAATTTATGTACATAA
* * * * * * *
24497022 TTATTGAATGCGTTTTTTAAGAATAAACACCTTTAACAATTTTATTTT-AAAATTTTTTAGATTA
192 TTATTGAAGGCGTTTTTT-AGAACAAACACCTTCAATATTTTTATTTTAAAAATTTTTAAGAATA
* *
24497086 TTAAAGGCGTCTTCTAGTGAAAAACGCCTTCAATATATCAGTACTCAAAATTTAAGATAGTTAGT
256 TTAAAGGCATCTTCTAGTGAAAAACGCCTTCAATATATCAGTACTCAAAATTTAAGAGAGTTAGT
* *
24497151 GAAGGCATTTATTTCAAAAAAAATACTTTCAATAAATTTTTTT-AAATTTTG
321 GAAGGCATTTATTCCAAAAAAAAT-CCTTCAAT-AATTTTTTTAAAATTTTG
* *
24497202 TACATAATTATTGGAGGTATTTTTTGAGAACAAACACCTTCAATAATTTTTTTAAAAATTTTGTA
1 TACATAATTATTGAAGGTATTTTTTGAGAACAAACGCCTTCAATAATTTTTTTAAAAATTTT-TA
** * * * * *
24497267 GGATTATTAAAGGTGTCTTTCAGTGAAAAATACCTTCAATATTTCACTACTCAAATTTTAAGATG
65 GGATTATTAAAGGCATCTTTCAGTGAAAAATGCCTTTAATATTCCACTACTCAAATTTTAATACG
* *
24497332 GTTAGTGAAGGCGTTTATTCTAAAAAAATGCCTTCACTTATTCCATTTAATTTATGTACATAATT
130 GTTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTTATT-CATTTAATTTATGTACATAATT
*
24497397 ATTGAAGGCATTTTTTCAGAACAAAC-CCATTCAATATTTTTATTTTAAAAATTTTTAAGAATAT
194 ATTGAAGGCGTTTTTT-AGAACAAACACC-TTCAATATTTTTATTTTAAAAATTTTTAAGAATAT
* * * * * *
24497461 TAAAGGTATCTTCTAGTGAAAAA-GCTTTCAATATATTAGTACTTAAATTTTAAGAGGGTTAGTG
257 TAAAGGCATCTTCTAGTGAAAAACGCCTTCAATATATCAGTACTCAAAATTTAAGAGAGTTAGTG
* *
24497525 AAGGCATTTATTCCATAAAAACTCCTTCAATAATTTTTTTAAAATTTTG
322 AAGGCATTTATTCCAAAAAAAATCCTTCAATAATTTTTTTAAAATTTTG
* * *
24497574 TACATAATTATTAAAGGTATTTTTTAAGAACAAACGCCTTCAATAATTTTTTTAAAAATTTTTTT
1 TACATAATTATTGAAGGTATTTTTTGAGAACAAACGCCTTCAATAATTTTTTTAAAAA-TTTTTA
* * * * *
24497639 GAGATAATTAAAGGCATC-TTCTAGTGTAAAATGCATTTAATATTCCACTATTTAAATTTTAATA
65 G-GATTATTAAAGGCATCTTTC-AGTGAAAAATGCCTTTAATATTCCACTACTCAAATTTTAATA
* * * * * *
24497703 CGGTTAGTGAATGCATTTATTTTAGAAAAATACATTC-GTTAATTCATTTTAATTTTTGTACATA
128 CGGTTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTT-ATTCA-TTTAATTTATGTACATA
* * * *
24497767 ATTATTGAAGGTGTTTTTTAGAACAAACGCCTTCAATAATTTCT-TTTTAAAAAATTTT
191 ATTATTGAAGGCGTTTTTTAGAACAAACACCTTCAAT-ATTTTTATTTTAAAAATTTTT
24497825 GAGATTAGTA
Statistics
Matches: 541, Mismatches: 69, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
371 9 0.02
372 112 0.21
373 279 0.52
374 141 0.26
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (370 bp):
TACATAATTATTGAAGGTATTTTTTGAGAACAAACGCCTTCAATAATTTTTTTAAAAATTTTTAG
GATTATTAAAGGCATCTTTCAGTGAAAAATGCCTTTAATATTCCACTACTCAAATTTTAATACGG
TTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTTATTCATTTAATTTATGTACATAATTAT
TGAAGGCGTTTTTTAGAACAAACACCTTCAATATTTTTATTTTAAAAATTTTTAAGAATATTAAA
GGCATCTTCTAGTGAAAAACGCCTTCAATATATCAGTACTCAAAATTTAAGAGAGTTAGTGAAGG
CATTTATTCCAAAAAAAATCCTTCAATAATTTTTTTAAAATTTTG
Found at i:24502602 original size:305 final size:303
Alignment explanation
Indices: 24501991--24502710 Score: 735
Period size: 305 Copynumber: 2.4 Consensus size: 303
24501981 AATATCAAAA
* * * * * * *
24501991 ATATTTTTTTGATGGGATTAATGAA-TGCATTTTTAGCAAGAAAACGTCTTGAATCATCCCTAAT
1 ATATTTTTTT-AT-GGATT-ATTAAGGGCATATTTAGCAAGAAAACGCCTAGAATAATCCCTAAC
* * *
24502055 AAAATGTTATTGAAGGTATTTTTAACCAAAATCGCCTTCAATAATCTCATCTAAAAATATATTAT
63 AAAATGTTATTGAAGGTATTTTTAACCAAAATCGCATTCAATAATCCCACCTAAAAATATATTAT
* * * * *
24502120 GTGGAATAACAAAGGCGTTTTGGGAGAAAAACGCCTTTAAGAATCCATTTCAAATATTTTATATA
128 GTGGAATAACAAAGGCATTTTGGAAAAAAAACACCTTAAAGAATCCATTTCAAATATTTTATATA
* * * * * * *
24502185 GATTATTGAAGTCATTTTTAACAAAAACTGCCTTCAATAATTTCTATTAAAAATTTATTGATTGG
193 GATTATTGAAGGCATTTTTAAAAAAAACTACCTTCAATAATTACTACTAAAAATTAATTGATTGA
24502250 ATTATTGAAAGCACTTTCACCTAAAAATGCTTTCAAGAAATCATTTC
