Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 99 of 121
Found at i:16882341 original size:3 final size:3
Alignment explanation
Indices: 16882335--16882408 Score: 58
Period size: 3 Copynumber: 24.7 Consensus size: 3
16882325 AAGAAAGAAC
* * * * * *
16882335 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAC AAT AAC AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * **
16882383 AAA AAC AAT AAT AAT AGC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
16882409 ACATCGGTTG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:16886285 original size:19 final size:18
Alignment explanation
Indices: 16886263--16886305 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
16886253 AAAGATGAAA
* *
16886263 AAAAGAGAAAAGAAAGAAG
1 AAAAGAGAAAA-AAAAAAC
16886282 AAAAGAGAAAAAAAAAAC
1 AAAAGAGAAAAAAAAAAC
16886300 AAAAGA
1 AAAAGA
16886306 AAGAATAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAGAGAAAAAAAAAAC
Found at i:16886294 original size:30 final size:30
Alignment explanation
Indices: 16886252--16886310 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
16886242 AACAATCTAA
* *
16886252 AAAAGATGAAAAAAAGAGAAAAGAAAGAAG
1 AAAAGATGAAAAAAAAACAAAAGAAAGAAG
16886282 AAAAGA-GAAAAAAAAAACAAAAGAAAGAA
1 AAAAGATG-AAAAAAAAACAAAAGAAAGAA
16886311 TAAAGCTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.02
Consensus pattern (30 bp):
AAAAGATGAAAAAAAAACAAAAGAAAGAAG
Found at i:16886296 original size:11 final size:10
Alignment explanation
Indices: 16886250--16886295 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
16886240 AAAACAATCT
16886250 AAAAAAGATGA
1 AAAAAAGA-GA
16886261 AAAAAAGAGA
1 AAAAAAGAGA
*
16886271 AAAGAA-AGA
1 AAAAAAGAGA
*
16886280 AGAAAAGAGA
1 AAAAAAGAGA
16886290 AAAAAA
1 AAAAAA
16886296 AAACAAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 7 0.23
10 15 0.50
11 8 0.27
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (10 bp):
AAAAAAGAGA
Found at i:16887815 original size:65 final size:64
Alignment explanation
Indices: 16887738--16887862 Score: 162
Period size: 65 Copynumber: 1.9 Consensus size: 64
16887728 TTCAGTCTGT
* **
16887738 TCACCTTAATTTTTGACCTTGGCTCAATTCGGTTACCTTT-ATTTTTTGACCTTAGCTTAGTTCA
1 TCACCTTAATTTTCGACCTTGGCTCAATTCGGTTA-CTTTCA-TTTTCAACCTTAGCTTAGTTCA
16887802 A
64 A
* * * *
16887803 TCACCTTCATTTTCGACCTTGGCTTAGTTTGGTTACTTTCATTTTCAACCTTAGCTTAGT
1 TCACCTTAATTTTCGACCTTGGCTCAATTCGGTTACTTTCATTTTCAACCTTAGCTTAGT
16887863 CTGGTCACTT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 21 0.40
65 31 0.60
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.46
Consensus pattern (64 bp):
TCACCTTAATTTTCGACCTTGGCTCAATTCGGTTACTTTCATTTTCAACCTTAGCTTAGTTCAA
Found at i:16887828 original size:32 final size:32
Alignment explanation
Indices: 16887738--16887831 Score: 98
Period size: 33 Copynumber: 2.9 Consensus size: 32
16887728 TTCAGTCTGT
* * **
16887738 TCACCTTAATTTTTGACCTTGGCTCAATTCGG
1 TCACCTTAATTTTTGACCTTGGCTTAGTTCAA
* * *
16887770 TTACCTTTATTTTTTGACCTTAGCTTAGTTCAA
1 TCACC-TTAATTTTTGACCTTGGCTTAGTTCAA
* *
16887803 TCACCTTCATTTTCGACCTTGGCTTAGTT
1 TCACCTTAATTTTTGACCTTGGCTTAGTT
16887832 TGGTTACTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
32 24 0.49
33 25 0.51
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (32 bp):
TCACCTTAATTTTTGACCTTGGCTTAGTTCAA
Found at i:16887844 original size:32 final size:32
Alignment explanation
Indices: 16887746--16887894 Score: 115
Period size: 32 Copynumber: 4.6 Consensus size: 32
16887736 GTTCACCTTA
* * * *
16887746 ATTTTTGACCTTGGCTCAATTCGGTTACCTTT-
1 ATTTTCGACCTTGGCTTAGTTCGGTCA-CTTTC
* * ** *
16887778 ATTTTTTGACCTTAGCTTAGTTCAATCACCTTC
1 A-TTTTCGACCTTGGCTTAGTTCGGTCACTTTC
* *
16887811 ATTTTCGACCTTGGCTTAGTTTGGTTACTTTC
1 ATTTTCGACCTTGGCTTAGTTCGGTCACTTTC
* * *
16887843 ATTTTCAACCTTAGCTTAG-TCTGGTCACTTCC
1 ATTTTCGACCTTGGCTTAGTTC-GGTCACTTTC
16887875 ATTCTT-GACCTTGGCTTAGT
1 ATT-TTCGACCTTGGCTTAGT
16887895 CCAATTATCT
Statistics
Matches: 91, Mismatches: 21, Indels: 9
0.75 0.17 0.07
Matches are distributed among these distances:
31 1 0.01
32 67 0.74
33 23 0.25
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.46
Consensus pattern (32 bp):
ATTTTCGACCTTGGCTTAGTTCGGTCACTTTC
Found at i:16887918 original size:64 final size:63
Alignment explanation
Indices: 16887781--16887918 Score: 138
Period size: 64 Copynumber: 2.2 Consensus size: 63
16887771 TACCTTTATT
**** *
16887781 TTTTGACCTTAGCTTAGTTCAATCACCTTCATTTTCGACCTTGGCTTAGTTTGGTTACTTTCA
1 TTTTGACCTTAGCTTAGTTCAATCACCTTCATTTTCGACCTTGGCTTAGTCCAATTACTTTAA
* **
16887844 TTTTCAACCTTAGCTTAG-TCTGGTCA-CTTCCATTCTT-GACCTTGGCTTAGTCCAATTATCTT
1 TTTT-GACCTTAGCTTAGTTC-AATCACCTT-CATT-TTCGACCTTGGCTTAGTCCAATTA-CTT
16887906 TAA
61 TAA
16887909 TTTTGACCTT
1 TTTTGACCTT
16887919 TGTTCAATCC
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
63 9 0.15
64 41 0.67
65 11 0.18
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (63 bp):
TTTTGACCTTAGCTTAGTTCAATCACCTTCATTTTCGACCTTGGCTTAGTCCAATTACTTTAA
Found at i:16888433 original size:19 final size:21
Alignment explanation
Indices: 16888409--16888449 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
16888399 TAATTTAGTG
16888409 ATTTATTTCTT-A-TATCTTT
1 ATTTATTTCTTAATTATCTTT
16888428 ATTTATTTCTTAATTATCTTT
1 ATTTATTTCTTAATTATCTTT
16888449 A
1 A
16888450 CTTTGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.55
20 1 0.05
21 8 0.40
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTATTTCTTAATTATCTTT
Found at i:16889991 original size:17 final size:15
Alignment explanation
Indices: 16889953--16890013 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 15
16889943 AATTTGTAAT
*
16889953 TTTATTTTAATTATTA
1 TTTATTTT-ATTTTTA
16889969 -TT-TTTTATTTTTA
1 TTTATTTTATTTTTA
16889982 TTGTAGTTTTAGTTTTTA
1 TT-TA-TTTTA-TTTTTA
16890000 TTTATTATTATTTT
1 TTTATT-TTATTTT
16890014 CAATTTTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 6 0.16
14 5 0.13
15 3 0.08
16 6 0.16
17 10 0.26
18 8 0.21
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:16889997 original size:25 final size:24
Alignment explanation
Indices: 16889952--16890008 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
16889942 AAATTTGTAA
*
16889952 TTTTATTTTAATTATTATTTTTTAT
1 TTTTATTGTAATTATTA-TTTTTAT
*
16889977 TTTTATTGTAGTT-TTAGTTTTTAT
1 TTTTATTGTAATTATTA-TTTTTAT
16890001 TTATTATT
1 TT-TTATT
16890009 ATTTTCAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (24 bp):
TTTTATTGTAATTATTATTTTTAT
Found at i:16891221 original size:27 final size:26
Alignment explanation
Indices: 16891178--16891274 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 26
16891168 TATTAGCAAA
16891178 ATAT-TTTGCATGATTTTAGTATGAT
1 ATATATTTGCATGATTTTAGTATGAT
* *
16891203 ATTTATTTGCATGACTTTTATTATGAT
1 ATATATTTGCATGA-TTTTAGTATGAT
*
16891230 ATATATTTGCATGATATTTTTA-CATGAT
1 ATATATTTGCATG--A-TTTTAGTATGAT
*
16891258 -TATTTTTGCATGATTTT
1 ATATATTTGCATGATTTT
16891275 TATTTTCATA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 4 0.06
25 4 0.06
26 9 0.15
27 34 0.55
28 5 0.08
29 6 0.10
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (26 bp):
ATATATTTGCATGATTTTAGTATGAT
Found at i:16891263 original size:14 final size:14
Alignment explanation
Indices: 16891225--16891272 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
16891215 GACTTTTATT
*
16891225 ATGATATATATTTGC
1 ATGAT-TATTTTTGC
*
16891240 ATGA-TATTTTTAC
1 ATGATTATTTTTGC
16891253 ATGATTATTTTTGC
1 ATGATTATTTTTGC
16891267 ATGATT
1 ATGATT
16891273 TTTATTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 14 0.48
15 4 0.14
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (14 bp):
ATGATTATTTTTGC
Found at i:16897369 original size:7 final size:7
Alignment explanation
Indices: 16897357--16897502 Score: 111
Period size: 7 Copynumber: 21.1 Consensus size: 7
16897347 CTTGAAAGGT
16897357 GGTTTAG
1 GGTTTAG
16897364 GGTTTAG
1 GGTTTAG
***
16897371 GAAGT-G
1 GGTTTAG
16897377 G-TTTAG
1 GGTTTAG
16897383 GGTTTAG
1 GGTTTAG
*
16897390 AGTTTAG
1 GGTTTAG
*
16897397 GGTTTAA
1 GGTTTAG
*
16897404 TGTTT-G
1 GGTTTAG
*
16897410 AAGTTTAG
1 -GGTTTAG
*
16897418 GGTCTAG
1 GGTTTAG
*
16897425 GGTTTAT
1 GGTTTAG
16897432 GGTTTAG
1 GGTTTAG
*
16897439 GGTCTAG
1 GGTTTAG
*
16897446 GGTTTAT
1 GGTTTAG
16897453 GGTTTA-
1 GGTTTAG
16897459 GGTTCTAG
1 GGTT-TAG
16897467 GGTTTAG
1 GGTTTAG
*
16897474 GGTTTAA
1 GGTTTAG
* *
16897481 GGATTAA
1 GGTTTAG
*
16897488 GGTCTAG
1 GGTTTAG
16897495 GGTTTAG
1 GGTTTAG
16897502 G
1 G
16897503 AATTTGAGGT
Statistics
Matches: 108, Mismatches: 25, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
5 1 0.01
6 8 0.07
7 94 0.87
8 5 0.05
ACGTcount: A:0.19, C:0.03, G:0.37, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:16902154 original size:24 final size:24
Alignment explanation
Indices: 16902122--16902170 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16902112 CAGAGGTGCT
* **
16902122 ATAGCCTTATTCATATGTAACCGA
1 ATAGCCTTATCCATACATAACCGA
16902146 ATAGCCTTATCCATACATAACCGA
1 ATAGCCTTATCCATACATAACCGA
16902170 A
1 A
16902171 CTCTTGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (24 bp):
ATAGCCTTATCCATACATAACCGA
Found at i:16903283 original size:18 final size:19
Alignment explanation
Indices: 16903262--16903327 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
16903252 TTTTTTTAAT
*
16903262 TTTATTTTTTGA-TTTTGA
1 TTTATTTTTTCATTTTTGA
*
16903280 TTTAATTTTTCATTTTTGA
1 TTTATTTTTTCATTTTTGA
* * *
16903299 TTTAATTTTCCTTTTTTGA
1 TTTATTTTTTCATTTTTGA
16903318 TTTAATTTTT
1 TTT-ATTTTT
16903328 ACTTTTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
18 10 0.24
19 26 0.63
20 5 0.12
ACGTcount: A:0.18, C:0.05, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTATTTTTTCATTTTTGA
Found at i:16903307 original size:38 final size:37
Alignment explanation
Indices: 16903254--16903338 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 37
16903244 ACAAGTTTTT
*
16903254 TTTTTAATTTTATTTT-TTGATTTTGATTTAATTTTTCA
1 TTTTTAATTTAATTTTCTT--TTTTGATTTAATTTTTCA
*
16903292 TTTTTGATTTAATTTTCCTTTTTTGATTTAATTTTT-A
1 TTTTTAATTTAATTTT-CTTTTTTGATTTAATTTTTCA
16903329 CTTTTTAATT
1 -TTTTTAATT
16903339 GTGATTGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 1 0.02
38 38 0.93
40 2 0.05
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.71
Consensus pattern (37 bp):
TTTTTAATTTAATTTTCTTTTTTGATTTAATTTTTCA
Found at i:16903334 original size:19 final size:19
Alignment explanation
Indices: 16903274--16903327 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
16903264 TATTTTTTGA
16903274 TTTTGATTTAATTTTTCAT
1 TTTTGATTTAATTTTTCAT
* *
16903293 TTTTGATTTAATTTTCCTT
1 TTTTGATTTAATTTTTCAT
16903312 TTTTGATTTAATTTTT
1 TTTTGATTTAATTTTT
16903328 ACTTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.70
Consensus pattern (19 bp):
TTTTGATTTAATTTTTCAT
Found at i:16903440 original size:35 final size:34
Alignment explanation
Indices: 16903388--16903509 Score: 99
Period size: 35 Copynumber: 3.5 Consensus size: 34
16903378 AAATTTGACA
*
16903388 TGTAT-AATTATAGTTTATATATTTGCATGATATTT
1 TGTATGAATTTTA-TTTATATA-TTGCATGATATTT
* *
16903423 TGTATGAATTTCATTTAT-TCTTGCATGATTATTTT
1 TGTATGAATTTTATTTATATATTGCATGA-TA-TTT
* * *
16903458 TGCATGATTTTTATTTACATGATT--ATGATATTT
1 TGTATGAATTTTATTTATAT-ATTGCATGATATTT
*
16903491 TTTCATGAATTTTATTTAT
1 TGT-ATGAATTTTATTTAT
16903510 TTGTATTCAT
Statistics
Matches: 69, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
33 12 0.17
34 18 0.26
35 31 0.45
36 6 0.09
37 2 0.03
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.57
Consensus pattern (34 bp):
TGTATGAATTTTATTTATATATTGCATGATATTT
Found at i:16903460 original size:14 final size:14
Alignment explanation
