Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 14 of 100
Found at i:2717731 original size:53 final size:53
Alignment explanation
Indices: 2717658--2717759 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 53
2717648 TCCAATTTGG
*
2717658 CTTTTATTTATAGTTATTTAATTCAATCACTTCA-CTTTGAATTTTAAATTTAA
1 CTTTTATTTATAGTTATTTAATTCAATCACTTCATC-TTAAATTTTAAATTTAA
* *
2717711 CTTTTATTTTTAGTTATTTAATTCAGTCACTTCATCTTAAATTTTAAAT
1 CTTTTATTTATAGTTATTTAATTCAATCACTTCATCTTAAATTTTAAAT
2717760 AGTATTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 44 0.98
54 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (53 bp):
CTTTTATTTATAGTTATTTAATTCAATCACTTCATCTTAAATTTTAAATTTAA
Found at i:2724462 original size:62 final size:58
Alignment explanation
Indices: 2724329--2724475 Score: 172
Period size: 62 Copynumber: 2.5 Consensus size: 58
2724319 TTTTGTACAG
** * *
2724329 GGAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAATTTTTTAGAAACTTTAATTTCAA
* *
2724387 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACCTTTTTT-GAAAAC-TTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCT---AAAAAAAA--TTTTTTAG-AAACTTTAATTTCAA
2724449 GGAAAATTGATACTTTCAACTTTTCCT
1 GGAAAATTGATACTTTCAACTTTTCCT
2724476 TAAAGCATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
58 27 0.35
61 5 0.06
62 35 0.45
63 10 0.13
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAATTTTTTAGAAACTTTAATTTCAA
Found at i:2727463 original size:45 final size:44
Alignment explanation
Indices: 2727396--2727484 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
2727386 AAATTTTGAT
* * *
2727396 CAAAGCTCCTCTAAGCAGAGGCTTAACGACTTTGAGAAACATAAA
1 CAAAGCTCCTCTAAGAAGAGGCTCAACGACTTTGA-AAAAATAAA
* * *
2727441 CAAAGCTCCTCTAATAATAGGCTCAACGATTTTGAAAAAATAAA
1 CAAAGCTCCTCTAAGAAGAGGCTCAACGACTTTGAAAAAATAAA
2727485 TGGCTCCTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
44 8 0.21
45 30 0.79
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (44 bp):
CAAAGCTCCTCTAAGAAGAGGCTCAACGACTTTGAAAAAATAAA
Found at i:2727529 original size:28 final size:28
Alignment explanation
Indices: 2727488--2727543 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
2727478 AAATAAATGG
* *
2727488 CTCCTCTAATCAGAGGCACCACAACTTT
1 CTCCTATAAACAGAGGCACCACAACTTT
2727516 CTCCTATAAACAGAGGCACCACAACTTT
1 CTCCTATAAACAGAGGCACCACAACTTT
2727544 GAAAAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.23
Consensus pattern (28 bp):
CTCCTATAAACAGAGGCACCACAACTTT
Found at i:2727561 original size:41 final size:42
Alignment explanation
Indices: 2727516--2727603 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
2727506 CCACAACTTT
* *
2727516 CTCCTATAAACAGAGGC-A-CCACAACTTTGAAAAGTAAATTA
1 CTCCTATAAACAGAGGCAATCC-CAACTTTAAAAAATAAATTA
* * *
2727557 CTCCTCTAAATAGAGGCAATCCCGACTTTAAAAAATAAATTA
1 CTCCTATAAACAGAGGCAATCCCAACTTTAAAAAATAAATTA
2727599 CTCCT
1 CTCCT
2727604 TAACAATCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
41 15 0.38
42 23 0.57
43 2 0.05
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (42 bp):
CTCCTATAAACAGAGGCAATCCCAACTTTAAAAAATAAATTA
Found at i:2728217 original size:22 final size:21
Alignment explanation
Indices: 2728168--2728208 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
2728158 GTTTTCACTC
2728168 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
2728190 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
2728209 GTTTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:2728744 original size:63 final size:63
Alignment explanation
Indices: 2728640--2728763 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
2728630 GCTTATCAGC
* ** * *
2728640 ACTAACCATTTCAAAATAAATTTCATGTTTTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
1 ACTAACCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAAGCTTCTCAAT
*
2728703 ACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAAGCTTCTCA
1 ACTAACCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAAGCTTCTCA
2728764 GCACCAGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (63 bp):
ACTAACCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAAGCTTCTCAAT
Found at i:2729474 original size:11 final size:11
Alignment explanation
Indices: 2729458--2729552 Score: 50
Period size: 11 Copynumber: 9.3 Consensus size: 11
2729448 TTTTTTTTCA
2729458 TTTTCTCATTT
1 TTTTCTCATTT
**
2729469 TTTTCTTTTTT
1 TTTTCTCATTT
*
2729480 TTTTC-CTTTTT
1 TTTTCTC-ATTT
2729491 TTTTCTCCA-TT
1 TTTTCT-CATTT
2729502 TTTT-TCA--T
1 TTTTCTCATTT
2729510 TTTT-TC--TT
1 TTTTCTCATTT
2729518 TTTTCATCATCTT
1 TTTTC-TCAT-TT
2729531 TTTTCT--TTT
1 TTTTCTCATTT
2729540 TTTT-TCATTT
1 TTTTCTCATTT
2729550 TTT
1 TTT
2729553 ATCCATTGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
8 13 0.19
9 8 0.12
10 10 0.14
11 29 0.42
12 1 0.01
13 8 0.12
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTCATTT
Found at i:2736270 original size:10 final size:10
Alignment explanation
Indices: 2736250--2736279 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
2736240 AAATCAACTA
2736250 AAAAATCAAAT
1 AAAAAT-AAAT
2736261 AAAAATAAAT
1 AAAAATAAAT
2736271 AAAAATAAA
1 AAAAATAAA
2736280 AGTCAATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:2738559 original size:22 final size:22
Alignment explanation
Indices: 2738531--2738573 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2738521 CAAATGAATG
2738531 TTATGTAGGATGAGATGCAATA
1 TTATGTAGGATGAGATGCAATA
2738553 TTATGTAGGATGAGATGCAAT
1 TTATGTAGGATGAGATGCAAT
2738574 TTAAAAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (22 bp):
TTATGTAGGATGAGATGCAATA
Found at i:2739304 original size:34 final size:33
Alignment explanation
Indices: 2739260--2739325 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
2739250 ATCTTGCAAG
2739260 AATAAATAAAACAAAA-CTT-AAAATAACAAAAAT
1 AATAAATAAAA-AAAATCTTAAAAAT-ACAAAAAT
*
2739293 AATAATATAAAAAAAATTTTAAAAATACAAAAA
1 AATAA-ATAAAAAAAATCTTAAAAATACAAAAA
2739326 AAAAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 9 0.31
34 15 0.52
35 5 0.17
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (33 bp):
AATAAATAAAAAAAATCTTAAAAATACAAAAAT
Found at i:2739865 original size:88 final size:88
Alignment explanation
Indices: 2739699--2739866 Score: 210
Period size: 88 Copynumber: 1.9 Consensus size: 88
2739689 ACACAAAACA
* ** * **
2739699 ATTGGGATGACACCGCAAGTCAAAAAATAATTAATCGATCGAGATAACATGGCAAATCAAATTTA
1 ATTGGGATAACACCGCAAGTCAAAAAATAAGAAATCAATCGAGATAACACCGCAAATCAAATTTA
*
2739764 TGCTCGAAAGTCTTACAGAATTG
66 TGCCCGAAAGTCTTACAGAATTG
** * * *
2739787 ATTGGGATAACACCGCAAGTTGAAAAATAAGAAATCAATCGGGATAATACCGCGAATCAAATTTA
1 ATTGGGATAACACCGCAAGTCAAAAAATAAGAAATCAATCGAGATAACACCGCAAATCAAATTTA
* *
2739852 TGCCCGGAGGTCTTA
66 TGCCCGAAAGTCTTA
2739867 GACATCATGC
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
88 66 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.24
Consensus pattern (88 bp):
ATTGGGATAACACCGCAAGTCAAAAAATAAGAAATCAATCGAGATAACACCGCAAATCAAATTTA
TGCCCGAAAGTCTTACAGAATTG
Found at i:2739906 original size:23 final size:23
Alignment explanation
Indices: 2739854--2739918 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
2739844 CAAATTTATG
*
2739854 CCCGGAGGTCTT--AGACATCATG
1 CCCGGAGGTCTTACAGA-ATCATA
**
2739876 CCTAGAGGTCTTACAGAATCATA
1 CCCGGAGGTCTTACAGAATCATA
2739899 CCCGGAGGTCTTACAGAATC
1 CCCGGAGGTCTTACAGAATC
2739919 GATCGAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.28
23 23 0.64
24 3 0.08
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (23 bp):
CCCGGAGGTCTTACAGAATCATA
Found at i:2740077 original size:22 final size:22
Alignment explanation
Indices: 2740052--2740095 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2740042 ACCGCGAGTT
*
2740052 GAAATTATGCCC-GAAGGTCTTA
1 GAAATCATGCCCAG-AGGTCTTA
2740074 GAAATCATGCCCAGAGGTCTTA
1 GAAATCATGCCCAGAGGTCTTA
2740096 TAGAATCGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (22 bp):
GAAATCATGCCCAGAGGTCTTA
Found at i:2740126 original size:110 final size:110
Alignment explanation
Indices: 2739936--2740212 Score: 358
Period size: 110 Copynumber: 2.5 Consensus size: 110
2739926 ATAACACCAT
* * * * *
2739936 GAATCGAAATTATACCCGAAGGTCTTACAGAATCATGCCTGGAGGTCTTACAAAATTGACTTGGA
1 GAATCGAAATTATGCCCGAAGGTCTTAGA-AATCATGCCCGGAGGTCTTACAAAATCGACTGGGA
* *
2740001 TAACACTACAAGTCGAAAGATAAAGAATCAATTGGGATAACACCGC
65 TAACACTACAAGTCGAAAGATAAAGAATCAATTAGGAGAACACCGC
* * * * *
2740047 GAGTTGAAATTATGCCCGAAGGTCTTAGAAATCATGCCCAGAGGTCTTATAGAATCGACTGGGAT
1 GAATCGAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATCGACTGGGAT
* *
2740112 AACA-TCACAAGTCGAAAGATAAAGAATCGATTAGGAGAACATCGC
66 AACACT-ACAAGTCGAAAGATAAAGAATCAATTAGGAGAACACCGC
* * * * *
2740157 GAATCGAAATTATGTCTGGAGGTCTTAGAAATCATGTCCGGAGGTCTTAGAAAATC
1 GAATCGAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATC
2740213 ATGCCCGGAG
Statistics
Matches: 142, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
109 1 0.01
110 116 0.82
111 25 0.18
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (110 bp):
GAATCGAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATCGACTGGGAT
AACACTACAAGTCGAAAGATAAAGAATCAATTAGGAGAACACCGC
Found at i:2740215 original size:23 final size:22
Alignment explanation
Indices: 2740162--2740228 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
2740152 ATCGCGAATC
* *
2740162 GAAATTATGTCTGGAGGTCTTA
1 GAAATCATGTCCGGAGGTCTTA
2740184 GAAATCATGTCCGGAGGTCTTA
1 GAAATCATGTCCGGAGGTCTTA
* *
2740206 GAAAATCATGCCCGGAGATCTTA
1 G-AAATCATGTCCGGAGGTCTTA
2740229 CAGAATTGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 21 0.52
23 19 0.47
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (22 bp):
GAAATCATGTCCGGAGGTCTTA
Found at i:2740275 original size:132 final size:132
Alignment explanation
Indices: 2740052--2740337 Score: 353
Period size: 132 Copynumber: 2.2 Consensus size: 132
2740042 ACCGCGAGTT
* * * * * * *
2740052 GAAATTATGCCCGAAGGTCTTAGAAATCATGCCCAGAGGTCTTATAGAATCGACTGGGATAACAT
1 GAAATCATGTCCGAAGGTCTTAGAAATCATGCCCAGAGATCTTACAGAATCGACTGAGATAAAAC
* * * *
2740117 CACAAGTCGAAAGATAAAGAATCGATTAGGAGAACA-TCGCGAATCGAAATTATG-TCTGGAGGT
66 CACAAGTCGAAAAATAAAGAATCGATTAGGACAACACT-GCAAATCGAAATTATGCTC-AGAGGT
2740180 CTTA
129 CTTA
* * *
2740184 GAAATCATGTCCGGAGGTCTTAGAAAATCATGCCCGGAGATCTTACAGAATTGACTGAGATAAAA
1 GAAATCATGTCCGAAGGTCTTAG-AAATCATGCCCAGAGATCTTACAGAATCGACTGAGATAAAA
* * * *
2740249 CCATAAGTC-AAAAATAAAGAATCGATTGGGACAACACTGTAAATCGAAATTATGCTCAGTGGTC
65 CCACAAGTCGAAAAATAAAGAATCGATTAGGACAACACTGCAAATCGAAATTATGCTCAGAGGTC