258 ATTATTGAAAGCACTTTCACCTAAAAA-GCTTTCAAGAAATCATTTC
* *
24502297 ATATTTTTTTATGGTATTATTAAGGGCATATTTAGCAAGAAAATGCCTAGAATAATCCCTAACAG
1 ATATTTTTTTATGG-ATTATTAAGGGCATATTTAGCAAGAAAACGCCTAGAATAATCCCTAACAA
* * *
24502362 AATGTTATTGAAGGTGCTTTTT-ACCAAAATCGCATTCAATAATCCCACCTAAAAATTTATTGTG
65 AATGTTATTGAAGGT-ATTTTTAACCAAAATCGCATTCAATAATCCCACCTAAAAATATATTATG
** * * * * * *
24502426 TGGAATATTAAAGGTATTTTAGGTAAAAAAAACACCTTAAAGAGTCCGTTTCAACTTTTTTGTAT
129 TGGAATAACAAAGGCATTTT-GG-AAAAAAAACACCTTAAAGAATCCATTTCAAATATTTTATAT
* *
24502491 GGATTATTGAAGGCA-TTTTAAAAAAAATTACCTTCAATAA-TACTAGCTAAAAATTAATTGAAT
192 AGATTATTGAAGGCATTTTTAAAAAAAACTACCTTCAATAATTACTA-CTAAAAATTAATTG-AT
** * *
24502554 T-AATTATTGAAAGTGCTTTCA-GTCAAAAA-CATTTCAA-TAATCCATTTC
255 TGAATTATTGAAAGCACTTTCACCT-AAAAAGC-TTTCAAGAAAT-CATTTC
* ** * * * * * *
24502602 ATATTTTTCGTATGGATTATTAAGGGTGTTTTTTTGC-TGAAAACATCTTA-AATAATCTCTAAC
1 ATATTTTT-TTATGGATTATTAAGGG-CATATTTAGCAAGAAAAC-GCCTAGAATAATCCCTAAC
* *
24502665 AAAATGTTATTGAAGGCATTTTTGAA--AAAATCGCTTTCAATAATCC
63 AAAATGTTATTGAAGGTATTTTT-AACCAAAATCGCATTCAATAATCC
24502711 GATCATTTCA
Statistics
Matches: 344, Mismatches: 55, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
304 34 0.10
305 174 0.51
306 88 0.26
307 48 0.14
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (303 bp):
ATATTTTTTTATGGATTATTAAGGGCATATTTAGCAAGAAAACGCCTAGAATAATCCCTAACAAA
ATGTTATTGAAGGTATTTTTAACCAAAATCGCATTCAATAATCCCACCTAAAAATATATTATGTG
GAATAACAAAGGCATTTTGGAAAAAAAACACCTTAAAGAATCCATTTCAAATATTTTATATAGAT
TATTGAAGGCATTTTTAAAAAAAACTACCTTCAATAATTACTACTAAAAATTAATTGATTGAATT
ATTGAAAGCACTTTCACCTAAAAAGCTTTCAAGAAATCATTTC
Found at i:24507474 original size:12 final size:12
Alignment explanation
Indices: 24507457--24507481 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24507447 ACCCCTGTTA
24507457 TATATATATATG
1 TATATATATATG
24507469 TATATATATATG
1 TATATATATATG
24507481 T
1 T
24507482 GGGGTTTAGA
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:24507795 original size:34 final size:34
Alignment explanation
Indices: 24507757--24507833 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 34
24507747 ATTAGCGACG
** *
24507757 TTTGTATCTGGAAGATGTCACTATATTAGCAGTA
1 TTTGTATCTAAAAAATGTCACTATATTAGCAGTA
*** *
24507791 TTTGTATCTAAAAAATGTTGTTATTTTAGCAGTA
1 TTTGTATCTAAAAAATGTCACTATATTAGCAGTA
24507825 TTTGTATCT
1 TTTGTATCT
24507834 TTGAGACACC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (34 bp):
TTTGTATCTAAAAAATGTCACTATATTAGCAGTA
Found at i:24509527 original size:140 final size:140
Alignment explanation
Indices: 24509335--24509593 Score: 312
Period size: 140 Copynumber: 1.9 Consensus size: 140
24509325 AAATAGTCCC
* * *
24509335 AAATAGACATAAACGATAACTTTTTCACTCATATCAATCATAGAAACCAAGTT-TAATCAATCGG
1 AAATAGACATAAACAATAACTTTTTCACTCATATCAATCATAGAAACCAAGTTCAAAACAATC-G
* * * * *
24509399 ATAAGTTTAATATCAAGT-ATTGAAGCTATCCAAACTGTTTAAATAGAGCAATAACAACAAATTT
65 ATAAGTTTAATATC-AGTGATTGAAACTATCAAAACTATTAAAATAGAACAATAACAACAAATTT
24509463 GTATTTTTACCT
129 GTATTTTTACCT
* * * **
24509475 AAATAGACATAAACAATAACTTTTTCA-TACATATC-ATC-TGTGTCAACTAAGTTCAAAACTTT
1 AAATAGACATAAACAATAACTTTTTCACT-CATATCAATCAT-AG-AAACCAAGTTCAAAACAAT
*
24509537 CGATAAGTTTAATATCATTGATTGAAACTATCAAAACTATTAAAATAGAACAATAAC
63 CGATAAGTTTAATATCAGTGATTGAAACTATCAAAACTATTAAAATAGAACAATAAC
24509594 TATTAATTTG
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
138 1 0.01
139 7 0.07
140 87 0.87
141 5 0.05
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (140 bp):
AAATAGACATAAACAATAACTTTTTCACTCATATCAATCATAGAAACCAAGTTCAAAACAATCGA
