Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 25 of 127
Found at i:5515251 original size:22 final size:22
Alignment explanation
Indices: 5515226--5515267 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5515216 TATTATTTTA
5515226 TATTAATTAAAACTAATTAATT
1 TATTAATTAAAACTAATTAATT
** *
5515248 TATTTTTTAAAATTAATTAA
1 TATTAATTAAAACTAATTAA
5515268 AATGTTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTAATTAAAACTAATTAATT
Found at i:5515390 original size:22 final size:20
Alignment explanation
Indices: 5515361--5515416 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 20
5515351 AGATAAAGAG
5515361 ATTTAAAAATAGATTAAAATTTT
1 ATTTAAAAATAGATT---ATTTT
5515384 -TTTAAAAATTA-ATTATTTT
1 ATTTAAAAA-TAGATTATTTT
5515403 ATTTAAAAATAGAT
1 ATTTAAAAATAGAT
5515417 ATTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
19 7 0.23
20 10 0.33
22 11 0.37
23 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATTTAAAAATAGATTATTTT
Found at i:5515394 original size:18 final size:20
Alignment explanation
Indices: 5515373--5515412 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
5515363 TTAAAAATAG
5515373 ATTAA-AATTTT-TTTAAAA
1 ATTAATAATTTTATTTAAAA
*
5515391 ATTAATTATTTTATTTAAAA
1 ATTAATAATTTTATTTAAAA
5515411 AT
1 AT
5515413 AGATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTAATAATTTTATTTAAAA
Found at i:5516890 original size:27 final size:26
Alignment explanation
Indices: 5516845--5516896 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
5516835 AAAATTAAAT
* **
5516845 TATTTTATTTTTATTAATTGAATCAAA
1 TATTTTAATTTTAAAAATT-AATCAAA
5516872 TATTTTAATTTTAAAAATTAATCAA
1 TATTTTAATTTTAAAAATTAATCAA
5516897 TCAAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTTTAATTTTAAAAATTAATCAAA
Found at i:5516973 original size:13 final size:13
Alignment explanation
Indices: 5516955--5516979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5516945 ATATTAAATT
5516955 AAATTTTATTTTA
1 AAATTTTATTTTA
5516968 AAATTTTATTTT
1 AAATTTTATTTT
5516980 TTATACGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AAATTTTATTTTA
Found at i:5517759 original size:16 final size:16
Alignment explanation
Indices: 5517740--5517783 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
5517730 TATTTTATTT
5517740 TATAAAATTTTAAAAA
1 TATAAAATTTTAAAAA
*
5517756 TATAAAGATTAATAAAAA
1 TATAAA-ATT-TTAAAAA
*
5517774 TATATAATTT
1 TATAAAATTT
5517784 AATTTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 6 0.26
17 6 0.26
18 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
TATAAAATTTTAAAAA
Found at i:5524636 original size:34 final size:34
Alignment explanation
Indices: 5524598--5524701 Score: 127
Period size: 34 Copynumber: 3.1 Consensus size: 34
5524588 TTTAGAAATC
* *
5524598 TTTAAAAATTTTCAAAAATTTATTTTTGAAAGTT
1 TTTAAAAATTTTCATAAATTTATTTTTAAAAGTT
* * *
5524632 TTTAAAGATTTTCATAAATCTATTTTTAAAAATT
1 TTTAAAAATTTTCATAAATTTATTTTTAAAAGTT
* * **
5524666 TTTAAGATTTTTTGTAAATTTATTTTTAAAAGTT
1 TTTAAAAATTTTCATAAATTTATTTTTAAAAGTT
5524700 TT
1 TT
5524702 GAATCGCATA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (34 bp):
TTTAAAAATTTTCATAAATTTATTTTTAAAAGTT
Found at i:5527233 original size:75 final size:75
Alignment explanation
Indices: 5527154--5527297 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 75
5527144 GGTTTATGTC
* *
5527154 GTAAATATTAAGAGATTACTGATTA-ACTAAAAATGTTAATTGATTTTAGATTGAACATTTGATT
1 GTAAATATTAAGAGATTACTGAGTAGA-TAAAAATGTTAATTGATTTTAGATTGAACATTTGATA
5527218 TTAAATTTACT
65 TTAAATTTACT
* * ** *
5527229 GTAAATATTAATAGATTATTGAGTAGATAAGTATGTTAATTGGTTTTAGATTGAACATTTGATAT
1 GTAAATATTAAGAGATTACTGAGTAGATAAAAATGTTAATTGATTTTAGATTGAACATTTGATAT
5527294 TAAA
66 TAAA
5527298 CTTTCACATG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 60 0.98
76 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (75 bp):
GTAAATATTAAGAGATTACTGAGTAGATAAAAATGTTAATTGATTTTAGATTGAACATTTGATAT
TAAATTTACT
Found at i:5531686 original size:22 final size:23
Alignment explanation
Indices: 5531646--5531688 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
5531636 TCAATACATT
*
5531646 AAATATAAAATATATTTTTTATC
1 AAATATAAAATATAATTTTTATC
*
5531669 AAATAT-ATATATAATTTTTA
1 AAATATAAAATATAATTTTTA
5531689 ATAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATATAAAATATAATTTTTATC
Found at i:5535277 original size:63 final size:63
Alignment explanation
Indices: 5535199--5535320 Score: 235
Period size: 63 Copynumber: 1.9 Consensus size: 63
5535189 TAAGACACGC
5535199 ACATATTAATGCAAGACAAGAACCATACATTCAACAAACACTTCATTAGCATTAAAATAACGA
1 ACATATTAATGCAAGACAAGAACCATACATTCAACAAACACTTCATTAGCATTAAAATAACGA
*
5535262 ACATATTAATGCAAGACAAGAACCATATATTCAACAAACACTTCATTAGCATTAAAATA
1 ACATATTAATGCAAGACAAGAACCATACATTCAACAAACACTTCATTAGCATTAAAATA
5535321 GAGAAGCTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (63 bp):
ACATATTAATGCAAGACAAGAACCATACATTCAACAAACACTTCATTAGCATTAAAATAACGA
Found at i:5542714 original size:17 final size:18
Alignment explanation
Indices: 5542689--5542722 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5542679 TTGGTTTTTC
*
5542689 AAAATGAAAAA-AAAAAA
1 AAAAAGAAAAAGAAAAAA
5542706 AAAAAGAAAAAGAAAAA
1 AAAAAGAAAAAGAAAAA
5542723 TTCTTGGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAAAA
Found at i:5544516 original size:29 final size:28
Alignment explanation
Indices: 5544483--5544540 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
5544473 GTGAATTATT
* *
5544483 ATTAATTGATGATTTTATAATTTAATAAA
1 ATTAATTGATAAATTTA-AATTTAATAAA
*
5544512 ATTAATTGATAAATTTAATTTTAATAAA
1 ATTAATTGATAAATTTAAATTTAATAAA
5544540 A
1 A
5544541 GATATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (28 bp):
ATTAATTGATAAATTTAAATTTAATAAA
Found at i:5545330 original size:23 final size:21
Alignment explanation
Indices: 5545294--5545350 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
5545284 TATCGATTTA
** *
5545294 TTTATTTAAAAATTATAATGAT
1 TTTATTTAGTAATTAT-ATCAT
5545316 TTATATTTAGTAATTATATCAT
1 TT-TATTTAGTAATTATATCAT
*
5545338 TTTATTTGGTAAT
1 TTTATTTAGTAAT
5545351 AATTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 10 0.33
22 8 0.27
23 12 0.40
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTATTTAGTAATTATATCAT
Found at i:5545349 original size:21 final size:23
Alignment explanation
Indices: 5545304--5545350 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
5545294 TTTATTTAAA
*
5545304 AATTATAATGATTTATATTTAGT
1 AATTATAATCATTTATATTTAGT
*
5545327 AATTAT-ATCATTT-TATTTGGT
1 AATTATAATCATTTATATTTAGT
5545348 AAT
1 AAT
5545351 AATTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 6 0.27
23 6 0.27
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (23 bp):
AATTATAATCATTTATATTTAGT
Found at i:5545366 original size:24 final size:24
Alignment explanation
Indices: 5545347--5545401 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
5545337 TTTTATTTGG
5545347 TAATAATTTAAAAATATTATGTGA
1 TAATAATTTAAAAATATTATGTGA
* * * *
5545371 TAATTATTTTAAATTATTAAGTGA
1 TAATAATTTAAAAATATTATGTGA
5545395 TAA-AATT
1 TAATAATT
5545402 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (24 bp):
TAATAATTTAAAAATATTATGTGA
Found at i:5548282 original size:14 final size:14
Alignment explanation
Indices: 5548265--5548294 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5548255 TTCTTTTTTG
5548265 AAATATATTTTATA
1 AAATATATTTTATA
*
5548279 AAATTTATTTTATA
1 AAATATATTTTATA
5548293 AA
1 AA
5548295 GAAGAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATATATTTTATA
Found at i:5548475 original size:20 final size:19
Alignment explanation
Indices: 5548421--5548458 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
5548411 TTTAATCGAA
5548421 CAAAA-ATTTTAAAAAATT
1 CAAAATATTTTAAAAAATT
5548439 CAAAATATTTTATAAAAATT
1 CAAAATATTTTA-AAAAATT
5548459 TCATATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
CAAAATATTTTAAAAAATT
Found at i:5548567 original size:32 final size:32
Alignment explanation
Indices: 5548440--5548570 Score: 92
Period size: 32 Copynumber: 4.1 Consensus size: 32
5548430 TAAAAAATTC
**
5548440 AAAATATTTTATAAAAA-TTTCATATCATTTT
1 AAAATATTAAATAAAAATTTTCATATCATTTT
* * * * *
5548471 AAAA-AGTTAAGTAAAAATTTTTA-ATTTAGTAT
1 AAAATA-TTAAATAAAAATTTTCATA-TCATTTT
* * * *
5548503 AAAAAATTAAATAAAAAACTCTT--TACCGTTTT
1 AAAATATTAAAT-AAAAA-TTTTCATATCATTTT
5548535 AAAATATTAAATAAAAATTTTCATATCATTTT
1 AAAATATTAAATAAAAATTTTCATATCATTTT
5548567 AAAA
1 AAAA
5548571 AAATAGATCT
Statistics
Matches: 73, Mismatches: 18, Indels: 17
0.68 0.17 0.16
Matches are distributed among these distances:
30 4 0.05
31 18 0.25
32 41 0.56
33 7 0.10
34 3 0.04
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.40
Consensus pattern (32 bp):
AAAATATTAAATAAAAATTTTCATATCATTTT
Found at i:5549937 original size:33 final size:31
Alignment explanation
Indices: 5549845--5549971 Score: 114
Period size: 32 Copynumber: 4.0 Consensus size: 31
5549835 AATTAATAAA
* *
5549845 TTAATTTTTTTAATGATATGAAAATTTTTAT
1 TTAACTTTTTAAATGATATGAAAATTTTTAT
* **
5549876 TT--CTTTTTTAAAAATGATAAGAAGTTTTTTAT
1 TTAAC-TTTTT--AAATGATATGAAAATTTTTAT
*
5549908 TTAACTTTTTAAATCGATATGAAAATTTTTAC
1 TTAACTTTTTAAAT-GATATGAAAATTTTTAT
* *
5549940 TTAATTTTTTTTAAATGATATAAAAATTTTTA
1 TTAA--CTTTTTAAATGATATGAAAATTTTTA
5549972 AAAGGATTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
30 5 0.06
31 6 0.08
32 36 0.47
33 20 0.26
34 10 0.13
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (31 bp):
TTAACTTTTTAAATGATATGAAAATTTTTAT
Found at i:5550422 original size:24 final size:24
Alignment explanation
Indices: 5550376--5550423 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5550366 ATAGTATTGA
*
5550376 TTTTATATATAAATAATACAAATT
1 TTTTATATATAAATAATAAAAATT
*
5550400 TTTTATTTAT-AATATATAAAAATT
1 TTTTATATATAAATA-ATAAAAATT
5550424 CGAATGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTTATATATAAATAATAAAAATT
Found at i:5553358 original size:2 final size:2
Alignment explanation
Indices: 5553351--5553380 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5553341 CTACAACCTT
5553351 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5553381 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:5562544 original size:26 final size:26
Alignment explanation
Indices: 5562508--5562562 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
5562498 ACTAGTCAAG
5562508 CATACCACAATTTATCAACCAAAAGA
1 CATACCACAATTTATCAACCAAAAGA