Indices: 16903437--16903483 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
16903427 TGAATTTCAT
*
16903437 TTATTCTTGCATGA
1 TTATTTTTGCATGA
16903451 TTATTTTTGCATGA
1 TTATTTTTGCATGA
* *
16903465 TTTTTATTTACATGA
1 TTATT-TTTGCATGA
16903480 TTAT
1 TTAT
16903484 GATATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (14 bp):
TTATTTTTGCATGA
Found at i:16903490 original size:34 final size:36
Alignment explanation
Indices: 16903446--16903608 Score: 114
Period size: 34 Copynumber: 4.6 Consensus size: 36
16903436 TTTATTCTTG
16903446 CATGATTATTTTTGCATGATTTTTATTTACATG-ATT
1 CATGA-TATTTTTGCATGATTTTTATTTACATGTATT
* * **
16903482 -ATGATATTTTTTCATGAATTTTATTTATTTGTATT
1 CATGATATTTTTGCATGATTTTTATTTACATGTATT
*
16903517 CAT-ATA--TTTGCATGATATTTTATGTGA-A--T-TT
1 CATGATATTTTTGCATGAT-TTTTAT-TTACATGTATT
* * *
16903548 CAT-TTATTCTTGCATGATTTTTATTTGCATGATTTATT
1 CATGATATTTTTGCATGATTTTTATTTACATG---TATT
16903586 -ATGATATTTTTGCATGATATTTT
1 CATGATATTTTTGCATGAT-TTTT
16903609 GCATAGAGTT
Statistics
Matches: 98, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
31 8 0.08
32 8 0.08
33 17 0.17
34 29 0.30
35 12 0.12
36 2 0.02
37 3 0.03
38 15 0.15
39 4 0.04
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.57
Consensus pattern (36 bp):
CATGATATTTTTGCATGATTTTTATTTACATGTATT
Found at i:16903567 original size:15 final size:16
Alignment explanation
Indices: 16903549--16903586 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
16903539 TGTGAATTTC
16903549 ATTTATT-CTTGCATG
1 ATTTATTACTTGCATG
*
16903564 ATTT-TTATTTGCATG
1 ATTTATTACTTGCATG
16903579 ATTTATTA
1 ATTTATTA
16903587 TGATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 15 0.75
16 3 0.15
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (16 bp):
ATTTATTACTTGCATG
Found at i:16903585 original size:13 final size:13
Alignment explanation
Indices: 16903557--16903672 Score: 61
Period size: 13 Copynumber: 8.8 Consensus size: 13
16903547 TCATTTATTC
16903557 TTGCATGATTTTTAT
1 TTGCATGA--TTTAT
16903572 TTGCATGATTTA-
1 TTGCATGATTTAT
16903584 TT--ATGATATT-T
1 TTGCATGAT-TTAT
*
16903595 TTGCATGATAT-T
1 TTGCATGATTTAT
16903607 TTGCATAGAGTTTATTT
1 TTGCAT-GA-TTTA--T
*
16903624 AGTTGCATTATTTA-
1 --TTGCATGATTTAT
16903638 TT--ATGATTTAT
1 TTGCATGATTTAT
16903649 TTGCATGATATT-T
1 TTGCATGAT-TTAT
16903662 TTGCATGATTT
1 TTGCATGATTT
16903673 TTGTCTATTT
Statistics
Matches: 82, Mismatches: 4, Indels: 33
0.69 0.03 0.28
Matches are distributed among these distances:
10 12 0.15
11 6 0.07
12 14 0.17
13 26 0.32
14 4 0.05
15 8 0.10
17 5 0.06
18 1 0.01
19 6 0.07
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (13 bp):
TTGCATGATTTAT
Found at i:16903650 original size:114 final size:114
Alignment explanation
Indices: 16903404--16903632 Score: 293
Period size: 114 Copynumber: 2.0 Consensus size: 114
16903394 ATTATAGTTT
*
16903404 ATATATTTGCATGATATTTTGTATGAATTTCATTTATTCTTGCATGATTATTTTTGCATGATTTT
1 ATATATTTGCATGATATTTTATATGAATTTCATTTATTCTTGCATGATTATTTTTGCATGATTTT
* * * * *
16903469 TATTTACATGATTATGATATTTTTTCATGAATTTTATTTATTTGTATTC
66 TATTGACATGATTATGATATTTTTGCATGAAGTTTATTTAGTTGCATTC
* *
16903518 ATATATTTGCATGATATTTTATGTGAATTTCATTTATTCTTGCATGATTTTTATTTGCATGATTT
1 ATATATTTGCATGATATTTTATATGAATTTCATTTATTCTTGCATGATTATT-TTTGCATGATTT
* **
16903583 ATTA-TGATATTTTTGCATGATA-TTTTGCAT-AGAGTTTATTTAGTTGCATT
65 -TTATTGACATGATT--ATGATATTTTTGCATGA-AGTTTATTTAGTTGCATT
16903633 ATTTATTATG
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
114 49 0.49
115 19 0.19
116 25 0.25
117 6 0.06
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (114 bp):
ATATATTTGCATGATATTTTATATGAATTTCATTTATTCTTGCATGATTATTTTTGCATGATTTT
TATTGACATGATTATGATATTTTTGCATGAAGTTTATTTAGTTGCATTC
Found at i:16904927 original size:14 final size:13
Alignment explanation
Indices: 16904903--16904932 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
16904893 TTAACATTTA
16904903 AATATAATATTAT
1 AATATAATATTAT
16904916 AATATAAATATTAT
1 AATAT-AATATTAT
16904930 AAT
1 AAT
16904933 CAAAGCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATAATATTAT
Found at i:16906225 original size:63 final size:62
Alignment explanation
Indices: 16906105--16906245 Score: 149
Period size: 64 Copynumber: 2.2 Consensus size: 62
16906095 GTTTCTTTTC
* * * *
16906105 AAACGCCTTCAATAATCCATAGAAAAAAGTTGAAATGGATTCTTGAAGGCATTTTTTGCCCA
1 AAACGCCTTCAATAATCCATACAAAAAAGTTGAAATGGATTATTGAAGGCATATTTTGCCAA
* * * * * * *
16906167 AAACGCCTTTAATATTCCCTACAATAAAATTTTAAATGAGATTATTGAAGGTA-ATTTTGCTAA
1 AAACGCCTTCAATAATCCATACAA-AAAAGTTGAAATG-GATTATTGAAGGCATATTTTGCCAA
16906230 AGAACGCCTTCAATAA
1 A-AACGCCTTCAATAA
16906246 CATTTTGTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
62 20 0.32
63 19 0.30
64 24 0.38
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (62 bp):
AAACGCCTTCAATAATCCATACAAAAAAGTTGAAATGGATTATTGAAGGCATATTTTGCCAA
Found at i:16910473 original size:186 final size:186
Alignment explanation
Indices: 16910099--16911260 Score: 1507
Period size: 186 Copynumber: 6.3 Consensus size: 186
16910089 TTTTTACTAA
* * * * *
16910099 AAGACGCCTTTAGTAATCTAAAAAATAATTTTCAA-AGGAAATTATTTAAGGCGTTTGTTCT-AA
1 AAGACGCCTTTAATAATCT--CAAA-AATTTT-AAGAGAAAATTATTGAAGGCATTTGTTCTAAA
* * *
16910162 AAAATGCCTTCACTAATTATGTACATAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAA
62 AAAATACCTTCAATAATTATGTACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAA
** * *
16910227 ATGCCTTCACTAATTGTCTTAAAATTAGAGTTCTGAAAAATTGAAGGTGTTTTTCACTGG
127 ATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGG
* * * *
16910287 AAGATGCTTTTAATAATCTCAAAAATTTTACGAGAAAATTATTGAAGGCATTTGTTCTTAAAAAA
1 AAGACGCCTTTAATAATCTCAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAA
* * * *
16910352 TACCTTAAATAATTATGTACGTAAATTAAAAGGGATTAGTGAAGGCATTTTCCTAGAATAAATGC
66 TACCTTCAATAATTATGTACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGC
*
16910417 CTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCGTTTTTCACTGG
131 CTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGG
* *
16910473 AACACGCCTTTAATAATCTTAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAA
1 AAGACGCCTTTAATAATCTCAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAA
* * *
16910538 CACCTTCAATAATTATGTACGTAAATTAGAAGGGATTAGTGAAGGCATTTTTCTAGAATAAACGC
66 TACCTTCAATAATTATGTACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGC
* * * *
16910603 CTTCACAAACTGTCTTAAAATTTGAGTTGTGAAAAATTGAAGATGTTTTTCATTGG
131 CTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGG
* * *
16910659 AAGACGCCTTTAATAATCTCAAAATTTTTTTA-A-AAAATTATTGAAGGCATTTGTTCTCAAAAA
1 AAGACGCCTTTAATAATCTCAAAA-ATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAA
* * * *
16910722 ATGCCTTCAATAATTATGTATGTAAATTAGAATGAATTAATGAAGGCATTTTTCTAGAATAAATG
65 ATACCTTCAATAATTATGTACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATG
* * * *
16910787 CCTTCACTAACCGTCTTAATATTTGAGTTGTGAAAAATCGAAGGTATTTTTCACTAG
130 CCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGG
** * * * * * * *
16910844 AAGATACTTTTAAGAATCTCAAAAATTTTAAGAGAAAATTATTTAAGGCGTTTGATATCAAAAAA
1 AAGACGCCTTTAATAATCTCAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAA
* * ** *
16910909 CACCTTCAATAATTATGTACATAAATTAGAAGGAATTAGTGAAGGTGTTTGTT-TAGAATATATG
66 TACCTTCAATAATTATGTACGTAAATTAGAAGGAATTAGTGAAGGCATTT-TTCTAGAATAAATG
* *
16910973 CCTTCACTAACCATCTTAAAATTAGAG-TGTGAAAAATTGAAGGTGTTTTTCACTGG
130 CCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGG
* * * *
16911029 AAGATGCCTTTAATAAT-TCCAAAAA-TTTAAGAGAAAATTATTAAAAGCGTTTGTTCTAAAAAA
1 AAGACGCCTTTAATAATCT-CAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAA
* * * * *
16911092 ATACCTTTAATAATTTTTTACGTAAATTAGAA-GAGATTAGTGAAGGTATTTTTCTAGAA-AAAC
65 ATACCTTCAATAATTATGTACGTAAATTAGAAGGA-ATTAGTGAAGGCATTTTTCTAGAATAAAT
* * * ** * *
16911155 GCCTTCACTAACCGTCTTAAAATTTGAGTTATAAAAAATTGACGGCATTTTTTATTGG
129 GCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGG
* *
16911213 AAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGG
1 AAGACGCCTTTAATAATCTCAAAAATTTTAAGAGAAAATTATTGAAGG
16911261 TGTTTTTCTA
Statistics
Matches: 851, Mismatches: 111, Indels: 27
0.86 0.11 0.03
Matches are distributed among these distances:
183 32 0.04
184 130 0.15
185 252 0.30
186 414 0.49
187 7 0.01
188 16 0.02
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (186 bp):
AAGACGCCTTTAATAATCTCAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAA
TACCTTCAATAATTATGTACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGC
CTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGG
Found at i:16910820 original size:371 final size:369
Alignment explanation
Indices: 16910137--16911270 Score: 1578
Period size: 371 Copynumber: 3.1 Consensus size: 369
16910127 TTTTCAAAGG
* ** *
16910137 AAATTATTTAAGGCGTTTGTTCTAAAAAATGCCTTCACTAATTATGTACATAAATTAGAAGGAAT
1 AAATTATTGAAGGCGTTTGTTCTAAAAAACACCTTCAATAATTATGTACATAAATTAGAAGGAAT
* *
16910202 TAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAATTGTCTTAAAATTAGAGTTCTGAAAAA
66 TAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACTGTCTTAAAATTAGAGTTGTGAAAAA
* *
16910267 TTGAAGGTGTTTTTCACTGGAAGATGCTTTTAATAATCTCAAAAATTTTACGAGAAAATTATTGA
131 TTGAAGGTGTTTTTCACTGGAAGATGCCTTTAATAATCTC-AAAATTTTAAGAGAAAATTATTGA
* * *
16910332 AGGCATTTGTTCTTAAAAAATACCTTAAATAATTATGTACGTAAATTAAAAGGGATTAGTGAAGG
195 AGGCATTTGTTCTAAAAAAATACCTTAAATAATTATGTACGTAAATTAGAA-GAATTAGTGAAGG
* *
16910397 CATTTTCCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCG
259 CATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCA
* * *
16910462 TTTTTCACTGGAACACGCCTTTAATAATCTTAAAAATTTTAAGAGA
324 TTTTTCACTGGAAGACACCTTTAATAATCTCAAAAATTTTAAGAGA
* * *
16910508 AAATTATTGAAGGCATTTGTTCTAAAAAAACACCTTCAATAATTATGTACGTAAATTAGAAGGGA
1 AAATTATTGAAGGCGTTTGTTCT-AAAAAACACCTTCAATAATTATGTACATAAATTAGAAGGAA
* * *
16910573 TTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACAAACTGTCTTAAAATTTGAGTTGTGAAAA
65 TTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACTGTCTTAAAATTAGAGTTGTGAAAA
* * * *** *
16910638 ATTGAAGATGTTTTTCATTGGAAGACGCCTTTAATAATCTCAAAATTTTTTTAAAAAATTATTGA
130 ATTGAAGGTGTTTTTCACTGGAAGATGCCTTTAATAATCTCAAAATTTTAAGAGAAAATTATTGA
* * * * *
16910703 AGGCATTTGTTCTCAAAAAATGCCTTCAATAATTATGTATGTAAATTAGAATGAATTAATGAAGG
195 AGGCATTTGTTCTAAAAAAATACCTTAAATAATTATGTACGTAAATTAGAA-GAATTAGTGAAGG
* * *
16910768 CATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAATATTTGAGTTGTGAAAAATCGAAGGTA
259 CATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCA
* * * *
16910833 TTTTTCACTAGAAGATACTTTTAAGAATCTCAAAAATTTTAAGAGA
324 TTTTTCACTGGAAGACACCTTTAATAATCTCAAAAATTTTAAGAGA
*
16910879 AAATTATTTAAGGCGTTTGATATC-AAAAAACACCTTCAATAATTATGTACATAAATTAGAAGGA
1 AAATTATTGAAGGCGTTTG-T-TCTAAAAAACACCTTCAATAATTATGTACATAAATTAGAAGGA
** * **
16910943 ATTAGTGAAGGTGTTTGTT-TAGAATATATGCCTTCACTAACCATCTTAAAATTAGAG-TGTGAA
64 ATTAGTGAAGGCATTT-TTCTAGAATAAATGCCTTCACTAACTGTCTTAAAATTAGAGTTGTGAA
*
16911006 AAATTGAAGGTGTTTTTCACTGGAAGATGCCTTTAATAAT-TCCAAAAATTTAAGAGAAAATTAT
128 AAATTGAAGGTGTTTTTCACTGGAAGATGCCTTTAATAATCT-CAAAATTTTAAGAGAAAATTAT
* * * * * *
16911070 TAAAAGCGTTTGTTCTAAAAAAATACCTTTAATAATTTTTTACGTAAATTAGAAGAGATTAGTGA
192 TGAAGGCATTTGTTCTAAAAAAATACCTTAAATAATTATGTACGTAAATTAGAAGA-ATTAGTGA
* * * * *
16911135 AGGTATTTTTCTAGAA-AAACGCCTTCACTAACCGTCTTAAAATTTGAGTTATAAAAAATTGACG
256 AGGCATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAG
* * *
16911199 GCATTTTTTATTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGA
321 GCATTTTTCACTGGAAGACACCTTTAATAATCTCAAAAATTTTAAGAGA
*
16911248 AAATTATTGAAGGTGTTT-TTCTA
1 AAATTATTGAAGGCGTTTGTTCTA
16911271 GAATAAATGC
Statistics
Matches: 669, Mismatches: 87, Indels: 18
0.86 0.11 0.02
Matches are distributed among these distances:
