Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold509
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: 230775
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:7318 original size:15 final size:15
Alignment explanation
Indices: 7294--7325 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7284 AGTTAAATAT
*
7294 TTAAATTTAAAAAAA
1 TTAAACTTAAAAAAA
7309 TTAAACTTAAAAAAA
1 TTAAACTTAAAAAAA
7324 TT
1 TT
7326 TAAAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAACTTAAAAAAA
Found at i:7323 original size:16 final size:16
Alignment explanation
Indices: 7296--7334 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7286 TTAAATATTT
*
7296 AAATTTAAAAAAATTA
1 AAATTAAAAAAAATTA
* *
7312 AACTTAAAAAAATTTA
1 AAATTAAAAAAAATTA
7328 AAATTAA
1 AAATTAA
7335 TATGACCAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATTAAAAAAAATTA
Found at i:7443 original size:19 final size:20
Alignment explanation
Indices: 7406--7443 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
7396 CGAAACTTAT
*
7406 AAAAACTCGAATTTATAATA
1 AAAAACTCGAAATTATAATA
*
7426 AAAAACTC-AAATTGTAAT
1 AAAAACTCGAAATTATAAT
7444 TACATGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAACTCGAAATTATAATA
Found at i:8729 original size:20 final size:19
Alignment explanation
Indices: 8664--8751 Score: 53
Period size: 20 Copynumber: 4.7 Consensus size: 19
8654 ACACATGTAG
* *
8664 ATGTATCAATACAAGTTGCA
1 ATGTATCGATACAAATTG-A
8684 ATGTATCGATAC--ATT--
1 ATGTATCGATACAAATTGA
*
8699 A--TATCGTTACAAATTGCA
1 ATGTATCGATACAAATTG-A
*
8717 ATGTATCGATACATTATGTGA
1 ATGTATCGATACA-AAT-TGA
*
8738 AAGTATCGATACAA
1 ATGTATCGATACAA
8752 GTCATTGGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
13 8 0.15
15 4 0.08
18 3 0.06
20 20 0.38
21 15 0.29
22 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACAAATTGA
Found at i:8830 original size:21 final size:21
Alignment explanation
Indices: 8798--8855 Score: 84
Period size: 20 Copynumber: 2.8 Consensus size: 21
8788 CATACATAAG
*
8798 ATTGTGTCGATACAATTCCAGA
1 ATTGTATCGATACAATT-CAGA
8820 A-TGTATCGATAC-ATTCAGA
1 ATTGTATCGATACAATTCAGA
8839 ATTGTATCGATACAATT
1 ATTGTATCGATACAATT
8856 AGGCCAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 5 0.15
20 14 0.42
21 13 0.39
22 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACAATTCAGA
Found at i:8844 original size:20 final size:20
Alignment explanation
Indices: 8778--8852 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 20
8768 ACCCCTCAAA
* *
8778 TGTATCGATACATACATAAGAT
1 TGTATCGATACATTCA-GA-AT
*
8800 TGTGTCGATACAATTCCAGAA-
1 TGTATCGATAC-ATT-CAGAAT
8821 TGTATCGATACATTCAGAAT
1 TGTATCGATACATTCAGAAT
8841 TGTATCGATACA
1 TGTATCGATACA
8853 ATTAGGCCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.11
20 15 0.33
21 10 0.22
22 11 0.24
23 3 0.07
24 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATTCAGAAT
Found at i:8854 original size:41 final size:43
Alignment explanation
Indices: 8776--8855 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
8766 CTACCCCTCA
*
8776 AATGTATCGATACATACATAAGATTGTGTCGATACAATTCCAG
1 AATGTATCGATACATACATAAGATTGTATCGATACAATTCCAG
* *
8819 AATGTATCGATACATTCA-GA-ATTGTATCGATACAATT
1 AATGTATCGATACATACATAAGATTGTATCGATACAATT
8856 AGGCCAACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 16 0.47
42 1 0.03
43 17 0.50
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (43 bp):
AATGTATCGATACATACATAAGATTGTATCGATACAATTCCAG
Found at i:8906 original size:20 final size:22
Alignment explanation
Indices: 8871--8913 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
8861 AACGGCTATA
8871 ATTTTAAATATAATGTATCGAT
1 ATTTTAAATATAATGTATCGAT
*
8893 ATTTT-AAT-TAATGTATTGAT
1 ATTTTAAATATAATGTATCGAT
8913 A
1 A
8914 CAATGATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 3 0.15
22 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTTTAAATATAATGTATCGAT
Found at i:12607 original size:18 final size:17
Alignment explanation
Indices: 12584--12626 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
12574 AGTTAATTAA
*
12584 ATTAAAACGTATGTAAAT
1 ATTAAAAAGTAT-TAAAT
12602 ATTAAATAAGTATTAAAT
1 ATTAAA-AAGTATTAAAT
12620 A-TAAAAA
1 ATTAAAAA
12627 ATACATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 4 0.17
18 12 0.52
19 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (17 bp):
ATTAAAAAGTATTAAAT
Found at i:13914 original size:13 final size:13
Alignment explanation
Indices: 13896--13920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13886 TTCAACAATT
13896 TGTATCGATACAA
1 TGTATCGATACAA
13909 TGTATCGATACA
1 TGTATCGATACA
13921 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:20280 original size:22 final size:19
Alignment explanation
Indices: 20249--20290 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
20239 TATTTTTATT
20249 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAA-ATA
20270 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
20290 T
1 T
20291 TTTTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:21170 original size:2 final size:2
Alignment explanation
Indices: 21163--21192 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21153 AAACGCGATA
21163 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21193 TAAATTACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21401 original size:12 final size:12
Alignment explanation
Indices: 21384--21409 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21374 TTTGAACGTT
21384 AAAAAAGAAGGA
1 AAAAAAGAAGGA
21396 AAAAAAGAAGGA
1 AAAAAAGAAGGA
21408 AA
1 AA
21410 TTTACTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAGGA
Found at i:23257 original size:2 final size:2
Alignment explanation
Indices: 23250--23279 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23240 CGTCTGACAC
23250 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23280 TAAACTAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27228 original size:2 final size:2
Alignment explanation
Indices: 27221--27249 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27211 TTTAAAAGAA
27221 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
27250 ATCAGAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:28398 original size:2 final size:2
Alignment explanation
Indices: 28380--28429 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
28370 TTTGTTTTAC
*
28380 TA TA TA -A TA T- TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28420 TA TA TA TA TA
1 TA TA TA TA TA
28430 ATCATGGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:32057 original size:417 final size:414
Alignment explanation
Indices: 31229--32141 Score: 1077
Period size: 417 Copynumber: 2.2 Consensus size: 414
31219 AAAAATAACA
* * *
31229 AAAAAAGGCCATTT--CCTTTT-CTCCTAAAAAAAAAGGTTTTGGTCAAGCCTTATGGCTTGGAA
1 AAAAATGGCCATTTCCCCTTTTCCTCCT--AAAGAAAGGTTTTGGTCAAGCCTTCTGGCTT-GAA
* * * **
31291 AA-TAATTTTTTTGACATCTTCTATATTTTCATCATTTCTTAGAGCATAATATATAGTAAAAAAA
63 AATTTATTTTTTTGACATCTTCTATATTTTCATCATTTCTTAGAGAAAAATATATAAAAAAAAAA
* * * * *
31355 AGGAAAGAGAGAAAAGAAAAATTAAAAAGAAAAGAACTTTACGCTTCATCCTTATTTAGGTATAT
128 AGAAAAGAGAGAAAAGAAAAAGTAAAAAAAAAAGAAATTTACGCTTCATCCTTATTTAAGTATAT
*** **
31420 TATTTTTTGCTACTTGTTTTTTCTCTTTTCTTTTATTTTCCATGCACTCACATGGTATGCATGAA
193 TATTTTTTGCTAC----TTTTTCTCTTTTCTAAAATTTTCCATGCACTCACATGACATGCATGAA
* * * ** * *
31485 TTTATCCATGTTTTTAAAATTTTTAAAAAATTTTTTCATGCATTTTAAACTTTTTTCATGCATAT
254 CTCATCCATGTTTTTAAAATATGAAAAAAATTTTCTCATGCATTTTAAACTTTTTCCATGCATAT
* *
31550 AAGGTCTATTGCCATTATTTGCCATGCATTGTTTATACGTTCTAGATATTTATTTCTTTTCCTTT
319 AAGGTCTATTGCCATTATTTGCCATGCATTGTTTATACGTTCTAAATATTTATTTCTTTTCCTTC
*
31615 TTTAAATTGAAGCATGAAACTTCATGATTTT
384 TTTAAATTGAAGCATGAAACTTCATGATTCT
* *
31646 AAAAATGGTCATTTCCCCTTTTCCTCCTAAAGAAAGGTTTTGGTTAAGCCTTCTGGCTTGAAAAT
1 AAAAATGGCCATTTCCCCTTTTCCTCCTAAAGAAAGGTTTTGGTCAAGCCTTCTGGCTTGAAAAT
*
31711 TTATTTTTTTGACATCTTTTATCATTTTCATCATCTT-TTAGAGTAAAAATTATAATAAAAAAAA
66 TTATTTTTTTGACATCTTCTAT-ATTTTCATCAT-TTCTTAGAG-AAAAA-TAT-AT---AAAAA
*
31775 AAAAAAGAAAAAGAGAGAGAAG-AAAAGTAAAAGAAAAAAGAAATTTAC-CTTTCATCCTTATTT
123 AAAAAAG-AAAAGAGAGAAAAGAAAAAGTAAAA-AAAAAAGAAATTTACGC-TTCATCCTTATTT
* *
31838 AAGTATATTACTTTTTT-TTAC-TTTT-T-TTTT-TAAAATTTTCCATGCACTCACATTACATGC
185 AAGTATATTA-TTTTTTGCTACTTTTTCTCTTTTCTAAAATTTTCCATGCACTCACATGACATGC
* * *
31898 ATGAACTCCTTCATG-TTTTAAAA-ATGAAAAAAATACTTTCTCATGCA-TTTAAACTTTTTCCG
249 ATGAACTCATCCATGTTTTTAAAATATGAAAAAAAT--TTTCTCATGCATTTTAAACTTTTTCCA
* * *
31960 TGCATATAAGG-CATATTGTCATTATTTGCCATGCATTGTTTATATG-TCTCAAATATTTGTTTC