2740313 TTA
130 TTA
*
2740316 GAAATCATGTCCGAAAGTCTTA
1 GAAATCATGTCCGAAGGTCTTA
2740338 CAGAATCGAC
Statistics
Matches: 131, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
132 86 0.66
133 45 0.34
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (132 bp):
GAAATCATGTCCGAAGGTCTTAGAAATCATGCCCAGAGATCTTACAGAATCGACTGAGATAAAAC
CACAAGTCGAAAAATAAAGAATCGATTAGGACAACACTGCAAATCGAAATTATGCTCAGAGGTCT
TA
Found at i:2740349 original size:109 final size:109
Alignment explanation
Indices: 2740198--2740435 Score: 293
Period size: 109 Copynumber: 2.2 Consensus size: 109
2740188 TCATGTCCGG
* * * *
2740198 AGGTCTTAGAAAATCATGCCCGGAGATCTTACAGAATTGACTGAGATAAAACCATAAGTCAAAAA
1 AGGTCTTAG-AAATCATGTCCGAAGATCTTACAGAATCGACTGAGATAAAACCACAAGTCAAAAA
* * * *
2740263 TAAAGAATCGATTGGGACAACA-CTGTAAATCGAAATTATGCTCAG-
65 TAAAAAATCAATTGGGACAACATC-GCAAATCAAAATTATGC-CAGA
* * *
2740308 TGGTCTTAGAAATCATGTCCGAA-AGTCTTACAGAATCGACTGGGATAACACCACAAGTCAAAAA
1 AGGTCTTAGAAATCATGTCCGAAGA-TCTTACAGAATCGACTGAGATAAAACCACAAGTCAAAAA
* *
2740372 TAAAAAATCAATTGGGATAACATCGCAAATCAAAATTATGCCCGA
65 TAAAAAATCAATTGGGACAACATCGCAAATCAAAATTATGCCAGA
*
2740417 AGGTCTTAGAAATTATGTC
1 AGGTCTTAGAAATCATGTC
2740436 AATTGGGATA
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
108 3 0.03
109 98 0.89
110 9 0.08
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (109 bp):
AGGTCTTAGAAATCATGTCCGAAGATCTTACAGAATCGACTGAGATAAAACCACAAGTCAAAAAT
AAAAAATCAATTGGGACAACATCGCAAATCAAAATTATGCCAGA
Found at i:2740463 original size:55 final size:55
Alignment explanation
Indices: 2740379--2740490 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
2740369 AAATAAAAAA
2740379 TCAATTGGGATAACATCGCAAATCAAAATTATGCCCGAAGGTCTTAGAAATTATG
1 TCAATTGGGATAACATCGCAAATCAAAATTATGCCCGAAGGTCTTAGAAATTATG
*
2740434 TCAATTGGGATAACATCGCAAATCGAAATTATGCCCGAAGGTCTTAGAAATTATG
1 TCAATTGGGATAACATCGCAAATCAAAATTATGCCCGAAGGTCTTAGAAATTATG
2740489 TC
1 TC
2740491 CGAAGATCTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (55 bp):
TCAATTGGGATAACATCGCAAATCAAAATTATGCCCGAAGGTCTTAGAAATTATG
Found at i:2740483 original size:22 final size:22
Alignment explanation
Indices: 2740458--2740501 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2740448 ATCGCAAATC
*
2740458 GAAATTATGCCCGAAGGTCTTA
1 GAAATTATGCCCGAAGATCTTA
*
2740480 GAAATTATGTCCGAAGATCTTA
1 GAAATTATGCCCGAAGATCTTA
2740502 CAGAATCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (22 bp):
GAAATTATGCCCGAAGATCTTA
Found at i:2740606 original size:88 final size:87
Alignment explanation
Indices: 2740498--2740663 Score: 215
Period size: 87 Copynumber: 1.9 Consensus size: 87
2740488 GTCCGAAGAT
* * * * * * * *
2740498 CTTACAGAATCGACTTGGATAACATCACAAGTCGAAAGATAAAGAATCGATCGGGATAACACTGT
1 CTTACAAAATCGACTGGGATAACACCACAAGTC-AAAAATAAAAAATCGATCAGGATAACACCGC
2740563 GAATCAAAATTATGCCCAGAGGC
65 GAATCAAAATTATGCCCAGAGGC
** *
2740586 CTTACAAAATCGACTGGGATAACACCGTAAGTCAAAAATAAAAAATTGATCAGGATAACACCGCG
1 CTTACAAAATCGACTGGGATAACACCACAAGTCAAAAATAAAAAATCGATCAGGATAACACCGCG
*
2740651 AATCGAAATTATG
66 AATCAAAATTATG
2740664 TCTGGAGGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
87 38 0.58
88 28 0.42
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (87 bp):
CTTACAAAATCGACTGGGATAACACCACAAGTCAAAAATAAAAAATCGATCAGGATAACACCGCG
AATCAAAATTATGCCCAGAGGC
Found at i:2741075 original size:122 final size:121
Alignment explanation
Indices: 2740684--2741256 Score: 849
Period size: 122 Copynumber: 4.7 Consensus size: 121
2740674 TTGAAAGTTG
* * **
2740684 TGCCCGAAAGTGTTACAAATCTCAAAATCTTTGAATGCTTATCATAATCAGAGGCAATGAAACTT
1 TGCCCGAAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
* * *
2740749 TAAAATTTAAAAATTTTTTAATCTTGAAAGTCGTGCATAGAGGCTTTTAGAGATTA
66 TAAAATTTGAAAATCTTTTAATCTTGAAAGTCATGCATAGAGGCTTTTAGAGATTA
* * * *
2740805 TGCCCGAAAGTCTTATAAATCTTAAAATCTTTCAATGCTCCTCATAATCAGAGGCAATGAAACTT
1 TGCCCGAAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
* * * *
2740870 TAAAATTTAAAAATTTTTTAATCTTGAAAGTCGTGCATAGAGGTTTTTAGAGATTA
66 TAAAATTTGAAAATCTTTTAATCTTGAAAGTCATGCATAGAGGCTTTTAGAGATTA
* *
2740926 TGCCCGAAGGTCTTATAAATCTTAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
1 TGCCCGAAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
* *
2740991 TAAAATTTTGAAAATATTTTAATCTTTAAAGTCATGCATAGAGGCTTTTAGAGATTA
66 TAAAA-TTTGAAAATCTTTTAATCTTGAAAGTCATGCATAGAGGCTTTTAGAGATTA
* * *
2741048 TGTCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCAGAATCAGAGGCAATGAAACTT
1 TGCCCGAAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
* *** *
2741113 TAAAAATATGAAAATCTTTTAATCTTGAAAGTCATGTGCAGAGACTTTTAGAGATTA
66 T-AAAATTTGAAAATCTTTTAATCTTGAAAGTCATGCATAGAGGCTTTTAGAGATTA
* *
2741170 TGCCCGAAGGTCTTGCAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGTAATGAAACTT
1 TGCCCGAAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
*
2741235 TAAAAATATGAAAATCTTTTAA
66 T-AAAATTTGAAAATCTTTTAA
2741257 AACATGGCTT
Statistics
Matches: 419, Mismatches: 31, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
121 182 0.43
122 233 0.56
123 4 0.01
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (121 bp):
TGCCCGAAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
TAAAATTTGAAAATCTTTTAATCTTGAAAGTCATGCATAGAGGCTTTTAGAGATTA
Found at i:2743074 original size:22 final size:21
Alignment explanation
Indices: 2743049--2743094 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2743039 AATATGTCCA
* *
2743049 TTTTGTTTATTTTTTTCTCTTT
1 TTTTGTTTACTTTTTTAT-TTT
*
2743071 TTTTTTTTACTTTTTTATTTT
1 TTTTGTTTACTTTTTTATTTT
2743092 TTT
1 TTT
2743095 ATTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.85
Consensus pattern (21 bp):
TTTTGTTTACTTTTTTATTTT
Found at i:2748791 original size:22 final size:23
Alignment explanation
Indices: 2748751--2748793 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
2748741 TTATTATTAT
*
2748751 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAACATTTATCC
*
2748774 TAATAA-ATTTAAACATTTAT
1 TAATAACAATTAAACATTTAT
2748794 GCATAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATAACAATTAAACATTTATCC
Found at i:2749953 original size:23 final size:19
Alignment explanation
Indices: 2749923--2749973 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
2749913 TTGTATTTTG
2749923 TATTATTTCTATATTTTGTACAT
1 TATTATTT-T-TATTTT-TA-AT
*
2749946 TATTATTTTTATTTTTATT
1 TATTATTTTTATTTTTAAT
2749965 TATTATTTT
1 TATTATTTT
2749974 GGGACGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 2 0.07
21 6 0.22
22 1 0.04
23 8 0.30
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTATTTTTATTTTTAAT
Found at i:2750649 original size:105 final size:102
Alignment explanation
Indices: 2750266--2750981 Score: 970
Period size: 105 Copynumber: 6.9 Consensus size: 102
2750256 GAGGAGATCG
* * * *
2750266 GGATTAAACCACGAGTAAGAAGATAACAACAATCGAGATTAAACTGTGATTTTAAATTAAAAAGA
1 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGA
* * *
2750331 TC-AGGATTGAACTGCGAAT-TGAAGAATTAAAAAGATCA
66 TCGA-GATTGAACCGCGAATCAG-AGAA-TAAAAAGGTCA
2750369 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGA
1 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGA
* * * *
2750434 TCAAGATTGAACTGCGAATC-GAAGAATAAAAATGTCG
66 TCGAGATTGAACCGCGAATCAG-AGAATAAAAAGGTCA
*
2750471 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAAAGA
1 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGA
*
2750536 TCGAGATTGAACCGCGAATCAGAGAATAAAATGGTCA
66 TCGAGATTGAACCGCGAATCAGAGAATAAAAAGGTCA
* *
2750573 AGATTAAACCACGAATCAGAAGATCATAACAACAATCGAGATTAAACTACGATTTTAAATTAAAG
1 GGATTAAACCACGAATCAGAAG---ATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAG
* ** *
2750638 AGATCAAGATTGAACCATGAATCAGAGAATAAAAAGGTTA
63 AGATCGAGATTGAACCGCGAATCAGAGAATAAAAAGGTCA
2750678 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGA
1 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGA
* * **
2750743 TCGGGATTGAACCGTGAATTGGAGAATAAAAAGGTCA
66 TCGAGATTGAACCGCGAATCAGAGAATAAAAAGGTCA
*
2750780 GGATTAAACCACGAATCAGAAGATCATAACAACAATCGAGATTAAACTACGATTTTAAATTAAAG
1 GGATTAAACCACGAATCAGAAG---ATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAG
* * *
2750845 AGATCGTGATTGAACCGTGAATCAAAGAATAAAAAGGTCA
63 AGATCGAGATTGAACCGCGAATCAGAGAATAAAAAGGTCA
* * * *
2750885 GGATTAAACCACGAATCAAAAGATCACAACAACAATCGAGATTAAATTGTAATTTTAAATTAAAG
1 GGATTAAACCACGAATCAGAAGAT---AACAACAATCGAGATTAAACTATGATTTTAAATTAAAG
* * * * *
2750950 AGATTGGGATTGAACCACGAGTCAGAAAATAA
63 AGATCGAGATTGAACCGCGAATCAGAGAATAA
2750982 GAACGACTAA
Statistics
Matches: 555, Mismatches: 46, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
102 220 0.40
103 85 0.15
104 1 0.00
105 249 0.45
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (102 bp):
GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGA
TCGAGATTGAACCGCGAATCAGAGAATAAAAAGGTCA
Found at i:2750687 original size:207 final size:207
Alignment explanation
Indices: 2750266--2750981 Score: 1030
Period size: 207 Copynumber: 3.5 Consensus size: 207
2750256 GAGGAGATCG
* * *
2750266 GGATTAAACCACGAGTAAGAAGATAACAACAATCGAGATTAAACTGTGATTTTAAATTAAAAAGA
1 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAAAGA
* * *
2750331 TC-AGGATTGAACTGCGAAT-TGAAGAATTAAAAAGATCAGGATTAAACCACGAATCAGAAG---
66 TCGA-GATTGAACCGCGAATCAG-AGAA-TAAAAAGGTCAGGATTAAACCACGAATCAGAAGATC
* * *
2750391 ATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGATCAAGATTGAACTGCGAATC-G
128 ATAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAAGATTGAACCGTGAATCAG
* *
2750455 AAGAATAAAAATGTCG
193 -AGAATAAAAAGGTCA
2750471 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAAAGA
1 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAAAGA
* *
2750536 TCGAGATTGAACCGCGAATCAGAGAATAAAATGGTCAAGATTAAACCACGAATCAGAAGATCATA
66 TCGAGATTGAACCGCGAATCAGAGAATAAAAAGGTCAGGATTAAACCACGAATCAGAAGATCATA
*
2750601 ACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAAGATTGAACCATGAATCAGAGA
131 ACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAAGATTGAACCGTGAATCAGAGA
*
2750666 ATAAAAAGGTTA
196 ATAAAAAGGTCA
*
2750678 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAGAGA
1 GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAAAGA
* * **
2750743 TCGGGATTGAACCGTGAATTGGAGAATAAAAAGGTCAGGATTAAACCACGAATCAGAAGATCATA
66 TCGAGATTGAACCGCGAATCAGAGAATAAAAAGGTCAGGATTAAACCACGAATCAGAAGATCATA
** *
2750808 ACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGTGATTGAACCGTGAATCAAAGA
131 ACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAAGATTGAACCGTGAATCAGAGA
2750873 ATAAAAAGGTCA
196 ATAAAAAGGTCA
* * * * *
2750885 GGATTAAACCACGAATCAAAAGATCACAACAACAATCGAGATTAAATTGTAATTTTAAATTAAAG
1 GGATTAAACCACGAATCAGAAGAT---AACAACAATCGAGATTAAACTATGATTTTAAATTAAAA
* * * * *
2750950 AGATTGGGATTGAACCACGAGTCAGAAAATAA
63 AGATCGAGATTGAACCGCGAATCAGAGAATAA
2750982 GAACGACTAA
Statistics
Matches: 464, Mismatches: 38, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
204 30 0.06
205 82 0.18
206 2 0.00
207 289 0.62
208 1 0.00
210 60 0.13
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (207 bp):
GGATTAAACCACGAATCAGAAGATAACAACAATCGAGATTAAACTATGATTTTAAATTAAAAAGA
TCGAGATTGAACCGCGAATCAGAGAATAAAAAGGTCAGGATTAAACCACGAATCAGAAGATCATA
ACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCAAGATTGAACCGTGAATCAGAGA
ATAAAAAGGTCA
Found at i:2751105 original size:109 final size:109
Alignment explanation
Indices: 2750976--2751202 Score: 262
Period size: 109 Copynumber: 2.1 Consensus size: 109
2750966 ACGAGTCAGA
*
2750976 AAATAAGAACGACTAAGATTAAACCGTAAGTC-AAGAAGATATAAAAATGATC-AGAATTAAACC
1 AAATAAAAACGACTAAGATTAAACCGTAAGTCGAA-AAGATATAAAAATGATCGA-AATTAAACC
* * * *
2751039 AT-AAGTCAAAGATTAAAGATAACTATGACTGAACCGTAGGTCAAAG
64 ATGAA-TCAAAGATTAAAGATAACTAGGACTAAACCGCAAGTCAAAG
* * * * *
2751085 AAATAAAAACGACTAGGATTATATCGTAAGTCGAAAAGCTATAAGAATGATCGAAATTAAACCAT
1 AAATAAAAACGACTAAGATTAAACCGTAAGTCGAAAAGATATAAAAATGATCGAAATTAAACCAT
** * * **
2751150 GAATCAACTATTAACGATGACTAGGACTAAACCGCAAGTCAGGG
66 GAATCAAAGATTAAAGATAACTAGGACTAAACCGCAAGTCAAAG
2751194 AAATAAAAA
1 AAATAAAAA
2751203 TAACCATAAC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
109 94 0.95
110 5 0.05
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (109 bp):
AAATAAAAACGACTAAGATTAAACCGTAAGTCGAAAAGATATAAAAATGATCGAAATTAAACCAT
GAATCAAAGATTAAAGATAACTAGGACTAAACCGCAAGTCAAAG
Found at i:2752230 original size:9 final size:9
Alignment explanation
Indices: 2752216--2752240 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2752206 TAACTTCCTT
2752216 TTTTTTTTG
1 TTTTTTTTG
2752225 TTTTTTTTG
1 TTTTTTTTG
2752234 TTTTTTT
1 TTTTTTT
2752241 AAGCAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:2758907 original size:12 final size:12
Alignment explanation
Indices: 2758890--2758918 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2758880 TTTGTTAGAA
2758890 ATTTTATTAATT
1 ATTTTATTAATT
2758902 ATTTTATTAATT
1 ATTTTATTAATT
2758914 -TTTTA
1 ATTTTA
2758919 ATTTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:2760609 original size:94 final size:94
Alignment explanation
Indices: 2760486--2760754 Score: 423
Period size: 94 Copynumber: 2.9 Consensus size: 94
2760476 TTGAAAGTTT
2760486 AAAAAGGCTCCTCTCAGCAGAGGCT-AACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCA
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCA
*
2760550 GAGGCTTAATAACTTTAAAATCTCATCTTG
65 GAGGCTTAACAACTTTAAAATCTCATCTTG
* * * * * * *
2760580 GAAAAGTTCCTCTTAGCAAAAGCTCAACAACTTTAAAATTTTCTTGAAAAAGCTCCTCTCAGTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAG
*
2760645 AGGCTTAACAACTTTAAAATTTCATCTTG
66 AGGCTTAACAACTTTAAAATCTCATCTTG
*
2760674 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGGAAAAGCTCCTCTCAGCAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAG
*
2760739 AGGCTCAACAACTTTA
66 AGGCTTAACAACTTTA
2760755 GCAGAGGCTC
Statistics
Matches: 156, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
93 15 0.10
94 141 0.90
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (94 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAG
AGGCTTAACAACTTTAAAATCTCATCTTG
Found at i:2760612 original size:48 final size:46
Alignment explanation
Indices: 2760486--2761090 Score: 489
Period size: 46 Copynumber: 12.9 Consensus size: 46
2760476 TTGAAAGTTT
2760486 AAAAAGGCTCCTCTCAGCAGAGGCT-AACAACTTTAAAATTCTCTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* *
2760532 AAAAAGCTCCTCTCAGCAGAGGCTTAATAACTTTAAAATCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TC-TCTTG
* * * * * *
2760580 GAAAAGTTCCTCTTAGCAAAAGCTCAACAACTTTAAAATTTTCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* *
2760626 AAAAAGCTCCTCTCAGTAGAGGCTTAACAACTTTAAAATTTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TTC-TCTTG
2760674 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* * * *
2760720 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAGCAGAGGCTCAACAACTT-
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA--A-A--AT--TC-TCTTG
* * * * * * * * ** * * *
2760773 TAAAATCTCATCTGA-AAAAGCTCCTCTCAGCAGAGGCTCAACA-ACT-TT-
1 AAAAAGCTCCTCTCAGCAGAG----GCTCAACA-A-CTTTAAAATTCTCTTG
* * * *
2760821 -AAAA--T-CTCT-TGAAAAAGCTCAACAACTTTAAAA-TCTCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* * *
2760861 AAAAGGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* *
2760907 AAAATGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA-TCTCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
* * * *
2760952 AAAAAGCTCCTTTTAGTAGAGGCTCAACAACTTTAAAATCTCATATCATG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TC---TCTTG
*
2761002 AAAATGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TC-TCTTG
* * *
2761051 GAAAAGCTCCTCTCAGCAAAGGTTCAACAACTTTAAAATT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT
2761091 TTCATCTGTT
Statistics
Matches: 454, Mismatches: 71, Indels: 67
0.77 0.12 0.11
Matches are distributed among these distances:
38 6 0.01
39 3 0.01
40 6 0.01
41 3 0.01
43 1 0.00
44 10 0.02
45 80 0.18
46 135 0.30
47 15 0.03
48 113 0.25
49 9 0.02
50 10 0.02
51 35 0.08
52 3 0.01
53 12 0.03
54 3 0.01
56 7 0.02
57 1 0.00
58 2 0.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (46 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
Found at i:2760759 original size:20 final size:20
Alignment explanation
Indices: 2760734--2760774 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2760724 AGCTCCTCTC
2760734 AGCAGAGGCTCAACAACTTT
1 AGCAGAGGCTCAACAACTTT
2760754 AGCAGAGGCTCAACAACTTT
1 AGCAGAGGCTCAACAACTTT
2760774 A
1 A
2760775 AAATCTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
AGCAGAGGCTCAACAACTTT
Found at i:2760782 original size:94 final size:90
Alignment explanation
Indices: 2760496--2761090 Score: 351
Period size: 94 Copynumber: 6.3 Consensus size: 90
2760486 AAAAAGGCTC
*
2760496 CTCTCAGCAGAGGCT-AACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTTAAT
1 CTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTTAAC
*
2760560 AACTTTAAAATCTCATCTTGGAAAAGTTC
66 AACTTTAAAATCTCATCTT-GAAAA---A
* * * * *
2760589 CTCTTAGCAAAAGCTCAACAACTTTAAAATTTTCTTGAAAAAGCTCCTCTCAGTAGAGGCTTAAC
1 CTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTTAAC
*
2760654 AACTTTAAAATTTCATCTTGAAAAA
66 AACTTTAAAATCTCATCTTGAAAAA
*
2760679 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGGAAAAGCTCCTCTCAGCAGAGGCT
1 ----CTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAGAGGCT
* * * * * *
2760744 CAACAACTTTAGCAGAGGCTCAACAACTTTAAAAT
62 TAACAACTTTA--A-A--ATC-TCATCTTGAAAAA
* * * * * * * *
2760779 CTCATCTGAAAAAGCTCCTCTCAGCAGAGGC-TCAACAA--CT-TT--AAAA--T-CTCT-TGAA
1 CTC-TCAG-CAGAG----GCTCAACA-A--CTTTAA-AATTCTCTTGAAAAAGCTCCTCTCAGCA
* * * *
2760834 AAAGCTCAACAACTTTAAAA--TC-TCTTGAAAAGGCT
56 GAGGCTTAACAACTTTAAAATCTCATCTTGAAAA---A
* * * *
2760869 CTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCTTGAAAATGCTCCTCTCAACAGAGGCTCAA
1 C-TCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTTAA
2760934 CAACTTTAAAA--TC-TCTTGAAAAA
65 CAACTTTAAAATCTCATCTTGAAAAA
* * * *
2760957 GCTCCTTTTAGTAGAGGCTCAACAACTTTAAAATCTCATATCATGAAAATGGCTCCTCTCAGCAG
1 -CT-C--TCAGCAGAGGCTCAACAACTTTAAAAT-TC---TCTTGAAAA-AGCTCCTCTCAGCAG
* *
2761022 AGGCTCAACAACTTTAAAATCTCATCTTGGAAAAGCTC
57 AGGCTTAACAACTTTAAAATCTCATCTT-GAAAA---A
* *
2761060 CTCTCAGCAAAGGTTCAACAACTTTAAAATT
1 CTCTCAGCAGAGGCTCAACAACTTTAAAATT
2761091 TTCATCTGTT
Statistics
Matches: 392, Mismatches: 59, Indels: 97
0.72 0.11 0.18
Matches are distributed among these distances:
82 3 0.01
83 3 0.01
84 3 0.01
85 8 0.02
87 10 0.03
88 2 0.01
89 6 0.02
90 9 0.02
91 56 0.14
92 2 0.01
93 18 0.05
94 130 0.33
95 8 0.02
96 53 0.14
97 8 0.02
98 7 0.02
99 28 0.07
100 18 0.05
101 1 0.00
102 10 0.03
103 3 0.01
104 3 0.01
105 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (90 bp):
CTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTTAAC
AACTTTAAAATCTCATCTTGAAAAA
Found at i:2760817 original size:67 final size:66
Alignment explanation
Indices: 2760688--2760895 Score: 249
Period size: 67 Copynumber: 3.0 Consensus size: 66
2760678 AGCTCCTCTC
*
2760688 AGCAGAGGCTCAACAACTTTAAAAT-TCTCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
1 AGCAGAGGCTCAACAACTTTAAAATCTCTC-TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
2760752 TT
65 TT
2760754 AGCAGAGGCTCAACAACTTTAAAATCTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
1 AGCAGAGGCTCAACAACTTTAAAATCTC-TCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
2760819 TT
65 TT
* * * * *
2760821 AAAATCTCTTGAAAAAGCTCAACAACTTTAAAATCTCT-TGAAAAGGCTCTTCTCAGCAGAGGCT
1 ---A------GCAGAGGCTCAACAACTTTAAAATCTCTCTGAAAAAGCTCCTCTCAGCAGAGGCT
2760885 CAACAACTTT
57 CAACAACTTT
2760895 A
1 A
2760896 AAAATCTCTT
Statistics
Matches: 125, Mismatches: 6, Indels: 17
0.84 0.04 0.11
Matches are distributed among these distances:
66 25 0.20
67 37 0.30
68 2 0.02
70 1 0.01
71 1 0.01
74 34 0.27
75 1 0.01
76 24 0.19
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (66 bp):
AGCAGAGGCTCAACAACTTTAAAATCTCTCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTT
T
Found at i:2760841 original size:29 final size:29
Alignment explanation
Indices: 2760808--2760869 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
2760798 CTCAGCAGAG
2760808 GCTCAACAACTTTAAAATCTCTTGAAAAA
1 GCTCAACAACTTTAAAATCTCTTGAAAAA
*
2760837 GCTCAACAACTTTAAAATCTCTTGAAAAG
1 GCTCAACAACTTTAAAATCTCTTGAAAAA
2760866 GCTC
1 GCTC
2760870 TTCTCAGCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (29 bp):
GCTCAACAACTTTAAAATCTCTTGAAAAA
Found at i:2760885 original size:74 final size:77
Alignment explanation
Indices: 2760761--2760915 Score: 262
Period size: 74 Copynumber: 2.1 Consensus size: 77
2760751 TTTAGCAGAG
2760761 GCTCAACAACTTTAAAATCTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAA
1 GCTCAACAACTTTAAAATCTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA
2760825 TCTCTTGAAAAA
66 TCTCTTGAAAAA
* *
2760837 GCTCAACAACTTTAAAATCTC-T-TGAAAAGGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAA
1 GCTCAACAACTTTAAAATCTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA
*
2760900 TCTCTTGAAAAT
66 TCTCTTGAAAAA
2760912 GCTC
1 GCTC
2760916 CTCTCAACAG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
74 34 0.45
75 20 0.27
76 21 0.28
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (77 bp):
GCTCAACAACTTTAAAATCTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA
TCTCTTGAAAAA
Found at i:2760942 original size:91 final size:93
Alignment explanation
Indices: 2760837--2761088 Score: 325
Period size: 91 Copynumber: 2.7 Consensus size: 93
2760827 TCTTGAAAAA
2760837 GCTCAACAACTTTAAAATCTCTTGAAAAGGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATC
1 GCTCAACAACTTTAAAATCTCTTGAAAA-GCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATC
2760902 TC-T-TGAAAAT-GCTCCTCTCAACAGAG
65 TCATATGAAAATGGCTCCTCTCAACAGAG
* *
2760928 GCTCAACAACTTTAAAATCTCTTGAAAAAGCTCCTT-TTAGTAGAGGCTCAACAACTTT-AAAAT
1 GCTCAACAACTTTAAAATCTCTTG-AAAAGCT-CTTCTCAGCAGAGGCTCAACAACTTTAAAAAT
*
2760991 CTCATATCATGAAAATGGCTCCTCTCAGCAGAG
64 CTC--AT-ATGAAAATGGCTCCTCTCAACAGAG
* * *
2761024 GCTCAACAACTTTAAAATCTCATCTTGGAAAAGCTCCTCTCAGCAAAGGTTCAACAACTTTAAAA
1 GCTCAACAACTTTAAAA--TC-TCTT-GAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAA
2761089 TTTTCATCTG
Statistics
Matches: 139, Mismatches: 8, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
90 8 0.06
91 47 0.34
92 7 0.05
93 1 0.01
95 7 0.05
96 32 0.23
98 4 0.03
99 29 0.21
100 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (93 bp):
GCTCAACAACTTTAAAATCTCTTGAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCT
CATATGAAAATGGCTCCTCTCAACAGAG
Found at i:2765260 original size:18 final size:19
Alignment explanation
Indices: 2765225--2765266 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
2765215 ATGGAATAGC
*
2765225 AAAACAAAAATGATGGAAAT
1 AAAAAAAAAATGA-GGAAAT
*
2765245 AAAAAAAAAATG-GGAAGT
1 AAAAAAAAAATGAGGAAAT
2765263 AAAA
1 AAAA
2765267 TGAATATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (19 bp):
AAAAAAAAAATGAGGAAAT
Found at i:2772009 original size:7 final size:7
Alignment explanation
Indices: 2771982--2772030 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
2771972 ATGTGTGTGA
2771982 ATTTTTT
1 ATTTTTT
*
2771989 ACTTTTT
1 ATTTTTT
2771996 ATTTTTT
1 ATTTTTT
2772003 ATTTTTT
1 ATTTTTT
*
2772010 GTTTTGTT
1 ATTTT-TT
*
2772018 -TTTTTC
1 ATTTTTT
2772024 ATTTTTT
1 ATTTTTT
2772031 TTTACTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 1 0.03
7 32 0.91
8 2 0.06
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (7 bp):
ATTTTTT
Found at i:2772764 original size:12 final size:12
Alignment explanation
Indices: 2772747--2772775 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2772737 TTTGTTAGAA
2772747 ATTTTATTAATT
1 ATTTTATTAATT
2772759 ATTTTATTAATT
1 ATTTTATTAATT
2772771 -TTTTA
1 ATTTTA
2772776 ATTTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:2773434 original size:18 final size:18
Alignment explanation
Indices: 2773407--2773449 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2773397 GCTCGACGGT
* * *
2773407 TCGATATGACGGTTTAGC
1 TCGATCTGACGGTTCAAC
2773425 TCGATCTGACGGTTCAAC
1 TCGATCTGACGGTTCAAC
2773443 TCGATCT
1 TCGATCT
2773450 AGGTGGTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (18 bp):
TCGATCTGACGGTTCAAC
Found at i:2774366 original size:8 final size:7
Alignment explanation
Indices: 2774356--2774396 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 7
2774346 GATAAACGCG
2774356 AAAAATA
1 AAAAATA
2774363 GAAAAA-A
1 -AAAAATA
2774370 AAAAA-A
1 AAAAATA
2774376 AAAAATAA
1 AAAAAT-A
2774384 AAAAATA
1 AAAAATA
2774391 AAAAAT
1 AAAAAT
2774397 GGTGTTTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 11 0.35
7 8 0.26
8 12 0.39
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (7 bp):
AAAAATA
Found at i:2774381 original size:20 final size:20
Alignment explanation
Indices: 2774356--2774395 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2774346 GATAAACGCG
2774356 AAAAATAGAAAAAA-AAAAAA
1 AAAAATA-AAAAAATAAAAAA
2774376 AAAAATAAAAAAATAAAAAA
1 AAAAATAAAAAAATAAAAAA
2774396 TGGTGTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (20 bp):
AAAAATAAAAAAATAAAAAA
Found at i:2780067 original size:22 final size:23
Alignment explanation
Indices: 2780027--2780069 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
2780017 TTATTATTAT
*
2780027 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAACATTTATCC
*
2780050 TAATAA-ATTTAAACATTTAT
1 TAATAACAATTAAACATTTAT
2780070 GCATAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATAACAATTAAACATTTATCC
Found at i:2780197 original size:13 final size:13
Alignment explanation
Indices: 2780179--2780225 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
2780169 GTCAACAGCA
2780179 GTTCGGTTGGATG
1 GTTCGGTTGGATG
* *
2780192 GTTCGGTTCGACG
1 GTTCGGTTGGATG
2780205 GTTCGGTTGGATG
1 GTTCGGTTGGATG
2780218 GTTCGGTT
1 GTTCGGTT
2780226 CAACGGTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.06, C:0.13, G:0.43, T:0.38
Consensus pattern (13 bp):
GTTCGGTTGGATG
Found at i:2780209 original size:26 final size:26
Alignment explanation
Indices: 2780179--2780234 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
2780169 GTCAACAGCA
*
2780179 GTTCGGTTGGATGGTTCGGTTCGACG
1 GTTCGGTTGGATGGTTCGGTTCAACG
2780205 GTTCGGTTGGATGGTTCGGTTCAACG
1 GTTCGGTTGGATGGTTCGGTTCAACG
2780231 GTTC
1 GTTC
2780235 AGTTCAGTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.09, C:0.16, G:0.39, T:0.36
Consensus pattern (26 bp):
GTTCGGTTGGATGGTTCGGTTCAACG
Found at i:2780233 original size:13 final size:13
Alignment explanation
Indices: 2780191--2780240 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
2780181 TCGGTTGGAT
*
2780191 GGTTCGGTTCGAC
1 GGTTCGGTTCAAC
** *
2780204 GGTTCGGTTGGAT
1 GGTTCGGTTCAAC
2780217 GGTTCGGTTCAAC
1 GGTTCGGTTCAAC
*
2780230 GGTTCAGTTCA
1 GGTTCGGTTCA
2780241 GTCTGGGAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.12, C:0.18, G:0.36, T:0.34
Consensus pattern (13 bp):
GGTTCGGTTCAAC
Found at i:2780766 original size:23 final size:23
Alignment explanation
Indices: 2780723--2780782 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
2780713 GATCAGATTT
*
2780723 TTTTTATTTTTTTT-ATTCTGAC
1 TTTTTATTTTTTTTGATACTGAC
2780745 TTTTTATTTTTTTTGGA-ACTGAC
1 TTTTTATTTTTTTT-GATACTGAC
2780768 TTTTT-TTTTTCTTTG
1 TTTTTATTTTT-TTTG
2780783 TGCAGGGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 20 0.59
23 13 0.38
24 1 0.03
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (23 bp):
TTTTTATTTTTTTTGATACTGAC
Found at i:2781171 original size:16 final size:15
Alignment explanation
Indices: 2781134--2781183 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
2781124 CATCCTCGAT
* *
2781134 TTTTTTTGTTTTTTG
1 TTTTTTTGTTTTGTA
2781149 TTCTTTTT-TTTTGGTA
1 TT-TTTTTGTTTT-GTA
2781165 TTTTTTTGTTTTGTA
1 TTTTTTTGTTTTGTA
2781180 TTTT
1 TTTT
2781184 GTATTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (15 bp):
TTTTTTTGTTTTGTA
Found at i:2781183 original size:23 final size:23
Alignment explanation
Indices: 2781142--2781196 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
2781132 ATTTTTTTTG
* *
2781142 TTTTTTGTTCTTTTTTTTTGGTAT
1 TTTTTTGTTCTTGTATTTT-GTAT
2781166 TTTTTTGTT-TTGTATTTTGTAT
1 TTTTTTGTTCTTGTATTTTGTAT
2781188 TATTTTTGT
1 T-TTTTTGT
2781197 ATTTCGTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.18
23 14 0.50
24 9 0.32
ACGTcount: A:0.07, C:0.02, G:0.13, T:0.78
Consensus pattern (23 bp):
TTTTTTGTTCTTGTATTTTGTAT
Found at i:2781196 original size:11 final size:10
Alignment explanation
Indices: 2781134--2781200 Score: 55
Period size: 11 Copynumber: 6.3 Consensus size: 10
2781124 CATCCTCGAT
2781134 TTTTTTTGT-
1 TTTTTTTGTA
* *
2781143 TTTTTGTTCTT
1 TTTTT-TTGTA
2781154 TTTTTTTGGTA
1 TTTTTTT-GTA
*
2781165 TTTTTTTGTT
1 TTTTTTTGTA
2781175 TTGTATTTTGTA
1 TT-T-TTTTGTA
2781187 TTATTTTTGTA
1 TT-TTTTTGTA
2781198 TTT
1 TTT
2781201 CGTACATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
9 5 0.11
10 10 0.21
11 23 0.49
12 9 0.19
ACGTcount: A:0.07, C:0.01, G:0.12, T:0.79
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:2783736 original size:3 final size:3
Alignment explanation
Indices: 2783728--2783757 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2783718 TCTAGGCAGA
2783728 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2783758 TATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2784274 original size:14 final size:14
Alignment explanation
Indices: 2784251--2784287 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2784241 CTCAGGGAAC
*
2784251 CCATCAGTGACCGA
1 CCATCGGTGACCGA
2784265 CCATCGGTGACCGA
1 CCATCGGTGACCGA
2784279 CCATCGGTG
1 CCATCGGTG
2784288 TCATGCTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (14 bp):
CCATCGGTGACCGA
Found at i:2784732 original size:26 final size:26
Alignment explanation
Indices: 2784697--2784747 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
2784687 GAAGGCTTTC
*
2784697 TTTTTTTTTAAAGAGGGTCCGAGAGT
1 TTTTTTTTTAAAGAGGATCCGAGAGT
*
2784723 TTTTTTTTTAGAGAGGATCCGAGAG
1 TTTTTTTTTAAAGAGGATCCGAGAG
2784748 AGAGCTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (26 bp):
TTTTTTTTTAAAGAGGATCCGAGAGT
Found at i:2784822 original size:11 final size:11
Alignment explanation
Indices: 2784802--2784835 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
2784792 AGGGGATCTA
*
2784802 GGTGGCTGTAG
1 GGTGGTTGTAG
2784813 GGTGGTTGTAG
1 GGTGGTTGTAG
2784824 GGTGGTTGTAG
1 GGTGGTTGTAG
2784835 G
1 G
2784836 TGGGCTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.09, C:0.03, G:0.56, T:0.32
Consensus pattern (11 bp):
GGTGGTTGTAG
Found at i:2784974 original size:21 final size:21
Alignment explanation
Indices: 2784937--2784983 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2784927 TTGTTTTTTT
*
2784937 ATTA-TTTTTATATAATTAATA
1 ATTATTTTTTATAAAATT-ATA
*
2784958 ATTATTTTTTA-AAAATTATT
1 ATTATTTTTTATAAAATTATA
2784978 ATTATT
1 ATTATT
2784984 ATTATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTTTTTATAAAATTATA
Found at i:2784978 original size:3 final size:3
Alignment explanation
Indices: 2784972--2785030 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
2784962 TTTTTTAAAA
**
2784972 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAA ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
2785020 ATT AAT ATT AT
1 ATT ATT ATT AT
2785031 ACTGAAATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:2787743 original size:17 final size:17