TAAGTTTAATATCAGTGATTGAAACTATCAAAACTATTAAAATAGAACAATAACAACAAATTTGT
ATTTTTACCT
Found at i:24513964 original size:187 final size:184
Alignment explanation
Indices: 24513512--24514662 Score: 978
Period size: 187 Copynumber: 6.2 Consensus size: 184
24513502 TTAAAAGAAT
* * * * * * *
24513512 TTATTAAAGGCATCTTCTAGTGCAAAATGCCTTCAATATTCTACTACTTAAAATTTAAGATGATT
1 TTATTAAAGGCCTCTTCTAGTGAAAAACGCCTTCAATATTC-ACTACTCAAATTTTAAAACGATT
* * * *
24513577 AGTAAAGGTGTTTATTCTAGAAAAATGCATTCACTAATTCTTTTCAATTTATGTACATAATTATT
65 AGTGAAGGCGTTTATTCTAGAAAAATGCATTCAATATTTCTTTT-AATTTATGTACATAATTATT
* * *
24513642 AAAGGCA-TTTTTAAGAACAAACGCTTTCAATAA-TTTTTTTAAAAATTTTTGAGA
129 GAAGGCATTTTTTAAGAACAAACACCTTCAATAATTTTTTTTAAAAATTTTTGAGA
* * * * * * * *
24513696 TTATTGAATGCGTCTT-TCAATAAAAAACGTCTTTAATATTCCACTACTCAAATTTTAATACGAT
1 TTATTAAAGGCCTCTTCT-AGTGAAAAACGCCTTCAATATT-CACTACTCAAATTTTAAAACGAT
* * * * * * *
24513760 CAGTGAAGGCATTTATTCTAGAAAAACGCTTTCATTGATTTCATTTAATTTATGTATATAATTAT
64 TAGTGAAGGCGTTTATTCTAGAAAAATGCATTCAAT-ATTTCTTTTAATTTATGTACATAATTAT
*
24513825 TGAAGGCATTTTTTAAGAACAAACACCTTAAATAATTTTATTTTAAAAATTTTT-AGGA
128 TGAAGGCATTTTTTAAGAACAAACACCTTCAATAATTTT-TTTTAAAAATTTTTGA-GA
* * * *
24513883 TTATTAAAGGCCTATTCTAGTGAAAAACACCTTCAATATATCAGTACTTAAATTTTAAAAC-AGT
1 TTATTAAAGGCCTCTTCTAGTGAAAAACGCCTTCAATAT-TCACTACTCAAATTTTAAAACGA-T
* * * * *
24513947 TAGTGAAGGCGTTTATTCCAAAAAAAAGCCTTCAATCATTTCTTTTAATTT-TGTATATAATTAT
64 TAGTGAAGGCGTTTATTCTAGAAAAATGCATTCAAT-ATTTCTTTTAATTTATGTACATAATTAT
**
24514011 TGAAGG-AGTTTTTTGAA-AACAAACACCTTCAATAATTTTTTTT-AATTTTTTTGA-A
128 TGAAGGCA-TTTTTT-AAGAACAAACACCTTCAATAATTTTTTTTAAAAATTTTTGAGA
* ** * * *
24514066 TTATTAAAAGTGTCTTAC-AGTGAAAAATGGCTTCAATATTTCACCACTCAAATTTTAAAACGAT
1 TTATTAAAGGCCTCTT-CTAGTGAAAAACGCCTTCAATA-TTCACTACTCAAATTTTAAAACGAT
* * * * *
24514130 TAGTGAAAG-GTTTATTCTAGAAAAATACATTCACTGATTCCATTTAATTTATGTACATAATTAT
64 TAGTGAAGGCGTTTATTCTAGAAAAATGCATTCAAT-ATTTCTTTTAATTTATGTACATAATTAT
* * * ** * *
24514194 TGAAAGCATTTTTTGAGAATAAATGCCTT--TTAATTTTTGCATTTTAAAAATTTTTGGGA
128 TGAAGGCATTTTTTAAGAACAAACACCTTCAATAA-TTTT---TTTTAAAAATTTTTGAGA
* * * * * * * * * *
24514253 TTATTGAAGGCGTCTTTTAGTGATAAACACCTTCAATATATTAGTACTTAAAATTTAAGAC-AGT
1 TTATTAAAGGCCTCTTCTAGTGAAAAACGCCTTCAATAT-TCACTACTCAAATTTTAAAACGA-T
* * * *
24514317 TAGTGAAGGTGTTTATTCCAGAAAAACT-CTTTCAATAATTCTTTTTAAATTT-TGTACATAATT
64 TAGTGAAGGCGTTTATTCTAGAAAAA-TGCATTCAATATTTC-TTTT-AATTTATGTACATAATT
* * * *
24514380 ATTGAAGGTATTTTTTTAGAACAAATACCTTCAATAAATTTTTTTAAAAAATTTTTGAGA
126 ATTGAAGGCATTTTTTAAGAACAAACACCTTCAAT-AATTTTTTTTAAAAATTTTTGAGA
* * * * * * * *
24514440 TTACTAAAGGCATCTTCTAGTAAAAAACGCCTTCAGTATTTTACTACTCAAATTTTAATATGGTT
1 TTATTAAAGGCCTCTTCTAGTGAAAAACGCCTTCAATA-TTCACTACTCAAATTTTAAAACGATT
* * * ** * *
24514505 AGTGAAGGCGTTTATTATATAAAAATGCCTTC-ATAATTGGTTTTCATTTTTGTACATAATTATT
65 AGTGAAGGCGTTTATTCTAGAAAAATGCATTCAAT-ATTTCTTTTAATTTATGTACATAATTATT
** *
24514569 GAA-G-ATGTTTTTGAA-AACAAATGCCTTTAATAATTTTCTTTTAAAAATTTTTGAGA
129 GAAGGCAT-TTTTT-AAGAACAAACACCTTCAATAATTTT-TTTTAAAAATTTTTGAGA
* * * *
24514625 TTATTAAAAGCGTCTTTTAGT-ATAAAATGCCTTCAATA
1 TTATTAAAGGCCTCTTCTAGTGA-AAAACGCCTTCAATA
24514663 ATGTTAAGGG
Statistics
Matches: 780, Mismatches: 143, Indels: 87
0.77 0.14 0.09
Matches are distributed among these distances:
181 3 0.00
182 37 0.05
183 90 0.12
184 121 0.16
185 112 0.14
186 86 0.11
187 254 0.33
188 64 0.08
189 6 0.01
190 5 0.01
191 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (184 bp):
TTATTAAAGGCCTCTTCTAGTGAAAAACGCCTTCAATATTCACTACTCAAATTTTAAAACGATTA
