Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 17 of 230
Found at i:4792507 original size:30 final size:30
Alignment explanation
Indices: 4792472--4792530 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
4792462 TTCAAAATTT
* *
4792472 CTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTATCAAATTCCTTCCAAAATCCTCTCAAA
4792502 CTATCAAATTCCTTCCAAAATCCTCTCAA
1 CTATCAAATTCCTTCCAAAATCCTCTCAA
4792531 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (30 bp):
CTATCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:4792617 original size:27 final size:26
Alignment explanation
Indices: 4792585--4792639 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 26
4792575 ATTAAATTTC
4792585 ATTTTTTAAGAAAATTTTAAAAATTTTT
1 ATTTTTTAA-AAAATTTT-AAAATTTTT
*
4792613 ATTTTTTAAATAATTTTAAAATTTTT
1 ATTTTTTAAAAAATTTTAAAATTTTT
4792639 A
1 A
4792640 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 10 0.38
27 7 0.27
28 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
ATTTTTTAAAAAATTTTAAAATTTTT
Found at i:4792646 original size:27 final size:28
Alignment explanation
Indices: 4792588--4792646 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
4792578 AAATTTCATT
*
4792588 TTTTAAGAAAATTTTAAAAATTTTTATT
1 TTTTAAGAAAATTTTAAAAATTTTTATA
*
4792616 TTTTAA-ATAATTTT-AAAATTTTTAATA
1 TTTTAAGAAAATTTTAAAAATTTTT-ATA
4792643 TTTT
1 TTTT
4792647 CAACAATGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 9 0.32
27 13 0.46
28 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
TTTTAAGAAAATTTTAAAAATTTTTATA
Found at i:4792756 original size:24 final size:24
Alignment explanation
Indices: 4792729--4792774 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
4792719 TTAAATTTAA
4792729 ATTT-TAAATTTTTAAGATATTTTT
1 ATTTATAAATTTTT-AGATATTTTT
**
4792753 ATTTATGTATTTTTAGATATTT
1 ATTTATAAATTTTTAGATATTT
4792775 ATTAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (24 bp):
ATTTATAAATTTTTAGATATTTTT
Found at i:4792785 original size:22 final size:24
Alignment explanation
Indices: 4792736--4792788 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
4792726 TAAATTTTAA
* *
4792736 ATTTTTAAGATATTTTTATTTATGT
1 ATTTTTAAGATA-TTTTATTAATAT
4792761 ATTTTT-AGATA-TTTATTAATAT
1 ATTTTTAAGATATTTTATTAATAT
4792783 ATTTTT
1 ATTTTT
4792789 TGTTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 15 0.58
24 5 0.19
25 6 0.23
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATTTTTAAGATATTTTATTAATAT
Found at i:4792789 original size:24 final size:23
Alignment explanation
Indices: 4792737--4792789 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
4792727 AAATTTTAAA
*
4792737 TTTTTAAGATATTTTTATTTATG
1 TTTTTAAGATATTTTTATATATG
*
4792760 TATTTTTAGATATTTATTAATATAT-
1 T-TTTTAAGATATTT-TT-ATATATG
4792785 TTTTT
1 TTTTT
4792790 GTTATAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.04
24 16 0.64
25 3 0.12
26 5 0.20
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (23 bp):
TTTTTAAGATATTTTTATATATG
Found at i:4794940 original size:17 final size:18
Alignment explanation
Indices: 4794918--4794952 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4794908 TAAAATCCCT
4794918 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
4794935 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
4794953 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:4794940 original size:23 final size:23
Alignment explanation
Indices: 4794906--4795146 Score: 134
Period size: 28 Copynumber: 9.9 Consensus size: 23
4794896 ACATTATTTG
* *
4794906 ATTAAAATCCCTAACCCTACTTA
1 ATTAAAAACCCTAACCCTAATTA
**
4794929 ATTAAAAACCCTAA-TTTAATTAA
1 ATTAAAAACCCTAACCCTAATT-A
4794952 ATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAACCCTAA-C---CCTAA-TTA
*
4794980 ATTAAAAACCCTAACCTAACCTACTTAA
1 ATTAAAAACCCTAA-C---CCTAATT-A
*
4795008 ATTAAAAACCCTAACCTTATTTAATTAA
1 ATTAAAAACCCTAACC----CTAATT-A
** **
4795036 ATTAAAAACCCTAATTCTGCTTA
1 ATTAAAAACCCTAACCCTAATTA
**
4795059 ATT-AAAA-CCTAA-TTTAATTA
1 ATTAAAAACCCTAACCCTAATTA
*
4795079 ATTAAAAACCCTAACCTATTTAATTAA
1 ATTAAAAACCCTAACC---CTAATT-A
*
4795106 ATTAAAAACCCTAA-CCTACTTA
1 ATTAAAAACCCTAACCCTAATTA
4795128 ATTAAAAA-CCTAACCCTAA
1 ATTAAAAACCCTAACCCTAA
4795147 CCTAACCTAA
Statistics
Matches: 177, Mismatches: 21, Indels: 41
0.74 0.09 0.17
Matches are distributed among these distances:
20 8 0.05
21 14 0.08
22 26 0.15
23 36 0.20
24 4 0.02
26 7 0.04
27 18 0.10
28 62 0.35
29 2 0.01
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.31
Consensus pattern (23 bp):
ATTAAAAACCCTAACCCTAATTA
Found at i:4794969 original size:28 final size:28
Alignment explanation
Indices: 4794938--4795807 Score: 728
Period size: 28 Copynumber: 31.5 Consensus size: 28
4794928 AATTAAAAAC
4794938 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
** *
4794966 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
** *
4794994 CCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
4795022 CCTTATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* **
4795050 --T--TCTGCTT-AATT-AAAA-CCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
**
4795071 TTTAA-TTAATT-A----AAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
4795093 CCT-ATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* *
4795120 CCT-ACTTAATTAAA--AACCTAACCCTAA
1 CCTAATTTAATTAAATTAA--AAACCCTAA
** *
4795147 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
4795175 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
** *
4795203 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
** *
4795231 CCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
4795259 CCTTATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* *
4795287 CC----CTACTT-AATTAAAAACCCT-A
1 CCTAATTTAATTAAATTAAAAACCCTAA
4795309 ---A-TTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
4795333 CCTTATTTAATTAAATTAAAAACCCTAAA
1 CCTAATTTAATTAAATTAAAAACCCT-AA
* *
4795362 CCCT-ACTTAATTAAA--AACCCTAACCCTAA
1 -CCTAATTTAATTAAATTAA---AAACCCTAA
** *
4795391 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
4795419 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
** * *
4795447 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAATTTAATTAAATTAAAAACCCTAA
** *
4795475 CCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
4795503 CCTTATTTAATTAAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAATT--AAA----AACCCTAA
4795537 CCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
*
4795565 CCTTATTTAATTAAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAATT--AAA----AACCCTAA
4795599 CCTAATTTAATTAAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAATT--AAA----AACCCTAA
*
4795633 CCTAATTTAATTAAATTAAAAACTCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* *
4795661 CCTTATTTAATTAAATTTAAAACCCTAAA
1 CCTAATTTAATTAAATTAAAAACCCT-AA
* *
4795690 CC----CTACTT-AATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
4795713 CCTAA--T--TT-AATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
* *
4795736 CCTAATTTCATTAAA--AACCCTAACCCTAA
1 CCTAATTTAATTAAATTAA---AAACCCTAA
*
4795765 CCTAATTTTATTAAATTAAAAACCCTAA
1 CCTAATTTAATTAAATTAAAAACCCTAA
4795793 CCCT-ATTTAATTAAA
1 -CCTAATTTAATTAAA
4795808 AACCCTAATT
Statistics
Matches: 711, Mismatches: 72, Indels: 118
0.79 0.08 0.13
Matches are distributed among these distances:
21 10 0.01
22 21 0.03
23 58 0.08
24 25 0.04
25 8 0.01
26 3 0.00
27 38 0.05
28 387 0.54
29 52 0.07
30 17 0.02
31 4 0.01
32 6 0.01
34 82 0.12
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (28 bp):
CCTAATTTAATTAAATTAAAAACCCTAA
Found at i:4795071 original size:21 final size:21
Alignment explanation
Indices: 4795026--4795140 Score: 79
Period size: 21 Copynumber: 5.0 Consensus size: 21
4795016 CCCTAACCTT
4795026 ATTTAATTAAATTAAAAACCCTA
1 ATTTAATT-AATT-AAAACCCTA
**
4795049 ATTCTGCTTAATTAAAA-CCTA
1 ATT-TAATTAATTAAAACCCTA
4795070 ATTTAATTAATTAAAAACCCTAA
1 ATTTAATTAATT-AAAACCCT-A
4795093 CCTATTTAATTAAATTAAAAACCCTA
1 ---ATTTAATT-AATT-AAAACCCTA
** * *
4795119 ACCTACTTAATTAAAAACCTA
1 ATTTAATTAATTAAAACCCTA
4795140 A
1 A
4795141 CCCTAACCTA
Statistics
Matches: 76, Mismatches: 8, Indels: 18
0.75 0.08 0.18
Matches are distributed among these distances:
20 7 0.09
21 20 0.26
22 11 0.14
23 13 0.17
24 3 0.04
26 9 0.12
27 13 0.17
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (21 bp):
ATTTAATTAATTAAAACCCTA
Found at i:4795174 original size:23 final size:23
Alignment explanation
Indices: 4795147--4795347 Score: 152
Period size: 23 Copynumber: 7.9 Consensus size: 23
4795137 CTAACCCTAA
4795147 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
4795170 CCTAACCTAATTTAATTAAATTAAAAACCC
1 CCTAACCTAA--T--TT-AATTAAAAA--C
4795200 TAACCTAACCTAATTTAATTAAAAAC
1 ---CCTAACCTAATTTAATTAAAAAC
4795226 CCTAACCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAA--T--TT-AATTAAAAAC
*
4795254 CCTAACCTTATTTAATTAAATTAAAAAC
1 CCTAACC-----TAATTTAATTAAAAAC
*
4795282 CCTAACCCT-ACTTAATTAAAAAC
1 CCTAA-CCTAATTTAATTAAAAAC
** *
4795305 CCTAATTTAATTAAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
*
4795328 CCTAACCTTATTTAATTAAA
1 CCTAACCTAATTTAATTAAA
4795348 TTAAAAACCC
Statistics
Matches: 145, Mismatches: 11, Indels: 44
0.73 0.05 0.22
Matches are distributed among these distances:
22 1 0.01
23 65 0.45
24 1 0.01
25 2 0.01
26 1 0.01
27 4 0.03
28 50 0.34
29 5 0.03
30 1 0.01
31 2 0.01
33 13 0.09
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (23 bp):
CCTAACCTAATTTAATTAAAAAC
Found at i:4795307 original size:17 final size:18
Alignment explanation
Indices: 4795285--4795319 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4795275 TAAAAACCCT
4795285 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
4795302 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
4795320 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:4795564 original size:62 final size:62
Alignment explanation
Indices: 4795411--4795807 Score: 374
Period size: 62 Copynumber: 6.8 Consensus size: 62
4795401 TTTAATTAAA
* ** *
4795411 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCT
* *
4795473 -AGCCTAACC-----TACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCT
4795529 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCT
4795591 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAA-
1 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAA-CCT----T-ATTTAATTAAATTAAAAAC
4795655 -CT
60 CCT
* * * *
4795657 ----CTAACCTTATTTAATTAAATTTAAAACCCTAAACC----CTACTT-AATT--AAA----
1 AACCCTAACCTAATTTAATTAAATTAAAAACCCT-AACCTTATTTAATTAAATTAAAAACCCT
* *
4795705 AACCCTAACCTAA--T--TT-AATTAAAAACCCTAACCTAATTT--C---ATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCT
* *
4795757 AACCCTAACCTAATTTTATTAAATTAAAAACCCTAACCCTATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTAATTAAA
4795808 AACCCTAATT
Statistics
Matches: 279, Mismatches: 19, Indels: 74
0.75 0.05 0.20
Matches are distributed among these distances:
46 7 0.03
47 12 0.04
48 5 0.02
50 5 0.02
52 25 0.09
53 4 0.01
54 1 0.00
56 44 0.16
57 29 0.10
61 8 0.03
62 113 0.41
63 5 0.02
66 2 0.01
67 1 0.00
68 18 0.06
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (62 bp):
AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCT
Found at i:4795764 original size:24 final size:23
Alignment explanation
Indices: 4795640--4795760 Score: 127
Period size: 23 Copynumber: 5.0 Consensus size: 23
4795630 TAACCTAATT
* *
4795640 TAATTAAATTAAAAACTCTAACC
1 TAATTTAATTAAAAACCCTAACC
*
4795663 TTATTTAATTAAATTTAAAACCCTAAACCC
1 TAATTTAATT--A---AAAACCCT-AA-CC
*
4795693 T-ACTTAATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
4795715 TAATTTAATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
*
4795738 TAATTTCATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
4795761 CTAACCTAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.04
23 52 0.62
24 8 0.10
25 1 0.01
27 1 0.01
28 7 0.08
29 9 0.11
30 3 0.04
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.31
Consensus pattern (23 bp):
TAATTTAATTAAAAACCCTAACC
Found at i:4795792 original size:23 final size:23
Alignment explanation
Indices: 4795765--4795817 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
4795755 CTAACCCTAA
*
4795765 CCTAATTTTATTAAATTAAAAAC
1 CCTAATTCTATTAAATTAAAAAC
** *
4795788 CCTAACCCTATTTAATTAAAAAC
1 CCTAATTCTATTAAATTAAAAAC
4795811 CCTAATT
1 CCTAATT
4795818 AAATTGTAGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (23 bp):
CCTAATTCTATTAAATTAAAAAC
Found at i:4799153 original size:125 final size:125
Alignment explanation
Indices: 4798978--4799241 Score: 374
Period size: 125 Copynumber: 2.1 Consensus size: 125
