Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 143 of 318
Found at i:43732205 original size:9 final size:9
Alignment explanation
Indices: 43732191--43732247 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
43732181 CATCTCTGTG
43732191 CATATCATA
1 CATATCATA
*
43732200 CATATCATGTG
1 CATATCA--TA
43732211 CATATCATA
1 CATATCATA
* *
43732220 CATGTCATGTG
1 CATATCA--TA
43732231 CATATCATA
1 CATATCATA
43732240 CATATCAT
1 CATATCAT
43732248 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:43732210 original size:20 final size:20
Alignment explanation
Indices: 43732187--43732249 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
43732177 TGAACATCTC
43732187 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
43732207 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
43732227 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
43732247 TGT
1 TGT
43732250 TTATCAAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:43732310 original size:25 final size:25
Alignment explanation
Indices: 43732282--43732329 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43732272 ATACATAAAC
* * *
43732282 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43732307 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43732330 CATTTATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43733586 original size:27 final size:27
Alignment explanation
Indices: 43733557--43734127 Score: 618
Period size: 27 Copynumber: 21.6 Consensus size: 27
43733547 GGGTATTTTA
* * *
43733557 GTAATTTTGTAAATCGAGGGCAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
43733584 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
43733611 GTAATTCTATAAATCGAGGCT-AAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
43733637 GAAATACTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
43733664 GTAATTCTGT-AATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
43733690 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
43733717 GTAATTATATAAAT-TAGGGGTAAAA-G
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* **
43733743 GTAATT-TATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
43733769 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
43733796 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
43733823 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
43733850 GTAATTCTATAAATCGAGGGT-AAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
43733876 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
43733903 ATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
43733930 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
43733957 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
43733984 GT--TTCTGTAAATCGAAGGT-AAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
43734008 GTAA-T-T-TACATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
43734032 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
43734059 GTAATTTTACAAATCGAGGGTAAAA-T
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
43734085 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
43734112 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
43734128 GAGTACTTTG
Statistics
Matches: 465, Mismatches: 57, Indels: 44
0.82 0.10 0.08
Matches are distributed among these distances:
23 10 0.02
24 17 0.04
25 32 0.07
26 107 0.23
27 296 0.64
28 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:43733602 original size:54 final size:54
Alignment explanation
Indices: 43733556--43734127 Score: 593
Period size: 53 Copynumber: 10.8 Consensus size: 54
43733546 AGGGTATTTT
* * * *
43733556 AGTAATTTTGTAAATCGAGGGCAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * * * *
43733610 AGTAATTCTATAAATCGAGGCT-AAATGGAAATACTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * * * *
43733663 GGTAATTCTGT-AATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * * * * *
43733716 GGTAATTATATAAAT-TAGGGGTAAAA-GGTAATT-TATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* *
43733768 AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
43733822 GGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT-AAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* **
43733875 AGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAAC
* **
43733929 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
43733983 GGT--TTCTGTAAATCGAAGGT-AAACGGTAA-T-T-TACATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * * **
43734031 GGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* *
43734084 TGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
43734128 GAGTACTTTG
Statistics
Matches: 439, Mismatches: 61, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
48 17 0.04
49 2 0.00
50 16 0.04
51 16 0.04
52 64 0.15
53 164 0.37
54 159 0.36
55 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:43733716 original size:80 final size:80
Alignment explanation
Indices: 43733557--43734127 Score: 546
Period size: 80 Copynumber: 7.2 Consensus size: 80
43733547 GGGTATTTTA
* * * *
43733557 GTAATTTTGTAAATCGAGGGCAAAACAGTAATTCTGTAAATCAAGGGTAAAAC-AGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGT-AATCGAGGGTAAAACGA-TAATTCTAT
* *
43733621 AAATCGAGGCT-AAATG
64 AAATCGAGGGTAAAACG
* * * *
43733637 GAAATACTGTAAATCGAGGGTAAAACGGTAATTCTGTAATCGAGGGTAAAACGATAATTATGTAA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAATCGAGGGTAAAACGATAATTCTATAA
* *
43733702 ATCGGGGGTAAAATG
66 ATCGAGGGTAAAACG
* * * * * *
43733717 GTAATTATATAAAT-TAGGGGTAAAA-GGTAATT-TATAAATCGAGGGTAAAA-TAGTAATTCTG
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGT-AATCGAGGGTAAAACGA-TAATTCTA
43733778 TAAA-CTGAGGGTAAAACG
63 TAAATC-GAGGGTAAAACG
* * * ** *
43733796 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCT-GTAATCGAGGGTAAAACGATAATTCTATA
*
43733861 AATCGAGGGT-AAACA
65 AATCGAGGGTAAAACG
* ** * * *
43733876 GTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAATC-GAGGGTAAAACGATAATTCTATA
**
43733941 AATCGAGGGTAAAATA
65 AATCGAGGGTAAAACG
* *
43733957 GTAATTCTGTAAA-CTGAGGGTAAAACGGT--TTCTGTAAATCGAAGGT-AAACGGTAA-T-T-T
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGT-AATCGAGGGTAAAACGATAATTCTAT
*
43734015 ACATCGAGGGTAAAACG
64 AAATCGAGGGTAAAACG
* * ** *
43734032 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATG-TAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCT-GTAATCGAGGGTAAAACGATAATTCTATA
43734096 AA-CTGAGGGTAAAACG
65 AATC-GAGGGTAAAACG
43734112 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
43734128 GAGTACTTTG
Statistics
Matches: 410, Mismatches: 56, Indels: 50
0.79 0.11 0.10
Matches are distributed among these distances:
75 41 0.10
76 2 0.00
77 16 0.04
78 18 0.04
79 109 0.27
80 163 0.40
81 60 0.15
82 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (80 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAATCGAGGGTAAAACGATAATTCTATAA
ATCGAGGGTAAAACG
Found at i:43737278 original size:24 final size:24
Alignment explanation
Indices: 43737232--43737356 Score: 173
Period size: 24 Copynumber: 5.2 Consensus size: 24
43737222 GGCCTAGCCT
43737232 CTTTTTAATAACTGGGGCA-AAGC
1 CTTTTTAATAACTGGGGCATAAGC
*
43737255 CTTTTTAATAACTGGGGCGTAAGC
1 CTTTTTAATAACTGGGGCATAAGC
* *
43737279 CCTTTTGATAACTGGGGCATAAGC
1 CTTTTTAATAACTGGGGCATAAGC
* *
43737303 CCTTTTGATAACTGGGGCATAAGC
1 CTTTTTAATAACTGGGGCATAAGC
*
43737327 C-CTTTAATAACTGGGGCATAAGCC
1 CTTTTTAATAACTGGGGCATAAG-C
43737351 CTTTTT
1 CTTTTT
43737357 CACTTCCTCC
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 37 0.40
24 52 0.57
25 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (24 bp):
CTTTTTAATAACTGGGGCATAAGC
Found at i:43737293 original size:47 final size:48
Alignment explanation
Indices: 43737234--43737356 Score: 187
Period size: 47 Copynumber: 2.6 Consensus size: 48
43737224 CCTAGCCTCT
*
43737234 TTTTAATAACTGGGGCA-AAGCCTTTTTAATAACTGGGGCGTAAGCCC
1 TTTTAATAACTGGGGCATAAGCCTTTTTAATAACTGGGGCATAAGCCC
* * *
43737281 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCTTTTTAATAACTGGGGCATAAGCCC
43737329 -TTTAATAACTGGGGCATAAGCCCTTTTT
1 TTTTAATAACTGGGGCATAAG-CCTTTTT
43737357 CACTTCCTCC
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
47 35 0.51
48 33 0.49
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (48 bp):
TTTTAATAACTGGGGCATAAGCCTTTTTAATAACTGGGGCATAAGCCC
Found at i:43737433 original size:20 final size:20
Alignment explanation
Indices: 43737410--43737491 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
43737400 GAACATCTCG
43737410 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
43737430 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
43737450 TGTGCATAT-ATACATATCA
1 TGTGCATATCATACATATCA
43737469 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
43737489 TGT
1 TGT
43737492 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
19 18 0.31
20 41 0.69
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:43737439 original size:11 final size:11
Alignment explanation
Indices: 43737410--43737480 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
43737400 GAACATCTCG
43737410 TGTGCATATCA
1 TGTGCATATCA
*
43737421 --TACATATCA
1 TGTGCATATCA
43737430 TGTGCATATCA
1 TGTGCATATCA
* *
43737441 --TACATGTCA
1 TGTGCATATCA
43737450 TGTGCATAT-A
1 TGTGCATATCA
*
43737460 --TACATATCA
1 TGTGCATATCA
43737469 TGTGCATATCA
1 TGTGCATATCA
43737480 T
1 T
43737481 ACATATCATG
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
8 6 0.13
9 16 0.36
10 1 0.02
11 22 0.49
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:43737467 original size:39 final size:40
Alignment explanation
Indices: 43737410--43737491 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 40
43737400 GAACATCTCG
*
43737410 TGTGCATATCATACATATCATGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCATGTGCATATCATACATATCA
43737450 TGTGCATAT-ATACATATCATGTGCATATCATACATATCA
1 TGTGCATATCATACATATCATGTGCATATCATACATATCA
43737489 TGT
1 TGT
43737492 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 32 0.78
40 9 0.22
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (40 bp):
TGTGCATATCATACATATCATGTGCATATCATACATATCA
Found at i:43737556 original size:25 final size:25
Alignment explanation
Indices: 43737528--43737575 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43737518 ATATATAAAC
* * *
43737528 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43737553 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43737576 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43738836 original size:27 final size:27