5562534 CATACCACAATTTATCAACCAAAAGA
1 CATACCACAATTTATCAACCAAAAGA
5562560 CAT
1 CAT
5562563 GGACACGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (26 bp):
CATACCACAATTTATCAACCAAAAGA
Found at i:5563004 original size:192 final size:192
Alignment explanation
Indices: 5562543--5563044 Score: 560
Period size: 192 Copynumber: 2.7 Consensus size: 192
5562533 ACATACCACA
* * * *
5562543 ATTTATCAACCAAAAGAC--ATGGACACGAATAGGAATAACTTCACTGCTACTAAAGAGCAACTA
1 ATTTATCAACCTAAAGACATATGAACACAAAAAGGAATAACTTCACTGCTACTAAAGAGCAACTA
* * * **
5562606 CTTGATAGATACATGAATTTGTAACATATAAATG---CATT---AGTATACTTGAGGCACTGCCA
66 -TTGACAGATACATGAATTTGTAACATCTAAATGCTTCATTAAAAGTATACTTAAGGTGCTGCCA
* * * *
5562665 CTTGTGGGTAAACAATCAAGGCATCCAGTTACATCCAGAAATGATTAGTCAAGCATGCTACAG
130 CTTGTGGGTAAACAATCAAAGCATCAAGTTACATCCAAAAATGACTAGTCAAGCATGCTACAG
* * * * * * * *
5562728 TTTTATCAACCTAAAGATATATGAACCCGAATAGGAATAATTTCACTGCTACTAAAAAGCAATTA
1 ATTTATCAACCTAAAGACATATGAACACAAAAAGGAATAACTTCACTGCTACTAAAGAGCAACTA
* * *
5562793 TTTGGCAGGTACA--AATTTGTAACATCTAAATGCTTTCATTAAAAGTATACTTAAAGTGCTGCC
66 -TTGACAGATACATGAATTTGTAACATCTAAATGC-TTCATTAAAAGTATACTTAAGGTGCTGCC
* * *
5562856 TCTTGTGGGTAAACAATCAAAGCATCAAG-TGCATCCAAAAATGACTAGTCAAGCATGCTGCA-
129 ACTTGTGGGTAAACAATCAAAGCATCAAGTTACATCCAAAAATGACTAGTCAAGCATGCTACAG
** * * * *
5562918 ATTTATCTCCCTAAAGACATATGAACACAAAAAGGAATAACTTCAATGCTACCAAAGTGCTACTA
1 ATTTATCAACCTAAAGACATATGAACACAAAAAGGAATAACTTCACTGCTACTAAAGAGCAACTA
* *
5562983 TATGACAGATACATGAATTTGTAACATCTAAATGCATTCACTAAAAGAATACTTAAGGTGCT
66 T-TGACAGATACATGAATTTGTAACATCTAAATGC-TTCATTAAAAGTATACTTAAGGTGCT
5563045 AATTACCTGA
Statistics
Matches: 261, Mismatches: 44, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
185 33 0.13
187 49 0.19
189 5 0.02
190 60 0.23
191 29 0.11
192 85 0.33
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (192 bp):
ATTTATCAACCTAAAGACATATGAACACAAAAAGGAATAACTTCACTGCTACTAAAGAGCAACTA
TTGACAGATACATGAATTTGTAACATCTAAATGCTTCATTAAAAGTATACTTAAGGTGCTGCCAC
TTGTGGGTAAACAATCAAAGCATCAAGTTACATCCAAAAATGACTAGTCAAGCATGCTACAG
Found at i:5565161 original size:16 final size:16
Alignment explanation
Indices: 5565140--5565175 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5565130 TTCAACATCT
* *
5565140 ATTTTTATTCAATTAA
1 ATTTTTATTAAATGAA
5565156 ATTTTTATTAAATGAA
1 ATTTTTATTAAATGAA
5565172 ATTT
1 ATTT
5565176 GATAACTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTTTTATTAAATGAA
Found at i:5566173 original size:21 final size:22
Alignment explanation
Indices: 5566139--5566186 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
5566129 AAAATAATAA
* * *
5566139 AAAATTATATTAATTTAATTTT
1 AAAATTATAATAATTTAAATTC
5566161 AAAATT-TAATAATTTAAATTC
1 AAAATTATAATAATTTAAATTC
5566182 AAAAT
1 AAAAT
5566187 AATTTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAATTATAATAATTTAAATTC
Found at i:5566187 original size:16 final size:16
Alignment explanation
Indices: 5566168--5566199 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5566158 TTTAAAATTT
5566168 AATAATTTAAATTCAA
1 AATAATTTAAATTCAA
*
5566184 AATAATTTGAATTCAA
1 AATAATTTAAATTCAA
5566200 GATCCGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
AATAATTTAAATTCAA
Found at i:5570112 original size:41 final size:41
Alignment explanation
Indices: 5570055--5570137 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
5570045 AAGAAGACCA
5570055 AAGGAAGAAAACCTAAGTCACAACAACTAGTACTAGAGGTT
1 AAGGAAGAAAACCTAAGTCACAACAACTAGTACTAGAGGTT
*
5570096 AAGGAAGAAAATCTAAGTCACAACAACTAGTACTAGAGGTT
1 AAGGAAGAAAACCTAAGTCACAACAACTAGTACTAGAGGTT
5570137 A
1 A
5570138 TTGCATTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (41 bp):
AAGGAAGAAAACCTAAGTCACAACAACTAGTACTAGAGGTT
Found at i:5572341 original size:13 final size:13
Alignment explanation
Indices: 5572323--5572362 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
5572313 TATTTGATTC
5572323 ATATTAAATTTGA
1 ATATTAAATTTGA
*
5572336 ATATTAAATAT-A
1 ATATTAAATTTGA
5572348 TATATTAAATTTGA
1 -ATATTAAATTTGA
5572362 A
1 A
5572363 CGAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
ATATTAAATTTGA
Found at i:5578068 original size:34 final size:34
Alignment explanation
Indices: 5578025--5578102 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
5578015 ATGGTAACAT
*
5578025 AGTTAAATTTCTCTATTTAAGGCTAAGTAAATCG
1 AGTTAAATTTCTCTATTTAAGGCTAAGTAAATCA
* *
5578059 AGTTAAATTTCTCTATTTAAGGGTATGTAAATCA
1 AGTTAAATTTCTCTATTTAAGGCTAAGTAAATCA
5578093 AGTTAAATTT
1 AGTTAAATTT
5578103 GAACCATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (34 bp):
AGTTAAATTTCTCTATTTAAGGCTAAGTAAATCA
Found at i:5599179 original size:58 final size:58
Alignment explanation
Indices: 5598868--5599670 Score: 1204
Period size: 59 Copynumber: 13.6 Consensus size: 58
5598858 TTTTTTGTAG
***
5598868 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTG-AAATTTATTTCTAA
* * * *
5598927 GGAAAATTGATACTTTTAATTTTTCCCCGAAAATATTTTTTTTTTGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTT-CCCTAAAA-ATATTTTTTTTGAAA-TTT-ATTTCT-AA
* **
5598989 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTCGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTC-TAA
*
5599046 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTTGAAATTTATTTTTTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-T-TTTTTTGAAATTTA-----TTTCTAA
*
5599111 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
* *
5599169 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
5599227 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTAA
*
5599286 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
* *
5599344 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
* *
5599401 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTAA
* *
5599460 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
5599517 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTAA
5599576 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTTGAAATTTATTTCTAA
5599635 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
5599671 ATATATTTTT
Statistics
Matches: 686, Mismatches: 35, Indels: 46
0.89 0.05 0.06
Matches are distributed among these distances:
56 2 0.00
57 144 0.21
58 157 0.23
59 256 0.37
60 21 0.03
61 22 0.03
62 28 0.04
63 14 0.02
64 1 0.00
65 39 0.06
66 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
Found at i:5599259 original size:27 final size:27
Alignment explanation
Indices: 5599229--5599319 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
5599219 ATTTCTGAGG
5599229 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTCCCTA
** ** * * **
5599256 AAAATATTTTTTTTTGAAATTTATTTCTAA
1 AAAAT-TGATACTTTCAACTTT-TCCCT-A
5599286 GGAAAATTGATACTTTCAACTTTTCCCTA
1 --AAAATTGATACTTTCAACTTTTCCCTA
5599315 AAAAT
1 AAAAT
5599320 ATTTTTTTTG
Statistics
Matches: 43, Mismatches: 16, Indels: 10
0.62 0.23 0.14
Matches are distributed among these distances:
27 10 0.23
28 10 0.23
29 4 0.09
30 4 0.09
31 10 0.23
32 5 0.12
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.44
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCCCTA
Found at i:5599268 original size:116 final size:115
Alignment explanation
Indices: 5598868--5599670 Score: 1198
Period size: 116 Copynumber: 6.8 Consensus size: 115
5598858 TTTTTTGTAG
**
5598868 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTG-AAATTTATTTCTAAGGAAA
* * * *
5598932 ATTGATACTTTTAATTTTTCCCCGAAAATATTTTTTTTTTGAAATTTTGATTT-TCAA
63 ATTGATACTTTCAACTTTT-CCCTAAAA-ATATTTTTTTTGAAA-TTT-ATTTCT-AA
* **
5598989 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTCGGAAATTTA-TTCTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTC-TAAGGAAAAT
*
5599053 TGATACTTTCAACTTTTCCCTAAAAATATATATTTTTTGAAATTTATTTTTTTTTTAA
65 TGATACTTTCAACTTTTCCCTAAAAATAT-T-TTTTTTGAAATTTA-----TTTCTAA
*
5599111 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGAAATTTATTTCTAAGGAAAAT
* *
5599176 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTCTGA
65 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
5599227 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGAAATTTATTTCTAAGGAAAA
*
5599292 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGA
64 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
* *
5599344 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAGGAAAATT
* *
5599409 GATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAATTTATTTCTGA
66 GATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTAA
* *
5599460 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAGGAAAATT
5599525 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
66 GATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTAA
5599576 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTATTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAA-ATATTTTTTTGAAATTTATTTCTAAGGAAAA
5599641 TTGATACTTTCAACTTTTCCCTAAAAATAT
64 TTGATACTTTCAACTTTTCCCTAAAAATAT
5599671 ATATATTTTT
Statistics
Matches: 641, Mismatches: 25, Indels: 36
0.91 0.04 0.05
Matches are distributed among these distances:
115 55 0.09
116 204 0.32
117 122 0.19
118 73 0.11
119 42 0.07
120 6 0.01
121 43 0.07
122 42 0.07
123 51 0.08
124 3 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (115 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
Found at i:5599738 original size:9 final size:10
Alignment explanation
Indices: 5599696--5599733 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
5599686 TATTTAAAGA
5599696 AAAT-AAAAT
1 AAATAAAAAT
5599705 -AATAAATAAT
1 AAATAAA-AAT
5599715 AAATAAAAAT
1 AAATAAAAAT
5599725 AAATAAAAA
1 AAATAAAAA
5599734 GAATATTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 3 0.12
9 2 0.08
10 15 0.58
11 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:5600285 original size:31 final size:31
Alignment explanation
Indices: 5600250--5600316 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
5600240 GGCTGGTCGT
* *
5600250 CGGAAACTTC-AATGTTCGCCGGAATTGTT-GC
1 CGGAAAATTCAAAT-TTCGCCAGAATT-TTCGC
5600281 CGGAAAATTCAAATTTCGCCAGAATTTTCGC
1 CGGAAAATTCAAATTTCGCCAGAATTTTCGC
5600312 CGGAA
1 CGGAA
5600317 TCTGGAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 27 0.84
32 3 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (31 bp):
CGGAAAATTCAAATTTCGCCAGAATTTTCGC
Found at i:5601107 original size:18 final size:18
Alignment explanation
Indices: 5601086--5601125 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