4798968 ATCGCGTCCA
*
4798978 CTCAGAAACGTCAAAAAAAAATTATTTCTTACATGACCAACTGTAGCGAAATCGCGTCCACGAGG
1 CTCAGAAACGTCAAAAAAAAATTATTTCTCACATGACCAACTGTAGCGAAATCGCGTCCACGAGG
* * * **
4799043 ACGCGATTTCACAATTTCTT-TTCATATAGCATCCTGGTATCAGCGATTTTATACTATTTC
66 ACACGATTTCACAATTTCTTCTT-AAATAGCATCCTAGTAGAAGCGATTTTATACTATTTC
4799103 CTCAGAAAACGTCAAAAAAAAATTATTTCTCACATGACC-ACTGTAGCGAAATCGCGTCCACGAG
1 CTCAG-AAACGTCAAAAAAAAATTATTTCTCACATGACCAACTGTAGCGAAATCGCGTCCACGAG
* * * *
4799167 GCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGCGATTTCT-CACTATTTAA
65 GACACGATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGCGATTT-TATACTATTT-C
4799229 C-CAGAAACGTCAA
1 CTCAGAAACGTCAA
4799242 CTCGAAAAAA
Statistics
Matches: 125, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
124 9 0.07
125 80 0.64
126 36 0.29
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (125 bp):
CTCAGAAACGTCAAAAAAAAATTATTTCTCACATGACCAACTGTAGCGAAATCGCGTCCACGAGG
ACACGATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGCGATTTTATACTATTTC
Found at i:4800877 original size:3 final size:3
Alignment explanation
Indices: 4800869--4800933 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
4800859 AGTGAGTAAG
4800869 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4800917 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
4800934 AACTCACAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4803950 original size:43 final size:45
Alignment explanation
Indices: 4803903--4803994 Score: 118
Period size: 43 Copynumber: 2.1 Consensus size: 45
4803893 TGAATATAAT
**
4803903 AAATA-TATTTTTTTTTTATTTTTTATTTTTAAAA-A-TATTTTTA
1 AAATACTATTTTTTAATT-TTTTTTATTTTTAAAATACTATTTTTA
* *
4803946 AAATACTGTTTTTTAATTTTTTTTATTTTTAAAATACTTTTTTTA
1 AAATACTATTTTTTAATTTTTTTTATTTTTAAAATACTATTTTTA
4803991 AAAT
1 AAAT
4803995 TTTTTAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 21 0.50
44 10 0.24
45 11 0.26
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (45 bp):
AAATACTATTTTTTAATTTTTTTTATTTTTAAAATACTATTTTTA
Found at i:4803990 original size:30 final size:31
Alignment explanation
Indices: 4803938--4804000 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
4803928 TTTTTAAAAA
**
4803938 TATTTTTAAAATACTGTTTTTTAATTTTTTT
1 TATTTTTAAAATACTGTTTTTTAAAATTTTT
4803969 TATTTTTAAAATACT-TTTTTTAAAATTTTT
1 TATTTTTAAAATACTGTTTTTTAAAATTTTT
4803999 TA
1 TA
4804001 AAAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (31 bp):
TATTTTTAAAATACTGTTTTTTAAAATTTTT
Found at i:4806467 original size:51 final size:51
Alignment explanation
Indices: 4806407--4806596 Score: 249
Period size: 51 Copynumber: 3.7 Consensus size: 51
4806397 TATCGATGAA
4806407 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGGTAAATAATGGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGGTAAATAATGGT
*
4806458 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGGTAAATAATGGT
* * ** * ** * *
4806509 CACATGTGTAGCACTAAGTGAAGGCTACTATGTGTACCGAG-AAGCT-TTGGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTG-GTAA-ATAATGGT
*
4806560 CACGTGCGTAGTACTGTGTGAAGGCTACTACGTGTAT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAT
4806597 CGAATTATTA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
51 118 0.99
52 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGGTAAATAATGGT
Found at i:4806622 original size:51 final size:51
Alignment explanation
Indices: 4806411--4806632 Score: 241
Period size: 51 Copynumber: 4.4 Consensus size: 51
4806401 GATGAACACG
* * *
4806411 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGGTAAATAATGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
*
4806462 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
* ** * * * * * *
4806513 TGTGTAGCACTAAGTGAAGGCTACTATGTGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAA-ATAATGGTCACA
* * * * *
4806564 TGCGTAGTACTGTGTGAAGGCTACTACGTGTATCGAATTATTAA-AGTAACA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCG-ATAAATAATGGTCACA
*
4806615 TGGGTAGTACTGTGTGAA
1 TGTGTAGTACTGTGTGAA
4806633 AATCCCCAAA
Statistics
Matches: 142, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
51 139 0.98
52 3 0.02
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
Found at i:4818688 original size:23 final size:23
Alignment explanation
Indices: 4818638--4818710 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
4818628 TACAATATCC
* * **
4818638 AAACAATATTAAAAGCGGCAACG
1 AAACAACATTAAAAGCAGCAGTG
*
4818661 GAACAACATTAAAAGCAGCAGTG
1 AAACAACATTAAAAGCAGCAGTG
*
4818684 AAACAACATTAAAAAGGA-CAGTG
1 AAACAACATT-AAAAGCAGCAGTG
4818707 AAAC
1 AAAC
4818711 TGCACCAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 36 0.86
24 6 0.14
ACGTcount: A:0.53, C:0.16, G:0.18, T:0.12
Consensus pattern (23 bp):
AAACAACATTAAAAGCAGCAGTG
Found at i:4821411 original size:17 final size:17
Alignment explanation
Indices: 4821389--4821431 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4821379 CTTCTTAATG
4821389 AAAAAAAACTAAATAAC
1 AAAAAAAACTAAATAAC
* * *
4821406 AAAAAAGATTAAATTAC
1 AAAAAAAACTAAATAAC
*
4821423 AAACAAAAC
1 AAAAAAAAC
4821432 CGAACTAACA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.72, C:0.12, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAAAAAACTAAATAAC
Found at i:4833786 original size:59 final size:58
Alignment explanation
Indices: 4833713--4833911 Score: 206
Period size: 59 Copynumber: 3.3 Consensus size: 58
4833703 AATACTAAGA
*
4833713 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
* ** * * * * *
4833772 ATTTTATAGTATTATATA-TTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGA
1 ATTTTATA-TATTATATATTTTTG-TTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-T
*
4833833 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
4833892 ATTTTATAATATTATATATT
1 ATTTTAT-ATATTATATATT
4833912 ATAATTTTAG
Statistics
Matches: 110, Mismatches: 19, Indels: 22
0.73 0.13 0.15
Matches are distributed among these distances:
58 12 0.11
59 45 0.41
60 14 0.13
61 28 0.25
62 11 0.10
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (58 bp):
ATTTTATATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
Found at i:4833855 original size:18 final size:17
Alignment explanation
Indices: 4833833--4833967 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
4833823 AATATTAAGA
4833833 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
4833850 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
4833866 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
4833880 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
4833899 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
4833915 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
4833933 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
4833950 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
4833968 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 20 0.22
18 41 0.45
19 1 0.01
20 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:4833863 original size:120 final size:120
Alignment explanation
Indices: 4833691--4833933 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
4833681 TGATACAATC
4833691 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* *
4833756 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
*
4833811 ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
4833876 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
4833931 ATA
1 ATA
4833934 TTTTATTAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:4833886 original size:26 final size:25
Alignment explanation
Indices: 4833848--4833906 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
4833838 ATTAAATTAT
*
4833848 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
4833874 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
4833900 ATATTAT
1 ATATTAT
4833907 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:4833905 original size:15 final size:15
Alignment explanation
Indices: 4833861--4833916 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
4833851 TTTTTGTTAA
*
4833861 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
4833876 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
4833887 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
4833902 ATTATATATTATAAT
1 ATTATATTTTATAAT
4833917 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:4833934 original size:41 final size:41
Alignment explanation
Indices: 4833712--4833952 Score: 136
Period size: 41 Copynumber: 5.9 Consensus size: 41
4833702 TAATACTAAG
* *
4833712 AATTTTATTAAATTATATATTTTTGTTAA-ATTATAT-TTAAT
1 AATTTTAGTAAATTATATA-TTTT-ATAATATTATATATTAAT
** *
4833753 AATAATTATTTTAAA-T-TATATTTTATAGTATTATATATT-AT
1 AAT--TT-TAGTAAATTATATATTTTATAATATTATATATTAAT
* * *
4833794 GATTTTAGTAAATTCATATA----AGAATATT-TAATATTAAG
1 AATTTTAGTAAATT-ATATATTTTATAATATTAT-ATATTAAT
* *
4833832 AATTTTATTAAATTATATATTTTTGTTAA-ATTATAT-TTAAT
1 AATTTTAGTAAATTATATA-TTTT-ATAATATTATATATTAAT
**
4833873 AATAATTATTTTAAA-T-TATATTTTATAATATTATATATT-AT
1 AAT--TT-TAGTAAATTATATATTTTATAATATTATATATTAAT
4833914 AATTTTAGTAAATTCATATATTTTATTAA-ATTATATATT
1 AATTTTAGTAAATT-ATATATTTTA-TAATATTATATATT
4833953 TTTATTAAAT
Statistics
Matches: 156, Mismatches: 18, Indels: 52
0.69 0.08 0.23
Matches are distributed among these distances:
36 1 0.01
37 16 0.10
38 23 0.15
39 6 0.04
40 5 0.03
41 64 0.41
42 20 0.13
43 9 0.06
44 12 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (41 bp):
AATTTTAGTAAATTATATATTTTATAATATTATATATTAAT
Found at i:4833968 original size:28 final size:27
Alignment explanation
Indices: 4833937--4833992 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
4833927 TCATATATTT
* *
4833937 TATTAAATTATATATTTTTATTAAATTA
1 TATTAAATAATA-ATTTTTAATAAATTA
* *
4833965 TATTTAATAATAATTTTTAATCAATTA
1 TATTAAATAATAATTTTTAATAAATTA
4833992 T
1 T
4833993 TAATTTTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTAAATAATAATTTTTAATAAATTA
Found at i:4834154 original size:21 final size:21
Alignment explanation
Indices: 4834130--4834184 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
4834120 TACCACTGTT
4834130 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACTGCTACAGTA
*
4834151 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACTGCTACAGTA
*
4834172 CCTAATCTCACTG
1 TCTAATCTCACTG
4834185 TCACCGCTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.33, G:0.09, T:0.31
Consensus pattern (21 bp):
TCTAATCTCACTGCTACAGTA
Found at i:4838968 original size:3 final size:3
Alignment explanation
Indices: 4838960--4838997 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4838950 TATTTGAAAA
4838960 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4838998 ATCACCACCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4846090 original size:44 final size:43
Alignment explanation
Indices: 4846027--4846234 Score: 218
Period size: 44 Copynumber: 4.7 Consensus size: 43
4846017 ATTGAACACA
*
4846027 ACCTATTCCCTTACTGGTCAGGGAGCTAGGACTTGCAATCTTCC
1 ACCTATTCCC-TGCTGGTCAGGGAGCTAGGACTTGCAATCTTCC
* * *** *
4846071 ACCTATTCCCTTGCTGGTCAGGGAACTAGGGCTTGTGGTTTCTTCT
1 ACCTATTCCC-TGCTGGTCAGGGAGCTAGGAC-T-TGCAATCTTCC
*
4846117 TCCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTTCC
1 ACCTATTCC-CTGCTGGTCAGGGAGCTAGGACTTGCAATCTTCC
** * * * *
4846161 ACCTATTCCACTGCTTTTCAGGGAACTAGGGCTTTCAGTCTTCC
1 ACCTATTCC-CTGCTGGTCAGGGAGCTAGGACTTGCAATCTTCC
*
4846205 ACCTATTCTACTGCTGGTCAGGGAGCTAGG
1 ACCTATTC-CCTGCTGGTCAGGGAGCTAGG
4846235 TTTTTGTGAT
Statistics
Matches: 135, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
44 98 0.73
45 2 0.01
46 34 0.25
47 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (43 bp):
ACCTATTCCCTGCTGGTCAGGGAGCTAGGACTTGCAATCTTCC
Found at i:4846182 original size:90 final size:88
Alignment explanation
Indices: 4846027--4846234 Score: 287
Period size: 90 Copynumber: 2.3 Consensus size: 88
4846017 ATTGAACACA
*
4846027 ACCTATTCC-CTTACTGGTCAGGGAGCTAGGACTTGCAATCTTCCACCTATTCCCTTGCTGGTCA
1 ACCTATTCCAC-TGCTGGTCAGGGAGCTAGGACTTGCAATCTTCCACCTATTCCCTTGCTGGTCA
* *
4846091 GGGAACTAGGGCTTGT-GGTTTCTTCT
65 GGGAACTAGGGCTT-TCAG--TCTTCC
* **
4846117 TCCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTTCCACCTATTCCAC-TGCTTTTCA
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTTCCACCTATTCC-CTTGCTGGTCA
4846181 GGGAACTAGGGCTTTCAGTCTTCC
65 GGGAACTAGGGCTTTCAGTCTTCC
*
4846205 ACCTATTCTACTGCTGGTCAGGGAGCTAGG
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGG
4846235 TTTTTGTGAT
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
88 33 0.31
89 1 0.01
90 71 0.66
91 2 0.02
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (88 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTTCCACCTATTCCCTTGCTGGTCAG