Alignment explanation
Indices: 43738807--43739388 Score: 645
Period size: 27 Copynumber: 21.6 Consensus size: 27
43738797 GGGTATTTTA
* * *
43738807 GTAATTTTTTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
43738834 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
43738861 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
43738888 GAAATACTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
43738915 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
43738942 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
43738969 GTAATTATATAAAT-TAGGGGT-AAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* * **
43738995 GTAATTTTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
43739022 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
43739049 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
43739076 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
43739103 ATAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * ** *
43739130 GTGATTCTATAAATTAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
43739157 ATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
43739184 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
43739211 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
43739238 GTTATTCTGTAAATCGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
43739265 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
43739292 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** **
43739319 GTAATTTTACAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
43739346 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
43739373 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
43739389 GGAGTACTTT
Statistics
Matches: 472, Mismatches: 72, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
26 24 0.05
27 444 0.94
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:43742515 original size:29 final size:29
Alignment explanation
Indices: 43742475--43742577 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
43742465 GTTGAGAGAT
* *
43742475 TGGCACTGAGTGTACGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
43742504 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
43742533 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
43742562 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43742578 TGGCTGATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 5 0.07
29 63 0.93
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:43745630 original size:11 final size:11
Alignment explanation
Indices: 43745607--43745641 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
43745597 CACTTACAAG
43745607 CATTAACAAACA
1 CATTAA-AAACA
43745619 CATTAAAAACA
1 CATTAAAAACA
*
43745630 CATTAAACACA
1 CATTAAAAACA
43745641 C
1 C
43745642 TATATACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (11 bp):
CATTAAAAACA
Found at i:43745864 original size:40 final size:40
Alignment explanation
Indices: 43745808--43745921 Score: 174
Period size: 40 Copynumber: 2.8 Consensus size: 40
43745798 GAGTTTAATA
*
43745808 AAAATAAAGTCTAGCAAATCAATAATTAACTAAGATGAGT
1 AAAATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGT
43745848 AAAATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGT
1 AAAATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGT
** * *
43745888 TTAATAAAGTCCAGCAACTCAATTATTAAACTAA
1 AAAATAAAGTCCAGCAAATCAATAATT-AACTAA
43745922 AATTATAAGC
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 62 0.91
41 6 0.09
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (40 bp):
AAAATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGT
Found at i:43749990 original size:17 final size:19
Alignment explanation
Indices: 43749959--43749999 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
43749949 AGGTGCCATC
*
43749959 ATTTTTTATATAATATA-T
1 ATTTTTTATAAAATATATT
43749977 ATTTTTTA-AAAATATATT
1 ATTTTTTATAAAATATATT
43749995 ATTTT
1 ATTTT
43750000 ATTAGTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTTATAAAATATATT
Found at i:43762830 original size:29 final size:29
Alignment explanation
Indices: 43762768--43762870 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
43762758 GTGACGAGAT
* * *
43762768 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
43762797 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
43762826 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
43762855 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43762871 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:43770811 original size:29 final size:29
Alignment explanation
Indices: 43770749--43770851 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
43770739 GTGACGAGAT
* * *
43770749 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
43770778 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
43770807 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
43770836 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43770852 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:43778841 original size:76 final size:76
Alignment explanation
Indices: 43778639--43778871 Score: 303
Period size: 78 Copynumber: 3.1 Consensus size: 76
43778629 TTTCGTAAAT
* * * * * *
43778639 AATACAAAGTTTATTATTTAAATTG-CAAGAAACTCC-TAAATTTAATAACTGAAATAGCGAAAA
1 AATACAAAGTTTACTATTTAAATTGTAAAAAAAC-CCATAAAATTAATAACTAAAATGGC-AAAA
43778702 AA-TCATTACATA
64 AAGTCATTACATA
**
43778714 AATACAAAGTTGT-CTATTTAAATTGTAAAAAAAAATTCATAAAATTAATAACTAAAATGGCAAA
1 AATACAAAGTT-TACTATTTAAATTGT--AAAAAAACCCATAAAATTAATAACTAAAATGGCAAA
43778778 AAAGTCATTACATA
63 AAAGTCATTACATA
*
43778792 AATACAAAGTTTACTATTTAAATTGTAAAAAAACCCATAAAATTAATAACTAAAATGGAAAAAAA
1 AATACAAAGTTTACTATTTAAATTGTAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
*
43778857 GTCATTATATA
66 GTCATTACATA
43778868 AATA
1 AATA
43778872 TGAAGTTATT
Statistics
Matches: 139, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
75 22 0.16
76 51 0.37
77 8 0.06
78 58 0.42
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (76 bp):
AATACAAAGTTTACTATTTAAATTGTAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
GTCATTACATA
Found at i:43781307 original size:104 final size:105
Alignment explanation
Indices: 43781171--43781408 Score: 278
Period size: 104 Copynumber: 2.3 Consensus size: 105
43781161 ATATAAAAAC
* *
43781171 TACATTA--AAAAAATCACAACAA-CTAAACTAAACACTAAGAATTTTTATAACTTAAT-CATA-
1 TACATTACTAAAAAATCACAA-AACCTAAACTAAACACTAACAA--TTTATAACCTAATCCATAT
* *
43781231 AATTACTAACAAAATAACT-A-TAAAATTATTTTTTT-AA-AAAT
63 AA-TACTAACAAAATAAATAACTAAAA-CATTTTTTTAAAGAAAT
*
43781272 TACTTTACTAAAAAATCACAAAACCCTAAACTAAACACTAACAATTTATAACCTAATCCCATATA
1 TACATTACTAAAAAATCACAAAA-CCTAAACTAAACACTAACAATTTATAACCTAAT-CCATATA
43781337 ATACTAACAAAATAAATAACTAAAACATTTTTTTAAAAGAAAT
64 ATACTAACAAAATAAATAACTAAAACATTTTTTT-AAAGAAAT
*
43781380 TACATTACTAAAAAATAACAAAACACTAA
1 TACATTACTAAAAAATCACAAAAC-CTAA
43781409 CAATTAATAA
Statistics
Matches: 117, Mismatches: 7, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
101 6 0.05
102 14 0.12
103 12 0.10
104 37 0.32
105 11 0.09
106 5 0.04
107 3 0.03
108 29 0.25
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.29
Consensus pattern (105 bp):
TACATTACTAAAAAATCACAAAACCTAAACTAAACACTAACAATTTATAACCTAATCCATATAAT
ACTAACAAAATAAATAACTAAAACATTTTTTTAAAGAAAT
Found at i:43781548 original size:72 final size:71
Alignment explanation
Indices: 43781464--43781693 Score: 372
Period size: 72 Copynumber: 3.2 Consensus size: 71
43781454 TTATTTTTTG
43781464 AAAAACTCACAAAACACAA-AAATTTATAATAGATTACTAACAAAATATTTAACAAAATAATTTT
1 AAAAACTCACAAAACACAACAAA-TTATAATA-ATTACTAACAAAATATTTAACAAAATAATTTT
43781528 ACATTACT
64 ACATTACT
*
43781536 AAAAACTCACAAAACACAACAAATTATAATAATTTACTGACAAAATATTTAACAAAATAATTTTA
1 AAAAACTCACAAAACACAACAAATTATAATAA-TTACTAACAAAATATTTAACAAAATAATTTTA
43781601 CATTACT
65 CATTACT
* *
43781608 AAAAACTCACAAAACACAACAAATTATAATAAATTACAAACAAAATATTTAACAAAATAATTTTT
1 AAAAACTCACAAAACACAACAAATTATAAT-AATTACTAACAAAATATTTAACAAAATAATTTTA
*
43781673 CATTAAT
65 CATTACT
*
43781680 AAAAAATCACAAAA
1 AAAAACTCACAAAA
43781694 TACTAAACTA
Statistics
Matches: 149, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
71 1 0.01
72 143 0.96
73 5 0.03
ACGTcount: A:0.57, C:0.14, G:0.01, T:0.27
Consensus pattern (71 bp):
AAAAACTCACAAAACACAACAAATTATAATAATTACTAACAAAATATTTAACAAAATAATTTTAC
ATTACT
Found at i:43781549 original size:41 final size:41
Alignment explanation
Indices: 43781503--43781621 Score: 114
Period size: 41 Copynumber: 3.1 Consensus size: 41
43781493 TAGATTACTA
43781503 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
1 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
* * * ** *
43781544 ACAAAACA--CAAC-AAATTATAATA-ATT--T----ACTG
1 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
43781575 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
1 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
43781616 ACAAAA
1 ACAAAA
43781622 CACAACAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 20
0.64 0.14 0.23
Matches are distributed among these distances:
31 10 0.18
33 3 0.05
34 8 0.14
35 4 0.07
37 4 0.07
38 8 0.14
39 3 0.05
41 16 0.29
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (41 bp):
ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
Found at i:43781558 original size:39 final size:39
Alignment explanation
Indices: 43781514--43781630 Score: 106
Period size: 31 Copynumber: 3.2 Consensus size: 39
43781504 CAAAATATTT
43781514 AACAAAATAATTTTACATTACTAAAAACTCACAAAACAC
1 AACAAAATAATTTTACATTACTAAAAACTCACAAAACAC
* ** * * *
43781553 AAC-AAATTATAATA-ATT--T----ACTGACAAAATATTT
1 AACAAAATAATTTTACATTACTAAAAACTCACAAAACA--C
43781586 AACAAAATAATTTTACATTACTAAAAACTCACAAAACAC
1 AACAAAATAATTTTACATTACTAAAAACTCACAAAACAC
43781625 AACAAA
1 AACAAA
43781631 TTATAATAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 20
0.64 0.14 0.23
Matches are distributed among these distances:
31 10 0.18
33 3 0.05
34 8 0.14
35 4 0.07
37 4 0.07
38 8 0.14
39 9 0.16
41 10 0.18
ACGTcount: A:0.56, C:0.17, G:0.01, T:0.26
Consensus pattern (39 bp):
AACAAAATAATTTTACATTACTAAAAACTCACAAAACAC
Found at i:43781755 original size:144 final size:143
Alignment explanation
Indices: 43781459--43781732 Score: 329
Period size: 144 Copynumber: 1.9 Consensus size: 143