366 2 0.00
367 2 0.00
369 102 0.15
370 127 0.19
371 298 0.45
372 136 0.20
373 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (369 bp):
AAATTATTGAAGGCGTTTGTTCTAAAAAACACCTTCAATAATTATGTACATAAATTAGAAGGAAT
TAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACTGTCTTAAAATTAGAGTTGTGAAAAA
TTGAAGGTGTTTTTCACTGGAAGATGCCTTTAATAATCTCAAAATTTTAAGAGAAAATTATTGAA
GGCATTTGTTCTAAAAAAATACCTTAAATAATTATGTACGTAAATTAGAAGAATTAGTGAAGGCA
TTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATT
TTTCACTGGAAGACACCTTTAATAATCTCAAAAATTTTAAGAGA
Found at i:16911260 original size:123 final size:123
Alignment explanation
Indices: 16911127--16911348 Score: 320
Period size: 123 Copynumber: 1.8 Consensus size: 123
16911117 ATTAGAAGAG
*
16911127 ATTAGTGAAGGTATTTTTCTAGAA-AAACGCCTTCACTAACCGTCTTAAAATTTGAGTTATAAAA
1 ATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTT-AAATTTGAGTTATAAAA
* * *
16911191 AATTGACGGCATTTTTTATTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAA
65 AATTAAAGGCATTTTTCATTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAA
* * * * * * *
16911250 ATTATTGAAGGTGTTTTTCTAGAATAAATGCCTTCATTAATCATCTTAAATTTGAGTTGTGAAAA
1 ATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAATTTGAGTTATAAAAA
*
16911315 ATTAAAGGCATTTTTCATTGGAAGACGCCTTTAA
66 ATTAAAGGCATTTTTCATTGGAAGACACCTTTAA
16911349 CAAATTCCTT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 68 0.79
124 18 0.21
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (123 bp):
ATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAATTTGAGTTATAAAAA
ATTAAAGGCATTTTTCATTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAA
Found at i:16915538 original size:174 final size:174
Alignment explanation
Indices: 16915246--16915771 Score: 946
Period size: 174 Copynumber: 3.0 Consensus size: 174
16915236 CGTAAGTTTT
16915246 TTAGCAAGGAAATTATTCATTACATTAAACATAATTTATTGTATTTTTTATTGTTAATACTTTAT
1 TTAGCAAGGAAATTATTCATTACATTAAACATAATTTATTGTATTTTTTATTGTTAATACTTTAT
* *
16915311 CATGATACTTTGTAGTGAGTATAGAAATAGGTTAAGAGCTCTCACACATTATCGACAATCAAACC
66 CATGATGCTTTGTAGTGAGTATAGAAATAGGTTAAGAGCTCTCGCACATTATCGACAATCAAACC
*
16915376 TTCGAGAGCTTGATAAGTTGTTCATCGAAAACTTTCATGAATGG
131 TTCGAGAGCTTGATAAGTTGTTCGTCGAAAACTTTCATGAATGG
16915420 TTAGCAAGGAAATTATTCATTACATTAAACATAATTTATTGTATTTTTTATTGTTAATACTTTAT
1 TTAGCAAGGAAATTATTCATTACATTAAACATAATTTATTGTATTTTTTATTGTTAATACTTTAT
*
16915485 CATGATGCTTTGTAGTGAGTATAGAAATAGGTTAAGAGCTCTCGCATATTATCGACAATCAAACC
66 CATGATGCTTTGTAGTGAGTATAGAAATAGGTTAAGAGCTCTCGCACATTATCGACAATCAAACC
*
16915550 TTCGAAAGCTTGATAAGTTGTTCGTCGAAAACTTTCATGAATGG
131 TTCGAGAGCTTGATAAGTTGTTCGTCGAAAACTTTCATGAATGG
*
16915594 TTAGCAAGGAAATTATTCATTAAATTAAACATAATTTATTGTATTTTTTATTGTTAATACTTTAT
1 TTAGCAAGGAAATTATTCATTACATTAAACATAATTTATTGTATTTTTTATTGTTAATACTTTAT
*
16915659 CATGATGCTTTGTAGTGAGTATAGAAATAGGTTAAAAGC-CATCGCACATTATCGACAATCAAAC
66 CATGATGCTTTGTAGTGAGTATAGAAATAGGTTAAGAGCTC-TCGCACATTATCGACAATCAAAC
* * *
16915723 CCTCGAGAGCTTGATAAGTTGTTCGTCGAAACCTTTTATGAATGG
130 CTTCGAGAGCTTGATAAGTTGTTCGTCGAAAACTTTCATGAATGG
16915768 TTAG
1 TTAG
16915772 GAGCAACTGT
Statistics
Matches: 339, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
173 1 0.00
174 338 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (174 bp):
TTAGCAAGGAAATTATTCATTACATTAAACATAATTTATTGTATTTTTTATTGTTAATACTTTAT
CATGATGCTTTGTAGTGAGTATAGAAATAGGTTAAGAGCTCTCGCACATTATCGACAATCAAACC
TTCGAGAGCTTGATAAGTTGTTCGTCGAAAACTTTCATGAATGG
Found at i:16919667 original size:34 final size:34
Alignment explanation
Indices: 16919629--16919736 Score: 126
Period size: 34 Copynumber: 3.2 Consensus size: 34
16919619 ATGTCAAAGG
* * * *
16919629 TACAAATTTCGCTAATAGAATGGTATTTTTCAAA
1 TACAAATGTCGCTAATATAACGATATTTTTCAAA
* * * *
16919663 TACAAATGCCGCTAATATAGCGACATTTTTCACA
1 TACAAATGTCGCTAATATAACGATATTTTTCAAA
* *
16919697 TACAAACGTCGCTAATATAACAATATTTTTCAAA
1 TACAAATGTCGCTAATATAACGATATTTTTCAAA
16919731 TACAAA
1 TACAAA
16919737 ACGCCGCTAA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (34 bp):
TACAAATGTCGCTAATATAACGATATTTTTCAAA
Found at i:16919701 original size:68 final size:69
Alignment explanation
Indices: 16919637--16919774 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
16919627 GGTACAAATT
*** * *
16919637 TCGCTAATAGAATGGTATTTTTCAAATAC-AAATGCCGCTAATATAGCGACATTTTTCACATACA
1 TCGCTAATAGAACAATATTTTTCAAATACAAAACGCCGCTAATATAGCGACATTTTCCACATACA
16919701 AACG
66 AACG
* * * *
16919705 TCGCTAATATAACAATATTTTTCAAATACAAAACGCCGCTAATGTAGCGGCGTTTTCCACATACA
1 TCGCTAATAGAACAATATTTTTCAAATACAAAACGCCGCTAATATAGCGACATTTTCCACATACA
16919770 AACG
66 AACG
16919774 T
1 T
16919775 TGGCATTTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
68 25 0.42
69 35 0.58
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (69 bp):
TCGCTAATAGAACAATATTTTTCAAATACAAAACGCCGCTAATATAGCGACATTTTCCACATACA
AACG
Found at i:16919773 original size:34 final size:34
Alignment explanation
Indices: 16919653--16919773 Score: 134
Period size: 34 Copynumber: 3.5 Consensus size: 34
16919643 ATAGAATGGT
* *
16919653 ATTTTTCAAATACAAATGCCGCTAATATAGCGAC
1 ATTTTTCACATACAAACGCCGCTAATATAGCGAC
* * * *
16919687 ATTTTTCACATACAAACGTCGCTAATATAACAAT
1 ATTTTTCACATACAAACGCCGCTAATATAGCGAC
* * *
16919721 ATTTTTCAAATACAAAACGCCGCTAATGTAGCGGC
1 ATTTTTCACATAC-AAACGCCGCTAATATAGCGAC
* *
16919756 GTTTTCCACATACAAACG
1 ATTTTTCACATACAAACG
16919774 TTGGCATTTT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
34 45 0.64
35 25 0.36
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (34 bp):
ATTTTTCACATACAAACGCCGCTAATATAGCGAC
Found at i:16920032 original size:8 final size:8
Alignment explanation
Indices: 16920014--16920069 Score: 71
Period size: 8 Copynumber: 7.1 Consensus size: 8
16920004 TATCTAAAAG
16920014 ATAGTATAT
1 ATAG-ATAT
16920023 ATAGATAT
1 ATAGATAT
16920031 ATAGATAT
1 ATAGATAT
*
16920039 ATAAATAT
1 ATAGATAT
*
16920047 ATAAATAT
1 ATAGATAT
16920055 ATA-A-AT
1 ATAGATAT
16920061 ATAGATAT
1 ATAGATAT
16920069 A
1 A
16920070 GATTTATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
6 5 0.11
7 2 0.05
8 33 0.75
9 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (8 bp):
ATAGATAT
Found at i:16920535 original size:12 final size:12
Alignment explanation
Indices: 16920518--16920542 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16920508 CTCATATATA
16920518 TATATATGTATG
1 TATATATGTATG
16920530 TATATATGTATG
1 TATATATGTATG
16920542 T
1 T
16920543 TGTGCATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TATATATGTATG
Found at i:16921564 original size:45 final size:46
Alignment explanation
Indices: 16921513--16921603 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 46
16921503 ACATCATTTT
16921513 CTTTTAGCAT-AAACAATTGTAAACACAA-TATACTGTAATCAATCA
1 CTTTTAGC-TCAAACAATTGTAAACACAATTATACTGTAATCAATCA
* * * *
16921558 CTTTTAGCTCCAACATTTGTAATCAGAATTATACTGTAATCAATCA
1 CTTTTAGCTCAAACAATTGTAAACACAATTATACTGTAATCAATCA
16921604 AAGGTATACA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 1 0.03
45 22 0.55
46 17 0.43
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (46 bp):
CTTTTAGCTCAAACAATTGTAAACACAATTATACTGTAATCAATCA
Found at i:16924081 original size:2 final size:2
Alignment explanation
Indices: 16924074--16924101 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16924064 TAATAAATGG
16924074 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16924102 CTGAACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16925253 original size:22 final size:22
Alignment explanation
Indices: 16925228--16925272 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16925218 TATGCCATGC
16925228 TTATTGTTATATTTTGACTTCT
1 TTATTGTTATATTTTGACTTCT
16925250 TTATTGTTATATTTTGACTTCT
1 TTATTGTTATATTTTGACTTCT
16925272 T
1 T
16925273 GTTATATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (22 bp):
TTATTGTTATATTTTGACTTCT
Found at i:16925276 original size:18 final size:19
Alignment explanation
Indices: 16925231--16925280 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 19
16925221 GCCATGCTTA
16925231 TTGTTATATTTTGACTTCTTT
1 TTGTTATATTTTGACTTC--T
16925252 ATTGTTATATTTTGACTTC-
1 -TTGTTATATTTTGACTTCT
16925271 TTGTTATATT
1 TTGTTATATT
16925281 GTTTCATCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.36
22 18 0.64
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.64
Consensus pattern (19 bp):
TTGTTATATTTTGACTTCT
Found at i:16927768 original size:21 final size:20
Alignment explanation
Indices: 16927735--16927773 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16927725 TGGATAATTG
*
16927735 TAATTTTGAATAGAAAAAAC
1 TAATTTTAAATAGAAAAAAC
16927755 TAATTGTTAAATAGAAAAA
1 TAATT-TTAAATAGAAAAA
16927774 TTATATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (20 bp):
TAATTTTAAATAGAAAAAAC
Found at i:16929626 original size:18 final size:19
Alignment explanation
Indices: 16929591--16929627 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16929581 CCACTGGCTT
*
16929591 TACCTTGCCATGGCACCTA
1 TACCTTGCCATAGCACCTA
16929610 TACCTTGCCA-AGCACCTA
1 TACCTTGCCATAGCACCTA
16929628 CTCCACACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.38, G:0.14, T:0.24
Consensus pattern (19 bp):
TACCTTGCCATAGCACCTA
Found at i:16930074 original size:1 final size:1
Alignment explanation
Indices: 16930068--16930092 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
16930058 ATCAACACCT
16930068 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
16930093 CACAAAGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16930659 original size:26 final size:26
Alignment explanation
Indices: 16930613--16930670 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
16930603 CCAATTTAGG
* *
16930613 TAATTTTTTATTTATTATATTTTTAT
1 TAATTTTTTATATATTATATTTATAT
*
16930639 TGATTTTTTATATA-TATTATTTATAT
1 TAATTTTTTATATATTA-TATTTATAT
16930665 TAATTT
1 TAATTT
16930671 AGTTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TAATTTTTTATATATTATATTTATAT
Found at i:16930747 original size:3 final size:3
Alignment explanation
Indices: 16930741--16930784 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
16930731 TGTTGTTTTG
16930741 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16930785 TTATTATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:16930789 original size:3 final size:3
Alignment explanation
Indices: 16930783--16930817 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16930773 ATAATAATAA
16930783 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16930818 AATAAACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16931037 original size:12 final size:12
Alignment explanation
Indices: 16931020--16931044 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16931010 AAAAAATAAA
16931020 ATAAATATATAT
1 ATAAATATATAT
16931032 ATAAATATATAT
1 ATAAATATATAT
16931044 A
1 A
16931045 AATGATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAATATATAT
Found at i:16931347 original size:8 final size:8
Alignment explanation
Indices: 16931316--16931577 Score: 68
Period size: 8 Copynumber: 35.0 Consensus size: 8
16931306 TTCTGTAAAA
16931316 AAAACCCTT
1 AAAA-CCTT
*
16931325 CAAACCTT
1 AAAACCTT
16931333 -AAA-CTT
1 AAAACCTT
16931339 AAAACCTT
1 AAAACCTT
*
16931347 AAACCCTT
1 AAAACCTT
*
16931355 TAAACCTT
1 AAAACCTT
*
16931363 AAAA--TC
1 AAAACCTT
*
16931369 AAAACCCT
1 AAAACCTT
*
16931377 -AAA-CTC
1 AAAACCTT
* *
16931383 CAAATCTT
1 AAAACCTT
16931391 AAAACC--
1 AAAACCTT
*
16931397 AAAACCCT
1 AAAACCTT
16931405 -AAACTCTCT
1 AAAAC-CT-T
16931414 -AAACCTT
1 AAAACCTT
16931421 AAAA--TT
1 AAAACCTT
16931427 AAAACCCTT
1 AAAA-CCTT
* *
16931436 TAAACCCT
1 AAAACCTT
16931444 AAAA---T
1 AAAACCTT
* *
16931449 CAAACCCT
1 AAAACCTT
*
16931457 AAAA--TC
1 AAAACCTT
* *