GGAACTAGGGCTTTCAGTCTTCC
Found at i:4849893 original size:18 final size:18
Alignment explanation
Indices: 4849870--4849921 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 18
4849860 TACACACATA
4849870 TATACACATATATGAAAG
1 TATACACATATATGAAAG
4849888 TAT--ACATATA--AAA-
1 TATACACATATATGAAAG
4849901 TAAATACACATATATGAAAG
1 T--ATACACATATATGAAAG
4849921 T
1 T
4849922 TTGAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
13 1 0.04
14 3 0.11
15 2 0.07
16 7 0.26
17 7 0.26
18 3 0.11
19 3 0.11
20 1 0.04
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.29
Consensus pattern (18 bp):
TATACACATATATGAAAG
Found at i:4851059 original size:20 final size:20
Alignment explanation
Indices: 4851034--4851072 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4851024 CGTTTGGTGC
4851034 CAAAGAAGAA-AAAAAAGAAT
1 CAAAG-AGAATAAAAAAGAAT
*
4851054 CAAAGAGAATGAAAAAGAA
1 CAAAGAGAATAAAAAAGAA
4851073 AAGAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.72, C:0.05, G:0.18, T:0.05
Consensus pattern (20 bp):
CAAAGAGAATAAAAAAGAAT
Found at i:4865491 original size:14 final size:15
Alignment explanation
Indices: 4865458--4865509 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
4865448 AATTATTTTC
*
4865458 CTATTATTTATTATA
1 CTATTATTTATTACA
*
4865473 CTATT-TTTTTTACA
1 CTATTATTTATTACA
*
4865487 CTATTATTTATTATA
1 CTATTATTTATTACA
4865502 CTTATTAT
1 C-TATTAT
4865510 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 12 0.39
15 13 0.42
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
CTATTATTTATTACA
Found at i:4867558 original size:19 final size:20
Alignment explanation
Indices: 4867518--4867561 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
4867508 GTTTCTTTTG
* *
4867518 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
4867537 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
4867556 GCATTA
1 GCATTA
4867562 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:4871803 original size:86 final size:86
Alignment explanation
Indices: 4871691--4872023 Score: 522
Period size: 86 Copynumber: 3.9 Consensus size: 86
4871681 AACCTTTTCT
* * * * * *
4871691 CTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATTTTGCCTTCCTACATTGACAGCGAAGCA
1 CTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCA
4871756 GATCGAAGACAAACCTTGCCA
66 GATCGAAGACAAACCTTGCCA
*
4871777 CTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCA
1 CTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCA
4871842 GATCGAAGACAAACCTTGCCA
66 GATCGAAGACAAACCTTGCCA
* *
4871863 CTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCA
1 CTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCA
*
4871928 GATCGAAGACAAACCTTGCCT
66 GATCGAAGACAAACCTTGCCA
* * * * *
4871949 CTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGC
1 CTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCA-TTGACAGCGAAGC
4872014 AGATCGAAGA
65 AGATCGAAGA
4872024 TGGCAGATTT
Statistics
Matches: 230, Mismatches: 16, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
86 209 0.91
87 21 0.09
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (86 bp):
CTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCA
GATCGAAGACAAACCTTGCCA
Found at i:4871805 original size:41 final size:41
Alignment explanation
Indices: 4871760--4871891 Score: 99
Period size: 41 Copynumber: 3.1 Consensus size: 41
4871750 GAAGCAGATC
4871760 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTT
* * * * * * * * *
4871801 GAAGATAGCAGATCTTGCC-TTC-CTGCATTGACAG-CGAAGCAGATC
1 GAAG--A-CAAACCTTGCCACTCTC-G-TTTG-TAGTAG-AGCTGGTT
4871846 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTT
4871887 GAAGA
1 GAAGA
4871892 TAGCAGATCT
Statistics
Matches: 63, Mismatches: 18, Indels: 20
0.62 0.18 0.20
Matches are distributed among these distances:
41 16 0.25
42 14 0.22
43 8 0.13
44 14 0.22
45 11 0.17
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (41 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTT
Found at i:4871861 original size:42 final size:42
Alignment explanation
Indices: 4871814--4871948 Score: 98
Period size: 42 Copynumber: 3.2 Consensus size: 42
4871804 GATAGCAGAT
4871814 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
4871856 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAG--A-CAAAC
*
4871900 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
4871942 CTTGCCT
1 CTTGCCT
4871949 CTCTCGTTTG
Statistics
Matches: 64, Mismatches: 19, Indels: 20
0.62 0.18 0.19
Matches are distributed among these distances:
40 1 0.02
41 13 0.20
42 21 0.33
43 2 0.03
44 13 0.20
45 13 0.20
46 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
Found at i:4872099 original size:45 final size:45
Alignment explanation
Indices: 4872048--4872244 Score: 118
Period size: 45 Copynumber: 4.4 Consensus size: 45
4872038 TCCCTGACAA
*
4872048 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
* ** * *
4872093 CAGTGGAATAGATTGAAGATTGCA-GA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAG-CCG-ATAATTCTAT--CTCCCTGTATTTGG
* * ** ** ** * * ***
4872139 CAGCGAAGTAGATCAAAGATGGCAGATTTTACCTCCCTG-A--CCA
1 CAGTGGAGTAGATTGAAGCCGATA-ATTCTATCTCCCTGTATTTGG
*
4872182 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
*
4872227 CAGTGGAATAGATTGAAG
1 CAGTGGAGTAGATTGAAG
4872245 AAAGCAGATC
Statistics
Matches: 105, Mismatches: 36, Indels: 22
0.64 0.22 0.13
Matches are distributed among these distances:
42 12 0.11
43 16 0.15
44 1 0.01
45 38 0.36
46 35 0.33
47 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (45 bp):
CAGTGGAGTAGATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
Found at i:4872211 original size:134 final size:134
Alignment explanation
Indices: 4871971--4872290 Score: 520
Period size: 134 Copynumber: 2.4 Consensus size: 134
4871961 GCAGAGCTGG
* * *
4871971 TTGAAGATAT-CAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATGGCAGATTTT
4872035 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
4872100 ATAGA
130 ATAGA
*
4872105 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATGGCAGATTTTA
*
4872170 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
4872235 TAGA
131 TAGA
** * * *
4872239 TTGAAGAAAGCAGATCTTGTCTTCATGTA-TTGGC-GTGAAGTAGATCGAAGAT
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
4872291 AGTAGGTCCT
Statistics
Matches: 174, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
132 16 0.09
133 6 0.03
134 152 0.87
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATGGCAGATTTTA
CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:4872289 original size:44 final size:44
Alignment explanation
Indices: 4872235--4872816 Score: 340
Period size: 44 Copynumber: 13.2 Consensus size: 44
4872225 GGCAGTGGAA
* * *
4872235 TAGATTGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGCGTGAAG
* * * * * **
4872279 TAGATCGAAGATAGTAGGTCCTATCTTCCTATATTGATAG-GAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTG-GCGTGAAG
* * ** * * *
4872323 TGGATCCAAG-GTGCAGATCTTGTCTTCCCATATTGGTGGCGAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGG-CGTGAAG
* * * *
4872367 TAGATCGCAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGCGTGAAG
* * * * * **
4872411 TAGATCGAAGATAGTAGGTCCTATCTTCCTATATTGATAG-GAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTG-GCGTGAAG
* * * * * *
4872455 TGGATCCAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGG-CGTGAAG
* * *
4872499 TAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGCGTGAAG
* * * * * **
4872543 TAGATCAAAGATAA-CAGGTCCTATCTTCCTATAAT-GATTGGAAG
1 TAGATCGAAGA-AAGCAGATCTTGTCTTCCTATATTGGCGT-GAAG
* * * * * *
4872587 TGGATCGACG-ACGCAGATCTTGTCTTCCCATATTGGTGGCGAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGG-CGTGAAG
* * * *
4872631 TAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGCGAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGCGTGAAG
* * * * * **
4872675 TAGATCAAAGATAA-CAGGTCCTATCTTCCTATAAT-GATTGGAAG
1 TAGATCGAAGA-AAGCAGATCTTGTCTTCCTATATTGGCGT-GAAG
* * * * * * *
4872719 TGGATCGACG-ACGCAGATTTTGTCTTCCCATATTGGTGGTAAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGG-CGTGAAG
* * * * *
4872763 TAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTTGCATGAAG
1 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGCGTGAAG
4872806 TAGATCGAAGA
1 TAGATCGAAGA
4872817 TTACAGTCTT
Statistics
Matches: 389, Mismatches: 129, Indels: 41
0.70 0.23 0.07
Matches are distributed among these distances:
42 2 0.01
43 87 0.22
44 218 0.56
45 82 0.21
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGCGTGAAG
Found at i:4872382 original size:132 final size:132
Alignment explanation
Indices: 4872243--4872835 Score: 911
Period size: 132 Copynumber: 4.5 Consensus size: 132
4872233 AATAGATTGA
**
4872243 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTATCTTCC
1 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTATCTTCC
* **
4872308 TATATTGATAGGAAGTGGATCCAAGGTGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
66 TATAATGATAGGAAGTGGATCCAAGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
4872373 GC
131 GC
* **
4872375 AGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTATCTTCC
1 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTATCTTCC
* *
4872440 TATATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
66 TATAATGATAGGAAGTGGATCCAAGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
4872505 GC
131 GC
*
4872507 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCC
1 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTATCTTCC
* * *
4872572 TATAATGATTGGAAGTGGATCGACGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
66 TATAATGATAGGAAGTGGATCCAAGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
4872637 GC
131 GC
* *
4872639 AGAAAGCAGATCTTGTCTTCATGTATTGGCGCGAAGTAGATCAAAGATAACAGGTCCTATCTTCC
1 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTATCTTCC
* * * * **
4872704 TATAATGATTGGAAGTGGATCGACGACGCAGATTTTGTCTTCCCATATTGGTGGTAAAGTAGATC
66 TATAATGATAGGAAGTGGATCCAAGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
*
4872769 GA
131 GC
* * * * * *
4872771 AGAAAGTAGATCTTGTC-TCATGTATTTGCATGAAGTAGATCGAAGATTACA-GTCTTATCTCCC
1 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTATCTTCC
4872834 TA
66 TA
4872836 AGTAGTAGTG
Statistics
Matches: 437, Mismatches: 24, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
130 12 0.03
131 29 0.07
132 396 0.91
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (132 bp):
AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTATCTTCC
TATAATGATAGGAAGTGGATCCAAGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
GC
Found at i:4874943 original size:14 final size:15
Alignment explanation
Indices: 4874910--4874961 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
4874900 AATTATTTTC
*
4874910 CTATTATTTATTATA
1 CTATTATTTATTACA
*
4874925 CTATT-TTTTTTACA
1 CTATTATTTATTACA
*
4874939 CTATTATTTATTATA
1 CTATTATTTATTACA
4874954 CTTATTAT
1 C-TATTAT
4874962 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 12 0.39
15 13 0.42
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
CTATTATTTATTACA
Found at i:4876981 original size:44 final size:44
Alignment explanation
Indices: 4876255--4876979 Score: 779
Period size: 44 Copynumber: 16.5 Consensus size: 44
4876245 CATTTAATCA
* *
4876255 GCTGGTCAGGGAACTAGGCTTTACAATCTTCCGCCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* ** ** * *
4876299 GCTGGTCAGGGAACTAAGACTTGTAGTCTTCCACCTATTCCAAT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* *
4876343 GCTGGTCAGGGAACTAGGTTTTATAATCTTCCGCCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
** * *
4876387 GCTGGTCAGGGAACTAGGACTTGCAGTCTTCCACCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
***
4876431 GCTGGTCAGGGAACTAGGTTTTACAATCTTTTGCCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* ** * *
4876475 ACTGGTCAGGGAACTAGGACTTGCAGTCTTCCACCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* * * *
4876519 GCTGGTCAAGGAACTAGGTTTTATAATCTTTCGCCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* * * *
4876563 GTTGGTCAGGGAAATAGGTTTGACAATCTTTCACCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* * ** * *
4876607 GCTGTTCAGGGAGCTAGGACTTATAGTCTTCCACCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
*
4876651 GCTGGTCAGGGAACTAGGTTTTACAATCATT-CGCCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATC-TTCCACCTATTCCACT
* * * * ** *
4876695 GCTGTTTAGGGAGCAAGGACTTACAGTCTTCCACCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
**
4876739 GCTGGTCAGGGAACTAGGTTTTACAATCTT-TGCCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* * ** *