5601076 AATTTTTTGG
5601086 TTTTTTTGTTTTTTATTT
1 TTTTTTTGTTTTTTATTT
5601104 TTTTTTTGTTTTTTATTT
1 TTTTTTTGTTTTTTATTT
5601122 TTTT
1 TTTT
5601126 ACCAAAGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.90
Consensus pattern (18 bp):
TTTTTTTGTTTTTTATTT
Found at i:5601265 original size:40 final size:40
Alignment explanation
Indices: 5601132--5601938 Score: 1126
Period size: 40 Copynumber: 20.0 Consensus size: 40
5601122 TTTTACCAAA
*
5601132 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAATT
*
5601174 GCTCCTCTAAACAGAGGTACCACG-ACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAAGTAAATT
5601215 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
* *
5601255 GCTCCCCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
5601295 GCTCCTCTAAACAGAGGCACCACG-ACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAATT
5601336 GCTCCTCTAAACAGAGGCACCACG-ACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAATT
*
5601377 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
* *
5601417 GCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAAGTAAATT
5601459 GCTCCTCTAAACAGAGGCAAC-AACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
*
5601498 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
* *
5601538 GCTCCTCTAAACAGAGG-TACCATGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGA--AC-TTGGAAAAGTAAATT
*
5601580 GCTCCTCTAAACAGAGGCAAGGAACTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
* *
5601619 GCTCCTTTAAACAGAGGCAACGAAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-AACTTGGAAAAGTAAATT
5601660 GCTCCTCTAAACAGAGGCAACGAACTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
*
5601699 GCTCCTCTAAACAGAGGTACCAC-AACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAAGTAAATT
5601740 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
*
5601780 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAAC-GAACTTGGAAAAGTAAATT
5601821 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
*
5601861 GCTCCTCTAAACAGAGGCAACGGAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCAAC-GAACTTGGAAAAGTAAATT
5601901 GCTCCTCTAAACAGAGGCAACGAACTT-GAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAAT
5601939 ACTCCTAGAC
Statistics
Matches: 707, Mismatches: 28, Indels: 63
0.89 0.04 0.08
Matches are distributed among these distances:
38 1 0.00
39 134 0.19
40 255 0.36
41 216 0.31
42 98 0.14
43 2 0.00
44 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
Found at i:5601269 original size:81 final size:81
Alignment explanation
Indices: 5601132--5601938 Score: 1195
Period size: 81 Copynumber: 10.0 Consensus size: 81
5601122 TTTTACCAAA
* *
5601132 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAA
*
5601196 CG-ACTTTGGAAAGTAAATT
62 CGAACTTTGAAAAGTAAATT
*
5601215 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATTGCTCCCCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
5601279 CTTTGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
5601295 GCTCCTCTAAACAGAGGCACCACG-ACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--A
*
5601358 CG-ACTTTGGAAAGTAAATT
62 CGAACTTTGAAAAGTAAATT
*
5601377 GCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACG
5601441 -ACTTTGAAAAAGTAAATT
64 AACTTTG-AAAAGTAAATT
5601459 GCTCCTCTAAACAGAGGCAAC-AACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
5601522 CTTTGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
* * *
5601538 GCTCCTCTAAACAGAGG-TACCATGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAGG
1 GCTCCTCTAAACAGAGGCAACGA--ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
5601602 AAC-TTGAAAAGTAAATT
64 AACTTTGAAAAGTAAATT
*
5601619 GCTCCTTTAAACAGAGGCAACGAAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCAACG-AACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
5601683 AC-TTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
*
5601699 GCTCCTCTAAACAGAGGTACCAC-AACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGG--CAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
*
5601762 AACTTGGAAAAGTAAATT
64 AACTTTGAAAAGTAAATT
5601780 GCTCCTCTAAACAGAGGCAACGGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
5601844 ACTTGGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
5601861 GCTCCTCTAAACAGAGGCAACGGAACTTT-G-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
5601924 AC-TTGAAAAGTAAAT
65 ACTTTGAAAAGTAAAT
5601939 ACTCCTAGAC
Statistics
Matches: 677, Mismatches: 20, Indels: 58
0.90 0.03 0.08
Matches are distributed among these distances:
78 2 0.00
79 52 0.08
80 188 0.28
81 296 0.44
82 115 0.17
83 24 0.04
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAGTAAATT
Found at i:5601348 original size:121 final size:121
Alignment explanation
Indices: 5601132--5601938 Score: 1241
Period size: 121 Copynumber: 6.7 Consensus size: 121
5601122 TTTTACCAAA
*
5601132 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
5601196 CGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
63 CGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGG-AAAGTAAATT
*
5601255 GCTCCCCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
*
5601320 CTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
66 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAAGTAAATT
*
5601377 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
5601442 CTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-AACTTTGGAAAGTAAATT
66 CTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATT
* *
5601498 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCATGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
* *
5601563 CTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAGGAAC-TTGAAAAGTAAATT
66 CTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATT
*
5601619 GCTCCTTTAAACAGAGGCAACGAAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTAAACAGAGGCAACG-AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
5601682 AAC-TTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC-AACTTTGGAAAGTAAATT
65 -ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAACTTTGGAAAGTAAATT
*
5601740 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGG
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC-G
5601803 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
65 -ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGG-AAAGTAAATT
5601861 GCTCCTCTAAACAGAGGCAACGGAACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
5601923 AAC-TTGAAAAGTAAAT
65 -ACTTTGAAAAGTAAAT
5601939 ACTCCTAGAC
Statistics
Matches: 648, Mismatches: 18, Indels: 40
0.92 0.03 0.06
Matches are distributed among these distances:
119 42 0.06
120 56 0.09
121 336 0.52
122 160 0.25
123 54 0.08
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (121 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATT
Found at i:5603229 original size:12 final size:12
Alignment explanation
Indices: 5603214--5603241 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5603204 TTTTTTCCCC
5603214 TTTTTTTTTCTT
1 TTTTTTTTTCTT
5603226 TTTTTTTTTCTT
1 TTTTTTTTTCTT
5603238 TTTT
1 TTTT
5603242 CATTTTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:5606796 original size:67 final size:59
Alignment explanation
Indices: 5606401--5606918 Score: 674
Period size: 59 Copynumber: 8.6 Consensus size: 59
5606391 TTTTTTGTAG
* *
5606401 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTT--ATTTCT-AA
***
5606461 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAA-CCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTG-AAATTTATTTCTAA
* * **
5606520 GGAAAATTGATACTTTTAATTTTTCCCCGAAAATATTTTTTTTTTGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTTGAAA-TTT-ATTTCT-AA
*
5606582 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
* *
5606640 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
*
5606697 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAATTTAGAAATTTATTTCT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTT----TTT-GAAATTTATTTCT
*
5606762 GA
58 AA
* *
5606764 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
5606823 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
5606882 GGAAAATTGATACTTTCAACTTTTCCCTAAAATATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAA-ATAT
5606919 ATATTTTTAT
Statistics
Matches: 409, Mismatches: 27, Indels: 44
0.85 0.06 0.09
Matches are distributed among these distances:
57 53 0.13
58 39 0.10
59 142 0.35
60 61 0.15
61 18 0.04
62 41 0.10
64 6 0.01
66 2 0.00
67 47 0.11
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
Found at i:5606859 original size:126 final size:117
Alignment explanation
Indices: 5606401--5606918 Score: 697
Period size: 121 Copynumber: 4.3 Consensus size: 117
5606391 TTTTTTGTAG
5606401 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT--ATTTCT-AAGGAA
*** *
5606465 AATTGATACTTTCAACTTTT-CCTCAAAAA-CCCTTTTTTTGAAAATTTATTTCTAA
63 AATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTG-AAATTTATTTCTGA
* * * *
5606520 GGAAAATTGATACTTTTAATTTTTCCCCGAAAATATTTTTTTTTTGAAATTTTGATTT-TCAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCC-AAAA-ATATTTTTTTGGAAA-TTT-ATTTCT-AAGG
5606584 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTCTGA
61 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
5606640 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
*
5606704 TGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAATTTAGAAATTTATTTCTGA
66 TGATACTTTCAACTTTTCCCTAAAAATA---TTTTTT----TTT-GAAATTTATTTCTGA
* *
5606764 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTCTGAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTCTAAGGAAAA
*
5606829 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
65 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
*
5606882 GGAAAATTGATACTTTCAACTTTTCCCTAAAATATAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAA-ATAT
5606919 ATATTTTTAT
Statistics
Matches: 364, Mismatches: 17, Indels: 37
0.87 0.04 0.09
Matches are distributed among these distances:
115 40 0.11
116 4 0.01
117 10 0.03
118 48 0.13
119 41 0.11
120 43 0.12
121 59 0.16
122 6 0.02
123 9 0.02
124 50 0.14
126 54 0.15
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
Found at i:5606932 original size:126 final size:123
Alignment explanation
Indices: 5606401--5606926 Score: 612
Period size: 119 Copynumber: 4.4 Consensus size: 123
5606391 TTTTTTGTAG
*