16931463 GAAACCCT
1 AAAACCTT
*
16931471 AAACCCTT
1 AAAACCTT
*
16931479 TAAACCTT
1 AAAACCTT
*
16931487 AAAA--TC
1 AAAACCTT
*
16931493 AAAACCCT
1 AAAACCTT
*
16931501 AAACCCTCT
1 AAAACCT-T
*
16931510 -AAACCCT
1 AAAACCTT
16931517 AAAA--TT
1 AAAACCTT
16931523 AAAACCTT
1 AAAACCTT
*
16931531 AAACCCTCT
1 AAAACCT-T
*
16931540 -AAACCCT
1 AAAACCTT
* *
16931547 AAAAACTG
1 AAAACCTT
16931555 AAAACCTT
1 AAAACCTT
16931563 AAAACCTT
1 AAAACCTT
16931571 -AAACCTT
1 AAAACCTT
16931578 CAAATTGAAA
Statistics
Matches: 180, Mismatches: 46, Indels: 56
0.64 0.16 0.20
Matches are distributed among these distances:
5 4 0.02
6 34 0.19
7 26 0.14
8 101 0.56
9 15 0.08
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.23
Consensus pattern (8 bp):
AAAACCTT
Found at i:16931351 original size:30 final size:30
Alignment explanation
Indices: 16931317--16931582 Score: 211
Period size: 30 Copynumber: 8.7 Consensus size: 30
16931307 TCTGTAAAAA
* * *
16931317 AAACCCTTCAAACCTTAAACTTAAAACCTT
1 AAACCCTTCAAACCTTAAAATCAAAACCCT
*
16931347 AAACCCTTTAAACCTTAAAATCAAAACCCT
1 AAACCCTTCAAACCTTAAAATCAAAACCCT
* * *
16931377 AAA--CTCCAAATCTTAAAACCAAAACCCT
1 AAACCCTTCAAACCTTAAAATCAAAACCCT
* *
16931405 AAACTC-TCTAAACCTTAAAATTAAAACCCTTT
1 AAACCCTTC-AAACCTTAAAATCAAAACCC--T
* *
16931437 AAACCCTAAAATCAAACCCTAAAATCGAAACCCT
1 AAACCCT----TCAAACCTTAAAATCAAAACCCT
*
16931471 AAACCCTTTAAACCTTAAAATCAAAACCCT
1 AAACCCTTCAAACCTTAAAATCAAAACCCT
* * *
16931501 AAACCC-TCTAAACCCTAAAATTAAAACCTT
1 AAACCCTTC-AAACCTTAAAATCAAAACCCT
* * *
16931531 AAACCC-TCTAAACCCTAAAAACTGAAAACCTT
1 AAACCCTTC-AAA-CCTTAAAA-TCAAAACCCT
* *
16931563 AAAACCTT-AAACCTTCAAAT
1 AAACCCTTCAAACCTTAAAAT
16931583 TGAAATCCTA
Statistics
Matches: 193, Mismatches: 29, Indels: 29
0.77 0.12 0.12
Matches are distributed among these distances:
28 24 0.12
29 3 0.02
30 109 0.56
31 9 0.05
32 20 0.10
33 1 0.01
34 8 0.04
36 17 0.09
37 2 0.01
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.23
Consensus pattern (30 bp):
AAACCCTTCAAACCTTAAAATCAAAACCCT
Found at i:16931361 original size:16 final size:16
Alignment explanation
Indices: 16931317--16931575 Score: 82
Period size: 14 Copynumber: 17.3 Consensus size: 16
16931307 TCTGTAAAAA
*
16931317 AAACCCTTCAAACCTT
1 AAACCCTTAAAACCTT
16931333 AAA--CTTAAAACCTT
1 AAACCCTTAAAACCTT
*
16931347 AAACCCTTTAAACCTT
1 AAACCCTTAAAACCTT
* * *
16931363 AAA--ATCAAAACCCT
1 AAACCCTTAAAACCTT
*
16931377 AAACTCC---AAATCTT
1 AAAC-CCTTAAAACCTT
* *
16931391 AAAACC--AAAACCCT
1 AAACCCTTAAAACCTT
*
16931405 AAACTCTCT-AAACCTT
1 AAACCCT-TAAAACCTT
*
16931421 AAA--ATTAAAACCCTTT
1 AAACCCTTAAAA-CC-TT
*
16931437 AAACCC-TAAAA--TC
1 AAACCCTTAAAACCTT
* *
16931450 AAACCC-TAAAATC-G
1 AAACCCTTAAAACCTT
*
16931464 AAACCC-TAAACCCTTT
1 AAACCCTTAAAACC-TT
* *
16931480 AAA-CCTTAAAATC-A
1 AAACCCTTAAAACCTT
*
16931494 AAACCC-TAAACCCTCT
1 AAACCCTTAAAACCT-T
16931510 AAACCC-TAAAA--TT
1 AAACCCTTAAAACCTT
* *
16931523 AAAACCTTAAACCCTCT
1 AAACCCTTAAAACCT-T
* *
16931540 AAACCC-TAAAAACTG
1 AAACCCTTAAAACCTT
*
16931555 AAAACCTTAAAACCTT
1 AAACCCTTAAAACCTT
16931571 AAACC
1 AAACC
16931576 TTCAAATTGA
Statistics
Matches: 177, Mismatches: 39, Indels: 54
0.66 0.14 0.20
Matches are distributed among these distances:
13 21 0.12
14 68 0.38
15 11 0.06
16 66 0.37
17 11 0.06
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (16 bp):
AAACCCTTAAAACCTT
Found at i:16931431 original size:23 final size:23
Alignment explanation
Indices: 16931405--16931456 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
16931395 CCAAAACCCT
* *
16931405 AAACTCTCTAAACCTTAAAATTA
1 AAACCCTCTAAACCCTAAAATTA
* *
16931428 AAACCCTTTAAACCCTAAAA-TC
1 AAACCCTCTAAACCCTAAAATTA
16931450 AAACCCT
1 AAACCCT
16931457 AAAATCGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (23 bp):
AAACCCTCTAAACCCTAAAATTA
Found at i:16931455 original size:13 final size:14
Alignment explanation
Indices: 16931437--16931473 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
16931427 AAAACCCTTT
16931437 AAACCCTAAAATC-
1 AAACCCTAAAATCG
16931450 AAACCCTAAAATCG
1 AAACCCTAAAATCG
16931464 AAACCCTAAA
1 AAACCCTAAA
16931474 CCCTTTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.54, C:0.30, G:0.03, T:0.14
Consensus pattern (14 bp):
AAACCCTAAAATCG
Found at i:16931474 original size:66 final size:64
Alignment explanation
Indices: 16931370--16931550 Score: 208
Period size: 66 Copynumber: 2.8 Consensus size: 64
16931360 CTTAAAATCA
* * * * *
16931370 AAACCCTAAACTCCAAATCTTAAAACCAAAACCCTAAACTCTCTAAACCTTAAAATTAAAACCCT
1 AAACCCTAAACT-CAAACCCTAAAATCAAAACCCTAAACCCTCTAAACCTTAAAATCAAAACCC-
16931435 TT
64 -T
* * *
16931437 AAACCCTAAAATCAAACCCTAAAATCGAAACCCTAAACCCTTTAAACCTTAAAATCAAAACCCT
1 AAACCCTAAACTCAAACCCTAAAATCAAAACCCTAAACCCTCTAAACCTTAAAATCAAAACCCT
* * *
16931501 AAACCCT---CT-AAACCCTAAAATTAAAACCTTAAACCCTCTAAACCCTAAAA
1 AAACCCTAAACTCAAACCCTAAAATCAAAACCCTAAACCCTCTAAACCTTAAAA
16931551 ACTGAAAACC
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
60 36 0.36
61 1 0.01
64 8 0.08
66 44 0.44
67 11 0.11
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.21
Consensus pattern (64 bp):
AAACCCTAAACTCAAACCCTAAAATCAAAACCCTAAACCCTCTAAACCTTAAAATCAAAACCCT
Found at i:16931520 original size:60 final size:61
Alignment explanation
Indices: 16931437--16931612 Score: 173
Period size: 61 Copynumber: 2.9 Consensus size: 61
16931427 AAAACCCTTT
* * * *
16931437 AAACCCTAAAA--TCAAACCCTAAAATCGAAACCCTAAACCCTTTAAA-CCTTAAAA-TCA
1 AAACCCTAAAACCTTAAACCCTAAAATTGAAACCCTAAACCCTCTAAACCCTAAAAACTCA
* * * *
16931494 AAACCCTAAACCCTCTAAACCCTAAAATTAAAACCTTAAACCCTCTAAACCCTAAAAACTGA
1 AAACCCTAAAACCT-TAAACCCTAAAATTGAAACCCTAAACCCTCTAAACCCTAAAAACTCA
* * * * * *
16931556 AAACCTTAAAACCTTAAACCTTCAAATTGAAATCCTAAAACCTC-AAATCCCAAAAAA
1 AAACCCTAAAACCTTAAACCCTAAAATTGAAACCCTAAACCCTCTAAA-CCCTAAAAA
16931613 TTTAAAATTT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
57 10 0.10
59 1 0.01
60 32 0.33
61 39 0.41
62 14 0.15
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.20
Consensus pattern (61 bp):
AAACCCTAAAACCTTAAACCCTAAAATTGAAACCCTAAACCCTCTAAACCCTAAAAACTCA
Found at i:16931704 original size:14 final size:14
Alignment explanation
Indices: 16931685--16931737 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
16931675 TTTTCAATAT
16931685 CCTAAAATCCAAAA
1 CCTAAAATCCAAAA
*
16931699 CCTAAAACTCTAAAA
1 CCTAAAA-TCCAAAA
** *
16931714 TTTAAAATTCAAAA
1 CCTAAAATCCAAAA
*
16931728 CCCAAAATCC
1 CCTAAAATCC
16931738 CATATTTGGT
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (14 bp):
CCTAAAATCCAAAA
Found at i:16944354 original size:70 final size:70
Alignment explanation
Indices: 16944266--16944603 Score: 229
Period size: 70 Copynumber: 4.9 Consensus size: 70
16944256 TTGGTCACAT
* * * * * * *
16944266 TTATTCTTTGATTTATAGTTTAATCTCGGTTGTCATTATTTTTTAACTTGCGATTCAATCCCAAT
1 TTATTCTCTGACTCATAGTTTAATCTCGGTCGTCTTTATTTTTTAACTTGTGATTCAATCTCAAT
*
16944331 CATTG
66 CATCG
* * * * * * **
16944336 TTATTCTCTGACTCATAGTTTAATTTCAGTCGTTTTTATTTTCTGACTTGTGGTTCAA-CTCTGT
1 TTATTCTCTGACTCATAGTTTAATCTCGGTCGTCTTTATTTTTTAACTTGTGATTCAATCTCAAT
16944400 CATCG
66 CATCG
* * * * *
16944405 TTATTC-CTGACTCACAGTTTAATCTTGGTCATCTTTATTTTTTAACTCGTGATTTAATCTCAAT
1 TTATTCTCTGACTCATAGTTTAATCTCGGTCGTCTTTATTTTTTAACTTGTGATTCAATCTCAAT
16944469 CATCG
66 CATCG
* * * * * * * * * * * *
16944474 TTGTTTTTTAACTCGTGGTTCAATCCCAGTCATTTTTATTTTTTTAACTCGT-AGTTCAATC-CT
1 TTATTCTCTGACTCATAGTTTAATCTCGGTCGTCTTTA-TTTTTTAACTTGTGA-TTCAATCTC-
*
16944537 AGTCATCG
63 AATCATCG
* ** * * * *
16944545 TTATTCTCTAACT-AGCGGTTTAATCTCGATC-TTTTTATTTTTTAACTTGCGGTTCAATC
1 TTATTCTCTGACTCA-TAGTTTAATCTCGGTCGTCTTTATTTTTTAACTTGTGATTCAATC
16944604 CTGGTCGTCA
Statistics
Matches: 206, Mismatches: 55, Indels: 15
0.75 0.20 0.05
Matches are distributed among these distances:
68 40 0.19
69 44 0.21
70 75 0.36
71 47 0.23
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.49
Consensus pattern (70 bp):
TTATTCTCTGACTCATAGTTTAATCTCGGTCGTCTTTATTTTTTAACTTGTGATTCAATCTCAAT
CATCG
Found at i:16944517 original size:36 final size:35
Alignment explanation
Indices: 16944432--16944638 Score: 157
Period size: 35 Copynumber: 5.9 Consensus size: 35
16944422 TTTAATCTTG
* * *
16944432 GTCATCTTTATTTTTTAACTCGTGATTTAATCTCA
1 GTCATCTTTATTTTTTAACTCGTGGTTCAATCCCA
* * *
16944467 ATCATCGTTGTTTTTTAACTCGTGGTTCAATCCCA
1 GTCATCTTTATTTTTTAACTCGTGGTTCAATCCCA
* * *
16944502 GTCATTTTTATTTTTTTAACTCGTAGTTCAATCCTA
1 GTCATCTTTA-TTTTTTAACTCGTGGTTCAATCCCA
* * * * * * *
16944538 GTCATCGTTATTCTCTAACTAGCGGTTTAATCTC-
1 GTCATCTTTATTTTTTAACTCGTGGTTCAATCCCA
* * * **
16944572 GATC-TTTTTATTTTTTAACTTGCGGTTCAATCCTG
1 G-TCATCTTTATTTTTTAACTCGTGGTTCAATCCCA
* * * *
16944607 GTCGTCATTATTTTTTGACTCGTGATTCAATC
1 GTCATCTTTATTTTTTAACTCGTGGTTCAATC
16944639 TTAGTCTCAT
Statistics
Matches: 132, Mismatches: 36, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
34 25 0.19
35 76 0.58
36 31 0.23
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (35 bp):
GTCATCTTTATTTTTTAACTCGTGGTTCAATCCCA
Found at i:16944543 original size:71 final size:68
Alignment explanation
Indices: 16944432--16944638 Score: 186
Period size: 71 Copynumber: 3.0 Consensus size: 68
16944422 TTTAATCTTG
* * * *
16944432 GTCATCTTTATTTTTTAACTCGTGATTTAAT-CTCAATCATCGTTGTTTTTTAACTCGTGGTTCA
1 GTCATTTTTATTTTTTAACTCGTG-TTCAATCCT-AGTCATCGTTATTTTTTAACTCGTGGTTCA
16944496 ATCCC
64 ATCCC
* * * * *
16944501 AGTCATTTTTATTTTTTTAACTCGTAGTTCAATCCTAGTCATCGTTATTCTCTAACTAGCGGTTT
1 -GTCATTTTTA-TTTTTTAACTCGT-GTTCAATCCTAGTCATCGTTATTTTTTAACTCGTGGTTC
*
16944566 AATCTC
63 AATCCC
* * * * *
16944572 GATC-TTTTTATTTTTTAACTTGCG-GTTCAATCCTGGTCGTCATTATTTTTTGACTCGTGATTC
1 G-TCATTTTTATTTTTTAAC-T-CGTGTTCAATCCTAGTCATCGTTATTTTTTAACTCGTGGTTC
16944635 AATC
63 AATC
16944639 TTAGTCTCAT
Statistics
Matches: 111, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
69 42 0.38
70 17 0.15
71 49 0.44
72 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (68 bp):
GTCATTTTTATTTTTTAACTCGTGTTCAATCCTAGTCATCGTTATTTTTTAACTCGTGGTTCAAT
CCC
Found at i:16944603 original size:69 final size:71
Alignment explanation
Indices: 16944301--16944605 Score: 234
Period size: 70 Copynumber: 4.4 Consensus size: 71
16944291 TCGGTTGTCA
* * * * * * *
16944301 TTATTTTTTAACTTGCGATTCAATCCCAATCATTGTTATTCTCTGACTCATAGTTTAATTTC-AG
1 TTATTTTTTAACTTGTGGTTCAATCCTAATCATCGTTATTCTCTAACTCACAGTTTAATCTCGAG
*
16944365 TCGTTT
66 TCATTT
* * * * *
16944371 TTATTTTCTGACTTGTGGTTCAA-CTCT-GTCATCGTTATTC-CTGACTCACAGTTTAATCTTG-
1 TTATTTTTTAACTTGTGGTTCAATC-CTAATCATCGTTATTCTCTAACTCACAGTTTAATCTCGA
*
16944432 GTCATCT
65 GTCATTT
* * * * * * *** * *
16944439 TTATTTTTTAACTCGTGATTTAAT-CTCAATCATCGTTGTTTTTTAACTCGTGGTTCAATC-CCA
1 TTATTTTTTAACTTGTGGTTCAATCCT-AATCATCGTTATTCTCTAACTCACAGTTTAATCTCGA
16944502 GTCATTT
65 GTCATTT
* * * *
16944509 TTATTTTTTTAACTCGTAGTTCAATCCTAGTCATCGTTATTCTCTAACT-AGCGGTTTAATCTCG
1 TTA-TTTTTTAACTTGTGGTTCAATCCTAATCATCGTTATTCTCTAACTCA-CAGTTTAATCTCG
16944573 A-TC-TTT
64 AGTCATTT
*
16944579 TTATTTTTTAACTTGCGGTTCAATCCT
1 TTATTTTTTAACTTGTGGTTCAATCCT
16944606 GGTCGTCATT
Statistics
Matches: 181, Mismatches: 43, Indels: 23
0.73 0.17 0.09
Matches are distributed among these distances:
67 2 0.01
68 40 0.22
69 43 0.24
70 47 0.26
71 45 0.25
72 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.48
Consensus pattern (71 bp):
TTATTTTTTAACTTGTGGTTCAATCCTAATCATCGTTATTCTCTAACTCACAGTTTAATCTCGAG
TCATTT
Found at i:16944639 original size:69 final size:72
Alignment explanation
Indices: 16944468--16944639 Score: 172
Period size: 69 Copynumber: 2.4 Consensus size: 72
16944458 TTAATCTCAA
* * *
16944468 TCATCGTTGTTTTTTAACTCGTGGTTCAATC-CCAGTCATTTTTATTTTTTTAACTCGTAGTTCA
1 TCATCATTATTTTTTAACTCGTGGTTCAATCTCCAGTCATTTTTATTTTTTTAACTCGCAGTTCA