GTGAAGGCGTTTATTCTAGAAAAATGCATTCAATATTTCTTTTAATTTATGTACATAATTATTGA
AGGCATTTTTTAAGAACAAACACCTTCAATAATTTTTTTTAAAAATTTTTGAGA
Found at i:24514268 original size:557 final size:556
Alignment explanation
Indices: 24513512--24514662 Score: 1314
Period size: 557 Copynumber: 2.1 Consensus size: 556
24513502 TTAAAAGAAT
* * * * * * *
24513512 TTATTAAAGGCATCTT-CTAGTGCAAAATGCCTTCAATATTCTACTACTTAAAATTTAAGATGAT
1 TTATTAAAAGCGTCTTAC-AGTGAAAAATGCCTTCAATATTCTACCACTCAAAATTTAAAACGAT
* *
24513576 TAGTAAAGGTGTTTATTCTAGAAAAATGCATTCACTAATTCTTTTCAATTTATGTACATAATTAT
65 TAGTAAAGGTGTTTATTCTAGAAAAATACATTCACTAATTCATTTCAATTTATGTACATAATTAT
*
24513641 TAAAGGCATTTTTAAGAACAAACGCTTTCAATAATTTTTTTAAAAATTTTTGAGATTATTGAATG
130 TAAAGGCATTTTTAAGAACAAACGCTTTCAATAATTTTTTTAAAAATTTTTGAGATTATTGAAGG
** * * *
24513706 CGTCTTTCAATAAAAAACGTCTTTAATAT-TCCACTACTCAAATTTTAATAC-GATCAGTGAAGG
195 CGTCTTTCAATAAAAAACACCTTCAATATAT-CACTACTCAAAATTTAAGACAG-TCAGTGAAGG
* * * *
24513769 CATTTATTCTAGAAAAACGCTTTCATTGATT-TCATTT-AATTTATGTATATAATTATTGAAGGC
258 CATTTATTCCAGAAAAACGCTTTCAATAATTCT-ATTTAAATTT-TGTACATAATTATTGAAGGC
* * *
24513832 ATTTTTTAAGAACAAACACCTTAAAT-AATTTTATTTTAAAAATTTTT-AGGATTATTAAAGGCC
321 ATTTTTTAAGAACAAACACCTTAAATAAATTTT-TTTAAAAAATTTTTGA-GATTACTAAAGGCA
* * *
24513895 TATTCTAGTGAAAAACACCTTCAATATATCAGTACTTAAATTTTAAAACAGTTAGTGAAGGCGTT
384 TATTCTAGTAAAAAACACCTTCAATATATCACTACTCAAATTTTAAAACAGTTAGTGAAGGCGTT
* * * *
24513960 TATTCCAAAAAAAAGCCTTCAATCATTTCTTTT-AATTTTGTATATAATTATTGAAGGA-GTTTT
449 TATTACAAAAAAAAGCCTTC-ATAATTGCTTTTCAATTTTGTACATAATTATTGAA-GATG-TTT
**
24514023 TTGAAAACAAACACCTTCAATAATTTT-TTTT-AATTTTTTTGA-A
511 TTGAAAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGAGA
* * *
24514066 TTATTAAAAGTGTCTTACAGTGAAAAATGGCTTCAATATT-TCACCACTCAAATTTTAAAACGAT
1 TTATTAAAAGCGTCTTACAGTGAAAAATGCCTTCAATATTCT-ACCACTCAAAATTTAAAACGAT
*
24514130 TAGTGAAA-G-GTTTATTCTAGAAAAATACATTCACTGATTCCATTT-AATTTATGTACATAATT
65 TAGT-AAAGGTGTTTATTCTAGAAAAATACATTCACTAATT-CATTTCAATTTATGTACATAATT
* * * * * *
24514192 ATTGAAA-GCATTTTTTGAGAATAAATGCCTTTTAAT-TTTTGCATTTTAAAAATTTTTGGGATT
128 ATT-AAAGGCA-TTTTTAAGAACAAACG-CTTTCAATAATTT---TTTTAAAAATTTTTGAGATT
* * * * * * * *
24514255 ATTGAAGGCGTCTTTTAGTGATAAACACCTTCAATATATTAGTACTTAAAATTTAAGACAGTTAG
187 ATTGAAGGCGTCTTTCAATAAAAAACACCTTCAATATATCACTACTCAAAATTTAAGACAGTCAG
** * *
24514320 TGAAGGTGTTTATTCCAGAAAAACTCTTTCAATAATTCTTTTTAAATTTTGTACATAATTATTGA
252 TGAAGGCATTTATTCCAGAAAAACGCTTTCAATAATTCTATTTAAATTTTGTACATAATTATTGA
* * * *
24514385 AGGTATTTTTTTAGAACAAATACCTTCAATAAATTTTTTTAAAAAATTTTTGAGATTACTAAAGG
317 AGGCATTTTTTAAGAACAAACACCTTAAATAAATTTTTTTAAAAAATTTTTGAGATTACTAAAGG
* * * * * * **
24514450 CATCTTCTAGTAAAAAACGCCTTCAGTATTTTACTACTCAAATTTTAATATGGTTAGTGAAGGCG
382 CATATTCTAGTAAAAAACACCTTCAATATATCACTACTCAAATTTTAAAACAGTTAGTGAAGGCG
* * * * *
24514515 TTTATTATATAAAAATGCCTTCATAATTGGTTTTCATTTTTGTACATAATTATTGAAGATGTTTT
447 TTTATTACAAAAAAAAGCCTTCATAATTGCTTTTCAATTTTGTACATAATTATTGAAGATGTTTT
** *
24514580 TGAAAACAAATGCCTTTAATAATTTTCTTTTAAAAATTTTTGAGA
512 TGAAAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGAGA
**
24514625 TTATTAAAAGCGTCTTTTAGT-ATAAAATGCCTTCAATA
1 TTATTAAAAGCGTCTTACAGTGA-AAAATGCCTTCAATA
24514663 ATGTTAAGGG
Statistics
Matches: 498, Mismatches: 77, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
553 52 0.10
554 78 0.16
555 11 0.02
556 38 0.08
557 261 0.52
558 25 0.05
559 33 0.07
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (556 bp):
TTATTAAAAGCGTCTTACAGTGAAAAATGCCTTCAATATTCTACCACTCAAAATTTAAAACGATT
AGTAAAGGTGTTTATTCTAGAAAAATACATTCACTAATTCATTTCAATTTATGTACATAATTATT