5606401 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--T-TTTTTTGGAAATTTCGATTT-TCAAG
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTATTTTTTGGAAATTT--ATTTCT-AAG
* ***
5606462 GAAAATTGATACTTTCAACTTTT-CCTCAAAA-ACCCTTTT-TTT-GAAAATTTATTTCTAA
63 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTATTTAG-AAATTTATTTCTAA
* * ** *
5606520 GGAAAATTGATACTTTTAATTTTTCCCCGAAAATATTT-TTTTTTTGAAATTTTGATTT-TCAAG
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTATTTTTTGGAAA-TTT-ATTTCT-AAG
*
5606583 GAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTT-TTT-GAAATTTATTTCTGA
63 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTATTTAGAAATTTATTTCTAA
*
5606640 GGAAAATTGATACTTTCAACTTTTCCC-CAAAA-A--TATTTTTTGGAAATTTATTTCTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTATTTTTTGGAAATTTATTTCTAAGGAA
* *
5606701 AATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAATTTAGAAATTTATTTCTGA
66 AATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTT---ATTTAGAAATTTATTTCTAA
* *
5606764 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTT-TTTTTT-GAAATTTATTTCTGAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTATTTTTTGGAAATTTATTTCTAAGGAA
5606827 AATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTT-TTT-GAAATTTATTTCTAA
66 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTATTTAGAAATTTATTTCTAA
* *
5606882 GGAAAATTGATACTTTCAACTTTTCCCTAAAATATATATATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAAATATTTATTTTT
5606927 ATTTTTATTT
Statistics
Matches: 366, Mismatches: 19, Indels: 43
0.86 0.04 0.10
Matches are distributed among these distances:
115 40 0.11
116 5 0.01
117 10 0.03
118 42 0.11
119 52 0.14
120 43 0.12
121 52 0.14
122 10 0.03
123 10 0.03
124 42 0.11
125 4 0.01
126 49 0.13
127 6 0.02
128 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.45
Consensus pattern (123 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTATTTTTTGGAAATTTATTTCTAAGGAA
AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTATTTAGAAATTTATTTCTAA
Found at i:5606984 original size:9 final size:10
Alignment explanation
Indices: 5606942--5606979 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
5606932 TATTTAAAGA
5606942 AAAT-AAAAT
1 AAATAAAAAT
5606951 -AATAAATAAT
1 AAATAAA-AAT
5606961 AAATAAAAAT
1 AAATAAAAAT
5606971 AAATAAAAA
1 AAATAAAAA
5606980 GAATATTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 3 0.12
9 2 0.08
10 15 0.58
11 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:5607030 original size:20 final size:19
Alignment explanation
Indices: 5607005--5607057 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
5606995 CTAATCTAAT
5607005 AAATAAAAAATAAAACAAAG
1 AAATAAAAAA-AAAACAAAG
**
5607025 AAATAAAAAGAAATTCAAAG
1 AAATAAAAA-AAAAACAAAG
5607045 AAA-AAAAAAAAAA
1 AAATAAAAAAAAAA
5607058 AACCTGGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.11
19 5 0.18
20 19 0.68
21 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (19 bp):
AAATAAAAAAAAAACAAAG
Found at i:5607987 original size:14 final size:17
Alignment explanation
Indices: 5607955--5607991 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
5607945 TAGATAAGTA
5607955 AAAATACAAAAATGAAT
1 AAAATACAAAAATGAAT
5607972 AAAATA-AAAAA-G-AT
1 AAAATACAAAAATGAAT
5607986 AAAATA
1 AAAATA
5607992 TATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 5 0.25
17 6 0.30
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAATACAAAAATGAAT
Found at i:5608018 original size:51 final size:50
Alignment explanation
Indices: 5607963--5608088 Score: 110
Period size: 55 Copynumber: 2.3 Consensus size: 50
5607953 TAAAAATACA
* * *
5607963 AAAATGAATAAAATAAAAAAGATAAAATATATATATATATACATA-AATAAT
1 AAAAT-AATAAAATAAAAAAAAT-AAATAAATAAATATATACATATAATAAT
*
5608014 AAAATACACATAAATATTAACAAAAAATAAATAAATAAATATATACATATATTAAT
1 AAAAT--A-ATAAA-A-TAA-AAAAAATAAATAAATAAATATATACATATAATAAT
5608070 ACATAATAATAATAATAAA
1 A-A-AATAATAA-AATAAA
5608089 TAATACAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
51 5 0.08
52 1 0.02
53 6 0.10
54 4 0.07
55 27 0.44
56 14 0.23
57 1 0.02
58 3 0.05
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (50 bp):
AAAATAATAAAATAAAAAAAATAAATAAATAAATATATACATATAATAAT
Found at i:5608532 original size:15 final size:17
Alignment explanation
Indices: 5608495--5608534 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
5608485 ATTAGATAAG
5608495 TAAAAATACAAAAATGA
1 TAAAAATACAAAAATGA
5608512 -ATAAAATA-AAAAA-GA
1 TA-AAAATACAAAAATGA
5608527 TAAAAATA
1 TAAAAATA
5608535 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (17 bp):
TAAAAATACAAAAATGA
Found at i:5615688 original size:25 final size:23
Alignment explanation
Indices: 5615637--5615696 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
5615627 ATTATCCAAT
5615637 AATG-AAATTTTTAAAAATTTCA
1 AATGAAAATTTTTAAAAATTTCA
*
5615659 AATGATAAATTTTTATAAAATTTTA
1 AATGA-AAATTTTTA-AAAATTTCA
* *
5615684 GATGAAATTTTTT
1 AATGAAAATTTTT
5615697 TCTAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 4 0.12
24 16 0.50
25 12 0.38
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (23 bp):
AATGAAAATTTTTAAAAATTTCA
Found at i:5615696 original size:24 final size:22
Alignment explanation
Indices: 5615637--5615695 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 22
5615627 ATTATCCAAT
5615637 AATGAAATTTTTAAAAATTTCA
1 AATGAAATTTTTAAAAATTTCA
*
5615659 AATGATAAATTTTTATAAAATTTTA
1 AATG--AAATTTTTA-AAAATTTCA
*
5615684 GATGAAATTTTT
1 AATGAAATTTTT
5615696 TTCTAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 9 0.28
25 11 0.34
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (22 bp):
AATGAAATTTTTAAAAATTTCA
Found at i:5616080 original size:13 final size:13
Alignment explanation
Indices: 5616062--5616086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5616052 AAAATTTTAT
5616062 AAATAAAAAAATA
1 AAATAAAAAAATA
5616075 AAATAAAAAAAT
1 AAATAAAAAAAT
5616087 TTCTAAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:5616083 original size:55 final size:55
Alignment explanation
Indices: 5615954--5616137 Score: 156
Period size: 55 Copynumber: 3.3 Consensus size: 55
5615944 TTTTTTTCAA
* *
5615954 AAAAAAATAAAAAAAAAAATTCTCTAAATTAACCCAAATGATGAAAAATTTATAAAT
1 AAAAAAATAAAATAAAAAATT-T-TCAATTAACCCAAATGATGAAAAATTTATAAAT
*** * * *
5616011 AAAAAAAT-TTTTAAAAAAATTTTCAATTGACTCAAAT-AGTGAAAATTTTATAAAT
1 AAAAAAATAAAAT-AAAAAATTTTCAATTAACCCAAATGA-TGAAAAATTTATAAAT
* * * * *
5616066 AAAAAAATAAAATAAAAAAATTTCTAAATAGGCCCAAATGATGAAAATTTTAAAAATT
1 AAAAAAATAAAATAAAAAATTTTC-AATTA-ACCCAAATGATGAAAAATTTATAAA-T
* *
5616124 CAAAAGATAAAATA
1 AAAAAAATAAAATA
5616138 TTTCTAACTT
Statistics
Matches: 101, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
54 1 0.01
55 45 0.45
56 5 0.05
57 36 0.36
58 14 0.14
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (55 bp):
AAAAAAATAAAATAAAAAATTTTCAATTAACCCAAATGATGAAAAATTTATAAAT
Found at i:5619845 original size:5 final size:5
Alignment explanation
Indices: 5619835--5619864 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
5619825 GTTTGTTACA
*
5619835 AATAC AATAC AATAC AATAC AATTC AATAC
1 AATAC AATAC AATAC AATAC AATAC AATAC
5619865 CTGGTTGTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAC
Found at i:5622720 original size:26 final size:25
Alignment explanation
Indices: 5622671--5622736 Score: 96
Period size: 26 Copynumber: 2.6 Consensus size: 25
5622661 TTGATATAAC
*
5622671 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAATGATTTAT
*
5622696 TATTAAAATATATGAAAATGATTTAT
1 TATTAAAATAT-TAAAAATGATTTAT
5622722 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
5622737 TATTGAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 11 0.31
26 22 0.61
27 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
TATTAAAATATTAAAAATGATTTAT
Found at i:5622792 original size:18 final size:19
Alignment explanation
Indices: 5622758--5622799 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
5622748 AGTTATATTT
5622758 TAAAAATAATAATTTAA-A
1 TAAAAATAATAATTTAATA
*
5622776 TAAAAAT-ATTATATTAATA
1 TAAAAATAATAAT-TTAATA
5622795 TAAAA
1 TAAAA
5622800 CACTTAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAATAATAATTTAATA
Found at i:5623110 original size:18 final size:17
Alignment explanation
Indices: 5623089--5623151 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 17
5623079 ATATTAAGAA
5623089 ATTATTAAATATATTCAT
1 ATTATTAAATATATT-AT
*
5623107 ATTATTAAA-ATAATAAT
1 ATTATTAAATAT-ATTAT
5623124 ATTATACTAAATAATATTA-
1 ATTAT--TAAAT-ATATTAT
5623143 ATTATTAAA
1 ATTATTAAA
5623152 AGGAAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
17 13 0.34
18 11 0.29
19 9 0.24
20 3 0.08
21 2 0.05
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTATTAAATATATTAT
Found at i:5626977 original size:3 final size:3
Alignment explanation
Indices: 5626969--5627007 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
5626959 AAAAAAGGAT
5626969 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5627008 CTTTTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5628740 original size:30 final size:30
Alignment explanation
Indices: 5628706--5628772 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
5628696 ACGAATCAAA
*
5628706 CTCGAACTTGAAAAATAAAATTCGATCGAG
1 CTCGAACTTGAAAAATAAAACTCGATCGAG
**
5628736 CTCGAGTTTGAAAAATAAAACTCGATCGAG
1 CTCGAACTTGAAAAATAAAACTCGATCGAG
*
5628766 CTTGAAC
1 CTCGAAC
5628773 CAAGTATCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (30 bp):
CTCGAACTTGAAAAATAAAACTCGATCGAG
Found at i:5635424 original size:15 final size:15
Alignment explanation
Indices: 5635404--5635450 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
5635394 AGACAATTAT
5635404 AAAATTTAATTTTAA
1 AAAATTTAATTTTAA
*
5635419 AAAATTGAATTTTAA
1 AAAATTTAATTTTAA
**
5635434 TTAATTTAA-TTTAA
1 AAAATTTAATTTTAA
5635448 AAA
1 AAA
5635451 TCAAATTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
AAAATTTAATTTTAA
Found at i:5635493 original size:16 final size:15
Alignment explanation
Indices: 5635472--5635502 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
5635462 AAAACAAAAT
5635472 AAAATATATATAATTA
1 AAAATATAT-TAATTA
5635488 AAAATATATTAATTA
1 AAAATATATTAATTA
5635503 CTCATTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATATATTAATTA
Found at i:5635561 original size:29 final size:28
Alignment explanation
Indices: 5635525--5635579 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
5635515 CAAGTTATTA
*
