Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 60 of 210
Found at i:18089328 original size:33 final size:33
Alignment explanation
Indices: 18089291--18089431 Score: 101
Period size: 33 Copynumber: 4.3 Consensus size: 33
18089281 GACTGTTGGG
*
18089291 GGGTGATGTTGAAGAGGTAGAAGTTGATGAGGA
1 GGGTGATGTTGAAGAGGTAGAAGTTGATGGGGA
* * *
18089324 GGGTGATGATGAATG-GGTAGAA-TCTAATGGTGA
1 GGGTGATGTTGAA-GAGGTAGAAGT-TGATGGGGA
** * * * *
18089357 AAGTGAT-CTGAAAATGGTAGAATTTGTTGGGGA
1 GGGTGATGTTGAAGA-GGTAGAAGTTGATGGGGA
* * * *
18089390 GGGTGATGTAGAAGGGGTACAAGCTGATGGGGA
1 GGGTGATGTTGAAGAGGTAGAAGTTGATGGGGA
18089423 GGGTG-TGTT
1 GGGTGATGTT
18089432 TGCTACTGGT
Statistics
Matches: 80, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
32 8 0.10
33 67 0.84
34 5 0.06
ACGTcount: A:0.28, C:0.03, G:0.43, T:0.26
Consensus pattern (33 bp):
GGGTGATGTTGAAGAGGTAGAAGTTGATGGGGA
Found at i:18089604 original size:51 final size:51
Alignment explanation
Indices: 18089528--18089634 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
18089518 ATAGTGAAAT
* *
18089528 TGTTGTTGATGAATATGTTGGTGATTTTGTAACATCAGATGAAGTGGATAA
1 TGTTGTTGATGAATATGCTGGTGATTTTGCAACATCAGATGAAGTGGATAA
* *
18089579 TGTTGTTGATGAATATGCTGGTGATTTTGCAACATTAGATGGAGTGGATAA
1 TGTTGTTGATGAATATGCTGGTGATTTTGCAACATCAGATGAAGTGGATAA
18089630 TGTTG
1 TGTTG
18089635 CTGTTGCTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.27, C:0.05, G:0.29, T:0.39
Consensus pattern (51 bp):
TGTTGTTGATGAATATGCTGGTGATTTTGCAACATCAGATGAAGTGGATAA
Found at i:18104542 original size:24 final size:24
Alignment explanation
Indices: 18104514--18104562 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
18104504 AAAGCTTTTG
*
18104514 ACTTATTTATTTGTATTAAAAATA
1 ACTTATTTATTAGTATTAAAAATA
18104538 ACTTATTTATTAGTATTAAAAATA
1 ACTTATTTATTAGTATTAAAAATA
18104562 A
1 A
18104563 TTTCTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
ACTTATTTATTAGTATTAAAAATA
Found at i:18106912 original size:23 final size:23
Alignment explanation
Indices: 18106886--18106930 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18106876 ATATATTAGA
18106886 GTTGA-TATAAAAGTAATATATTT
1 GTTGAGTATAAAA-TAATATATTT
* *
18106909 GTTGAGTATTAAATAATTTATT
1 GTTGAGTATAAAATAATATATT
18106931 GACTGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (23 bp):
GTTGAGTATAAAATAATATATTT
Found at i:18117538 original size:7 final size:7
Alignment explanation
Indices: 18117528--18117560 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
18117518 CCGGGAAATA
18117528 GGAAGTT
1 GGAAGTT
18117535 GGAAGTT
1 GGAAGTT
18117542 GGAAGTT
1 GGAAGTT
18117549 GGAAGTT
1 GGAAGTT
18117556 GGAAG
1 GGAAG
18117561 AAACCGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.24
Consensus pattern (7 bp):
GGAAGTT
Found at i:18118515 original size:125 final size:123
Alignment explanation
Indices: 18118193--18118569 Score: 592
Period size: 125 Copynumber: 3.0 Consensus size: 123
18118183 TTAGGGTTTT
* ** * *
18118193 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTT--TTTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * *
18118258 AGGATACTATTTGAGAAGAATTTATGAAATCGCGCCCTAGTGGACGCGCTTTTGCTACAG
64 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
18118318 TAGGTCATGGAAAAAATAATTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
1 TAGGTCATGGAAGAAATAATTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
**
18118383 GATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGATACGCTTTTGCTACAG
66 GATGCTATTTGAGAAGAATTTGTG-AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
18118442 TAGGTCATGGAAGAAATAAATTTTTTTGACATTTCTGAGCAAATAGTACAAAATCGCTTCTAGCA
1 TAGGTCATGGAAGAAAT-AATTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
*
18118507 GGATGCTATTTGAGAAGATTTTGTGGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
65 GGATGCTATTTGAGAAGAATTTGT-GAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
18118567 TAG
1 TAG
18118570 CATGTTTGGG
Statistics
Matches: 233, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
123 61 0.26
124 47 0.20
125 124 0.53
126 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (123 bp):
TAGGTCATGGAAGAAATAATTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
GATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:18128443 original size:45 final size:46
Alignment explanation
Indices: 18128389--18128499 Score: 197
Period size: 46 Copynumber: 2.4 Consensus size: 46
18128379 ATCACTTGTC
*
18128389 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
18128434 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
18128480 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
18128500 CACTTATCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 21 0.33
46 42 0.67
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
Found at i:18128482 original size:46 final size:45
Alignment explanation
Indices: 18128376--18128610 Score: 236
Period size: 37 Copynumber: 5.6 Consensus size: 45
18128366 CATATGACCT
*
18128376 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
18128419 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
18128465 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
18128502 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
** *
18128539 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
18128585 CTTATCACTTTTGTCACTTGATCAGA
1 CTTATCAC-TTTGTCACTTGATCAGA
18128611 AGTACTCAAA
Statistics
Matches: 169, Mismatches: 9, Indels: 24
0.84 0.04 0.12
Matches are distributed among these distances:
37 64 0.38
39 2 0.01
40 3 0.02
41 1 0.01
42 1 0.01
43 10 0.06
44 5 0.03
45 21 0.12
46 47 0.28
47 15 0.09
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:18130323 original size:17 final size:17
Alignment explanation
Indices: 18130256--18130323 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
18130246 TATGTGAATG
*
18130256 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
18130272 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
18130291 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
18130310 TAAAATTATTAATT
1 TAAAATTATTAATT
18130324 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:18130411 original size:23 final size:22
Alignment explanation
Indices: 18130379--18130940 Score: 339
Period size: 23 Copynumber: 25.1 Consensus size: 22
18130369 AAGTAAAATT
*
18130379 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
18130402 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
18130425 AGTTAA--GGGTTAGAGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
18130446 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
18130468 AGTTAA--GGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
18130489 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
18130512 AGTTAATTAGGTTTGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
18130535 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* * *
18130558 AGT--TTAGGGTTTAAGGTCTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
18130580 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
18130603 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
18130626 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
18130648 ATTAA--A--TTAGGGGTTTTTA
1 ATTAATTAGGTTA-GGGTTTTTA
* *
18130667 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
18130689 ATTTAATTAGGTTGGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
18130712 ATTTAATTAGGTTAGTGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* * *
18130735 AGT--TTAGGGTTTATGTTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
18130757 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
**
18130780 AGTTAA-GGGGTTAGGGTTTTTTA
1 A-TTAATTAGGTTAGGG-TTTTTA
* *
18130803 AGT--TTAGGGTTTAGGGTTTGTA
1 ATTAATTA-GG-TTAGGGTTTTTA
18130825 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
18130848 AGT--TTAGAGTTTAGGGTTTTTA
1 ATTAATTAG-G-TTAGGGTTTTTA
*
18130870 AGTTAATTAGGTTAGGGTTTTAA
1 A-TTAATTAGGTTAGGGTTTTTA
**
18130893 AGTTAA-GGGGTTAGGGTTTTTTA
1 A-TTAATTAGGTTAGGG-TTTTTA
*
18130916 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
18130938 ATT
1 ATT
18130941 TAATGGTTAG
Statistics
Matches: 428, Mismatches: 60, Indels: 103
0.72 0.10 0.17
Matches are distributed among these distances:
18 3 0.01
19 12 0.03
20 11 0.03
21 41 0.10
22 112 0.26
23 220 0.51
24 13 0.03
25 16 0.04
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (22 bp):
ATTAATTAGGTTAGGGTTTTTA
Found at i:18130800 original size:45 final size:43
Alignment explanation
Indices: 18130390--18130950 Score: 405
Period size: 45 Copynumber: 12.6 Consensus size: 43
18130380 TTAATTTAGT
* *
18130390 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAATTTAA--GGGTTAGGGTTTTTAAGTTAATGGG
*
18130434 TTAGAGTTTTTAAGTTT-AGGGTTTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAA-TTTAAGGG-TTAGGGTTTTTAAGTTAATGGG
* *
18130477 TTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAATTTAA--GGGTTAGGGTTTTTAAGTTAA-TGGG
* * *
18130523 TTTGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTA-GGG
1 TTAGGGTTTTTAATTTAA--GGGTTAGGGTTTTTAAGTTAATGGG
* * * * *
18130567 TTTAAGGTCTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGG
1 -TTAGGGTTTTTAATTTAA--GGGTTAGGGTTTTTAAGTTAA-TGGG
*
18130614 TTAGGGTTTTTAAGTTT-AGGGTTTAGGGTTTTTAA-TTAA---A
1 TTAGGGTTTTTAA-TTTAAGGG-TTAGGGTTTTTAAGTTAATGGG
* * *
18130654 TTAGGGGTTTTTAAGTTT-AGGGTTTAAGGTTTTTAATTTAATTAGG
1 TTA-GGGTTTTTAA-TTTAAGGG-TTAGGGTTTTTAAGTTAA-TGGG
* * * *
18130700 TTGGGGTTTTTAATTTAATTAGGTTAGTGTTTTTAAGTTTA-GGG
1 TTAGGGTTTTTAATTTAA--GGGTTAGGGTTTTTAAGTTAATGGG
* * * *
18130744 TTTATGTTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGG
1 -TTAGGGTTTTTAATTTAA--GGGTTAGGGTTTTTAAGTTAATGGG
* *
18130790 TTAGGGTTTTTTAAGTTT-AGGGTTTAGGGTTTGTAA-TTAAATTAGG
1 TTAGGG-TTTTTAA-TTTAAGGG-TTAGGGTTTTTAAGTT-AA-TGGG
* *
18130836 TTAGGGTTTTTAAGTTT-AGAGTTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAA-TTTAAG-GGTTAGGGTTTTTAAGTTAA-TGGG
* * *
18130881 TTAGGGTTTTAAAGTTAAGGGGTTAGGGTTTTTTAAGTTTA-GGG
1 TTAGGGTTTTTAATTTAA-GGGTTAGGG-TTTTTAAGTTAATGGG
*
18130925 TTTAGGGTTTTTAATTTAATGGTTAG
1 -TTAGGGTTTTTAATTTAAGGGTTAG
18130951 TAGAATTCTA
Statistics
Matches: 430, Mismatches: 53, Indels: 68
0.78 0.10 0.12
Matches are distributed among these distances:
40 3 0.01
41 31 0.07
42 8 0.02
43 34 0.08
44 58 0.13
45 183 0.43
46 103 0.24
47 10 0.02
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (43 bp):
TTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAATGGG
Found at i:18130914 original size:68 final size:68
Alignment explanation
Indices: 18130387--18130944 Score: 421
Period size: 68 Copynumber: 8.3 Consensus size: 68
18130377 TTATTAATTT
*
18130387 AGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAA--GGGTTAGAGTTTTTAAGT
1 AGTTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAATGGGGTTAGGGTTTTTAAGT
18130449 TTAG
65 TTAG
* * *
18130453 GGTTTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTT
1 AGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAATGGGGTTAGGGTTTTTAAG-T
18130516 AATTAG
65 --TTAG
*** * * * *
18130522 -GTTT-GGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTA-GGGTTTAAGGTCTTTAA-TT
1 AGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAATGGGGTTAGGGTTTTTAAGTT
*
18130583 TAATT
66 T-A-G
* * * *
18130588 AGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTA-GGGTTTAGGGTTTTTAA--T
1 AGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAATGGGGTTAGGGTTTTTAAGTT
18130650 TA-
66 TAG
* * * ** *
18130652 A-ATTAGGGGTTTTTAAG-T--TTAGGGTTTAAGGTTTTTAATTTAATTAGGTTGGGGTTTTTAA
1 AGTTTA-GGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGTTAATGGGGTTAGGGTTTTTAA
*
18130713 -TTTAATT
63 GTTT-A-G
* * * * * **
18130720 AGGTTAGTGTTTTTAAG-T--TTAGGGTTTATGTTTTTTAATTTAATTAGGTTAGGGTTTTTAAG
1 AGTTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGTTAATGGGGTTAGGGTTTTTAAG
*
18130782 TTAAG
64 TTTAG
* * * **
18130787 GGGTTAGGGTTTTTTAAG-T--TTAGGGTTTAGGGTTTGTAA-TTAAATTAGGTTAGGGTTTTTA
1 AGTTTAGGG-TTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGTT-AATGGGGTTAGGGTTTTTA