16944532 ATCCTAG
66 ATCCTAG
* * * * * * * * *
16944539 TCATCGTTATTCTCTAACTAGCGGTTTAATCTCGA-TC-TTTTTA-TTTTTTAACTTGCGGTTCA
1 TCATCATTATTTTTTAACTCGTGGTTCAATCTCCAGTCATTTTTATTTTTTTAACTCGCAGTTCA
*
16944601 ATCCTGG
66 ATCCTAG
* * *
16944608 TCGTCATTATTTTTTGACTCGTGATTCAATCT
1 TCATCATTATTTTTTAACTCGTGGTTCAATCT
16944640 TAGTCTCATT
Statistics
Matches: 80, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
69 45 0.56
70 6 0.08
71 27 0.34
72 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (72 bp):
TCATCATTATTTTTTAACTCGTGGTTCAATCTCCAGTCATTTTTATTTTTTTAACTCGCAGTTCA
ATCCTAG
Found at i:16944830 original size:35 final size:34
Alignment explanation
Indices: 16944798--16944967 Score: 148
Period size: 34 Copynumber: 5.0 Consensus size: 34
16944788 TCCTTGACCT
* *
16944798 ACAATTCAATCTCGATCGTTGTTATTTTTTGACTC
1 ACAATTCAATCTCGAT-ATTTTTATTTTTTGACTC
* * * *
16944833 ACTATTTAATCTCGATCATCTTTATTTTCTGACTC
1 ACAATTCAATCTCGAT-ATTTTTATTTTTTGACTC
* * *
16944868 ACGATTCAATC-CTGGTTTTTTTATTTTTTGACTC
1 ACAATTCAATCTC-GATATTTTTATTTTTTGACTC
* * ** *
16944902 ACAGTTCAAT-TCCAATATCATTATTTTTTGACTT
1 ACAATTCAATCT-CGATATTTTTATTTTTTGACTC
*
16944936 ACGATTCAATCTCGAT-TTTTTATTTTTTGACT
1 ACAATTCAATCTCGATATTTTTATTTTTTGACT
16944968 AGTAGTTTAA
Statistics
Matches: 106, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
33 14 0.13
34 50 0.47
35 42 0.40
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (34 bp):
ACAATTCAATCTCGATATTTTTATTTTTTGACTC
Found at i:16944900 original size:34 final size:34
Alignment explanation
Indices: 16944819--16945142 Score: 158
Period size: 35 Copynumber: 9.4 Consensus size: 34
16944809 TCGATCGTTG
* * * *
16944819 TTATTTTTTGACTCACTATTTAAT-CTCGATCATCT
1 TTATTTTTTGACTCACGATTCAATCCT-GGT-ATTT
* *
16944854 TTATTTTCTGACTCACGATTCAATCCTGGTTTTT
1 TTATTTTTTGACTCACGATTCAATCCTGGTATTT
** **
16944888 TTATTTTTTGACTCAC-AGTTCAATTCC-AATATCA
1 TTATTTTTTGACTCACGA-TTCAA-TCCTGGTATTT
* *
16944922 TTATTTTTTGACTTACGATTCAAT-CTCG-ATTTT
1 TTATTTTTTGACTCACGATTCAATCCTGGTA-TTT
* * *
16944955 TTATTTTTTGACT-A-GTAGTTTAATCCTAGTCATCT
1 TTATTTTTTGACTCACG-A-TTCAATCCTGGT-ATTT
* * * * *
16944990 TCATTTTTTGACTCATGGTTTAATCCTGATCATTT
1 TTATTTTTTGACTCACGATTCAATCCTGGT-ATTT
* * * * * * *
16945025 TTATTTTCTAACTCATGGTTTAATCCCGATCATTT
1 TTATTTTTTGACTCACGATTCAATCCTGGT-ATTT
* * * **
16945060 TTATTTTTTGACTTACGGTTCAATCTTGGGTATCG
1 TTATTTTTTGACTCACGATTCAATCCT-GGTATTT
* * * * *
16945095 TTATTTTTTGACTCATGGTTCAATCCTAGTCTAT
1 TTATTTTTTGACTCACGATTCAATCCTGGTATTT
*
16945129 TTATTTTCTGACTC
1 TTATTTTTTGACTC
16945143 GTGGTTCAAT
Statistics
Matches: 228, Mismatches: 47, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
31 1 0.00
32 4 0.02
33 21 0.09
34 63 0.28
35 132 0.58
36 6 0.03
37 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.50
Consensus pattern (34 bp):
TTATTTTTTGACTCACGATTCAATCCTGGTATTT
Found at i:16944934 original size:68 final size:68
Alignment explanation
Indices: 16944801--16944967 Score: 196
Period size: 68 Copynumber: 2.4 Consensus size: 68
16944791 TTGACCTACA
* * * *
16944801 ATTCAATCTCGATCGTTGTTATTTTTTGACTCACTATTTAATCTCGATCATCTTTATTTTCTGAC
1 ATTCAATCTCGAT--TTTTTATTTTTTGACTCACTATTCAATCTCAATCATCATTATTTTCTGAC
16944866 TCACG
64 TCACG
* * *
16944871 ATTCAATCCTGGTTTTTTTATTTTTTGACTCAC-AGTTCAAT-TCCAAT-ATCATTATTTTTTGA
1 ATTCAAT-CTCGATTTTTTATTTTTTGACTCACTA-TTCAATCT-CAATCATCATTATTTTCTGA
*
16944933 CTTACG
63 CTCACG
16944939 ATTCAATCTCGATTTTTTATTTTTTGACT
1 ATTCAATCTCGATTTTTTATTTTTTGACT
16944968 AGTAGTTTAA
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
67 20 0.24
68 27 0.32
69 26 0.31
70 7 0.08
71 4 0.05
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (68 bp):
ATTCAATCTCGATTTTTTATTTTTTGACTCACTATTCAATCTCAATCATCATTATTTTCTGACTC
ACG
Found at i:16945069 original size:105 final size:103
Alignment explanation
Indices: 16944840--16945153 Score: 252
Period size: 105 Copynumber: 3.0 Consensus size: 103
16944830 CTCACTATTT
* * * * * ** *
16944840 AATCTCGATCATCTTTATTTTCTGACTCACGATTCAATCCTG-GTTTTTTTATTTTTTGACTCAC
1 AATCCCGATCATTTTTATTTTTTGACTTACG-TTCAATCCTGAGTATCGTTATTTTTTGACTCAT
* * * * * *
16944904 AGTTCAATTCCAATA-TC-A-TTATTTTTTGACTTACGATTC
65 GGTTCAA-TCC--TAGTCTATTTATTTTCTAACTCATGGTTC
* *
16944943 AATCTCGAT--TTTTTATTTTTTGACTAGTA-GTTTAATCCT-AGTCATC-TTCATTTTTTGACT
1 AATCCCGATCATTTTTATTTTTTGACT--TACGTTCAATCCTGAGT-ATCGTT-ATTTTTTGACT
* * *
16945003 CATGGTTTAATCCT-GATCATTTTTATTTTCTAACTCATGGTTT
62 CATGGTTCAATCCTAG-TC-TATTTATTTTCTAACTCATGGTTC
* *
16945046 AATCCCGATCATTTTTATTTTTTGACTTACGGTTCAATCTTGGGTATCGTTATTTTTTGACTCAT
1 AATCCCGATCATTTTTATTTTTTGACTTAC-GTTCAATCCTGAGTATCGTTATTTTTTGACTCAT
* *
16945111 GGTTCAATCCTAGTCTATTTATTTTCTGACTCGTGGTTC
65 GGTTCAATCCTAGTCTATTTATTTTCTAACTCATGGTTC
16945150 AATC
1 AATC
16945154 ATGATCGTCA
Statistics
Matches: 169, Mismatches: 25, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
99 1 0.01
100 2 0.01
101 29 0.17
102 20 0.12
103 35 0.21
104 24 0.14
105 53 0.31
106 5 0.03
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.49
Consensus pattern (103 bp):
AATCCCGATCATTTTTATTTTTTGACTTACGTTCAATCCTGAGTATCGTTATTTTTTGACTCATG
GTTCAATCCTAGTCTATTTATTTTCTAACTCATGGTTC
Found at i:16945178 original size:104 final size:105
Alignment explanation
Indices: 16944992--16945188 Score: 245
Period size: 104 Copynumber: 1.9 Consensus size: 105
16944982 AGTCATCTTC
* * * *
16944992 ATTTTTTGACTCATGGTTTAATCCTGATCATTTTTATTTTCTAACTCATGGTTTAATCCCGATCA
1 ATTTTTTGACTCATGGTTCAATCCTGATCATATTTATTTTCTAACTCATGGTTCAATCACGATCA
** * * * *
16945057 TTTTTATTTTTTGACTTACGGTTCAATCTTGGGTATCGTT
66 TCATTATTGTCTAACTTACGATTCAATCTTGGGTATCGTT
* * *
16945097 ATTTTTTGACTCATGGTTCAATCCT-AGTC-TATTTATTTTCTGACTCGTGGTTCAATCATGATC
1 ATTTTTTGACTCATGGTTCAATCCTGA-TCATATTTATTTTCTAACTCATGGTTCAATCACGATC
*
16945160 GTCATTATTGTCTAACTTACGATTCAATC
65 ATCATTATTGTCTAACTTACGATTCAATC
16945189 CCAATCTCAT
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
104 51 0.66
105 26 0.34
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (105 bp):
ATTTTTTGACTCATGGTTCAATCCTGATCATATTTATTTTCTAACTCATGGTTCAATCACGATCA
TCATTATTGTCTAACTTACGATTCAATCTTGGGTATCGTT
Found at i:16946568 original size:10 final size:11
Alignment explanation
Indices: 16946544--16946592 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
16946534 AATTTTTTTA
16946544 TTTATTATATT
1 TTTATTATATT
16946555 TTTATTAT-TT
1 TTTATTATATT
16946565 TTTATATATATT
1 TTTAT-TATATT
*
16946577 ATT-TTA-A-T
1 TTTATTATATT
16946585 TTTATTAT
1 TTTATTAT
16946593 TGTTATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
8 3 0.09
9 4 0.12
10 9 0.28
11 12 0.38
12 4 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATTATATT
Found at i:16947211 original size:16 final size:14
Alignment explanation
Indices: 16947190--16947229 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
16947180 CGCATTTCTT
16947190 AAACCCTAAAACTCTC
1 AAACCCTAAAA-T-TC
*
16947206 AAACCCTAAAATTG
1 AAACCCTAAAATTC
16947220 AAACCCTAAA
1 AAACCCTAAA
16947230 CCCTTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.48
15 1 0.04
16 11 0.48
ACGTcount: A:0.50, C:0.30, G:0.03, T:0.17
Consensus pattern (14 bp):
AAACCCTAAAATTC
Found at i:16947262 original size:21 final size:21
Alignment explanation
Indices: 16947236--16947285 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
16947226 TAAACCCTTT
16947236 AAACCTTAAAATCAAAACCCC
1 AAACCTTAAAATCAAAACCCC
*
16947257 AAACCTTAAAATCAAAACCCT
1 AAACCTTAAAATCAAAACCCC
16947278 AAATCCTT
1 AAA-CCTT
16947286 CAAACTCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (21 bp):
AAACCTTAAAATCAAAACCCC
Found at i:16947280 original size:14 final size:14
Alignment explanation
Indices: 16947257--16947382 Score: 67
Period size: 14 Copynumber: 8.7 Consensus size: 14
16947247 TCAAAACCCC
*
16947257 AAACCTTAAAATCA
1 AAACCCTAAAATCA
*
16947271 AAACCCT-AAATCCTTC
1 AAACCCTAAAAT-C--A
*
16947287 AAACTCTAAAATCA
1 AAACCCTAAAATCA
* *
16947301 AAA-CCTTAAATCTT
1 AAACCCTAAAATC-A
**
16947315 AAACCCTAAAATTG
1 AAACCCTAAAATCA
* *
16947329 AAACCCTAAACCTTCC
1 AAACCCTAAA--ATCA
* *
16947345 AAACCCTAAAACCC
1 AAACCCTAAAATCA
**
16947359 AAATTCTAAAATCA
1 AAACCCTAAAATCA
16947373 AAACCCTAAA
1 AAACCCTAAA
16947383 CCCTTCAAAC
Statistics
Matches: 83, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
13 11 0.13
14 43 0.52
15 7 0.08
16 18 0.22
17 4 0.05
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:16947316 original size:51 final size:51
Alignment explanation
Indices: 16947205--16947398 Score: 141
Period size: 51 Copynumber: 3.8 Consensus size: 51
16947195 CTAAAACTCT
* ** *
16947205 CAAACCCTAAAATTGAAACCCTAAACCCTTTAAACCTTAAAATCAAAACCC
1 CAAACCTTAAAATCAAAACCCTAAACCCTTCAAACCTTAAAATCAAAACCC
* *
16947256 CAAACCTTAAAATCAAAACCCTAAATCCTTCAAA-CTCTAAAATCAAAACCT
1 CAAACCTTAAAATCAAAACCCTAAACCCTTCAAACCT-TAAAATCAAAACCC
* * ** * **
16947307 TAAATCTTAAACCCTAAAA--TTGAAACCC-T-AAACCTTCCAAACCCTAAAA-CC
1 CAAACCTTAAAATC-AAAACCCT-AAACCCTTCAAACCTT--AAAATC-AAAACCC
* *
16947358 CAAA-TTCTAAAATCAAAACCCTAAACCCTTCAAACCGTAAA
1 CAAACCT-TAAAATCAAAACCCTAAACCCTTCAAACCTTAAA
16947399 CCCTTTAAAT
Statistics
Matches: 110, Mismatches: 21, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
49 4 0.04
50 11 0.10
51 79 0.72
52 10 0.09
53 6 0.05
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (51 bp):
CAAACCTTAAAATCAAAACCCTAAACCCTTCAAACCTTAAAATCAAAACCC
Found at i:16947348 original size:58 final size:58
Alignment explanation
Indices: 16947256--16947530 Score: 275
Period size: 58 Copynumber: 4.7 Consensus size: 58
16947246 ATCAAAACCC
* * * *
16947256 CAAACCTTAAAATCAAAACCCTAAATCCTTCAAACTCTAAAATCAAAACCTTAAATCT
1 CAAACCCTAAAATTAAAACCCTAAACCCTTCAAACCCTAAAATCAAAACCTTAAATCT
* * * ** *
16947314 TAAACCCTAAAATTGAAACCCTAAA-CCTTCCAAACCCTAAAACCCAAATTCTAAAATC-
1 CAAACCCTAAAATTAAAACCCTAAACCCTT-CAAACCCTAAAA-TCAAAACCTTAAATCT
* * * * * * * *
16947372 AAAACCCTAAACCCTTCAAACCGTAAACCCTTTAAATCATAAAATCGAAACCTTAAATCT
1 CAAACCCTAAA--ATTAAAACCCTAAACCCTTCAAACCCTAAAATCAAAACCTTAAATCT
* * *
16947432 CAAACCCTAAAATTGAAACCCTAAACCCTTTAAACCCTAAAATCAAAACCTTAAACCT
1 CAAACCCTAAAATTAAAACCCTAAACCCTTCAAACCCTAAAATCAAAACCTTAAATCT
* * * *
16947490 CAAACCTTAAAATCAAAACCCTAAACCATTTAAACCCTAAA
1 CAAACCCTAAAATTAAAACCCTAAACCCTTCAAACCCTAAA
16947531 CCCTTCAAAC
Statistics
Matches: 178, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
57 4 0.02
58 119 0.67
59 21 0.12
60 30 0.17
61 4 0.02
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (58 bp):
CAAACCCTAAAATTAAAACCCTAAACCCTTCAAACCCTAAAATCAAAACCTTAAATCT
Found at i:16947398 original size:16 final size:16
Alignment explanation
Indices: 16947373--16947540 Score: 60
Period size: 14 Copynumber: 11.2 Consensus size: 16
16947363 TCTAAAATCA
16947373 AAACCCTAAACCCTTC
1 AAACCCTAAACCCTTC
* *
16947389 AAACCGTAAACCCTTT
1 AAACCCTAAACCCTTC
* * *
16947405 AAATCATAAA---ATC
1 AAACCCTAAACCCTTC
* *
16947418 GAAACCTTAAA-TC-TC
1 -AAACCCTAAACCCTTC
* *
16947433 AAACCCTAAA--ATTG
1 AAACCCTAAACCCTTC
*
16947447 AAACCCTAAACCCTTT
1 AAACCCTAAACCCTTC
*
16947463 AAACCCTAAA---ATC
1 AAACCCTAAACCCTTC
*
16947476 AAAACCTTAAA-CC-TC
1 -AAACCCTAAACCCTTC
* *
16947491 AAACCTTAAA---ATC
1 AAACCCTAAACCCTTC
* *
16947504 AAAACCCTAAACCATTT
1 -AAACCCTAAACCCTTC
16947521 AAACCCTAAACCCTTC
1 AAACCCTAAACCCTTC
16947537 AAAC
1 AAAC
16947541 TTTAAAATTG
Statistics
Matches: 117, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
13 4 0.03
14 56 0.48
15 4 0.03
16 52 0.44
17 1 0.01
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (16 bp):
AAACCCTAAACCCTTC
Found at i:16947488 original size:37 final size:37
Alignment explanation
Indices: 16947447--16947601 Score: 156
Period size: 37 Copynumber: 4.2 Consensus size: 37
16947437 CCTAAAATTG
*