5635525 AAATTTTTAATTTAAT-ATTTTGATTTTT
1 AAATTTTTAATTAAATGATTTT-ATTTTT
*
5635553 AAATATTTTTATTAAATGATTTTATTT
1 AAAT-TTTTAATTAAATGATTTTATTT
5635580 AATTTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.17
29 14 0.61
30 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (28 bp):
AAATTTTTAATTAAATGATTTTATTTTT
Found at i:5635893 original size:2 final size:2
Alignment explanation
Indices: 5635880--5635914 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
5635870 AATACAAATT
* *
5635880 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5635915 TATTTTCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5636096 original size:30 final size:30
Alignment explanation
Indices: 5636062--5636130 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
5636052 AATAAAAGAT
5636062 AAAAAATAATATTTTTTAATTTAGAAATTA
1 AAAAAATAATATTTTTTAATTTAGAAATTA
5636092 AAAAAATAATATTTTTTAATTTAGAAATTA
1 AAAAAATAATATTTTTTAATTTAGAAATTA
5636122 AAAAAATAA
1 AAAAAATAA
5636131 AAAAATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAAAATAATATTTTTTAATTTAGAAATTA
Found at i:5642889 original size:20 final size:20
Alignment explanation
Indices: 5642864--5642908 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
5642854 TGTTACATTT
5642864 AATTAT-TTTATATAATTATA
1 AATTATATTTA-ATAATTATA
*
5642884 AATTATATTTAATAATTTTA
1 AATTATATTTAATAATTATA
5642904 AATTA
1 AATTA
5642909 ATTAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTATATTTAATAATTATA
Found at i:5645178 original size:890 final size:886
Alignment explanation
Indices: 5643831--5645614 Score: 3302
Period size: 890 Copynumber: 2.0 Consensus size: 886
5643821 CATTATTATT
5643831 TTCTTTATTAGTTGAATTTTTATTAAAATTTTAAAATTAAAAATTGATTAAAAATGCATAAAAAT
1 TTCTTTATTAGTTGAATTTTTATTAAAATTTTAAAATTAAAAATTGATTAAAAATGCATAAAAAT
5643896 AATTGCATCAAACATAAAATAATCATCATAAAAAAAATGCATGTTGGGGAATAACTAAAGTTATA
66 AATTGCATCAAACATAAAATAATCATCATAAAAAAAATGCATGTTGGGGAATAACTAAAGTTATA
*
5643961 AATTCCACAAAACACTTGAAAACAAAATTATTAAAAAAATAAGACAAAGAAATTGTTACTATGTT
131 AATTCCACAAAACACTTGAAAACAAAATTATTAAAAAAATAAGAAAAAGAAATTGTTACTATGTT
5644026 AAACATTGAATTTGTTAATTGATTCTAAAATAAAGAAATTAATAAATCAAAATAAAAATTTATGT
196 AAACATTGAATTTGTTAATTGATTCTAAAATAAAGAAATTAATAAATCAAAATAAAAATTTATGT
5644091 AATCTGATGAATAAGAGCATTTCAATTGATCAACAAAATTTAATAAAAAAAAAAATTAAGTATTT
261 AATCTGATGAATAAGAGCATTTCAATTGATCAACAAAATTTAAT-AAAAAAAAAATTAAGTATTT
5644156 AAACAAAGTAAAAGAGATCGTTGTATTTTATGGATATACTCACAAACATGTGTTGTATAAACCAA
325 AAACAAAGTAAAAGAGATCGTTGTATTTTATGGATATACTCACAAACATGTGTTGTATAAACCAA
5644221 ATAATAATAAAAGTAATGGATTACAAGAAATAGCAACTAAGAAAATACAAATAGGAATTTGAAAT
390 ATAATAATAAAAGTAATGGATTACAAGAAATAGCAACTAAGAAAATACAAATAGGAATTTGAAAT
*
5644286 TTTAAGTTAAAATAAAATAGTTTGTGAGTTTTTGGGTGATAGGAAGAACAATATTTAGGTTGGAA
455 TTTAAGTTAAAATAAAATAGTTGGTGAGTTTTTGGGTGATAGGAAGAACAATATTTAGGTTGGAA
5644351 GGGTCTACTTTTGATGTAAAGCTTTTGAATTTGATACAAAGGTGAAGGTGGGTAACTATAAGACA
520 GGGTCTACTTTTGATGTAAAGCTTTTGAATTTGATACAAAGGTGAAGGTGGGTAACTATAAGACA
*
5644416 AACATAACAGTATGTTGGCTAAAATTTCTACAGTAAAAGATGGTCTTAAACATGTTATAGTCAAC
585 AACATAACAGTATGTTGGCTAAAATTTCTACAGTAAAAGATGATCTTAAACATGTTATAGTCAAC
5644481 TATGCAAGAGAAAGATGCAAAATTATAGTTGATTTTGTAAAGCAGGTTATTTCTAGTGGTCATCT
650 TATGCAAGAGAAAGATGCAAAATTATAGTTGATTTTGTAAAGCAGGTTATTTCTAGTGGTCATCT
* *
5644546 TTTTAAATTGAAAATGTAAGGCAACTCAAAAATCTTACTTATCAAGATAAAGTAAAATATAGATT
715 TTTTAAACTGAAAATGTAAGGCAACTCAAAAATCTAACTTATCAAGATAAAGTAAAATATAGA--
5644611 TTTTTTTTTTTAAATAAACTAAAATGTAAATATTAAATGCTAATGGTTAACTAACAATAACATTA
778 --TTTTTTTTTAAATAAACTAAAATGTAAATATTAAATGCTAATGGTTAACTAACAATAACATTA
5644676 GAATTAAGAGTAATTACATCAAAAATATTTCAATTAGTAACAATAC
841 GAATTAAGAGTAATTACATCAAAAATATTTCAATTAGTAACAATAC
*
5644722 TTCTTTATTAGTTGAATTTTTATTAAAATTTTAAAATTAAAAGTTGATTAAAAAAATGCATAAAA
1 TTCTTTATTAGTTGAATTTTTATTAAAATTTTAAAATTAAAAATTGATT--AAAAATGCATAAAA
*
5644787 ATAATTGCATCAAACATAAAATAATCATCATAAAAAAAATGCTTGTTGGGGAATAACTAAAGTTA
64 ATAATTGCATCAAACATAAAATAATCATCATAAAAAAAATGCATGTTGGGGAATAACTAAAGTTA
*
5644852 TAAATTCCACAAAAGACTTGAAAACAAAATTATTAAAAAAATAAGAAAAAGAAATTGTTAC-ATG
129 TAAATTCCACAAAACACTTGAAAACAAAATTATTAAAAAAATAAGAAAAAGAAATTGTTACTATG
*
5644916 TTAAACATTGGATTTGTTAATTGATTCTAAAATAAAGAAATTAATAAATCAAAATAAAAATTTAT
194 TTAAACATTGAATTTGTTAATTGATTCTAAAATAAAGAAATTAATAAATCAAAATAAAAATTTAT
* * *
5644981 GTAATCTGATGAATAAGAGCATTTCAATTGATCAACAAAATTTAAT-GAAAGAAAATTACGTATT
259 GTAATCTGATGAATAAGAGCATTTCAATTGATCAACAAAATTTAATAAAAAAAAAATTAAGTATT
*
5645045 TAAACAAAGTAAAGGAGATCGTTGTATTTTATGGATATACTCACAAACATGTGTTGTATAAACCA
324 TAAACAAAGTAAAAGAGATCGTTGTATTTTATGGATATACTCACAAACATGTGTTGTATAAACCA
* *
5645110 AATAATAATAAAAGTAATGGATTACAGGAAATGGCAACTAAGAAAATACAAATAGGAATTTGAAA
389 AATAATAATAAAAGTAATGGATTACAAGAAATAGCAACTAAGAAAATACAAATAGGAATTTGAAA
5645175 TTTTAAGTTAAAATAAAATAGTTGGTGAGTTTTTGGGTGATAGGAAGAACAATATTTAGGTTGGA
454 TTTTAAGTTAAAATAAAATAGTTGGTGAGTTTTTGGGTGATAGGAAGAACAATATTTAGGTTGGA
5645240 AGGGTCTACTTTTGATGTAAAGCTTTTGAATTTGATACAAAGGTGAAGGTGGGTAACTATAAGAC
519 AGGGTCTACTTTTGATGTAAAGCTTTTGAATTTGATACAAAGGTGAAGGTGGGTAACTATAAGAC
5645305 AAACATAACAGTATGTTGGCTAAAATTTCTACAGTAAAAGATGATCTTAAACATGTTATAGTCAA
584 AAACATAACAGTATGTTGGCTAAAATTTCTACAGTAAAAGATGATCTTAAACATGTTATAGTCAA
*
5645370 CTATGCAAGAGAAAGATGCAAAATTATAGTTGATTTTGTAAAGTAGGTTATTTCTAGTGGTCATC
649 CTATGCAAGAGAAAGATGCAAAATTATAGTTGATTTTGTAAAGCAGGTTATTTCTAGTGGTCATC
* *
5645435 TTTTTACACTGAAAATGTAAGGCAACTCAAAAATCTAACTTATTAAGATAAAGTAAAATATAGAT
714 TTTTTAAACTGAAAATGTAAGGCAACTCAAAAATCTAACTTATCAAGATAAAGTAAAATATAGAT
*
5645500 TTTTTTTTAGATAAACTAAAATGTAAATATTAAATGCTAATGGTTAACTAACAATAACATTAGAA
779 TTTTTTTTAAATAAACTAAAATGTAAATATTAAATGCTAATGGTTAACTAACAATAACATTAGAA
*
5645565 TTAAGAGTAATTACATCAAAAATATTTCAATTAGTAGCAATAC
844 TTAAGAGTAATTACATCAAAAATATTTCAATTAGTAACAATAC
*
5645608 TTATTTA
1 TTCTTTA
5645615 ATATATAAGC
Statistics
Matches: 870, Mismatches: 21, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
886 113 0.13
890 459 0.53
891 48 0.06
892 113 0.13
893 137 0.16
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (886 bp):
TTCTTTATTAGTTGAATTTTTATTAAAATTTTAAAATTAAAAATTGATTAAAAATGCATAAAAAT
AATTGCATCAAACATAAAATAATCATCATAAAAAAAATGCATGTTGGGGAATAACTAAAGTTATA
AATTCCACAAAACACTTGAAAACAAAATTATTAAAAAAATAAGAAAAAGAAATTGTTACTATGTT
AAACATTGAATTTGTTAATTGATTCTAAAATAAAGAAATTAATAAATCAAAATAAAAATTTATGT
AATCTGATGAATAAGAGCATTTCAATTGATCAACAAAATTTAATAAAAAAAAAATTAAGTATTTA
AACAAAGTAAAAGAGATCGTTGTATTTTATGGATATACTCACAAACATGTGTTGTATAAACCAAA
TAATAATAAAAGTAATGGATTACAAGAAATAGCAACTAAGAAAATACAAATAGGAATTTGAAATT
TTAAGTTAAAATAAAATAGTTGGTGAGTTTTTGGGTGATAGGAAGAACAATATTTAGGTTGGAAG
GGTCTACTTTTGATGTAAAGCTTTTGAATTTGATACAAAGGTGAAGGTGGGTAACTATAAGACAA
ACATAACAGTATGTTGGCTAAAATTTCTACAGTAAAAGATGATCTTAAACATGTTATAGTCAACT
ATGCAAGAGAAAGATGCAAAATTATAGTTGATTTTGTAAAGCAGGTTATTTCTAGTGGTCATCTT
TTTAAACTGAAAATGTAAGGCAACTCAAAAATCTAACTTATCAAGATAAAGTAAAATATAGATTT
TTTTTTAAATAAACTAAAATGTAAATATTAAATGCTAATGGTTAACTAACAATAACATTAGAATT
AAGAGTAATTACATCAAAAATATTTCAATTAGTAACAATAC
Found at i:5651554 original size:23 final size:24
Alignment explanation
Indices: 5651528--5651574 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
5651518 TCATATAGAC
* *
5651528 ATGTTTAACAATCAC-AAATCATT
1 ATGTATAAAAATCACAAAATCATT
5651551 ATGTATAAAAATCACAAAATCATT
1 ATGTATAAAAATCACAAAATCATT
5651575 TCCATCATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (24 bp):
ATGTATAAAAATCACAAAATCATT
Found at i:5659269 original size:7 final size:7
Alignment explanation
Indices: 5659253--5659319 Score: 55
Period size: 7 Copynumber: 9.0 Consensus size: 7
5659243 TGGCCATGAT
*
5659253 AAATAAA
1 AAATATA
5659260 AAATATAA
1 AAATAT-A
5659268 AAATATA
1 AAATATA
5659275 AAATATAAA
1 AAATAT--A
5659284 AACATATA
1 AA-ATATA
5659292 AAA-ATA
1 AAATATA
*
5659298 AAATTTAA
1 AAATAT-A
*
5659306 AAATTTA
1 AAATATA
5659313 AAATATA
1 AAATATA
5659320 TATACATAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 6 0.12
7 21 0.41
8 17 0.33
9 3 0.06
10 4 0.08
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATATA
Found at i:5659271 original size:8 final size:8
Alignment explanation
Indices: 5659253--5659321 Score: 65
Period size: 8 Copynumber: 8.9 Consensus size: 8
5659243 TGGCCATGAT
5659253 AAATA-AA
1 AAATATAA
5659260 AAATATAA
1 AAATATAA
5659268 AAATAT-A
1 AAATATAA
5659275 AAATATAA
1 AAATATAA
*
5659283 AAACATATA
1 AAATATA-A
5659292 AAA-AT-A
1 AAATATAA
*
5659298 AAATTTAA
1 AAATATAA
*
5659306 AAATTTAA
1 AAATATAA
5659314 AATATATA
1 AA-ATATA
5659322 TACATAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
6 4 0.08
7 13 0.25
8 28 0.53
9 8 0.15
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (8 bp):
AAATATAA
Found at i:5659277 original size:17 final size:16
Alignment explanation
Indices: 5659253--5659321 Score: 65
Period size: 15 Copynumber: 4.4 Consensus size: 16
5659243 TGGCCATGAT
5659253 AAATA-AAAAATATAA
1 AAATATAAAAATATAA
5659268 AAATAT-AAAATATAA
1 AAATATAAAAATATAA
*
5659283 AAACATATAAAA-AT-A
1 AAATATA-AAAATATAA
* *
5659298 AAATTTAAAAATTTAA
1 AAATATAAAAATATAA
5659314 AATATATA
1 AA-ATATA
5659322 TACATAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
14 4 0.09
15 26 0.60
16 5 0.12
17 8 0.19
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATATAAAAATATAA
Found at i:5659298 original size:23 final size:24
Alignment explanation
Indices: 5659255--5659321 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
5659245 GCCATGATAA
5659255 ATAAAAAATATAAAAATATAAAAT
1 ATAAAAAATATAAAAATATAAAAT
5659279 ATAAAAACATAT-AAAA-ATAAAAT
1 ATAAAAA-ATATAAAAATATAAAAT
* *
5659302 -TTAAAAATTTAAAATATATA
1 ATAAAAAATATAAAA-ATATA
5659322 TACATAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 3 0.08
22 8 0.22
23 8 0.22
24 14 0.38
25 4 0.11
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (24 bp):
ATAAAAAATATAAAAATATAAAAT
Found at i:5660394 original size:21 final size:21
Alignment explanation
Indices: 5660353--5660397 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5660343 TTTAATTATC
* *
5660353 AAATAATAACAAGTAGTAAAT
1 AAATAATAACAAATAGAAAAT
5660374 AAATAATAACAAAATA-AAAAT
1 AAATAATAAC-AAATAGAAAAT
5660395 AAA
1 AAA
5660398 AACGATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (21 bp):
AAATAATAACAAATAGAAAAT
Found at i:5660521 original size:15 final size:18
Alignment explanation
Indices: 5660503--5660543 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 18
5660493 ATTAAATATT
5660503 AAATAATAAAA-A-TAA-