4876782 GCTGTTCAGGGAGCTAGGACTTACAGTCTTCCACCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* *** * *
4876826 GCTGGTCAGGTAACTAGGTTTTACAATCTTTTGCCTATTCTATT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* * *** * *
4876870 GCTGTTCAGGGAGCTAGAACTTATAATCTTTCACCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
** ***
4876914 GCTGGTCAGGGAACTAGGTTTTGTAATCTTTTGCCTATTCCACT
1 GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
* *
4876958 GCTGTTCAGGGAGCTAGGTTTT
1 GCTGGTCAGGGAACTAGGTTTT
4876980 GTGATTTCAC
Statistics
Matches: 554, Mismatches: 124, Indels: 6
0.81 0.18 0.01
Matches are distributed among these distances:
43 38 0.07
44 514 0.93
45 2 0.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (44 bp):
GCTGGTCAGGGAACTAGGTTTTACAATCTTCCACCTATTCCACT
Found at i:4878369 original size:22 final size:22
Alignment explanation
Indices: 4878328--4878383 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
4878318 TTGAATTTAA
**
4878328 TTTTTTTGATTTTTC-TTTTTCT
1 TTTTTTTGA-TTTTCATTTTGAT
*
4878350 TCTTTTTTGATTTTGATTTTGAT
1 T-TTTTTTGATTTTCATTTTGAT
4878373 TTTTTTTGATT
1 TTTTTTTGATT
4878384 GAATCTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.09, C:0.05, G:0.09, T:0.77
Consensus pattern (22 bp):
TTTTTTTGATTTTCATTTTGAT
Found at i:4878369 original size:23 final size:22
Alignment explanation
Indices: 4878328--4878383 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
4878318 TTGAATTTAA
** **
4878328 TTTTTTTGATTTTTCTTTTTCT
1 TTTTTTTGATTTTGATTTTGAT
4878350 TCTTTTTTGATTTTGATTTTGAT
1 T-TTTTTTGATTTTGATTTTGAT
4878373 TTTTTTTGATT
1 TTTTTTTGATT
4878384 GAATCTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.09, C:0.05, G:0.09, T:0.77
Consensus pattern (22 bp):
TTTTTTTGATTTTGATTTTGAT
Found at i:4882999 original size:18 final size:18
Alignment explanation
Indices: 4882976--4883027 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 18
4882966 TACACACATA
4882976 TATACACATATATGAAAG
1 TATACACATATATGAAAG
4882994 TAT--ACATATA--AAA-
1 TATACACATATATGAAAG
4883007 TAAATACACATATATGAAAG
1 T--ATACACATATATGAAAG
4883027 T
1 T
4883028 TTGAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
13 1 0.04
14 3 0.11
15 2 0.07
16 7 0.26
17 7 0.26
18 3 0.11
19 3 0.11
20 1 0.04
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.29
Consensus pattern (18 bp):
TATACACATATATGAAAG
Found at i:4886171 original size:3 final size:3
Alignment explanation
Indices: 4886163--4886223 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
4886153 TATATATTGA
* * * *
4886163 AAT AAT AAT CAT AAC AAT AAT AAT CAT AAT AA- ATAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
4886208 AAT ACAGT AAT AAT AA
1 AAT A-A-T AAT AAT AA
4886224 AACAATATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 1 0.02
3 40 0.87
4 3 0.07
5 2 0.04
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4886183 original size:15 final size:15
Alignment explanation
Indices: 4886163--4886191 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4886153 TATATATTGA
4886163 AATAATAATCATAAC
1 AATAATAATCATAAC
4886178 AATAATAATCATAA
1 AATAATAATCATAA
4886192 TAAATATACT
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:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAATAATCATAAC
Found at i:4894889 original size:44 final size:44
Alignment explanation
Indices: 4894802--4895222 Score: 240
Period size: 44 Copynumber: 9.6 Consensus size: 44
4894792 CTTGAGTCTA
* * * * *
4894802 CTCCACTGTAACCTCAGGGAGATAAAATCTGT-GGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* * *
4894846 CTCTACTGCAACTTCAGGGAGATAGGATTATCGGCTTTCATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * ** *
4894890 CTCCACTGCAACTTCAAGGAGATAAGATTTGTCATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTATCGGCTTTAATCTG
* *** ** *
4894935 C-CTCACTGCAACTTCA-GGAGGATAAGACTT-GCTTATTTAGGCTA
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTAATCTG
* *** *
4894979 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGC--GAA-CTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * * * *
4895020 CT-CTCTGCAACTTCAGAGAGACAAGATCTA-AGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* * * *
4895063 CTCCACTGTAACTTTAAGGAGATAGGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * ** *
4895107 CTCCATTGCAACTTCAGGGAGATAAGATTTGTCATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTATCGGCTTTAATCTG
* * *
4895152 C-CTCACTGCAACTTTA-GGAGGATAAGACT-T--GCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATCGGC-T--TTAATCTG
*
4895196 CTCCACTGCAACTTCAAGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
4895223 CTAGATGCGA
Statistics
Matches: 295, Mismatches: 61, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
40 23 0.08
41 7 0.02
42 4 0.01
43 10 0.03
44 176 0.60
45 75 0.25
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
Found at i:4895161 original size:173 final size:174
Alignment explanation
Indices: 4894843--4895180 Score: 384
Period size: 173 Copynumber: 1.9 Consensus size: 174
4894833 TGGTTTTAAT
* * * * * *
4894843 CTGCTCTACTGCAACTTCAGGGAGATAGGATTATCGGCTTTCATCTGCTCCACTGCAACTTCAAG
1 CTGCTCTACTGCAACTTCAGAGAGACAAGATTATAGGCTTTAATCCGCTCCACTGCAACTTCAAG
* * * *
4894908 GAGATAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTATTT
66 GAGATAAGATTTATCAGCTTTAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATATTT
4894973 AGGCTACTCCACTGCAACTTCAGG-GAGATAAGACTAGATGCGAA
131 AGGCTACTCCACTGCAACTTCAGGAG-GATAAGACTAGATGCGAA
* * *
4895017 CTGCTCT-CTGCAACTTCAGAGAGACAAGATCTA-AGGTTTTAATCCGCTCCACTGTAACTTTAA
1 CTGCTCTACTGCAACTTCAGAGAGACAAGAT-TATAGGCTTTAATCCGCTCCACTGCAACTTCAA
* * * *
4895080 GGAGATAGGA-TTATCGGCTTTAATCTG-CTCCATTGCAACTTCAGG-GAGATAAGATTTGTCAT
65 GGAGATAAGATTTATCAGCTTTAATCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTG-CAT
* * * *
4895142 CTTTAGTCTGC-CTCACTGCAACTTTAGGAGGATAAGACT
127 ATTTAGGCTACTC-CACTGCAACTTCAGGAGGATAAGACT
4895181 TGCTTACTTA
Statistics
Matches: 137, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
171 3 0.02
172 38 0.28
173 86 0.63
174 10 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (174 bp):
CTGCTCTACTGCAACTTCAGAGAGACAAGATTATAGGCTTTAATCCGCTCCACTGCAACTTCAAG
GAGATAAGATTTATCAGCTTTAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATATTT
AGGCTACTCCACTGCAACTTCAGGAGGATAAGACTAGATGCGAA
Found at i:4895209 original size:217 final size:217
Alignment explanation
Indices: 4894834--4895310 Score: 774
Period size: 217 Copynumber: 2.2 Consensus size: 217
4894824 TAAAATCTGT
* * *
4894834 GGTTTTAATCTGCTCTACTGCAACTTCAGGGAGATAGGATTATCGGCTTTCATCTGCTCCACTGC
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGC
4894899 AACTTCAAGGAGATAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACT
66 AACTTCAAGGAGATAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACT
* *
4894964 TGCTTATTTAGGCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGAACTGCTCTCTGCA
131 TGCTTACTTAGGCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGAACTGCTCTCTGCA
*
4895029 ACTTCAGAGAGACAAGATCTAA
196 ACTTCAGAGAGACAAGATCCAA
* * * *
4895051 GGTTTTAATCCGCTCCACTGTAACTTTAAGGAGATAGGATTATCGGCTTTAATCTGCTCCATTGC
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGC
* *
4895116 AACTTCAGGGAGATAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACT
66 AACTTCAAGGAGATAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACT
* * * *
4895181 TGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTTTGCA
131 TGCTTACTTAGGCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGAACTGCTCTCTGCA
* * *
4895246 ACTTTAGAGCGATAAGATCCAA
196 ACTTCAGAGAGACAAGATCCAA
*
4895268 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATATGATTAT
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
4895311 TGACTACCGA
Statistics
Matches: 237, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
217 237 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (217 bp):
GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGC
AACTTCAAGGAGATAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACT
TGCTTACTTAGGCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGAACTGCTCTCTGCA
ACTTCAGAGAGACAAGATCCAA
Found at i:4901476 original size:18 final size:19
Alignment explanation
Indices: 4901434--4901478 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
4901424 TGTGATGTAT
*
4901434 AATGCAAAAATAACCAATT
1 AATGCAAAAATAACCAATG
*
4901453 AA-GCAATAATAA-CAATG
1 AATGCAAAAATAACCAATG
4901470 AATGCAAAA
1 AATGCAAAA
4901479 GGATCTCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 6 0.27
18 14 0.64
19 2 0.09
ACGTcount: A:0.60, C:0.13, G:0.09, T:0.18
Consensus pattern (19 bp):
AATGCAAAAATAACCAATG
Found at i:4902764 original size:18 final size:18
Alignment explanation
Indices: 4902734--4902768 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4902724 ATATATATAG
4902734 ATTAAAAATAATAAATAC
1 ATTAAAAATAATAAATAC
4902752 ATTATAAAA-AATAAATA
1 ATTA-AAAATAATAAATA
4902769 TTTATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATTAAAAATAATAAATAC
Found at i:4908203 original size:109 final size:109
Alignment explanation
Indices: 4908005--4908312 Score: 435
Period size: 109 Copynumber: 2.9 Consensus size: 109
4907995 TCACCTGCCC
* * * * *
4908005 TAAGGCAATATTTTGCGTTTGGAGATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTT
1 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAAGATGCCCTAAGGTGCTGGGTATCGATTTTT
* * * *
4908070 CTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAA
66 CTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTTCAAAA
4908114 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAAGATGCCCTAAGGTGCTGGGTATCGATTTTT
1 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAAGATGCCCTAAGGTGCTGGGTATCGATTTTT
4908179 CTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTTCAAAA
66 CTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTTCAAAA
* * * * *
4908223 TAAGGCAATGTTTAGCATTTGGAAATTCGAGGAACG-TGCCCTAAGGTGCTGTGTTTCGA--TTT
1 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAAGATGCCCTAAGGTGCTGGGTATCGATTTTT
* *
4908285 CTCGTTTAACCAAATTA-CCAAATATCCT
66 CTCGTTCAACCAAA-TAGCTAAATATCCT
4908313 CTTGAATTTT
Statistics
Matches: 182, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
106 26 0.14
107 2 0.01
108 21 0.12
109 133 0.73
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (109 bp):
TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAAGATGCCCTAAGGTGCTGGGTATCGATTTTT
CTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTTCAAAA
Found at i:4910912 original size:27 final size:27
Alignment explanation
Indices: 4910861--4910913 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4910851 AAATCCCAAA
4910861 TTTTCTTCCTTTCCTTCCCCTTTTTCT
1 TTTTCTTCCTTTCCTTCCCCTTTTTCT
4910888 TTTTCTTTCCTTT-C-TCCCCTGTTTTC
1 TTTTC-TTCCTTTCCTTCCCCT-TTTTC
4910914 GTTTGCCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.25
27 11 0.46
28 7 0.29
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTCTTCCTTTCCTTCCCCTTTTTCT
Found at i:4911145 original size:14 final size:13
Alignment explanation
Indices: 4911119--4911169 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
4911109 GTTTATTTGA
4911119 AATATAATAATAT
1 AATATAATAATAT
4911132 AATATAATTAATAT
1 AATATAA-TAATAT
* *
4911146 AAT-TTACAATAT
1 AATATAATAATAT
*
4911158 AATAAAATAATA
1 AATATAATAATA
4911170 ATATACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 8 0.26
13 14 0.45
14 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:4923367 original size:50 final size:49
Alignment explanation
Indices: 4923218--4923473 Score: 175
Period size: 50 Copynumber: 5.2 Consensus size: 49
4923208 TCAAAATATC
* * * *
4923218 GAAGCCACAACGGCGAATCTTACTTT-CTAGATGGTACAGTGGAACAGATT
1 GAAGCTACAACAGCGGATCTTACTTTCCTAG-T-GTGCAGTGGAACAGATT
* * ** *
4923268 GAAGCTACAACAGCGGATCTTGC-TTCC--CTG-GCAGTTAAAAAGATT
1 GAAGCTACAACAGCGGATCTTACTTTCCTAGTGTGCAGTGGAACAGATT
* *
4923313 GAAGCTACAATAGCAGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATT
1 GAAGCTACAACAGCGGATCTTACTTTCCTAGTG-TGCAGTGGAACAGATT
* * * * * ** *
4923363 GAAGCTACAACAGCGGATCTCACTTCCCCAACAT-TGCAATTCAAAAAGATT
1 GAAGCTACAACAGCGGATCTTACTT-TCCTA-GTGTGC-AGTGGAACAGATT
* * * * * *
4923414 GAAGCTACAACAGTGAATCTTAC-TCCCAAGTGATGCAGCGGAGCAGATT
1 GAAGCTACAACAGCGGATCTTACTTTCCTAGTG-TGCAGTGGAACAGATT
4923463 GAAGCTACAAC
1 GAAGCTACAAC
4923474 GGTGAATCTC
Statistics
Matches: 159, Mismatches: 36, Indels: 23
0.73 0.17 0.11
Matches are distributed among these distances:
45 31 0.19
46 5 0.03
47 1 0.01
48 3 0.02
49 25 0.16
50 61 0.38
51 32 0.20
52 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (49 bp):
GAAGCTACAACAGCGGATCTTACTTTCCTAGTGTGCAGTGGAACAGATT