18130848 AGTTTAG
62 AGTTTAG
*
18130855 AGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTAAAGTTAA-GGGGTTAGGGTTTTTTAAGT
1 AGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAATGGGGTTAGGG-TTTTTAAGT
18130919 TTAG
65 TTAG
* *
18130923 GGTTTAGGGTTTTTAATTTAAT
1 AGTTTAGGGTTTTTAAGTTAAT
18130945 GGTTAGTAGA
Statistics
Matches: 418, Mismatches: 45, Indels: 56
0.81 0.09 0.11
Matches are distributed among these distances:
61 3 0.01
62 2 0.00
63 19 0.05
64 46 0.11
65 3 0.01
66 36 0.09
67 48 0.11
68 225 0.54
69 33 0.08
70 3 0.01
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (68 bp):
AGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAATGGGGTTAGGGTTTTTAAGTT
TAG
Found at i:18131009 original size:25 final size:25
Alignment explanation
Indices: 18130977--18131024 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
18130967 TATCAAAAAT
*
18130977 TTCTATTTTATTATATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
18131002 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
18131025 TATCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:18132153 original size:7 final size:7
Alignment explanation
Indices: 18132143--18132167 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18132133 TTATATACAT
18132143 AATACTA
1 AATACTA
18132150 AATACTA
1 AATACTA
18132157 AATACTA
1 AATACTA
18132164 AATA
1 AATA
18132168 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:18132374 original size:20 final size:20
Alignment explanation
Indices: 18132336--18132374 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18132326 CTTTTATTTT
*
18132336 TAAAATCTACATAATAATTG
1 TAAAATCTACATAAAAATTG
18132356 TAAAATCTA-ATATAAAATT
1 TAAAATCTACATA-AAAATT
18132375 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATCTACATAAAAATTG
Found at i:18133295 original size:20 final size:19
Alignment explanation
Indices: 18133270--18133308 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18133260 TTTTTACGGT
18133270 TTAAAAAAATTTTAAAAAAA
1 TTAAAAAAA-TTTAAAAAAA
**
18133290 TTAAAATTATTTAAAAAAA
1 TTAAAAAAATTTAAAAAAA
18133309 GGGAGTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAAAATTTAAAAAAA
Found at i:18133330 original size:11 final size:11
Alignment explanation
Indices: 18133314--18133344 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18133304 AAAAAGGGAG
18133314 TTAAGAGAAAC
1 TTAAGAGAAAC
*
18133325 TTAAGAGGAAC
1 TTAAGAGAAAC
18133336 TTAAGAGAA
1 TTAAGAGAA
18133345 TTTTTGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:18136446 original size:73 final size:73
Alignment explanation
Indices: 18136369--18136507 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 73
18136359 CTCATAAGAA
* * *
18136369 CCATA-ATCAGGAAGCTCATGCGAGCCAATAACGGGTAGCTCCGAAGAGCAATTAATTGGGAAGC
1 CCATATATCAGGAAGCTCAAGCGAGCC-ATAACGGGAAGCTCCGAAGAGCAATTAATTAGGAAGC
18136433 TCTGGATAG
65 TCTGGATAG
* * ** * *
18136442 CCATATATCGGGAAGTTCAAGCGAGCCATATTGGGAAGCTCCGGAGAGCTATTAATTAGGAAGCT
1 CCATATATCAGGAAGCTCAAGCGAGCCATAACGGGAAGCTCCGAAGAGCAATTAATTAGGAAGCT
18136507 C
66 C
18136508 ACAAATAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 38 0.68
74 18 0.32
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (73 bp):
CCATATATCAGGAAGCTCAAGCGAGCCATAACGGGAAGCTCCGAAGAGCAATTAATTAGGAAGCT
CTGGATAG
Found at i:18136490 original size:23 final size:23
Alignment explanation
Indices: 18136405--18136490 Score: 64
Period size: 25 Copynumber: 3.6 Consensus size: 23
18136395 AATAACGGGT
* *
18136405 AGCTCCGAAGAGCAATTAATTGGGA
1 AGCTCCGGAGAGCCA-T-ATTGGGA
* *
18136430 AGCTCTGGATAGCCATATATCGGGA
1 AGCTCCGGAGAGCCATAT-T-GGGA
* ** *
18136455 AGTTCAAGCGAGCCATATTGGGA
1 AGCTCCGGAGAGCCATATTGGGA
18136478 AGCTCCGGAGAGC
1 AGCTCCGGAGAGC
18136491 TATTAATTAG
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
23 15 0.33
24 3 0.07
25 28 0.61
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (23 bp):
AGCTCCGGAGAGCCATATTGGGA
Found at i:18140383 original size:13 final size:14
Alignment explanation
Indices: 18140365--18140401 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
18140355 TTACTGCCAC
18140365 GTTTTCGTT-TTCT
1 GTTTTCGTTGTTCT
18140378 GTTTTC-TTGTTCT
1 GTTTTCGTTGTTCT
18140391 -TTTTCGTTGTT
1 GTTTTCGTTGTT
18140402 GGTCATTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.00, C:0.14, G:0.16, T:0.70
Consensus pattern (14 bp):
GTTTTCGTTGTTCT
Found at i:18141131 original size:20 final size:19
Alignment explanation
Indices: 18141106--18141143 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
18141096 ATTTGTCTTG
18141106 AGAATAATAATAAAATATTT
1 AGAATAATAA-AAAATATTT
*
18141126 AGAATAATTAAAAATATT
1 AGAATAATAAAAAATATT
18141144 ATTTAATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AGAATAATAAAAAATATTT
Found at i:18141586 original size:2 final size:2
Alignment explanation
Indices: 18141579--18141620 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18141569 ACGGCTCAAC
18141579 AT AT AT AT AT AT 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 AT
18141621 TAGTTTANNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18142928 original size:28 final size:28
Alignment explanation
Indices: 18142897--18142971 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
18142887 CCTTTTATAG
** **
18142897 ATTTTACAATTTTGCCCATGTTTTTCAA
1 ATTTTACAATTTTGCCCATACTTTAAAA
* *
18142925 ATTTTACCATTTTGTCCCCTACTTTAAAA
1 ATTTTACAATTTTG-CCCATACTTTAAAA
*
18142954 ATTTTACAATTTTACCCA
1 ATTTTACAATTTTGCCCA
18142972 AAATTTTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (28 bp):
ATTTTACAATTTTGCCCATACTTTAAAA
Found at i:18143608 original size:18 final size:18
Alignment explanation
Indices: 18143585--18143620 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18143575 TTTTATTACT
*
18143585 AGTGGTTTATCCACAATG
1 AGTGGTTCATCCACAATG
18143603 AGTGGTTCATCCACAATG
1 AGTGGTTCATCCACAATG
18143621 TGGTGTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (18 bp):
AGTGGTTCATCCACAATG
Found at i:18145456 original size:19 final size:18
Alignment explanation
Indices: 18145432--18145474 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
18145422 ATTTTAATAT
18145432 ATTTAAAG-ATATTTAAAA
1 ATTTAAAGTATA-TTAAAA
18145450 ATATT-AAGTATATTAAAA
1 AT-TTAAAGTATATTAAAA
18145468 ATTTAAA
1 ATTTAAA
18145475 ATTGTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.09
18 15 0.68
19 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
ATTTAAAGTATATTAAAA
Found at i:18145473 original size:89 final size:88
Alignment explanation
Indices: 18145358--18145526 Score: 236
Period size: 89 Copynumber: 1.9 Consensus size: 88
18145348 TACCTATTAA
* * * *
18145358 AAAATATATTAAATATAAAAATTTTAAAATTGGTTATACTTAA-TTTTATTTTAATATGTTTGAA
1 AAAATATATTAAATATAAAAATTTTAAAATTGGTTATACTTAACATTT-TTTTAACATATTTAAA
18145422 ATTTTAATATATTTAAAGATATTT
65 ATTTTAATATATTTAAAGATATTT
*
18145446 AAAA-ATATTAAGTATATTAAAAA-TTTAAAATTGTTTATACTTAACATTTTTTTAACATATTTA
1 AAAATATATTAA--ATA-TAAAAATTTTAAAATTGGTTATACTTAACATTTTTTTAACATATTTA
18145509 AAATTTTAATATATTTAA
63 AAATTTTAATATATTTAA
18145527 TTTTTTTAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
87 7 0.10
88 4 0.06
89 52 0.72
90 9 0.12
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (88 bp):
AAAATATATTAAATATAAAAATTTTAAAATTGGTTATACTTAACATTTTTTTAACATATTTAAAA
TTTTAATATATTTAAAGATATTT
Found at i:18145532 original size:17 final size:17
Alignment explanation
Indices: 18145493--18145532 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
18145483 TACTTAACAT
18145493 TTTTTTAACATATTTAA
1 TTTTTTAACATATTTAA
** *
18145510 AATTTTAATATATTTAA
1 TTTTTTAACATATTTAA
18145527 TTTTTT
1 TTTTTT
18145533 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTAACATATTTAA
Found at i:18145549 original size:17 final size:17
Alignment explanation
Indices: 18145505--18145555 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
18145495 TTTTAACATA
*
18145505 TTTAAAA-TTTTAATATA
1 TTTAAAATTTTTAAT-TT
**
18145522 TTTAATTTTTTTAATTT
1 TTTAAAATTTTTAATTT
*
18145539 TTTAAAATTTTAAATTT
1 TTTAAAATTTTTAATTT
18145556 ATTACAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 20 0.74
18 7 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAAAATTTTTAATTT
Found at i:18145677 original size:17 final size:17
Alignment explanation
Indices: 18145587--18145687 Score: 80
Period size: 17 Copynumber: 5.6 Consensus size: 17
18145577 TTACCCATTA
*
18145587 AAAAATATTAAATATATT
1 AAAAAT-TTTAATATATT
*
18145605 -AAAATTTCAATATATT
1 AAAAATTTTAATATATT
* *
18145621 TAAAATTGTAATATATTTT
1 AAAAATTTTAATATA--TT
*
18145640 ATAAAATATATTGATTATATT
1 A-AAAAT-T-TT-AATATATT
18145661 AAAAATTTTAATATATT
1 AAAAATTTTAATATATT
18145678 -AAAATTTTAA
1 AAAAATTTTAA
18145688 AATTGGTTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
16 20 0.29
17 24 0.35
18 2 0.03
19 3 0.04
20 10 0.14
21 4 0.06
22 1 0.01
23 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (17 bp):
AAAAATTTTAATATATT
Found at i:18145752 original size:68 final size:70
Alignment explanation
Indices: 18145665--18145824 Score: 218
Period size: 70 Copynumber: 2.3 Consensus size: 70
18145655 TATATTAAAA
* * **
18145665 ATTTTAATATATTAAAATTTTAAAATTGGTTACACTTAA-A-TTTTTTAATATATTTCATTTTTT
1 ATTTAAATATATTAAAATTTTAAAATTGGTTACACTTAACATTTTTTTAATATATTTAAAATTTT
18145728 AA-AT
66 AATAT
*
18145732 ATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAACATTTTTTTAATATATTTAAAATTT
1 AT-TTAAATATATTAAAATTTTAAAATTGGTTACACTTAACATTTTTTTAATATATTTAAAATTT
18145797 TAATAT
65 TAATAT
* * *
18145803 ATTTAATTTTTTTAAAATTTTA
1 ATTTAAATATATTAAAATTTTA
18145825 CATATATTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
67 2 0.02
68 35 0.43
69 1 0.01
70 39 0.48
71 4 0.05
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (70 bp):
ATTTAAATATATTAAAATTTTAAAATTGGTTACACTTAACATTTTTTTAATATATTTAAAATTTT
AATAT
Found at i:18145807 original size:9 final size:9
Alignment explanation
Indices: 18145778--18145832 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
18145768 TTAACATTTT
18145778 TTTAATATA
1 TTTAATATA
*
18145787 TTTAAAAT-
1 TTTAATATA
18145795 TTTAATATA
1 TTTAATATA
* *
18145804 TTTAATTTT
1 TTTAATATA
*
18145813 TTTAAAAT-
1 TTTAATATA
18145821 TTTACATATA
1 TTTA-ATATA
18145831 TT
1 TT
18145833 AAGAATTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
8 11 0.31
9 23 0.64
10 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTAATATA
Found at i:18145809 original size:26 final size:27
Alignment explanation
Indices: 18145778--18145832 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
18145768 TTAACATTTT
18145778 TTTAATATATTTAAAATTTTA-ATATA
1 TTTAATATATTTAAAATTTTACATATA
* *
18145804 TTTAATTTTTTTAAAATTTTACATATA
1 TTTAATATATTTAAAATTTTACATATA
18145831 TT
1 TT
18145833 AAGAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTAATATATTTAAAATTTTACATATA
Found at i:18145814 original size:17 final size:17
Alignment explanation
Indices: 18145775--18145814 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
18145765 TACTTAACAT
18145775 TTTTTTAATATATTTAA
1 TTTTTTAATATATTTAA
**
18145792 AATTTTAATATATTTAA
1 TTTTTTAATATATTTAA
18145809 TTTTTT
1 TTTTTT
18145815 TAAAATTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAATATATTTAA
Found at i:18145841 original size:27 final size:26
Alignment explanation
Indices: 18145778--18145842 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
18145768 TTAACATTTT
* *
18145778 TTTAATATATTTAAAATTTTAATATA
1 TTTAAAATTTTTAAAATTTTAATATA
**
18145804 TTTAATTTTTTTAAAATTTTACATATA
1 TTTAAAATTTTTAAAATTTTA-ATATA
18145831 -TTAAGAATTTTT
1 TTTAA-AATTTTT
18145843 TTTCTTTACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 23 0.70
27 10 0.30
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
TTTAAAATTTTTAAAATTTTAATATA
Found at i:18145905 original size:11 final size:9
Alignment explanation
Indices: 18145863--18145918 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
18145853 TATTAAAAAT
*
18145863 ATATAATAA
1 ATATATTAA
*
18145872 GTATATTAA
1 ATATATTAA
*
18145881 A-ATTTTAA
1 ATATATTAA
18145889 ATATATTAA