1 AAATAATAAAAGATTAAC
5660518 AAATAATAAAAGATTAAC
1 AAATAATAAAAGATTAAC
5660536 AAATAATA
1 AAATAATA
5660544 TTAGTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 3 0.13
18 8 0.35
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AAATAATAAAAGATTAAC
Found at i:5662402 original size:25 final size:24
Alignment explanation
Indices: 5662342--5662430 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 24
5662332 TAGGACATCG
*
5662342 TATTTATTATGTTTTTTTGTTGTAT
1 TATTTATT-TGTTTTGTTGTTGTAT
* ** *
5662367 TATATGGTTGTTTTGTTGTTTTTAT
1 TATTTATTTGTTTTGTTG-TTGTAT
*
5662392 TATTTATTTGTTTAGGTTGTTG-AT
1 TATTTATTTGTTT-TGTTGTTGTAT
*
5662416 TCATTTTATCTGTTT
1 T-A-TTTATTTGTTT
5662431 AGTTTTTAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
24 12 0.24
25 23 0.47
26 14 0.29
ACGTcount: A:0.15, C:0.02, G:0.16, T:0.67
Consensus pattern (24 bp):
TATTTATTTGTTTTGTTGTTGTAT
Found at i:5665851 original size:20 final size:21
Alignment explanation
Indices: 5665817--5665884 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
5665807 AAATGTTTTT
5665817 AAAAAAGAGAGAAAACGAGAAA
1 AAAAAAGAGAGAAAACGA-AAA
5665839 AAAAAAG-GA-AAAACGAAAA
1 AAAAAAGAGAGAAAACGAAAA
*
5665858 AGCGAAAAAGAG-GAAAAAGAAAA
1 A---AAAAAGAGAGAAAACGAAAA
5665881 AAAA
1 AAAA
5665885 GTTTATATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
19 4 0.10
20 10 0.25
21 2 0.05
22 13 0.32
23 11 0.28
ACGTcount: A:0.75, C:0.04, G:0.21, T:0.00
Consensus pattern (21 bp):
AAAAAAGAGAGAAAACGAAAA
Found at i:5666714 original size:15 final size:15
Alignment explanation
Indices: 5666696--5666730 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5666686 CCAAAACCCC
*
5666696 AAAAGGAAAAAAAAT
1 AAAAGGAAAAAAAAA
*
5666711 AAAAGTAAAAAAAAA
1 AAAAGGAAAAAAAAA
5666726 AAAAG
1 AAAAG
5666731 AGAAGACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (15 bp):
AAAAGGAAAAAAAAA
Found at i:5667144 original size:25 final size:24
Alignment explanation
Indices: 5667059--5667144 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
5667049 GAAATAATGC
* * *
5667059 AAAAGGAAAAGTGAA-AAAAAAAA
1 AAAAAGAAAAATGAAGAAAGAAAA
*
5667082 AAAAATGAAAGAAAGAATGAAAGAAAA
1 AAAAA-GAAA-AATGAA-GAAAGAAAA
*
5667109 AAATAGAAAAATGAAGAAAGATAAA
1 AAAAAGAAAAATGAAGAAAGA-AAA
*
5667134 AAAAAGGAAAA
1 AAAAAGAAAAA
5667145 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 21 0.42
26 4 0.08
27 11 0.22
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (24 bp):
AAAAAGAAAAATGAAGAAAGAAAA
Found at i:5667547 original size:9 final size:9
Alignment explanation
Indices: 5667517--5667551 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
5667507 GAAAGAAAAT
5667517 AAAATGAAA
1 AAAATGAAA
5667526 GAAAATG-AA
1 -AAAATGAAA
5667535 AAAATGAAA
1 AAAATGAAA
5667544 AAAATGAA
1 AAAATGAA
5667552 TGTGGCTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.25
9 12 0.50
10 6 0.25
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (9 bp):
AAAATGAAA
Found at i:5667547 original size:17 final size:18
Alignment explanation
Indices: 5667502--5667551 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 18
5667492 AAAAAAGATC
5667502 AAAAA-GAAAGAAAAT--
1 AAAAATGAAAGAAAATGA
5667517 -AAAATGAAAGAAAATGA
1 AAAAATGAAAGAAAATGA
5667534 AAAAATGAAA-AAAATGA
1 AAAAATGAAAGAAAATGA
5667551 A
1 A
5667552 TGTGGCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.13
15 10 0.32
17 8 0.26
18 9 0.29
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (18 bp):
AAAAATGAAAGAAAATGA
Found at i:5668321 original size:65 final size:64
Alignment explanation
Indices: 5668131--5668345 Score: 181
Period size: 65 Copynumber: 3.3 Consensus size: 64
5668121 TTATGAAAAG
* * * *
5668131 ATTTAAGCCTAGA-TTATCTGACACTC-ATGAAAATATTTAAGCTTAGATTATCTGGCACTC-AT
1 ATTTAAGCCCA-ATTTAGCTGACACCCAATG-AAA-ATTTAAGCCTAGATTATCTGGCAC-CAAT
5668193 GAAAA
62 G--AA
* * *
5668198 TATTTAAGCCCAATTTAGTTGACACCCAATGAAATTTTAAACCTA-ATTTATCTGGCACCAATGA
1 -ATTTAAGCCCAATTTAGCTGACACCCAATGAAAATTTAAGCCTAGA-TTATCTGGCACCAATGA
5668262 A
64 A
* * * *
5668263 GATTTGAA-CCCAATTTAGCTGGCACCTAAT-AAAGATTTAAGCCTAGATTAGCTAGCACCCAAT
1 -ATTT-AAGCCCAATTTAGCTGACACCCAATGAAA-ATTTAAGCCTAGATTATCTGGCA-CCAAT
5668326 GAA
62 GAA
5668329 ATTTAAGCCCAATTTAG
1 ATTTAAGCCCAATTTAG
5668346 TTAGCATACA
Statistics
Matches: 123, Mismatches: 15, Indels: 21
0.77 0.09 0.13
Matches are distributed among these distances:
64 5 0.04
65 56 0.46
66 13 0.11
67 23 0.19
68 23 0.19
69 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (64 bp):
ATTTAAGCCCAATTTAGCTGACACCCAATGAAAATTTAAGCCTAGATTATCTGGCACCAATGAA
Found at i:5668351 original size:32 final size:33
Alignment explanation
Indices: 5668199--5668351 Score: 131
Period size: 33 Copynumber: 4.7 Consensus size: 33
5668189 TCATGAAAAT
5668199 ATTTAAGCCCAATTTAGTT-GACACCCAATGAA-
1 ATTTAAGCCCAATTTAGTTAG-CACCCAATGAAG
* * *
5668231 ATTTTAAACCTAATTTA-TCTGGCA-CCAATGAAG
1 A-TTTAAGCCCAATTTAGT-TAGCACCCAATGAAG
* * * *
5668264 ATTTGAA-CCCAATTTAGCTGGCACCTAATAAAG
1 ATTT-AAGCCCAATTTAGTTAGCACCCAATGAAG
* *
5668297 ATTTAAGCCTAGA-TTAGCTAGCACCCAATGAA-
1 ATTTAAGCCCA-ATTTAGTTAGCACCCAATGAAG
5668329 ATTTAAGCCCAATTTAGTTAGCA
1 ATTTAAGCCCAATTTAGTTAGCA
5668352 TACAAGTTGT
Statistics
Matches: 99, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
31 1 0.01
32 47 0.47
33 49 0.49
34 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (33 bp):
ATTTAAGCCCAATTTAGTTAGCACCCAATGAAG
Found at i:5668484 original size:32 final size:32
Alignment explanation
Indices: 5668422--5668498 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 32
5668412 GCACTCATAA
*
5668422 AAAGATTTAAGCTCAGTTTAGCTTGAACCAAT
1 AAAGATTTAAGCTCAGTTTAGCTAGAACCAAT
* * *
5668454 AAAGATTTATGC-CTAGTTTATCTAGCACCAAAT
1 AAAGATTTAAGCTC-AGTTTAGCTAGAACC-AAT
*
5668487 GAA-ATTTAAGCT
1 AAAGATTTAAGCT
5668499 TGATTTATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
31 1 0.03
32 30 0.83
33 5 0.14
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (32 bp):
AAAGATTTAAGCTCAGTTTAGCTAGAACCAAT
Found at i:5668567 original size:33 final size:34
Alignment explanation
Indices: 5668082--5668580 Score: 192
Period size: 34 Copynumber: 15.1 Consensus size: 34
5668072 AGCCTGGCTA
* * *
5668082 GCACCCAGTGAAAGGCTTTAAGCCCAGTTTATCTG
1 GCACCCAATGAAA-GATTTAAGCCTAGTTTATCTG
* ** *
5668117 ACA-CTTATGAAAAGATTTAAGCCTAGATTATCTG
1 GCACCCAATG-AAAGATTTAAGCCTAGTTTATCTG
* * * * *
5668151 ACACTC-ATGAAAATATTTAAGCTTAGATTATCTG
1 GCACCCAATG-AAAGATTTAAGCCTAGTTTATCTG
* * * *
5668185 GCACTC-ATGAAAATATTTAAGCCCAATTTAGT-TG
1 GCACCCAATG-AAAGATTTAAGCCTAGTTTA-TCTG
* * * *
5668219 ACACCCAATGAAA-TTTTAAACCTAATTTATCTG
1 GCACCCAATGAAAGATTTAAGCCTAGTTTATCTG
* * *
5668252 GCA-CCAATG-AAGATTTGAA-CCCAATTTAGCTG
1 GCACCCAATGAAAGATTT-AAGCCTAGTTTATCTG
* * * *
5668284 GCACCTAAT-AAAGATTTAAGCCTAGATTAGCTA
1 GCACCCAATGAAAGATTTAAGCCTAGTTTATCTG
* *
5668317 GCACCCAATG-AA-ATTTAAGCCCAATTTAGT-T-
1 GCACCCAATGAAAGATTTAAGCCTAGTTTA-TCTG
* * ** *
5668348 --A-GC-AT-ACAAG-TTGTAAGCCCAAATTATCTA
1 GCACCCAATGA-AAGATT-TAAGCCTAGTTTATCTG
** * **
5668378 GCATTC-ATGAAAAGATTTAAGCCCAAATTATCTG
1 GCACCCAATG-AAAGATTTAAGCCTAGTTTATCTG
* * * *
5668412 GCACTC-ATAAAAAGATTTAAG-CTCAGTTTAGCTT
1 GCACCCAAT-GAAAGATTTAAGCCT-AGTTTATCTG
* * *
5668446 G-AACCAAT-AAAGATTTATGCCTAGTTTATCTA
1 GCACCCAATGAAAGATTTAAGCCTAGTTTATCTG
* *
5668478 GCACCAAATG-AA-ATTTAAG-CTTGATTTATCTTG
1 GCACCCAATGAAAGATTTAAGCCTAG-TTTATC-TG
* *
5668511 GCACTC-ATGAAAAGATTTAAGCCTAGTTTAGCTG
1 GCACCCAATG-AAAGATTTAAGCCTAGTTTATCTG
* *
5668545 GTACCCAATGAAA-ATTTAAGCCTAGATTATCTG
1 GCACCCAATGAAAGATTTAAGCCTAGTTTATCTG
5668578 GCA
1 GCA
5668581 TCAAGCTGGC
Statistics
Matches: 362, Mismatches: 65, Indels: 76
0.72 0.13 0.15
Matches are distributed among these distances:
27 2 0.01
28 6 0.02
29 14 0.04
31 5 0.01
32 75 0.21
33 89 0.25
34 141 0.39
35 27 0.07
36 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (34 bp):
GCACCCAATGAAAGATTTAAGCCTAGTTTATCTG
Found at i:5668746 original size:22 final size:22
Alignment explanation
Indices: 5668682--5668729 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
5668672 GTATTCGTTG
5668682 GCACATAAA-CCCATAATTAGCTA
1 GCACA-AAAGCCCAT-ATTAGCTA
*
5668705 GCACAAAAGCCCAGATTAGCTA
1 GCACAAAAGCCCATATTAGCTA
5668727 GCA
1 GCA
5668730 TGTAAGTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.17
Consensus pattern (22 bp):
GCACAAAAGCCCATATTAGCTA
Found at i:5669249 original size:7 final size:7
Alignment explanation
Indices: 5669233--5669282 Score: 57
Period size: 7 Copynumber: 6.9 Consensus size: 7
5669223 TGGCCATGAT
*
5669233 AAATAAA
1 AAATATA
5669240 AAATATA
1 AAATATA
5669247 AAATATAAA
1 AAATAT--A
5669256 AACATATA
1 AA-ATATA
5669264 AAA-ATA
1 AAATATA
5669270 AAATATA
1 AAATATA
5669277 AAATAT
1 AAATAT
5669283 TTAAAATATG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 6 0.16
7 22 0.58
8 3 0.08
9 3 0.08
10 4 0.11
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (7 bp):
AAATATA
Found at i:5669262 original size:17 final size:15
Alignment explanation
Indices: 5669233--5669272 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
5669223 TGGCCATGAT
5669233 AAATAAAAAATATAA
1 AAATAAAAAATATAA
5669248 AATATAAAAACATATAA
1 AA-ATAAAAA-ATATAA
5669265 AAATAAAA
1 AAATAAAA
5669273 TATAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 13 0.57
17 8 0.35
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAAAAAATATAA
Found at i:5670814 original size:3 final size:3
Alignment explanation
Indices: 5670808--5670832 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5670798 ATTTTTCTTC
5670808 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
5670833 GGCACCTTAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5670916 original size:15 final size:14
Alignment explanation
Indices: 5670898--5670936 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
5670888 AACAAGTAGT
*
5670898 AAATAAACAATAACA
1 AAATAAA-AATAAAA
5670913 AAATAAAAATAAAA
1 AAATAAAAATAAAA
5670927 ACAATAAAAA
1 A-AATAAAAA
5670937 ATTTTGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (14 bp):
AAATAAAAATAAAA
Found at i:5671239 original size:13 final size:13
Alignment explanation
Indices: 5671213--5671264 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
5671203 AACCTTAAAC
5671213 CAAACCTCTAAAATT
1 CAAACC-CT-AAATT
5671228 CAAACCCTAAATT
1 CAAACCCTAAATT
* *
5671241 TAAACCCTAAA-C
1 CAAACCCTAAATT
5671253 CAAAACCCTAAA
1 C-AAACCCTAAA
5671265 ATTGAAATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 25 0.76