Found at i:4923381 original size:95 final size:99
Alignment explanation
Indices: 4923204--4923639 Score: 297
Period size: 99 Copynumber: 4.4 Consensus size: 99
4923194 CCATACATTA
* * * * * * *
4923204 CAATTC-AAAATATCGAAGCCACAACGGCGAATCTTACTTT-CTAGATGGTACAGTGGAACAGAT
1 CAATTCAAAAAGATTGAAGCTACAACAGAGAATCTTACTTTCCTAG-TGATGCAGTGGAACAGAT
**
4923267 TGAAGCTACAACAGCGGATCTTGCTT-CC-C-TGG
65 TGAAGCTACAACAGCGGATCTCACTTCCCACATGG
* * *
4923299 CAGTT-AAAAAGATTGAAGCTACAATAGCAG-ATCTTACTTTCCTAGTGTTGCAGTGGAACAGAT
1 CAATTCAAAAAGATTGAAGCTACAACAG-AGAATCTTACTTTCCTAGTGATGCAGTGGAACAGAT
*
4923362 TGAAGCTACAACAGCGGATCTCACTTCCCCAACATTG
65 TGAAGCTACAACAGCGGATCTCACTT-CCC-ACATGG
* * * * *
4923399 CAATTCAAAAAGATTGAAGCTACAACAGTGAATCTTAC-TCCCAAGTGATGCAGCGGAGCAGATT
1 CAATTCAAAAAGATTGAAGCTACAACAGAGAATCTTACTTTCCTAGTGATGCAGTGGAACAGATT
* * * * *
4923463 GAAGCTACAACGGTGAATCTCGCTTCCCCGACATTG
66 GAAGCTACAACAGCGGATCTCACTT-CCC-ACATGG
* * * * * * * **
4923499 CAATT-TAAGAGATTGAAG-TCACAACGGCGAATCTTACTTT-C-AGGCGATGCAGCGAAATTGA
1 CAATTCAAAAAGATTGAAGCT-ACAACAGAGAATCTTACTTTCCTA-GTGATGCAGTGGAACAGA
* * * * *
4923560 TTGAAGTTACAACGGCGAATCTCGCTTCCCCGACATTG
64 TTGAAGCTACAACAGCGGATCTCACTT-CCC-ACATGG
* * * ** *
4923598 CAATT-TAAGAGATTGAGGCCGCAACAGTGAATCTTA-TTTCCT
1 CAATTCAAAAAGATTGAAGCTACAACAGAGAATCTTACTTTCCT
4923640 CGGTGAAACC
Statistics
Matches: 283, Mismatches: 42, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
95 70 0.25
96 5 0.02
97 2 0.01
98 5 0.02
99 108 0.38
100 65 0.23
101 28 0.10
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (99 bp):
CAATTCAAAAAGATTGAAGCTACAACAGAGAATCTTACTTTCCTAGTGATGCAGTGGAACAGATT
GAAGCTACAACAGCGGATCTCACTTCCCACATGG
Found at i:4923523 original size:50 final size:50
Alignment explanation
Indices: 4923458--4923613 Score: 156
Period size: 50 Copynumber: 3.1 Consensus size: 50
4923448 GCAGCGGAGC
*
4923458 AGATTGAAG-CTACAACGGTGAATCTCGCTTCCCCGACATTGCAATTTAAG
1 AGATTGAAGTC-ACAACGGCGAATCTCGCTTCCCCGACATTGCAATTTAAG
** * * * **** *
4923508 AGATTGAAGTCACAACGGCGAATCTTACTT-TCAGGCGA-TGCAGCGAAAT
1 AGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGAC-ATTGCAATTTAAG
* *
4923557 TGATTGAAGTTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTTAAG
1 AGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACATTGCAATTTAAG
4923607 AGATTGA
1 AGATTGA
4923614 GGCCGCAACA
Statistics
Matches: 78, Mismatches: 24, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
49 36 0.46
50 41 0.53
51 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (50 bp):
AGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACATTGCAATTTAAG
Found at i:4923564 original size:99 final size:99
Alignment explanation
Indices: 4923260--4923633 Score: 341
Period size: 99 Copynumber: 3.8 Consensus size: 99
4923250 GGTACAGTGG
* * * * *
4923260 AACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTT--AA---AA-AGATTGAAGCT
1 AACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA-TTGCAATTTAAGAGATTGAAGCT
* * * * * * *
4923319 ACAATAGC-AGATCTTACTTTCCTAGTGTTGCAGTGG
65 ACAACAGCGA-ATCTTAC-TCCCAAGCGATGCAGCGA
* * * * * *
4923355 AACAGATTGAAGCTACAACAGCGGATCTCACTTCCCCAACATTGCAATTCAAAAAGATTGAAGCT
1 AACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATT-TAAGAGATTGAAGCT
* * *
4923420 ACAACAGTGAATCTTACTCCCAAGTGATGCAGCGG
65 ACAACAGCGAATCTTACTCCCAAGCGATGCAGCGA
* *
4923455 AGCAGATTGAAGCTACAACGGTGAATCTCGCTTCCCCGACATTGCAATTTAAGAGATTGAAG-TC
1 AACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTTAAGAGATTGAAGCT-
* ** *
4923519 ACAACGGCGAATCTTACTTTCAGGCGATGCAGCGA
65 ACAACAGCGAATCTTACTCCCAAGCGATGCAGCGA
** * * **
4923554 AATTGATTGAAGTTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTTAAGAGATTGAGGCCG
1 AACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTTAAGAGATTGAAGCTA
*
4923619 CAACAGTGAATCTTA
66 CAACAGCGAATCTTA
4923634 TTTCCTCGGT
Statistics
Matches: 233, Mismatches: 36, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
94 2 0.01
95 36 0.15
96 2 0.01
98 1 0.00
99 108 0.46
100 59 0.25
101 24 0.10
102 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (99 bp):
AACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTTAAGAGATTGAAGCTA
CAACAGCGAATCTTACTCCCAAGCGATGCAGCGA
Found at i:4924518 original size:15 final size:15
Alignment explanation
Indices: 4924500--4924535 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4924490 TATTTAGCTA
4924500 ATTATTCTTAACATT
1 ATTATTCTTAACATT
* *
4924515 ATTATTTTTAATATT
1 ATTATTCTTAACATT
4924530 ATTATT
1 ATTATT
4924536 ATAATAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATTCTTAACATT
Found at i:4924520 original size:3 final size:3
Alignment explanation
Indices: 4924512--4924593 Score: 58
Period size: 3 Copynumber: 27.3 Consensus size: 3
4924502 TATTCTTAAC
* * * * * *
4924512 ATT ATT ATT TTT AAT ATT ATT ATT ATA ATA ACT ATT ATC ATCT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * * *
4924557 ACT ATT ATT ATT AAT ATT AAT ATT ATT ATT ATC ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4924594 CATTTCCATT
Statistics
Matches: 59, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
2 1 0.02
3 58 0.98
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:4925072 original size:10 final size:10
Alignment explanation
Indices: 4925042--4925083 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
4925032 GCACATACAT
*
4925042 TTTTTATATA
1 TTTTCATATA
4925052 TTTT-ATA-A
1 TTTTCATATA
4925060 TTTTCATATA
1 TTTTCATATA
*
4925070 TTTTCATTTA
1 TTTTCATATA
4925080 TTTT
1 TTTT
4925084 TTTCATTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 5 0.17
9 6 0.21
10 18 0.62
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTCATATA
Found at i:4925460 original size:109 final size:109
Alignment explanation
Indices: 4925269--4925670 Score: 578
Period size: 109 Copynumber: 3.7 Consensus size: 109
4925259 TTTCTAATTG
* *
4925269 AGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTATCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTATCGATTTTTCT
4925334 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
66 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
* * * *
4925378 AGGCAATATTTTGCGTTTGGAGATTCGAAAAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTATCGATTTTTCT
** *
4925443 CGTTCAACCAAATGGCTTAATATATTTTTAACAATTTTAAAATA
66 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
* *
4925487 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTTGGGTATCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTATCGATTTTTCT
* * * * * *
4925552 CGTTCTACCAAATAGCTAAATAACCTTTCAAAAATTTCAAAATA
66 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
** * *
4925596 AGGCAATGTTTTGCGTTTGGAAATTCG-AGGAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTATCGATTTTTCT
4925658 CGCTT-AACCAAAT
66 CG-TTCAACCAAAT
4925671 TGCCAAATAT
Statistics
Matches: 263, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
106 14 0.05
107 2 0.01
108 24 0.09
109 223 0.85
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTATCGATTTTTCT
CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
Found at i:4927345 original size:23 final size:23
Alignment explanation
Indices: 4927278--4927350 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
4927268 TACAATATCC
* * *
4927278 AAACAATATTAAAAGCGGCAGCG
1 AAACAACATTAAAAGCAGCAGTG
*
4927301 GAACAACATTAAAAGCAGCAGTG
1 AAACAACATTAAAAGCAGCAGTG
*
4927324 AAACAACATTAAAAAGGA-CAGTG
1 AAACAACATT-AAAAGCAGCAGTG
4927347 AAAC
1 AAAC
4927351 TGCACCAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 37 0.86
24 6 0.14
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.12
Consensus pattern (23 bp):
AAACAACATTAAAAGCAGCAGTG
Found at i:4929900 original size:21 final size:22
Alignment explanation
Indices: 4929876--4929923 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
4929866 TAATAATAAT
*
4929876 ACATGATAAAATAAT-TAAAAA
1 ACATAATAAAATAATGTAAAAA
4929897 ACATAATAAAATAATGTAAAAA
1 ACATAATAAAATAATGTAAAAA
4929919 A-ATAA
1 ACATAA
4929924 ATATACAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (22 bp):
ACATAATAAAATAATGTAAAAA
Found at i:4931875 original size:22 final size:23
Alignment explanation
Indices: 4931834--4931876 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4931824 CAATAGTACT
*
4931834 AACATAATTTAAATTCAATTATA
1 AACATAATTAAAATTCAATTATA
*
4931857 AACATAA-TAAAATTGAATTA
1 AACATAATTAAAATTCAATTA
4931877 ACAAATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (23 bp):
AACATAATTAAAATTCAATTATA
Found at i:4932857 original size:26 final size:26
Alignment explanation
Indices: 4932828--4932878 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
4932818 AAATGACTTA
*
4932828 TTAAACAAAAATGAAATAAAATTTTG
1 TTAAACAAAAATAAAATAAAATTTTG
** *
4932854 TTAAAGTAAAATAAAATAATATTTT
1 TTAAACAAAAATAAAATAAAATTTT
4932879 AAAAAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (26 bp):
TTAAACAAAAATAAAATAAAATTTTG
Found at i:4936243 original size:73 final size:74
Alignment explanation
Indices: 4936146--4936479 Score: 311
Period size: 73 Copynumber: 4.5 Consensus size: 74
4936136 CACCCAATGA
* * * * *
4936146 CGCCGTTTACCGAGCTTTTGGGGATTTTGCGGCGTTTTTAAAG-AAGCGCCACTAATAATCCTAA
1 CGCCGTTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTAAAGAAAGCGCCACTAAAAAACCTAA
*
4936210 GCCAAACGG
66 GCCCAACGG
* * **
4936219 CGCCG-TTTCTTGAGCTTTTTGGGATTTAGCGGCGTTTTT-AGGAAAGCGCCGGTAAAAAACCTA
1 CGCCGTTTTC-TGAGCTTTTGGGGATTTAGCGGCGTTTTTAAAGAAAGCGCCACTAAAAAACCTA
*
4936282 ATCCCAACGG
65 AGCCCAACGG
* * * * ** * *
4936292 TGTCGTTTTCTGAGCTTTCGTGGATTTAGCGGCG-TTTTCGAGAAAGCGCCACAAAAAAAACATA
1 CGCCGTTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTAAAGAAAGCGCCAC-TAAAAAACCTA
*
4936356 CGCCCAACGG
65 AGCCCAACGG
* * * *
4936366 CACCGTTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTGAAA-AAAGCGCCGC-AATAAATCCTA
1 CGCCGTTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTAAAGAAAGCGCCACTAA-AAAACCTA
4936429 AGCCCAACGG
65 AGCCCAACGG
*** * * * *
4936439 CATTGTTTTTTGAACTTTCGGGGGATTTAGCGGCATTTTTA
1 CGCCGTTTTCTGAGCTTT-TGGGGATTTAGCGGCGTTTTTA
4936480 CTAAAGTGCC
Statistics
Matches: 210, Mismatches: 43, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
72 11 0.05
73 117 0.56
74 78 0.37
75 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (74 bp):
CGCCGTTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTAAAGAAAGCGCCACTAAAAAACCTAA
GCCCAACGG
Found at i:4936605 original size:114 final size:115
Alignment explanation
Indices: 4936396--4936609 Score: 358
Period size: 114 Copynumber: 1.9 Consensus size: 115
4936386 GGGATTTAGC
***
4936396 GGCGTTTTGAAAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCATTGTTTTTTGAACTTTCGGG
1 GGCGTTTTGAAAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCACCATTTTTTGAACTTTCGGG
** *
4936461 GGATTTAGCGGCATTTTTACTAAAGTGCCGCTAATGCTAAGGGCTTTAAT
66 GGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTAAGGGCTTTAAT
4936511 GGCGTTTTG-AAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCACCATTTTTTGAACTTTCGGG
1 GGCGTTTTGAAAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCACCATTTTTTGAACTTTCGGG
*
4936575 GGATTTAGCGGCTTTTTTAAGAAAGCGCCGCTAAT
66 GGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAAT
4936610 TCTTCCTTTA
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
114 83 0.90
115 9 0.10
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (115 bp):
GGCGTTTTGAAAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCACCATTTTTTGAACTTTCGGG
GGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTAAGGGCTTTAAT
Found at i:4936637 original size:114 final size:114
Alignment explanation
Indices: 4936390--4936637 Score: 324
Period size: 114 Copynumber: 2.2 Consensus size: 114
4936380 CTTTTGGGGA
* ***
4936390 TTTAGCGGCGTTTTGA-AAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCATTGTTTTTTGAAC
1 TTTAGTGGCGTTTTGAGAAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCACCATTTTTTGAAC
** * *
4936454 TTTCGGGGGATTTAGCGGCATTTTTACTAAAGTGCCGCTAATGCTAAGGGC
66 TTTCGGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCT-A-GCC
*
4936505 TTTAATGGCGTTTT--GAAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCACCATTTTTTGAAC
1 TTTAGTGGCGTTTTGAGAAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCACCATTTTTTGAAC
* * *
4936568 TTTCGGGGGATTTAGCGGCTTTTTTAAGAAAGCGCCGCTAATTCT-TCC
66 TTTCGGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTAGCC
*
4936616 TTTAGTGGCATTTTCGAGAAAA
1 TTTAGTGGCGTTTT-GAGAAAA
4936638 CACTGCAAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
111 13 0.11
114 90 0.78
115 12 0.10
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (114 bp):