1 ATATATTAA
18145898 GTATATATTAA
1 --ATATATTAA
18145909 ATATATTAA
1 ATATATTAA
18145918 A
1 A
18145919 ATTTTAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 7 0.18
9 23 0.59
11 9 0.23
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (9 bp):
ATATATTAA
Found at i:18149650 original size:787 final size:787
Alignment explanation
Indices: 18148137--18150495 Score: 4664
Period size: 787 Copynumber: 3.0 Consensus size: 787
18148127 GAATGTAAGT
18148137 GAAACACAGGCAGCCAAACACTCTAAGAAACTTTAAAGAAGGTTTGTAACCATACCAAGCTTCAA
1 GAAACACAGGCAGCCAAACACTCTAAGAAACTTTAAAGAAGGTTTGTAACCATACCAAGCTTCAA
18148202 ATGGCGTCTGATCCTTCACAACTTTTGTTGAAATCTGATTTTGCAAGAACACAGCAGTGTTTGCA
66 ATGGCGTCTGATCCTTCACAACTTTTGTTGAAATCTGATTTTGCAAGAACACAGCAGTGTTTGCA
18148267 GCTTCTCCCCAAAAGCTTTTTGGAAGATTCTTCTCATGAAGCATACATCGAGTCATCTCCATTAT
131 GCTTCTCCCCAAAAGCTTTTTGGAAGATTCTTCTCATGAAGCATACATCGAGTCATCTCCATTAT
18148332 GAATCTGTTCCTCCTTTCACTGACTCCATTTTGTTGTGGAGTGTATGGCGCCGTCAACTGATGCT
196 GAATCTGTTCCTCCTTTCACTGACTCCATTTTGTTGTGGAGTGTATGGCGCCGTCAACTGATGCT
18148397 CAATTCCAGCCTCTTCACAAAACCTATTAAAAGTTTCTGAAGTGTACTCCTTGCCATTATCAGAT
261 CAATTCCAGCCTCTTCACAAAACCTATTAAAAGTTTCTGAAGTGTACTCCTTGCCATTATCAGAT
18148462 TTTAAAATCTGAATCATGCATCCACTTTCATTCTCAACTCTAGCTTTGAATTTCCAGAACACACC
326 TTTAAAATCTGAATCATGCATCCACTTTCATTCTCAACTCTAGCTTTGAATTTCCAGAACACACC
18148527 AGCAACTTCTGATTTTTGCTTCAACAAAAAAAATCCAACACATTCTTGTTAGATCATCGATAAAA
391 AGCAACTTCTGATTTTTGCTTCAACAAAAAAAATCCAACACATTCTTGTTAGATCATCGATAAAA
18148592 GCTACGTAATAGAGGTTACCATTTAACGAAGGCGTTCTCTGATGACCATAAAGATCAGTATGAAC
456 GCTACGTAATAGAGGTTACCATTTAACGAAGGCGTTCTCTGATGACCATAAAGATCAGTATGAAC
18148657 AAGCTGTAACTTCTTCGATGCTCTCCAGGCTTGTTTAGGAAAGGGTTGTCTATGTTGTTTCCCAA
521 AAGCTGTAACTTCTTCGATGCTCTCCAGGCTTGTTTAGGAAAGGGTTGTCTATGTTGTTTCCCAA
18148722 ATCTGCAAGCTCGACAATGAGGTAGATTATCATCAATGTCTGTAAGTCCTTCCACCAGCTTCTTC
586 ATCTGCAAGCTCGACAATGAGGTAGATTATCATCAATGTCTGTAAGTCCTTCCACCAGCTTCTTC
18148787 GACTGTATTTGAAGCAATCCCTGATGGTGAAAGTGCCCAAGTCTCTTGTGCCAATGTCTCAGTAG
651 GACTGTATTTGAAGCAATCCCTGATGGTGAAAGTGCCCAAGTCTCTTGTGCCAATGTCTCAGTAG
*
18148852 CACTAGCTCTGAATTTAAAAGCCATTTGCTCATTTTCCATTGGATTAAGAGCAAAAATTTTTCCC
716 CACTAGCTCTGAATTTAAAAGCCATTTGCTCATTTTCCATTGGATTAAGAGCAAAACTTTTTCCC
18148917 TTCCTAA
781 TTCCTAA
* *
18148924 GAAACACAGGCAGCCAAACACTCTAAGAAACTTTAAAGAAAGTTTGTAACCATACCAAGTTTCAA
1 GAAACACAGGCAGCCAAACACTCTAAGAAACTTTAAAGAAGGTTTGTAACCATACCAAGCTTCAA
18148989 ATGGCGTCTGATCCTTCACAACTTTTGTTGAAATCTGATTTTGCAAGAACACAGCAGTGTTTGCA
66 ATGGCGTCTGATCCTTCACAACTTTTGTTGAAATCTGATTTTGCAAGAACACAGCAGTGTTTGCA
18149054 GCTTCTCCCCAAAAGCTTTTTGGAAGATTCTTCTCATGAAGCATACATCGAGTCATCTCCATTAT
131 GCTTCTCCCCAAAAGCTTTTTGGAAGATTCTTCTCATGAAGCATACATCGAGTCATCTCCATTAT
18149119 GAATCTGTTCCTCCTTTCACTGACTCCATTTTGTTGTGGAGTGTATGGCGCCGTCAACTGATGCT
196 GAATCTGTTCCTCCTTTCACTGACTCCATTTTGTTGTGGAGTGTATGGCGCCGTCAACTGATGCT
18149184 CAATTCCAGCCTCTTCACAAAACCTATTAAAAGTTTCTGAAGTGTACTCCTTGCCATTATCAGAT
261 CAATTCCAGCCTCTTCACAAAACCTATTAAAAGTTTCTGAAGTGTACTCCTTGCCATTATCAGAT
18149249 TTTAAAATCTGAATCATGCATCCACTTTCATTCTCAACTCTAGCTTTGAATTTCCAGAACACACC
326 TTTAAAATCTGAATCATGCATCCACTTTCATTCTCAACTCTAGCTTTGAATTTCCAGAACACACC
18149314 AGCAACTTCTGATTTTTGCTTCAACAAAAAAAATCCAACACATTCTTGTTAGATCATCGATAAAA
391 AGCAACTTCTGATTTTTGCTTCAACAAAAAAAATCCAACACATTCTTGTTAGATCATCGATAAAA
18149379 GCTACGTAATAGAGGTTACCATTTAACGAAGGCGTTCTCTGATGACCATAAAGATCAGTATGAAC
456 GCTACGTAATAGAGGTTACCATTTAACGAAGGCGTTCTCTGATGACCATAAAGATCAGTATGAAC
18149444 AAGCTGTAACTTCTTCGATGCTCTCCAGGCTTGTTTAGGAAAGGGTTGTCTATGTTGTTTCCCAA
521 AAGCTGTAACTTCTTCGATGCTCTCCAGGCTTGTTTAGGAAAGGGTTGTCTATGTTGTTTCCCAA
*
18149509 ATCTGCAAGCTCGACAATGAGGTAGATTATCATCAATGTCTGTAAGTCCTTCCACCAGCTTCTTT
586 ATCTGCAAGCTCGACAATGAGGTAGATTATCATCAATGTCTGTAAGTCCTTCCACCAGCTTCTTC
*
18149574 GACTGTATTTGAAGCAATCCCCGATGGTGAAAGTGCCCAAGTCTCTTGTGCCAATGTCTCAGTAG
651 GACTGTATTTGAAGCAATCCCTGATGGTGAAAGTGCCCAAGTCTCTTGTGCCAATGTCTCAGTAG
*
18149639 CACTAGCTCTGAATTTAAAAGCCATTTGCTCATTTTCCCTTGGATTAAGAGCAAAACTTTTTCCC
716 CACTAGCTCTGAATTTAAAAGCCATTTGCTCATTTTCCATTGGATTAAGAGCAAAACTTTTTCCC
18149704 TTCCTAA
781 TTCCTAA
18149711 GAAACACAGGCAGCCAAACACTCTAAGAAACTTTAAAGAAGGTTTGTAACCATACCAAGCTTCAA
1 GAAACACAGGCAGCCAAACACTCTAAGAAACTTTAAAGAAGGTTTGTAACCATACCAAGCTTCAA
18149776 ATGGCGTCTGATCCTTCACAACTTTTGTTGAAATCTGATTTTGCAAGAACACAGCAGTGTTTGCA
66 ATGGCGTCTGATCCTTCACAACTTTTGTTGAAATCTGATTTTGCAAGAACACAGCAGTGTTTGCA
18149841 GCTTCTCCCCAAAAGCTTTTTGGAAGATTCTTCTCATGAAGCATACATCGAGTCATCTCCATTAT
131 GCTTCTCCCCAAAAGCTTTTTGGAAGATTCTTCTCATGAAGCATACATCGAGTCATCTCCATTAT
18149906 GAATCTGTTCCTCCTTTCACTGACTCCATTTTGTTGTGGAGTGTATGGCGCCGTCAACTGATGCT
196 GAATCTGTTCCTCCTTTCACTGACTCCATTTTGTTGTGGAGTGTATGGCGCCGTCAACTGATGCT
18149971 CAATTCCAGCCTCTTCACAAAACCTATTAAAAGTTTCTGAAGTGTACTCCTTGCCATTATCAGAT
261 CAATTCCAGCCTCTTCACAAAACCTATTAAAAGTTTCTGAAGTGTACTCCTTGCCATTATCAGAT
18150036 TTTAAAATCTGAATCATGCATCCACTTTCATTCTCAACTCTAGCTTTGAATTTCCAGAACACACC
326 TTTAAAATCTGAATCATGCATCCACTTTCATTCTCAACTCTAGCTTTGAATTTCCAGAACACACC
18150101 AGCAACTTCTGATTTTTGCTTCAACAAAAAAAATCCAACACATTCTTGTTAGATCATCGATAAAA
391 AGCAACTTCTGATTTTTGCTTCAACAAAAAAAATCCAACACATTCTTGTTAGATCATCGATAAAA
18150166 GCTACGTAATAGAGGTTACCATTTAACGAAGGCGTTCTCTGATGACCATAAAGATCAGTATGAAC
456 GCTACGTAATAGAGGTTACCATTTAACGAAGGCGTTCTCTGATGACCATAAAGATCAGTATGAAC
18150231 AAGCTGTAACTTCTTCGATGCTCTCCAGGCTTGTTTAGGAAAGGGTTGTCTATGTTGTTTCCCAA
521 AAGCTGTAACTTCTTCGATGCTCTCCAGGCTTGTTTAGGAAAGGGTTGTCTATGTTGTTTCCCAA
18150296 ATCTGCAAGCTCGACAATGAGGTAGATTATCATCAATGTCTGTAAGTCCTTCCACCAGCTTCTTC
586 ATCTGCAAGCTCGACAATGAGGTAGATTATCATCAATGTCTGTAAGTCCTTCCACCAGCTTCTTC
18150361 GACTGTATTTGAAGCAATCCCTGATGGTGAAAGTGCCCAAGTCTCTTGTGCCAATGTCTCAGTAG
651 GACTGTATTTGAAGCAATCCCTGATGGTGAAAGTGCCCAAGTCTCTTGTGCCAATGTCTCAGTAG
18150426 CACTAGCTCTGAATTTAAAAGCCATTTGCTCATTTTCCATTGGATTAAGAGCAAAACTTTTTCCC
716 CACTAGCTCTGAATTTAAAAGCCATTTGCTCATTTTCCATTGGATTAAGAGCAAAACTTTTTCCC
18150491 TTCCT
781 TTCCT
18150496 TTTGACATTG
Statistics
Matches: 1561, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
787 1561 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (787 bp):
GAAACACAGGCAGCCAAACACTCTAAGAAACTTTAAAGAAGGTTTGTAACCATACCAAGCTTCAA
ATGGCGTCTGATCCTTCACAACTTTTGTTGAAATCTGATTTTGCAAGAACACAGCAGTGTTTGCA
GCTTCTCCCCAAAAGCTTTTTGGAAGATTCTTCTCATGAAGCATACATCGAGTCATCTCCATTAT
GAATCTGTTCCTCCTTTCACTGACTCCATTTTGTTGTGGAGTGTATGGCGCCGTCAACTGATGCT
CAATTCCAGCCTCTTCACAAAACCTATTAAAAGTTTCTGAAGTGTACTCCTTGCCATTATCAGAT
TTTAAAATCTGAATCATGCATCCACTTTCATTCTCAACTCTAGCTTTGAATTTCCAGAACACACC
AGCAACTTCTGATTTTTGCTTCAACAAAAAAAATCCAACACATTCTTGTTAGATCATCGATAAAA
GCTACGTAATAGAGGTTACCATTTAACGAAGGCGTTCTCTGATGACCATAAAGATCAGTATGAAC
AAGCTGTAACTTCTTCGATGCTCTCCAGGCTTGTTTAGGAAAGGGTTGTCTATGTTGTTTCCCAA
ATCTGCAAGCTCGACAATGAGGTAGATTATCATCAATGTCTGTAAGTCCTTCCACCAGCTTCTTC
GACTGTATTTGAAGCAATCCCTGATGGTGAAAGTGCCCAAGTCTCTTGTGCCAATGTCTCAGTAG
CACTAGCTCTGAATTTAAAAGCCATTTGCTCATTTTCCATTGGATTAAGAGCAAAACTTTTTCCC
TTCCTAA
Found at i:18155573 original size:19 final size:19
Alignment explanation
Indices: 18155551--18155601 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
18155541 TAAATAATAC
18155551 AATTATCATAATATTTTTT
1 AATTATCATAATATTTTTT
18155570 AATTAT--T-ATATTTTTT
1 AATTATCATAATATTTTTT
* * *
18155586 AAATAACATATTATTT
1 AATTATCATAATATTT
18155602 AAATAGGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 13 0.50
17 1 0.04
18 1 0.04
19 11 0.42
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTATCATAATATTTTTT
Found at i:18155596 original size:16 final size:16
Alignment explanation
Indices: 18155561--18155606 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
18155551 AATTATCATA
* **
18155561 ATATTTTTTAATTATT
1 ATATTTTTTAAATAAC
18155577 ATATTTTTTAAATAAC
1 ATATTTTTTAAATAAC
*
18155593 ATATTATTTAAATA
1 ATATTTTTTAAATA
18155607 GGTGGAACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTTTTAAATAAC
Found at i:18171772 original size:2 final size:2
Alignment explanation
Indices: 18171765--18171823 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
18171755 AAATTCGGTT
18171765 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18171807 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
18171824 TACATGGTAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18172620 original size:16 final size:16
Alignment explanation
Indices: 18172599--18172649 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
18172589 TGAATCATTG
*
18172599 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
18172615 ATTACAGTTTTATTCC
1 ATTACAGCTCTATTCC
*
18172631 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
18172647 ATT
1 ATT
18172650 CTAGTAAACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:18177643 original size:20 final size:20
Alignment explanation
Indices: 18177615--18177652 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
18177605 CTAATTTTTT
18177615 ATAATTCTTAATGATTTTTAG
1 ATAATTCTTAAT-ATTTTTAG
*
18177636 ATAA-TCTTTATATTTTT
1 ATAATTCTTAATATTTTT
18177653 TTTATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 6 0.38
21 4 0.25
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
ATAATTCTTAATATTTTTAG
Found at i:18177653 original size:20 final size:20
Alignment explanation
Indices: 18177629--18177667 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18177619 TTCTTAATGA
18177629 TTTTTAGATAATCTTTATAT
1 TTTTTAGATAATCTTTATAT
** *
18177649 TTTTTTTATAATTTTTATA
1 TTTTTAGATAATCTTTATA
18177668 ATTATCTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTTAGATAATCTTTATAT
Found at i:18179408 original size:20 final size:19
Alignment explanation
Indices: 18179385--18179477 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 19
18179375 AAAAATTACA
18179385 AAAAATATATAAAATTATT
1 AAAAATATATAAAATTATT
* *
18179404 TAAAATTTATTAATAATTA-T
1 AAAAATATA-TAA-AATTATT
*
18179424 AAAAATAT-TAAATTTATT
1 AAAAATATATAAAATTATT
18179442 AAAAAT-TGATAAAATTATTT
1 AAAAATAT-ATAAAATTA-TT
18179462 AATAAATAT-TAAAATT
1 AA-AAATATATAAAATT
18179478 CACGTCCGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
17 5 0.08
18 10 0.17
19 14 0.23
20 21 0.35
21 9 0.15
22 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (19 bp):
AAAAATATATAAAATTATT
Found at i:18179436 original size:27 final size:28
Alignment explanation
Indices: 18179385--18179460 Score: 100
Period size: 27 Copynumber: 2.6 Consensus size: 28
18179375 AAAAATTACA
18179385 AAAAATATATAAAATTATTTAAAATTTATT
1 AAAAAT-TATAAAATTA-TTAAAATTTATT
* *
18179415 AATAATTATAAAAATATT-AAATTTATT
1 AAAAATTATAAAATTATTAAAATTTATT
18179442 AAAAATTGATAAAATTATT
1 AAAAATT-ATAAAATTATT
18179461 TAATAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 15 0.37
28 12 0.29
29 9 0.22
30 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (28 bp):
AAAAATTATAAAATTATTAAAATTTATT
Found at i:18179441 original size:9 final size:9
Alignment explanation
Indices: 18179394--18179477 Score: 64
Period size: 10 Copynumber: 8.8 Consensus size: 9
18179384 AAAAAATATA
18179394 TAAAATTATT
1 TAAAATTA-T
18179404 TAAAATTTAT
1 TAAAA-TTAT
18179414 TAATAATTA-
1 TAA-AATTAT
*
18179423 TAAAAATAT
1 TAAAATTAT
*
18179432 TAAATTTAT
1 TAAAATTAT
18179441 TAAAAATTGA-
1 T-AAAATT-AT
18179451 TAAAATTATT
1 TAAAATTA-T
*
18179461 TAATAAATAT
1 TAA-AATTAT
18179471 TAAAATT
1 TAAAATT
18179478 CACGTCCGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
8 5 0.08
9 20 0.33
10 25 0.42
11 10 0.17
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (9 bp):
TAAAATTAT
Found at i:18179583 original size:10 final size:9
Alignment explanation
Indices: 18179563--18179667 Score: 52
Period size: 10 Copynumber: 10.9 Consensus size: 9
18179553 TGACATAGTT
18179563 TTAATAATTA
1 TTAA-AATTA
18179573 TTAAAATTTA
1 TTAAAA-TTA
*
18179583 TAAAGTAAATTA
1 TTAA--A-ATTA
*
18179595 -TAAAAATA
1 TTAAAATTA
*
18179603 TTTAAATTA
1 TTAAAATTA
18179612 TTAATAATTA
1 TTAA-AATTA
*
18179622 TAATAAATTA
1 TTA-AAATTA
18179632 TTAAAATTTA
1 TTAAAA-TTA
* *
18179642 TAAAAACATA
1 TTAAAA-TTA
*
18179652 GTAAAA-TA
1 TTAAAATTA
18179660 TTAAAATT
1 TTAAAATT
18179668 TATAGGACAA
Statistics