16947447 AAACCCTAAACCCTTTAAACCCTAAAATCAAAACCTT
1 AAACCCTAAACCCTTTAAACCCTAAAATCGAAACCTT
** * *
16947484 AAA-CCTCAAA-CC-TTAAAATC-AAAACCCTAAACCATTT
1 AAACCCT-AAACCCTTTAAACCCTAAAA-TCGAAACC--TT
* ** *
16947521 AAACCCTAAACCCTTCAAACTTTAAAATTGAAACCTT
1 AAACCCTAAACCCTTTAAACCCTAAAATCGAAACCTT
*
16947558 AAACCCTAAACCCTATAAACCCTAAAATCGAAACCTT
1 AAACCCTAAACCCTTTAAACCCTAAAATCGAAACCTT
16947595 AAACCCT
1 AAACCCT
16947602 CCAAACCTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
34 4 0.04
35 12 0.13
36 5 0.05
37 55 0.58
38 5 0.05
39 10 0.11
40 4 0.04
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (37 bp):
AAACCCTAAACCCTTTAAACCCTAAAATCGAAACCTT
Found at i:16947508 original size:14 final size:14
Alignment explanation
Indices: 16947463--16947514 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
16947453 TAAACCCTTT
16947463 AAACCCTAAAATCA
1 AAACCCTAAAATCA
* *
16947477 AAACCTTAAACCTC-
1 AAACCCTAAA-ATCA
*
16947491 AAACCTTAAAATCA
1 AAACCCTAAAATCA
16947505 AAACCCTAAA
1 AAACCCTAAA
16947515 CCATTTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 2 0.06
14 28 0.88
15 2 0.06
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:16947592 original size:30 final size:29
Alignment explanation
Indices: 16947558--16947658 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 29
16947548 TTGAAACCTT
*
16947558 AAACCCTAAACCCTATAAACCCTAAAATCG
1 AAACCCTAAACCCT-TAAACCCTAAAATTG
* * *
16947588 AAACCTTAAACCCTCCAAACCTTAAAAATTG
1 AAACCCTAAACCCT-TAAACCCT-AAAATTG
* * *
16947619 AAAATCCTAAAACCTTAAACCCTCAAATTG
1 -AAACCCTAAACCCTTAAACCCTAAAATTG
*
16947649 AAACCTTAAA
1 AAACCCTAAA
16947659 ACCCCAAACA
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
29 8 0.14
30 25 0.45
31 12 0.21
32 11 0.20
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.21
Consensus pattern (29 bp):
AAACCCTAAACCCTTAAACCCTAAAATTG
Found at i:16947640 original size:61 final size:62
Alignment explanation
Indices: 16947562--16947683 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 62
16947552 AACCTTAAAC
* * *
16947562 CCTAAACCCTATAAACCCTAAAATCGAAACCTTAAACCCTCCAAAC-CTTAAAAATTGAAAAT
1 CCTAAAACCTATAAACCCTAAAATCGAAACCTTAAAACC-CCAAACACTAAAAAATTGAAAAT
* * *
16947624 CCTAAAACCT-TAAACCCTCAAATTGAAACCTTAAAACCCCAAACACTAAAAAATTTAAAA
1 CCTAAAACCTATAAACCCTAAAATCGAAACCTTAAAACCCCAAACACTAAAAAATTGAAAA
16947684 CTTTTAAACC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
60 6 0.11
61 38 0.72
62 9 0.17
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.20
Consensus pattern (62 bp):
CCTAAAACCTATAAACCCTAAAATCGAAACCTTAAAACCCCAAACACTAAAAAATTGAAAAT
Found at i:16955987 original size:21 final size:20
Alignment explanation
Indices: 16955963--16956014 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
16955953 TGCAAATAAG
**
16955963 GTTGAAAATGATGCTTGAAAT
1 GTTGAAAA-GATGCTAAAAAT
16955984 GTTGATAAAGATGCTAAAAAT
1 GTTGA-AAAGATGCTAAAAAT
*
16956005 GATGAAAAGA
1 GTTGAAAAGA
16956015 GATATGGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 19 0.70
22 3 0.11
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.27
Consensus pattern (20 bp):
GTTGAAAAGATGCTAAAAAT
Found at i:16961283 original size:8 final size:8
Alignment explanation
Indices: 16961272--16961433 Score: 50
Period size: 8 Copynumber: 20.6 Consensus size: 8
16961262 AGAAAAACTT
16961272 TAAAACCC
1 TAAAACCC
*
16961280 TAAAACCT
1 TAAAACCC
*
16961288 TCAAAA-CT
1 T-AAAACCC
16961296 TAAAACCC
1 TAAAACCC
**
16961304 TAAAACAT
1 TAAAACCC
* *
16961312 TGAAATCC
1 TAAAACCC
*
16961320 TAAAA-TC
1 TAAAACCC
16961327 TCAAAACCC
1 T-AAAACCC
*
16961336 CAAAACCCC
1 TAAAA-CCC
*
16961345 TAAAAGCC
1 TAAAACCC
* **
16961353 TAGAATGC
1 TAAAACCC
*
16961361 TAAAACAC
1 TAAAACCC
*
16961369 TAAAA-CG
1 TAAAACCC
*
16961376 TCAAA-CC
1 TAAAACCC
*
16961383 TAAAA-TC
1 TAAAACCC
*
16961390 -GAAACCC
1 TAAAACCC
* *
16961397 TAAAATCA
1 TAAAACCC
* *
16961405 TGAAACCT
1 TAAAACCC
16961413 TAAAA-CC
1 TAAAACCC
16961420 TCAAAACCC
1 T-AAAACCC
16961429 TAAAA
1 TAAAA
16961434 TGAGATCCTA
Statistics
Matches: 109, Mismatches: 36, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
6 3 0.03
7 19 0.17
8 72 0.66
9 15 0.14
ACGTcount: A:0.51, C:0.28, G:0.04, T:0.17
Consensus pattern (8 bp):
TAAAACCC
Found at i:16961323 original size:24 final size:24
Alignment explanation
Indices: 16961272--16961324 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
16961262 AGAAAAACTT
* *
16961272 TAAAACCCTAAAACCTTCAAAACT
1 TAAAACCCTAAAACATTCAAAACC
* *
16961296 TAAAACCCTAAAACATTGAAATCC
1 TAAAACCCTAAAACATTCAAAACC
16961320 TAAAA
1 TAAAA
16961325 TCTCAAAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.25, G:0.02, T:0.21
Consensus pattern (24 bp):
TAAAACCCTAAAACATTCAAAACC
Found at i:16961411 original size:16 final size:15
Alignment explanation
Indices: 16961381--16961434 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
16961371 AAACGTCAAA
16961381 CCTAAAATC-GAAAC
1 CCTAAAATCAGAAAC
16961395 CCTAAAATCATGAAAC
1 CCTAAAATCA-GAAAC
*
16961411 CTTAAAACCTCA-AAAC
1 CCTAAAA--TCAGAAAC
16961427 CCTAAAAT
1 CCTAAAAT
16961435 GAGATCCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 10 0.29
16 21 0.62
18 3 0.09
ACGTcount: A:0.50, C:0.28, G:0.04, T:0.19
Consensus pattern (15 bp):
CCTAAAATCAGAAAC
Found at i:16964127 original size:21 final size:22
Alignment explanation
Indices: 16964103--16964147 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
16964093 TTAATTAAAT
*
16964103 TAATTGAAA-AATTACAAAAAA
1 TAATTAAAATAATTACAAAAAA
16964124 TAATTAAAATTGAATTACAAAAAA
1 TAATTAAAA-T-AATTACAAAAAA
16964148 AGGGGCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
24 12 0.60
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (22 bp):
TAATTAAAATAATTACAAAAAA
Found at i:16968549 original size:76 final size:76
Alignment explanation
Indices: 16968402--16968550 Score: 235
Period size: 76 Copynumber: 2.0 Consensus size: 76
16968392 TTGCATAATA
* * * **
16968402 ATCAAAGTTTGGGCAAACTCAAGAAAGGAATGGATGAATTGGCCACACAAATTACTTAACTTAAA
1 ATCAAAGTTTAGGCAAACTCAAGAAAGGAATGGATGAATTGACCACACAAATAACTTAACACAAA
*
16968467 ATTCTGATGTG
66 AGTCTGATGTG
*
16968478 ATCAAAGTTTAGGCAAACTCAAGAAAGGAATGGATGAATTGACCACATAAATAACTTAACACAAA
1 ATCAAAGTTTAGGCAAACTCAAGAAAGGAATGGATGAATTGACCACACAAATAACTTAACACAAA
16968543 AGTCTGAT
66 AGTCTGAT
16968551 TTCTAAGATG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (76 bp):
ATCAAAGTTTAGGCAAACTCAAGAAAGGAATGGATGAATTGACCACACAAATAACTTAACACAAA
AGTCTGATGTG
Found at i:16972430 original size:146 final size:147
Alignment explanation
Indices: 16972258--16972717 Score: 542
Period size: 146 Copynumber: 3.1 Consensus size: 147
16972248 CAATAAAAAG
* * *
16972258 AAAAAAAAAGCAAAGAAAGAAAGACATGCACCTTGGAGATGAAAGTTTGAGGCAAAAAGTGAATA
1 AAAAAAAAAGCAAAGAAAGAAAGACATGCACCTTAGAAATGAAAGTTCGAGGCAAAAAGTGAATA
* * * *
16972323 AATCTTTAGTTAGAATTTCAAGTAAAAAAGAAGACAGAATTCAATAAAGTAGAATGTTAAAG-TG
66 AAGCTTTAGTTAGAATTTCAAGTAAAAAAGAAGATAGAATTCAAAAAAGTAGAATGCTAAAGTTG
*
16972387 TAAG-CAGATGTTTCCAA
131 -AAGTCAAATGTTTCCAA
* * *
16972404 AAAAAAAAAGCAAAGAAAAAAAGACATGCACCTCA-AATATGAAAGTTCGAGGTAAAAAGTGAAT
1 AAAAAAAAAGCAAAGAAAGAAAGACATGCACCTTAGAA-ATGAAAGTTCGAGGCAAAAAGTGAAT
* * * * *
16972468 AAAGCTTTAGTTAAAATTTTAAGGAAAAAA-AA-ATAGAATTTAAGAAAGTAGAATGCTAAAGTT
65 AAAGCTTTAGTTAGAATTTCAAGTAAAAAAGAAGATAGAATTCAAAAAAGTAGAATGCTAAAGTT
16972531 GAAGTCAAATGTTTCCAA
130 GAAGTCAAATGTTTCCAA
* * * * * *
16972549 AAAAATGAAAAGCGAAGAAAGAAAGACGTGCACC-TCGAAATGAAAGCTCAAGGCAAAAAATGAA
1 AAAAA--AAAAGCAAAGAAAGAAAGACATGCACCTTAGAAATGAAAGTTCGAGGCAAAAAGTGAA
* * * * * *
16972613 TAAAGCATCAGTTAGAATCTCAAAT-AAAAAGAAG-TTGATTTCAAAAAAGTAGAATGCTAAAGT
64 TAAAGCTTTAGTTAGAATTTCAAGTAAAAAAGAAGATAGAATTCAAAAAAGTAGAATGCTAAAGT
*
16972676 TGAAGTCAAATGTTTTCAA
129 TGAAGTCAAATGTTTCCAA
16972695 AAAAGAAAAAGCAAA-AAATGAAA
1 AAAA-AAAAAGCAAAGAAA-GAAA
16972718 AACAAATGGC
Statistics
Matches: 267, Mismatches: 37, Indels: 21
0.82 0.11 0.06
Matches are distributed among these distances:
144 31 0.12
145 39 0.15
146 170 0.64
147 27 0.10
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.20
Consensus pattern (147 bp):
AAAAAAAAAGCAAAGAAAGAAAGACATGCACCTTAGAAATGAAAGTTCGAGGCAAAAAGTGAATA
AAGCTTTAGTTAGAATTTCAAGTAAAAAAGAAGATAGAATTCAAAAAAGTAGAATGCTAAAGTTG
AAGTCAAATGTTTCCAA
Found at i:16974213 original size:32 final size:33
Alignment explanation
Indices: 16974177--16974241 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
16974167 TAGCTGGTAT
*
16974177 CCAAATCA-AATTAAGTCC-AGTTTAGTTGGCAC
1 CCAAATCATAATTAA-ACCTAGTTTAGTTGGCAC
* *
16974209 CCAAATGATATTTAAACCTAGTTTAGTTGGCAC
1 CCAAATCATAATTAAACCTAGTTTAGTTGGCAC
16974242 AATTGAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (33 bp):
CCAAATCATAATTAAACCTAGTTTAGTTGGCAC
Found at i:16974263 original size:32 final size:32
Alignment explanation
Indices: 16974195--16974266 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
16974185 AATTAAGTCC
*
16974195 AGTTTAGTTGGCACCCAAATGATATTTAAACCT
1 AGTTTAGTTGGCA-CCAAATGAGATTTAAACCT
* * *
16974228 AGTTTAGTTGGCA-CAATTGAGATTTTAAGCTT
1 AGTTTAGTTGGCACCAAATGAGA-TTTAAACCT
16974260 AGTTTAG
1 AGTTTAG
16974267 CTTGCATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.21
32 14 0.41
33 13 0.38
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (32 bp):
AGTTTAGTTGGCACCAAATGAGATTTAAACCT
Found at i:16974420 original size:23 final size:22
Alignment explanation
Indices: 16974394--16974446 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
16974384 TAATTGAGAT
*
16974394 TTTAAGCTTACTTTAGCTAGCAC
1 TTTAAGCTGA-TTTAGCTAGCAC
16974417 TTTAAGCCTGATTTAGCTAGCAC
1 TTTAAG-CTGATTTAGCTAGCAC
*
16974440 TCTAAGC
1 TTTAAGC
16974447 CTAGTCTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 1 0.04
23 23 0.85
24 3 0.11
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (22 bp):
TTTAAGCTGATTTAGCTAGCAC
Found at i:16974447 original size:23 final size:23
Alignment explanation
Indices: 16974405--16974448 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
16974395 TTAAGCTTAC
*
16974405 TTTAGCTAGCACTTTAAGCCTGA
1 TTTAGCTAGCACTCTAAGCCTGA
16974428 TTTAGCTAGCACTCTAAGCCT
1 TTTAGCTAGCACTCTAAGCCT
16974449 AGTCTAGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (23 bp):
TTTAGCTAGCACTCTAAGCCTGA
Found at i:16974478 original size:143 final size:143
Alignment explanation
Indices: 16974205--16974478 Score: 379
Period size: 143 Copynumber: 1.9 Consensus size: 143
16974195 AGTTTAGTTG
* * * *
16974205 GCACCCAAATGATATTTAAACCTAGTTTAGTTGGCACAATTGAGATTTTAAGCTTAGTTTAGCTT
1 GCACCCAAATGATATTTAAACCTAATTTAGCTGGCACAATTGAGATTTTAAGCTTACTTTAGCTA
* * * *** *
16974270 GCATTTTAAGCCTAATTTAGCTAGCACTCTCAGCCCAGTCAAGTTGGCATGTAGATCAAATTAAG
66 GCACTTTAAGCCTAATTTAGCTAGCACTCTAAGCCCAGTCAAGATGGCACCCAGATCAAACTAAG
16974335 CGTAGTTAAACTA
131 CGTAGTTAAACTA
*
16974348 GCACCCAAATGATATTTAAACCTAATTTAGCTGGCATAATTGAGATTTTAAGCTTACTTTAGCTA
1 GCACCCAAATGATATTTAAACCTAATTTAGCTGGCACAATTGAGATTTTAAGCTTACTTTAGCTA
* * * * *
16974413 GCACTTTAAGCCTGATTTAGCTAGCACTCTAAGCCTAGTCTAGATGGTACCCATA-CTAAACTAA
66 GCACTTTAAGCCTAATTTAGCTAGCACTCTAAGCCCAGTCAAGATGGCACCCAGATC-AAACTAA
16974477 GC
130 GC
16974479 TCAAATTAGT
Statistics
Matches: 113, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
142 1 0.01
143 112 0.99
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (143 bp):
GCACCCAAATGATATTTAAACCTAATTTAGCTGGCACAATTGAGATTTTAAGCTTACTTTAGCTA
GCACTTTAAGCCTAATTTAGCTAGCACTCTAAGCCCAGTCAAGATGGCACCCAGATCAAACTAAG
CGTAGTTAAACTA
Found at i:16974704 original size:22 final size:22
Alignment explanation
Indices: 16974679--16974802 Score: 92
Period size: 22 Copynumber: 5.6 Consensus size: 22
16974669 ATATGACAAG
**
16974679 ATCTTTAAGACCTTTAGACATA
1 ATCTTTAAGACCTCGAGACATA
16974701 ATCTTTAA-AGCCTCGAGACATA