312 TGCATATAAGGTC-TATTGCCATTATTTGCCATGCATTGTTTATACGTTCT-AAATATTTATTTC
*
32023 TTTTCCTTCTTTAAATTGAAGCATGAAGCTTCATGATTCT
375 TTTTCCTTCTTTAAATTGAAGCATGAAACTTCATGATTCT
* * * * * *
32063 AAAAATGGCCATTTCCCTTTTTCCTCTTAAAGAAAGGTTTTGGCCAAACCTTCTAGCTTGGAAAT
1 AAAAATGGCCATTTCCCCTTTTCCTCCTAAAGAAAGGTTTTGGTCAAGCCTTCTGGCTTGAAAAT
32128 TTATTTTTTTGACA
66 TTATTTTTTTGACA
32142 AGATTTTGGC
Statistics
Matches: 427, Mismatches: 49, Indels: 40
0.83 0.09 0.08
Matches are distributed among these distances:
416 12 0.03
417 199 0.47
418 93 0.22
419 27 0.06
420 11 0.03
421 7 0.02
422 2 0.00
425 20 0.05
426 50 0.12
427 6 0.01
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (414 bp):
AAAAATGGCCATTTCCCCTTTTCCTCCTAAAGAAAGGTTTTGGTCAAGCCTTCTGGCTTGAAAAT
TTATTTTTTTGACATCTTCTATATTTTCATCATTTCTTAGAGAAAAATATATAAAAAAAAAAAGA
AAAGAGAGAAAAGAAAAAGTAAAAAAAAAAGAAATTTACGCTTCATCCTTATTTAAGTATATTAT
TTTTTGCTACTTTTTCTCTTTTCTAAAATTTTCCATGCACTCACATGACATGCATGAACTCATCC
ATGTTTTTAAAATATGAAAAAAATTTTCTCATGCATTTTAAACTTTTTCCATGCATATAAGGTCT
ATTGCCATTATTTGCCATGCATTGTTTATACGTTCTAAATATTTATTTCTTTTCCTTCTTTAAAT
TGAAGCATGAAACTTCATGATTCT
Found at i:32534 original size:23 final size:23
Alignment explanation
Indices: 32508--32561 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
32498 TTCTTTAAAT
32508 TGAAGCATGAAGTTTCATGATTC
1 TGAAGCATGAAGTTTCATGATTC
32531 TGAAGCATGAAGTTTCATGATTC
1 TGAAGCATGAAGTTTCATGATTC
*
32554 TAAAGCAT
1 TGAAGCAT
32562 TTGCCTTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (23 bp):
TGAAGCATGAAGTTTCATGATTC
Found at i:36077 original size:22 final size:22
Alignment explanation
Indices: 36052--36116 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
36042 ACTGTTTATC
36052 ACTGTTCATGCATCGATACATT
1 ACTGTTCATGCATCGATACATT
* *
36074 ACTGTTCATGTATCGATACATC
1 ACTGTTCATGCATCGATACATT
* *
36096 ATTGTTCAT-CA-CTATACATT
1 ACTGTTCATGCATCGATACATT
36116 A
1 A
36117 AGCCCAATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 8 0.22
21 1 0.03
22 28 0.76
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (22 bp):
ACTGTTCATGCATCGATACATT
Found at i:37688 original size:13 final size:13
Alignment explanation
Indices: 37669--37707 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
37659 ACTATTTATG
37669 ATGTATCGATACA
1 ATGTATCGATACA
*
37682 CTGTATCGATACA
1 ATGTATCGATACA
*
37695 AAGTATCGATACA
1 ATGTATCGATACA
37708 TGAATAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:37773 original size:23 final size:23
Alignment explanation
Indices: 37742--37787 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37732 TAACGATACA
* *
37742 TGAATAGTGATACGTGAACAGTG
1 TGAACAGTGATACATGAACAGTG
*
37765 TGAACAGTGATATATGAACAGTG
1 TGAACAGTGATACATGAACAGTG
37788 ATGTATCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (23 bp):
TGAACAGTGATACATGAACAGTG
Found at i:37808 original size:21 final size:22
Alignment explanation
Indices: 37773--37833 Score: 97
Period size: 21 Copynumber: 2.8 Consensus size: 22
37763 TGTGAACAGT
*
37773 GATATATGAACAGTGATGTATC
1 GATACATGAACAGTGATGTATC
37795 GATACATGAA-AGTGATGTATC
1 GATACATGAACAGTGATGTATC
*
37816 GATACATGAACAATGATG
1 GATACATGAACAGTGATG
37834 AATAGTGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 21 0.58
22 15 0.42
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (22 bp):
GATACATGAACAGTGATGTATC
Found at i:37938 original size:53 final size:53
Alignment explanation
Indices: 37875--38011 Score: 222
Period size: 53 Copynumber: 2.6 Consensus size: 53
37865 CTACTACCAA
*
37875 TGTATCGATACATAGTT-TGTGTATCGATACAAATTTGGATACTGCCAGTGACC
1 TGTATCGATACATA-TTGTGTGTATCGATACAAATTTGGATACTGCCAATGACC
* *
37928 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGATACTGCCAATGACC
37981 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
38012 TATGCAATCT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
52 2 0.03
53 61 0.77
54 16 0.20
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGATACTGCCAATGACC
Found at i:38044 original size:20 final size:20
Alignment explanation
Indices: 37981--38051 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
37971 GCCAATGTCC
**
37981 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
38001 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
38021 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
38041 TGTATCGATAC
1 TGTATCGATAC
38052 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:38117 original size:21 final size:21
Alignment explanation
Indices: 38091--38131 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38081 GTCAACCTTG
38091 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATATGTATA
*
38112 TGTATTGATACAATATGTAT
1 TGTATTAATACAATATGTAT
38132 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATTAATACAATATGTATA
Found at i:39412 original size:45 final size:45
Alignment explanation
Indices: 39332--39422 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
39322 CTCTTAAAAA
* * *
39332 AAGGTTTTGGCCAAGCCTTCTAGCTTGAAAATTTATTCTTTTGAC
1 AAGGTTTTGACCAAGCATTATAGCTTGAAAATTTATTCTTTTGAC
* * *
39377 AAGGTTTTGACCAAGCATTAT-GACTTGGAATTTTATTTTTTTGAC
1 AAGGTTTTGACCAAGCATTATAG-CTTGAAAATTTATTCTTTTGAC
39422 A
1 A
39423 TCTTTCATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (45 bp):
AAGGTTTTGACCAAGCATTATAGCTTGAAAATTTATTCTTTTGAC
Found at i:43612 original size:21 final size:21
Alignment explanation
Indices: 43586--43625 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
43576 CAAAGAATGT
43586 TTTTTTAGTTGAAAAATAGTG
1 TTTTTTAGTTGAAAAATAGTG
43607 TTTTTTAGTTGAAAAATAG
1 TTTTTTAGTTGAAAAATAG
43626 CATTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (21 bp):
TTTTTTAGTTGAAAAATAGTG
Found at i:43631 original size:21 final size:21
Alignment explanation
Indices: 43586--43631 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
43576 CAAAGAATGT
**
43586 TTTTTTAGTTGAAAAATAGTG
1 TTTTTTAGTTGAAAAATAGCA
43607 TTTTTTAGTTGAAAAATAGCA
1 TTTTTTAGTTGAAAAATAGCA
43628 TTTT
1 TTTT
43632 ATAACTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (21 bp):
TTTTTTAGTTGAAAAATAGCA
Found at i:45010 original size:20 final size:20
Alignment explanation
Indices: 44985--45039 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
44975 AATTGCCTAC
*
44985 ATGTATTGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
* *
45005 ATGTATCGATACAATGAATA
1 ATGTATCGATACATTGAAGA
45025 ATGTATCGATACATT
1 ATGTATCGATACATT
45040 TGGGTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:45153 original size:21 final size:21
Alignment explanation
Indices: 45127--45181 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
45117 GACGTGGTCC
*
45127 TGTATTGATACATTTCAGACA
1 TGTATTGATACATTTCACACA
**
45148 TGTATTGATACA-TTCACTTA
1 TGTATTGATACATTTCACACA
45168 TGTATTGATACATT
1 TGTATTGATACATT
45182 CACTGTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (21 bp):
TGTATTGATACATTTCACACA
Found at i:45170 original size:20 final size:20
Alignment explanation
Indices: 45127--45200 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 20
45117 GACGTGGTCC
***
45127 TGTATTGATACATTTCAGACA
1 TGTATTGATACA-TTCACTTA
45148 TGTATTGATACATTCACTTA
1 TGTATTGATACATTCACTTA
*
45168 TGTATTGATACATTCACTGTT
1 TGTATTGATACATTCACT-TA
*
45189 TGTATCGATACA
1 TGTATTGATACA
45201 AATCATAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 23 0.49
21 24 0.51
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.42
Consensus pattern (20 bp):
TGTATTGATACATTCACTTA
Found at i:46977 original size:13 final size:13
Alignment explanation
Indices: 46959--46983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46949 ATAATGCACA
46959 GTATCGATACATT
1 GTATCGATACATT
46972 GTATCGATACAT
1 GTATCGATACAT
46984 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:46980 original size:33 final size:32
Alignment explanation
Indices: 46938--47000 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
46928 CACCTTCAGA
*
46938 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
46971 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
47001 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:47044 original size:11 final size:11
Alignment explanation
Indices: 47028--47062 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
47018 ATACAGGTGA
47028 TTGGCAGTAGC
1 TTGGCAGTAGC
47039 TTGGCAGTAGC
1 TTGGCAGTAGC
47050 TTGGCAGTAGC
1 TTGGCAGTAGC
47061 TT
1 TT
47063 CCCTTAACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (11 bp):
TTGGCAGTAGC
Found at i:47137 original size:34 final size:32