Matches: 72, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
8 10 0.14
9 16 0.22
10 38 0.53
11 3 0.04
12 4 0.06
13 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (9 bp):
TTAAAATTA
Found at i:18179628 original size:20 final size:20
Alignment explanation
Indices: 18179564--18179644 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
18179554 GACATAGTTT
18179564 TAAT-AATTATTAAAATTTA
1 TAATAAATTATTAAAATTTA
*
18179583 TAAAGTAAATTA-TAAAA-ATA
1 T-AA-TAAATTATTAAAATTTA
*
18179603 T-TTAAATTATTAATAA-TTA
1 TAATAAATTATTAA-AATTTA
18179622 TAATAAATTATTAAAATTTA
1 TAATAAATTATTAAAATTTA
18179642 TAA
1 TAA
18179645 AAACATAGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
17 7 0.14
18 3 0.06
19 8 0.16
20 22 0.43
21 6 0.12
22 5 0.10
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (20 bp):
TAATAAATTATTAAAATTTA
Found at i:18179644 original size:17 final size:17
Alignment explanation
Indices: 18179588--18179645 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
18179578 ATTTATAAAG
*
18179588 TAAATTATAAAAATATT-
1 TAAATTATTAAAAT-TTA
18179605 TAAATTATTAATAATTATAA
1 TAAATTATTAA-AATT-T-A
18179625 TAAATTATTAAAATTTA
1 TAAATTATTAAAATTTA
18179642 TAAA
1 TAAA
18179646 AACATAGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 16 0.44
18 5 0.14
19 4 0.11
20 11 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTATTAAAATTTA
Found at i:18180098 original size:11 final size:10
Alignment explanation
Indices: 18180076--18180146 Score: 69
Period size: 10 Copynumber: 7.4 Consensus size: 10
18180066 TTGGACGTCG
18180076 TTTTTAATAA
1 TTTTTAATAA
18180086 TTTTTAATAA
1 TTTTTAATAA
*
18180096 -ATTTAAT-A
1 TTTTTAATAA
* *
18180104 TTTTTTATCA
1 TTTTTAATAA
18180114 TTTTT-ATAA
1 TTTTTAATAA
*
18180123 -TCTTAATAA
1 TTTTTAATAA
18180132 TTTTTAGATAA
1 TTTTTA-ATAA
18180143 TTTT
1 TTTT
18180147 ACATTTTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
8 4 0.08
9 18 0.36
10 20 0.40
11 8 0.16
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:18187580 original size:207 final size:199
Alignment explanation
Indices: 18187022--18187600 Score: 623
Period size: 207 Copynumber: 2.8 Consensus size: 199
18187012 TTTTTAAAAA
* * ** *
18187022 AAAATTCTTTTTTT-TGTCAGAGTCAGATATCAGTATATAAAAAATAAAAAAATAAAAAAATTTT
1 AAAATTATTTTTTTGTGTCAGAATCAGATATCAG--TATACGAAA-AAAATAA-AAAAAAATTTT
* * * *
18187086 GAGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTTTTTTTTGT
62 GGGTGTTGGCCTGTCAATGGCCGGCACCTAGTAAAATTTAAAAAAAA-TTC-TTTTTTTTTGT-T
* *
18187151 CGAAATCAGATATCAGTATACTAAAAAAAT-ATAAAAAAA--TTAGTGCTGGCCTGTCAGGCACC
124 AG-AATCAGATATCAGTATACGAAAAAAATAATAAAAAAATTTTAGTGCTGGCCTGTCAGGCACC
*
18187213 CAGTACAATTTTT
188 CAGTACAA-TATT
** ** * *
18187226 AAAAAAAAAAATTTTCGTGTCAGAATTAGATATCAGTATACGAAAAAAATAAAAAAAAA-TTTGG
1 --AAAATTATTTTTTTGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAATTTTGG
* * * *
18187290 GTGTTAGCCTGTCAATGGCCGACACCTAGTACAATTTTAAAAAAAAATTCTTTTTTTTTGTCAGA
64 GTGTTGGCCTGTCAATGGCCGGCACCTAGTA-AAATTT-AAAAAAAATTCTTTTTTTTTGTTAGA
* *
18187355 ATCAGATATCAGTATACGAAATAAATAATAATAAAAATTTTGGGTGCTGGCCTGTCAGTGGCCGG
127 ATCAGATATCAGTATACGAAAAAAATAATAA-AAAAATTTT-AGTGCTGGCCTGTCA------GG
18187420 CACCCAGTACAA-ATT
184 CACCCAGTACAATATT
* *
18187435 -AAATTTTTTTTTTGTGTCAGAATCAAATATCAGTATACGAAAAAAATAAAAAAAAATTTTGGGT
1 AAAATTATTTTTTTGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAATTTTGGGT
* *
18187499 GTTGGCCTGTCAATGGCCGGTACCTAGTAAAAATTAAAAAAAATTCTTTTTTTTCGTGTTAGAAT
66 GTTGGCCTGTCAATGGCCGGCACCTAGTAAAATTTAAAAAAAATTCTTTTTTTT--TGTTAGAAT
* * *
18187564 CAAATATCAATATACGAAAAAAATAAAAAAAAAATTT
129 CAGATATCAGTATACGAAAAAAATAATAAAAAAATTT
18187601 GGGCCAGCAG
Statistics
Matches: 314, Mismatches: 42, Indels: 34
0.81 0.11 0.09
Matches are distributed among these distances:
200 25 0.08
201 5 0.02
202 47 0.15
203 14 0.04
204 16 0.05
205 40 0.13
206 68 0.22
207 83 0.26
209 2 0.01
211 14 0.04
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (199 bp):
AAAATTATTTTTTTGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAATTTTGGGT
GTTGGCCTGTCAATGGCCGGCACCTAGTAAAATTTAAAAAAAATTCTTTTTTTTTGTTAGAATCA
GATATCAGTATACGAAAAAAATAATAAAAAAATTTTAGTGCTGGCCTGTCAGGCACCCAGTACAA
TATT
Found at i:18188151 original size:29 final size:29
Alignment explanation
Indices: 18188119--18188185 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
18188109 CCTATATATT
*
18188119 TTTTGTAAATTT-AGAATTTAGT-TTGTATA
1 TTTT-TAAATTTAAGAATTTAGTCCT-TATA
**
18188148 TTTTTATTTTTAAGAATTTAGTCCTTATA
1 TTTTTAAATTTAAGAATTTAGTCCTTATA
18188177 TTTTTAAAT
1 TTTTTAAAT
18188186 ATTACGAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 5 0.16
29 25 0.81
30 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTTTAAATTTAAGAATTTAGTCCTTATA
Found at i:18188734 original size:55 final size:54
Alignment explanation
Indices: 18188647--18188834 Score: 263
Period size: 55 Copynumber: 3.4 Consensus size: 54
18188637 CTATCCCATC
* * * *
18188647 CATCTGACACTCTTTTTTTTTCATTCAGTCTCATTAATTTTAAATTTTTTTCCTA
1 CATCTAACAC-CTTTTTTTTTCATTCAATCTCATTTATTTCAAATTTTTTTCCTA
*
18188702 CATATAACACCTTTTTCTTTTCATTCAATCTCATTTATTTCAAATTTTTTTTCCTA
1 CATCTAACACCTTTTT-TTTTCATTCAATCTCATTTATTTCAAA-TTTTTTTCCTA
* *
18188758 CATCTAACACATTTTTTTTTCATTCAATCCCATTTATTTCAGAATTTTTTT-CTA
1 CATCTAACACCTTTTTTTTTCATTCAATCTCATTTATTTCA-AATTTTTTTCCTA
18188812 CATCTAACACC-TTTTTTTTCATT
1 CATCTAACACCTTTTTTTTTCATT
18188835 TTCGTTTCTA
Statistics
Matches: 121, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
53 12 0.10
54 19 0.16
55 63 0.52
56 27 0.22
ACGTcount: A:0.24, C:0.21, G:0.02, T:0.53
Consensus pattern (54 bp):
CATCTAACACCTTTTTTTTTCATTCAATCTCATTTATTTCAAATTTTTTTCCTA
Found at i:18192292 original size:110 final size:107
Alignment explanation
Indices: 18191805--18192444 Score: 537
Period size: 100 Copynumber: 5.9 Consensus size: 107
18191795 TATATATATG
* *** * *
18191805 ATTGTACT-AGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTCGTATA
1 ATTGTACTGA-GTGCCGGCCATTGACAGGCCAACA-CCAAAAAAATATTATATTTTTTTCGTATA
*
18191869 CTGATATCTAATTCTGACACGAAAAAAAAG-AAAAAAAATTTT-A
64 CTGATATCTGATTCTGACAC-AAAAAAAAGAAAAAAAAATTTTAA
* * * * *
18191912 ATTGTACTGGGTGCCAGCCACTGACAGGCCAGCACCCCAAAAAAAATTACTTCTTTATTTTTTTC
1 ATTGTACTGAGTGCCGGCCATTGACAGGCCA--ACACC-AAAAAAA-TA--T-TATATTTTTTTC
18191977 GTATACTGATATCTGATTCTGACACGAAAAAAAA-AGAAAAAAAA-TTTACA
59 GTATACTGATATCTGATTCTGACAC-AAAAAAAAGA-AAAAAAAATTTTA-A
* * * *** * *
18192027 A-TGTACTGGGTGCCCGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTATTTTTTTCGTATAC
1 ATTGTACTGAGTGCCGGCCATTGACAGGCCAACACCAAAA-AAATATTATATTTTTTTCGTATAC
*
18192091 TGATATCTGATTCTGACAC--------GAAAAAAAAAATTTAA
65 TGATATCTGATTCTGACACAAAAAAAAGAAAAAAAAATTTTAA
* * * * ** * *
18192126 TTTGTACTGGGTGCCGGTCATTGACAGGCCAGCACCCAAAAATTTTTTTTATTTTTTTCGTATAC
1 ATTGTACTGAGTGCCGGCCATTGACAGGCCAACA-CCAAAAAAATATTATATTTTTTTCGTATAC
*
18192191 TAATATCTGATTCTGACACAAAAAAAAGAAAAAAAAACTTTTTTTTAAA
65 TGATATCTGATTCTGACACAAAAAAAAGAAAAAAAAA-----TTTT-AA
* *
18192240 ATTGTACTGAGTGCCGGCCATTGACAGGTCAGCA-CAAAAAAA-A-T-TATTTTTTTCGTATACT
1 ATTGTACTGAGTGCCGGCCATTGACAGGCCAACACCAAAAAAATATTATATTTTTTTCGTATACT
* *
18192301 GATATCTGATTCTGACAC-GAAAAAA-AATAAAAAATTTTAA
66 GATATCTGATTCTGACACAAAAAAAAGAAAAAAAAATTTTAA
* * *
18192341 ATTTTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAAAAAATTTTTTTATTATTTTTTTCGT
1 ATTGTACTGAGTGCCGGCCATTGACAGGCCAACA-CCAAAAAAA---TATTA-TATTTTTTTCGT
*
18192406 ATACTGATATTTGATTCTGACACGAATAAAAAAAGAAAA
61 ATACTGATATCTGATTCTGACAC--A-AAAAAAAGAAAA
18192445 CGGGTTCCGG
Statistics
Matches: 446, Mismatches: 42, Indels: 82
0.78 0.07 0.14
Matches are distributed among these distances:
99 9 0.02
100 76 0.17
101 38 0.09
102 4 0.01
103 8 0.02
107 35 0.08
108 56 0.13
109 40 0.09
110 36 0.08
111 5 0.01
112 10 0.02
113 51 0.11
114 73 0.16
115 5 0.01
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (107 bp):
ATTGTACTGAGTGCCGGCCATTGACAGGCCAACACCAAAAAAATATTATATTTTTTTCGTATACT
GATATCTGATTCTGACACAAAAAAAAGAAAAAAAAATTTTAA
Found at i:18192335 original size:214 final size:211
Alignment explanation
Indices: 18191807--18192444 Score: 726
Period size: 214 Copynumber: 2.9 Consensus size: 211
18191797 TATATATGAT
* ****
18191807 TGTACT-AGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTCGTATACT
1 TGTACTGA-GTGCCCGCCATTGACAGGCCAGCA-CCAAAA--TAAAATTATTTTTTTCGTATACT
* * *
18191871 GATATCTAATTCTGACACGAAAAAAAAGAAAAAAAATTTTAA-TTGTACTGGGTGCCAGCCACTG
62 GATATCTGATTCTGACACG--AAAAAA-AAAAAAAATTTTAATTTGTACTGGGTGCCGGCCATTG
*
18191935 ACAGGCCAGCACCCCAAAAAAAATTACTTCTTTATTTTTTTCGTATACTGATATCTGATTCTGAC
124 ACAGGCCAGCA-CCC--AAAAAATT--TTTTTTATTTTTTTCGTATACTGATATCTGATTCTGAC
*
18192000 ACGAAAAAAAA-AGAAAAAAAATTTACAA
184 ACGAAAAAAAAGA-AAAAAAAATTTAAAA
* ****
18192028 TGTACTGGGTGCCCGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTATTTTTTTCGTATACTG
1 TGTACTGAGTGCCCGCCATTGACAGGCCAGCACCAAAA---TAAAATTATTTTTTTCGTATACTG
*
18192093 ATATCTGATTCTGACACG----AAAAAAAAAA-TTTAATTTGTACTGGGTGCCGGTCATTGACAG
63 ATATCTGATTCTGACACGAAAAAAAAAAAAAATTTTAATTTGTACTGGGTGCCGGCCATTGACAG
*
18192153 GCCAGCACCC-AAAAATTTTTTTTATTTTTTTCGTATACTAATATCTGATTCTGACAC-AAAAAA
128 GCCAGCACCCAAAAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAA
18192216 AAGAAAAAAAAACTTTTTTTTAAAA
193 AAGAAAAAAAAA------TTTAAAA
* *
18192241 TTGTACTGAGTGCCGGCCATTGACAGGTCAGCA-CAAAA-AAAATTATTTTTTTCGTATACTGAT
1 -TGTACTGAGTGCCCGCCATTGACAGGCCAGCACCAAAATAAAATTATTTTTTTCGTATACTGAT
18192304 ATCTGATTCTGACACGAAAAAAAATAAAAAATTTTAAATTT-TACTGGGTGCCGGCCATTGACAG
65 ATCTGATTCTGACACGAAAAAAAA-AAAAAATTTT-AATTTGTACTGGGTGCCGGCCATTGACAG
* *
18192368 GCCAACACCCAAAAAAATTTTTTTATTATTTTTTTCGTATACTGATATTTGATTCTGACACGAAT
128 GCCAGCACCC-AAAAAA-TTTTTT-TTATTTTTTTCGTATACTGATATCTGATTCTGACACG-A-
18192433 AAAAAAAGAAAA
188 AAAAAAAGAAAA
18192445 CGGGTTCCGG
Statistics
Matches: 372, Mismatches: 20, Indels: 49
0.84 0.05 0.11
Matches are distributed among these distances:
207 16 0.04
208 39 0.10
209 37 0.10
210 7 0.02
213 23 0.06
214 73 0.20
215 36 0.10
216 5 0.01
217 5 0.01
218 6 0.02
219 34 0.09
220 6 0.02
221 73 0.20
222 12 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (211 bp):
TGTACTGAGTGCCCGCCATTGACAGGCCAGCACCAAAATAAAATTATTTTTTTCGTATACTGATA
TCTGATTCTGACACGAAAAAAAAAAAAAATTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCC
AGCACCCAAAAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAG
AAAAAAAAATTTAAAA
Found at i:18192439 original size:321 final size:314
Alignment explanation
Indices: 18191806--18192439 Score: 879
Period size: 321 Copynumber: 2.0 Consensus size: 314
18191796 ATATATATGA
*
18191806 TTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTCGTATACT
1 TTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTATTTTTTTCGTATACT
* *
18191871 GATATCTAATTCTGACACGAAAAAAAAGAAAAAAAATTTTAATTGTACTGGGTGCCAGCCACTGA
66 AATATCTAATTCTGACACGAAAAAAAAGAAAAAAAATTTTAATTGTACTGAGTGCCAGCCACTGA
18191936 CAGGCCAGCACCCCAAAAAAAATTACTTCTTTATTTTTTTCGTATACTGATATCTGATTCTGACA
131 CAGGCCAGCA--CCAAAAAAAA-TA----TTTATTTTTTTCGTATACTGATATCTGATTCTGACA
*
18192001 CGAAAAAAAAAGAAAAAAAATTTACAATGTACTGGGTGCCCGCCATTGACAGGCCAGCACCAAAA
189 CGAAAAAAAAAGAAAAAAAATTTACAATGTACTGGGTGCCCGCCATTGACAGGCCAACACCAAAA
*
18192066 TTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAATTTAAT
254 TTTTTTTATTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAATTTAAT
* *
18192127 TTGTACTGGGTGCCGGTCATTGACAGGCCAGCACCCAAAAATTTTTTTTATTTTTTTCGTATACT
1 TTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTATTTTTTTCGTATACT
* *
18192192 AATATCTGATTCTGACAC-AAAAAAAAGAAAAAAAAACTTTTTTTTAAAATTGTACTGAGTGCCG
66 AATATCTAATTCTGACACGAAAAAAAAG-AAAAAAAA-----TTTT--AATTGTACTGAGTGCCA
* *
18192256 GCCATTGACAGGTCAGCA-C-AAAAAAA-A-TTATTTTTTTCGTATACTGATATCTGATTCTGAC
123 GCCACTGACAGGCCAGCACCAAAAAAAATATTTATTTTTTTCGTATACTGATATCTGATTCTGAC
* * * *
18192317 ACG-AAAAAAAA-TAAAAAATTTTA-AATTTTACTGGGTGCCGGCCATTGACAGGCCAACACCCA
188 ACGAAAAAAAAAGAAAAAAAATTTACAA-TGTACTGGGTGCCCGCCATTGACAGGCCAACA-CC-
* *
18192379 AAAAAATTTTTTTATTATTTTTTTCGTATACTGATATTTGATTCTGACACGAATAAAAAAA