AAAGGCATTTTTAAGAACAAACGCTTTCAATAATTTTTTTAAAAATTTTTGAGATTATTGAAGGC
GTCTTTCAATAAAAAACACCTTCAATATATCACTACTCAAAATTTAAGACAGTCAGTGAAGGCAT
TTATTCCAGAAAAACGCTTTCAATAATTCTATTTAAATTTTGTACATAATTATTGAAGGCATTTT
TTAAGAACAAACACCTTAAATAAATTTTTTTAAAAAATTTTTGAGATTACTAAAGGCATATTCTA
GTAAAAAACACCTTCAATATATCACTACTCAAATTTTAAAACAGTTAGTGAAGGCGTTTATTACA
AAAAAAAGCCTTCATAATTGCTTTTCAATTTTGTACATAATTATTGAAGATGTTTTTGAAAACAA
ACACCTTCAATAATTTTCTTTTAAAAATTTTTGAGA
Found at i:24514289 original size:370 final size:367
Alignment explanation
Indices: 24513512--24514650 Score: 1199
Period size: 370 Copynumber: 3.1 Consensus size: 367
24513502 TTAAAAGAAT
* * ** * * *
24513512 TTATTAAAGGCATCTTCTAGTGCA-AAATGCCTTCAATAT-TCTACTACTTAAAATTTAAGA-TG
1 TTATTAAAGGCGTCTTTTAGTG-ATAAACACCTTCAATATATC-AGTACTTAAAATTTAAAACAG
* * * * * * * *
24513574 ATTAGTAAAGGTGTTTATTCTAGAAAAATGCATTCACTAATTCTTTTCAATTTATGTACATAATT
64 -TTAGTGAAGGCGTTTATTCCAAAAAAAAGCCTTCAATAATTCTTTTAAATTT-TGTACATAATT
* * * *
24513639 ATTAAAGGCA-TTTTTAAGAACAAACGCTTTCAATAATTTTTTTAAAAATTTTTGAGATTATTGA
127 ATTGAAGGCATTTTTTAA-AACAAACACCTTCAATAATTTTTTTAAAAATTTTTGAGATTATTAA
* * * * * *
24513703 ATGCGTCTTTCAATAAAAAACGTCTTTAATATTCCACTACTCAAATTTTAATACGATCAGTG-AA
191 AAGCGTC-TTCAGTAAAAAACGCCTTCAATATTTCACTACTCAAATTTTAATACGATTAGTGAAA
* * * * *
24513767 GGCATTTATTCTAGAAAAACGCTTTCATTGATTTCATTTAATTTATGTATATAATTATTGAAGGC
255 GG--TTTATTCTAGAAAAATGCATTCA-TGATTCCATTTAATTTATGTACATAATTATTGAAAGC
* ** * *
24513832 ATTTTTTAAGAACAAACACCTTAAATAATTTT-ATTTTAAAAATTTTTAGGA
317 ATTTTTTGAGAACAAATGCCTTTAAT-ATTTTCATTTTAAAAATTTTTGGGA
* * * * *
24513883 TTATTAAAGGCCTATTCTAGTGAAAAACACCTTCAATATATCAGTACTTAAATTTTAAAACAGTT
1 TTATTAAAGGCGTCTTTTAGTGATAAACACCTTCAATATATCAGTACTTAAAATTTAAAACAGTT
* *
24513948 AGTGAAGGCGTTTATTCCAAAAAAAAGCCTTCAATCATTTCTTTT-AATTTTGTATATAATTATT
66 AGTGAAGGCGTTTATTCCAAAAAAAAGCCTTCAAT-AATTCTTTTAAATTTTGTACATAATTATT
* **
24514012 GAAGG-AGTTTTTTGAAAACAAACACCTTCAATAATTTTTTTTAATTTTTTTGA-ATTATTAAAA
130 GAAGGCA-TTTTTT-AAAACAAACACCTTCAATAATTTTTTTAAAAATTTTTGAGATTATTAAAA
* * * * * *
24514075 GTGTCTTACAGTGAAAAATGGCTTCAATATTTCACCACTCAAATTTTAAAACGATTAGTGAAAGG
193 GCGTCTT-CAGTAAAAAACGCCTTCAATATTTCACTACTCAAATTTTAATACGATTAGTGAAAGG
*
24514140 TTTATTCTAGAAAAATACATTCACTGATTCCATTTAATTTATGTACATAATTATTGAAAGCATTT
257 TTTATTCTAGAAAAATGCATTCA-TGATTCCATTTAATTTATGTACATAATTATTGAAAGCATTT
*
24514205 TTTGAGAATAAATGCCTTTTAAT-TTTTGCATTTTAAAAATTTTTGGGA
321 TTTGAGAACAAATGCC-TTTAATATTTT-CATTTTAAAAATTTTTGGGA
* * *
24514253 TTATTGAAGGCGTCTTTTAGTGATAAACACCTTCAATATATTAGTACTTAAAATTTAAGACAGTT
1 TTATTAAAGGCGTCTTTTAGTGATAAACACCTTCAATATATCAGTACTTAAAATTTAAAACAGTT
* * ** *
24514318 AGTGAAGGTGTTTATTCCAGAAAAACTCTTTCAATAATTCTTTTTAAATTTTGTACATAATTATT
66 AGTGAAGGCGTTTATTCCAAAAAAAAGCCTTCAATAATTC-TTTTAAATTTTGTACATAATTATT
* * * *
24514383 GAAGGTATTTTTTTAGAACAAATACCTTCAATAAATTTTTTTAAAAAATTTTTGAGATTACTAAA
130 GAAGGCA-TTTTTTAAAACAAACACCTTCAAT-AATTTTTTT-AAAAATTTTTGAGATTATTAAA
* * * * * * *
24514448 GGCATCTTCTAGTAAAAAACGCCTTCAGTATTTTACTACTCAAATTTTAATATGGTTAGTGAAGG
192 AGCGTCTTC-AGTAAAAAACGCCTTCAATATTTCACTACTCAAATTTTAATACGATTAGTGAAAG
* * * * *** * *
24514513 CGTTTATTATATAAAAATGCCTTCATAATTGGTTTTCATTTTTGTACATAATTATTG-AAG-ATG
256 -GTTTATTCTAGAAAAATGCATTCATGATTCCATTTAATTTATGTACATAATTATTGAAAGCAT-
* *
24514576 TTTTTGAAAACAAATGCCTTTAATAATTTTC-TTTTAAAAATTTTTGAGA
319 TTTTTGAGAACAAATGCCTTTAAT-ATTTTCATTTTAAAAATTTTTGGGA
*
24514625 TTATTAAAAGCGTCTTTTAGT-ATAAA
1 TTATTAAAGGCGTCTTTTAGTGATAAA
24514651 ATGCCTTCAA
Statistics
Matches: 647, Mismatches: 98, Indels: 46
0.82 0.12 0.06