Alignment explanation
Indices: 47077--47142 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 32
47067 TAACTGTTTG
47077 TATCGATACATACAAGATGTATCGATACATTA
1 TATCGATACATACAAGATGTATCGATACATTA
47109 TATCGATACATGACCAA-ATTGTATCGATACATTA
1 TATCGATACAT-A-CAAGA-TGTATCGATACATTA
47143 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 11 0.35
33 2 0.06
34 18 0.58
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (32 bp):
TATCGATACATACAAGATGTATCGATACATTA
Found at i:53307 original size:13 final size:13
Alignment explanation
Indices: 53289--53323 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
53279 ATTCTCTATG
53289 TCGATACATTATA
1 TCGATACATTATA
* *
53302 TCGATACACTGTA
1 TCGATACATTATA
53315 TCGATACAT
1 TCGATACAT
53324 GGCAATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (13 bp):
TCGATACATTATA
Found at i:53771 original size:20 final size:21
Alignment explanation
Indices: 53739--53780 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
53729 TCTCTAGGCA
*
53739 GCACTCACCAGGTCGCGACCG
1 GCACTCACCAGGTCGCAACCG
53760 GCACTC-CCAGGTCGCAACCG
1 GCACTCACCAGGTCGCAACCG
53780 G
1 G
53781 GTAGCCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.19, C:0.43, G:0.29, T:0.10
Consensus pattern (21 bp):
GCACTCACCAGGTCGCAACCG
Found at i:55796 original size:13 final size:13
Alignment explanation
Indices: 55778--55802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55768 ATAACGCACA
55778 GTATCGATACATT
1 GTATCGATACATT
55791 GTATCGATACAT
1 GTATCGATACAT
55803 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:55799 original size:33 final size:32
Alignment explanation
Indices: 55757--55819 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
55747 CACCGTTAGA
55757 TGTATCGATACATAACGCACAGTATCGATACAT
1 TGTATCGATACATAAC-CACAGTATCGATACAT
* *
55790 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
55820 TTGCCAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:55920 original size:13 final size:13
Alignment explanation
Indices: 55902--55950 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
55892 ACATACAAGA
55902 TGTATCGATACAT
1 TGTATCGATACAT
55915 TGTATCGATACA-
1 TGTATCGATACAT
*
55927 TG-A-CCA-A-AT
1 TGTATCGATACAT
55936 TGTATCGATACAT
1 TGTATCGATACAT
55949 TG
1 TG
55951 GCTTGTAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55945 original size:34 final size:32
Alignment explanation
Indices: 55882--55950 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
55872 CCTTAACTAT
55882 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
55914 TTGTATCGATACATGACCAA-ATTGTATCGATACA
1 TTGTATCGATACAT-A-CAAGA-TGTATCGATACA
55948 TTG
1 TTG
55951 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 14 0.41
33 2 0.06
34 18 0.53
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:58134 original size:20 final size:20
Alignment explanation
Indices: 58100--58150 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
58090 TTTAATTTGC
*
58100 ATCGATACAATAAGTTAATGT
1 ATCGATAC-ATAAGTGAATGT
*
58121 TTCGATACATAAGTGAATGT
1 ATCGATACATAAGTGAATGT
58141 ATCGATACAT
1 ATCGATACAT
58151 GCTTGACATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
ATCGATACATAAGTGAATGT
Found at i:58235 original size:20 final size:20
Alignment explanation
Indices: 58210--58259 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
58200 GGAAAAAAAA
*
58210 TGTATCGATGTATTTTTCAT
1 TGTATCGATATATTTTTCAT
*
58230 TGTATCGATATATTTTTTAT
1 TGTATCGATATATTTTTCAT
*
58250 TGTATTGATA
1 TGTATCGATA
58260 CATTCTGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.06, G:0.14, T:0.56
Consensus pattern (20 bp):
TGTATCGATATATTTTTCAT
Found at i:60598 original size:20 final size:20
Alignment explanation
Indices: 60573--60610 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60563 ATCACTGTTT
*
60573 ATTGTATTGATACATGAAGA
1 ATTGTATCGATACATGAAGA
*
60593 ATTGTATCGATATATGAA
1 ATTGTATCGATACATGAA
60611 ATTGGCAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.37
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:62755 original size:15 final size:16
Alignment explanation
Indices: 62721--62762 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
62711 GAATAAATTA
62721 AAAATTGTTGAAAATG
1 AAAATTGTTGAAAATG
*
62737 -AAATTCTTGAAAA-G
1 AAAATTGTTGAAAATG
62751 AAAATTGTTGAA
1 AAAATTGTTGAA
62763 CTAGAAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.31
Consensus pattern (16 bp):
AAAATTGTTGAAAATG
Found at i:69378 original size:20 final size:19
Alignment explanation
Indices: 69355--69406 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
69345 AAGCCCAAAA
*
69355 GTATCGATACATGTTGCTTT
1 GTATCGATACATGTT-CATT
*
69375 GTATCAATACATGTTCATT
1 GTATCGATACATGTTCATT
69394 GTATCGATACATG
1 GTATCGATACATG
69407 AAGAATTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (19 bp):
GTATCGATACATGTTCATT
Found at i:69397 original size:19 final size:20
Alignment explanation
Indices: 69355--69426 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
69345 AAGCCCAAAA
*
69355 GTATCGATACATGTTGCTTT
1 GTATCGATACATGTTGCATT
*
69375 GTATCAATACATGTT-CATT
1 GTATCGATACATGTTGCATT
** *
69394 GTATCGATACATGAAGAATT
1 GTATCGATACATGTTGCATT
*
69414 GTATTGATACATG
1 GTATCGATACATG
69427 AAACTCGCAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.34
20 29 0.66
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (20 bp):
GTATCGATACATGTTGCATT
Found at i:73191 original size:33 final size:33
Alignment explanation
Indices: 73149--73212 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
73139 AAATTCCCAG
* *
73149 ATGTATCGATACAAAGATTAATGTATTGATATA
1 ATGTATCGATACAAAGAATAATGTATCGATATA
**
73182 ATGTATCGATACATTGAATAATGTATCGATA
1 ATGTATCGATACAAAGAATAATGTATCGATA
73213 CATTTCCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATATA
Found at i:73204 original size:20 final size:21
Alignment explanation
Indices: 73173--73216 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
73163 AGATTAATGT
73173 ATTGATATAATGTATCGATAC
1 ATTGATATAATGTATCGATAC
73194 ATTGA-ATAATGTATCGATAC
1 ATTGATATAATGTATCGATAC
73214 ATT
1 ATT
73217 TCCTTAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATTGATATAATGTATCGATAC
Found at i:73953 original size:49 final size:49
Alignment explanation
Indices: 73867--74104 Score: 185
Period size: 49 Copynumber: 5.0 Consensus size: 49
73857 AAGAGTGATA
* * * *
73867 AAGGTGCCAATATGCTGATTC-AGGACCAGTGATATTAGGCTTAAAGATG
1 AAGGTGCTAATGTGCTGATTCAAGG-CCAGCGACATTAGGCTTAAAGATG
* **
73916 AAGGTGCTAATGTGCTGATTCAAGGCCATCGACATTAGAATTAAAGATG
1 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGGCTTAAAGATG
* * * *
73965 ATAAATGTGCCAATATGCTGATTCAAGGCCAGCG--A-TA---TT--GGATG
1 ---AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGGCTTAAAGATG
* * * * *
74009 AAGGTG-TCAATGTGCTGATTCAAGGCTAGCAATATT-GGACTTAAAGGTA
1 AAGGTGCT-AATGTGCTGATTCAAGGCCAGCGACATTAGG-CTTAAAGATG
74058 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGA
1 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGG-CTTAAAGA
74105 AGATGTCACC
Statistics
Matches: 150, Mismatches: 24, Indels: 30
0.74 0.12 0.15
Matches are distributed among these distances:
41 25 0.17
43 1 0.01
44 5 0.03
46 2 0.01
47 2 0.01
49 83 0.55
50 5 0.03
52 27 0.18
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (49 bp):
AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGGCTTAAAGATG
Found at i:74232 original size:28 final size:28
Alignment explanation
Indices: 74121--74726 Score: 458
Period size: 28 Copynumber: 21.4 Consensus size: 28
74111 CACCAACTTG
*
74121 TGTGGGCTTTTGAAAAGGTTG-CACCAACT
1 TGTGGGC-TTTGAAAAGG-TGCCACTAACT
* * * * * *
74150 TATGTGCTTTTGAAGA-TTGCCATTACCT
1 TGTGGGC-TTTGAAAAGGTGCCACTAACT
*
74178 TGTGGGCTTTG--AAGGTTGCCAGTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTAACT
* *
74205 TCTGGGCTTTGAAAAGGTGCCAGTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTAACT
*
74233 TGTGGGCTTTGAAAAGGTGCCATTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTAACT
**
74261 TGTGGGCTTTTGAAAAAATGCCACTAACT
1 TGTGGGC-TTTGAAAAGGTGCCACTAACT
74290 TGTGGGCTTTTG--AAGGTTGCCACTAACT
1 TGTGGGC-TTTGAAAAGG-TGCCACTAACT
* *
74318 TATGGGCTTT-AAAAGGGGTGCCA-TCGACT
1 TGTGGGCTTTGAAAA--GGTGCCACT-AACT
** *
74347 TGTGGGCTTTTGAAAAAATGCCACTGACT
1 TGTGGGC-TTTGAAAAGGTGCCACTAACT
* *
74376 TGTAGGCTTTTG--AAGGTTGCCACTGACT
1 TGTGGGC-TTTGAAAAGG-TGCCACTAACT
* *
74404 TGTGGGCTTTG-AAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTAACT
74431 TGTGGGCTTCTG--AAGGTTGCCACTAACT
1 TGTGGGCTT-TGAAAAGG-TGCCACTAACT