250 --AAAATTTTTTTATTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAA
18192440 GAAAACGGGT
Statistics
Matches: 283, Mismatches: 17, Indels: 28
0.86 0.05 0.09
Matches are distributed among these distances:
314 2 0.01
315 39 0.14
316 10 0.04
317 37 0.13
319 56 0.20
320 9 0.03
321 86 0.30
322 1 0.00
324 7 0.02
325 1 0.00
326 4 0.01
328 31 0.11
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (314 bp):
TTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTATTTTTTTCGTATACT
AATATCTAATTCTGACACGAAAAAAAAGAAAAAAAATTTTAATTGTACTGAGTGCCAGCCACTGA
CAGGCCAGCACCAAAAAAAATATTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAA
AAAAGAAAAAAAATTTACAATGTACTGGGTGCCCGCCATTGACAGGCCAACACCAAAATTTTTTT
ATTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAATTTAAT
Found at i:18204336 original size:21 final size:20
Alignment explanation
Indices: 18204305--18204346 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 20
18204295 TTCCAATATC
18204305 TCATTTCTTTGT-TTTTTTA
1 TCATTTCTTTGTATTTTTTA
18204324 TCATATTCATTTGTAATTTTTTA
1 TCAT-TTC-TTTGT-ATTTTTTA
18204347 CTTATTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 5 0.26
23 7 0.37
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (20 bp):
TCATTTCTTTGTATTTTTTA
Found at i:18204731 original size:22 final size:23
Alignment explanation
Indices: 18204701--18204769 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
18204691 TATGCACTAT
*
18204701 TAAATAGAGAGCACTAAA-ATGC
1 TAAACAGAGAGCACTAAATATGC
* *
18204723 TATACAGAGAGCA-TAAATGTGC
1 TAAACAGAGAGCACTAAATATGC
* *
18204745 TAAACGGAGAGCACT-AATGTGC
1 TAAACAGAGAGCACTAAATATGC
18204767 TAA
1 TAA
18204770 TGATTGGAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.10
22 35 0.88
23 1 0.03
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.20
Consensus pattern (23 bp):
TAAACAGAGAGCACTAAATATGC
Found at i:18216476 original size:24 final size:25
Alignment explanation
Indices: 18216442--18216501 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
18216432 TACATATTTG
*
18216442 CATTCATTTTTGACCCAA-TATTCTTT
1 CATTC-TTTTTGA-ACAATTATTCTTT
*
18216468 CATTCTTTTTGAATAATTATTCTTT
1 CATTCTTTTTGAACAATTATTCTTT
18216493 CATTCTTTT
1 CATTCTTTT
18216502 GGATTTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 2 0.06
25 24 0.77
26 5 0.16
ACGTcount: A:0.22, C:0.18, G:0.03, T:0.57
Consensus pattern (25 bp):
CATTCTTTTTGAACAATTATTCTTT
Found at i:18217873 original size:21 final size:20
Alignment explanation
Indices: 18217839--18217879 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
18217829 AAAAAAGATG
*
18217839 TGAAAAAATAAAAATGAAAAA
1 TGAAAAAAGAAAAA-GAAAAA
*
18217860 TGAAAAAAGGAAAAGAAAAA
1 TGAAAAAAGAAAAAGAAAAA
18217880 ATAAAAAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.10
Consensus pattern (20 bp):
TGAAAAAAGAAAAAGAAAAA
Found at i:18219292 original size:50 final size:50
Alignment explanation
Indices: 18219210--18219989 Score: 464
Period size: 50 Copynumber: 15.6 Consensus size: 50
18219200 GTAACGGAGC
* ** * *
18219210 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCAACAGCGCAATTTAAA
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * * * * * * * * **
18219260 AGATTCAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * ** ** *
18219310 AGATTGAAGTCACAACGGTGGATCTGGTTTCTTCGACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * * * * * **
18219360 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTAGAGC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* ** * *
18219410 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGTAATTTAAA
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * * * * * * * * **
18219460 AGATTCAAGCGACAACGGCGGATCTTACTTCCCTGACGGTGTAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * ** ** *
18219510 AGATTGAAGTCACAACGGCAGATCTGGTTTCTTCGACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * * * * * * * * **
18219560 AGATTGAAGCCACAACGACAGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* ** *
18219610 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTTAAA
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * * * * * * * * * **
18219660 AGATTGAAGCCACAACGGCGAATCTTACTTCTCTGGCGGTGTAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * ** ** *
18219710 AGATTGAAGTCGCAACGGCGGATCTGGTTTCTTCGACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * * * * * * * * **
18219760 AGATTGAAGCCACAACGGCAGATCTTACGT-CCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* ** *
18219809 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTTAAA
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* * * * * * * * * **
18219859 AGATTGAAGCCACAACGGCGGATCTTACTTCTCTGGCGGTGTAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
* ** ** *
18219909 AGATTGAAGTCACAACGGCGGATCTGGTTTCTTCGACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
*
18219959 AGATTGAAGCCACAACGGCGGATCTTACTTC
1 AGATTGAAGCCACAACGGCGGATCTGACTTC
18219990 TCTGGCGGTG
Statistics
Matches: 504, Mismatches: 225, Indels: 2
0.69 0.31 0.00
Matches are distributed among these distances:
49 32 0.06
50 472 0.94
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTGACTTCCCCGACAGCGCAATTGAAA
Found at i:18219378 original size:100 final size:100
Alignment explanation
Indices: 18219205--18220073 Score: 1348
Period size: 100 Copynumber: 8.7 Consensus size: 100
18219195 GCATTGTAAC
* * * *
18219205 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCAACAGCGCAATTTAAAAGATTCAAGC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTCCGACAGCGCAATTAAAAAGATTGAAGC
*
18219270 CACAACGGCAGATCTTACTTCCCTGGCGGTGCAGT
66 CACAACGGCGGATCTTACTTCCCTGGCGGTGCAGT
* *
18219305 GGAGCAGATTGAAGTCACAACGGTGGATCTGGTTTCTTCGACAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTCCGACAGCGCAATTAAAAAGATTGAAGC
*
18219370 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
66 CACAACGGCGGATCTTACTTCCCTGGCGGTGCAGT
* * * * *
18219405 AGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGTAATTTAAAAGATTCAAGC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTCCGACAGCGCAATTAAAAAGATTGAAGC
* * *
18219470 GACAACGGCGGATCTTACTTCCCTGACGGTGTAGT
66 CACAACGGCGGATCTTACTTCCCTGGCGGTGCAGT
* *
18219505 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCTTCGACAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTCCGACAGCGCAATTAAAAAGATTGAAGC
* *
18219570 CACAACGACAGATCTTACTTCCCTGGCGGTGCAGT
66 CACAACGGCGGATCTTACTTCCCTGGCGGTGCAGT
* *
18219605 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTTAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTCCGACAGCGCAATTAAAAAGATTGAAGC
* * *
18219670 CACAACGGCGAATCTTACTTCTCTGGCGGTGTAGT
66 CACAACGGCGGATCTTACTTCCCTGGCGGTGCAGT
* *
18219705 GGAGCAGATTGAAGTCGCAACGGCGGATCTGGTTTCTTCGACAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTCCGACAGCGCAATTAAAAAGATTGAAGC
* *
18219770 CACAACGGCAGATCTTACGT-CCTGGCGGTGCAGT
66 CACAACGGCGGATCTTACTTCCCTGGCGGTGCAGT
* *
18219804 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTTAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTCCGACAGCGCAATTAAAAAGATTGAAGC
* *
18219869 CACAACGGCGGATCTTACTTCTCTGGCGGTGTAGT
66 CACAACGGCGGATCTTACTTCCCTGGCGGTGCAGT
*
18219904 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTTCGACAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTCCGACAGCGCAATTAAAAAGATTGAAGC
* *
18219969 CACAACGGCGGATCTTACTTCTCTGGCGGTGTAGT
66 CACAACGGCGGATCTTACTTCCCTGGCGGTGCAGT
* *
18220004 GGAGCAGATTGAAGTCATAGA-GGCGGATCTGGTTTTCTCCGACAGCGCAATTAATAAG-TTGAA
1 GGAGCAGATTGAAGTCACA-ACGGCGGATCTGG-TTTCTCCGACAGCGCAATTAAAAAGATTGAA
*
18220067 GCTACAA
64 GCCACAA
18220074 GTCTTATCTC
Statistics
Matches: 702, Mismatches: 64, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
99 91 0.13
100 587 0.84
101 24 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (100 bp):
GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCTCCGACAGCGCAATTAAAAAGATTGAAGC
CACAACGGCGGATCTTACTTCCCTGGCGGTGCAGT
Found at i:18227322 original size:43 final size:43
Alignment explanation
Indices: 18227258--18227364 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
18227248 TCCTAGATAT
* * * *
18227258 GGTCTTACATGTTAT-TACATATTGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCT-CATATCGATGCCAATGTCCCAGACAG
* * *
18227301 GGTGTTACACGTAATCTCATATCGATGCTAATGTCCCAGACAT
1 GGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACAG
18227344 GGTCTTACACGTAATCTCATA
1 GGTCTTACACGTAATCTCATA
18227365 CCTCAGAAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 54 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (43 bp):
GGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACAG
Found at i:18230321 original size:325 final size:324
Alignment explanation
Indices: 18229726--18230341 Score: 993
Period size: 325 Copynumber: 1.9 Consensus size: 324
18229716 CGTCCCATCG
* * *
18229726 AAGACATTTGCCCCACACGTCCCATAATGATGGCCAAGTTGCGAGCCCAACACGTTAACATCATC
1 AAGACATTCGCCCCACACGTCCCACAATGATGGCCAAGTTGCGAGCCCAACACATTAACATCATC
* **
18229791 CTGCACGGGACCTTCCCATAAATAGCCTCTGAAACGATGATCAAGGGATCGACTCTTCGAGATAT
66 CTGCACAGGACCTTCCCATAAATAGCCTCCAAAACGATGATCAAGGGATCGACTCTTCGAGATAT
* * * *
18229856 ACTTGCCTACACTCTGCTAGTTGACCCTCAGCACTTAGCCTTCATACTTTCTTCACTTTTACTCT
131 ACTTGCCTACACTCTGCTAGTTGACCCTCAACACTTAGCCTTCATACTTTCTCCACTTTCACTAT
* *
18229921 TTGTAATCTTCGGCTCTCCACCCCGATTAGGTAAACCGACCTTCATTAGCTCCACCACATCTTCC
196 TTGCAATCTTCGGCTCTCCACCCCGATTAGGTAAACCGACCTCCATTAGCTCCACCACATCTTCC
*
18229986 TACATATTCCCTCGTTGTATCATTGTATCAATAATGTGTAAACTTCAAGCCACTCATCCTATCA
261 TACATATTCCCTCGTTGTATCACTGTATCAATAATGTGTAAACTTCAAGCCACTCATCCTATCA
* *
18230050 AAGACATTCGCCCCACACGTCCCACAATGATGGCCTAGTTGC-AGGCTCAACACATTAACATCAT
1 AAGACATTCGCCCCACACGTCCCACAATGATGGCCAAGTTGCGA-GCCCAACACATTAACATCAT
* *
18230114 CTTGCACAGGACCTTGCCCATAAATAGCCTCCAAAATGATGATCAAGGGATCGACTC-TCTGAGA
65 CCTGCACAGGACCTT-CCCATAAATAGCCTCCAAAACGATGATCAAGGGATCGACTCTTC-GAGA
*
18230178 TATACTTGCCTATACTCTGCTAGTTGACCCTCAACACTTAGCCTTCATACTTTCTCCACTTTCAC
128 TATACTTGCCTACACTCTGCTAGTTGACCCTCAACACTTAGCCTTCATACTTTCTCCACTTTCAC
* * *
18230243 TATTTGCAATCTTCGGCTCTCGACCCCGATTGGGTGAACCGACCTCCATTAGCTCCACCACATCT
193 TATTTGCAATCTTCGGCTCTCCACCCCGATTAGGTAAACCGACCTCCATTAGCTCCACCACATCT
*
18230308 TCCTACGTATTCCCTCGTTGTATCACTGTATCAA
258 TCCTACATATTCCCTCGTTGTATCACTGTATCAA
18230342 CAGGGTGTGT
Statistics
Matches: 267, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
323 1 0.00
324 72 0.27
325 194 0.73
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (324 bp):
AAGACATTCGCCCCACACGTCCCACAATGATGGCCAAGTTGCGAGCCCAACACATTAACATCATC
CTGCACAGGACCTTCCCATAAATAGCCTCCAAAACGATGATCAAGGGATCGACTCTTCGAGATAT
ACTTGCCTACACTCTGCTAGTTGACCCTCAACACTTAGCCTTCATACTTTCTCCACTTTCACTAT
TTGCAATCTTCGGCTCTCCACCCCGATTAGGTAAACCGACCTCCATTAGCTCCACCACATCTTCC
TACATATTCCCTCGTTGTATCACTGTATCAATAATGTGTAAACTTCAAGCCACTCATCCTATCA
Found at i:18238232 original size:77 final size:76
Alignment explanation
Indices: 18238072--18238596 Score: 822
Period size: 77 Copynumber: 6.9 Consensus size: 76
18238062 AGGTATGATT
** *
18238072 TGACCCGAGGCTCAACTCACCTCTTATATTATGAGTTGATTTTTGAAAAAAATAGAAATT-AAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-AAAAAACAGAAATTAAAAA
18238136 AATACCTCAGCG
65 AATACCTCAGCG
* *
18238148 TGACCCGAGACTCAACTCACCTCTCGTATTATGAGTTGATTTTTTGAAAAAAACAGAAATT-TAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTTG-AAAAAACAGAAATTAAAA
18238212 AAATACCTCAGCG
64 AAATACCTCAGCG
* *
18238225 TGACCCGAGGCTCAACTCACCTATCGTATTATGAGTTGATTTTTGAAAAAATAGAAATTAAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATT-AAAAA
*
18238290 AATACCTTAGCG
65 AATACCTCAGCG
* *
18238302 TGACTCGAGGCTCAACTCACATCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
*
18238367 AAACCTCAGCG
66 ATACCTCAGCG
18238378 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATT-AAAAA
* *
18238443 AATACCTTAGCT
65 AATACCTCAGCG
18238455 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATT--AAAA
18238520 AAATACCTCAGCG
64 AAATACCTCAGCG
* * *
18238533 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGGTTTTTG-AAAAACAAAAATTGAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