TTTAGTGGCGTTTTGAGAAAAAGCGCCGCAATAAATCCTAAGCCCAACGGCACCATTTTTTGAAC
TTTCGGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTAGCC
Found at i:4937096 original size:21 final size:21
Alignment explanation
Indices: 4937072--4937131 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
4937062 ATCGTTTTAT
*
4937072 TTTAGGTTTTAGGGTTTAAAA
1 TTTAGGATTTAGGGTTTAAAA
* ** * *
4937093 TTTAAGATTTAATGTTTACAG
1 TTTAGGATTTAGGGTTTAAAA
*
4937114 TTTAGGGTTTAGGGTTTA
1 TTTAGGATTTAGGGTTTA
4937132 TGGTATACTA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (21 bp):
TTTAGGATTTAGGGTTTAAAA
Found at i:4937201 original size:20 final size:20
Alignment explanation
Indices: 4937176--4937213 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4937166 ATGTGTTAGA
*
4937176 GTTTGAATTTGGGGTTTAAG
1 GTTTGAATTTAGGGTTTAAG
*
4937196 GTTTGAGTTTAGGGTTTA
1 GTTTGAATTTAGGGTTTA
4937214 GTTTGGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.47
Consensus pattern (20 bp):
GTTTGAATTTAGGGTTTAAG
Found at i:4938040 original size:115 final size:114
Alignment explanation
Indices: 4937891--4938129 Score: 361
Period size: 115 Copynumber: 2.1 Consensus size: 114
4937881 GCGCTTCAAA
*
4937891 AAAAACGCCACTAAAGGTGATACATTACCAGCGTTTTGTGAAGAAACGCCGCAAATTTCCTTTAA
1 AAAAACGCCACTAAAGGTGATACATTACCAGCGTTTTGCGAAGAAACGCCGCAAATTTCCTTTAA
* *
4937956 CTGTAACAAAGACGGTGTCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
66 CTG-AACAAAGACGGAGACGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
* ** * **
4938006 AAAAACGCCGCTAAAGGTGATGTATTACCGGCGTTTTGCGATTAAACGCCGCAAATTTCCTTTAA
1 AAAAACGCCACTAAAGGTGATACATTACCAGCGTTTTGCGAAGAAACGCCGCAAATTTCCTTTAA
* * *
4938071 GTGAACAAAGATGGAGACGTTTTTTTGTTTTCTTTTAGTGGCGCATTTT
66 CTGAACAAAGACGGAGACGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
4938120 AAAAACGCCA
1 AAAAACGCCA
4938130 GAAATATTTA
Statistics
Matches: 111, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
114 51 0.46
115 60 0.54
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (114 bp):
AAAAACGCCACTAAAGGTGATACATTACCAGCGTTTTGCGAAGAAACGCCGCAAATTTCCTTTAA
CTGAACAAAGACGGAGACGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
Found at i:4938677 original size:173 final size:169
Alignment explanation
Indices: 4938392--4938707 Score: 535
Period size: 173 Copynumber: 1.8 Consensus size: 169
4938382 TCGTTTTTTT
*
4938392 CCCATACATTTTACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCA
1 CCCATACATTTGACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCA
* * *
4938457 AAATCTCTAAATTTCCCCTAATCCAGATTTCCCCAAACCCGACCTCTTGCAACGTTGTCGTTTCC
66 AAATCCCTAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCC
4938522 TCTGGCGCATCACCGGCTCCCTCTATCGGTCTCATCTGC
131 TCTGGCGCATCACCGGCTCCCTCTATCGGTCTCATCTGC
4938561 CCCATACATTTGACCGAAACTTAAACCCCAACTATCGTGACTTATCCCCCAAAA-CCCATTTCTC
1 CCCATACATTTGACCGAAACTTAAA-CCC--CTATCGTGACTTATCCCCCAAAATCCCA-TTCTC
*
4938625 CCCAAAATCCCTAAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAGCGTTGCCG
62 CCCAAAATCCCT-AAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCG
4938690 TTTCCTCTGGCGCATCAC
126 TTTCCTCTGGCGCATCAC
4938708 TACCTCCCTC
Statistics
Matches: 137, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
169 24 0.18
170 3 0.02
171 4 0.03
172 39 0.28
173 67 0.49
ACGTcount: A:0.25, C:0.39, G:0.09, T:0.27
Consensus pattern (169 bp):
CCCATACATTTGACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCA
AAATCCCTAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCC
TCTGGCGCATCACCGGCTCCCTCTATCGGTCTCATCTGC
Found at i:4940255 original size:9 final size:9
Alignment explanation
Indices: 4940241--4940299 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
4940231 TTTAATTTAA
*
4940241 TACATAATT
1 TACATAACT
4940250 TACATAACT
1 TACATAACT
*
4940259 CACATAACT
1 TACATAACT
* *
4940268 TACAAAAGT
1 TACATAACT
*
4940277 TACAT-ACA
1 TACATAACT
4940285 TACATAACT
1 TACATAACT
4940294 TA-ATAA
1 TACATAA
4940300 ATGGTACATA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
8 10 0.25
9 30 0.75
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:4940377 original size:17 final size:18
Alignment explanation
Indices: 4940339--4940389 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
4940329 ACATAACTAA
4940339 TTAATATTTATATATAGTT
1 TTAATATTTATATATAG-T
*
4940358 TTAATATATATATATA-T
1 TTAATATTTATATATAGT
*
4940375 TTAAAATTTATATAT
1 TTAATATTTATATAT
4940390 TAATGTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 14 0.48
19 15 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTAATATTTATATATAGT
Found at i:4940426 original size:9 final size:9
Alignment explanation
Indices: 4940412--4941020 Score: 314
Period size: 9 Copynumber: 68.7 Consensus size: 9
4940402 TATTGACACA
4940412 TTACATAAC
1 TTACATAAC
4940421 TTACATAAC
1 TTACATAAC
*
4940430 CTACATAAC
1 TTACATAAC
* * *
4940439 CTACGTTA-
1 TTACATAAC
4940447 -TACATAAC
1 TTACATAAC
*
4940455 TTACATAGC
1 TTACATAAC
*
4940464 TTATATAAC
1 TTACATAAC
4940473 TTACATAA-
1 TTACATAAC
4940481 -TACATAAC
1 TTACATAAC
4940489 TTACATAATAAC
1 TTAC---ATAAC
*
4940501 TTACATAGC
1 TTACATAAC
*
4940510 TTATATAA-
1 TTACATAAC
4940518 -TACATAAC
1 TTACATAAC
*
4940526 TTAAATAA-
1 TTACATAAC
*
4940534 ATACATAAC
1 TTACATAAC
4940543 TTACATAA-
1 TTACATAAC
4940551 -TACATAAC
1 TTACATAAC
*
4940559 TTATATAA-
1 TTACATAAC
*
4940567 -TACATTAC
1 TTACATAAC
4940575 TTACATAATAAC
1 TTAC---ATAAC
*
4940587 TTACATAGC
1 TTACATAAC
*
4940596 TTATATAAC
1 TTACATAAC
4940605 TTACATAAC
1 TTACATAAC
*
4940614 TTATATAAC
1 TTACATAAC
4940623 TTACATAA-
1 TTACATAAC
*
4940631 -TGCATAAC
1 TTACATAAC
*
4940639 TTACATAAT
1 TTACATAAC
* *
4940648 TTACTTGA-
1 TTACATAAC
4940656 -TACATAA-
1 TTACATAAC
* *
4940663 TCAACATATAT
1 T-TACATA-AC
*
4940674 TATATCTTAAC
1 T-TA-CATAAC
4940685 TTACATAATAAC
1 TTAC---ATAAC
*
4940697 TTACATAGC
1 TTACATAAC
*
4940706 TTATATAA-
1 TTACATAAC
4940714 -TACATAAC
1 TTACATAAC
*
4940722 TTAAATAA-
1 TTACATAAC
*
4940730 ATACATAAC
1 TTACATAAC
4940739 TTACATAA-
1 TTACATAAC
4940747 -TACATAAC
1 TTACATAAC
*
4940755 TTATATAA-
1 TTACATAAC
*
4940763 -TACATTAC
1 TTACATAAC
4940771 TTACATAATAAC
1 TTAC---ATAAC
*
4940783 TTACATAGC
1 TTACATAAC
*
4940792 TTATATAAC
1 TTACATAAC
4940801 TTACATAAC
1 TTACATAAC
*
4940810 TTATATAAC
1 TTACATAAC
4940819 TTACATAA-
1 TTACATAAC
*
4940827 -TGCATAAC
1 TTACATAAC
*
4940835 TTACATAAT
1 TTACATAAC
* *
4940844 TTACTTGA-
1 TTACATAAC
4940852 -TACATAA-
1 TTACATAAC
* *
4940859 TCAACATATAT
1 T-TACATA-AC
*
4940870 TATATCTTAAC
1 T-TA-CATAAC
4940881 TTACATAATAAC
1 TTAC---ATAAC
* *
4940893 TTACACAGC
1 TTACATAAC
*
4940902 TTATATAAC
1 TTACATAAC
4940911 TTACATAA-
1 TTACATAAC
4940919 -TACATAAC
1 TTACATAAC
*
4940927 CTACATAAC
1 TTACATAAC
*
4940936 TTATATAAC
1 TTACATAAC
4940945 TTACATAA-
1 TTACATAAC
4940953 -TACATAAC
1 TTACATAAC
*
4940961 TTACATATC
1 TTACATAAC
** *
4940970 TTTTATAATA
1 TTACATAA-C
4940980 TATACATAAC
1 T-TACATAAC
*
4940990 TTACATAAT
1 TTACATAAC
*
4940999 TTACTTAA-
1 TTACATAAC
4941007 -TACATAAC
1 TTACATAAC
4941015 TTACAT
1 TTACAT
4941021 TGAGAAAAAT
Statistics
Matches: 454, Mismatches: 91, Indels: 110
0.69 0.14 0.17
Matches are distributed among these distances:
7 90 0.20
8 12 0.03
9 284 0.63
10 8 0.02
11 13 0.03
12 47 0.10
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (9 bp):
TTACATAAC
Found at i:4940456 original size:34 final size:34
Alignment explanation
Indices: 4940413--4940843 Score: 163
Period size: 34 Copynumber: 13.0 Consensus size: 34
4940403 ATTGACACAT
* *
4940413 TACATAACTTACATAACCTACATAACCTACGTTA
1 TACATAACTTACATAACCTACATAACCTACATAA
* * * *
4940447 TACATAACTTACATAGCTTATATAACTTACATAA
1 TACATAACTTACATAACCTACATAACCTACATAA
* * * *
4940481 TACATAACTTACATAATAACTTACATAGCTTATATAA
1 TACATAACTTAC---ATAACCTACATAACCTACATAA
* * *
4940518 TACATAACTTAAATAA-ATACATAACTTACATAA
1 TACATAACTTACATAACCTACATAACCTACATAA
* * *
4940551 TACATAACTTATATAA--TACATTACTTAC---A
1 TACATAACTTACATAACCTACATAACCTACATAA
* * * *
4940580 TA-ATAACTTACATAGCTTATATAACTTACATAA
1 TACATAACTTACATAACCTACATAACCTACATAA
* * *
4940613 CTTATATAACTTACATAA--TGCATAACTTACATAA
1 --TACATAACTTACATAACCTACATAACCTACATAA
* * * * * *
4940647 T---TTACTT-GAT-ACATA-ATCAACATATATTA
1 TACATAACTTACATAACCTACAT-AACCTACATAA
* * * * *
4940676 TATCTTAACTTACATAATAACTTACATAGCTTATATAA
1 TA-CATAACTTAC---ATAACCTACATAACCTACATAA
* * *
4940714 TACATAACTTAAATAA-ATACATAACTTACATAA
1 TACATAACTTACATAACCTACATAACCTACATAA
* * *
4940747 TACATAACTTATATAA--TACATTACTTAC---A
1 TACATAACTTACATAACCTACATAACCTACATAA
* * * *
4940776 TA-ATAACTTACATAGCTTATATAACTTACATAA
1 TACATAACTTACATAACCTACATAACCTACATAA
* * *
4940809 CTTATATAACTTACATAA--TGCATAACTTACATAA
1 --TACATAACTTACATAACCTACATAACCTACATAA
4940843 T
1 T
4940844 TTACTTGATA
Statistics
Matches: 316, Mismatches: 49, Indels: 66
0.73 0.11 0.15
Matches are distributed among these distances:
27 1 0.00
28 26 0.08
29 21 0.07
30 20 0.06
32 24 0.08
33 65 0.21
34 76 0.24
35 4 0.01
36 24 0.08
37 39 0.12
38 14 0.04
39 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.35
Consensus pattern (34 bp):
TACATAACTTACATAACCTACATAACCTACATAA
Found at i:4940489 original size:16 final size:16
Alignment explanation
Indices: 4940413--4940967 Score: 290
Period size: 16 Copynumber: 33.9 Consensus size: 16
4940403 ATTGACACAT
4940413 TACATAACTTACATAA
1 TACATAACTTACATAA
* * *
4940429 CCTACATAACCTACGTTA
1 --TACATAACTTACATAA
*
4940447 TACATAACTTACATAGCT
1 TACATAACTTACATA--A
*
4940465 TATATAACTTACATAA
1 TACATAACTTACATAA
4940481 TACATAACTTACATAATAA
1 TACATAACTTAC---ATAA
* *
4940500 CTTACATAGCTTATATAA
1 --TACATAACTTACATAA
*
4940518 TACATAACTTAAATAAA
1 TACATAACTTACAT-AA
4940535 TACATAACTTACATAA
1 TACATAACTTACATAA
*
4940551 TACATAACTTATATAA
1 TACATAACTTACATAA
*
4940567 TACATTACTTAC---A
1 TACATAACTTACATAA
*
4940580 TA-ATAACTTACATAGCT
1 TACATAACTTACATA--A
*
4940597 TATATAACTTACATAA
1 TACATAACTTACATAA
*
4940613 CTTATATAACTTACATAA
1 --TACATAACTTACATAA
*
4940631 TGCATAACTTACATAA
1 TACATAACTTACATAA
* *
4940647 T---TTACTT-GATACA
1 TACATAACTTACATA-A
* * *
4940660 TA-ATCAACATATATTA
1 TACAT-AACTTACATAA
*
4940676 TATCTTAACTTACATAATAA
1 TA-CATAACTTAC---ATAA
* *
4940696 CTTACATAGCTTATATAA
1 --TACATAACTTACATAA
*
4940714 TACATAACTTAAATAAA
1 TACATAACTTACAT-AA
4940731 TACATAACTTACATAA
1 TACATAACTTACATAA
*
4940747 TACATAACTTATATAA
1 TACATAACTTACATAA
*
4940763 TACATTACTTAC---A
1 TACATAACTTACATAA
*
4940776 TA-ATAACTTACATAGCT
1 TACATAACTTACATA--A
*
4940793 TATATAACTTACATAA
1 TACATAACTTACATAA
*
4940809 CTTATATAACTTACATAA
1 --TACATAACTTACATAA
*
4940827 TGCATAACTTACATAA
1 TACATAACTTACATAA
* *
4940843 T---TTACTT-GATACA
1 TACATAACTTACATA-A
* * *
4940856 TA-ATCAACATATATTA
1 TACAT-AACTTACATAA
*
4940872 TATCTTAACTTAC---A
1 TA-CATAACTTACATAA
* *
4940886 TA-ATAACTTACACAGCT
1 TACATAACTTACATA--A
*
4940903 TATATAACTTACATAA
1 TACATAACTTACATAA
*
4940919 TACATAACCTACATAA
1 TACATAACTTACATAA
*
4940935 CTTATATAACTTACATAA
1 --TACATAACTTACATAA
4940953 TACATAACTTACATA
1 TACATAACTTACATA
4940968 TCTTTTATAA
Statistics
Matches: 420, Mismatches: 65, Indels: 106
0.71 0.11 0.18
Matches are distributed among these distances:
12 30 0.07
13 20 0.05
14 3 0.01
15 2 0.00
16 171 0.41
17 50 0.12
18 118 0.28
19 4 0.01
20 3 0.01
21 17 0.04
22 2 0.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:4940706 original size:196 final size:196
Alignment explanation
Indices: 4940485--4940952 Score: 841
Period size: 196 Copynumber: 2.4 Consensus size: 196
4940475 ACATAATACA
4940485 TAACTTACATAATAACTTACATAGCTTATATAATACATAACTTAAATAAATACATAACTTACATA
1 TAACTTACATAATAACTTACATAGCTTATATAATACATAACTTAAATAAATACATAACTTACATA
4940550 ATACATAACTTATATAATACATTACTTACATAATAACTTACATAGCTTATATAACTTACATAACT
66 ATACATAACTTATATAATACATTACTTACATAATAACTTACATAGCTTATATAACTTACATAACT
4940615 TATATAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATC
131 TATATAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATC
4940680 T
196 T
4940681 TAACTTACATAATAACTTACATAGCTTATATAATACATAACTTAAATAAATACATAACTTACATA
1 TAACTTACATAATAACTTACATAGCTTATATAATACATAACTTAAATAAATACATAACTTACATA
4940746 ATACATAACTTATATAATACATTACTTACATAATAACTTACATAGCTTATATAACTTACATAACT
66 ATACATAACTTATATAATACATTACTTACATAATAACTTACATAGCTTATATAACTTACATAACT
4940811 TATATAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATC
131 TATATAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATC
4940876 T
196 T
* * * *
4940877 TAACTTACATAATAACTTACACAGCTTATATAACTTACATAA--TACATAACCTACATAACTTAT
1 TAACTTACATAATAACTTACATAGCTTATATAA--TACATAACTTAAATAA-ATACATAACTTAC
4940940 ATAACTTACATAA
63 ATAA--TACATAA
4940953 TACATAACTT
Statistics
Matches: 263, Mismatches: 4, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
196 234 0.89
197 15 0.06