Alignment explanation
Indices: 2787721--2787754 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2787711 TCACGTAAAA
*
2787721 TTTTATATTTGTTTTTT
1 TTTTATATTTATTTTTT
2787738 TTTTATATTTATTTTTT
1 TTTTATATTTATTTTTT
2787755 ATCAAATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTATATTTATTTTTT
Found at i:2793514 original size:2 final size:2
Alignment explanation
Indices: 2793502--2793539 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2793492 GAGAAATTCC
* *
2793502 AT AT A- AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2793540 GTACTACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2794821 original size:14 final size:14
Alignment explanation
Indices: 2794798--2794851 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
2794788 ATATGAAAGG
*
2794798 TTTAGGGTTTTGGT
1 TTTAGGGTTTAGGT
*
2794812 TTTAGAGTTTAGAGAT
1 TTTAGGGTTTAG-G-T
*
2794828 TTTAGGGTTTGGGT
1 TTTAGGGTTTAGGT
*
2794842 TTTAAGGTTT
1 TTTAGGGTTT
2794852 GGGGTTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 20 0.61
15 2 0.06
16 11 0.33
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTAGGT
Found at i:2794852 original size:14 final size:15
Alignment explanation
Indices: 2794827--2794859 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2794817 AGTTTAGAGA
*
2794827 TTTTAGGGTTT-GGG
1 TTTTAAGGTTTGGGG
2794841 TTTTAAGGTTTGGGG
1 TTTTAAGGTTTGGGG
2794856 TTTT
1 TTTT
2794860 GATTTAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.09, C:0.00, G:0.36, T:0.55
Consensus pattern (15 bp):
TTTTAAGGTTTGGGG
Found at i:2795197 original size:23 final size:21
Alignment explanation
Indices: 2795155--2795199 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
2795145 CTAATAAATA
*
2795155 AATATTATTTTGAACATTTTT
1 AATATTATTTTAAACATTTTT
*
2795176 AATATATATTTTAAATCGTTTTT
1 AATAT-TATTTTAAA-CATTTTT
2795199 A
1 A
2795200 TTTTAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 8 0.40
23 7 0.35
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
AATATTATTTTAAACATTTTT
Found at i:2796287 original size:16 final size:17
Alignment explanation
Indices: 2796266--2796303 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
2796256 ATTTTTTCTC
2796266 TTTTTTT-GTTAC-TTT
1 TTTTTTTCGTTACATTT
*
2796281 TTTTTTTCGTTTCATTT
1 TTTTTTTCGTTACATTT
2796298 TTTTTT
1 TTTTTT
2796304 GTTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 4 0.20
17 9 0.45
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82
Consensus pattern (17 bp):
TTTTTTTCGTTACATTT
Found at i:2796307 original size:15 final size:15
Alignment explanation
Indices: 2796266--2796307 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
2796256 ATTTTTTCTC
* *
2796266 TTTTTTTGTTACTTT
1 TTTTTTTGTTTCATT
2796281 TTTTTTTCGTTTCATT
1 TTTTTTT-GTTTCATT
2796297 TTTTTTTGTTT
1 TTTTTTTGTTT
2796308 TTTTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.81
Consensus pattern (15 bp):
TTTTTTTGTTTCATT
Found at i:2796364 original size:15 final size:15
Alignment explanation
Indices: 2796314--2796372 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
2796304 GTTTTTTTTT
*
2796314 ATATTTTTATATAATTA
1 ATATTATTAT-TAA-TA
*
2796331 ATAATTATT-TTTA-A
1 AT-ATTATTATTAATA
2796345 ATATTATTATTAATA
1 ATATTATTATTAATA
*
2796360 ATATTATCATTAA
1 ATATTATTATTAA
2796373 AATTAAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 6 0.17
14 6 0.17
15 13 0.37
16 2 0.06
17 3 0.09
18 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTATTAATA
Found at i:2796747 original size:87 final size:87
Alignment explanation
Indices: 2796596--2796781 Score: 329
Period size: 87 Copynumber: 2.1 Consensus size: 87
2796586 CAAATCATGT
*
2796596 CCGGAGGTCTTACAGAATCGATTGGGATAAACCGCAAGTTGAAAAATAAAGAATCGATCAAGATA
1 CCGGAGGTCTTACAGAATCGATTGGGATAAACCGCAAGTAGAAAAATAAAGAATCGATCAAGATA
2796661 ACA-CAGCGAATCAAATTTATGC
66 ACATC-GCGAATCAAATTTATGC
* *
2796683 CCGGAGGTCTTACAGAATCGATTGGGATAAATCGCAAGTAGAAAAATAAAGAATCGATCGAGATA
1 CCGGAGGTCTTACAGAATCGATTGGGATAAACCGCAAGTAGAAAAATAAAGAATCGATCAAGATA
2796748 ACATCGCGAATCAAATTTATGC
66 ACATCGCGAATCAAATTTATGC
2796770 CCGGAGGTCTTA
1 CCGGAGGTCTTA
2796782 GACATCATGC
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
87 94 0.99
88 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (87 bp):
CCGGAGGTCTTACAGAATCGATTGGGATAAACCGCAAGTAGAAAAATAAAGAATCGATCAAGATA
ACATCGCGAATCAAATTTATGC
Found at i:2796918 original size:109 final size:110
Alignment explanation
Indices: 2796679--2797029 Score: 483
Period size: 109 Copynumber: 3.2 Consensus size: 110
2796669 AATCAAATTT
* * * *
2796679 ATGCCCGGAGGTCTTACAGAATCGATTGGGATAA-ATCGCAAGT-AGAAAAATAAAGAATCGATC
1 ATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCACAAGTCA-AAAGATAAAGAATCGATC
* * * *
2796742 GAGATAACATCGCGAATCAAATTTATGCCCGGAGGTCTTAGACATC
65 GGGATAACATCACGAATCGAATTTATGCCCGGAGGTCTTAGAAATC
2796788 ATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
1 ATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
* **
2796853 GGATAAAATCACGAATCGAATTTACACCCGGAGGTCTTAGAAATC
66 GGATAACATCACGAATCGAATTTATGCCCGGAGGTCTTAGAAATC
* * * *
2796898 ATGC-CGGAGGTCTTATAGAATCAACTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCA
1 ATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
* * *
2796962 GGATAACACCACGAATCGAAATTATGCCCGAAGGTCTTAGAAATC
66 GGATAACATCACGAATCGAATTTATGCCCGGAGGTCTTAGAAATC
* * *
2797007 ATGCTCGAAAGTCTTATAGAATC
1 ATGCTCGGAGGTCTTACAGAATC
2797030 ATGTCCAGAG
Statistics
Matches: 216, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
109 132 0.61
110 83 0.38
111 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (110 bp):
ATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
GGATAACATCACGAATCGAATTTATGCCCGGAGGTCTTAGAAATC
Found at i:2797010 original size:22 final size:22
Alignment explanation
Indices: 2796980--2797088 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 22
2796970 CCACGAATCG
* *
2796980 AAATTATGCCCGAAGGTCTTAG
1 AAATCATGCCCGAAGGTCTTAC
* * *
2797002 AAATCATGCTCGAAAGTCTTAT
1 AAATCATGCCCGAAGGTCTTAC
*
2797024 AGAATCATGTCC-AGAGGTCTTAC
1 A-AATCATGCCCGA-AGGTCTTAC
*
2797047 ATAAT--TGCCCGGAGGTCTTAC
1 A-AATCATGCCCGAAGGTCTTAC
* *
2797068 AAATCATGTCCGGAGGTCTTA
1 AAATCATGCCCGAAGGTCTTA
2797089 TAGAATCGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
20 3 0.04
21 14 0.20
22 34 0.49
23 19 0.27
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (22 bp):
AAATCATGCCCGAAGGTCTTAC
Found at i:2797043 original size:23 final size:23
Alignment explanation
Indices: 2797017--2797095 Score: 92
Period size: 21 Copynumber: 3.6 Consensus size: 23
2797007 ATGCTCGAAA
* *
2797017 GTCTTATAGAATCATGTCCAGAG
1 GTCTTACAGAATCATGTCCGGAG
* *
2797040 GTCTTACATAAT--TGCCCGGAG
1 GTCTTACAGAATCATGTCCGGAG
2797061 GTCTTACA-AATCATGTCCGGAG
1 GTCTTACAGAATCATGTCCGGAG
*
2797083 GTCTTATAGAATC
1 GTCTTACAGAATC
2797096 GATTGGGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.06
21 15 0.32
22 15 0.32
23 14 0.30
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (23 bp):
GTCTTACAGAATCATGTCCGGAG
Found at i:2797159 original size:284 final size:284
Alignment explanation
Indices: 2796767--2797312 Score: 801
Period size: 284 Copynumber: 1.9 Consensus size: 284
2796757 ATCAAATTTA
* *
2796767 TGCCCGGAGGTCTTAGACATCATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCACAAGT
1 TGCCCGGAGGTCTTACAAATCATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCACAAGT
* *
2796832 CAAAAGATAAAGAATCGATCGGGATAAAATCACGAATCGAATTTACACCCGGAGGTCTTAGAAAT
66 CAAAAAATAAAGAATCGATCGGGATAAAATCACAAATCGAATTT-CACCCGGAGGTCTTAGAAAT
* *
2796897 CATG-CCGGAGGTCTTATAGAATCAACTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATC
130 CATGCCCGGAGGTCTTACAGAATCAACTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATC
* * *
2796961 AGGATAACACCACGAATCGAAATTATGCCCGAAGGTCTTAGAAATCATGCTCGAAAGTCTTATAG
195 AGGATAACACCACGAATCGAAATTATGCCCG-AGGTCTTACAAATCATGCCCGAAAGTCTTACAG
2797026 AATCATGTCCAGAGGTCTTACATAAT
259 AATCATGTCCAGAGGTCTTACATAAT
* *
2797052 TGCCCGGAGGTCTTACAAATCATG-TCCGGAGGTCTTATAGAATCGATTGGGATAA-ACTACAAG
1 TGCCCGGAGGTCTTACAAATCATGCT-CGGAGGTCTTACAGAATCGATTGGGATAACACCACAAG
* * * ** *
2797115 TTAAAAAATAAAGAATCGATCGGGATAACATCGCAAATCGAATTTCTGCCGGAGGTCTTAGACAT
65 TCAAAAAATAAAGAATCGATCGGGATAAAATCACAAATCGAATTTCACCCGGAGGTCTTAGAAAT
* * ** *
2797180 CATGCCCGGAGGTCTTACAGAATCGATTAGGATAACATTATAAGTCAAAAGATAAAGAATCGATC
130 CATGCCCGGAGGTCTTACAGAATCAACTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATC
* * * * *
2797245 GGGATAACATCGCGAATCGAATTTATGCCCGAGGTCTTACAAATCATGCCCGAAGGTCTTACAGA
195 AGGATAACACCACGAATCGAAATTATGCCCGAGGTCTTACAAATCATGCCCGAAAGTCTTACAGA
2797310 ATC
260 ATC
2797313 GATTGGATAA
Statistics
Matches: 232, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
283 54 0.23
284 128 0.55
285 50 0.22
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (284 bp):
TGCCCGGAGGTCTTACAAATCATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCACAAGT
CAAAAAATAAAGAATCGATCGGGATAAAATCACAAATCGAATTTCACCCGGAGGTCTTAGAAATC
ATGCCCGGAGGTCTTACAGAATCAACTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATCA
GGATAACACCACGAATCGAAATTATGCCCGAGGTCTTACAAATCATGCCCGAAAGTCTTACAGAA
TCATGTCCAGAGGTCTTACATAAT
Found at i:2797282 original size:109 final size:109
Alignment explanation
Indices: 2797052--2797422 Score: 480
Period size: 109 Copynumber: 3.4 Consensus size: 109
2797042 CTTACATAAT
* * *
2797052 TGCCCGGAGGTCTTACAAATCATGTCCGGAGGTCTTATAGAATCGATTGGGATAA-ACTACAAGT
1 TGCCCAGAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGATT-GGATAACACTACAAGT
* * * *
2797116 TAAAAAATAAAGAATCGATCGGGATAACATCGCAAATCGAATTTC
65 CAAAAGATAAAGAATCGATCGGGATAACATCGCGAATCGAATTTA
* * * * *
2797161 TG-CCGGAGGTCTTAGACATCATGCCCGGAGGTCTTACAGAATCGATTAGGATAACATTATAAGT
1 TGCCCAGAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGATT-GGATAACACTACAAGT
2797225 CAAAAGATAAAGAATCGATCGGGATAACATCGCGAATCGAATTTA
65 CAAAAGATAAAGAATCGATCGGGATAACATCGCGAATCGAATTTA
* *
2797270 TGCCC-GAGGTCTTACAAATCATGCCCGAAGGTCTTACAGAATCGATTGGATAACACCACAAGTC
1 TGCCCAGAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGATTGGATAACACTACAAGTC
* * ** * *
2797334 AAAAGATAAAAAAATAGATCGGGATGCCA-CTACGAATCAAATTTA
66 AAAAGAT-AAAGAATCGATCGGGATAACATC-GCGAATCGAATTTA
* *
2797379 TGCCCAGAGGTCTTAGAAATCATGCCCGGAGGTCTTATAGAATC
1 TGCCCAGAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAATC
2797423 ATGCCCGGAG
Statistics
Matches: 231, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