43781449 TAAAATTATT
* *
43781459 TTTTGAAAAACTCACAAAACACAAAAATTTATAATAGATTACTAACAAAATATTTAACAAAATAA
1 TTTT-AAAAACTCACAAAACACAAAAATTTATAATAAATTACAAACAAAATATTTAACAAAATAA
* * * * * * * *
43781524 TTTTACATTACTAAAAACTCACAAAACACAACAAATTATAATAATTTACTGACAAAATATTTAAC
65 TTTTACATTAATAAAAAATCACAAAACACAACAAATCACAACAATTTACTAACAAAATACTAAAC
*
43781589 AAAATAATTTTACA
130 AAAATAATATTACA
*
43781603 TTACTAAAAACTCACAAAACACAACAAA-TTATAATAAATTACAAACAAAATATTTAACAAAATA
1 TT-TTAAAAACTCACAAAACACAA-AAATTTATAATAAATTACAAACAAAATATTTAACAAAATA
* * * *
43781667 ATTTTTCATTAATAAAAAATCACAAAATACTAAACTAAA-CACAACAATTTA-TAACATAATCCT
64 ATTTTACATTAATAAAAAATCACAAAACAC--AAC-AAATCACAACAATTTACTAACAAAATACT
43781730 AAA
126 AAA
43781733 TTACTAATAA
Statistics
Matches: 110, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
144 81 0.74
145 14 0.13
146 12 0.11
147 3 0.03
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (143 bp):
TTTTAAAAACTCACAAAACACAAAAATTTATAATAAATTACAAACAAAATATTTAACAAAATAAT
TTTACATTAATAAAAAATCACAAAACACAACAAATCACAACAATTTACTAACAAAATACTAAACA
AAATAATATTACA
Found at i:43781773 original size:60 final size:60
Alignment explanation
Indices: 43781702--43781825 Score: 230
Period size: 60 Copynumber: 2.1 Consensus size: 60
43781692 AATACTAAAC
*
43781702 TAAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
*
43781762 TAAACACAACAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTA
1 TAAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
43781822 TAAA
1 TAAA
43781826 AAATAAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (60 bp):
TAAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
Found at i:43781792 original size:27 final size:27
Alignment explanation
Indices: 43781701--43781792 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
43781691 AAATACTAAA
43781701 CTAAACACAACAATTTATAACATAATC
1 CTAAACACAACAATTTATAACATAATC
* * * * *
43781728 CTAAATTACTAATAAATTAATTTTAAAATAATT
1 CTAAA-CAC-AA-CAA-T--TTATAACATAATC
*
43781761 ATAAACACAACAATTTATAACATAATC
1 CTAAACACAACAATTTATAACATAATC
43781788 CTAAA
1 CTAAA
43781793 TTATTAACAA
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
27 19 0.40
28 2 0.04
29 3 0.06
30 4 0.09
31 3 0.06
32 2 0.04
33 14 0.30
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (27 bp):
CTAAACACAACAATTTATAACATAATC
Found at i:43781847 original size:23 final size:21
Alignment explanation
Indices: 43781812--43781853 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
43781802 AATTAATTTT
43781812 AAAATAATTATAAAAAATAAA
1 AAAATAATTATAAAAAATAAA
43781833 AAAATACATTTATAAAAAATA
1 AAAATA-A-TTATAAAAAATA
43781854 TTAACCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAATTATAAAAAATAAA
Found at i:43782014 original size:12 final size:12
Alignment explanation
Indices: 43781992--43782039 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
43781982 TACATTACCT
43781992 TTTTCTTTCTTTC
1 TTTT-TTTCTTTC
43782005 TTTTTTTCTTTC
1 TTTTTTTCTTTC
*
43782017 TTCTTATTCTTT-
1 TT-TTTTTCTTTC
43782029 TTTTTCTTCTT
1 TTTTT-TTCTT
43782040 GTGTCTCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 2 0.06
12 17 0.55
13 12 0.39
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:43782190 original size:19 final size:20
Alignment explanation
Indices: 43782159--43782197 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
43782149 TTGGGTATTT
*
43782159 TTAACTCGTATTTTGACCTG
1 TTAACTCGTATTTTAACCTG
43782179 TTAACT-GTATTTTAACCTG
1 TTAACTCGTATTTTAACCTG
43782198 GTGTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TTAACTCGTATTTTAACCTG
Found at i:43782252 original size:20 final size:21
Alignment explanation
Indices: 43782227--43782265 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43782217 TTTTAAAAAA
*
43782227 TAAAAT-AATAATATTTTATT
1 TAAAATAAAAAATATTTTATT
43782247 TAAAATAAAAAATATTTTA
1 TAAAATAAAAAATATTTTA
43782266 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAATAAAAAATATTTTATT
Found at i:43782258 original size:27 final size:25
Alignment explanation
Indices: 43782211--43782260 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
43782201 TATATATTTA
43782211 AATATTTTTTAAAAAATAAAATAAT
1 AATATTTTTTAAAAAATAAAATAAT
*
43782236 AATATTTTATT-TAAAATAAAA-AAT
1 AATATTTT-TTAAAAAATAAAATAAT
43782260 A
1 A
43782261 TTTTAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 17 0.74
26 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATATTTTTTAAAAAATAAAATAAT
Found at i:43782277 original size:21 final size:20
Alignment explanation
Indices: 43782226--43782277 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
43782216 TTTTTAAAAA
* *
43782226 ATAAAATAATAATATTTTAT
1 ATAAAAAAAAAATATTTTAT
*
43782246 TTAAAATAAAAAATATTTTAAT
1 ATAAAA-AAAAAATATTTT-AT
43782268 ATAAAAAAAA
1 ATAAAAAAAA
43782278 TGGTGACGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.19
21 14 0.54
22 7 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAAAAAAAAATATTTTAT
Found at i:43783434 original size:6 final size:6
Alignment explanation
Indices: 43783404--43783588 Score: 103
Period size: 6 Copynumber: 30.0 Consensus size: 6
43783394 AAGAAACATT
* * *
43783404 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATAAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
43783451 GTGACAGA ATCAAA ATCAAA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * *
43783502 ATTAGT ATCAGGTA A-CAGA ATCAGA ATCAAA ATTAGA ATCAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
43783553 A-CAGA ATCAAA ATCAGT ATCAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
43783589 GTGTGAATGC
Statistics
Matches: 136, Mismatches: 26, Indels: 34
0.69 0.13 0.17
Matches are distributed among these distances:
5 10 0.07
6 105 0.77
7 14 0.10
8 7 0.05
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:43783468 original size:31 final size:31
Alignment explanation
Indices: 43783425--43783588 Score: 133
Period size: 31 Copynumber: 5.3 Consensus size: 31
43783415 AATCAAAATG
* * *
43783425 AGAATCAGAATCAGAATAAGAATCAGGTGAC
1 AGAATCAGAATCAAAATTAGAATCAGGTAAC
* * *
43783456 AGAATCAAAATCAAAATCAGAATCA-G-AATT
1 AGAATCAGAATCAAAATTAGAATCAGGTAA-C
* *
43783486 AGGTAA-CAGAATCAGAATTAGTATCAGGTAAC
1 A-G-AATCAGAATCAAAATTAGAATCAGGTAAC
*
43783518 AGAATCAGAATCAAAATTAGAATCA-G-AATT
1 AGAATCAGAATCAAAATTAGAATCAGGTAA-C
* *
43783548 AGGTAA-CAGAATCAAAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAAAATTAGAATCAGGTAAC
43783580 AGAATCAGA
1 AGAATCAGA
43783589 GTGTGAATGC
Statistics
Matches: 105, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
29 3 0.03
30 8 0.08
31 82 0.78
32 8 0.08
33 4 0.04
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAAAATTAGAATCAGGTAAC
Found at i:43783498 original size:25 final size:25
Alignment explanation
Indices: 43783470--43783537 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
43783460 TCAAAATCAA
43783470 AATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATTAGGTAACAG
* * *
43783495 AATCAGAATTAGTATCAGGTAACAG
1 AATCAGAATCAGAATTAGGTAACAG
*
43783520 AATCAGAATCAAAATTAG
1 AATCAGAATCAGAATTAG
43783538 AATCAGAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (25 bp):
AATCAGAATCAGAATTAGGTAACAG
Found at i:43783503 original size:43 final size:42
Alignment explanation
Indices: 43783404--43783484 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
43783394 AAGAAACATT
* *
43783404 ATCAGA-ACTAGAATCAAAATGAGAATCAGAATCAGAATAAGA
1 ATCAGATAC-AGAATCAAAATCAAAATCAGAATCAGAATAAGA
*
43783446 ATCAGGTGACAGAATCAAAATCAAAATCAGAATCAGAAT
1 ATCAGAT-ACAGAATCAAAATCAAAATCAGAATCAGAAT
43783485 TAGGTAACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 5 0.15
43 27 0.79
44 2 0.06
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.17
Consensus pattern (42 bp):
ATCAGATACAGAATCAAAATCAAAATCAGAATCAGAATAAGA
Found at i:43783512 original size:37 final size:37
Alignment explanation
Indices: 43783425--43783512 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
43783415 AATCAAAATG
*
43783425 AGAATCAGAATCAGAATAAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATAAGAATCAGGTAACAGAATC
* * * *
43783462 AAAATCAAAATCAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATAAGAATCAGGTAACAGAATC
* *
43783499 AGAATTAGTATCAG
1 AGAATCAGAATCAG
43783513 GTAACAGAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATAAGAATCAGGTAACAGAATC
Found at i:43783568 original size:25 final size:25
Alignment explanation
Indices: 43783538--43783586 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
43783528 TCAAAATTAG
*
43783538 AATCAGAATTAGGTAACAGAATCAA
1 AATCAGAATCAGGTAACAGAATCAA
*
43783563 AATCAGTATCAGGTAACAGAATCA
1 AATCAGAATCAGGTAACAGAATCA
43783587 GAGTGTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGGTAACAGAATCAA
Found at i:43783587 original size:62 final size:62
Alignment explanation
Indices: 43783430--43783588 Score: 255
Period size: 62 Copynumber: 2.6 Consensus size: 62
43783420 AAATGAGAAT
* * *
43783430 CAGAATCAGAATAAGAATCAGGTGACAGAATCAAAATCAAAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATAAGTATCAGGTAACAGAATCAGAATCAAAATCAGAATCAGAATTAGGTAA
* *
43783492 CAGAATCAGAATTAGTATCAGGTAACAGAATCAGAATCAAAATTAGAATCAGAATTAGGTAA
1 CAGAATCAGAATAAGTATCAGGTAACAGAATCAGAATCAAAATCAGAATCAGAATTAGGTAA
* *
43783554 CAGAATCAAAATCAGTATCAGGTAACAGAATCAGA
1 CAGAATCAGAATAAGTATCAGGTAACAGAATCAGA
43783589 GTGTGAATGC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 90 1.00
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (62 bp):
CAGAATCAGAATAAGTATCAGGTAACAGAATCAGAATCAAAATCAGAATCAGAATTAGGTAA
Found at i:43783772 original size:2 final size:2
Alignment explanation
Indices: 43783765--43783802 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
43783755 ACCAGAACAG
43783765 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43783803 CTGTGTGTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43784185 original size:27 final size:27
Alignment explanation
Indices: 43784155--43784451 Score: 423
Period size: 27 Copynumber: 11.0 Consensus size: 27
43784145 GGGGTAAAAT
* * *
43784155 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
43784182 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
43784209 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
43784236 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
43784263 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
43784290 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
43784317 GGTAGTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