198 7 0.03
199 7 0.03
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (196 bp):
TAACTTACATAATAACTTACATAGCTTATATAATACATAACTTAAATAAATACATAACTTACATA
ATACATAACTTATATAATACATTACTTACATAATAACTTACATAGCTTATATAACTTACATAACT
TATATAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATC
T
Found at i:4940857 original size:25 final size:25
Alignment explanation
Indices: 4940412--4940967 Score: 239
Period size: 25 Copynumber: 22.6 Consensus size: 25
4940402 TATTGACACA
4940412 TTACATAACTTACATAACCTACATAAC
1 TTACATAACTTACATAA--TACATAAC
* * * *
4940439 CTACGTTA--TACATAACTTACATAGC
1 TTACATAACTTACATAA--TACATAAC
*
4940464 TTATATAACTTACATAATACATAAC
1 TTACATAACTTACATAATACATAAC
* *
4940489 TTACATAA-TAAC-T--TACATAGC
1 TTACATAACTTACATAATACATAAC
* *
4940510 TTATATAA-T-ACATAACTTAAATAA-
1 TTACATAACTTACATAA--TACATAAC
*
4940534 ATACATAACTTACATAATACATAAC
1 TTACATAACTTACATAATACATAAC
* *
4940559 TTATATAATACATTACTTACATA-ATAAC
1 TTACAT-A-AC-TTACATA-ATACATAAC
* *
4940587 TTACATAGCTTATATAACTTACATAAC
1 TTACATAACTTACATAA--TACATAAC
* *
4940614 TTATATAACTTACATAATGCATAAC
1 TTACATAACTTACATAATACATAAC
* * *
4940639 TTACATAATTTACTTGATACATAA-
1 TTACATAACTTACATAATACATAAC
* *
4940663 TCAACATATA-TT--AT-AT-CTTAAC
1 T-TACATA-ACTTACATAATACATAAC
* *
4940685 TTACATAA-TAAC-T--TACATAGC
1 TTACATAACTTACATAATACATAAC
* *
4940706 TTATATAA-T-ACATAACTTAAATAA-
1 TTACATAACTTACATAA--TACATAAC
*
4940730 ATACATAACTTACATAATACATAAC
1 TTACATAACTTACATAATACATAAC
* *
4940755 TTATATAATACATTACTTACATA-ATAAC
1 TTACAT-A-AC-TTACATA-ATACATAAC
* *
4940783 TTACATAGCTTATATAACTTACATAAC
1 TTACATAACTTACATAA--TACATAAC
* *
4940810 TTATATAACTTACATAATGCATAAC
1 TTACATAACTTACATAATACATAAC
* * *
4940835 TTACATAATTTACTTGATACATAA-
1 TTACATAACTTACATAATACATAAC
* *
4940859 TCAACATATA-TT--AT-AT-CTTAAC
1 T-TACATA-ACTTACATAATACATAAC
* * *
4940881 TTACATAA-TAAC-T--TACACAGC
1 TTACATAACTTACATAATACATAAC
*
4940902 TTATATAACTTACATAATACATAAC
1 TTACATAACTTACATAATACATAAC
* *
4940927 CTACATAACTTATATAACTTACATAA-
1 TTACATAACTTACATAA--TACATAAC
4940953 -TACATAACTTACATA
1 TTACATAACTTACATA
4940968 TCTTTTATAA
Statistics
Matches: 399, Mismatches: 80, Indels: 102
0.69 0.14 0.18
Matches are distributed among these distances:
20 10 0.03
21 59 0.15
22 9 0.02
23 4 0.01
24 31 0.08
25 163 0.41
26 22 0.06
27 63 0.16
28 32 0.08
29 6 0.02
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (25 bp):
TTACATAACTTACATAATACATAAC
Found at i:4940977 original size:25 final size:24
Alignment explanation
Indices: 4940928--4941020 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 24
4940918 ATACATAACC
* **
4940928 TACATAACTTATATAACTTACATAA
1 TACATAACTTACAT-ACTTTTATAA
4940953 TACATAACTTACATATCTTTTATAATATA
1 TACATAACTTACATA-C-TTT-T-ATA-A
*
4940982 TACATAACTTACATA-ATTTACTTAA
1 TACATAACTTACATACTTTTA--TAA
4941007 TACATAACTTACAT
1 TACATAACTTACAT
4941021 TGAGAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
24 2 0.04
25 30 0.53
26 6 0.11
28 3 0.05
29 16 0.28
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (24 bp):
TACATAACTTACATACTTTTATAA
Found at i:4941016 original size:196 final size:192
Alignment explanation
Indices: 4940485--4941020 Score: 776
Period size: 196 Copynumber: 2.7 Consensus size: 192
4940475 ACATAATACA
4940485 TAACTTACATAATAACTTACATAGCTTATATAATACATAACTTAAATAAATACATAACTTACATA
1 TAACTTACATAATAACTTACATAGCTTATATAATACATAAC-TAAATAAATACATAACTTACATA
4940550 ATACATAACTTATATAATACATTACTTACATAATAACTTACATAGCTTATATAACTTACATAACT
65 ATACATAAC-TATATAATACATTACTTACATAATAAC-TACATAGCTTATATAACTTACATAAC-
4940615 TATATAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATC
127 TATATAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATC
4940680 T
192 T
4940681 TAACTTACATAATAACTTACATAGCTTATATAATACATAACTTAAATAAATACATAACTTACATA
1 TAACTTACATAATAACTTACATAGCTTATATAATACATAAC-TAAATAAATACATAACTTACATA
4940746 ATACATAACTTATATAATACATTACTTACATAATAACTTACATAGCTTATATAACTTACATAACT
65 ATACATAAC-TATATAATACATTACTTACATAATAAC-TACATAGCTTATATAACTTACATAAC-
4940811 TATATAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATC
127 TATATAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATC
4940876 T
192 T
* * * *
4940877 TAACTTACATAATAACTTACACAGCTTATATAACTTACATAA-TACATAACCTACATAACTTATA
1 TAACTTACATAATAACTTACATAGCTTATATAA--TACATAACTAAATAA-ATACATAACTTACA
* ** * * *
4940941 TAACTTACATAA-TACATAACTTACA-TATCTTTTATAATATA-TACATAACTTACATAATTTAC
63 TAA--TACATAACTATATAA--TACATTA-CTTACATAATA-ACTACATAGCTTATATAACTTAC
* *
4941003 TTAA-TACATAACTTACAT
122 ATAACTATATAACTTACAT
4941021 TGAGAAAAAT
Statistics
Matches: 319, Mismatches: 12, Indels: 18
0.91 0.03 0.05
Matches are distributed among these distances:
196 247 0.77
197 21 0.07
198 30 0.09
199 20 0.06
200 1 0.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (192 bp):
TAACTTACATAATAACTTACATAGCTTATATAATACATAACTAAATAAATACATAACTTACATAA
TACATAACTATATAATACATTACTTACATAATAACTACATAGCTTATATAACTTACATAACTATA
TAACTTACATAATGCATAACTTACATAATTTACTTGATACATAATCAACATATATTATATCT
Found at i:4946531 original size:21 final size:21
Alignment explanation
Indices: 4946505--4946572 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
4946495 CTGCAACTTA
*
4946505 AAGCAGAGGCCACAGCGAGGG
1 AAGCAGAGGCCACAGCGAGAG
**
4946526 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCCACAGCGAGAG
** *
4946547 AAGCAGAGGCTGCAGCTAGAG
1 AAGCAGAGGCCACAGCGAGAG
4946568 AAGCA
1 AAGCA
4946573 ACGAGAGAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.35, C:0.21, G:0.40, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCCACAGCGAGAG
Found at i:4947267 original size:84 final size:84
Alignment explanation
Indices: 4947107--4947266 Score: 234
Period size: 83 Copynumber: 1.9 Consensus size: 84
4947097 TTTCTCCATG
* * *
4947107 CGCCGCTAAAGAACAAGATCTTTAGCGGCGTTTTTATTTAAGCGCTGCTAAAGAACAAGATCTTT
1 CGCCGCTAAAGAACAAGATCTTTAACGGCGTTTTTATTTAAGCGCCGCTAAAGAACAAGACCTTT
4947172 AGCGGCGTTTTTATTTTAC
66 AGCGGCGTTTTTATTTTAC
* * * *
4947191 CGCCGCTAAAGAACATGATCTTTAACGGC-TTTTT-TTTGTAGTGCCGCTAAAGAACATGACCTT
1 CGCCGCTAAAGAACAAGATCTTTAACGGCGTTTTTATTT-AAGCGCCGCTAAAGAACAAGACCTT
4947254 TAGCGGCGTTTTT
65 TAGCGGCGTTTTT
4947267 TTCTGCAAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
82 3 0.04
83 38 0.56
84 27 0.40
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (84 bp):
CGCCGCTAAAGAACAAGATCTTTAACGGCGTTTTTATTTAAGCGCCGCTAAAGAACAAGACCTTT
AGCGGCGTTTTTATTTTAC
Found at i:4947268 original size:41 final size:41
Alignment explanation
Indices: 4947030--4947266 Score: 242
Period size: 42 Copynumber: 5.7 Consensus size: 41
4947020 AGCGCCAGGA
* * * * * **
4947030 AAAGAACATGATCTTTAGTGGTGTTTTTCTTCATGCGCCATT
1 AAAGAACAAGATCTTTAGCGGCGTTTTTATTTA-GCGCCGCT
* * * **
4947072 AAATAACAAGATCTTTAGCGGCATTTTTCTCCATGCGCCGCT
1 AAAGAACAAGATCTTTAGCGGCGTTTTTATTTA-GCGCCGCT
*
4947114 AAAGAACAAGATCTTTAGCGGCGTTTTTATTTAAGCGCTGCT
1 AAAGAACAAGATCTTTAGCGGCGTTTTTATTT-AGCGCCGCT
*
4947156 AAAGAACAAGATCTTTAGCGGCGTTTTTATTTTACCGCCGCT
1 AAAGAACAAGATCTTTAGCGGCGTTTTTA-TTTAGCGCCGCT
* * * *
4947198 AAAGAACATGATCTTTAACGGC-TTTTTTTTGTAGTGCCGCT
1 AAAGAACAAGATCTTTAGCGGCGTTTTTATT-TAGCGCCGCT
* *
4947239 AAAGAACATGACCTTTAGCGGCGTTTTT
1 AAAGAACAAGATCTTTAGCGGCGTTTTT
4947267 TTCTGCAAAC
Statistics
Matches: 168, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.01
41 33 0.20
42 129 0.77
43 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (41 bp):
AAAGAACAAGATCTTTAGCGGCGTTTTTATTTAGCGCCGCT
Found at i:4956518 original size:21 final size:22
Alignment explanation
Indices: 4956489--4956535 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4956479 CAGAAGGAGT
*
4956489 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4956511 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4956532 GAGT
1 GAGT
4956536 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:4966863 original size:44 final size:44
Alignment explanation
Indices: 4966703--4966990 Score: 194
Period size: 44 Copynumber: 6.7 Consensus size: 44
4966693 NNNNGTTCAA
* * * *
4966703 TGCTCCAATGC-ACTTCAGGGAGATAGGA-TTATCGA-CTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTT-GC-ATCTTTAGTC
*
4966746 TACTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTTAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTTAGTC
* *
4966790 TGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTAC-TTAGTC
1 TGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTTAGTC
* *
4966834 TGCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC--GA-TC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTTAGTC
* * *
4966875 TGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTG-AGGT-TTTAAT-
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCA--TCTTTAGTC
* * *
4966917 TCGCTCCA-TCGCAACTTCAGGGAGATAGGACTAT-CAGCTTTAATC
1 T-GCTCCACT-GCAACTTCAGGGAGATAAGACT-TGCATCTTTAGTC
* ** *
4966962 TGGTCCACTATAACTTTAGGGAGATAAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGA
4966991 TCTATAATCT
Statistics
Matches: 198, Mismatches: 27, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
39 1 0.01
40 24 0.12
41 6 0.03
42 4 0.02
43 20 0.10
44 132 0.67
45 11 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTTAGTC
Found at i:4967148 original size:132 final size:132
Alignment explanation
Indices: 4966977--4967631 Score: 1067
Period size: 132 Copynumber: 5.0 Consensus size: 132
4966967 CACTATAACT
* *
4966977 TTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTG
1 TTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
** * *
4967042 GCTTAAATCTATTTCCCACTATCTTAGAAAGATAAGATTCGCCGTCTTCGATCTACTCCACTACT
66 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACT
4967107 GC
131 GC
* * * *
4967109 TTAGGTAAATAAGATTTACAATCTTCAACCTTCTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
1 TTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
* * *
4967174 GCTTAAATATACTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACT
66 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACT
4967239 GC
131 GC
* *
4967241 TTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGGAGACAAGGCTTGGTG
1 TTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
*
4967306 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATTAGATTCGCCGTCTTCGATCTGCTCCACTACT
66 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACT
4967371 GC
131 GC
* *
4967373 TTAGGGAGATAAGATCTACAAGCTTCAACCTTCTCCGTTGCTGCTCAGGGAGACAAGGCTTGGTG
1 TTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
*
4967438 GCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACT
66 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACT
4967503 GC
131 GC
* * * *
4967505 TTAGGGAGATAAGATTTACAATCTTCAACCTTCTTCGCTGCTGCTCAGGGAAACAAGGCTTAGTG
1 TTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
* * * *
4967570 GCTTAAATCTGCTTCCCACTATCTTGGAAAAATAAGATTCACCATCTTTGATCTGCTCCACT
66 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
4967632 GTCAATGTAG
Statistics
Matches: 485, Mismatches: 38, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 485 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
TTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACT
GC
Found at i:4967252 original size:44 final size:44
Alignment explanation
Indices: 4967203--4967520 Score: 179
Period size: 44 Copynumber: 7.2 Consensus size: 44
4967193 TATCTTGGAA
4967203 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
4967247 AGATAAGA-TCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
4967291 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
4967335 AGATTAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * ** * *
4967379 AGATAAGATCTAC-AAG-CTTCAACCTTCTCCGTTGCTGCTCAGGG
1 AGATAAGAT-T-CGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * **
4967423 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTTAGAA
1 AGATAA-GATTCGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGGG
*
4967467 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
4967511 AGATAAGATT
1 AGATAAGATT
4967521 TACAATCTTC
Statistics
Matches: 193, Mismatches: 61, Indels: 40
0.66 0.21 0.14
Matches are distributed among these distances:
42 12 0.06
43 15 0.08
44 145 0.75
45 11 0.06
46 10 0.05
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:4967530 original size:44 final size:44
Alignment explanation
Indices: 4967071--4967532 Score: 177
Period size: 44 Copynumber: 10.5 Consensus size: 44
4967061 TATCTTAGAA
* * * * *
4967071 AGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGT
1 AGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
4967115 AAATAAGATTTACAATCTTCAACCTTCTTCGCTGCTGCTCAGGG
1 AGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * * * *
4967159 AGACAAGGCTTGGTGGCTTAAATATACTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCAGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
4967203 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
4967247 AGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGG
1 AGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * *
4967291 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCAGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
4967335 AGATTAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * ** * *
4967379 AGATAAGATCTACAAG-CTTCAACCTTCTCCGTTGCTGCTCAGGG
1 AGATAAGATTTGC-AGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * **
4967423 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTTAGAA
1 AGATAAGATTTGCAGTCTTCAATCTGC-T-CCACTACTGCTTAGGG
* * *
4967467 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* *
4967511 AGATAAGATTTACAATCTTCAA
1 AGATAAGATTTGCAGTCTTCAA
4967533 CCTTCTTCGC
Statistics
Matches: 279, Mismatches: 121, Indels: 36
0.64 0.28 0.08
Matches are distributed among these distances:
42 18 0.06
43 11 0.04
44 228 0.82
45 11 0.04
46 11 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:4967791 original size:15 final size:16
Alignment explanation
Indices: 4967771--4967803 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4967761 GACATGTATG
*
4967771 TAGAATG-TTTTTTTT
1 TAGAATGATCTTTTTT
4967786 TAGAATGATCTTTTTT
1 TAGAATGATCTTTTTT
4967802 TA
1 TA
4967804 TCACTTAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.61
Consensus pattern (16 bp):
TAGAATGATCTTTTTT
Found at i:4968843 original size:6 final size:6
Alignment explanation
Indices: 4968842--4968871 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
4968832 TTTTTTTGTT
4968842 TTTTTG TTTTTG TTTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG -TTTTTG TTTTTG TTTTT
4968872 TTTGAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:4968843 original size:7 final size:7
Alignment explanation
Indices: 4968833--4968872 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
4968823 TTTTTTCATT
4968833 TTTTTTG
1 TTTTTTG
4968840 TTTTTT-
1 TTTTTTG
4968846 TGTTTTTG
1 T-TTTTTG
4968854 TTTTTTG
1 TTTTTTG
4968861 -TTTTTG
1 TTTTTTG
4968867 TTTTTT
1 TTTTTT
4968873 TTGAATCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.23
7 22 0.73
8 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:4968853 original size:14 final size:14
Alignment explanation
Indices: 4968834--4968873 Score: 73
Period size: 13 Copynumber: 2.9 Consensus size: 14
4968824 TTTTTCATTT
4968834 TTTTTGTTTTTTTG
1 TTTTTGTTTTTTTG
4968848 TTTTTG-TTTTTTG
1 TTTTTGTTTTTTTG
4968861 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
4968874 TGAATCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (14 bp):
TTTTTGTTTTTTTG
Found at i:4973580 original size:98 final size:98
Alignment explanation
Indices: 4973406--4973602 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
4973396 GTACAATAAA
* *
4973406 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATT
* *
4973471 CCTCTAGAATCCCAAGCTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
4973504 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATT
*
4973569 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
4973602 A
1 A
4973603 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:4975069 original size:23 final size:22
Alignment explanation
Indices: 4975038--4975086 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
4975028 GATTAAAGGG
4975038 TATC-TCTAAGATTACAAAATCA
1 TATCTTCTAAGATTAC-AAATCA
* *
4975060 TATCTTCTAAGATTGCATATCA
1 TATCTTCTAAGATTACAAATCA
4975082 TATCT
1 TATCT
4975087 AAGATTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (22 bp):
TATCTTCTAAGATTACAAATCA
Found at i:4975089 original size:19 final size:19
Alignment explanation
Indices: 4975065--4975196 Score: 194
Period size: 19 Copynumber: 6.8 Consensus size: 19
4975055 AATCATATCT
4975065 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
4975084 TCTAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
4975103 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4975122 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
4975143 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
4975162 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4975181 TAC-AAGATTGCATATC
1 T-CTAAGATTGCATATC
4975197 CTCAAAAATT
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
19 82 0.80
20 1 0.01
21 19 0.19
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4975149 original size:59 final size:59
Alignment explanation
Indices: 4975058--4975195 Score: 196
Period size: 59 Copynumber: 2.4 Consensus size: 59
4975048 ATTACAAAAT
*
4975058 CATATC-T-TCTAAGATTGC--ATATCATATCTAAGATTATACATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACACATCATATCTAAGATTG
* * *
4975113 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACACATCATATCTAAGATTG
4975172 CATATCATATAC-AAGATTGCATAT
1 CATATCATAT-CTAAGATTGCATAT
4975196 CCTCAAAAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 6 0.08
56 1 0.01
57 11 0.15
59 55 0.74
60 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACACATCATATCTAAGATTG
Found at i:4976980 original size:18 final size:18
Alignment explanation
Indices: 4976941--4976982 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4976931 GATGTATAAT
*
4976941 GCAAAAATAACCAATTAA
1 GCAAAAATAACCAATGAA
*
4976959 GCAATAATAA-CAATGAA
1 GCAAAAATAACCAATGAA
4976976 CGCAAAA
1 -GCAAAA
4976983 GGATCTCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.14
Consensus pattern (18 bp):
GCAAAAATAACCAATGAA
Found at i:4979127 original size:16 final size:16
Alignment explanation
Indices: 4979102--4979140 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4979092 TTGTATGTAG
4979102 AATAAAAAATA-AAAA
1 AATAAAAAATAGAAAA
*
4979117 ATATAACAAATAGAAAA
1 A-ATAAAAAATAGAAAA
4979134 AATAAAA
1 AATAAAA
4979141 TTGCAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.70
17 5 0.25
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (16 bp):
AATAAAAAATAGAAAA
Found at i:4980016 original size:23 final size:23
Alignment explanation
Indices: 4979986--4980030 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4979976 CACCCCTACT
4979986 TAGAGGGAATATATCTAAATATA
1 TAGAGGGAATATATCTAAATATA
4980009 TAGAGGGAATATATCTAAATAT
1 TAGAGGGAATATATCTAAATAT
4980031 TTAAGTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (23 bp):
TAGAGGGAATATATCTAAATATA
Found at i:4985881 original size:23 final size:23
Alignment explanation
Indices: 4985813--4985885 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
4985803 TACAATATCC
* * *
4985813 AAACAATATTAAAAGCGGCAGCG
1 AAACAACATTAAAAGCAGCAGTG
* *
4985836 GAACAACATTAAAAGCAGTAGTG
1 AAACAACATTAAAAGCAGCAGTG
*
4985859 AAACAACATTAAAAAGGA-CAGTG
1 AAACAACATT-AAAAGCAGCAGTG
4985882 AAAC
1 AAAC
4985886 TGCACCAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 35 0.85
24 6 0.15
ACGTcount: A:0.52, C:0.15, G:0.19, T:0.14
Consensus pattern (23 bp):
AAACAACATTAAAAGCAGCAGTG
Found at i:4986386 original size:4 final size:4
Alignment explanation
Indices: 4986377--4986417 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
4986367 CTTGTTTATG
4986377 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
4986418 AATGTTCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:4988436 original size:20 final size:21
Alignment explanation
Indices: 4988408--4988449 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4988398 TAATAATAAT
*
4988408 ACATGATAAAAGAAT-TAAAA
1 ACATAATAAAAGAATGTAAAA
*
4988428 ACATAATAAAATAATGTAAAA
1 ACATAATAAAAGAATGTAAAA
4988449 A
1 A
4988450 AAATAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
ACATAATAAAAGAATGTAAAA
Found at i:4990376 original size:22 final size:22
Alignment explanation
Indices: 4990350--4990391 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4990340 CAATAGTACT
*
4990350 AACATAATTAAATTCAATTATA
1 AACATAATAAAATTCAATTATA
*
4990372 AACATAATAAAATTGAATTA
1 AACATAATAAAATTCAATTA
4990392 ACAAATAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (22 bp):
AACATAATAAAATTCAATTATA
Found at i:4992227 original size:12 final size:12
Alignment explanation
Indices: 4992210--4992234 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4992200 AGCCCAAACT
4992210 CAATTACCCAAC
1 CAATTACCCAAC
4992222 CAATTACCCAAC
1 CAATTACCCAAC
4992234 C
1 C
4992235 CAATAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (12 bp):
CAATTACCCAAC
Found at i:4992389 original size:8 final size:8
Alignment explanation
Indices: 4992378--4992435 Score: 62
Period size: 8 Copynumber: 6.9 Consensus size: 8
4992368 AAAAATTTCG
4992378 GGTAATTC
1 GGTAATTC
*
4992386 GGTATTTTTC
1 GGTA--ATTC
4992396 GGTAATTC
1 GGTAATTC
4992404 GGTTAATTC
1 GG-TAATTC
*
4992413 GTTAATTC
1 GGTAATTC
4992421 GGTAATTC
1 GGTAATTC
*
4992429 GGGAATT
1 GGTAATT
4992436 TTAACCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 28 0.67
9 7 0.17
10 7 0.17
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.43
Consensus pattern (8 bp):
GGTAATTC
Found at i:4992401 original size:18 final size:18
Alignment explanation
Indices: 4992372--4992424 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
4992362 AAAAAAAAAA
4992372 ATTTCGGGTAATTCGGTAT
1 ATTTC-GGTAATTCGGTAT
*
4992391 TTTTCGGTAATTCGGT-T
1 ATTTCGGTAATTCGGTAT
* *
4992408 AATTCGTTAATTCGGTA
1 ATTTCGGTAATTCGGTA
4992425 ATTCGGGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 14 0.48
18 11 0.38
19 4 0.14
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (18 bp):
ATTTCGGTAATTCGGTAT
Found at i:4992410 original size:27 final size:25
Alignment explanation
Indices: 4992374--4992435 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
4992364 AAAAAAAAAT
**
4992374 TTCGGGTAATTCGGTATTTTTCGGTAA
1 TTCGGGTAATTC-GT-TAATTCGGTAA
*
4992401 TTCGGTTAATTCGTTAATTCGGTAA
1 TTCGGGTAATTCGTTAATTCGGTAA
4992426 TTCGGG-AATT
1 TTCGGGTAATT
4992436 TTAACCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 4 0.13
25 14 0.45
26 2 0.06
27 11 0.35
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.44
Consensus pattern (25 bp):
TTCGGGTAATTCGTTAATTCGGTAA
Found at i:4992418 original size:17 final size:16
Alignment explanation
Indices: 4992378--4992435 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
4992368 AAAAATTTCG
*
4992378 GGTAATTCGGTATTTTTC
1 GGTAATTCGGTA--ATTC
4992396 GGTAATTCGGTTAATTC
1 GGTAATTCGG-TAATTC
*
4992413 GTTAATTCGGTAATTC
1 GGTAATTCGGTAATTC
*
4992429 GGGAATT
1 GGTAATT
4992436 TTAACCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
16 11 0.31
17 12 0.34
18 10 0.29
19 2 0.06
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.43
Consensus pattern (16 bp):
GGTAATTCGGTAATTC
Found at i:5008167 original size:18 final size:19
Alignment explanation
Indices: 5008127--5008170 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
5008117 TTTATTTTTT
* *
5008127 AAAATATATATATAGATTA
1 AAAATATATAAATACATTA
5008146 AAAATA-ATAAATACATTCA
1 AAAATATATAAATACATT-A
5008165 AAAATA
1 AAAATA
5008171 AATATGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATATATAAATACATTA
Found at i:5008265 original size:27 final size:28
Alignment explanation
Indices: 5008235--5008290 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
5008225 AAAATACAAT
* *
5008235 AAAAATA-ATTACATATAAAATTTATAA
1 AAAAATAGAATACATATAAAATTAATAA
5008262 AAAAATAGTAATACATATAAAATTAATAA
1 AAAAATAG-AATACATATAAAATTAATAA
5008291 TTTAAGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.28
29 18 0.72
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAAATAGAATACATATAAAATTAATAA
Found at i:5009029 original size:16 final size:16
Alignment explanation
Indices: 5009004--5009042 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
5008994 TTGTATGTAG
5009004 AATAAAAAATA-AAAA
1 AATAAAAAATAGAAAA
*
5009019 ATATAACAAATAGAAAA
1 A-ATAAAAAATAGAAAA
5009036 AATAAAA
1 AATAAAA
5009043 TTGCAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.70
17 5 0.25
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (16 bp):
AATAAAAAATAGAAAA
Found at i:5015365 original size:21 final size:23
Alignment explanation
Indices: 5015297--5015365 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
5015287 TACAATATCC
* * *
5015297 AAACAATATTAAAAGCGGCAGCG
1 AAACAACATTAAAAGCAGCAGTG
* *
5015320 GAACAACATTAAAAGCAGTAGTG
1 AAACAACATTAAAAGCAGCAGTG
*
5015343 AAACAACA-TAAAAGGA-CAGTG
1 AAACAACATTAAAAGCAGCAGTG
5015364 AA
1 AA
5015366 CTGCACCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 6 0.16
22 7 0.18
23 25 0.66
ACGTcount: A:0.52, C:0.14, G:0.20, T:0.13
Consensus pattern (23 bp):
AAACAACATTAAAAGCAGCAGTG
Done.