108 69 0.30
109 125 0.54
110 37 0.16
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (109 bp):
TGCCCAGAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAATCGATTGGATAACACTACAAGTC
AAAAGATAAAGAATCGATCGGGATAACATCGCGAATCGAATTTA
Found at i:2797295 original size:21 final size:23
Alignment explanation
Indices: 2797269--2797312 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
2797259 AATCGAATTT
2797269 ATGCCCG-AGGTCTTACA-AATC
1 ATGCCCGAAGGTCTTACAGAATC
2797290 ATGCCCGAAGGTCTTACAGAATC
1 ATGCCCGAAGGTCTTACAGAATC
2797313 GATTGGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (23 bp):
ATGCCCGAAGGTCTTACAGAATC
Found at i:2797371 original size:393 final size:395
Alignment explanation
Indices: 2796683--2797466 Score: 1152
Period size: 393 Copynumber: 2.0 Consensus size: 395
2796673 AAATTTATGC
*
2796683 CCGGAGGTCTTACAGAATCGATTGGGATAAATCGCAAGTAGAAAAATAAAGAATCGATCGAGATA
1 CCGGAGGTCTTACAGAATCGATTGGGATAAATCACAAGTAGAAAAATAAAGAATCGATCGAGATA
* *
2796748 ACATCGCGAATCAAATTTATGCCCGGAGGTCTTAGACATCATGCTCGGAGGTCTTACAGAATCGA
66 ACATCGCAAATCAAATTTATGCCCGGAGGTCTTAGACATCATGCCCGGAGGTCTTACAGAATCGA
*
2796813 TTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGGGATAAAATCACGAATCGAATTTAC
131 TTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGGGATAAAATCACGAATCGAATTTAC
* * *
2796878 ACCCGGAGGTCTTAGAAATCATGCCGGAGGTCTTATAGAATCAACTGGGATAACACCACAAGTCA
196 ACCCGGAGGTCTTACAAATCATGCCGAAGGTCTTACAGAATCAACTGGGATAACACCACAAGTCA
* *
2796943 AAAGATAAAGAATCGATCAGGATAACACCACGAATCGAAA-TTATGCCC-GAAGGTCTTAGAAAT
261 AAAGATAAAAAATAGATCAGGATAACACCACGAATC-AAATTTATGCCCAG-AGGTCTTAGAAAT
* * *
2797006 CATGCTCGAAAGTCTTATAGAATCATGTCCAGAGGTCTTACATAAT-TGCCCGGAGGTCTTACAA
324 CATGCCCGAAAGTCTTATAGAATCATGCCCAGAGGTCTTACAGAATATGCCCGGAGGTCTTACAA
2797070 ATCATGT
389 ATCATGT
* *
2797077 CCGGAGGTCTTATAGAATCGATTGGGATAAA-CTACAAGTTA-AAAAATAAAGAATCGATCGGGA
1 CCGGAGGTCTTACAGAATCGATTGGGATAAATC-ACAAG-TAGAAAAATAAAGAATCGATCGAGA
* *
2797140 TAACATCGCAAATCGAATTTCTG-CCGGAGGTCTTAGACATCATGCCCGGAGGTCTTACAGAATC
64 TAACATCGCAAATCAAATTTATGCCCGGAGGTCTTAGACATCATGCCCGGAGGTCTTACAGAATC
** * * *
2797204 GATTAGGATAACATTATAAGTCAAAAGATAAAGAATCGATCGGGATAACATCGCGAATCGAATTT
129 GATTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGGGATAAAATCACGAATCGAATTT
** * *
2797269 ATGCCC-GAGGTCTTACAAATCATGCCCGAAGGTCTTACAGAATCGA-TTGGATAACACCACAAG
194 ACACCCGGAGGTCTTACAAATCATG-CCGAAGGTCTTACAGAATCAACTGGGATAACACCACAAG
* ** *
2797332 TCAAAAGATAAAAAAATAGATCGGGATGCCACTACGAATCAAATTTATGCCCAGAGGTCTTAGAA
258 TCAAAAGAT-AAAAAATAGATCAGGATAACACCACGAATCAAATTTATGCCCAGAGGTCTTAGAA
* * * * *
2797397 ATCATGCCCGGAGGTCTTATAGAATCATGCCCGGAGGTCTTACAGATTATGTCCGGAGGTCTTAC
322 ATCATGCCCGAAAGTCTTATAGAATCATGCCCAGAGGTCTTACAGAATATGCCCGGAGGTCTTAC
2797462 AAATC
387 AAATC
2797467 TCAAAATCTT
Statistics
Matches: 349, Mismatches: 34, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
392 45 0.13
393 206 0.59
394 96 0.28
395 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (395 bp):
CCGGAGGTCTTACAGAATCGATTGGGATAAATCACAAGTAGAAAAATAAAGAATCGATCGAGATA
ACATCGCAAATCAAATTTATGCCCGGAGGTCTTAGACATCATGCCCGGAGGTCTTACAGAATCGA
TTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGGGATAAAATCACGAATCGAATTTAC
ACCCGGAGGTCTTACAAATCATGCCGAAGGTCTTACAGAATCAACTGGGATAACACCACAAGTCA
AAAGATAAAAAATAGATCAGGATAACACCACGAATCAAATTTATGCCCAGAGGTCTTAGAAATCA
TGCCCGAAAGTCTTATAGAATCATGCCCAGAGGTCTTACAGAATATGCCCGGAGGTCTTACAAAT
CATGT
Found at i:2797403 original size:22 final size:22
Alignment explanation
Indices: 2797378--2797466 Score: 115
Period size: 22 Copynumber: 4.0 Consensus size: 22
2797368 AATCAAATTT
* *
2797378 ATGCCCAGAGGTCTTAGAAATC
1 ATGCCCGGAGGTCTTACAAATC
*
2797400 ATGCCCGGAGGTCTTATAGAATC
1 ATGCCCGGAGGTCTTACA-AATC
* *
2797423 ATGCCCGGAGGTCTTACAGATT
1 ATGCCCGGAGGTCTTACAAATC
*
2797445 ATGTCCGGAGGTCTTACAAATC
1 ATGCCCGGAGGTCTTACAAATC
2797467 TCAAAATCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
22 37 0.64
23 21 0.36
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (22 bp):
ATGCCCGGAGGTCTTACAAATC
Found at i:2799373 original size:11 final size:11
Alignment explanation
Indices: 2799350--2799406 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
2799340 TAAAGATGTC
2799350 TCTTTTATTTTT
1 TCTTTT-TTTTT
*
2799362 TTTTCTTTTTTT
1 TCTT-TTTTTTT
*
2799374 TCTCTTTTTTT
1 TCTTTTTTTTT
*
2799385 TATTTTTTTTT
1 TCTTTTTTTTT
*
2799396 GCTTTTTTTTT
1 TCTTTTTTTTT
2799407 GTTTTTTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
11 25 0.68
12 10 0.27
13 2 0.05
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.86
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:2799386 original size:30 final size:30
Alignment explanation
Indices: 2799352--2799414 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
2799342 AAGATGTCTC
2799352 TTTTATTTTTTTTT-CTTTTTTTTCTCTTTT
1 TTTTATTTTTTTTTGCTTTTTTTT-TCTTTT
*
2799382 TTTTATTTTTTTTTGCTTTTTTTTTGTTTT
1 TTTTATTTTTTTTTGCTTTTTTTTTCTTTT
2799412 TTT
1 TTT
2799415 ATGCCCCATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.87
Consensus pattern (30 bp):
TTTTATTTTTTTTTGCTTTTTTTTTCTTTT
Found at i:2799407 original size:11 final size:10
Alignment explanation
Indices: 2799352--2799414 Score: 74
Period size: 10 Copynumber: 6.2 Consensus size: 10
2799342 AAGATGTCTC
*
2799352 TTTTATTTTT
1 TTTTCTTTTT
2799362 TTTTCTTTTT
1 TTTTCTTTTT
2799372 TTTCTCTTTTT
1 TTT-TCTTTTT
2799383 TTTAT-TTTTT
1 TTT-TCTTTTT
*
2799393 TTTGCTTTTT
1 TTTTCTTTTT
*
2799403 TTTTGTTTTT
1 TTTTCTTTTT
2799413 TT
1 TT
2799415 ATGCCCCATC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
10 35 0.76
11 11 0.24
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.87
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:2799430 original size:1 final size:1
Alignment explanation
Indices: 2799352--2799414 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
2799342 AAGATGTCTC
* * * * * ** *
2799352 TTTTATTTTTTTTTCTTTTTTTTCTCTTTTTTTTATTTTTTTTTGCTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2799415 ATGCCCCATC
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.87
Consensus pattern (1 bp):
T
Found at i:2801711 original size:35 final size:33
Alignment explanation
Indices: 2801625--2801702 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
2801615 ACACAATGGT
*
2801625 GTCTCGACAACTATTTTCTCTCTTGTCCTGTGC
1 GTCTCAACAACTATTTTCTCTCTTGTCCTGTGC
2801658 GTCTCAACAACTATTTTCTCTCTTGTCCTGTGC
1 GTCTCAACAACTATTTTCTCTCTTGTCCTGTGC
*
2801691 GTCTCAATAACT
1 GTCTCAACAACT
2801703 CCTTTTTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.17, C:0.29, G:0.13, T:0.41
Consensus pattern (33 bp):
GTCTCAACAACTATTTTCTCTCTTGTCCTGTGC
Found at i:2806056 original size:14 final size:14
Alignment explanation
Indices: 2806015--2806065 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
2806005 TTAGGATTTT
2806015 GGTTTT-AGAGTTTG
1 GGTTTTAAG-GTTTG
*
2806029 GAGATTTTAGGGTTTG
1 G-G-TTTTAAGGTTTG
2806045 GGTTTTAAGGTTTGG
1 GGTTTTAAGGTTT-G
2806060 GGTTTT
1 GGTTTT
2806066 GATTTAAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 11 0.35
15 9 0.29
16 10 0.32
17 1 0.03
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (14 bp):
GGTTTTAAGGTTTG
Found at i:2806076 original size:15 final size:15
Alignment explanation
Indices: 2806058--2806110 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
2806048 TTTAAGGTTT
*
2806058 GGGGTTTTGATTTAA
1 GGGGTTTTGATTTTA
*
2806073 GGGGTTTAGATTTTA
1 GGGGTTTTGATTTTA
*
2806088 GGGATTTTGGATTTTA
1 GGGGTTTT-GATTTTA
2806104 GGGGTTT
1 GGGGTTT
2806111 AAGAACTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (15 bp):
GGGGTTTTGATTTTA
Found at i:2806124 original size:31 final size:31
Alignment explanation
Indices: 2806062--2806127 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
2806052 AGGTTTGGGG
**
2806062 TTTT-GATTTAAGGGGTTTAGATTTTAGGGA
1 TTTTGGATTTAAGGGGTTTAGAACTTAGGGA
*
2806092 TTTTGGATTTTAGGGGTTTAAGAACTTA-GGA
1 TTTTGGATTTAAGGGGTTT-AGAACTTAGGGA
2806123 TTTTG
1 TTTTG
2806128 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.13
31 21 0.68
32 6 0.19
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.47
Consensus pattern (31 bp):
TTTTGGATTTAAGGGGTTTAGAACTTAGGGA
Found at i:2807109 original size:13 final size:12
Alignment explanation
Indices: 2807091--2807123 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
2807081 AAGCTTTCGA
2807091 TTTCTTTTCTTTT
1 TTTCTTTT-TTTT
2807104 TTTCTTTTTTTT
1 TTTCTTTTTTTT
2807116 TTT-TTTTT
1 TTTCTTTTT
2807124 GAGAAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 7 0.35
13 8 0.40
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:2807624 original size:18 final size:19
Alignment explanation
Indices: 2807601--2807638 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
2807591 ATTTTTTCTC
2807601 TTTTTTT-GTTAC-TTTTT
1 TTTTTTTCGTTACATTTTT
*
2807618 TTTTTTTCGTTTCATTTTT
1 TTTTTTTCGTTACATTTTT
2807637 TT
1 TT
2807639 ATATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTTTTCGTTACATTTTT
Found at i:2807666 original size:29 final size:28
Alignment explanation
Indices: 2807633--2807689 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
2807623 TTCGTTTCAT
* *
2807633 TTTTTTATATTTTTATATAATTAATAATTA
1 TTTTTAATATTATTAT-T-ATTAATAATTA
2807663 TTTTTAAATATTATTATTATTAATAAT
1 TTTTT-AATATTATTATTATTAATAAT
2807690 ATTATCATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.38
30 6 0.25
31 9 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTAATATTATTATTATTAATAATTA
Found at i:2807692 original size:15 final size:15
Alignment explanation
Indices: 2807639--2807700 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
2807629 TCATTTTTTT
*
2807639 ATATTTTTATATAATTA
1 ATATTATTAT-TAA-TA
*
2807656 ATAATTATTTTTAAATA
1 AT-ATTATTATT-AATA
*
2807673 TTATTATTATTAATA
1 ATATTATTATTAATA
*
2807688 ATATTATCATTAA
1 ATATTATTATTAA
2807701 AATTAAAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 15 0.41
16 8 0.22
17 6 0.16
18 8 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTATTAATA
Found at i:2810058 original size:19 final size:18
Alignment explanation
Indices: 2810045--2810082 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2810035 ATAAAATTAA
2810045 AAAATTAATTTAAAAAAT
1 AAAATTAATTTAAAAAAT
*
2810063 AAAAATAATTTAAACAAAT
1 AAAATTAATTTAAA-AAAT
2810082 A
1 A
2810083 TTCACCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTAATTTAAAAAAT
Found at i:2810071 original size:18 final size:20
Alignment explanation