Matches are distributed among these distances:
368 4 0.01
369 77 0.12
370 187 0.29
371 168 0.26
372 73 0.11
373 30 0.05
374 88 0.14
375 20 0.03
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (367 bp):
TTATTAAAGGCGTCTTTTAGTGATAAACACCTTCAATATATCAGTACTTAAAATTTAAAACAGTT
AGTGAAGGCGTTTATTCCAAAAAAAAGCCTTCAATAATTCTTTTAAATTTTGTACATAATTATTG
AAGGCATTTTTTAAAACAAACACCTTCAATAATTTTTTTAAAAATTTTTGAGATTATTAAAAGCG
TCTTCAGTAAAAAACGCCTTCAATATTTCACTACTCAAATTTTAATACGATTAGTGAAAGGTTTA
TTCTAGAAAAATGCATTCATGATTCCATTTAATTTATGTACATAATTATTGAAAGCATTTTTTGA
GAACAAATGCCTTTAATATTTTCATTTTAAAAATTTTTGGGA
Found at i:24519213 original size:305 final size:303
Alignment explanation
Indices: 24518568--24519213 Score: 657
Period size: 303 Copynumber: 2.1 Consensus size: 303
24518558 CATTTTTCAT
* *
24518568 AAGAAA-ATGCCTTGAATCATCCATAACAAAATGTTATTGAAGGCATTTTTAACCAAAACTACCT
1 AAGAAACA-GCCTTGAATAATCCATAACAAAATGTTATTGAAGGCATTTTTAACCAAAACCACCT
* * *
24518632 TCAATAATCTCATCTAAAAATATATTGTGTGGAATAACAAAGGCATTTTGGGACAAAAACGCTTT
65 TCAATAATCTCACCTAAAAATATATTGTGTGGAATAACAAAGGCATTTTGGGAAAAAAACGCCTT
* * * * *
24518697 TAAGAATCCATTTCAAATATTGTACATGGATTATTAAAGGTATTTTTACAAAACAACCTTCAATA
130 CAAGAATCCATTCCAAATATTGTACATGGATTATTAAAGGCATTTTTAAAAAACAACCTTAAATA
* ** *** * * * * *
24518762 GTTTCTGTTAAAAATTTATTGATTGGATAATTGGAAGTGCTTTCACCCAAAAACACCTTCAAGAA
195 ATACCAACTAAAAACTAATTAAATGGATAATTGGAAGTGCTTTCACCAAAAAACACCTTCAAGAA
* *
24518827 TCTGTTCTATATTTTTTATATGAATTATTAAGGGTATATTTAGC
260 TCCGTTCTATATTTTTTATATGAATTATTAAGGGTATATTTACC
* * * * * *
24518871 AAGAAAGAGCCTTGAATAATCCATAATAAAATGTTATTGATGGTATTTTTTACCAAAACCATCTT
1 AAGAAACAGCCTTGAATAATCCATAACAAAATGTTATTGAAGGCATTTTTAACCAAAACCACCTT
* ** * *
24518936 CAATAATCTCACCTAAAAATTTATTGTGTGGAATATTAAAGGCGTTTTAGGTAAAAAAACGCCTT
66 CAATAATCTCACCTAAAAATATATTGTGTGGAATAACAAAGGCATTTT-GGGAAAAAAACGCCTT
* * * * ** *
24519001 CAAGAATCCGTTCCAACTTTTTTTTATGGATTATTGAAGGCATTTTTAAAAAA-ATCACCTTAAA
130 CAAGAATCCATTCCAAATATTGTACATGGATTATTAAAGGCATTTTTAAAAAACA--ACCTTAAA
* * ** *
24519065 TAATACCAACTAAAAACTAATTAAATGGATTATT-GAAGGTGCTTTCGA-TAAAAAATGCCTTTA
193 TAATACCAACTAAAAACTAATTAAATGGATAATTGGAA-GTGCTTTC-ACCAAAAAACACCTTCA
* *
24519128 ATAATCCGTT-TCATATTTTTCGTATA-G-ATTATTAAGGGCGT-TTTTCTACC
256 AGAATCCGTTCT-ATATTTTT--TATATGAATTATTAA-GG-GTATATT-TACC
*
24519178 GA-AAACA-CCTTGAATAATCTC-TAACAAAATGTTATT
1 AAGAAACAGCCTTGAATAATC-CATAACAAAATGTTATT
24519214 AACATCTTAT
Statistics
Matches: 280, Mismatches: 50, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
303 100 0.36
304 60 0.21
305 98 0.35
306 12 0.04
307 10 0.04
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (303 bp):
AAGAAACAGCCTTGAATAATCCATAACAAAATGTTATTGAAGGCATTTTTAACCAAAACCACCTT
CAATAATCTCACCTAAAAATATATTGTGTGGAATAACAAAGGCATTTTGGGAAAAAAACGCCTTC
AAGAATCCATTCCAAATATTGTACATGGATTATTAAAGGCATTTTTAAAAAACAACCTTAAATAA
TACCAACTAAAAACTAATTAAATGGATAATTGGAAGTGCTTTCACCAAAAAACACCTTCAAGAAT
CCGTTCTATATTTTTTATATGAATTATTAAGGGTATATTTACC
Found at i:24522034 original size:21 final size:20
Alignment explanation
Indices: 24522010--24522056 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
24522000 GAAAATGAGA
24522010 AAAAAAAAGAAAAAAAGTAAG
1 AAAAAAAA-AAAAAAAGTAAG
*
24522031 AAAAGGAAAAAAAAAAGTAAG
1 AAAA-AAAAAAAAAAAGTAAG
24522052 AAAAA
1 AAAAA
24522057 GAATGACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAGTAAG
Found at i:24522034 original size:30 final size:31
Alignment explanation
Indices: 24522000--24522057 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
24521990 TACTTCATTT
*
24522000 GAAAATGAGAAAAAAAAAG-AA-AAAAAGTAA