18238597 TATAATTCTT
Statistics
Matches: 418, Mismatches: 26, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
75 18 0.04
76 114 0.27
77 226 0.54
78 60 0.14
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (76 bp):
TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
ATACCTCAGCG
Found at i:18238350 original size:153 final size:153
Alignment explanation
Indices: 18238072--18238582 Score: 848
Period size: 153 Copynumber: 3.3 Consensus size: 153
18238062 AGGTATGATT
**
18238072 TGACCCGAGGCTCAACTCACCTCTTATATTATGAGTTGATTTTTGAAAAAAATAGAAATT--AAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-AAAAAATAGAAATTAAAAA
* *
18238135 AAATACCTCAGCGTGACCCGAGACTCAACTCACCTCTCGTATTATGAGTTGATTTTTTGAAAAAA
65 AAATACCTTAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTTG-AAAAA
*
18238200 ACAGAAATT-TAAAAATACCTCAGCG
128 ACAGAAATTAAAAAAATACCTCAGCG
*
18238225 TGACCCGAGGCTCAACTCACCTATCGTATTATGAGTTGATTTTTGAAAAAATAGAAATTAAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAATAGAAATTAAAAAA
* *
18238290 AATACCTTAGCGTGACTCGAGGCTCAACTCACATCTCGTATTATGAGTTGATTTTTGAAAAAACA
66 AATACCTTAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACA
*
18238355 GAAATTAAAAAAAAACCTCAGCG
131 GAAATTAAAAAAATACCTCAGCG
*
18238378 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAATAGAAATTAAAAAA
*
18238443 AATACCTTAGCTTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACA
66 AATACCTTAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACA
18238508 GAAATTAAAAAAAAATACCTCAGCG
131 GAAATT--AAAAAAATACCTCAGCG
*
18238533 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGGTTTTTGAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAA
18238583 CAAAAATTGA
Statistics
Matches: 337, Mismatches: 16, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
152 28 0.08
153 193 0.57
154 51 0.15
155 65 0.19
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (153 bp):
TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAATAGAAATTAAAAAA
AATACCTTAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACA
GAAATTAAAAAAATACCTCAGCG
Found at i:18238484 original size:230 final size:230
Alignment explanation
Indices: 18238072--18238596 Score: 842
Period size: 230 Copynumber: 2.3 Consensus size: 230
18238062 AGGTATGATT
** *
18238072 TGACCCGAGGCTCAACTCACCTCTTATATTATGAGTTGATTTTTGAAAAAAATAGAAATTAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-AAAAAACAGAAATTAAAAA
*
18238137 ATACCTCAGCGTGACCCGAGACTCAACTCACCTCTCGTATTATGAGTTGATTTTTTGAAAAAAAC
65 AAACCTCAGCGTGACCCGAGACTCAACTCACCTCTCGTATTATGAGTTGATTTTTTGAAAAAAAC
*
18238202 AGAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATCGTATTATGAGTTGATTT
130 AGAAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATCGTATTATGAGTTGATTT
* *
18238267 TTGAAAAAATAGAAATT-AAAAAAAATACCTTAGCG
195 TTGAAAAAACAGAAATTAAAAAAAAATACCTCAGCG
* *
18238302 TGACTCGAGGCTCAACTCACATCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATT-AAAAA
*
18238367 AAACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTTG-AAAAAAC
65 AAACCTCAGCGTGACCCGAGACTCAACTCACCTCTCGTATTATGAGTTGATTTTTTGAAAAAAAC
* * *
18238430 AGAAATTAAAAAAAATACCTTAGCTTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGAT
130 AGAAATT--AAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATCGTATTATGAGTTGAT
18238495 TTTTGAAAAAACAGAAATTAAAAAAAAATACCTCAGCG
193 TTTTGAAAAAACAGAAATTAAAAAAAAATACCTCAGCG
* * *
18238533 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGGTTTTTG-AAAAACAAAAATTGAAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
18238597 TATAATTCTT
Statistics
Matches: 273, Mismatches: 18, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
228 14 0.05
229 24 0.09
230 176 0.64
231 59 0.22
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (230 bp):
TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAA
AACCTCAGCGTGACCCGAGACTCAACTCACCTCTCGTATTATGAGTTGATTTTTTGAAAAAAACA
GAAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTATCGTATTATGAGTTGATTTT
TGAAAAAACAGAAATTAAAAAAAAATACCTCAGCG
Found at i:18242433 original size:18 final size:17
Alignment explanation
Indices: 18242400--18242438 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
18242390 TTTTATAAAT
18242400 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
18242418 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
18242435 TGTG
1 TGTG
18242439 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:18242691 original size:23 final size:23
Alignment explanation
Indices: 18242664--18242761 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
18242654 AGTGTTATTG
18242664 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
18242687 CTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
18242710 -TTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18242732 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18242755 ATCAGTG
1 ATCAGTG
18242762 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:18242731 original size:45 final size:45
Alignment explanation
Indices: 18242667--18242754 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
18242657 GTTATTGATC
*
18242667 AGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTCGGCTACATTT
1 AGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATTT
18242712 AGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 AGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
18242755 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (45 bp):
AGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATTT
Found at i:18247943 original size:34 final size:35
Alignment explanation
Indices: 18247817--18247987 Score: 143
Period size: 34 Copynumber: 4.8 Consensus size: 35
18247807 AACAATTATT
* *
18247817 TTTTTGAAAAACACGAAAAAATTTTAAAACACGAGAA
1 TTTTT-AAAAACACG-AAAATTTTTGAAACACGAGAA
* * *
18247854 -TTTTAGAAACACGAAAATTCTTAAAACAC-A-AA
1 TTTTTAAAAACACGAAAATTTTTGAAACACGAGAA
* * *
18247886 TTTTTTTTTGAAAACACGGAAATTTTTGAAATACGAGAA
1 ----TTTTTAAAAACACGAAAATTTTTGAAACACGAGAA
* ***
18247925 -TTTTAAAAACATGAAAATTTACAAAACACGAGAA
1 TTTTTAAAAACACGAAAATTTTTGAAACACGAGAA
*
18247959 TTTTTAAAAATACGAAAATTTTTGAAACA
1 TTTTTAAAAACACGAAAATTTTTGAAACA
18247988 ATAGATTTTC
Statistics
Matches: 105, Mismatches: 21, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
32 2 0.02
33 1 0.01
34 41 0.39
35 31 0.30
36 4 0.04
37 23 0.22
38 1 0.01
39 2 0.02
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.30
Consensus pattern (35 bp):
TTTTTAAAAACACGAAAATTTTTGAAACACGAGAA
Found at i:18247951 original size:71 final size:75
Alignment explanation
Indices: 18247810--18247963 Score: 192
Period size: 71 Copynumber: 2.1 Consensus size: 75
18247800 TTTTCGAAAC
*
18247810 AATTATTTTTTTGAAAAACACGAAAAAATTTTAAAACACGAGAATTTTAGAAACACGAAAATTCT
1 AATT-TTTTTTTGAAAAACACGAAAAAATTTTAAAACACGAGAATTTTAAAAACACGAAAATTCT
*
18247875 TAAAACAC-A-
65 CAAAACACGAG
* * * * *
18247884 AATTTTTTTTTG-AAAACACG-GAAATTTTTGAAATACGAGAATTTTAAAAACATGAAAATT-TA
1 AATTTTTTTTTGAAAAACACGAAAAAATTTTAAAACACGAGAATTTTAAAAACACGAAAATTCT-
18247946 CAAAACACGAG
65 CAAAACACGAG
18247957 AATTTTT
1 AATTTTT
18247964 AAAAATACGA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
70 1 0.01
71 41 0.59
72 9 0.13
73 15 0.21
74 4 0.06
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (75 bp):
AATTTTTTTTTGAAAAACACGAAAAAATTTTAAAACACGAGAATTTTAAAAACACGAAAATTCTC
AAAACACGAG
Found at i:18247981 original size:18 final size:18
Alignment explanation
Indices: 18247817--18247981 Score: 103
Period size: 17 Copynumber: 9.3 Consensus size: 18
18247807 AACAATTATT
18247817 TTTTTGAAAAACACGAAAAA
1 TTTTT-AAAAACACG-AAAA
* *
18247837 ATTTT-AAAACACGAGAA
1 TTTTTAAAAACACGAAAA
*
18247854 -TTTTAGAAACACGAAAA
1 TTTTTAAAAACACGAAAA
* *
18247871 TTCTT-AAAACAC-AAATTTT
1 TTTTTAAAAACACGAAA---A
* *
18247890 TTTTTGAAAACACGGAAA
1 TTTTTAAAAACACGAAAA
* * *
18247908 TTTTT-GAAATACGAGAA
1 TTTTTAAAAACACGAAAA
*
18247925 -TTTTAAAAACATGAAAA
1 TTTTTAAAAACACGAAAA
*
18247942 --TTTACAAAACACGAGAA
1 TTTTTA-AAAACACGAAAA
*
18247959 TTTTTAAAAATACGAAAA
1 TTTTTAAAAACACGAAAA
18247977 TTTTT
1 TTTTT
18247982 GAAACAATAG
Statistics
Matches: 112, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
16 15 0.13
17 45 0.40
18 31 0.28
19 8 0.07
20 11 0.10
21 2 0.02
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (18 bp):
TTTTTAAAAACACGAAAA
Found at i:18248103 original size:18 final size:17
Alignment explanation
Indices: 18248077--18248139 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
18248067 ATTTTTTAAT
*
18248077 ACGAGAATTTAAAAAAAC
1 ACGAAAATTT-AAAAAAC
*
18248095 ACGAAAATTTACAAAAC
1 ACGAAAATTTAAAAAAC
* **
18248112 AAGAAAATTTTTGAAAAC
1 ACGAAAA-TTTAAAAAAC
18248130 ACGAAAATTT
1 ACGAAAATTT
18248140 TTGAAAACAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
17 15 0.39
18 23 0.61
ACGTcount: A:0.57, C:0.11, G:0.10, T:0.22
Consensus pattern (17 bp):
ACGAAAATTTAAAAAAC
Found at i:18248112 original size:17 final size:17
Alignment explanation
Indices: 18248090--18248139 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
18248080 AGAATTTAAA
18248090 AAAACACGAAAATTTAC
1 AAAACACGAAAATTTAC
* **
18248107 AAAACAAGAAAATTTTTG
1 AAAACACGAAAA-TTTAC
18248125 AAAACACGAAAATTT
1 AAAACACGAAAATTT
18248140 TTGAAAACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (17 bp):
AAAACACGAAAATTTAC
Found at i:18248140 original size:18 final size:18
Alignment explanation
Indices: 18248090--18248153 Score: 87
Period size: 18 Copynumber: 3.7 Consensus size: 18
18248080 AGAATTTAAA
**
18248090 AAAACACGAAAA-TTTAC
1 AAAACACGAAAATTTTTG
*
18248107 AAAACAAGAAAATTTTTG
1 AAAACACGAAAATTTTTG
18248125 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
18248143 AAAACAC-AAAA
1 AAAACACGAAAA
18248154 AAACACAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.36
18 27 0.64
ACGTcount: A:0.59, C:0.12, G:0.08, T:0.20
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:18248356 original size:12 final size:12
Alignment explanation
Indices: 18248339--18248379 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
18248329 ATTAAATACA
18248339 AAAAAAATGCTT
1 AAAAAAATGCTT
*
18248351 AAAAAAA--CCT
1 AAAAAAATGCTT
18248361 AAAAAAATGCTT
1 AAAAAAATGCTT
*
18248373 AGAAAAA
1 AAAAAAA
18248380 CAAGAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.66, C:0.10, G:0.07, T:0.17
Consensus pattern (12 bp):
AAAAAAATGCTT
Found at i:18248367 original size:22 final size:22
Alignment explanation
Indices: 18248339--18248380 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18248329 ATTAAATACA
18248339 AAAAAAATGCTTAAAAAAACCT
1 AAAAAAATGCTTAAAAAAACCT
*
18248361 AAAAAAATGCTTAGAAAAAC
1 AAAAAAATGCTTAAAAAAAC
18248381 AAGAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.12, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAAAATGCTTAAAAAAACCT
Found at i:18248913 original size:10 final size:10
Alignment explanation
Indices: 18248900--18248947 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
18248890 TTTTCAATGT
*
18248900 TTTTTTTTTG
1 TTTTTTTTTC
18248910 TTTTTTGTTTC
1 TTTTTT-TTTC
*
18248921 TTTTCTTTTC
1 TTTTTTTTTC
18248931 TTTTTTCTTTTC
1 -TTTTT-TTTTC
18248943 TTTTT
1 TTTTT
18248948 CCTTTTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 10 0.31
11 17 0.53
12 5 0.16
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:18248914 original size:12 final size:12
Alignment explanation
Indices: 18248899--18248963 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
18248889 ATTTTCAATG
*
18248899 TTTTTTTTTTGTT
1 TTTTTTTTTT-TC
18248912 TTTTGTTTCTTTTC
1 TTTT-TTT-TTTTC
*
18248926 TTTTCTTTTTTC
1 TTTTTTTTTTTC
* *
18248938 TTTTCTTTTTCC
1 TTTTTTTTTTTC
*
18248950 TTTTTTCTTTTC
1 TTTTTTTTTTTC
18248962 TT
1 TT
18248964 CTTCTTCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
12 27 0.61
13 6 0.14
14 8 0.18
15 3 0.07
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:18248934 original size:19 final size:18
Alignment explanation
Indices: 18248912--18248983 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 18
18248902 TTTTTTTGTT