1 ATCTTTAAGA-CCTCGAGACATA
* * *
16974723 ATCTTTAAGACTTCCGTG-TATA
1 ATCTTTAAGACCT-CGAGACATA
* * * *
16974745 ATCTTCAAGACTTCCAGGCATA
1 ATCTTTAAGACCTCGAGACATA
* *
16974767 ATCTCTAAGACTTTCGAG-CATA
1 ATCTTTAAGAC-CTCGAGACATA
*
16974789 ATCTCTAAGACCTC
1 ATCTTTAAGACCTC
16974803 CAGGTCTAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
21 5 0.06
22 70 0.83
23 9 0.11
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCTTTAAGACCTCGAGACATA
Found at i:16974767 original size:44 final size:45
Alignment explanation
Indices: 16974719--16974841 Score: 141
Period size: 44 Copynumber: 2.8 Consensus size: 45
16974709 AGCCTCGAGA
* * *
16974719 CATAATCTTTAAGACTTCCGTGTATAATCTTC-AAGACTTCCAGG-
1 CATAATCTCTAAGACTT-CGTGCATAATCTTCTAAGACCTCCAGGT
*
16974763 CATAATCTCTAAGACTTTCGAGCATAATC-TCTAAGACCTCCAGGT
1 CATAATCTCTAAGAC-TTCGTGCATAATCTTCTAAGACCTCCAGGT
16974808 C-TAATCTCTAA-ACCTTCGTGCATAATC-TCTAAGA
1 CATAATCTCTAAGA-CTTCGTGCATAATCTTCTAAGA
16974842 TCTTTGGGCA
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
43 22 0.31
44 45 0.64
45 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (45 bp):
CATAATCTCTAAGACTTCGTGCATAATCTTCTAAGACCTCCAGGT
Found at i:16974855 original size:22 final size:22
Alignment explanation
Indices: 16974761--16974871 Score: 111
Period size: 22 Copynumber: 5.1 Consensus size: 22
16974751 AAGACTTCCA
16974761 GGCATAATCTCTAAGA-CTTTCG
1 GGCATAATCTCTAAGACCTTT-G
* **
16974783 AGCATAATCTCTAAGACCTCCAG
1 GGCATAATCTCTAAGACCT-TTG
* *
16974806 GTC-TAATCTCTAA-ACCTTCG
1 GGCATAATCTCTAAGACCTTTG
* *
16974826 TGCATAATCTCTAAGATCTTTG
1 GGCATAATCTCTAAGACCTTTG
*
16974848 GGCATAATCTCTAAAACCTTTG
1 GGCATAATCTCTAAGACCTTTG
16974870 GG
1 GG
16974872 TAAAATATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.03
21 14 0.20
22 51 0.72
23 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (22 bp):
GGCATAATCTCTAAGACCTTTG
Found at i:16974856 original size:43 final size:44
Alignment explanation
Indices: 16974742--16974867 Score: 134
Period size: 44 Copynumber: 2.9 Consensus size: 44
16974732 ACTTCCGTGT
* *
16974742 ATAATCT-TCAAGACTTCCA-GGCATAATCTCTAAGACTTTCGAGC
1 ATAATCTCT-AAGACCTCCAGGGCATAATCTCTAA-ACCTTCGAGC
* *
16974786 ATAATCTCTAAGACCTCCAGGTC-TAATCTCTAAACCTTCGTGC
1 ATAATCTCTAAGACCTCCAGGGCATAATCTCTAAACCTTCGAGC
* **
16974829 ATAATCTCTAAGATCT-TTGGGCATAATCTCTAAAACCTT
1 ATAATCTCTAAGACCTCCAGGGCATAATCTCT-AAACCTT
16974868 TGGGTAAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.04
43 31 0.44
44 33 0.47
45 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (44 bp):
ATAATCTCTAAGACCTCCAGGGCATAATCTCTAAACCTTCGAGC
Found at i:16976581 original size:5 final size:4
Alignment explanation
Indices: 16976561--16976636 Score: 54
Period size: 4 Copynumber: 18.8 Consensus size: 4
16976551 GCAGTAGGAA
16976561 AAAG AGAAG AAAG AAAGG AAA- AAATG AAA- AAATG AAA- AAA- AAAG
1 AAAG A-AAG AAAG AAA-G AAAG AAA-G AAAG AAA-G AAAG AAAG AAAG
*
16976605 AAA- AAAA AGAAG AAAAG AAAG AAAG AAAG AAA
1 AAAG AAAG A-AAG -AAAG AAAG AAAG AAAG AAA
16976637 AAGGGGATGG
Statistics
Matches: 61, Mismatches: 1, Indels: 20
0.74 0.01 0.24
Matches are distributed among these distances:
3 15 0.25
4 26 0.43
5 19 0.31
6 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:16976603 original size:11 final size:10
Alignment explanation
Indices: 16976587--16976628 Score: 50
Period size: 9 Copynumber: 4.1 Consensus size: 10
16976577 GGAAAAAATG
*
16976587 AAAAAATGAA
1 AAAAAAAGAA
16976597 AAAAAAAG-A
1 AAAAAAAGAA
16976606 AAAAAAAGAA
1 AAAAAAAGAA
16976616 GAAAAGAAAGAA
1 -AAAA-AAAGAA
16976628 A
1 A
16976629 GAAAGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 9 0.32
10 8 0.29
11 5 0.18
12 6 0.21
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:16976638 original size:35 final size:35
Alignment explanation
Indices: 16976567--16976639 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
16976557 GGAAAAAGAG
* *
16976567 AAGAAAGAAAGGAAAAAATGAAAAAATGAAAAAAA
1 AAGAAAAAAAAGAAAAAATGAAAAAATGAAAAAAA
*
16976602 AAGAAAAAAAAGAAGAAAA-GAAAGAAA-GAAAGAAA
1 AAGAAAAAAAAGAA-AAAATGAAA-AAATGAAAAAAA
16976637 AAG
1 AAG
16976640 GGGATGGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 26 0.79
36 7 0.21
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (35 bp):
AAGAAAAAAAAGAAAAAATGAAAAAATGAAAAAAA
Found at i:16978998 original size:29 final size:30
Alignment explanation
Indices: 16978962--16979030 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
16978952 TTAATAATAT
*
16978962 TTAAATTTTTTATATTTTATTATAA-TCAA
1 TTAAATTTTTTATATTTTATTATAATTAAA
* *
16978991 TTAAATTTTTTATTTTTTATTTTAATTAAA
1 TTAAATTTTTTATATTTTATTATAATTAAA
*
16979021 TTGAATTTTT
1 TTAAATTTTT
16979031 AAATAGATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 23 0.66
30 12 0.34
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (30 bp):
TTAAATTTTTTATATTTTATTATAATTAAA
Found at i:16979031 original size:29 final size:29
Alignment explanation
Indices: 16978953--16979030 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
16978943 AACTATAATT
16978953 TAATAATATTTAAATTTTTTATATTTTATTA
1 TAATAA-A-TTAAATTTTTTATATTTTATTA
* * *
16978984 TAATCAATTAAATTTTTTATTTTTTATTT
1 TAATAAATTAAATTTTTTATATTTTATTA
*
16979013 TAATTAAATTGAATTTTT
1 TAA-TAAATTAAATTTTT
16979031 AAATAGATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 23 0.56
30 13 0.32
31 5 0.12
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
TAATAAATTAAATTTTTTATATTTTATTA
Found at i:16992167 original size:7 final size:7
Alignment explanation
Indices: 16992155--16992184 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
16992145 AATTATAAAA
16992155 ATATTTT
1 ATATTTT
16992162 ATATTTT
1 ATATTTT
16992169 AATATTTT
1 -ATATTTT
16992177 ATATTTT
1 ATATTTT
16992184 A
1 A
16992185 AAAAATGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATATTTT
Found at i:16992174 original size:15 final size:15
Alignment explanation
Indices: 16992154--16992185 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16992144 TAATTATAAA
16992154 AATATTTTATATTTT
1 AATATTTTATATTTT
16992169 AATATTTTATATTTT
1 AATATTTTATATTTT
16992184 AA
1 AA
16992186 AAAATGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTTTATATTTT
Found at i:16994318 original size:22 final size:21
Alignment explanation
Indices: 16994275--16994327 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 21
16994265 GAAATCTCCC
* * *
16994275 TTTTTTTGTTTTTGTTTTTTT
1 TTTTTTTATTTTTGTATCTTT
16994296 TTTTTTTAATTTTTGTATCTTT
1 TTTTTTT-ATTTTTGTATCTTT
* *
16994318 TGTTTCTATT
1 TTTTTTTATT
16994328 GTGATTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.81
Consensus pattern (21 bp):
TTTTTTTATTTTTGTATCTTT
Found at i:16997244 original size:17 final size:20
Alignment explanation
Indices: 16997220--16997267 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
16997210 TCCTAAAAAT
16997220 TCAAACCTTAAAACC-CT-C
1 TCAAACCTTAAAACCTCTAC
16997238 T-AAACCTTCAAAACCTCTAC
1 TCAAACCTT-AAAACCTCTAC
16997258 TCAAACCTTA
1 TCAAACCTTA
16997268 CTCAAAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.27
18 7 0.27
19 2 0.08
20 3 0.12
21 7 0.27
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (20 bp):
TCAAACCTTAAAACCTCTAC
Found at i:16997271 original size:11 final size:12
Alignment explanation
Indices: 16997245--16997278 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
16997235 CTCTAAACCT
16997245 TCAAAACCTCTAC
1 TCAAAACCT-TAC
16997258 TC-AAACCTTAC
1 TCAAAACCTTAC
16997269 TCAAAACCTT
1 TCAAAACCTT
16997279 CTAACAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 13 0.65
13 2 0.10
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (12 bp):
TCAAAACCTTAC
Found at i:17009794 original size:109 final size:109
Alignment explanation
Indices: 17009671--17010610 Score: 1150
Period size: 109 Copynumber: 8.6 Consensus size: 109
17009661 TCGATCATCG
* *
17009671 TTAATCTTTGACTCGTGGTTTAATCCCGATAATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* * *
17009736 AGTCGCTTTTATTTCTTTGACTTACGATTCAATCTCAATTATCT
66 AGTCGCTTTTATTTCTTTGACTTATGATTCAGTCTCAGTTATCT
* * ***
17009780 TTAATCTTTAACTCGTGGTTTAATCTCGTTCATTCTTATAGCTTCTCGACTTATAATTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* * ** * * ** *
17009845 AGTCGCTTTTATTTCCTTAACTTGCGGTTCAGTC-CCGATCGTCG
66 AGTCGCTTTTATTTCTTTGACTTATGATTCAGTCTCAG-TTATCT
* * *
17009889 TTAATCTTTGACTCATGGTTTAATCTCGATCATTCTTATAGCTTTTTGACTTACGGTTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* *
17009954 AGTCGCTTTTATTTTTTTGACTTATGGTTCAGTCTCAGTTATCT
66 AGTCGCTTTTATTTCTTTGACTTATGATTCAGTCTCAGTTATCT
* * * * *
17009998 TTAATCTTTAACTCGTGGTTTAATCACGTTCATTCTTATAGCTTCTCTACTTACGGTTTAATCAT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* * * * * * ** *
17010063 AATCACTTTTATTTCTTTGATTTATGGTTCAGTCCCAATCGTCG
66 AGTCGCTTTTATTTCTTTGACTTATGATTCAGTCTCAGTTATCT
* * * * * *
17010107 TTAATCTTTGACTCGTGATTTAATCCCGATCATTCTTATAGTTTTTCGACTTACAGTTTAATCAT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* *
17010172 AGTCACTTTTATTTCTTTGACTTATGGTTCAGTCTCAGTTATCT
66 AGTCGCTTTTATTTCTTTGACTTATGATTCAGTCTCAGTTATCT
* * *
17010216 TTAATCTTTGATTCGTGGTTTAATCTCGTTCATTCTTATAGCTTCTCGACTTACAGTTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* * * * * * *
17010281 AGTCGCTTTTGTTTTTTTGACTTACGATTCAGTCCCGGTCATCG
66 AGTCGCTTTTATTTCTTTGACTTATGATTCAGTCTCAGTTATCT
* * * *
17010325 TTAATCTTTGACTCGTTGTTCAATCTCGATTATTCTTATAGCTTTTCGACTTACGGTTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* * *
17010390 AGTCACTTTTATTTCTTTGACTTGTGATTCAATCTCAGTTATCT
66 AGTCGCTTTTATTTCTTTGACTTATGATTCAGTCTCAGTTATCT
* * *
17010434 TTAATCTTTGACTCGTGGTTTATTCTTGATCATTCTTATAGCTTCTTGACTTACGGTTTAATCCT
1 TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
* * *
17010499 AGTTGCTTTTATTTCTCTGACTAATGATTCAGTC-CTAGTTATCT
66 AGTCGCTTTTATTTCTTTGACTTATGATTCAGTCTC-AGTTATCT
* * * * *
17010543 TTAATCTTTGACTCATGGTTTAATC-CTGATCATTTTTATAG-TTTTTGAATTACGGTTTAATCC
1 TTAATCTTTGACTCGTGGTTTAATCTC-GATCATTCTTATAGCTTCTCGACTTACGGTTTAATCC
*
17010606 CAGTC
65 TAGTC
17010611 TCCTTATTTT
Statistics
Matches: 707, Mismatches: 120, Indels: 9
0.85 0.14 0.01
Matches are distributed among these distances:
108 25 0.04
109 680 0.96
110 2 0.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (109 bp):
TTAATCTTTGACTCGTGGTTTAATCTCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT
AGTCGCTTTTATTTCTTTGACTTATGATTCAGTCTCAGTTATCT
Found at i:17010010 original size:218 final size:218
Alignment explanation
Indices: 17009632--17010610 Score: 1282
Period size: 218 Copynumber: 4.5 Consensus size: 218
17009622 GTTATGGTTA
* * * **
17009632 CTTTTATTTCCTTGAATTGTGGTTCAATTTCGATCATCGTTAATCTTTGACTCGTGGTTTAATCC
1 CTTTTATTTCCTTGACTTATGGTTCAGTCCCGATCATCGTTAATCTTTGACTCGTGGTTTAATCC
* * * * *
17009697 CGATAATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCGCTTTTATTTCTTTGACTTACG
66 CGATCATTCTTATAGCTTTTTGACTTACGGTTTAATCCTAGTCACTTTTATTTCTTTGACTTATG
*
17009762 ATTCAATCTCAATTATCTTTAATCTTTAACTCGTGGTTTAATCTCGTTCATTCTTATAGCTTCTC
131 ATTCAATCTCAGTTATCTTTAATCTTTAACTCGTGGTTTAATCTCGTTCATTCTTATAGCTTCTC
* *
17009827 GACTTATAATTTAATCCTAGTCG
196 GACTTACAGTTTAATCCTAGTCG
* ** * * *
17009850 CTTTTATTTCCTTAACTTGCGGTTCAGTCCCGATCGTCGTTAATCTTTGACTCATGGTTTAATCT
1 CTTTTATTTCCTTGACTTATGGTTCAGTCCCGATCATCGTTAATCTTTGACTCGTGGTTTAATCC
* *
17009915 CGATCATTCTTATAGCTTTTTGACTTACGGTTTAATCCTAGTCGCTTTTATTTTTTTGACTTATG
66 CGATCATTCTTATAGCTTTTTGACTTACGGTTTAATCCTAGTCACTTTTATTTCTTTGACTTATG
* * *
17009980 GTTCAGTCTCAGTTATCTTTAATCTTTAACTCGTGGTTTAATCACGTTCATTCTTATAGCTTCTC
131 ATTCAATCTCAGTTATCTTTAATCTTTAACTCGTGGTTTAATCTCGTTCATTCTTATAGCTTCTC
* * * * *
17010045 TACTTACGGTTTAATCATAATCA
196 GACTTACAGTTTAATCCTAGTCG
* * * * *
17010068 CTTTTATTTCTTTGATTTATGGTTCAGTCCCAATCGTCGTTAATCTTTGACTCGTGATTTAATCC