1 GAAAAGGA-AAAAAAAAAGTAAGAAAAAGTAA
24522030 GAAAAGGAAAAAAAAAAGTAAGAAAAAG
1 GAAAAGGAAAAAAAAAAGTAAGAAAAAG
24522058 AATGACATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 9 0.36
31 6 0.24
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (31 bp):
GAAAAGGAAAAAAAAAAGTAAGAAAAAGTAA
Found at i:24524441 original size:15 final size:15
Alignment explanation
Indices: 24524423--24524451 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24524413 CTACAACCCA
24524423 AAAAAAAAAAAAACT
1 AAAAAAAAAAAAACT
24524438 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
24524452 ACAAAGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAAAACT
Found at i:24526218 original size:10 final size:10
Alignment explanation
Indices: 24526203--24526228 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24526193 AAAATTATCT
24526203 TTTTAATTAA
1 TTTTAATTAA
24526213 TTTTAATTAA
1 TTTTAATTAA
24526223 TTTTAA
1 TTTTAA
24526229 AATTTCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAATTAA
Found at i:24529746 original size:24 final size:23
Alignment explanation
Indices: 24529719--24529784 Score: 57
Period size: 25 Copynumber: 2.9 Consensus size: 23
24529709 ATTAGTGTAT
24529719 AAAATTTATATATTAATAATATG
1 AAAATTTATATATTAATAATATG
*
24529742 AAAA-ATATAATAATTTAATAA-ATG
1 AAAATTTAT-AT-A-TTAATAATATG
* *
24529766 AATATTTATAT-TTAGTAAT
1 AAAATTTATATATTAATAAT
24529785 TATTGTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
21 6 0.18
22 3 0.09
23 6 0.18
24 9 0.26
25 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (23 bp):
AAAATTTATATATTAATAATATG
Found at i:24532081 original size:2 final size:2
Alignment explanation
Indices: 24532074--24532099 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24532064 ACCCCTGGTT
24532074 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
24532100 CACATTACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24538280 original size:38 final size:38
Alignment explanation
Indices: 24538238--24538315 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
24538228 GTTGAGTTGT
* *
24538238 ATTGGATTAAGATGCATAAATTGAGGGGGAGTTTTGCC
1 ATTGGATTAAGATGCACAAATTGAAGGGGAGTTTTGCC
**
24538276 ATTGGATTGGGATGCACAAATTGAAGGGGAGTTTTGCC
1 ATTGGATTAAGATGCACAAATTGAAGGGGAGTTTTGCC
24538314 AT
1 AT
24538316 GCATTGTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.31
Consensus pattern (38 bp):
ATTGGATTAAGATGCACAAATTGAAGGGGAGTTTTGCC
Found at i:24540710 original size:62 final size:62
Alignment explanation
Indices: 24540636--24540836 Score: 176
Period size: 62 Copynumber: 3.2 Consensus size: 62
24540626 GACTACAAAA
* *
24540636 GCCTTCACTAATTCCCTCAAATTTTTT-GAAGAAATTTATTGAAAGCATTTTTTGCATAATAC
1 GCCTTCAATAATTCCCTC-AATTTTTTAGAAGAAATTTATTGAAGGCATTTTTTGCATAATAC
* * * * * * * * *
24540698 GCATTCAATAATTTCCTCCATTTTTATCAGAA-AAATATCAATGAAGGCAGTCTTCTAC-TAAAA
1 GCCTTCAATAATTCCCTCAATTTTT-T-AGAAGAAAT-TTATTGAAGGCA-TTTTTTGCAT-AAT
24540761 AC
61 AC
* ** *
24540763 GCCTTCAATAATTCACTCTAATTTTTTAGAAG-TCTTTATTGAAGGTATTTTTTGCATAATAC
1 GCCTTCAATAATTCCCTC-AATTTTTTAGAAGAAATTTATTGAAGGCATTTTTTGCATAATAC
24540825 GCCTTCAATAAT
1 GCCTTCAATAAT
24540837 CTTTTTAAAT
Statistics
Matches: 106, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
61 6 0.06
62 37 0.35
63 14 0.13
64 18 0.17
65 25 0.24
66 6 0.06
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (62 bp):
GCCTTCAATAATTCCCTCAATTTTTTAGAAGAAATTTATTGAAGGCATTTTTTGCATAATAC
Found at i:24541537 original size:18 final size:18
Alignment explanation
Indices: 24541516--24541551 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24541506 AATATTATGG