* * * * *
74459 TGTGGGCTTTTGAAAAGATACCATTGATT
1 TGTGGGC-TTTGAAAAGGTGCCACTAACT
*
74488 TGTGGGCTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAAGGTGCCACTAACT
* * *
74517 TGTGAGTTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTAACT
74545 TGTGGGCTTCTG--AAGGTTGCCACTAACT
1 TGTGGGCTT-TGAAAAGG-TGCCACTAACT
* * *
74573 TGTGGGCTTTTGAAAAGATGACACTGACT
1 TGTGGGC-TTTGAAAAGGTGCCACTAACT
* *
74602 TTTGGGCTTCTG--AAGGTTGCCACTGACT
1 TGTGGGCTT-TGAAAAGG-TGCCACTAACT
* *
74630 TGTAGGCTTTTGAAAAGATGCCACTAACT
1 TGTGGGC-TTTGAAAAGGTGCCACTAACT
* *
74659 TGTGGGCTTCTG--AGGGTTGCCACTGACT
1 TGTGGGCTT-TGAAAAGG-TGCCACTAACT
* * *
74687 TGTAGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGC-TTTGAAAAGGTGCCACTAACT
74716 TGTGGGCTTTG
1 TGTGGGCTTTG
74727 GAAGGTGAGG
Statistics
Matches: 472, Mismatches: 67, Indels: 77
0.77 0.11 0.12
Matches are distributed among these distances:
25 1 0.00
27 67 0.14
28 204 0.43
29 179 0.38
30 17 0.04
31 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTAACT
Found at i:74283 original size:57 final size:57
Alignment explanation
Indices: 74121--74732 Score: 611
Period size: 57 Copynumber: 10.8 Consensus size: 57
74111 CACCAACTTG
* * * * * * *
74121 TGTGGGCTTTTGAAAAGGTTG-CACCAACTTATGTGCTTTTGAAGATTGCCATTACCT
1 TGTGGGCTTTTGAAAA-GATGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTAACT
* * * * *
74178 TGTGGGC-TTTG-AAGGTTGCCAGTAACTTCTGGGC-TTTGAAAAGG-TGCCAGTAACT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTG--AAGGTTGCCACTAACT
* * ***
74233 TGTGGGC-TTTGAAAAGGTGCCATTAACTTGTGGGCTTTTGAAAAAATGCCACTAACT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTG-AAGGTTGCCACTAACT
* * * ** * *
74290 TGTGGGCTTTTG-AAGGTTGCCACTAACTTATGGGCTTTAAAAGGGGTGCCA-TCGACT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAA-GGTTGCCACT-AACT
* * * *
74347 TGTGGGCTTTTGAAAAAATGCCACTGACTTGTAGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTAACT
* *
74404 TGTGGGC-TTTG-AAAGATGCCACTGACTTGTGGGCTTCTGAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTAACT
* * * * *
74459 TGTGGGCTTTTGAAAAGATACCATTGATTTGTGGGC-TTTGAAAAAGG-TGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTG---AAGGTTGCCACTAACT
* *
74517 TGTGAG-TTTTGAAAAGATGCCACTAACTTGTGGGCTTCTGAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTAACT
* * * * *
74573 TGTGGGCTTTTGAAAAGATGACACTGACTTTTGGGCTTCTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTAACT
* * * *
74630 TGTAGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTCTGAGGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTAACT
* * *
74687 TGTAGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAAGGT
1 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAGGT
74733 GAGGAATGTC
Statistics
Matches: 472, Mismatches: 64, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
54 8 0.02
55 84 0.18
56 58 0.12
57 273 0.58
58 45 0.10
59 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTAACT
Found at i:75134 original size:37 final size:37
Alignment explanation
Indices: 75092--75176 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
75082 AAAGATGAAG
*
75092 CACAAATGTATCATGCAAAATAAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATAAAATGTTATGAATGT
*
75129 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATAAAATGTTATGAATGT
75166 CACAAATGCAT
1 CACAAATGCAT
75177 GATTGTGGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATAAAATGTTATGAATGT
Found at i:92683 original size:2 final size:2
Alignment explanation
Indices: 92676--92702 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92666 ATTTGTTCAA
92676 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
92703 ATCTTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93619 original size:21 final size:21
Alignment explanation
Indices: 93595--93651 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
93585 AGTTTACGTT
93595 AAAAATAAATTTAATTACAAC
1 AAAAATAAATTTAATTACAAC
*
93616 AAAAATAAATTTAATTACAAT
1 AAAAATAAATTTAATTACAAC
93637 AAAAATAAATTTAAT
1 AAAAATAAATTTAAT
93652 CGTTACTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATAAATTTAATTACAAC
Found at i:93722 original size:14 final size:14
Alignment explanation
Indices: 93703--93732 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93693 CTAACTTTTT
*
93703 TAACAAAAATAAAC
1 TAACAAAAACAAAC
93717 TAACAAAAACAAAC
1 TAACAAAAACAAAC
93731 TA
1 TA
93733 CATTAGGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.13
Consensus pattern (14 bp):
TAACAAAAACAAAC
Found at i:94128 original size:25 final size:26
Alignment explanation
Indices: 94074--94124 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
94064 TAATTATATC
* *
94074 TAAAAATAAATTTATATTTTTATAAA
1 TAAAAATAAATTTATATTTTAAAAAA
94100 TAAAAATAAA-TTATA-TTTAAAAAA
1 TAAAAATAAATTTATATTTTAAAAAA
94124 T
1 T
94125 TAAACTCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 5 0.22
26 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAAAATAAATTTATATTTTAAAAAA
Found at i:95578 original size:100 final size:95
Alignment explanation
Indices: 95469--95786 Score: 260
Period size: 91 Copynumber: 3.4 Consensus size: 95
95459 TGCGTAGATT
* * * *
95469 TTTTATGAGAATTAAATTCCTTTTAATAGAAAAAATTGGTATGAG-TAATGCATAGATTGTAAAT
1 TTTTATGAGAATCAAATTCCTTTTAATAGAAAAAA--AGAAAG-GTTAAT---T-GATTGTAAAT
* *
95533 GTCAGATTACAAAGATTAGACTAATGCATGAATTATA
59 GTCAAACTACAAAGATTAGACTAATGCATGAATTATA
* * *
95570 TTTT-TGAGAATCAGATTCTTTTTTATAGAAAAAAAGAAAGGTTAATTGATTGTAAATGTCAAAC
1 TTTTATGAGAATCAAATTCCTTTTAATAGAAAAAAAGAAAGGTTAATTGATTGTAAATGTCAAAC
*
95634 TACAAAGATTAGATTAATGCATGAATTATA
66 TACAAAGATTAGACTAATGCATGAATTATA
* * * * * * * * * *
95664 ---TCTGAGAATCAGATT--TTTTTATAAGAAAAAAAGAAAAGTTGATTAAGTATAAATATCAGA
1 TTTTATGAGAATCAAATTCCTTTTAAT-AGAAAAAAAGAAAGGTTAATTGATTGTAAATGTCAAA
* *
95724 CTGCAAAGATTAGACTAATCCATGAATTATA
65 CTACAAAGATTAGACTAATGCATGAATTATA
* * * *
95755 ---TCTGAGAATCGAATTCTTTTTTATAGAAAAAA
1 TTTTATGAGAATCAAATTCCTTTTAATAGAAAAAA
95787 TTGATTGTAA
Statistics
Matches: 190, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
90 7 0.04
91 72 0.38
92 21 0.11
93 7 0.04
94 44 0.23
95 1 0.01
97 1 0.01
98 7 0.04
100 26 0.14
101 4 0.02
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.35
Consensus pattern (95 bp):
TTTTATGAGAATCAAATTCCTTTTAATAGAAAAAAAGAAAGGTTAATTGATTGTAAATGTCAAAC
TACAAAGATTAGACTAATGCATGAATTATA
Found at i:95642 original size:94 final size:92
Alignment explanation
Indices: 95523--95786 Score: 363
Period size: 91 Copynumber: 2.9 Consensus size: 92
95513 GTAATGCATA
* *
95523 GATTGTAAATGTCAGATTACAAAGATTAGACTAATGCATGAATTATATTTTTGAGAATCAGATTC
1 GATTGTAAATGTCAGACTACAAAGATTAGACTAATGCATGAATTATA--TCTGAGAATCAGATTC
*
95588 TTTTTTATAGAAAAAAAGAAAGGTTAATT
64 TTTTTTATAGAAAAAAAGAAAAGTTAATT
* *
95617 GATTGTAAATGTCAAACTACAAAGATTAGATTAATGCATGAATTATATCTGAGAATCAGA-T-TT
1 GATTGTAAATGTCAGACTACAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTT
*
95680 TTTTATAAGAAAAAAAGAAAAGTTGATT
66 TTTTAT-AGAAAAAAAGAAAAGTTAATT
* * * * * *
95708 AAGTATAAATATCAGACTGCAAAGATTAGACTAATCCATGAATTATATCTGAGAATC-GAATTCT
1 GATTGTAAATGTCAGACTACAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAG-ATTCT
95772 TTTTTATAGAAAAAA
65 TTTTTATAGAAAAAA
95787 TTGATTGTAA
Statistics
Matches: 152, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
90 9 0.06
91 70 0.46
92 21 0.14
93 8 0.05
94 44 0.29
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (92 bp):
GATTGTAAATGTCAGACTACAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTT
TTTTATAGAAAAAAAGAAAAGTTAATT
Found at i:95866 original size:81 final size:81
Alignment explanation
Indices: 95613--95867 Score: 253
Period size: 91 Copynumber: 3.0 Consensus size: 81
95603 AAGAAAGGTT
* *
95613 AATTGATTGTAAATGTCAAACTACAAAGATTAGATTAATGCATGAATTATATCTGAGAATCAGAT
1 AATTGATTGTAAATGTCAAACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGAT
* *
95678 TTTTTTATAAGAAAAAAAGAA
66 TTTTTT-T---TATAAAA-AA
* * *
95699 AAGTTGATTAAGTATAAATATCAGACTGCAAAGATTAGACTAATCCATGAATTATATCTGAGAAT
1 AA-TTGATT--G--TAAATGTCAAACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAAT
* *
95764 C-GAATTCTTTTTTATAGAAAA
61 CAG-ATTTTTTTTTATAAAAAA
* ** * * *
95785 AATTGATTGTAAATGTCAAACTGTATGGATTAAACTAATGCATGAATTATATCTAAG-GTCAGAT
1 AATTGATTGTAAATGTCAAACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGAT
95849 TTTTTTTTATTAAAAAA
66 TTTTTTTTA-TAAAAAA
95866 AA
1 AA
95868 GAAAGACTGT
Statistics
Matches: 141, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
80 12 0.09
81 49 0.35
83 1 0.01