14 2 0.06
15 6 0.18
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (13 bp):
CAAACCCTAAATT
Found at i:5671252 original size:40 final size:40
Alignment explanation
Indices: 5671202--5671304 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
5671192 TAAAACTTCA
*
5671202 AAACCTTAAACC-AAACCTCTAAAATTCAAACCCTAAATTT
1 AAACCTTAAACCAAAACC-CTAAAATTCAAACCCTAAATTG
* * * *
5671242 AAACCCTAAACCAAAACCCTAAAATTGAAATCTTAAATTG
1 AAACCTTAAACCAAAACCCTAAAATTCAAACCCTAAATTG
* *
5671282 AAATCTTAAACCGAAACCCTAAA
1 AAACCTTAAACCAAAACCCTAAA
5671305 TAAACCTTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
40 49 0.91
41 5 0.09
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (40 bp):
AAACCTTAAACCAAAACCCTAAAATTCAAACCCTAAATTG
Found at i:5671279 original size:13 final size:13
Alignment explanation
Indices: 5671263--5671291 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
5671253 CAAAACCCTA
5671263 AAATTGAAATCTT
1 AAATTGAAATCTT
5671276 AAATTGAAATCTT
1 AAATTGAAATCTT
5671289 AAA
1 AAA
5671292 CCGAAACCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (13 bp):
AAATTGAAATCTT
Found at i:5671346 original size:26 final size:26
Alignment explanation
Indices: 5671295--5671362 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
5671285 TCTTAAACCG
* ***
5671295 AAACCCTAAAT-AAACCTTAGGGTCA
1 AAACCCTAAATGAAACCCTAAAATCA
5671320 AAACCCTAAATGAAACCCTAAAATCA
1 AAACCCTAAATGAAACCCTAAAATCA
* *
5671346 AAACCTTAAGTGAAACC
1 AAACCCTAAATGAAACC
5671363 TAACATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 11 0.31
26 25 0.69
ACGTcount: A:0.49, C:0.25, G:0.09, T:0.18
Consensus pattern (26 bp):
AAACCCTAAATGAAACCCTAAAATCA
Found at i:5676836 original size:94 final size:94
Alignment explanation
Indices: 5676675--5676865 Score: 382
Period size: 94 Copynumber: 2.0 Consensus size: 94
5676665 CAGGTTGCAA
5676675 ATGAAAAAATTTAAATTTGAAATATTTCGCTTACCATTACAAAAGTTATTACCTTACAAGAGTAT
1 ATGAAAAAATTTAAATTTGAAATATTTCGCTTACCATTACAAAAGTTATTACCTTACAAGAGTAT
5676740 AAGTAATTTGGTGCTTAGGTATAATGTTT
66 AAGTAATTTGGTGCTTAGGTATAATGTTT
5676769 ATGAAAAAATTTAAATTTGAAATATTTCGCTTACCATTACAAAAGTTATTACCTTACAAGAGTAT
1 ATGAAAAAATTTAAATTTGAAATATTTCGCTTACCATTACAAAAGTTATTACCTTACAAGAGTAT
5676834 AAGTAATTTGGTGCTTAGGTATAATGTTT
66 AAGTAATTTGGTGCTTAGGTATAATGTTT
5676863 ATG
1 ATG
5676866 CATGATATAA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (94 bp):
ATGAAAAAATTTAAATTTGAAATATTTCGCTTACCATTACAAAAGTTATTACCTTACAAGAGTAT
AAGTAATTTGGTGCTTAGGTATAATGTTT
Found at i:5677383 original size:3 final size:3
Alignment explanation
Indices: 5677375--5677419 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
5677365 ATCTCCAACC
5677375 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5677420 TATTTTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5679116 original size:7 final size:7
Alignment explanation
Indices: 5679104--5679137 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
5679094 ATCCTGTATT
5679104 TTTTTTC
1 TTTTTTC
5679111 TTTTTT-
1 TTTTTTC
5679117 TTTTTCTC
1 TTTTT-TC
5679125 TTTTTTC
1 TTTTTTC
5679132 TTTTTT
1 TTTTTT
5679138 GTATATCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.20
7 15 0.60
8 5 0.20
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:5679117 original size:12 final size:13
Alignment explanation
Indices: 5679102--5679135 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
5679092 TTATCCTGTA
5679102 TTTTTTTTCT-TT
1 TTTTTTTTCTCTT
5679114 TTTTTTTTCTCTT
1 TTTTTTTTCTCTT
5679127 TTTTCTTTT
1 TTTT-TTTT
5679136 TTGTATATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.50
13 6 0.30
14 4 0.20
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTCTT
Found at i:5679202 original size:3 final size:3
Alignment explanation
Indices: 5679189--5679245 Score: 80
Period size: 3 Copynumber: 18.7 Consensus size: 3
5679179 ATGTATATAG
5679189 TTA TATA TTA TTA -TA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
*
5679235 TTT TTA TTA TT
1 TTA TTA TTA TT
5679246 TTTGGGTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 41 0.84
4 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5679339 original size:13 final size:14
Alignment explanation
Indices: 5679301--5679346 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
5679291 ATCTGATTTT
*
5679301 TTTTTGATTATCTGA
1 TTTTTAATTATCT-A
*
5679316 TTGTT-ATTATCT-
1 TTTTTAATTATCTA
5679328 TTTTTAATTATCTA
1 TTTTTAATTATCTA
5679342 TTTTT
1 TTTTT
5679347 TTATTTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 4 0.15
13 7 0.26
14 12 0.44
15 4 0.15
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTTAATTATCTA
Found at i:5679666 original size:25 final size:24
Alignment explanation
Indices: 5679610--5679666 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
5679600 GTTTTGGGAG
*
5679610 TGAGAAAATTTTTTTAGAAATTTT
1 TGAGAAAATTTTTTTAGAAATTTC
* *
5679634 TGGCGAAAATTTTTTCTGGAAATTTC
1 T-GAGAAAATTTTTT-TAGAAATTTC
5679660 TGAGAAA
1 TGAGAAA
5679667 TTTCCAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 17 0.63
26 9 0.33
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (24 bp):
TGAGAAAATTTTTTTAGAAATTTC
Found at i:5679783 original size:19 final size:20
Alignment explanation
Indices: 5679759--5679800 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
5679749 GGTGATATTT
*
5679759 CGGTGAAA-TTTCCAGATTC
1 CGGTGAAATTTTCCAGAATC
5679778 CGGTGAAATTTTCCAGAATC
1 CGGTGAAATTTTCCAGAATC
5679798 CGG
1 CGG
5679801 CACCGGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (20 bp):
CGGTGAAATTTTCCAGAATC
Found at i:5680223 original size:18 final size:19
Alignment explanation
Indices: 5680202--5680245 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
5680192 TGTAATATTC
*
5680202 TTTTTTTATTTTTA-TTTA
1 TTTTTTTATTATTATTTTA
5680220 TTTTTTT-TTATTATTTTA
1 TTTTTTTATTATTATTTTA
5680238 TTTTTTTA
1 TTTTTTTA
5680246 AATAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTATTATTATTTTA
Found at i:5680229 original size:14 final size:14
Alignment explanation
Indices: 5680205--5680242 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
5680195 AATATTCTTT
5680205 TTTTATTTTTATTTA
1 TTTTATTTTTA-TTA
5680220 TTTT-TTTTTATTA
1 TTTTATTTTTATTA
5680233 TTTTATTTTT
1 TTTTATTTTT
5680243 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 11 0.50
15 4 0.18
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTATTTTTATTA
Found at i:5680334 original size:46 final size:46
Alignment explanation
Indices: 5680280--5680369 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
5680270 AATATATTTT
*
5680280 TAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCA
1 TAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCCA
5680326 TAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
1 TAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
5680370 AAAAAAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (46 bp):
TAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCCA
Found at i:5680416 original size:28 final size:28
Alignment explanation
Indices: 5680384--5680474 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 28
5680374 AAAAATATTT
5680384 TTAGAAAAGTTGAAAGTATCAATTTTCC
1 TTAGAAAAGTTGAAAGTATCAATTTTCC
* * *
5680412 TTAGAAATAAATTTAAA--A-AAATATTT--
1 TTAG-AA-AAGTTGAAAGTATCAAT-TTTCC
5680438 TTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTA--GAAAAGTTGAAAGTATCAATTTTCC
5680468 TTAGAAA
1 TTAGAAA
5680475 TAAATTTCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 20
0.64 0.08 0.27
Matches are distributed among these distances:
26 10 0.21
27 5 0.11
28 17 0.36
29 5 0.11
30 10 0.21
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (28 bp):
TTAGAAAAGTTGAAAGTATCAATTTTCC
Found at i:5680516 original size:58 final size:57
Alignment explanation
Indices: 5680328--5680698 Score: 551
Period size: 58 Copynumber: 6.5 Consensus size: 57
5680318 AATTTCCATA
* *
5680328 GGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAATATTTTT
1 GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC-CAAAAAAATATTTTT
*
5680386 -AGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT--AAAAAAATATTTTT
1 GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAATATTTTT
5680440 AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAAATATTTTT
1 -GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC-AAAAAAATATTTTT
*
5680499 GGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAAATTTCAAAAAAAAATATTTTT
1 GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTC-CAAAAAAATATTTTT
*
5680557 GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAA-ATTTTT
1 GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAATATTTTT
5680613 GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTT-C-AAAAAATATTTTT
1 G-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCCAAAAAAATATTTTT
5680671 GGGGAAAAGTTGAAAGTATCAATTTTCC
1 -GGGAAAAGTTGAAAGTATCAATTTTCC
5680699 CTACAAAAAA
Statistics
Matches: 293, Mismatches: 6, Indels: 28
0.90 0.02 0.09
Matches are distributed among these distances:
54 14 0.05
56 47 0.16
57 87 0.30
58 120 0.41
59 25 0.09
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (57 bp):
GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAATATTTTT
Found at i:5680687 original size:115 final size:112
Alignment explanation
Indices: 5680328--5680698 Score: 570
Period size: 114 Copynumber: 3.2 Consensus size: 112
5680318 AATTTCCATA
* *
5680328 GGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAA-TTTCAAAAAAAAATATTTTTA-GAAA
1 GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAAAT-TTTTGAGGAAA
*
5680391 AGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTAAAAAAATATTTTT
65 AGTTGAAAGTATCAATTTTCCTTA-AAATAAATTTCAAAAAATATTTTT
*
5680440 AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAAATATTTTTG-GGAA
1 -GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAA-ATTTTTGAGGAA
5680504 AAGTTGAAAGTATCAATTTTCCTTAAAATAAAATTTCAAAAAAAAATATTTTT
64 AAGTTGAAAGTATCAATTTTCCTTAAAAT-AAATTTC---AAAAAATATTTTT
5680557 GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-AAAAAAAATTTTTGAGGAAAA
1 GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAAATTTTTGAGGAAAA
5680621 GTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCAAAAAATATTTTT
66 GTTGAAAGTATCAATTTTCCTT-AAAAT--AAATTTCAAAAAATATTTTT
5680671 GGGGAAAAGTTGAAAGTATCAATTTTCC
1 -GGGAAAAGTTGAAAGTATCAATTTTCC
5680699 CTACAAAAAA
Statistics