1 CTTTTATTTCCTTGACTTATGGTTCAGTCCCGATCATCGTTAATCTTTGACTCGTGGTTTAATCC
* *
17010133 CGATCATTCTTATAG-TTTTTCGACTTACAGTTTAATCATAGTCACTTTTATTTCTTTGACTTAT
66 CGATCATTCTTATAGCTTTTT-GACTTACGGTTTAATCCTAGTCACTTTTATTTCTTTGACTTAT
* * * *
17010197 GGTTCAGTCTCAGTTATCTTTAATCTTTGATTCGTGGTTTAATCTCGTTCATTCTTATAGCTTCT
130 GATTCAATCTCAGTTATCTTTAATCTTTAACTCGTGGTTTAATCTCGTTCATTCTTATAGCTTCT
17010262 CGACTTACAGTTTAATCCTAGTCG
195 CGACTTACAGTTTAATCCTAGTCG
* ** * * * * * *
17010286 CTTTTGTTTTTTTGACTTACGATTCAGTCCCGGTCATCGTTAATCTTTGACTCGTTGTTCAATCT
1 CTTTTATTTCCTTGACTTATGGTTCAGTCCCGATCATCGTTAATCTTTGACTCGTGGTTTAATCC
* * *
17010351 CGATTATTCTTATAGCTTTTCGACTTACGGTTTAATCCTAGTCACTTTTATTTCTTTGACTTGTG
66 CGATCATTCTTATAGCTTTTTGACTTACGGTTTAATCCTAGTCACTTTTATTTCTTTGACTTATG
* * * * *
17010416 ATTCAATCTCAGTTATCTTTAATCTTTGACTCGTGGTTTATTCTTGATCATTCTTATAGCTTCTT
131 ATTCAATCTCAGTTATCTTTAATCTTTAACTCGTGGTTTAATCTCGTTCATTCTTATAGCTTCTC
* *
17010481 GACTTACGGTTTAATCCTAGTTG
196 GACTTACAGTTTAATCCTAGTCG
* * * * * *
17010504 CTTTTATTT-CTCTGACTAATGATTCAGT-CCTAGTTATCTTTAATCTTTGACTCATGGTTTAAT
1 CTTTTATTTCCT-TGACTTATGGTTCAGTCCCGA-TCATCGTTAATCTTTGACTCGTGGTTTAAT
* * * *
17010567 CCTGATCATTTTTATAG-TTTTTGAATTACGGTTTAATCCCAGTC
64 CCCGATCATTCTTATAGCTTTTTGACTTACGGTTTAATCCTAGTC
17010611 TCCTTATTTT
Statistics
Matches: 667, Mismatches: 90, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
217 32 0.05
218 631 0.95
219 4 0.01
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (218 bp):
CTTTTATTTCCTTGACTTATGGTTCAGTCCCGATCATCGTTAATCTTTGACTCGTGGTTTAATCC
CGATCATTCTTATAGCTTTTTGACTTACGGTTTAATCCTAGTCACTTTTATTTCTTTGACTTATG
ATTCAATCTCAGTTATCTTTAATCTTTAACTCGTGGTTTAATCTCGTTCATTCTTATAGCTTCTC
GACTTACAGTTTAATCCTAGTCG
Found at i:17010925 original size:135 final size:133
Alignment explanation
Indices: 17010712--17011120 Score: 512
Period size: 135 Copynumber: 3.0 Consensus size: 133
17010702 TTAATCTTGA
* * ** * *
17010712 TTGACGTTATTCTGACTCACGGTTCAATCTTAATTTTTTTTTAATCCAAAATCGTAGGTTAATCT
1 TTGATGTTATTCTGACTCACAGTTCAATCTCGA--TTTTTTTAATCCAAAATCGCAGTTTAATCT
* * **
17010777 CGATTATCTTTATTTACTAACTCATGGTTTAATCTCAGTCTCTTTATTTTTTGACTTGTGATTCA
64 CAATTGT-TTTATTTTTTAACTCATGGTTTAATC-CAGTCTCTTTATTTTTTGACTTGTGATTCA
17010842 ATCCAAG
127 ATCCAAG
*
17010849 TTGATGTTATTCTGACTCACAGTTCAATCTCGATTTCTTTAATCCAAAATCGCAGTTTAATCTCA
1 TTGATGTTATTCTGACTCACAGTTCAATCTCGATTTTTTTAATCCAAAATCGCAGTTTAATCTCA
* * * * *
17010914 ATTGTTGTTATTTTTTTACTCATGGTTTAATCCTGGTCTCTTTATTTTCTAACTAGTGATTCAAT
66 ATTGTT-TTATTTTTTAACTCATGGTTTAATCC-AGTCTCTTTATTTTTTGACTTGTGATTCAAT
17010979 CCAAG
129 CCAAG
** *
17010984 TTGATGTTATTCTGACTTGCAGTTCAATCTCGATTTTTTTAATCCAAAATCGCAGTTTAGTCTCA
1 TTGATGTTATTCTGACTCACAGTTCAATCTCGATTTTTTTAATCCAAAATCGCAGTTTAATCTCA
* * * * * *
17011049 ATTGTTATTTTTTTTTGACTCGTGATTTAATCCCGATCTCTTTATATTTTGACTTGTGATTCAAT
66 ATTGTT-TTATTTTTTAACTCATGGTTTAATCCAG-TCTCTTTATTTTTTGACTTGTGATTCAAT
*
17011114 CTAAG
129 CCAAG
17011119 TT
1 TT
17011121 CAATTCTGAT
Statistics
Matches: 238, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
134 3 0.01
135 206 0.87
137 29 0.12
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.46
Consensus pattern (133 bp):
TTGATGTTATTCTGACTCACAGTTCAATCTCGATTTTTTTAATCCAAAATCGCAGTTTAATCTCA
ATTGTTTTATTTTTTAACTCATGGTTTAATCCAGTCTCTTTATTTTTTGACTTGTGATTCAATCC
AAG
Found at i:17011480 original size:17 final size:18
Alignment explanation
Indices: 17011460--17011494 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17011450 TAAAATTGAT
17011460 TTAATTAA-AATTAAAAA
1 TTAATTAATAATTAAAAA
*
17011477 TTAATTAATTATTAAAAA
1 TTAATTAATAATTAAAAA
17011495 AATAGAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTAATAATTAAAAA
Found at i:17012278 original size:27 final size:24
Alignment explanation
Indices: 17012240--17012294 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 24
17012230 CTATCAATAG
*
17012240 CCAAAACAACGTCGTTTCAATAAACAC
1 CCAAAACAACGTCATTT---TAAACAC
*
17012267 CCAAAACGACGTCATTTTAAACAC
1 CCAAAACAACGTCATTTTAAACAC
17012291 CCAA
1 CCAA
17012295 GATCCGTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 11 0.42
27 15 0.58
ACGTcount: A:0.44, C:0.31, G:0.07, T:0.18
Consensus pattern (24 bp):
CCAAAACAACGTCATTTTAAACAC
Found at i:17012502 original size:13 final size:13
Alignment explanation
Indices: 17012468--17012502 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
17012458 GTTGAACCGC
17012468 ACCCGAACCGTCG
1 ACCCGAACCGTCG
* *
17012481 AACCAAACCGTCG
1 ACCCGAACCGTCG
17012494 ACCCGAACC
1 ACCCGAACC
17012503 ACCATTGACC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.46, G:0.17, T:0.06
Consensus pattern (13 bp):
ACCCGAACCGTCG
Found at i:17013065 original size:30 final size:29
Alignment explanation
Indices: 17013030--17013087 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
17013020 TAAAACCCTT
* * *
17013030 AAAATCCGAAATCCTTTAAATCCAAACCCC
1 AAAATCCAAAATCCCTAAAAT-CAAACCCC
17013060 AAAATCCAAAATCCCTAAAATCAAACCC
1 AAAATCCAAAATCCCTAAAATCAAACCC
17013088 TTATATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (29 bp):
AAAATCCAAAATCCCTAAAATCAAACCCC
Found at i:17013081 original size:16 final size:15
Alignment explanation
Indices: 17013029--17013081 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
17013019 CTAAAACCCT
*
17013029 TAAAATCCGAAATCCT
1 TAAAATCC-AAATCCC
*
17013045 TTAAATCCAAA-CCC
1 TAAAATCCAAATCCC
*
17013059 CAAAATCCAAAATCCC
1 TAAAATCC-AAATCCC
17013075 TAAAATC
1 TAAAATC
17013082 AAACCCTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 8 0.27
15 6 0.20
16 16 0.53
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (15 bp):
TAAAATCCAAATCCC
Found at i:17013120 original size:14 final size:15
Alignment explanation
Indices: 17013094--17013127 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17013084 ACCCTTATAT
17013094 CAAAACCCCAAACCC
1 CAAAACCCCAAACCC
17013109 CAAAA-CCCAAACCC
1 CAAAACCCCAAACCC
*
17013123 TAAAA
1 CAAAA
17013128 TCTCTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.53, C:0.44, G:0.00, T:0.03
Consensus pattern (15 bp):
CAAAACCCCAAACCC
Found at i:17013239 original size:12 final size:12
Alignment explanation
Indices: 17013214--17013248 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
17013204 AACCAAACCT
17013214 TCAAAACCTCTAC
1 TCAAAACCT-TAC
*
17013227 TCAAACCCTTAC
1 TCAAAACCTTAC
17013239 TCAAAACCTT
1 TCAAAACCTT
17013249 CTGAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (12 bp):
TCAAAACCTTAC
Found at i:17019676 original size:14 final size:14
Alignment explanation
Indices: 17019653--17019682 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17019643 TTTATTAAGT
17019653 CTTATATAAATAAA
1 CTTATATAAATAAA
*
17019667 CTTATTTAAATAAA
1 CTTATATAAATAAA
17019681 CT
1 CT
17019683 CAATATATAT
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:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
CTTATATAAATAAA
Found at i:17019692 original size:2 final size:2
Alignment explanation
Indices: 17019685--17019724 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
17019675 AATAAACTCA
*
17019685 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17019725 TAGGCAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17025387 original size:4 final size:4
Alignment explanation
Indices: 17025378--17025407 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
17025368 TGACTCGATC
17025378 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
17025408 GGGTTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:17025911 original size:27 final size:27
Alignment explanation
Indices: 17025869--17025933 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
17025859 TGGTGGCTTG
*
17025869 TACACTGGTGGTTTCTTGGGAGGTTCA
1 TACACTGGTGGCTTCTTGGGAGGTTCA
*
17025896 TACACTGGTGGCTTCTTTGGAGGTTCA
1 TACACTGGTGGCTTCTTGGGAGGTTCA
17025923 TACACTGGTGG
1 TACACTGGTGG
17025934 TTTGGGTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.15, C:0.17, G:0.32, T:0.35
Consensus pattern (27 bp):
TACACTGGTGGCTTCTTGGGAGGTTCA
Found at i:17026065 original size:102 final size:102
Alignment explanation
Indices: 17025889--17026389 Score: 770
Period size: 102 Copynumber: 4.9 Consensus size: 102
17025879 GTTTCTTGGG
17025889 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
17025954 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
66 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
* * * * *
17025991 AGGTTCGTATACTGGTGGTTTCTTTGGAGGTTCATATACTGGTGGCTTGGGTTCTGGCTTCTCTT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
* * *
17026056 TTTTTGGAGGTGCATAAACAGGTGGTTTTGGTGGCTT
66 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
* * * *
17026093 AGGTTCATACACAGGAGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGCTCTGGCTTCTCCT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
17026158 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
66 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
* * *
17026195 AGGTTCATACACTGGAGGCTTCTTTGGAGGTTCATAAACTGGAGGTTTGGGTTCTGGCTTCTCTT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
*
17026260 T-TTTCGGTGGTGCATAAACTGGTGGCTTTGGTGGCTT
66 TCTTT-GGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
* * * * * *
17026297 AGGCTCATAAACTGGTGGTTTCTTGGGAGGTTCATATACTGGTGGCTTGGGTTCTGGCTTCTCTT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
* *
17026362 TCTTTGGAGGTGTATAAACTGGGGGCTT
66 TCTTTGGAGGTGCATAAACTGGTGGCTT
17026390 AGGTTCTGGC
Statistics
Matches: 360, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
101 3 0.01
102 354 0.98
103 3 0.01
ACGTcount: A:0.14, C:0.16, G:0.32, T:0.39
Consensus pattern (102 bp):
AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
Found at i:17026235 original size:27 final size:27
Alignment explanation
Indices: 17026156--17026239 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 27
17026146 CTGGCTTCTC
* *
17026156 CTTCTTTGGAGGTGCATAAACTGGTGG
1 CTTCTTTGGAGGTTCATAAACTGGAGG
* *
17026183 CTT-TGGTGGCTTAGGTTCATACACTGGAGG
1 CTTCT-TTGG---AGGTTCATAAACTGGAGG
17026213 CTTCTTTGGAGGTTCATAAACTGGAGG
1 CTTCTTTGGAGGTTCATAAACTGGAGG
17026240 TTTGGGTTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
26 1 0.02
27 23 0.50
30 21 0.46
31 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.33
Consensus pattern (27 bp):
CTTCTTTGGAGGTTCATAAACTGGAGG
Found at i:17026431 original size:45 final size:45
Alignment explanation
Indices: 17026315--17026434 Score: 170
Period size: 45 Copynumber: 2.7 Consensus size: 45
17026305 AAACTGGTGG
* * *
17026315 TTTCTTGGGAGGTTCATATACTGGTGGCTTGGGTTCTGGCTTCTC
1 TTTCTTCGGAGGTTCATATACTGGGGGCTTAGGTTCTGGCTTCTC
* *
17026360 TTTCTTTGGAGGTGT-ATAAACTGGGGGCTTAGGTTCTGGCTTCTC
1 TTTCTTCGGAGGT-TCATATACTGGGGGCTTAGGTTCTGGCTTCTC
*
17026405 TTTCTTCGGAGGTTCATATACGGGGGGCTT
1 TTTCTTCGGAGGTTCATATACTGGGGGCTT
17026435 GGGTGGGTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.02
45 64 0.97
46 1 0.02
ACGTcount: A:0.12, C:0.17, G:0.32, T:0.40
Consensus pattern (45 bp):
TTTCTTCGGAGGTTCATATACTGGGGGCTTAGGTTCTGGCTTCTC
Found at i:17027443 original size:6 final size:6
Alignment explanation
Indices: 17027432--17027457 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17027422 TATAAAAATA
17027432 TTATAT TTATAT TTATAT TTATAT TT
1 TTATAT TTATAT TTATAT TTATAT TT
17027458 GCATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTATAT
Found at i:17027705 original size:14 final size:14
Alignment explanation
Indices: 17027688--17027718 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17027678 TCTCTTTTTT
17027688 AAATATATTTTATA
1 AAATATATTTTATA
*
17027702 AAATATGTTTTATA
1 AAATATATTTTATA
17027716 AAA
1 AAA
17027719 AGAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
AAATATATTTTATA
Done.