85 6 0.04
86 6 0.04
87 10 0.07
89 1 0.01
90 2 0.01
91 54 0.38
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (81 bp):
AATTGATTGTAAATGTCAAACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGAT
TTTTTTTTATAAAAAA
Found at i:96096 original size:92 final size:91
Alignment explanation
Indices: 95917--96103 Score: 211
Period size: 92 Copynumber: 2.0 Consensus size: 91
95907 TGAGAAACGG
* *
95917 ATTCCTTTTGGTAGAAAAAAAGGAAAAGTTGATTGATTATAAATATTAAACTGCAAGGATTAGAC
1 ATTCCTTTTGATAGAAAAAAA-GAAAAGTTGATTGATTATAAATATTAAACTGCAAAGATTAGAC
* * *
95982 TAATGCATAGATTATAGTTGAGAATCAA
65 AAATGCAGAGATTATAGATGAGAAT-AA
* *
96010 ATTCCTTTTGATAGAAAAACAA-AAAAGTTGATTGATTATAAATTTTACAATTG-AAAGA-TAGG
1 ATTCCTTTTGATAGAAAAA-AAGAAAAGTTGATTGATTATAAATATTA-AACTGCAAAGATTA-G
* *
96072 ACAAATGCAGATATT-TTGAATGAGAATAA
63 ACAAATGCAGAGATTATAG-ATGAGAATAA
96101 ATT
1 ATT
96104 TTTTTATAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
91 9 0.11
92 48 0.59
93 22 0.27
94 2 0.02
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (91 bp):
ATTCCTTTTGATAGAAAAAAAGAAAAGTTGATTGATTATAAATATTAAACTGCAAAGATTAGACA
AATGCAGAGATTATAGATGAGAATAA
Found at i:99395 original size:13 final size:13
Alignment explanation
Indices: 99377--99402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99367 CAAGGTAACT
99377 TTGTATCGATACA
1 TTGTATCGATACA
99390 TTGTATCGATACA
1 TTGTATCGATACA
99403 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:100343 original size:49 final size:49
Alignment explanation
Indices: 100279--100816 Score: 501
Period size: 49 Copynumber: 11.1 Consensus size: 49
100269 ATGCTAAAGA
* **
100279 TGCCAATATGTTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * *
100328 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AGAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGA-AGG
* * * *
100377 TGCTAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * * * *
100426 TGCCAATGTGCTGATTCAAGGCCGATGACATTGGACCTAAAAATGGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT-G--AAGG
* * * *
100478 TGCCAAGTA--CTGATTTAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAA-TATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * * *
100526 TGCTAATATGCTGATTCAAGGCCAATGACATCGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * *
100575 TGCCAATATGTTGATTCAAAGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * * * *
100614 TGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAAAT-AAAG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * *
100662 TGCCAATATGCTGATTCACGGCCAATGATATTGGACTTAAAAATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * *
100711 TGCCAATGTGCTTATTCAAGGCCAACGATATTAGACTTAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG---AAGG
* * *
100763 CGTCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
100812 TGCCA
1 TGCCA
100817 CCAACTTGTG
Statistics
Matches: 400, Mismatches: 68, Indels: 42
0.78 0.13 0.08
Matches are distributed among these distances:
39 30 0.08
40 1 0.00
43 1 0.00
45 1 0.00
47 2 0.00
48 50 0.12
49 230 0.57
50 3 0.01
51 27 0.07
52 54 0.14
53 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
Found at i:100517 original size:149 final size:150
Alignment explanation
Indices: 100275--100814 Score: 438
Period size: 149 Copynumber: 3.7 Consensus size: 150
100265 AGGAATGCTA
* * * * ** * *
100275 AAGATGCCAATATGTTGATTCAAGGCCAACGATATCAGACTTAAAGAT-G--AAGGTGCCAATGT
1 AAGATGCCAATATGCTGATTCAAGGCCGATGACATTGGACCTAAAAATGGTTAAGGTGCCAATGT
* * *
100337 GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AGAGGTGCTAATATGCTGATTCAAGGCCA
66 ACTGATTCAAGGCCAACGACATCGGTCTTAAAGATGA-AGGTGCTAATATGCTGATTCAAGGCCA
* *
100401 GCGATATCGGACTTAAAGATG
130 ACGACATCGGACTTAAAGATG
*
100422 AAGATGCCAATGTGCTGATTCAAGGCCGATGACATTGGACCTAAAAATGGTTAAGGTGCCAA-GT
1 AAGATGCCAATATGCTGATTCAAGGCCGATGACATTGGACCTAAAAATGGTTAAGGTGCCAATGT
*
100486 ACTGATTTAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAA
66 ACTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAA
* *
100551 TGACATCGGTCTTAAAGATG
131 CGACATCGGACTTAAAGATG
* * * *
100571 AAGGTGCCAATATGTTGATTCAAAGCC-A-G-C----GA--T---ATTGGGCTT---GTGCCAAT
1 AAGATGCCAATATGCTGATTCAAGGCCGATGACATTGGACCTAAAAAT-GG-TTAAGGTGCCAAT
* * * * * * *
100621 GTGCTAATTCAAGGCCAACGACATTGGTCTTAAAAAT-AAAGTGCCAATATGCTGATTCACGGCC
64 GTACTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCC
* * * *
100685 AATGATATTGGACTTAAAAATG
129 AACGACATCGGACTTAAAGATG
* * * * * * * * * *** * * *
100707 AAGGTGCCAATGTGCTTATTCAAGGCCAACGATATTAGACTTAAAGATGACAAAGGCGTCAATAT
1 AAGATGCCAATATGCTGATTCAAGGCCGATGACATTGGACCTAAAAATGGTTAAGGTGCCAATGT
* * ** *
100772 GCTGATTCAAGGCCAACGATATTAGACTTAAAGATGAAGGTGC
66 ACTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
100815 CACCAACTTG
Statistics
Matches: 317, Mismatches: 53, Indels: 43
0.77 0.13 0.10
Matches are distributed among these distances:
136 72 0.23
137 35 0.11
138 3 0.01
139 2 0.01
140 1 0.00
142 2 0.01
143 2 0.01
145 1 0.00
146 1 0.00
147 41 0.13
148 3 0.01
149 137 0.43
150 17 0.05
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (150 bp):
AAGATGCCAATATGCTGATTCAAGGCCGATGACATTGGACCTAAAAATGGTTAAGGTGCCAATGT
ACTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAA
CGACATCGGACTTAAAGATG
Found at i:100685 original size:48 final size:48
Alignment explanation
Indices: 100613--100803 Score: 213
Period size: 48 Copynumber: 3.9 Consensus size: 48
100603 TATTGGGCTT
* * * *
100613 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAAATAAA
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAAATAAA
* * *
100661 GTGCCAATATGCTGATTCACGGCCAATGATATTGGACTTAAAAATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAAAT-AAA
* * * *
100710 GTGCCAATGTGCTTATTCAAGGCCAACGATATTAGACTTAAAGATGACAAA
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAA-A--ATAAA
*
100761 G-GCGTCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAA
1 GTGC--CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAA
100804 GATGAAGGTG
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
48 39 0.32
49 39 0.32
50 3 0.02
51 3 0.02
52 37 0.31
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAAATAAA
Found at i:100685 original size:136 final size:136
Alignment explanation
Indices: 100477--100742 Score: 365
Period size: 136 Copynumber: 2.0 Consensus size: 136
100467 AATGGTTAAG
* * * * *
100477 GTGCCAAGTACTGATTTAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCTAATATGCTGATT
1 GTGCCAAGTACTAATTCAAGGCCAACGACATCGGTCTTAAAAATGAAAGTGCCAATATGCTGATT
* * *
100542 CAAGGCCAATGACATCGGTCTTAAAGATGAAGGTGCCAATATG-TTGATTCAAAGCCAGCGATAT
66 CAAGGCCAATGACATCGGACTTAAAAATGAAGGTGCCAATATGCTT-ATTCAAAGCCAACGATAT
100606 TGGGCTT
130 TGGGCTT
* *
100613 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAAAT-AAAGTGCCAATATGCTGAT
1 GTGCCAA-GTACTAATTCAAGGCCAACGACATCGGTCTTAAAAATGAAAGTGCCAATATGCTGAT
* * * * *
100677 TCACGGCCAATGATATTGGACTTAAAAATGAAGGTGCCAATGTGCTTATTCAAGGCCAACGATAT
65 TCAAGGCCAATGACATCGGACTTAAAAATGAAGGTGCCAATATGCTTATTCAAAGCCAACGATAT
100742 T
130 T
100743 AGACTTAAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
136 79 0.70
137 34 0.30
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (136 bp):
GTGCCAAGTACTAATTCAAGGCCAACGACATCGGTCTTAAAAATGAAAGTGCCAATATGCTGATT
CAAGGCCAATGACATCGGACTTAAAAATGAAGGTGCCAATATGCTTATTCAAAGCCAACGATATT
GGGCTT
Found at i:100695 original size:87 final size:88
Alignment explanation
Indices: 100525--100695 Score: 227
Period size: 88 Copynumber: 2.0 Consensus size: 88
100515 AAAGATGAAG
* * * * * *
100525 GTGCTAATATGCTGATTCAAGGCCAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
1 GTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAAATGAAAGTGCCAATATGCTGAT
*
100590 TCAAAGCCAGCGATATTGGGCTT
66 TCAAAGCCAACGATATTGGGCTT
* *
100613 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAAAT-AAAGTGCCAATATGCTGAT
1 GTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAAATGAAAGTGCCAATATGCTGAT
** *
100677 TCACGGCCAATGATATTGG
66 TCAAAGCCAACGATATTGG
100696 ACTTAAAAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 32 0.45
88 39 0.55
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (88 bp):
GTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAAATGAAAGTGCCAATATGCTGAT
TCAAAGCCAACGATATTGGGCTT
Found at i:100772 original size:188 final size:185
Alignment explanation
Indices: 100426--100794 Score: 418
Period size: 185 Copynumber: 2.0 Consensus size: 185
100416 AAGATGAAGA
* * * *
100426 TGCCAATGTGCTGATTCAAGGCCGATGACATTGGACCTAAAAATGGTTAAGGTGCCAAGTACTGA