Matches: 241, Mismatches: 6, Indels: 20
0.90 0.02 0.07
Matches are distributed among these distances:
113 41 0.17
114 69 0.29
115 64 0.27
116 47 0.20
117 20 0.08
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (112 bp):
GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAAATTTTTGAGGAAAA
GTTGAAAGTATCAATTTTCCTTAAAATAAATTTCAAAAAATATTTTT
Found at i:5684037 original size:3 final size:3
Alignment explanation
Indices: 5684029--5684061 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
5684019 ATCTCCAACC
5684029 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5684062 TCTTTTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5685719 original size:16 final size:14
Alignment explanation
Indices: 5685680--5685712 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
5685670 TCCAATTGAA
5685680 TTTTTATCTTGTAT
1 TTTTTATCTTGTAT
5685694 TTTTTATCTTGTAT
1 TTTTTATCTTGTAT
5685708 TTTTT
1 TTTTT
5685713 TTCTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTGTAT
Found at i:5685795 original size:3 final size:3
Alignment explanation
Indices: 5685782--5685836 Score: 67
Period size: 3 Copynumber: 17.7 Consensus size: 3
5685772 ATGTATATAG
*
5685782 TTA TATA TTA TTA -TA TTA TTTA TTA TTTA TTA TTA TTA TTA TTA TTT
1 TTA T-TA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA
5685829 TTA TTA TT
1 TTA TTA TT
5685837 TTTGGGTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 2 0.04
3 35 0.76
4 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5685811 original size:19 final size:18
Alignment explanation
Indices: 5685789--5685832 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
5685779 TAGTTATATA
5685789 TTATTATATTATTTATTAT
1 TTATTATATTA-TTATTAT
5685808 TTATTATTATTATTATTAT
1 TTATTA-TATTATTATTAT
5685827 TT-TTAT
1 TTATTAT
5685833 TATTTTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.04
18 3 0.12
19 15 0.62
20 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTATATTATTATTAT
Found at i:5685823 original size:28 final size:29
Alignment explanation
Indices: 5685782--5685837 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
5685772 ATGTATATAG
5685782 TTATATATTATTA-TATTATTTATTATTTA
1 TTATATATTATTATTATT-TTTATTATTTA
5685811 TTAT-TATTATTATTATTTTTATTATTT
1 TTATATATTATTATTATTTTTATTATTT
5685838 TTGGGTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (29 bp):
TTATATATTATTATTATTTTTATTATTTA
Found at i:5686252 original size:26 final size:24
Alignment explanation
Indices: 5686210--5686263 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
5686200 CTGAGAGTGA
*
5686210 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
5686234 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
5686260 GAAA
1 GAAA
5686264 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:5686375 original size:19 final size:20
Alignment explanation
Indices: 5686351--5686390 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5686341 AACCGGTGAT
5686351 ATTTCGGTGA-AATTTCCAG
1 ATTTCGGTGACAATTTCCAG
*
5686370 ATTTCGGTGACATTTTCCAG
1 ATTTCGGTGACAATTTCCAG
5686390 A
1 A
5686391 ATCCGCACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (20 bp):
ATTTCGGTGACAATTTCCAG
Found at i:5686626 original size:5 final size:5
Alignment explanation
Indices: 5686616--5686642 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
5686606 CCAGCCCCCT
5686616 CCGAG CCGAG CCGAG CCGAG CCGAG CC
1 CCGAG CCGAG CCGAG CCGAG CCGAG CC
5686643 AAGCTACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.44, G:0.37, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:5686768 original size:24 final size:25
Alignment explanation
Indices: 5686722--5686768 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
5686712 CCGCTCCAGG
* * *
5686722 TTTTTTTTTTTTTCTTTTCTTTGAA
1 TTTTTTTTTCTTTCGTTTATTTGAA
5686747 TTTTTTTTTCTTT-GTTTATTTG
1 TTTTTTTTTCTTTCGTTTATTTG
5686769 TTATTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTCTTTCGTTTATTTGAA
Found at i:5686945 original size:60 final size:56
Alignment explanation
Indices: 5686862--5687203 Score: 350
Period size: 60 Copynumber: 5.8 Consensus size: 56
5686852 AAAAAATTCC
* *
5686862 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTT
1 AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAATAAATTT
*
5686920 AAAAAAAAAAGATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTT
1 -AAAAAAAAATA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC-TAGA-AATAAATTT
** * *
5686980 -TCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATCAAAATTT
1 AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT--AAATTT
* *
5687039 CAAAAAAAATATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
1 AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAATAAA-TTT
* *
5687098 CAAAAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTT
1 -AAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT--AAATTT
**
5687158 -CCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCCTA
1 AAAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAA-TTTTCCTA
5687204 CAAAAAAAAT
Statistics
Matches: 241, Mismatches: 22, Indels: 39
0.80 0.07 0.13
Matches are distributed among these distances:
56 1 0.00
57 33 0.14
58 23 0.10
59 78 0.32
60 100 0.41
61 6 0.02
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (56 bp):
AAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATAAATTT
Found at i:5687002 original size:117 final size:115
Alignment explanation
Indices: 5686863--5687198 Score: 439
Period size: 117 Copynumber: 2.8 Consensus size: 115
5686853 AAAAATTCCA
* *
5686863 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTC-TCAGAAAT-AAATTTAAAAAA
1 AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTT--AAAA
*
5686926 AAAAGATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTTC
62 AAAATA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTTC
*
5686982 -AAAAAATATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATCAAAATTTCAAAAAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTT-AAAAAA
*
5687046 AATATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
64 AATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* **
5687099 AAAAAAAAAGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCCAAA
1 AAAAAAATA-TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTAAAAA
5687163 AAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
63 AAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTT
5687199 TCCTACAAAA
Statistics
Matches: 196, Mismatches: 12, Indels: 19
0.86 0.05 0.08
Matches are distributed among these distances:
117 85 0.43
118 60 0.31
119 51 0.26
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (115 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTAAAAAAAA
TATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
Found at i:5689650 original size:9 final size:9
Alignment explanation
Indices: 5689634--5689669 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
5689624 TTTGCCATTT
5689634 TTTA-TTTA
1 TTTATTTTA
5689642 TTTATTTTA
1 TTTATTTTA
*
5689651 TTTATTTCA
1 TTTATTTTA
5689660 TTTATTTTA
1 TTTATTTTA
5689669 T
1 T
5689670 CTTTAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:5689651 original size:13 final size:14
Alignment explanation
Indices: 5689633--5689666 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
5689623 TTTTGCCATT
5689633 TTTTATTTATTT-A
1 TTTTATTTATTTCA
5689646 TTTTATTTATTTCA
1 TTTTATTTATTTCA
5689660 -TTTATTT
1 TTTTATTT
5689667 TATCTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.95
14 1 0.05
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTTATTTCA
Found at i:5692321 original size:4 final size:4
Alignment explanation
Indices: 5692307--5692359 Score: 54
Period size: 4 Copynumber: 12.2 Consensus size: 4
5692297 ATTTTTTAGA
5692307 TATT TATTT TATT TAAGTT TCATT T-TT TATT CTATT TATT TATT TATT
1 TATT TA-TT TATT T-A-TT T-ATT TATT TATT -TATT TATT TATT TATT
5692355 TATT T
1 TATT T
5692360 TAAAAAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
3 3 0.07
4 24 0.56
5 12 0.28
6 4 0.09
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:5694900 original size:3 final size:3
Alignment explanation
Indices: 5694894--5694955 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
5694884 ATTAATAATT
5694894 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5694942 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
5694956 GTCAAAATTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5695345 original size:115 final size:114
Alignment explanation
Indices: 5695138--5695682 Score: 503
Period size: 115 Copynumber: 4.7 Consensus size: 114
5695128 TCATGAAAAT
* ** * *
5695138 TTTAAATTTAAAAGACTCCTCTCACCAGAGGTAATGAACTTTAAATTCAAAAGGCTTCTTTAACC
1 TTTAAATTCAAAAG-CTCCTCTCACCAGAGGTAACAAACTTTAAATTTAAAA-GCTCCTTTAACC
* ** *
5695203 AAAGGCAACAAACCTTAAATGTTGAAAGCTCTTTTCACCAGAGACAACGAAC
64 AAAGGCAACAAACTTTAAAT-TCAAAAGCTCTTTTCACCAGAGGCAACGAAC
5695255 TTTAAATTCAAAAGCTCCTCTCACCAGAGGTAACAAACTTTAAATTTAAAAGCTCCTTTAACCAA
1 TTTAAATTCAAAAGCTCCTCTCACCAGAGGTAACAAACTTTAAATTTAAAAGCTCCTTTAACCAA
** ** *
5695320 AGGCAACAAACTTTAAATGTTGAAAG-T-TTCTCTCATTAGAGGTAACGAAC
66 AGGCAACAAACTTTAAAT-TCAAAAGCTCTT-T-TCACCAGAGGCAACGAAC
* * * * * * * *
5695370 TTTAAATTCAAAAGCTCCTTTAACCAAAGGCAACAAAATTTAAATATTGAAAGCTCCTCTGACCA
1 TTTAAATTCAAAAGCTCCTCTCACCAGAGGTAACAAACTTTAAAT-TTAAAAGCTCCTTTAACCA
* ** * * *
5695435 GAGGCAATGAACTTTAAATTCAAAAGCTCCTATCACCAGAGGTAACGAAC
65 AAGGCAACAAACTTTAAATTCAAAAGCTCTTTTCACCAGAGGCAACGAAC
* * * * * * * *
5695485 TTTAAATTCAAAAGCTCTTTTAACTAAAGGCAACAAACTTTAAATGTTGAAAAGCTCCTCTGACC
1 TTTAAATTCAAAAGCTCCTCTCACCAGAGGTAACAAACTTTAAAT-TT-AAAAGCTCCTTTAACC
* * * * *
5695550 AAAGGCAACGAACTTTAAATCCAAAAGGCTAC-TTTAACCAAAGGCAACAAAC
64 AAAGGCAACAAACTTTAAATTCAAAA-GCT-CTTTTCACCAGAGGCAACGAAC
* * * **
5695602 TTTAAATGTTGAAAGGCTCCTCTCACCAGAGGTAACAAACTTTAAA--T---GGCTTTTTTAACC
1 TTTAAA--TTCAAAAGCTCCTCTCACCAGAGGTAACAAACTTTAAATTTAAAAGCTCCTTTAACC
5695662 AAAGGCAACAAACTTTAAATT
64 AAAGGCAACAAACTTTAAATT
5695683 AAAGATCTAA
Statistics
Matches: 363, Mismatches: 55, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
112 27 0.07
113 2 0.01
114 2 0.01
115 157 0.43
116 106 0.29
117 38 0.10
118 1 0.00
119 30 0.08
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.27
Consensus pattern (114 bp):
TTTAAATTCAAAAGCTCCTCTCACCAGAGGTAACAAACTTTAAATTTAAAAGCTCCTTTAACCAA
AGGCAACAAACTTTAAATTCAAAAGCTCTTTTCACCAGAGGCAACGAAC
Done.