43784344 GATAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
43784371 GGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
43784398 GGTAATTCTACCGTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
43784425 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
43784452 AATATTTTAC
Statistics
Matches: 241, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 241 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:43784572 original size:81 final size:81
Alignment explanation
Indices: 43784463--43784631 Score: 241
Period size: 81 Copynumber: 2.1 Consensus size: 81
43784453 ATATTTTACG
* * * *
43784463 AATCGAGGGTTTTTCGATAATTTCACAAATCAGGGGTATTTTGGTAAATTTACAAACCAGGGGTA
1 AATCAAGGGTTTTTAGATAATTTCACAAACCAAGGGTATTTTGGTAAATTTACAAACCAGGGGTA
43784528 TTTTGGTAATTTTATA
66 TTTTGGTAATTTTATA
* *
43784544 AATCAAGGGTATTTTAG-TAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGT
1 AATCAAGGGT-TTTTAGATAATTTCACAAACCAAGGGTATTTTGGTAAATTTACAAACCAGGGGT
* *
43784608 GTTTTGGTAATTTTGTA
65 ATTTTGGTAATTTTATA
*
43784625 AACCAAG
1 AATCAAG
43784632 AGTAAAACGA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 73 0.94
82 5 0.06
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (81 bp):
AATCAAGGGTTTTTAGATAATTTCACAAACCAAGGGTATTTTGGTAAATTTACAAACCAGGGGTA
TTTTGGTAATTTTATA
Found at i:43784629 original size:27 final size:27
Alignment explanation
Indices: 43784480--43784621 Score: 203
Period size: 27 Copynumber: 5.3 Consensus size: 27
43784470 GGTTTTTCGA
* *
43784480 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
43784507 TAAATTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
43784534 TAATTTTATAAATCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
43784561 TAATTTTACAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
43784588 TAATTTTACAAACCAGGGGTGTTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
43784615 TAATTTT
1 TAATTTT
43784622 GTAAACCAAG
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:43784671 original size:54 final size:54
Alignment explanation
Indices: 43784612--43784870 Score: 351
Period size: 54 Copynumber: 4.8 Consensus size: 54
43784602 AGGGGTGTTT
* * * * * *
43784612 TGGTAATTTTGTAAACCAAGAGTAAAACGATATTTCTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAATGGTATTTCTATAAATCGAGGGTAAAA
*
43784666 AGGTAATTTTATAAATCGAGGGTAAAATGGTATTTCTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAATGGTATTTCTATAAATCGAGGGTAAAA
*
43784720 TGGTAATTTTATAAATCGAGGGTGAAAA-GGTAGTTT-TATAAATCAAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGT-AAAATGGTA-TTTCTATAAATCGAGGGTAAAA
* *
43784774 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAATGGTATTTCTATAAATCGAGGGTAAAA
* * * * *
43784828 CGATAATTCTATAAATTGAGGGTAAAATGGTAATTCTATAAAT
1 TGGTAATTTTATAAATCGAGGGTAAAATGGTATTTCTATAAAT
43784871 TGGGGGTACT
Statistics
Matches: 186, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
53 6 0.03
54 173 0.93
55 7 0.04
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (54 bp):
TGGTAATTTTATAAATCGAGGGTAAAATGGTATTTCTATAAATCGAGGGTAAAA
Found at i:43784878 original size:27 final size:27
Alignment explanation
Indices: 43784645--43784870 Score: 346
Period size: 27 Copynumber: 8.4 Consensus size: 27
43784635 AAAACGATAT
*
43784645 TTCTATAAATCGAGGGTAAAAAGGTAA
1 TTCTATAAATCGAGGGTAAAATGGTAA
* *
43784672 TTTTATAAATCGAGGGTAAAATGGTAT
1 TTCTATAAATCGAGGGTAAAATGGTAA
43784699 TTCTATAAATCGAGGGTAAAATGGTAA
1 TTCTATAAATCGAGGGTAAAATGGTAA
* *
43784726 TTTTATAAATCGAGGGTGAAAA-GGTAG
1 TTCTATAAATCGAGGGT-AAAATGGTAA
* *
43784753 TTTTATAAATCAAGGGTAAAATGGTAA
1 TTCTATAAATCGAGGGTAAAATGGTAA
43784780 TTCTATAAATCGAGGGTAAAATGGTAA
1 TTCTATAAATCGAGGGTAAAATGGTAA
* *
43784807 TTCTATAAATCGAGGGTAAAACGATAA
1 TTCTATAAATCGAGGGTAAAATGGTAA
*
43784834 TTCTATAAATTGAGGGTAAAATGGTAA
1 TTCTATAAATCGAGGGTAAAATGGTAA
43784861 TTCTATAAAT
1 TTCTATAAAT
43784871 TGGGGGTACT
Statistics
Matches: 181, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 4 0.02
27 173 0.96
28 4 0.02
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.31
Consensus pattern (27 bp):
TTCTATAAATCGAGGGTAAAATGGTAA
Found at i:43784984 original size:27 final size:27
Alignment explanation
Indices: 43784885--43785025 Score: 155
Period size: 27 Copynumber: 5.3 Consensus size: 27
43784875 GGTACTTTGA
* *
43784885 TAATTTTACAATTTG-AGGTATTTCAG
1 TAATTTTACAAATCGAAGGTATTTCAG
* *
43784911 TAATTTTAC-AATCGACGGTATTTCGG
1 TAATTTTACAAATCGAAGGTATTTCAG
* * *
43784937 TAATTTTATAAATC-AGGGGTACTTT-GG
1 TAATTTTACAAATCGA-AGGTA-TTTCAG
*
43784964 TAATTTTACAAGTCGAAGGTATTTCAG
1 TAATTTTACAAATCGAAGGTATTTCAG
*
43784991 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAAGGTATTTCAG
43785018 TAATTTTA
1 TAATTTTA
43785026 GTAAACTAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
25 3 0.03
26 30 0.31
27 60 0.62
28 4 0.04
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAATCGAAGGTATTTCAG
Found at i:43785040 original size:54 final size:53
Alignment explanation
Indices: 43784885--43785025 Score: 180
Period size: 54 Copynumber: 2.7 Consensus size: 53
43784875 GGTACTTTGA
* * * *
43784885 TAATTTTACAATTTGA-GGTATTTCAGTAATTTTACAATCGACGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAAGGTATTTCAG
* *
43784937 TAATTTTATAAATC-AGGGGTACTTT-GGTAATTTTACAAGTCGAAGGTATTTCAG
1 TAATTTTACAAATCGA-GGGTA-TTTCAGTAATTTTACAA-TCGAAGGTATTTCAG
43784991 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTA
43785026 GTAAACTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
51 1 0.01
52 11 0.15
53 19 0.25
54 43 0.57
55 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (53 bp):
TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAAGGTATTTCAG
Found at i:43785216 original size:17 final size:18
Alignment explanation
Indices: 43785196--43785230 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
43785186 AACTTACCCA
43785196 ATTGGGCCCATA-GGCCC
1 ATTGGGCCCATATGGCCC
43785213 ATTGGGCCCATATGGCCC
1 ATTGGGCCCATATGGCCC
43785231 CTTTCAGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.20
Consensus pattern (18 bp):
ATTGGGCCCATATGGCCC
Found at i:43791763 original size:17 final size:16
Alignment explanation
Indices: 43791737--43791768 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
43791727 TGTAAAAGTT
43791737 AGGTTCTAATAGCTAA
1 AGGTTCTAATAGCTAA
43791753 AGGTGTCTAATAGCTA
1 AGGT-TCTAATAGCTA
43791769 TAAAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (16 bp):
AGGTTCTAATAGCTAA
Found at i:43793006 original size:10 final size:10
Alignment explanation
Indices: 43792981--43793039 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
43792971 TCAGCTAAAG
*
43792981 TCAGCTCACT
1 TCAGCTCATT
* *
43792991 TGAGCTTATT
1 TCAGCTCATT
*
43793001 TCAGCTCGTT
1 TCAGCTCATT
*
43793011 TGAGCTCATT
1 TCAGCTCATT
43793021 TCAGCTTCATT
1 TCAGC-TCATT
43793032 TCAGCTCA
1 TCAGCTCA
43793040 ATTACTTAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
10 29 0.74
11 10 0.26
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (10 bp):
TCAGCTCATT
Found at i:43793226 original size:20 final size:21
Alignment explanation
Indices: 43793185--43793222 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
43793175 ATTAACTAAG
43793185 TTTATATTAAATGTGTTATAA
1 TTTATATTAAATGTGTTATAA
*
43793206 TTTA-ATTATATGT-TTAT
1 TTTATATTAAATGTGTTAT
43793223 TAATGTGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 8 0.50
21 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTATATTAAATGTGTTATAA
Found at i:43794390 original size:80 final size:81
Alignment explanation
Indices: 43794280--43794463 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 81
43794270 TACTCGTTCA
* *
43794280 AATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCTAG
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCTAG
* *
43794343 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* ** *
43794360 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCTGGA
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCTAGA
*
43794424 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
43794440 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
43794464 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 3 0.03
80 81 0.90
81 6 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCTAGA
TATAGTAACTTAGCAC
Found at i:43794457 original size:40 final size:40
Alignment explanation
Indices: 43794261--43794459 Score: 208
Period size: 40 Copynumber: 5.0 Consensus size: 40
43794251 GAATTTAACC
** *
43794261 GGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAG-CT
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCT
* *
43794300 CGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCT
1 -GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCT
* * * * *
43794341 AGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAACCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCT
* *
43794381 GGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCT
1 GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCT
* *
43794421 GGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 GGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
43794460 CGGACATCAT
Statistics
Matches: 135, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.03
40 118 0.87
41 13 0.10
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCT
Found at i:43802452 original size:40 final size:40
Alignment explanation
Indices: 43802415--43802639 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
43802405 GCTACTCGTT
* *
43802415 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
43802455 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
43802495 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
43802535 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
43802574 CAAATGCCTTC-GGATCTTAGTCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
43802615 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
43802640 CATCATTCGA
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 117 0.71
41 13 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:43802623 original size:79 final size:79
Alignment explanation
Indices: 43802415--43802637 Score: 243
Period size: 79 Copynumber: 2.8 Consensus size: 79
43802405 GCTACTCGTT
* * ** * * *
43802415 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGA
*
43802480 ATTTAGTAACTAGCA
65 AATTAGTAACTAGCA
* * * * *