1 TGCCAATGTGCTAATTCAAGGCCAACGACATTGGACCTAAAAA--G-TAAAGTGCCAAGTACTGA
* * * * *
100491 TTTAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAATGACA
63 TTCAAGGCCAACGACATCGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACA
* * * * *
100556 TCGGTCTTAAAGATGAAGGTGCCAATATGTTGATTCAAAGCCAGCGATATTGGGCTTG
128 TCAGACTTAAAGATGAAGGCGCCAATATGCTGATTCAAAGCCAACGATATTGGGCTTG
* *
100614 TGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAAA-TAAAGTGCCAA-TATGCTGAT
1 TGCCAATGTGCTAATTCAAGGCCAACGACATTGGACCTAAAAAGTAAAGTGCCAAGTA--CTGAT
* * * * * * *
100677 TCACGGCCAATGATATTGGACTTAAAAATGAAGGTGCCAATGTGCTTATTCAAGGCCAACGATAT
64 TCAAGGCCAACGACATCGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACAT
* * *
100742 TAGACTTAAAGATGACAAAGGCGTCAATATGCTGATTCAAGGCCAACGATATT
129 CAGACTTAAAGATG---AAGGCGCCAATATGCTGATTCAAAGCCAACGATATT
100795 AGACTTAAAG
Statistics
Matches: 150, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
183 2 0.01
184 10 0.07
185 69 0.46
188 69 0.46
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (185 bp):
TGCCAATGTGCTAATTCAAGGCCAACGACATTGGACCTAAAAAGTAAAGTGCCAAGTACTGATTC
AAGGCCAACGACATCGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATCA
GACTTAAAGATGAAGGCGCCAATATGCTGATTCAAAGCCAACGATATTGGGCTTG
Found at i:100802 original size:52 final size:50
Alignment explanation
Indices: 100615--100809 Score: 216
Period size: 52 Copynumber: 3.9 Consensus size: 50
100605 TTGGGCTTGT
* * * * * * *
100615 GCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAAAT-AAA-GT
1 GCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGAAAGGC
* * * * *
100663 GCCAATATGCTGATTCACGGCCAATGATATTGGACTTAAAAATG-AAGGT
1 GCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGAAAGGC
* *
100712 GCCAATGTGCTTATTCAAGGCCAACGATATTAGACTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATG--AAAGGC
*
100764 GTCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGAA
1 GCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGAA
100810 GGTGCCACCA
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
48 39 0.31
49 40 0.32
50 2 0.02
52 45 0.36
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (50 bp):
GCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGATGAAAGGC
Found at i:100886 original size:28 final size:29
Alignment explanation
Indices: 100841--101123 Score: 360
Period size: 29 Copynumber: 9.9 Consensus size: 29
100831 CTTTGAAGGT
* *
100841 TGCCACTGCCTTGTGGGC-TTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
** *
100869 TGTTATTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* * * *
100898 TGCCATTGACTTATGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* *
100926 TGCCACTAACTTGTGGGC-TTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
*
100954 TGCCACTAACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
*
100983 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* *
101012 TACCACTGACTTGTGAGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
101041 TGCCACTGACTTGTGGGC-TTTGAAAATG-
1 TGCCACTGACTTGTGGGCTTTTGAAAA-GA
*
101069 TGCCACTGACTTGTGGACTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* *
101098 TGCTACTGACTTGTGGGCTTTGGAAA
1 TGCCACTGACTTGTGGGCTTTTGAAA
101124 GTGAGGAATG
Statistics
Matches: 222, Mismatches: 27, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
27 4 0.02
28 79 0.36
29 139 0.63
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGA
Found at i:100902 original size:57 final size:58
Alignment explanation
Indices: 100841--101123 Score: 360
Period size: 57 Copynumber: 4.9 Consensus size: 58
100831 CTTTGAAGGT
* * ** *
100841 TGCCACTGCCTTGTGGGC-TTTGAAAAGGTGTTATTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGA
* * * * * *
100898 TGCCATTGACTTATGGGCTTTTG-AAGGTTGCCACTAACTTGTGGGC-TTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGA
* *
100954 TGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGA
* *
101012 TACCACTGACTTGTGAGCTTTTGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAATG-
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAA-GA
* * *
101069 TGCCACTGACTTGTGGACTTTTGAAAAGATGCTACTGACTTGTGGGCTTTGGAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAA
101124 GTGAGGAATG
Statistics
Matches: 194, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
56 29 0.15
57 102 0.53
58 63 0.32
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (58 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGA
Found at i:107707 original size:32 final size:32
Alignment explanation
Indices: 107641--107707 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
107631 CATTACAAGC
*
107641 CAATGTATCGATACATTTTATGGTGTATCGTA
1 CAATGTATCGATACATCTTATGGTGTATCGTA
107673 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCG-TA
107705 CAA
1 CAA
107708 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 8 0.25
32 22 0.69
33 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATCTTATGGTGTATCGTA
Found at i:107989 original size:19 final size:18
Alignment explanation
Indices: 107945--107990 Score: 83
Period size: 18 Copynumber: 2.5 Consensus size: 18
107935 ACTTAACTAG
107945 AAAACATTTGGTGAATCA
1 AAAACATTTGGTGAATCA
107963 AAAACATTTGGTGAATCA
1 AAAACATTTGGTGAATCA
107981 AAAATCATTT
1 AAAA-CATTT
107991 TAATCAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (18 bp):
AAAACATTTGGTGAATCA
Found at i:107997 original size:16 final size:17
Alignment explanation
Indices: 107945--107999 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
107935 ACTTAACTAG
107945 AAAACATTTGGTGAATCA
1 AAAACATTT-GTGAATCA
107963 AAAACATTTGGTGAATCA
1 AAAACATTT-GTGAATCA
107981 AAAATCATTT-T-AATCA
1 AAAA-CATTTGTGAATCA
107997 AAA
1 AAA
108000 CCTTTGTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.22
17 1 0.03
18 22 0.61
19 5 0.14
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (17 bp):
AAAACATTTGTGAATCA
Found at i:110206 original size:13 final size:13
Alignment explanation
Indices: 110188--110226 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
110178 TATAATCCCC
110188 CTGTATCGATACA
1 CTGTATCGATACA
110201 CTGTATCGATACA
1 CTGTATCGATACA
*
110214 ATGTATCGATACA
1 CTGTATCGATACA
110227 TTGAATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:116432 original size:13 final size:13
Alignment explanation
Indices: 116414--116438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116404 CATTTTATGG
116414 TGTATCGATACAA
1 TGTATCGATACAA
116427 TGTATCGATACA
1 TGTATCGATACA
116439 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:116454 original size:32 final size:33
Alignment explanation
Indices: 116391--116458 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
116381 CATTACAAGC
*
116391 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
116424 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
116456 CAA
1 CAA
116459 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:125372 original size:13 final size:13
Alignment explanation
Indices: 125354--125412 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
125344 ATACAAAGAT
125354 TAATGTATCGATA
1 TAATGTATCGATA
125367 TAATGTATCGATA
1 TAATGTATCGATA
*
125380 -CA--T-T-GA-A
1 TAATGTATCGATA
125387 TAATGTATCGATA
1 TAATGTATCGATA
125400 TAATGTATCGATA
1 TAATGTATCGATA
125413 CATTGAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 1 0.03
10 2 0.05
11 1 0.03
12 3 0.08
13 27 0.71
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (13 bp):
TAATGTATCGATA
Found at i:125378 original size:33 final size:33
Alignment explanation
Indices: 125336--125432 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
125326 AAGTTCCCAG
** *
125336 ATGTATCGATACAAAGATTAATGTATCGATATA
1 ATGTATCGATACATTGAATAATGTATCGATATA
125369 ATGTATCGATACATTGAATAATGTATCGATATA
1 ATGTATCGATACATTGAATAATGTATCGATATA
125402 ATGTATCGATACATTGAATAATGTATCGATA
1 ATGTATCGATACATTGAATAATGTATCGATA
125433 CATTTCCTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACATTGAATAATGTATCGATATA
Found at i:125391 original size:20 final size:20
Alignment explanation
Indices: 125366--125436 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
125356 ATGTATCGAT
125366 ATAATGTATCGATACATTGA
1 ATAATGTATCGATACATTGA
125386 ATAATGTATCG----A-T--
1 ATAATGTATCGATACATTGA
125399 ATAATGTATCGATACATTGA
1 ATAATGTATCGATACATTGA
125419 ATAATGTATCGATACATT
1 ATAATGTATCGATACATT
125437 TCCTTGGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.25
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
20 29 0.66