Indices: 2810044--2810082 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
2810034 TATAAAATTA
2810044 AAAAATTAATTTAAA-AAAT
1 AAAAATTAATTTAAACAAAT
2810063 AAAAA-TAATTTAAACAAAT
1 AAAAATTAATTTAAACAAAT
2810082 A
1 A
2810083 TTCACCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAATTAATTTAAACAAAT
Found at i:2811057 original size:31 final size:29
Alignment explanation
Indices: 2811022--2811084 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
2811012 TGTATCATAG
2811022 TTTATGTCTATAAAAATATATATATAATTTT
1 TTTAT-TCTATAAAAAT-TATATATAATTTT
* * * *
2811053 TTTATTTTATTAAACTTATTTATAATTTT
1 TTTATTCTATAAAAATTATATATAATTTT
2811082 TTT
1 TTT
2811085 TAATTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 15 0.54
30 8 0.29
31 5 0.18
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTATTCTATAAAAATTATATATAATTTT
Found at i:2812613 original size:148 final size:148
Alignment explanation
Indices: 2812345--2812636 Score: 575
Period size: 148 Copynumber: 2.0 Consensus size: 148
2812335 TCCGGACCCG
2812345 GATCCGAACCCCATAAGCTTTGCATAGACGACATGTTACAAATATACTGCGGAGAATTCGGGTCC
1 GATCCGAACCCCATAAGCTTTGCATAGACGACATGTTACAAATATACTGCGGAGAATTCGGGTCC
2812410 TGGCAATTCAGACACTTTGTTTTAACAAGCCTCGCACGGGCTCTAGAAGCTTTCCATACCATGGT
66 TGGCAATTCAGACACTTTGTTTTAACAAGCCTCGCACGGGCTCTAGAAGCTTTCCATACCATGGT
2812475 CATGATATTTGCAGGTCA
131 CATGATATTTGCAGGTCA
2812493 GATCCGAACCCCATAAGCTTTGCATAGACGACATGTTACAAATATACTGCGGAGAATTCGGGTCC
1 GATCCGAACCCCATAAGCTTTGCATAGACGACATGTTACAAATATACTGCGGAGAATTCGGGTCC
*
2812558 TGGCAATTGAGACACTTTGTTTTAACAAGCCTCGCACGGGCTCTAGAAGCTTTCCATACCATGGT
66 TGGCAATTCAGACACTTTGTTTTAACAAGCCTCGCACGGGCTCTAGAAGCTTTCCATACCATGGT
2812623 CATGATATTTGCAG
131 CATGATATTTGCAG
2812637 ACCAGGAACC
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 143 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (148 bp):
GATCCGAACCCCATAAGCTTTGCATAGACGACATGTTACAAATATACTGCGGAGAATTCGGGTCC
TGGCAATTCAGACACTTTGTTTTAACAAGCCTCGCACGGGCTCTAGAAGCTTTCCATACCATGGT
CATGATATTTGCAGGTCA
Found at i:2814271 original size:18 final size:18
Alignment explanation
Indices: 2814248--2814304 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
2814238 ATAATTAATA
2814248 TTTTTAATGATCATTTAT
1 TTTTTAATGATCATTTAT
*
2814266 TTTTTAAT--TCTTTTAAT
1 TTTTTAATGATCATTT-AT
*
2814283 ATTTTTAATGATAATTTAT
1 -TTTTTAATGATCATTTAT
2814302 TTT
1 TTT
2814305 AACGGTCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
18 19 0.59
19 2 0.06
20 4 0.12
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTTTAATGATCATTTAT
Found at i:2814412 original size:39 final size:44
Alignment explanation
Indices: 2814336--2814418 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 44
2814326 AAACATATAT
*
2814336 TTTATTATTATTTTTAATCTCATCACTATAATAATTAATTTCACA
1 TTTATTATTATTTTTAATCT-ATCACTATAATAATTAATCTCACA
2814381 TTTATTATTATTTTTAAT-T-TCA-TA-AAT-ATTAATCTCAC
1 TTTATTATTATTTTTAATCTATCACTATAATAATTAATCTCAC
2814419 TATTCATCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
39 10 0.27
40 3 0.08
41 2 0.05
42 3 0.08
44 1 0.03
45 18 0.49
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (44 bp):
TTTATTATTATTTTTAATCTATCACTATAATAATTAATCTCACA
Found at i:2815834 original size:8 final size:8
Alignment explanation
Indices: 2815823--2815870 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
2815813 TTAATTCTAA
2815823 AATTTTTT
1 AATTTTTT
2815831 AATTTTTT
1 AATTTTTT
*
2815839 ATGTTTTTTT
1 A--ATTTTTT
2815849 AA-TTTTT
1 AATTTTTT
*
2815856 AATTTGTT
1 AATTTTTT
2815864 AATTTTT
1 AATTTTT
2815871 GTTTGTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 7 0.21
8 19 0.58
10 7 0.21
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (8 bp):
AATTTTTT
Found at i:2816952 original size:9 final size:9
Alignment explanation
Indices: 2816867--2816949 Score: 80
Period size: 9 Copynumber: 9.2 Consensus size: 9
2816857 TTTCGAACAA
2816867 AAAAATAAT
1 AAAAATAAT
*
2816876 -AAAATAAAA
1 AAAAAT-AAT
*
2816885 ATAAAATAAC
1 A-AAAATAAT
*
2816895 GAAAATAA-
1 AAAAATAAT
*
2816903 AAAAATTAT
1 AAAAATAAT
*
2816912 AAAAATTAT
1 AAAAATAAT
2816921 AAAAATAAT
1 AAAAATAAT
2816930 AAAAATAAT
1 AAAAATAAT
*
2816939 AATAATAAT
1 AAAAATAAT
2816948 AA
1 AA
2816950 TAAAAAATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
8 11 0.17
9 45 0.71
10 2 0.03
11 5 0.08
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (9 bp):
AAAAATAAT
Found at i:2816983 original size:12 final size:13
Alignment explanation
Indices: 2816952--2816981 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2816942 AATAATAATA
2816952 AAAAATTAAAACT
1 AAAAATTAAAACT
2816965 AAAAATTAAAACT
1 AAAAATTAAAACT
2816978 AAAA
1 AAAA
2816982 TTGGGCTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATTAAAACT
Found at i:2817252 original size:39 final size:39
Alignment explanation
Indices: 2817197--2817302 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 39
2817187 AACTCCTCCA
* * *
2817197 AATAGAAGCAATAGACTTTAAAAATAAATG-GTTCCTCTG
1 AATAGAGGCAACAGACTTTAAAAATAAATGACTT-CTCTG
*
2817236 AATAGAGGCAACAGACTTTGAAAATAAATGACTTCTCTG
1 AATAGAGGCAACAGACTTTAAAAATAAATGACTTCTCTG
2817275 AATAGAGGCAAC-GAACTTTGAAAAATAA
1 AATAGAGGCAACAG-ACTTT-AAAAATAA
2817303 CGAACTTTGA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 1 0.02
39 49 0.83
40 9 0.15
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (39 bp):
AATAGAGGCAACAGACTTTAAAAATAAATGACTTCTCTG
Found at i:2817306 original size:17 final size:17
Alignment explanation
Indices: 2817284--2817319 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2817274 GAATAGAGGC
2817284 AACGAACTTTGAAAAAT
1 AACGAACTTTGAAAAAT
2817301 AACGAACTTTGAAAAAT
1 AACGAACTTTGAAAAAT
2817318 AA
1 AA
2817320 ATGGCTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (17 bp):
AACGAACTTTGAAAAAT
Found at i:2817322 original size:57 final size:56
Alignment explanation
Indices: 2817250--2817359 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 56
2817240 GAGGCAACAG
*
2817250 ACTTTGAAAATAAATGACTTC-TCTGAATAGAGGCAACGAACTTTGAAAAATAACGA
1 ACTTTGAAAATAAATGAC-TCATCTGAATAAAGGCAACGAACTTTGAAAAATAACGA
* * * *
2817306 ACTTTGAAAAATAAATGGCTCATTTGAATAAAGGCAATGGACTTTGAAAAATAA
1 ACTTTG-AAAATAAATGACTCATCTGAATAAAGGCAACGAACTTTGAAAAATAA
2817360 ATGGCTCCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 8 0.17
57 39 0.83
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.26
Consensus pattern (56 bp):
ACTTTGAAAATAAATGACTCATCTGAATAAAGGCAACGAACTTTGAAAAATAACGA
Found at i:2817333 original size:20 final size:19
Alignment explanation
Indices: 2817307--2817366 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
2817297 AAATAACGAA
2817307 CTTTGAAAAATAAATGGCT
1 CTTTGAAAAATAAATGGCT
** *
2817326 CATTTGAATAAAGGCAATGG-A
1 C-TTTGAA-AAA-TAAATGGCT
2817347 CTTTGAAAAATAAATGGCT
1 CTTTGAAAAATAAATGGCT
2817366 C
1 C
2817367 CTCTGAATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 12 0.39
21 4 0.13
22 5 0.16
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (19 bp):
CTTTGAAAAATAAATGGCT
Found at i:2817351 original size:40 final size:40
Alignment explanation
Indices: 2817301--2817400 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
2817291 TTTGAAAAAT
* *
2817301 AACGAACTTTGAAAAATAAATGGCTCATTTGAATAAAGGC
1 AACGGACTTTGAAAAATAAATGGCTCATCTGAATAAAGGC
* * *
2817341 AATGGACTTTGAAAAATAAATGGCTCCTCTGAATAGAGGC
1 AACGGACTTTGAAAAATAAATGGCTCATCTGAATAAAGGC
*
2817381 AACGGACTTTG-AGAATAAAT
1 AACGGACTTTGAAAAATAAAT
2817401 AAATACTCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 8 0.15
40 45 0.85
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (40 bp):
AACGGACTTTGAAAAATAAATGGCTCATCTGAATAAAGGC
Found at i:2818411 original size:9 final size:10
Alignment explanation
Indices: 2818398--2818450 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 10
2818388 CCTTTTTCAT
2818398 TTTTTTTTTA
1 TTTTTTTTTA
2818408 TTTTTTTTTA
1 TTTTTTTTTA
2818418 TTTTTCATTTTGTA
1 -TTTT--TTTT-TA
*
2818432 TTTTTTCTTTC
1 TTTTTT-TTTA
2818443 TTTTTTTT
1 TTTTTTTT
2818451 AAGCATAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
10 12 0.32
11 13 0.35
12 2 0.05
13 8 0.22
14 2 0.05
ACGTcount: A:0.08, C:0.06, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:2818449 original size:28 final size:28
Alignment explanation
Indices: 2818390--2818450 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
2818380 TGAGTCTTCC
* *
2818390 TTTTTCATTTTTTTTTTATTTTTTTTTA
1 TTTTTCATTTTTTTTTTATCTTTCTTTA
2818418 TTTTTCATTTTGTATTTTT-TCTTTCTTT-
1 TTTTTCATTTT-T-TTTTTATCTTTCTTTA
2818446 TTTTT
1 TTTTT
2818451 AAGCATAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 16 0.55
29 8 0.28
30 5 0.17
ACGTcount: A:0.08, C:0.07, G:0.02, T:0.84
Consensus pattern (28 bp):
TTTTTCATTTTTTTTTTATCTTTCTTTA
Found at i:2826132 original size:16 final size:16
Alignment explanation
Indices: 2826113--2826144 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2826103 TTTATATATA
*
2826113 TATTTTTTTTTTGTTT
1 TATTTTTTTTTGGTTT
2826129 TATTTTTTTTTGGTTT
1 TATTTTTTTTTGGTTT
2826145 GAAAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.84
Consensus pattern (16 bp):
TATTTTTTTTTGGTTT
Found at i:2827094 original size:3 final size:3
Alignment explanation
Indices: 2827086--2827175 Score: 69
Period size: 3 Copynumber: 30.7 Consensus size: 3
2827076 TCGGACCAAA
* ** * * * *
2827086 AAT AAT AAT AAT AA- AAT AAA AAT AA- AAT AGC AAA AAT AAG AAA AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
2827132 AAT CAAA AAT AA- AAT AAT AAT AAT AAT AAT AAT TAT AAT AAT AA
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2827176 ATTAAAATTA
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.09
3 61 0.88
4 2 0.03
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:2827141 original size:7 final size:6
Alignment explanation
Indices: 2827083--2827200 Score: 60
Period size: 6 Copynumber: 18.5 Consensus size: 6
2827073 ATTTCGGACC
* *
2827083 AAAAAT AATAAT AATAAAAT AAAAAT AAAATAGC AAAAAT AAGAAA- AAAAAT
1 AAAAAT AAAAAT -A-AAAAT AAAAAT AAAA-A-T AAAAAT AA-AAAT AAAAAT
* * * * * *
2827135 CAAAAAT -AAAAT AATAAT AATAAT AATAAT TATAAT AATAAATT AAAATT
1 -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAA-T AAAAAT
*
2827185 AAAAATT AAAACT AAA
1 AAAAA-T AAAAAT AAA
2827201 TTTGGGCCAG
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
5 8 0.09
6 49 0.54
7 22 0.24
8 11 0.12
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:2827144 original size:33 final size:34
Alignment explanation
Indices: 2827082--2827183 Score: 100
Period size: 33 Copynumber: 2.9 Consensus size: 34