43802495 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGA
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGA
*
43802559 AATTAGTAACTCGCA
65 AATTAGTAACTAGCA
** *
43802574 CAAATGCCTTC-GGATCTTAGTCCGAATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
43802638 GACATCATTC
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
78 3 0.02
79 58 0.48
80 57 0.47
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGAA
ATTAGTAACTAGCA
Found at i:43802623 original size:119 final size:120
Alignment explanation
Indices: 43802417--43802639 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
43802407 TACTCGTTCA
** *
43802417 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
* *
43802482 TTAGTAACTAGCACCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACCAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* **
43802537 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGA
1 AATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGA
* *
43802599 ATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAACCCGGA
43802640 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 69 0.77
120 17 0.19
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
ATAGTAACTAGCACCAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:43806006 original size:48 final size:48
Alignment explanation
Indices: 43805950--43806045 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
43805940 TGTGCTGTGT
43805950 CACTTCTGAGAGATACTGCTTACCAGTGGTGGAACATTTTGATATCTG
1 CACTTCTGAGAGATACTGCTTACCAGTGGTGGAACATTTTGATATCTG
43805998 CACTTCTGAGAGATACTGCTTACCAGTGGTGGAACATTTTGATATCTG
1 CACTTCTGAGAGATACTGCTTACCAGTGGTGGAACATTTTGATATCTG
43806046 TGGTGCCGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (48 bp):
CACTTCTGAGAGATACTGCTTACCAGTGGTGGAACATTTTGATATCTG
Found at i:43810294 original size:79 final size:80
Alignment explanation
Indices: 43810193--43810376 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
43810183 ACGACTCGCT
** * *
43810193 CAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCACGAATGCCTTCGGGA-CTTA-ACCT
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAGACC-
* *
43810256 GGGTTTAGTAACTT-GCA
63 GGATATAGTAACTTAGCA
* * *
43810273 CAAATGCCTTCGGG-CTTAGCCCGCATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCG-GTTTAGTAACTCGCACGAATGCCTTCGGATCCTAGACCGG
*
43810337 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
43810353 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
43810377 ACATCATTCG
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
78 3 0.03
79 51 0.58
80 34 0.39
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCACGAATGCCTTCGGATCCTAGACCGGA
TATAGTAACTTAGCA
Found at i:43810377 original size:40 final size:39
Alignment explanation
Indices: 43810186--43810377 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 39
43810176 GGATATAACG
* ** * *
43810186 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
43810226 ACTCGCACGAATGCCTTCGGGACTTAACCTGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43810266 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGCATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43810305 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
43810345 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
43810378 CATCATTCGA
Statistics
Matches: 117, Mismatches: 28, Indels: 14
0.74 0.18 0.09
Matches are distributed among these distances:
38 2 0.02
39 28 0.24
40 77 0.66
41 10 0.09
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:43817785 original size:39 final size:39
Alignment explanation
Indices: 43817704--43817866 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
43817694 TATGGTAACC
* *
43817704 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
43817744 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
43817783 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
43817822 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
43817861 CGCACA
1 CGCACA
43817867 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:43825189 original size:39 final size:39
Alignment explanation
Indices: 43825108--43825270 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
43825098 TATGGTAACC
* *
43825108 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
43825148 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
43825187 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
43825226 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
43825265 CGCACA
1 CGCACA
43825271 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:43828108 original size:40 final size:40
Alignment explanation
Indices: 43827907--43828094 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
43827897 TACTCGGATG
* * *
43827907 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
43827947 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
43827986 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
43828026 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
43828066 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
43828095 AGCAAGTAGC
Statistics
Matches: 140, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
39 36 0.26
40 104 0.74
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:43828108 original size:80 final size:79
Alignment explanation
Indices: 43827907--43828117 Score: 295
Period size: 80 Copynumber: 2.7 Consensus size: 79
43827897 TACTCGGATG
* * *
43827907 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-ACCGGGCTAAGCCCGAAGGC
43827970 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
43827986 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATAACCGGGCTAAG-CCCGAAGGC
43828050 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
43828066 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTAT-ACCCGGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAACCGGGCTAA
43828118 ATTTCGAAGG
Statistics
Matches: 119, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
79 56 0.47
80 63 0.53
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:43836081 original size:41 final size:40
Alignment explanation
Indices: 43835980--43836089 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 40
43835970 TATTCGGATG
*
43835980 ATAA-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
43836019 A-ATTCCGGGGAGC-AAGT-CCGAAGGCATTTGTGCCGAGTTACT
1 ATA-ACC--GG-GCTAAGTCCCGAAGGCATTTGTG-CGAGTGACT
43836061 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
43836090 AGCAAGTAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 7 0.12
41 28 0.48
42 16 0.28
43 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:43836103 original size:40 final size:40
Alignment explanation
Indices: 43835980--43836122 Score: 111
Period size: 41 Copynumber: 3.6 Consensus size: 40
43835970 TATTCGGATG
*
43835980 ATAA-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CT
* *
43836019 A-ATTCCGGGGAGC-AAGT-CCGAAGGCATTTGTGCCGAGTTA-CT
1 ATA-ACC--GG-GCTAAGTCCCGAAGGCATTTGTG-CAAG-TAGCT
*
43836061 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCT
* * *
43836101 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
43836123 TACTTCGTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
38 1 0.01
39 19 0.23
40 17 0.20
41 29 0.35
42 14 0.17
43 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCT
Found at i:43836122 original size:39 final size:41
Alignment explanation
Indices: 43836035--43836122 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 41
43836025 GGGGAGCAAG
* * *
43836035 TCCGAAGGCATTTGTGCCGAGTTACTATAACCGGGCTAAGT
1 TCCGAAGGCATTTGAGCCAAGTTACTATAACCGGGCTAAAT
* *
43836076 CCCGAAGGCATTTGAG-CAAG-TAGCTATATCC-GGCTAAAT
1 TCCGAAGGCATTTGAGCCAAGTTA-CTATAACCGGGCTAAAT
43836115 TCCGAAGG
1 TCCGAAGG
43836123 TACTTCGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
39 16 0.40
40 10 0.25
41 14 0.35
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (41 bp):
TCCGAAGGCATTTGAGCCAAGTTACTATAACCGGGCTAAAT
Found at i:43838191 original size:40 final size:39
Alignment explanation
Indices: 43838146--43838235 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
43838136 CGGAATATAA
*
43838146 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATG-CTTCGGGTCTTAAC
* ** * *
43838186 CCGGATGTAGCCACTAGCGCAATTGCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCTTCGGGTCTTAAC
43838225 CCGGATATAAT
1 CCGGATATAAT
43838236 TTCCAGCATA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
39 22 0.55
40 18 0.45
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCTTCGGGTCTTAAC
Found at i:43839768 original size:40 final size:40
Alignment explanation
Indices: 43839694--43839838 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
43839684 CCGCACCAAG
* * * * * *
43839694 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
43839734 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
43839774 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
43839814 GCCTTC-GGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
43839839 TTTAGCATAA
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 17 0.19
40 72 0.81
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:43839857 original size:37 final size:40
Alignment explanation
Indices: 43839726--43839874 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
43839716 ATCACGATTT
* * * *
43839726 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTA-ACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGA-TACTA
*
43839766 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGATACTA
* *
43839806 GCACAATTGCCTTC-GGTCTTAACCCGGATATA-AT-TTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGATACTA
* * *
43839843 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
43839875 CATTCATTTC
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
37 14 0.15
38 16 0.17
39 19 0.20
40 43 0.46
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGATACTA
Found at i:43845401 original size:29 final size:28
Alignment explanation
Indices: 43845312--43845412 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 28
43845302 CCTTCGAGCT
** * *
43845312 CGCACACCCAGTGCCGTATTTTCCAGCT
1 CGCACACTTAGTGCCATATTTTCCAGCA
* * *
43845340 TGCACACATAGTGTCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
* *
43845368 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
43845397 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43845413 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 38 0.62