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (20 bp):
ATAATGTATCGATACATTGA
Found at i:125507 original size:21 final size:19
Alignment explanation
Indices: 125460--125514 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
125450 GCAAGGTATC
125460 TTTGTATCGATACAACACT
1 TTTGTATCGATACAACACT
* **
125479 TATGTATCGATACATTTACT
1 TTTGTATCGATACA-ACACT
125499 ATTTGTATCGATACAA
1 -TTTGTATCGATACAA
125515 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACAACACT
Found at i:128428 original size:21 final size:21
Alignment explanation
Indices: 128404--128484 Score: 51
Period size: 21 Copynumber: 3.9 Consensus size: 21
128394 TTACTTGCTA
128404 TTAATTATTATATTTTTTAAT
1 TTAATTATTATATTTTTTAAT
* * *
128425 TTAAATT-TTTTATTTTTAAAAA
1 TT-AATTATTATATTTTT-TAAT
* * *
128447 ATAATAATTA-ATATTTTAAT
1 TTAATTATTATATTTTTTAAT
*
128467 TT-ATTAATATAATTTTTT
1 TTAATTATTAT-ATTTTTT
128485 TAAAATTTAA
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
19 5 0.12
20 3 0.07
21 25 0.60
22 9 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATTATTATATTTTTTAAT
Found at i:128549 original size:128 final size:125
Alignment explanation
Indices: 128415--128715 Score: 398
Period size: 128 Copynumber: 2.4 Consensus size: 125
128405 TAATTATTAT
128415 ATTTTTTAATTTAAATTTTTTATTTTTAAAAA-ATAATAATTAATATTTTAATTTATTAATATAA
1 ATTTTTTAATTTAAA-TTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTATTAATATAA
* * *
128479 TTTTTTTAAAATTTAATTAAATATTATCTTTTATTTTATTAAAAATTATAATAAAAAACCTTTTT
65 ATTTTTT-AAATTTAATTAAATATTATATTTTA--TTA--AAAAATAATAATAAAAAACCTTTTT
128544 -
125 A
** * *
128544 A-TTTTTAATTTAAAATTTTTATTTTTAAAAATTTAATAATTAATATTTTAATTTGTTAATGTAA
1 ATTTTTTAATTT-AAATTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTATTAATATAA
* *
128608 ATTTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAATAATAATAAATCTTTTTA
65 ATTTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAATAATAAAAAACCTTTTTA
*
128669 ATTTTTTTAATTTAAA--TTT-TTTTAAAAAACATAATAATTAATATTTT
1 A-TTTTTTAATTTAAATTTTTATTTTTAAAAACATAATAATTAATATTTT
128716 TAAAACTTAA
Statistics
Matches: 156, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
123 25 0.16
124 25 0.16
125 1 0.01
126 6 0.04
127 10 0.06
128 50 0.32
129 39 0.25
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (125 bp):
ATTTTTTAATTTAAATTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTATTAATATAAA
TTTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAATAATAAAAAACCTTTTTA
Found at i:128613 original size:50 final size:53
Alignment explanation
Indices: 128507--128634 Score: 127
Period size: 51 Copynumber: 2.4 Consensus size: 53
128497 AAATATTATC
* * *
128507 TTTTATTTTATTAAAAATTATAATAAAAAACCTTTTTATTTTTAATTTAAAAT
1 TTTTATTTTATTAAAAATTATAATAAAAAACATTTTAATTTTTAATGTAAAAT
** * *
128560 TTTTA-TTT-TTAAAAATT-TAATAATTAATATTTTAATTTGTTAATGTAAATT
1 TTTTATTTTATTAAAAATTATAATAAAAAACATTTTAATTT-TTAATGTAAAAT
* *
128611 TTTTAAATTTAATTAAATATTATA
1 TTTT--ATTTTATTAAAAATTATA
128635 TTTTATTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
50 16 0.27
51 23 0.38
52 3 0.05
53 6 0.10
54 2 0.03
55 8 0.13
56 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (53 bp):
TTTTATTTTATTAAAAATTATAATAAAAAACATTTTAATTTTTAATGTAAAAT
Found at i:128672 original size:52 final size:52
Alignment explanation
Indices: 128605--128788 Score: 177
Period size: 52 Copynumber: 3.6 Consensus size: 52
128595 TTTGTTAATG
128605 TAAATTTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAATAATAA
1 TAAATTTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAATAATAA
* * * * *
128657 TAAATCTTTTT-AATTT-TTTTAAT-TTAAATTTTTTTAAAAAA-CATAATAA
1 TAAAT-TTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAATAATAA
* * *
128706 TTAATATTTTTAAAACTTAATTAAATATTAT-TTTTGTT-AAAAATAATAATTAA
1 -TAA-ATTTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAATAA-TAA
* *
128759 TATTATTTATTAAATTTAATT-AAT-TTATAT
1 TA-AATTTTTTAAATTTAATTAAATATTATAT
128789 GAAAAATAAT
Statistics
Matches: 106, Mismatches: 16, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
49 7 0.07
50 27 0.25
51 20 0.19
52 41 0.39
53 11 0.10
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.52
Consensus pattern (52 bp):
TAAATTTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAATAATAA
Found at i:128715 original size:25 final size:24
Alignment explanation
Indices: 128687--128767 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 24
128677 AATTTAAATT
128687 TTTTTAAAAAACATAATAATTAATA
1 TTTTT-AAAAACATAATAATTAATA
* * *
128712 TTTTT-AAAACTTAATTAAATATTA
1 TTTTTAAAAACATAA-TAATTAATA
*
128736 TTTTTGTTAAAA-ATAATAATTAATA
1 -TTTT-TAAAAACATAATAATTAATA
128761 TTATTTA
1 TT-TTTA
128768 TTAAATTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
23 8 0.18
24 10 0.23
25 18 0.41
26 4 0.09
27 4 0.09
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (24 bp):
TTTTTAAAAACATAATAATTAATA
Found at i:128740 original size:49 final size:49
Alignment explanation
Indices: 128600--128781 Score: 140
Period size: 49 Copynumber: 3.6 Consensus size: 49
128590 TTTAATTTGT
* *
128600 TAATGTAA-ATTTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAA
1 TAATATAATATTTTTAAAATTTAATTAAATATTAT-TTTTA--AAAAAATAA
* ** *
128651 TAATAATAAATCTTTTTAATTTTTTTAATTTAA-ATT-TTTTTAAAAAACATAA
1 TAAT-AT-AATATTTTTAA--AATTTAATTAAATATTATTTTTAAAAAA-ATAA
* **
128703 TAAT-TAATATTTTTAAAACTTAATTAAATATTATTTTTGTTAAAAATAA
1 TAATATAATATTTTTAAAATTTAATTAAATATTATTTTT-AAAAAAATAA
128752 TAAT-TAATATTATTTATTAAATTTAATTAA
1 TAATATAATATT-TTTA--AAATTTAATTAA
128782 TTTATATGAA
Statistics
Matches: 105, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
47 8 0.08
48 3 0.03
49 30 0.29
50 9 0.09
51 9 0.09
52 20 0.19
53 7 0.07
54 7 0.07
55 3 0.03
56 9 0.09
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.51
Consensus pattern (49 bp):
TAATATAATATTTTTAAAATTTAATTAAATATTATTTTTAAAAAAATAA
Found at i:128775 original size:103 final size:103
Alignment explanation
Indices: 128600--128785 Score: 245
Period size: 103 Copynumber: 1.8 Consensus size: 103
128590 TTTAATTTGT
* *
128600 TAATGTAAATTTTTTAAATTTAATTAAATATTATATTTTATTAAAAAATAATAATAATAAATCTT
1 TAATGTAAATTTTTAAAACTTAATTAAATATTATATTTTATTAAAAAATAATAATAATAAATCTT
* **
128665 TTTAATTTTTTTAATTTAAATTTTTTTAAAAAACATAA
66 TTAAATTTAATTAATTTAAATTTTTTTAAAAAACATAA
* *
128703 TAAT-TAATATTTTTAAAACTTAATTAAATATTAT-TTTTGTT-AAAAATAATAATTAATATTAT
1 TAATGTAA-ATTTTTAAAACTTAATTAAATATTATATTTTATTAAAAAATAATAA-TAATA-AAT
128765 -TTATTAAATTTAATTAATTTA
63 CTT-TTAAATTTAATTAATTTA
128786 TATGAAAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
101 11 0.15
102 16 0.22
103 45 0.62
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (103 bp):
TAATGTAAATTTTTAAAACTTAATTAAATATTATATTTTATTAAAAAATAATAATAATAAATCTT
TTAAATTTAATTAATTTAAATTTTTTTAAAAAACATAA
Found at i:128948 original size:2 final size:2
Alignment explanation
Indices: 128941--128970 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
128931 TATTCAAATA
128941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128971 GAAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134853 original size:79 final size:80
Alignment explanation
Indices: 134704--134860 Score: 244
Period size: 79 Copynumber: 2.0 Consensus size: 80
134694 CAGGTGTCTC
* *
134704 AACTCAACTCTCAAGATTGAATTTCATGTTGAGTTTTGTGCCATTGAATGGAGTCTCCAGCAGGT
1 AACTCAACTCTCAAGATTGAATTTCATATTGACTTTTGTGCCATTGAATGGAGTCTCCAGCAGGT
134769 CAGCTTCTGCCTGGA
66 CAGCTTCTGCCTGGA
* * * *
134784 AACTCAACTCTCGAGATTGAATTTCATATT-ACTTTTGTGGCATTGAATGGAGTCTCCGGCGGGT
1 AACTCAACTCTCAAGATTGAATTTCATATTGACTTTTGTGCCATTGAATGGAGTCTCCAGCAGGT
*
134848 TAGCTTCTGCCTG
66 CAGCTTCTGCCTG
134861 AAAATAGAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 42 0.60
80 28 0.40
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (80 bp):
AACTCAACTCTCAAGATTGAATTTCATATTGACTTTTGTGCCATTGAATGGAGTCTCCAGCAGGT
CAGCTTCTGCCTGGA
Found at i:136130 original size:25 final size:24
Alignment explanation
Indices: 136091--136139 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
136081 ATTTAATTTT
**
136091 TTAATTTTTAATATTTTTTATTAA
1 TTAATTTTTAATATTAATTATTAA
*
136115 TTAATTTATTATTATTAATTATTAA
1 TTAATTT-TTAATATTAATTATTAA
136140 AATAAAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TTAATTTTTAATATTAATTATTAA
Found at i:137032 original size:32 final size:34
Alignment explanation
Indices: 136994--137077 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
136984 TTATTTAAAT
*
136994 AAATTAAAAAAATAAAAAAATTT-A-TAAGTTAA
1 AAATTAAAAAAATAAAAAAATTTAAGTAAATTAA