2827072 AATTTCGGAC
*
2827082 CAAAAATAATAATAATAAAATAAAAATAAAATAG
1 CAAAAATAAGAATAATAAAATAAAAATAAAATAG
*
2827116 CAAAAATAAGAA-AA-AAAATCAAAAATAAAATAA
1 CAAAAATAAGAATAATAAAAT-AAAAATAAAATAG
* * * *
2827149 TAATAATAATAATAATTATAATAATAAATTAAAAT
1 CAAAAATAAGAATAA-TAAAATAA-AAA-TAAAAT
2827184 TAAAAATTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
32 5 0.09
33 23 0.41
34 13 0.23
35 2 0.04
36 7 0.12
37 6 0.11
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.24
Consensus pattern (34 bp):
CAAAAATAAGAATAATAAAATAAAAATAAAATAG
Found at i:2828031 original size:35 final size:35
Alignment explanation
Indices: 2827992--2828103 Score: 125
Period size: 35 Copynumber: 3.1 Consensus size: 35
2827982 CTAGCAACCC
* * *
2827992 TATATCTAATTATACAATTAATAATATAAATCATG
1 TATATATAATCATACAATTAACAATATAAATCATG
*
2828027 TATATATAATCATACAATTAACAATATAAATCATACAAA
1 TATATATAATCATACAATTAACAATATAAATCAT----G
* *
2828066 TAAATAATAATCATGCAATTAACAATATAAATCATG
1 TATAT-ATAATCATACAATTAACAATATAAATCATG
2828102 TA
1 TA
2828104 ATTAATAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
35 31 0.48
36 2 0.03
39 4 0.06
40 28 0.43
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (35 bp):
TATATATAATCATACAATTAACAATATAAATCATG
Found at i:2828137 original size:82 final size:80
Alignment explanation
Indices: 2828006--2828416 Score: 238
Period size: 82 Copynumber: 5.2 Consensus size: 80
2827996 TCTAATTATA
**
2828006 CAATTAATAATATAAATCATG---T-AT-ATAT-AATCATACAATTAACA-ATATAAATCATACA
1 CAATTAA-AATATAAATCATGCAATAATAATATAAATCATGTAATTAA-ATATATAAATCATACA
2828064 AATAAATAATAATCATG
64 AATAAATAATAATCATG
* *
2828081 CAATTAACAATATAAATCATGTAATTAATAATATAAATCATGTAATTAAATATAT-AATTATACA
1 CAATTAA-AATATAAATCATGCAA-TAATAATATAAATCATGTAATTAAATATATAAATCATACA
*
2828145 AAT-AACAAT-AT-A--
64 AATAAATAATAATCATG
* * ** ** * *
2828157 AAATAAATAAT-TAAAT-ATATAATAATGCTGAT-AATTATGTAATCAAATATAT-AATCATAC-
1 CAATTAA-AATATAAATCATGCAATAATAAT-ATAAATCATGTAATTAAATATATAAATCATACA
* *
2828217 AATAAACAATATAAAACATG
64 AATAAA-TA-AT-AATCATG
* * * * * **
2828237 TAATT-AAATATATAATCGTGCACATAATAATATAAATCAAGCAATTAAATATATATAATTATGT
1 CAATTAAAATATA-AATCATGCA-ATAATAATATAAATCATGTAATTAAATATATA-AATCATAC
** *
2828301 AAATAACA-AGCAATCAAG
63 AAATAA-ATAATAATCATG
**
2828319 CAATT-AAATATATAATCATGCAAATAATAATATAAATCAAATAATTAAATATATATAATCATAC
1 CAATTAAAATATA-AATCATGC-AATAATAATATAAATCATGTAATTAAATATATA-AATCATAC
2828383 -AAT-AATAATATAAATCATG
63 AAATAAAT-A-AT-AATCATG
2828402 CAATTAAAAATATAA
1 CAATT-AAAATATAA
2828417 CCATACAATT
Statistics
Matches: 259, Mismatches: 44, Indels: 57
0.72 0.12 0.16
Matches are distributed among these distances:
72 3 0.01
73 32 0.12
74 8 0.03
75 27 0.10
76 8 0.03
77 1 0.00
78 5 0.02
79 7 0.03
80 14 0.05
81 24 0.09
82 98 0.38
83 12 0.05
84 7 0.03
85 12 0.05
86 1 0.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (80 bp):
CAATTAAAATATAAATCATGCAATAATAATATAAATCATGTAATTAAATATATAAATCATACAAA
TAAATAATAATCATG
Found at i:2828169 original size:62 final size:60
Alignment explanation
Indices: 2828028--2828178 Score: 151
Period size: 62 Copynumber: 2.4 Consensus size: 60
2828018 TAAATCATGT
* * * *
2828028 ATATATAATCATACAATTAACAATATAAATCATACAAATAAATAATAATCATGCAATTAACA
1 ATATA-AATCAAATAATTAA-AATATAAATCATACAAATAAATAATAATCATACAAATAACA
** ** * *
2828090 ATATAAATCATGTAATTAATAATATAAATCATGTAATTAAATATATAATTATACAAATAACA
1 ATATAAATCAAATAATTAA-AATATAAATCATACAAATAAATA-ATAATCATACAAATAACA
2828152 ATATAAAAT-AAATAATTAAATATATAA
1 ATAT-AAATCAAATAATTAAA-ATATAA
2828179 TAATGCTGAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
61 33 0.44
62 38 0.51
63 4 0.05
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (60 bp):
ATATAAATCAAATAATTAAAATATAAATCATACAAATAAATAATAATCATACAAATAACA
Found at i:2828246 original size:41 final size:40
Alignment explanation
Indices: 2828201--2828425 Score: 204
Period size: 41 Copynumber: 5.5 Consensus size: 40
2828191 TTATGTAATC
* * * *
2828201 AAATATATAATCATACAATAAACAATATAAAACATGTAATT
1 AAATATATAATCATACAAT-AATAATATAAATCAAGCAATT
* *
2828242 AAATATATAATCGTGCACATAATAATATAAATCAAGCAATT
1 AAATATATAATCATACA-ATAATAATATAAATCAAGCAATT
* * **
2828283 AAATATATATAATTATGTA-AATAA-CA-AGCAATCAAGCAATT
1 -AA-ATATATAATCA--TACAATAATAATATAAATCAAGCAATT
* **
2828324 AAATATATAATCATGCAAATAATAATATAAATCAAATAATT
1 AAATATATAATCATAC-AATAATAATATAAATCAAGCAATT
*
2828365 AAATATATATAATCATACAATAATAATATAAATCATGCAATT
1 -AA-ATATATAATCATACAATAATAATATAAATCAAGCAATT
* *
2828407 AAAAATATAACCATACAAT
1 AAATATATAATCATACAAT
2828426 TAAAACATGC
Statistics
Matches: 148, Mismatches: 25, Indels: 23
0.76 0.13 0.12
Matches are distributed among these distances:
37 1 0.01
39 15 0.10
40 18 0.12
41 58 0.39
42 28 0.19
43 26 0.18
44 1 0.01
45 1 0.01
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (40 bp):
AAATATATAATCATACAATAATAATATAAATCAAGCAATT
Found at i:2828264 original size:73 final size:73
Alignment explanation
Indices: 2828120--2828264 Score: 193
Period size: 73 Copynumber: 2.0 Consensus size: 73
2828110 AATATAAATC
* * *
2828120 ATGTAATTAAATATATAATTATACAAATAACAATATAAAATAAATAATTAAATATATAATAATGC
1 ATGTAATCAAATATATAATCATACAAATAACAATATAAAACAAATAATTAAATATATAATAATGC
**
2828185 TGATAATT
66 ACATAATT
** **
2828193 ATGTAATCAAATATATAATCATAC-AATAAACAATATAAAACATGTAATTAAATATATAATCGTG
1 ATGTAATCAAATATATAATCATACAAAT-AACAATATAAAACAAATAATTAAATATATAATAATG
2828257 CACATAAT
65 CACATAAT
2828265 AATATAAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 3 0.05
73 59 0.95
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (73 bp):
ATGTAATCAAATATATAATCATACAAATAACAATATAAAACAAATAATTAAATATATAATAATGC
ACATAATT
Found at i:2828430 original size:20 final size:20
Alignment explanation
Indices: 2828030--2828430 Score: 121
Period size: 21 Copynumber: 20.0 Consensus size: 20
2828020 AATCATGTAT
*
2828030 ATATAATCATACAATTAACA
1 ATATAATCATACAATTAAAA
* *
2828050 ATATAAATCATACAAATAAAT
1 ATAT-AATCATACAATTAAAA
* *
2828071 A-ATAATCATGCAATTAACA
1 ATATAATCATACAATTAAAA
** *
2828090 ATATAAATCATGTAATTAATA
1 ATAT-AATCATACAATTAAAA
** *
2828111 ATATAAATCATGTAATTAAAT
1 ATAT-AATCATACAATTAAAA
* * *
2828132 ATATAATTATACAAATAACA
1 ATATAATCATACAATTAAAA
*
2828152 ATATAA-AATA-AA-T--AA
1 ATATAATCATACAATTAAAA
* * **
2828167 TTA-AAT-ATATAA-TAATG
1 ATATAATCATACAATTAAAA
* * ** * *
2828184 CTGATAATTATGTAATCAAAT
1 AT-ATAATCATACAATTAAAA
2828205 ATATAATCATACAA-TAAACA
1 ATATAATCATACAATTAAA-A
* ** *
2828225 ATATAAAACATGTAATTAAAT
1 ATAT-AATCATACAATTAAAA
* * *
2828246 ATATAATCGTGCACA-TAATA
1 ATATAATCATACA-ATTAAAA
2828266 ATATAAATCA-AGCAATTAAATA
1 ATAT-AATCATA-CAATTAAA-A
* ** * *
2828288 TATATAATTATGTAAATAACA
1 -ATATAATCATACAATTAAAA
** *
2828309 A-GCAATCA-AGCAATTAAAT
1 ATATAATCATA-CAATTAAAA
* * *
2828328 ATATAATCATGCAAATAATA
1 ATATAATCATACAATTAAAA
* *
2828348 ATATAAATCAAATAATTAAATA
1 ATAT-AATCATACAATTAAA-A
*
2828370 TATATAATCATACAA-TAATA
1 -ATATAATCATACAATTAAAA
*
2828390 ATATAAATCATGCAATTAAAA
1 ATAT-AATCATACAATTAAAA
*
2828411 ATATAACCATACAATTAAAA
1 ATATAATCATACAATTAAAA
2828431 CATGCAATTA
Statistics
Matches: 276, Mismatches: 76, Indels: 58
0.67 0.19 0.14
Matches are distributed among these distances:
14 5 0.02
15 6 0.02
17 2 0.01
18 3 0.01
19 36 0.13
20 96 0.35
21 97 0.35
22 23 0.08
23 8 0.03
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (20 bp):
ATATAATCATACAATTAAAA
Found at i:2828892 original size:12 final size:12
Alignment explanation
Indices: 2828875--2828901 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2828865 TTTAATTAAA
2828875 TTTAAATTTTAT
1 TTTAAATTTTAT
2828887 TTTAAATTTTAT
1 TTTAAATTTTAT
2828899 TTT
1 TTT
2828902 TGTGTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTAAATTTTAT
Found at i:2829103 original size:19 final size:19
Alignment explanation
Indices: 2829079--2829121 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2829069 TTCTTTTGAT
2829079 TAAAAAATAAAAAT-TAAA
1 TAAAAAATAAAAATATAAA
*
2829097 CTAAAAAATTAAAATATAAA
1 -TAAAAAATAAAAATATAAA
2829117 TAAAA
1 TAAAA
2829122 TTTAGGACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
TAAAAAATAAAAATATAAA
Found at i:2829425 original size:57 final size:59
Alignment explanation
Indices: 2829294--2829408 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
2829284 TTGAACAGAA
* * *
2829294 AATGATAGCAAGAAAATGAAAAAGATGAAAGAGCCGCCCCAAGAATAACTCAATGCCCC
1 AATGAAAGCAAGAAAATGAAAAAGAAGAAAGAGACGCCCCAAGAATAACTCAATGCCCC
*
2829353 AATGAAAGCAAGAAAATGAAAAA-AAGAAAGAGAC-CCCCAAGAATAAGTCAA-GCCCC
1 AATGAAAGCAAGAAAATGAAAAAGAAGAAAGAGACGCCCCAAGAATAACTCAATGCCCC
2829409 CATCTAATAC
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 5 0.10
57 16 0.31
58 9 0.17
59 22 0.42
ACGTcount: A:0.51, C:0.21, G:0.18, T:0.10
Consensus pattern (59 bp):
AATGAAAGCAAGAAAATGAAAAAGAAGAAAGAGACGCCCCAAGAATAACTCAATGCCCC
Found at i:2830356 original size:53 final size:53
Alignment explanation
Indices: 2830283--2830385 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 53
2830273 TCCAATTTGG
** * *
2830283 CTTTTATTTATAGTTATTTAATTCAATCATTTCA-CTTTGAATTTTAAATTTAA
1 CTTTTATTTATAACTATTTAATTCAATCACTTCATC-TTAAATTTTAAATTTAA
*
2830336 CTTTTATTTTTAACTATTTAATTCAATCACTTCATCTTAAATTTTAAATT
1 CTTTTATTTATAACTATTTAATTCAATCACTTCATCTTAAATTTTAAATT
2830386 GTATTTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 43 0.98
54 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (53 bp):
CTTTTATTTATAACTATTTAATTCAATCACTTCATCTTAAATTTTAAATTTAA
Found at i:2831947 original size:2 final size:2
Alignment explanation
Indices: 2831940--2831976 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2831930 GAGAAATTCC
* *
2831940 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2831977 GAGTACTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2840033 original size:15 final size:16
Alignment explanation
Indices: 2840013--2840042 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2840003 TACTCTTTGT
2840013 TTTTTTATTT-TTTTA
1 TTTTTTATTTATTTTA
2840028 TTTTTTATTTATTTT
1 TTTTTTATTTATTTT
2840043 TATATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTATTTATTTTA
Found at i:2840062 original size:21 final size:20
Alignment explanation
Indices: 2840036--2840095 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
2840026 TATTTTTTAT
*
2840036 TTATTTTTATATAATTAATAA
1 TTATTTTTATAAAATT-ATAA
* *
2840057 TTATTTTTTTAAAATTATTA
1 TTATTTTTATAAAATTATAA
*
2840077 TTATTATTATTAAAATTAT
1 TTATTTTTA-TAAAATTAT
2840096 TAATATTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTTTTATAAAATTATAA
Done.