24541516 TTTGCTTAATAATATTGT
1 TTTGCTTAATAATATTGT
*
24541534 TTTGCTTAATAGTATTGT
1 TTTGCTTAATAATATTGT
24541552 ATGATATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (18 bp):
TTTGCTTAATAATATTGT
Found at i:24541576 original size:12 final size:12
Alignment explanation
Indices: 24541559--24541648 Score: 58
Period size: 12 Copynumber: 7.3 Consensus size: 12
24541549 TGTATGATAT
*
24541559 TGGTTTGCTTAA
1 TGGTTTGCTAAA
24541571 TGGTTTGCTAAA
1 TGGTTTGCTAAA
*
24541583 TGGTTTG-TCGAA
1 TGGTTTGCT-AAA
* *
24541595 TGGTATTTCTAAG
1 TGGT-TTGCTAAA
* *
24541608 TGGTTTCCTGAA
1 TGGTTTGCTAAA
*
24541620 TGATGTTT-CTGAA
1 TG--GTTTGCTAAA
*
24541633 TGGTTTGCTGAA
1 TGGTTTGCTAAA
24541645 TGGT
1 TGGT
24541649 GTTTCTGAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
11 5 0.08
12 40 0.62
13 14 0.22
14 5 0.08
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.44
Consensus pattern (12 bp):
TGGTTTGCTAAA
Found at i:24541620 original size:25 final size:25
Alignment explanation
Indices: 24541592--24541657 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
24541582 ATGGTTTGTC
*
24541592 GAATGGTATTTCT-AAGTGGTTTCCT
1 GAATGGTGTTTCTGAA-TGGTTTCCT
* *
24541617 GAATGATGTTTCTGAATGGTTTGCT
1 GAATGGTGTTTCTGAATGGTTTCCT
24541642 GAATGGTGTTTCTGAA
1 GAATGGTGTTTCTGAA
24541658 CACATTGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 34 0.94
26 2 0.06
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.42
Consensus pattern (25 bp):
GAATGGTGTTTCTGAATGGTTTCCT
Found at i:24552095 original size:221 final size:221
Alignment explanation
Indices: 24551669--24552071 Score: 524
Period size: 221 Copynumber: 1.8 Consensus size: 221
24551659 GGCTATATAG
* * * * * * * *
24551669 TGAAGGCATTTTACAGTAGAAGATGCTTTTACTAATTCTCAATATTTTTTGAGAAAAAATATTGA
1 TGAAGGCATTTTACAGTAGAAAACGCCTTTAATAATGCCCAAAATTTTTAGAGAAAAAATATTGA
* ** *
24551734 AGGCGTCTGTTATTAACAAATGCCTTCAGTAATAGATTACTAAGTGTAAAGGTATATTGAATGCA
66 AGGCATCTGTTATTAACAAACACCTTCAGTAATAGATTACTAAGTGTAAAGGTATATTGAAAGCA
* *
24551799 TTTTTTTGAATAAACACATTCTATAATCATCGTGAAATATTAAAGGTATTTTATAACAAAAGACG
131 ATTTTTTGAATAAACACATTCTATAATCATCGTGAAATATTAAAGGGATTTTATAACAAAAGACG
*
24551864 ACTTTAATAATCCCATCAAGGTCTAT
196 ACGTTAATAATCCCATCAAGGTCTAT
**
24551890 TGAAGGCATTTTACAGTAGAAAACGCCTTTAATAATGCCCAAAATTTTTAGAGGGAAAATATTGA
1 TGAAGGCATTTTACAGTAGAAAACGCCTTTAATAATGCCCAAAATTTTTAGAGAAAAAATATTGA
* * *
24551955 AGGCATCTGTTATTAACAAACACCTTCCGTAATGGATTACTAAGCT-TAAGGGTATATTGAAAGC
66 AGGCATCTGTTATTAACAAACACCTTCAGTAATAGATTACTAAG-TGTAAAGGTATATTGAAAGC
* * ** *
24552019 ACATTTTTT-AATAAACGCCTTCTATAA-CAATCGTGGTATATTGAAGGCGATTT
130 A-ATTTTTTGAATAAACACATTCTATAATC-ATCGTGAAATATTAAAGG-GATTT
24552072 ACTGTAGAAG
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
220 1 0.01
221 142 0.92
222 11 0.07
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (221 bp):
TGAAGGCATTTTACAGTAGAAAACGCCTTTAATAATGCCCAAAATTTTTAGAGAAAAAATATTGA
AGGCATCTGTTATTAACAAACACCTTCAGTAATAGATTACTAAGTGTAAAGGTATATTGAAAGCA
ATTTTTTGAATAAACACATTCTATAATCATCGTGAAATATTAAAGGGATTTTATAACAAAAGACG
ACGTTAATAATCCCATCAAGGTCTAT
Found at i:24559346 original size:21 final size:20
Alignment explanation
Indices: 24559306--24559351 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
24559296 AAGCGTACCA
* *
24559306 AAATTGAGGAAGAACGTGCT
1 AAATTGAGCAAGAACATGCT
*
24559326 AGAATTGAGCAAGAGCATGCT
1 A-AATTGAGCAAGAACATGCT
24559347 AAATT
1 AAATT
24559352 TCAGCAGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.22
Consensus pattern (20 bp):
AAATTGAGCAAGAACATGCT
Done.