29 23 0.38
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:43848310 original size:43 final size:43
Alignment explanation
Indices: 43848244--43848401 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
43848234 AGCTCGTACA
43848244 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
** *
43848287 ATGCC-ACTGTCCCAGACAG-GGTCTTACGCGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
* * * ** * *
43848329 ATGCCGATGTCCCAAAAATGGTCTTACAAGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATC-AAATATCG
*
43848373 ATGCCAACCTCCCAGACGTGGTCTTACAT
1 ATGCCAACGTCCCAGACGTGGTCTTACAT
43848402 AAAATTACAT
Statistics
Matches: 90, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 25 0.28
43 38 0.42
44 27 0.30
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:43848352 original size:42 final size:43
Alignment explanation
Indices: 43848275--43848355 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
43848265 TCTTACATGT
* *
43848275 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACGCGA
1 AATCAAATATCGATGCCACTGTCCCAAAAAGGGTCTTACGCGA
*
43848318 AATCAAATA-CGATGCCGA-TGTCCCAAAAATGGTCTTAC
1 AATCAAATATCGATGCC-ACTGTCCCAAAAAGGGTCTTAC
43848356 AAGTAAATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 24 0.71
43 10 0.29
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (43 bp):
AATCAAATATCGATGCCACTGTCCCAAAAAGGGTCTTACGCGA
Found at i:43851259 original size:20 final size:20
Alignment explanation
Indices: 43851236--43851282 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
43851226 AGCTCCGTCC
43851236 AGCTCAATTTAGCTCATTTG
1 AGCTCAATTTAGCTCATTTG
*** *
43851256 AGCTTGTTTTAGCTCGTTTG
1 AGCTCAATTTAGCTCATTTG
43851276 AGCTCAA
1 AGCTCAA
43851283 CCGAGCTTAC
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
AGCTCAATTTAGCTCATTTG
Found at i:43860075 original size:24 final size:24
Alignment explanation
Indices: 43860043--43860165 Score: 237
Period size: 24 Copynumber: 5.1 Consensus size: 24
43860033 AGGGGTAGAA
43860043 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
43860067 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
43860091 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
43860115 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
*
43860139 GATTTACTATGGCACTATGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
43860163 GAT
1 GAT
43860166 CATAATAAGC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 98 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.37
Consensus pattern (24 bp):
GATTTACTATGGCACTGTGTGTGC
Found at i:43860178 original size:72 final size:72
Alignment explanation
Indices: 43860043--43860186 Score: 227
Period size: 72 Copynumber: 2.0 Consensus size: 72
43860033 AGGGGTAGAA
* * * * *
43860043 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTG
1 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTA
43860108 TGTGTGC
66 TGTGTGC
43860115 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATCATAATA-AGCACT
1 GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGAT-ATAATATAGCACT
43860179 ATGTGTGC
65 ATGTGTGC
43860187 CACATTCGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 62 0.94
73 4 0.06
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (72 bp):
GATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTA
TGTGTGC
Found at i:43863986 original size:46 final size:45
Alignment explanation
Indices: 43863796--43863991 Score: 139
Period size: 46 Copynumber: 4.2 Consensus size: 45
43863786 GTTGTTGGCT
* * ** *
43863796 AGTGTAAGACATGTCTGGGACATGTATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCAGGATGAGAGTC
* *
43863842 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGACGAGAG-C
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCAG-GATGAGAGTC
* * * * *
43863889 TAGTGTAAGACATGCCTAGGACATGCATTGCCCTC-GAGATGTA-AGTT
1 -AGTGTAAGACATGTCTGGGACATGCATCG-GCTCAG-GATG-AGAGTC
* * *
43863936 AGTGTAAGACATGTCTCGGACATGCATCGGTTACAGGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CAGGATGAGAGTC
43863982 AGTGTAAGAC
1 AGTGTAAGAC
43863992 CATTTTTAGG
Statistics
Matches: 120, Mismatches: 18, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
45 2 0.02
46 66 0.55
47 31 0.26
48 21 0.17
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCAGGATGAGAGTC
Found at i:43867179 original size:67 final size:64
Alignment explanation
Indices: 43867076--43867255 Score: 200
Period size: 64 Copynumber: 2.8 Consensus size: 64
43867066 CACCCATGTG
* * * * * *
43867076 ACCTAGCCAC-TTTATCTCGTAGCTCTGTTGTTTACATGGTGTCCTTCACTTGGAACCACACATA
1 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTAC-ACAC--AGAACCACACATA
43867140 CA
63 CA
* * * * *
43867142 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTACACACAGTATCACCCATGCG
1 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTACACACAGAACCACACATACA
* * *
43867206 ACCTAGCTACATATATCCCATAGCTCTCTTGTCTACATGGTGTACACACA
1 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTACACACA
43867256 CAAACTTACA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
64 56 0.57
66 12 0.12
67 31 0.31
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (64 bp):
ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTACACACAGAACCACACATACA
Found at i:43870452 original size:18 final size:18
Alignment explanation
Indices: 43870429--43870464 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
43870419 ATATACTAAA
43870429 TTCTCATAGAGTTTTAGT
1 TTCTCATAGAGTTTTAGT
43870447 TTCTCATAGAGTTTTAGT
1 TTCTCATAGAGTTTTAGT
43870465 ACATACCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (18 bp):
TTCTCATAGAGTTTTAGT
Found at i:43873776 original size:40 final size:40
Alignment explanation
Indices: 43873731--43873897 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
43873721 CGGAATATAA
43873731 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43873771 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
43873811 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43873851 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43873890 CCGGATAT
1 CCGGATAT
43873898 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43873881 original size:80 final size:79
Alignment explanation
Indices: 43873731--43873897 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
43873721 CGGAATATAA
* *
43873731 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
43873796 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
43873811 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
43873873 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
43873890 CCGGATAT
1 CCGGATAT
43873898 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:43874746 original size:17 final size:19
Alignment explanation
Indices: 43874723--43874768 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
43874713 AAGAAGCATG
43874723 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43874741 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
43874759 AATCATGCTC
1 AATCATGCTC
43874769 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43884291 original size:40 final size:40
Alignment explanation
Indices: 43884189--43884372 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
43884179 AAATTGAATG
* * * * * *
43884189 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
43884229 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
43884269 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
43884309 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
43884349 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
43884373 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:43884397 original size:80 final size:80
Alignment explanation
Indices: 43884229--43884417 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
43884219 GCTGGAAATT
* * *
43884229 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
43884294 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
43884309 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
43884372 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
43884389 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
43884418 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:43892067 original size:40 final size:38
Alignment explanation
Indices: 43892018--43892156 Score: 118
Period size: 40 Copynumber: 3.5 Consensus size: 38
43892008 TGCTGGAAAT
* * *
43892018 TATAACCGGGTTAAGACCCGAAGGTAATTGTGCTAGTAG
1 TATATCCGGGCTAAGACCCGAAGG-AATTGTGCAAGTAG
* *
43892057 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TATATCCGGGCTAAGACCCGAAGGAATT-GTGCAAGTAG
* * * *
43892097 TTAAATCCGGGCTAA-ACCCGAAGGCATTTGTGCAAATCG
1 -TATATCCGGGCTAAGACCCGAAGG-AATTGTGCAAGTAG
* *
43892136 TGATATCCGGGTTAAGTCCCG
1 T-ATATCCGGGCTAAGACCCG
43892157 TAGGCCTTGG
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 31 0.38
40 49 0.60
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGAATTGTGCAAGTAG
Found at i:43892144 original size:39 final size:40
Alignment explanation
Indices: 43892059--43892161 Score: 127
Period size: 39 Copynumber: 2.6 Consensus size: 40
43892049 GCTAGTAGCT
* * *
43892059 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTG
* *
43892099 AAATCCGGGCTAA-ACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTG
* * *
43892138 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
43892162 CTTGGTGCGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTG
Found at i:43894275 original size:18 final size:18
Alignment explanation
Indices: 43894238--43894276 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43894228 TTGGAAATAG
*
43894238 AAATAATTAAAAGATGAT
1 AAATAATTAAAAGATAAT
43894256 AAATAATTAATAAGA-AAT
1 AAATAATTAA-AAGATAAT
43894274 AAA
1 AAA
43894277 AATCATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (18 bp):
AAATAATTAAAAGATAAT
Found at i:43898676 original size:26 final size:27
Alignment explanation
Indices: 43898632--43898719 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
43898622 TTAGTTTACC
** * *
43898632 AAATTACTGAAATACCCCCAGT-TGTA
1 AAATTACCCAAATATCCCCAGTTTATA
*
43898658 AAATTA-CCAAAGTATCCCCGGTTTATA
1 AAATTACCCAAA-TATCCCCAGTTTATA
* *
43898685 AAATTACCCAAATATCCTC-GATTTACA
1 AAATTACCCAAATATCCCCAG-TTTATA
43898712 AAATTACC
1 AAATTACC
43898720 GTTTTACCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
25 3 0.06
26 15 0.29
27 28 0.55
28 5 0.10
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACCCAAATATCCCCAGTTTATA
Found at i:43898686 original size:27 final size:26
Alignment explanation
Indices: 43898656--43898719 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
43898646 CCCCCAGTTG
*
43898656 TAAAATTACCAAAGTATCCCCGGTTTA
1 TAAAATTACCAAA-TATCCCCGATTTA
*
43898683 TAAAATTACCCAAATATCCTCGATTTA
1 TAAAATTA-CCAAATATCCCCGATTTA
*
43898710 CAAAATTACC
1 TAAAATTACC
43898720 GTTTTACCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.06
27 26 0.79
28 5 0.15
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (26 bp):
TAAAATTACCAAATATCCCCGATTTA
Found at i:43898730 original size:27 final size:27
Alignment explanation
Indices: 43898700--43899025 Score: 379
Period size: 27 Copynumber: 12.1 Consensus size: 27
43898690 ACCCAAATAT
*
43898700 CCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
*
43898727 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
43898754 CCTCGATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
* * * * *
43898781 CCTCGATTGACAGAATT-TTCATTTTAT
1 CCTCGATTTACAAAATTACT-GTTTTAC
* * *
43898808 CCTCGATTGATAGAATT-CTGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
*
43898834 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
* *
43898861 CCTCGATTTCCAAAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
* * *
43898888 CCTTGATTGT-CAGAATTACAGTTTTAC
1 CCTCGATT-TACAAAATTACTGTTTTAC
* *
43898915 CCTCGATTGACAGAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
* *
43898942 CCTTGATTTACAAAATTATTGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
**
43898969 CCTCGATTTACAAAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
* * **
43898996 CTTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
43899023 CCT
1 CCT
43899026 TAGGGTGTTA
Statistics
Matches: 259, Mismatches: 36, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 20 0.08
27 238 0.92
28 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACTGTTTTAC
Found at i:43901515 original size:26 final size:27
Alignment explanation
Indices: 43901486--43901551 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
43901476 TTAGTTTACC
* *
43901486 AAATTACTAAAATACCCCCAG-TTGTA
1 AAATTACCAAAATACCCCCAGTTTATA
* *
43901512 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAAATACCCCCAGTTTATA
*
43901539 AAATTACCCAAAT
1 AAATTACCAAAAT
43901552 TCCTCGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (27 bp):
AAATTACCAAAATACCCCCAGTTTATA
Found at i:43901588 original size:27 final size:27
Alignment explanation
Indices: 43901553--43901905 Score: 442
Period size: 27 Copynumber: 13.1 Consensus size: 27
43901543 TACCCAAATT
*
43901553 CCTCGATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
43901580 CCTCGATTTACAGAATTACTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
43901607 CTTCAATTTACAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
43901634 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* * *
43901661 CCTCAATTGACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
43901688 CCTCGATTGATAGAATT-CTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
43901714 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
43901741 CCTCGATTTCCAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
43901768 CCTCGATTGT-TAGAATTA-TAGTTTTAC
1 CCTCGATT-TACAGAATTACT-GTTTTAC
* *
43901795 CCTCGATTGATAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
43901822 CCTTGATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
**
43901849 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* * **
43901876 CCTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
43901903 CCT
1 CCT
43901906 TAGGGTGTTA
Statistics
Matches: 285, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.08
27 261 0.92
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACTGTTTTAC
Found at i:43902246 original size:26 final size:27
Alignment explanation
Indices: 43902217--43902276 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
43902207 CCACATATAT
*
43902217 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
43902243 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
43902270 ATATCTG
1 ATATCTG
43902277 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:43902434 original size:6 final size:6
Alignment explanation
Indices: 43902423--43902485 Score: 83
Period size: 6 Copynumber: 10.5 Consensus size: 6
43902413 TTACGTGAAA
*
43902423 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CT-AGTT CTGATA
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGATT
* *
43902471 ATGTTT CTGATT CTG
1 CTGATT CTGATT CTG
43902486 TAATGGGGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
5 1 0.02
6 47 0.96
7 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:43904428 original size:43 final size:43
Alignment explanation
Indices: 43904336--43904443 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 43
43904326 TCGATGCCTC
* * * *
43904336 TGTCCCGGACAGGGTCTTATAC-AAAATCAGATACGATGCTGA
1 TGTCCCAGACACGGTCTTATACGAAAATCAGATACGAGGCCGA
*
43904378 TGTCCCAGACATGGTCTTATACGTAAATATCA-AT-CGAGGCCGA
1 TGTCCCAGACACGGTCTTATACG-AAA-ATCAGATACGAGGCCGA
*
43904421 TGTCCCAGACACGATCTTATACG
1 TGTCCCAGACACGGTCTTATACG
43904444 GTATATCAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 20 0.35
43 28 0.49
44 5 0.09
45 4 0.07
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
TGTCCCAGACACGGTCTTATACGAAAATCAGATACGAGGCCGA
Found at i:43910749 original size:20 final size:20
Alignment explanation
Indices: 43910711--43910749 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43910701 TGGGCTTTGA
*
43910711 AGAAACGAAGCAATAATCAC
1 AGAAACGAAGAAATAATCAC
* *
43910731 AGAAACGTAGAAATTATCA
1 AGAAACGAAGAAATAATCA
43910750 AAAACAGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (20 bp):
AGAAACGAAGAAATAATCAC
Found at i:43916848 original size:19 final size:19
Alignment explanation
Indices: 43916824--43916884 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
43916814 AAGCACACAG
43916824 AGTAAGCTACGAAGAGCTT
1 AGTAAGCTACGAAGAGCTT
* * **
43916843 AGTAAGC--CAAACA-CAA
1 AGTAAGCTACGAAGAGCTT
43916859 AGTAAGCTACGAAGAGCTT
1 AGTAAGCTACGAAGAGCTT
43916878 AGTAAGC
1 AGTAAGC
43916885 CAAACACATT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 8 0.26
17 4 0.13
18 4 0.13
19 15 0.48
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (19 bp):
AGTAAGCTACGAAGAGCTT
Found at i:43916863 original size:35 final size:35
Alignment explanation
Indices: 43916818--43916892 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
43916808 GACAGTAAGC
*
43916818 ACACAGAGTAAGCTACGAAGAGCTTAGTAAGCCAA
1 ACACAAAGTAAGCTACGAAGAGCTTAGTAAGCCAA
43916853 ACACAAAGTAAGCTACGAAGAGCTTAGTAAGCCAA
1 ACACAAAGTAAGCTACGAAGAGCTTAGTAAGCCAA
43916888 ACACA
1 ACACA
43916893 TTGGTTTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.13
Consensus pattern (35 bp):
ACACAAAGTAAGCTACGAAGAGCTTAGTAAGCCAA
Found at i:43920515 original size:2 final size:2
Alignment explanation
Indices: 43920508--43920545 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
43920498 CCATATAGAT
43920508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43920546 AAATAACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43923738 original size:40 final size:39
Alignment explanation
Indices: 43923548--43923731 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
43923538 CGAATGATGT
* * *
43923548 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * *
43923588 CCGGACTAAGAT-CTGAAGGCATTCGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
43923628 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACGAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43923666 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
43923707 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43923732 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 32 0.27
40 79 0.66
41 9 0.08
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43930868 original size:39 final size:40
Alignment explanation
Indices: 43930771--43930951 Score: 174
Period size: 40 Copynumber: 4.5 Consensus size: 40
43930761 ATGATGTCCG
* * * *
43930771 GGCTAAGTCCCGAAGGC-TTTGTTCTAAGTGACTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCA
* *
43930810 GGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAATTCCA
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* **
43930851 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACGAAATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* *
43930890 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCA
* *
43930930 GGCTATGTCCCGAAGGCGTTTG
1 GGCTAAGTCCCGAAGGCATTTG
43930952 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 34 0.29
40 74 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
Found at i:43930973 original size:79 final size:78
Alignment explanation
Indices: 43930768--43930984 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 78
43930758 CGAATGATGT
* * *
43930768 CCGGGCTAAGTCCCGAAGGCTTTGTTCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCTTTGTAC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATTC
*
43930832 GTGCGAGTTACTAATT
63 GTGCGAGTTACTAATA
* * * * *
43930848 CCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CGAAATCTGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTTGTACGAG-TAGCTATATC-CGGTTAAGAT-CCGAAGGCATT
*
43930910 TGTGCGAGTTACT-ATAA
62 CGTGCGAGTTACTAAT-A
* *
43930927 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCTATATCCGGTTAA-ACTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGC-TTTGTACGAGTAGCTATATCCGGTTAAGA-TCCGAAGG
43930985 TACGTGATTC
Statistics
Matches: 110, Mismatches: 17, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
78 3 0.03
79 66 0.60
80 41 0.37
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTACGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTCGTG
CGAGTTACTAATA
Found at i:43941676 original size:40 final size:39
Alignment explanation
Indices: 43941632--43941757 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
43941622 GGGACTCAAC
*
43941632 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
43941672 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
43941712 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
43941752 CCGGAT
1 CCGGAT
43941758 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:43957716 original size:28 final size:29
Alignment explanation
Indices: 43957684--43957782 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