18248912 TTTTGTTTCTTTTCTTTTC
1 TTTT-TTTCTTTTCTTTTC
18248931 -TTTTTTCTTTTCTTTTTC
1 TTTTTTTCTTTTC-TTTTC
*
18248949 CTTTTTTCTTTTCTTCTTC
1 TTTTTTTCTTTTCTT-TTC
*
18248968 TTCTTCTTCTTCTTCT
1 TT-TTTTTCTT-TTCT
18248984 GGAGGCCCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 9 0.20
18 10 0.22
19 16 0.35
20 7 0.15
21 4 0.09
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.76
Consensus pattern (18 bp):
TTTTTTTCTTTTCTTTTC
Found at i:18248952 original size:7 final size:6
Alignment explanation
Indices: 18248899--18248981 Score: 52
Period size: 6 Copynumber: 14.3 Consensus size: 6
18248889 ATTTTCAATG
* *
18248899 TTTTT- TTTTTG TTTTT- TGTTTC -TTTTC -TTTTC TTTTT- TCTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC
* * *
18248943 TTTTTCC TTTTT- TCTTTTC TTCTTC TTCTTC TTCTTC TT
1 TTTTT-C TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TT
18248982 CTGGAGGCCC
Statistics
Matches: 67, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
5 20 0.30
6 39 0.58
7 8 0.12
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:18248956 original size:8 final size:7
Alignment explanation
Indices: 18248899--18248966 Score: 54
Period size: 7 Copynumber: 10.0 Consensus size: 7
18248889 ATTTTCAATG
18248899 TTTT-TT
1 TTTTCTT
*
18248905 TTTTGTT
1 TTTTCTT
*
18248912 TTTTGTT
1 TTTTCTT
*
18248919 TCTTT-TC
1 T-TTTCTT
18248926 TTTTCTT
1 TTTTCTT
18248933 TTTTC--
1 TTTTCTT
18248938 TTTTCTT
1 TTTTCTT
*
18248945 TTTCCTT
1 TTTTCTT
18248952 TTTTCTT
1 TTTTCTT
18248959 TTCTTCTT
1 TT-TTCTT
18248967 CTTCTTCTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
5 5 0.10
6 7 0.13
7 32 0.62
8 8 0.15
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTCTT
Found at i:18248967 original size:3 final size:3
Alignment explanation
Indices: 18248918--18248983 Score: 58
Period size: 3 Copynumber: 24.3 Consensus size: 3
18248908 TGTTTTTTGT
*
18248918 TTC TT- TTC TT- TTC TT- TT- TTC TT- TTC TTT TTCC TT- TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC
18248957 TT- TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
18248984 GGAGGCCCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
2 16 0.30
3 36 0.67
4 2 0.04
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (3 bp):
TTC
Found at i:18248982 original size:6 final size:6
Alignment explanation
Indices: 18248918--18248983 Score: 58
Period size: 5 Copynumber: 12.2 Consensus size: 6
18248908 TGTTTTTTGT
*
18248918 TTCTT- TTCTT- TTCTT- TT-TTC TT-TTC TTTTTCC TT-TT- TTCTT-
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTT-C TTCTTC TTCTTC
18248959 TTCTTC TTCTTC TTCTTC TTCTTC T
1 TTCTTC TTCTTC TTCTTC TTCTTC T
18248984 GGAGGCCCTA
Statistics
Matches: 56, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.07
5 26 0.46
6 23 0.41
7 3 0.05
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTCTTC
Found at i:18249367 original size:29 final size:29
Alignment explanation
Indices: 18249303--18249507 Score: 243
Period size: 29 Copynumber: 7.0 Consensus size: 29
18249293 GGCCTAAACA
18249303 TAATTCTGAGAAAGTTTAGGGGGTCAAAATG
1 TAATT-TGAGAAAGTTTA-GGGGTCAAAATG
18249334 TAATTTGAGAAAGTTTAGGGGTCAAAATG
1 TAATTTGAGAAAGTTTAGGGGTCAAAATG
* *
18249363 CAATTTTGAGAAAGTTTAAGGGTCAAAATG
1 TAA-TTTGAGAAAGTTTAGGGGTCAAAATG
* *
18249393 TAATTT-AAAAAGTTTAAGGGTCAAAATG
1 TAATTTGAGAAAGTTTAGGGGTCAAAATG
* * *
18249421 TAATTTCAAAAAGTTTAGGGGTAAAAATG
1 TAATTTGAGAAAGTTTAGGGGTCAAAATG
* *
18249450 TAATTTTG-GGAAGTTTAAGGGTCAAAATG
1 TAA-TTTGAGAAAGTTTAGGGGTCAAAATG
* * * *
18249479 TAATTTTAAAAAATTGAGGGGTCAAAATG
1 TAATTTGAGAAAGTTTAGGGGTCAAAATG
18249508 AAAATTAAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
28 30 0.20
29 76 0.50
30 42 0.27
31 5 0.03
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.31
Consensus pattern (29 bp):
TAATTTGAGAAAGTTTAGGGGTCAAAATG
Found at i:18249421 original size:87 final size:87
Alignment explanation
Indices: 18249313--18249507 Score: 293
Period size: 87 Copynumber: 2.2 Consensus size: 87
18249303 TAATTCTGAG
* * *
18249313 AAAGTTTAGGGGGTCAAAATGTAATTTGAGAAAGTTTAGGGGTCAAAATGCAATTTTGAGAAAGT
1 AAAGTTTA-GGGGTCAAAATGTAATTTCAAAAAGTTTAGGGGTAAAAATGCAATTTTG-GAAAGT
18249378 TTAAGGGTCAAAATGTAA-TTTAA
64 TTAAGGGTCAAAATGTAATTTTAA
* * *
18249401 AAAGTTTAAGGGTCAAAATGTAATTTCAAAAAGTTTAGGGGTAAAAATGTAATTTTGGGAAGTTT
1 AAAGTTTAGGGGTCAAAATGTAATTTCAAAAAGTTTAGGGGTAAAAATGCAATTTTGGAAAGTTT
18249466 AAGGGTCAAAATGTAATTTTAA
66 AAGGGTCAAAATGTAATTTTAA
* *
18249488 AAAATTGAGGGGTCAAAATG
1 AAAGTTTAGGGGTCAAAATG
18249508 AAAATTAAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
86 23 0.24
87 66 0.68
88 8 0.08
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (87 bp):
AAAGTTTAGGGGTCAAAATGTAATTTCAAAAAGTTTAGGGGTAAAAATGCAATTTTGGAAAGTTT
AAGGGTCAAAATGTAATTTTAA
Found at i:18250456 original size:13 final size:11
Alignment explanation
Indices: 18250428--18250470 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
18250418 AGCTAAATAT
18250428 TATTTTATTAA
1 TATTTTATTAA
18250439 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
18250452 TA-TTTATTAT
1 TATTTTATTAA
18250462 TATTTTATT
1 TATTTTATT
18250471 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:18250457 original size:23 final size:23
Alignment explanation
Indices: 18250431--18250474 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
18250421 TAAATATTAT
18250431 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
18250454 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
18250475 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:18254259 original size:41 final size:41
Alignment explanation
Indices: 18254173--18254308 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
18254163 GGAGATAGTG
* *
18254173 TAGCAGGCTTTGTACCAGTGTATATTATCAGGCTTTGTGCC
1 TAGCAGGCTTTGTACCAGTGTATATTATCAGGCCTTGAGCC
* * **
18254214 TAGCAAGCTTTGTACCTGTGTATATTATCAGGCCTTGAGTT
1 TAGCAGGCTTTGTACCAGTGTATATTATCAGGCCTTGAGCC
* * * *
18254255 TAGCAGGCTTCGT-GCAGGTGAAT-TATATCAGGCCTTGGGCC
1 TAGCAGGCTTTGTACCA-GTGTATAT-TATCAGGCCTTGAGCC
18254296 TAGCAGGCTTTGT
1 TAGCAGGCTTTGT
18254309 GTCGGTGTAA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
40 2 0.03
41 76 0.97
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (41 bp):
TAGCAGGCTTTGTACCAGTGTATATTATCAGGCCTTGAGCC
Found at i:18257634 original size:20 final size:20
Alignment explanation
Indices: 18257609--18257658 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18257599 TTAAATGTTA
*
18257609 AAATATAAATTATATG-TTTT
1 AAATATAAATGAT-TGTTTTT
*
18257629 AAATATTAATGATTGTTTTT
1 AAATATAAATGATTGTTTTT
18257649 AAATAGTAAA
1 AAATA-TAAA
18257659 ATGGACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
AAATATAAATGATTGTTTTT
Found at i:18257704 original size:63 final size:63
Alignment explanation
Indices: 18257623--18257749 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
18257613 ATAAATTATA
*
18257623 TGTTTTAAATATTAATGATTGTTTTTAAATAGTAAAATGGACCAAACAGAAAGAGTTTCAAGT
1 TGTTTTAAATATTAATGATTATTTTTAAATAGTAAAATGGACCAAACAGAAAGAGTTTCAAGT
* * *
18257686 TGTTTTAAATATTTATGATTATTTTTAAATAGTAAAATGGACCAAACAGACAGAGTTTGAAGT
1 TGTTTTAAATATTAATGATTATTTTTAAATAGTAAAATGGACCAAACAGAAAGAGTTTCAAGT
18257749 T
1 T
18257750 TGAAGTGGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (63 bp):
TGTTTTAAATATTAATGATTATTTTTAAATAGTAAAATGGACCAAACAGAAAGAGTTTCAAGT
Found at i:18271469 original size:3 final size:3
Alignment explanation
Indices: 18271456--18271486 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18271446 ATGAGTAGAA
18271456 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18271487 GGAAGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18272819 original size:30 final size:30
Alignment explanation
Indices: 18272781--18272837 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
18272771 CGAATGAGGG
18272781 CAAACTTTT-AAAAATGGTCAAATAAATAC
1 CAAACTTTTCAAAAATGGTCAAATAAATAC
* *
18272810 CAAACCTTTTCAAAAGTGTTCAAATAAA
1 CAAA-CTTTTCAAAAATGGTCAAATAAA
18272838 AGCATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 5 0.21
31 15 0.62
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (30 bp):
CAAACTTTTCAAAAATGGTCAAATAAATAC
Found at i:18275824 original size:18 final size:18
Alignment explanation
Indices: 18275805--18275840 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
18275795 ATATTGTATA
18275805 TTAAATAGATATTTATTAT
1 TTAAA-AGATATTTATTAT
18275824 TTAAAAGATATTTATTA
1 TTAAAAGATATTTATTA
18275841 GATAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TTAAAAGATATTTATTAT
Found at i:18275846 original size:18 final size:19
Alignment explanation
Indices: 18275806--18275848 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
18275796 TATTGTATAT
**
18275806 TAAATAGATATTTATTATT
1 TAAATAGATATTTATTAGA
18275825 TAAA-AGATATTTATTAGA
1 TAAATAGATATTTATTAGA
18275843 TAAATA
1 TAAATA
18275849 ATTAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
TAAATAGATATTTATTAGA
Found at i:18275998 original size:3 final size:3
Alignment explanation
Indices: 18275957--18276013 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
18275947 GTAATATATG
* *
18275957 TAT TAGT TAT TAAT TAT GTATT TAT TGT AAT TA- TAT TAT TAT TAT TAT
1 TAT TA-T TAT T-AT TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
18276005 TAT TAT TAT
1 TAT TAT TAT
18276014 ATAAAGTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 2 0.04
3 32 0.71
4 10 0.22
5 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:18276100 original size:21 final size:21
Alignment explanation
Indices: 18276071--18276113 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18276061 ACAGAGAAGT
* *
18276071 AGAACGAAACAGAGAAAGGAA
1 AGAACGAAAAAGAAAAAGGAA
*
18276092 AGAAGGAAAAAGAAAAAGGAA
1 AGAACGAAAAAGAAAAAGGAA
18276113 A
1 A
18276114 ATTTGGGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.28, T:0.00
Consensus pattern (21 bp):
AGAACGAAAAAGAAAAAGGAA
Found at i:18283435 original size:31 final size:31
Alignment explanation
Indices: 18283400--18283463 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
18283390 TAGCCCAGTA
18283400 ACTTAAATCAAAACTTT-TGAATAGTTTAGTG
1 ACTTAAATCAAAA-TTTCTGAATAGTTTAGTG
* *
18283431 ACTTAAATGAGAATTTCTGAATAGTTTAGTG
1 ACTTAAATCAAAATTTCTGAATAGTTTAGTG
18283462 AC
1 AC
18283464 CAAACTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (31 bp):
ACTTAAATCAAAATTTCTGAATAGTTTAGTG
Found at i:18288599 original size:26 final size:26
Alignment explanation
Indices: 18288560--18288610 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18288550 ATCCTTTAAC
*
18288560 TTGTTATTTATTATT-TCATTTAAAT
1 TTGTTATCTATTATTATCATTTAAAT
*
18288585 TTGTATATCTATTATTATTATTTAAA
1 TTGT-TATCTATTATTATCATTTAAA
18288611 CGGTTTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 10 0.45
27 8 0.36
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTGTTATCTATTATTATCATTTAAAT
Found at i:18293812 original size:18 final size:18
Alignment explanation
Indices: 18293770--18293804 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18293760 ATAAAAAAAT
18293770 AAAAAA-TT-TAAAATTC
1 AAAAAATTTATAAAATTC
18293786 AAAAAATTTATAAAATTC
1 AAAAAATTTATAAAATTC
18293804 A
1 A
18293805 TAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATTTATAAAATTC
Found at i:18294133 original size:19 final size:19
Alignment explanation
Indices: 18294106--18294152 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
18294096 TATTTCATTC
*
18294106 AATTTAATTAAAAT-ATACA
1 AATTAAATTAAAATAATA-A
18294125 AATTAAATTAAAATAATAA
1 AATTAAATTAAAATAATAA
*
18294144 AATAAAATT
1 AATTAAATT
18294153 CATTAACTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTAAATTAAAATAATAA
Found at i:18299738 original size:28 final size:29
Alignment explanation
Indices: 18299702--18299758 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
18299692 TATTTGTATG
* *
18299702 TTAGGGTTTA-GGTTTTTGGAAAAATAAA
1 TTAGAGTTTAGGGTTTTTGAAAAAATAAA
18299730 TTAGAGTTTAGGGTTTTTGAAAAAATAAA
1 TTAGAGTTTAGGGTTTTTGAAAAAATAAA
18299759 CAATAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (29 bp):
TTAGAGTTTAGGGTTTTTGAAAAAATAAA
Found at i:18304942 original size:6 final size:6
Alignment explanation
Indices: 18304931--18304994 Score: 121
Period size: 6 Copynumber: 10.8 Consensus size: 6
18304921 AAAGTGATAA
18304931 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
18304979 AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG AAAAA
18304995 TGAGAGGCCA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.09
6 52 0.91
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:18306266 original size:44 final size:44
Alignment explanation
Indices: 18306218--18306537 Score: 132
Period size: 44 Copynumber: 7.3 Consensus size: 44
18306208 GATAACAGAT
18306218 CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
* * * * * ** * * *
18306262 CTTGCCTCCCT--A-GGTTGCAGCGGAGCAGGTTAAAGATAACAGAT
1 CTTGCCTTCCTGCACCGAT--AGCGAAGCAGATCGAAGACACCAG-C
*
18306306 CTTGCCTTCCTGCACCAATAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
**** ** * * ** * * *
18306350 CTTGCC-TCACTGGGTTG-TAATGGAGCAGGTTAAAGATAACAGAT
1 CTTGCCTTC-CTGCACCGATAGCGAAGCAGATCGAAGACACCAG-C
* * *
18306394 CTTGCCTTCCTGCACCAACAGCAAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
* * **** * * * ** * * * *
18306438 CTTACCTCCCTGGGTTG-CAGTGGAGCA-AGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACCGATAGCGAAGCAGA-TCGAAGACACCAG-C
*
18306482 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
*
18306526 CTTGCCTCCCTG
1 CTTGCCTTCCTG
18306538 GGTTGCAGCA
Statistics
Matches: 180, Mismatches: 82, Indels: 28
0.62 0.28 0.10
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 52 0.29
44 70 0.39
45 51 0.28
46 2 0.01
47 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
Found at i:18306355 original size:88 final size:88
Alignment explanation
Indices: 18306206--18306614 Score: 629
Period size: 88 Copynumber: 4.6 Consensus size: 88
18306196 CAGATTAGTG
*
18306206 AAGATAACAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
18306271 CTAGGTTGCAGCGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * *
18306294 AAGATAACAGATCTTGCCTTCCTGCACCAATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCA
1 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* **
18306359 CTGGGTTGTAATGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * *
18306382 AAGATAACAGATCTTGCCTTCCTGCACCAACAGCAAAGCAGATCGAAGACACCAGCCTTACCTCC
1 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* *
18306447 CTGGGTTGCAGTGGAGCAAGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* *
18306470 AAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
18306535 CTGGGTTGCAGCAGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * * * *
18306558 AAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
18306615 CTATCTCCCT
Statistics
Matches: 297, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 297 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (88 bp):
AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
CTGGGTTGCAGCGGAGCAGGTTA
Found at i:18306574 original size:44 final size:43
Alignment explanation
Indices: 18306442--18306576 Score: 101
Period size: 44 Copynumber: 3.1 Consensus size: 43
18306432 ACCAGCCTTA
* *
18306442 CCTCCCTGGGTTGCAGTGGAGCAAGTTAAAAATAGCAGATCTTG
1 CCTCCCTGGGTTGCAG-CGAGCAGGTTAAAAATAGCAGATCTTG
* **** * ** * * * *
18306486 CCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG-CCTTG
1 CCTCCCTGGGTTG-CAGCG-AGCAGGTTAAAAATAGCAGATCTTG
18306530 CCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTG
1 CCTCCCTGGGTTGCAGC-GAGCAGGTTAAAAATAGCAGATCTTG
18306574 CCT
1 CCT
18306577 TCCTACACCG
Statistics
Matches: 61, Mismatches: 26, Indels: 8
0.64 0.27 0.08
Matches are distributed among these distances:
43 17 0.28
44 29 0.48
45 15 0.25
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (43 bp):
CCTCCCTGGGTTGCAGCGAGCAGGTTAAAAATAGCAGATCTTG
Found at i:18306663 original size:44 final size:44
Alignment explanation
Indices: 18306614--18307085 Score: 630
Period size: 44 Copynumber: 10.8 Consensus size: 44
18306604 TGACCCCAGC
* * *
18306614 CCTATCTCCCTGGACAGCAGTGGAATAGGCTGAAGATGGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
** * **
18306658 CCTATCTCCCTGGTCATTAGTGGAATAGGTTGAAAATAAT-AAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* ** *
18306701 CCTATCTCCCTGGACAATAGTGGAATAGATTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
18306745 CCTATCT-CCTTGTCAGCAGTGGAATAGGTTGAAAATTGT-AAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
*
18306788 CCTATCTCCCTGGTCAGCAGTGGAATAGGCTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
18306832 CCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
18306876 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
18306920 CCTATCTCCCTGTTCAGCAGTGGAATAGGTTGAAAATTGT-AAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
* *
18306964 CCTATCTCCCTAGTCAGCAGTGGAATAGGTGGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
18307008 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
18307052 CCTACCTCCCTAAG-CAGCAGTGGAGTAGGTTGAA
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAA
18307086 AATAGCAGAT
Statistics
Matches: 377, Mismatches: 44, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
42 2 0.01
43 73 0.19
44 297 0.79
45 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:18307842 original size:21 final size:21
Alignment explanation
Indices: 18307817--18307860 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
18307807 ATCTTCAAGG
18307817 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
18307838 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
18307859 AT
1 AT
18307861 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:18307866 original size:19 final size:19
Alignment explanation
Indices: 18307816--18307871 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
18307806 AATCTTCAAG
18307816 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18307835 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
18307856 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
18307872 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18307878 original size:22 final size:23
Alignment explanation
Indices: 18307829--18307894 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
18307819 ATGCAATCTT
*
18307829 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
18307850 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
18307872 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
18307895 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:18307904 original size:22 final size:23
Alignment explanation
Indices: 18307860--18307904 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18307850 AGATATGATA
*
18307860 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
18307883 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
18307905 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:18315222 original size:15 final size:15
Alignment explanation
Indices: 18315202--18315230 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18315192 GATTAAAATT
18315202 TTAAATAAACTAATC
1 TTAAATAAACTAATC
18315217 TTAAATAAACTAAT
1 TTAAATAAACTAAT
18315231 TTATGTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAATAAACTAATC
Found at i:18320837 original size:159 final size:159
Alignment explanation
Indices: 18320548--18320865 Score: 521
Period size: 159 Copynumber: 2.0 Consensus size: 159
18320538 TACTCTTCAG
*
18320548 ACATGAACTTCAAAAATAAATAACTAAGTCACTTACCTAGCTTAATGAAGTTTAGAGGTAAATAA
1 ACATGAACTTCAAAAATAAATAACTAAGTCACTTACCTAGCTTAATAAAGTTTAGAGGTAAATAA
* * * * **
18320613 ACTAATGCAGATACCAGACATAAAGTGCAAAGGAACTCACCAGAATACTTTATTCAGAGTTTTAT
66 ACTAATGCAAATACCAGACACAAAGTACAAAGGAACTCACCAAAATACTTTATTCAGAACTTTAT
18320678 CTACTTTACTAGTTCTTTTCCTTTAGCAC
131 CTACTTTACTAGTTCTTTTCCTTTAGCAC
* * *
18320707 ACATGAACTTCAGAAATAAATAACTAAGTCACTTACCTGGCTTAATAAAGTTTAGAGGTAAATGA
1 ACATGAACTTCAAAAATAAATAACTAAGTCACTTACCTAGCTTAATAAAGTTTAGAGGTAAATAA
18320772 ACTAATGCAAATACCAGACACAAAGTACAAAGGAACTCACCAAAATACTTT-TCTCAGAACTTTA
66 ACTAATGCAAATACCAGACACAAAGTACAAAGGAACTCACCAAAATACTTTAT-TCAGAACTTTA
*
18320836 TCTACTTTACTGGTTCTTTTCCTTTAGCAC
130 TCTACTTTACTAGTTCTTTTCCTTTAGCAC
18320866 TGGGACCTTT
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
158 1 0.01
159 146 0.99
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (159 bp):
ACATGAACTTCAAAAATAAATAACTAAGTCACTTACCTAGCTTAATAAAGTTTAGAGGTAAATAA
ACTAATGCAAATACCAGACACAAAGTACAAAGGAACTCACCAAAATACTTTATTCAGAACTTTAT
CTACTTTACTAGTTCTTTTCCTTTAGCAC
Found at i:18324219 original size:21 final size:21
Alignment explanation
Indices: 18324193--18324254 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
18324183 CGGGTGGATT
* *
18324193 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTA
* * *
18324214 AGCTCTTTTGAGTTTCTATTA
1 AGCTCTTATGAGCTTCTGTTA
18324235 AGCTCTTATGAGCTTCTGTT
1 AGCTCTTATGAGCTTCTGTT
18324255 GACGATGTAC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTA
Found at i:18331551 original size:13 final size:13
Alignment explanation
Indices: 18331533--18331557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18331523 ATAACATTGA
18331533 AATTAATTTAATT
1 AATTAATTTAATT
18331546 AATTAATTTAAT
1 AATTAATTTAAT
18331558 CTCCTAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:18332883 original size:16 final size:17
Alignment explanation
Indices: 18332857--18332888 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18332847 TAATCCAAAA
18332857 TTTATGTTTTGGCATTT
1 TTTATGTTTTGGCATTT
18332874 TTTA-GTTTTGGCATT
1 TTTATGTTTTGGCATT
18332889 GCGATGGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.06, G:0.19, T:0.62
Consensus pattern (17 bp):
TTTATGTTTTGGCATTT
Found at i:18333317 original size:26 final size:26
Alignment explanation
Indices: 18333284--18333353 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 26
18333274 TTAATAGAAA
18333284 AAAAAATTTGTATATGGAATTACATT
1 AAAAAATTTGTATATGGAATTACATT
* *
18333310 CACAAATTTAAGTA-ATGGAATTACATT
1 AAAAAATTT--GTATATGGAATTACATT
*
18333337 AAAAAATTTGTTTATGG
1 AAAAAATTTGTATATGG
18333354 TTTTGATGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 2 0.06
26 11 0.31
27 20 0.56
28 3 0.08
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (26 bp):
AAAAAATTTGTATATGGAATTACATT
Found at i:18336994 original size:14 final size:14
Alignment explanation
Indices: 18336975--18337003 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18336965 AAATGTGGAC
18336975 ATATTCATGAAAGA
1 ATATTCATGAAAGA
18336989 ATATTCATGAAAGA
1 ATATTCATGAAAGA
18337003 A
1 A
18337004 GGTGTCCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATATTCATGAAAGA
Found at i:18341551 original size:9 final size:9
Alignment explanation
Indices: 18341537--18341655 Score: 121
Period size: 9 Copynumber: 12.6 Consensus size: 9
18341527 TTTGGTTAAA
18341537 AATTACCCG
1 AATTACCCG
*
18341546 AATTACCTG
1 AATTACCCG
*
18341555 AATTACCCAAA
1 AATTACCC--G
* *
18341566 AATTATCCA
1 AATTACCCG
18341575 AATTACCCG
1 AATTACCCG
18341584 AATTACCCG
1 AATTACCCG
*
18341593 AAAATTACCCA
1 --AATTACCCG
18341604 AATTACCCG
1 AATTACCCG
18341613 AATTACCCG
1 AATTACCCG
**
18341622 AAGATTACCTA
1 -A-ATTACCCG
18341633 AATTACCCG
1 AATTACCCG
18341642 AATTACCCG
1 AATTACCCG
18341651 AATTA
1 AATTA
18341656 AATCACTACA
Statistics
Matches: 92, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
9 69 0.75
10 2 0.02
11 21 0.23
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:18341578 original size:29 final size:29
Alignment explanation
Indices: 18341534--18341649 Score: 169
Period size: 29 Copynumber: 4.0 Consensus size: 29
18341524 ATTTTTGGTT
* *
18341534 AAAAATTACCCGAATTACCTGAATTACCC
1 AAAAATTACCCAAATTACCCGAATTACCC
*
18341563 AAAAATTATCCAAATTACCCGAATTACCC
1 AAAAATTACCCAAATTACCCGAATTACCC
*
18341592 GAAAATTACCCAAATTACCCGAATTACCC
1 AAAAATTACCCAAATTACCCGAATTACCC
* * *
18341621 GAAGATTACCTAAATTACCCGAATTACCC
1 AAAAATTACCCAAATTACCCGAATTACCC
18341650 GAATTAAATC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.23
Consensus pattern (29 bp):
AAAAATTACCCAAATTACCCGAATTACCC
Done.