43957674 ATAATAAGCC
*
43957684 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
43957712 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
43957740 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
43957769 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43957783 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:43957904 original size:2 final size:2
Alignment explanation
Indices: 43957897--43957925 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43957887 TGGATACATG
43957897 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43957926 CATTCCATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43962124 original size:17 final size:18
Alignment explanation
Indices: 43962082--43962130 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43962072 AGTTGAAAAG
43962082 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43962101 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43962118 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43962131 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43963019 original size:40 final size:40
Alignment explanation
Indices: 43962953--43963119 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43962943 AAATTGAATG
* * *
43962953 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
43962992 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43963032 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43963072 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43963112 ATATCCGG
1 ATATCCGG
43963120 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43970129 original size:17 final size:18
Alignment explanation
Indices: 43970087--43970135 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43970077 AGTTGAAAAG
43970087 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43970106 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43970123 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43970136 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43971023 original size:40 final size:39
Alignment explanation
Indices: 43970957--43971122 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
43970947 AAATTGAATG
* * *
43970957 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
43970996 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
43971035 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
43971075 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
43971115 ATATCCGG
1 ATATCCGG
43971123 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:43976400 original size:17 final size:18
Alignment explanation
Indices: 43976358--43976406 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43976348 AGTTGAAAAG
43976358 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43976377 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43976394 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43976407 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43977294 original size:40 final size:40
Alignment explanation
Indices: 43977228--43977394 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43977218 AAATTGAATG
* * *
43977228 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
43977267 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43977307 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43977347 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43977387 ATATCCGG
1 ATATCCGG
43977395 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43983208 original size:28 final size:29
Alignment explanation
Indices: 43983176--43983274 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
43983166 ATAATAAGCC
*
43983176 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
43983204 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
43983232 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
43983261 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43983275 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:43983396 original size:2 final size:2
Alignment explanation
Indices: 43983389--43983419 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
43983379 TGCATACATG
*
43983389 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43983420 TTATCATTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43992518 original size:28 final size:28
Alignment explanation
Indices: 43992478--43992570 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 28
43992468 ATTGTATGAC
*
43992478 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATATGATTGGGCCTGACGGGCCA
* * *
43992506 TATGGAA-ATGATTGGGCCCGATGGTCCA
1 TAT-GAATATGATTGGGCCTGACGGGCCA
* * *
43992534 TATGAATGTGATTGGGCCTAAAGGGGCCA
1 TATGAATATGATTGGGCCT-GACGGGCCA
*
43992563 AATGAATA
1 TATGAATA
43992571 AGTATGGATC
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
27 3 0.06
28 33 0.65
29 15 0.29
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (28 bp):
TATGAATATGATTGGGCCTGACGGGCCA
Found at i:43996520 original size:93 final size:92
Alignment explanation
Indices: 43996356--43996714 Score: 315
Period size: 93 Copynumber: 3.9 Consensus size: 92
43996346 TTTGTACGCC
* * * * *
43996356 AGTGTAAGACATGTCTGGGACATGCTTCGGCCAAATTATGAGAGCCAATGTAAGACCATGT-TAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTAG
*
43996420 GGACATGGCATCGGCTTCTAGACGAGGGCT
66 GGACATGGCATCGGC-TC-AGA-GAGTGCT
* *
43996450 AGTGTAAGACATGT-TTGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCT-G
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTAG
** * * *
43996513 GTTCATGGCATCGGCACAGGGATTAGTGCC
66 GGACATGGCATCGGCTCA--GA-GAGTGCT
* ** * * * *
43996543 AGTGTAAGACATGTTTGGGACATGCATTGGCC-T-CGAAAGAGATAACCAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAC-TATGAG--AGCCAGTGTAAGACCATGTC
* * *
43996605 T-GGGACA-CGCATCGGCTAAGAGTTGTGCT
63 TAGGGACATGGCATCGGCTCAGAG-AGTGCT
*
43996634 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCATGTC
43996698 TA-GGACATGGCATCGGC
63 TAGGGACATGGCATCGGC
43996715 AATATATCCC
Statistics
Matches: 211, Mismatches: 38, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
91 34 0.16
92 14 0.07
93 98 0.46
94 52 0.25
95 13 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTAG
GGACATGGCATCGGCTCAGAGAGTGCT
Found at i:44001328 original size:46 final size:46
Alignment explanation
Indices: 44001272--44001440 Score: 186
Period size: 46 Copynumber: 3.6 Consensus size: 46
44001262 ATCTCGCAGC
44001272 CGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGG-
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGT
* * *
44001317 CTGATGCATGTCCTAGACATGTCTTACACTAGC--ACTCGTCTCGATGT
1 C-GATGCATGTCCCAGACATGTCTTACACTGGCTTA-T-GTCTCGAGGT
* * *
44001364 CGATGTCATGCCCCAGACATGGTCTTACACTGGCTCTCATAT-T-GTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ATGTCTCGAGGT
44001412 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
44001441 AGCTCACACA
Statistics
Matches: 104, Mismatches: 10, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 51 0.49
47 26 0.25
48 20 0.19
49 1 0.01
50 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGT
Found at i:44001391 original size:94 final size:92
Alignment explanation
Indices: 44001272--44001443 Score: 242
Period size: 94 Copynumber: 1.8 Consensus size: 92
44001262 ATCTCGCAGC
* * *
44001272 CGATGCATGTCCCAGACATGTCTTACACTGGCT-T-ATGTCTCGAGG-CTGATGCATGTCCTAGA
1 CGATGCATGCCCCAGACATGTCTTACACTGGCTCTCATAT-T-GAGGTC-GATGCATGTCCCAGA
44001334 CATGTCTTACACTAGCACTCGTCTCGATGT
63 CATGTCTTACACTAGCACTCGTCTCGATGT
*
44001364 CGATGTCATGCCCCAGACATGGTCTTACACTGGCTCTCATATTGTGGTCGATGCATGTCCCAGAC
1 CGATG-CATGCCCCAGACAT-GTCTTACACTGGCTCTCATATTGAGGTCGATGCATGTCCCAGAC
44001429 ATGTCTTACACTAGC
64 ATGTCTTACACTAGC
44001444 TCACACAAGT
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
92 5 0.07
93 13 0.18
94 47 0.66
95 3 0.04
96 3 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.30
Consensus pattern (92 bp):
CGATGCATGCCCCAGACATGTCTTACACTGGCTCTCATATTGAGGTCGATGCATGTCCCAGACAT
GTCTTACACTAGCACTCGTCTCGATGT
Found at i:44001420 original size:140 final size:142
Alignment explanation
Indices: 44001128--44001440 Score: 343
Period size: 140 Copynumber: 2.2 Consensus size: 142
44001118 GTAAGGTTCT
*
44001128 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCTGATGCCATGTCCTGGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTTCGAGGCTGATGCCATGTCCTAGA
* * * *
44001193 CATAGTTTTACACTAGCTCTCACATAACTGTGCCAATGCCATGTCCCAGACATGGTCATACATTG
64 CATAGTCTTACACTAGCACTCACAT-ACTGTGCCAATGCCATGCCCCAGACATGGTCATACATGG
*
44001258 ACACATCTCGCAGCC
128 ACACATATCGCAGCC
*
44001273 GATGCATGTCCCAGACATGTCTTACACTGGCT-T-ATGTCTCGAGGCTGATG-CATGTCCTAGAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCT-TCGAGGCTGATGCCATGTCCTAGAC
* * * * *
44001335 AT-GTCTTACACTAGCACT--CGT-CTCGATGTCGATGTCATGCCCCAGACATGGTCTTACACTG
65 ATAGTCTTACACTAGCACTCACATACT-G-TGCCAATGCCATGCCCCAGACATGGTCATACA-TG
* * * ** *
44001396 GCTCTCATATTGTGGTC
127 G-ACACATATCGCAGCC
44001413 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
44001441 AGCTCACACA
Statistics
Matches: 145, Mismatches: 18, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
136 2 0.01
137 1 0.01
138 29 0.20
139 2 0.01
140 50 0.34
141 16 0.11
142 13 0.09
143 14 0.10
144 14 0.10
145 4 0.03
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (142 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTTCGAGGCTGATGCCATGTCCTAGACA
TAGTCTTACACTAGCACTCACATACTGTGCCAATGCCATGCCCCAGACATGGTCATACATGGACA
CATATCGCAGCC
Found at i:44006371 original size:18 final size:18
Alignment explanation
Indices: 44006348--44006391 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
44006338 GCTTGCGACT
44006348 GAAGTGG-CTCGGGCTCTC
1 GAAGTGGTC-CGGGCTCTC
44006366 GAAGTGGTCCGGGCTCTC
1 GAAGTGGTCCGGGCTCTC
44006384 GAAGTGGT
1 GAAGTGGT
44006392 GTTCTGTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.14, C:0.23, G:0.41, T:0.23
Consensus pattern (18 bp):
GAAGTGGTCCGGGCTCTC
Found at i:44013783 original size:41 final size:41
Alignment explanation
Indices: 44013738--44013855 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
44013728 TGAAAGATAA
44013738 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
44013779 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44013809 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44013850 ATGTAG
1 ATGTAG
44013856 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Done.