137026 AAATTAAAAAAAATTAAAAAAATTTAAGTAAATTAA
1 AAATT-AAAAAAA-TAAAAAAATTTAAGTAAATTAA
*
137062 AAAATAAAAAAATAAA
1 AAATTAAAAAAATAAA
137078 GAAGAGTCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 5 0.11
33 7 0.15
34 15 0.33
35 8 0.17
36 11 0.24
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (34 bp):
AAATTAAAAAAATAAAAAAATTTAAGTAAATTAA
Found at i:137037 original size:34 final size:36
Alignment explanation
Indices: 136999--137073 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
136989 TAAATAAATT
* *
136999 AAAAAAATAAAAAAATTT-A-TAAGTTAAAAATTAA
1 AAAAAAATAAAAAAATTTAAGTAAATTAAAAAATAA
*
137033 AAAAAATTAAAAAAATTTAAGTAAATTAAAAAATAA
1 AAAAAAATAAAAAAATTTAAGTAAATTAAAAAATAA
137069 AAAAA
1 AAAAA
137074 TAAAGAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 17 0.47
35 1 0.03
36 18 0.50
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (36 bp):
AAAAAAATAAAAAAATTTAAGTAAATTAAAAAATAA
Found at i:137039 original size:10 final size:10
Alignment explanation
Indices: 136994--137065 Score: 51
Period size: 10 Copynumber: 7.1 Consensus size: 10
136984 TTATTTAAAT
136994 AAATT-AAAA
1 AAATTAAAAA
137003 AAA-TAAAAA
1 AAATTAAAAA
*
137012 AATTTATAAGTTAA
1 AAATTA-AA---AA
137026 AAATTAAAAA
1 AAATTAAAAA
137036 AAATT-AAAA
1 AAATTAAAAA
* **
137045 AAATTTAAGT
1 AAATTAAAAA
137055 AAATTAAAAA
1 AAATTAAAAA
137065 A
1 A
137066 TAAAAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
8 1 0.02
9 18 0.37
10 19 0.39
11 2 0.04
13 2 0.04
14 7 0.14
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (10 bp):
AAATTAAAAA
Found at i:137142 original size:12 final size:12
Alignment explanation
Indices: 137096--137163 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 12
137086 AATTGTATGT
*
137096 TATATATATATATG
1 TATATA-ATATA-A
*
137110 TATATAACAT-A
1 TATATAATATAA
137121 TATA-ACATATAA
1 TATATA-ATATAA
137133 TATATAATATAA
1 TATATAATATAA
137145 TA-ATAATAATAA
1 TATATAAT-ATAA
137157 TAATATA
1 T-ATATA
137164 TTTATATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 1 0.02
11 12 0.27
12 18 0.40
13 5 0.11
14 9 0.20
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (12 bp):
TATATAATATAA
Found at i:137149 original size:3 final size:3
Alignment explanation
Indices: 137129--137161 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
137119 TATATAACAT
137129 ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
137162 TATTTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:137302 original size:89 final size:89
Alignment explanation
Indices: 137198--138215 Score: 1030
Period size: 89 Copynumber: 11.5 Consensus size: 89
137188 TAATTTATTA
** * * * **** * *
137198 TATCAGATTTTTTCTGACATGATAAAAAATATTTGGCTAATATAAAATAAAATTCTTGTAACCCG
1 TATCAGATTCCTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCG
* * *
137263 AAAGATGTGACAAATGCATACAGG
66 AAAGATGTGACAGATGCATGCGGG
* * **** * *
137287 TATCAGATTCCTTCTGACATGACAAAAAATATTTGATTAATATAAAATAAAATTCTTGAAACTCG
1 TATCAGATTCCTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCG
* *
137352 AAAGATGT-AGTAGATACATGCGGG
66 AAAGATGTGA-CAGATGCATGCGGG
* * * * *
137376 CATCAGATT-CTTCTTGACACGACAGAAAATATTTTACTTATGCCTAATAAATTTCTTTG-AA-T
1 TATCAGATTCCTTC-TGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTC-TTGAAACC
*
137438 CGAAAGATGTGATAGATGCATGCGGG
64 CGAAAGATGTGACAGATGCATGCGGG
* * * * * * * *
137464 TATCAAATTCTTTTTAACATGACAGAAAATATTTAACTAATGCCTAATAAATTTCTTGGAACCCG
1 TATCAGATTCCTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCG
* *
137529 AAAAATATGACAGATGCATGCGAGG
66 AAAGATGTGACAGATGCATGCG-GG
* * * *
137554 -ATCAGATTCCTTCTAACACGACATAAAATATTTGACTAATGTCTAATAAATTTCTTGAAATCCG
1 TATCAGATTCCTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCG
**
137618 AAAGATACGACAGATGCATGCGGG
66 AAAGATGTGACAGATGCATGCGGG
* * * * * * *
137642 TATCAAATTCTTTCTAACACAACAAAAAATATATGACTAATACCTAATAAATTTCTTGGAACCCG
1 TATCAGATTCCTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCG
*
137707 AAAGATGTGACAGATGCATACGGG
66 AAAGATGTGACAGATGCATGCGGG
** * * * *
137731 TATCAGATTTTTTCTAACACGACATAAAATATTTGACTAATACTTAATAAATTTCTTGAAACCCG
1 TATCAGATTCCTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCG
*
137796 AACGATGTGACAGATGCATGCGGG
66 AAAGATGTGACAGATGCATGCGGG
* * * * *
137820 TATCAGATTCTTTCTGATA-TAGCAAAAAATATTTGACTAATGCCTAATAAATTTTTTGGAACCC
1 TATCAGATTCCTTCTGACACGA-CAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCC
* *
137884 GAAAGATGTGATAAATGCATGCGGG
65 GAAAGATGTGACAGATGCATGCGGG
* * * * * *
137909 TATCA-AGTTCCTTCTGACACGATAAAAAATATATGACTAATGCCAAATAAATTTTTTGGAACTC
1 TATCAGA-TTCCTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCC
* *
137973 AAAAGATGTGACAGATGTATGCGGG
65 GAAAGATGTGACAGATGCATGCGGG
* * * * * *
137998 TATCGGATTTCTTCTGATACAAC-ATAAATATTTGACTAATGCCTAATAAATTTTTTGAAACCCG
1 TATCAGATTCCTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCG
* * * * *
138062 AAAAATGTGATAAATGTATGCGAG
66 AAAGATGTGACAGATGCATGCGGG
* *
138086 TATCAGATTCCTTCTGACAC-A-ATATAAATATTTGACTAATGCCTAATAAATTTTTTGAAACCC
1 TATCAGATTCCTTCTGACACGACA-AAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCC
* * * *
138149 AAAAGATATGACAAATGCATGTGGG
65 GAAAGATGTGACAGATGCATGCGGG
* * * *
138174 TATCAGATTTCTTTTAACACGATAAAAAATATTTGACTAATG
1 TATCAGATTCCTTCTGACACGACAAAAAATATTTGACTAATG
138216 ATACGACAGA
Statistics
Matches: 792, Mismatches: 120, Indels: 34
0.84 0.13 0.04
Matches are distributed among these distances:
87 4 0.01
88 226 0.29
89 554 0.70
90 8 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (89 bp):
TATCAGATTCCTTCTGACACGACAAAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCG
AAAGATGTGACAGATGCATGCGGG
Found at i:141058 original size:2 final size:2
Alignment explanation
Indices: 141053--141143 Score: 60
Period size: 2 Copynumber: 51.0 Consensus size: 2
141043 TGTAGTTGTT
* *
141053 TA TA TA TA TT TA TA T- TA -A TA TA -A TA TA TA AA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
141091 TA -A CA TA -A TA TA TA TA TA TA TA -A AA TA TA -A CA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
141128 TA TA -A TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA
141144 AAAAAAATTA
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
1 11 0.15
2 60 0.85
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:141082 original size:7 final size:7
Alignment explanation
Indices: 141070--141143 Score: 64
Period size: 7 Copynumber: 10.4 Consensus size: 7
141060 ATTTATATTA
141070 ATATAAT
1 ATATAAT
141077 ATATAA-
1 ATATAAT
141083 ATAATATAT
1 AT-ATA-AT
*
141092 AACATAAT
1 -ATATAAT
141100 ATATATAT
1 ATATA-AT
*
141108 ATATAAA
1 ATATAAT
*
141115 ATATAAC
1 ATATAAT
141122 ATAT-A-
1 ATATAAT
141127 ATATAAT
1 ATATAAT
141134 ATATAAT
1 ATATAAT
141141 ATA
1 ATA
141144 AAAAAAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
5 4 0.07
6 4 0.07
7 34 0.61
8 10 0.18
9 3 0.05
10 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (7 bp):
ATATAAT
Found at i:141100 original size:12 final size:12
Alignment explanation
Indices: 141063--141144 Score: 107
Period size: 12 Copynumber: 7.0 Consensus size: 12
141053 TATATATATT
141063 TATATTAATATAA
1 TATA-TAATATAA
141076 TATATAA-ATAA
1 TATATAATATAA
*
141087 TATATAACATAA
1 TATATAATATAA
141099 TATAT-ATAT-A
1 TATATAATATAA
*
141109 TATAAAATATAA
1 TATATAATATAA
*
141121 CATATAATATAA
1 TATATAATATAA
141133 TATATAATATAA
1 TATATAATATAA
141145 AAAAAATTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
10 5 0.08
11 18 0.30
12 34 0.56
13 4 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
TATATAATATAA
Found at i:142440 original size:3 final size:3
Alignment explanation
Indices: 142432--142467 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
142422 TCAGAGCCTT
142432 TCC TCC TCCC TCC TCCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC T-CC TCC T-CC TCC TCC TCC TCC TCC TCC T
142468 TTTTCTTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
TCC
Found at i:142445 original size:7 final size:7
Alignment explanation
Indices: 142433--142466 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
142423 CAGAGCCTTT
142433 CCTCCTC
1 CCTCCTC
142440 CCTCCTC
1 CCTCCTC
142447 CCTCCT-
1 CCTCCTC
142453 CCTCCT-
1 CCTCCTC
142459 CCTCCTC
1 CCTCCTC
142466 C
1 C
142467 TTTTTCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (7 bp):
CCTCCTC
Found at i:148363 original size:22 final size:22
Alignment explanation
Indices: 148335--148379 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
148325 ATTTTAAGGC
148335 ATCCGAATGCCTTGAAGTAATT
1 ATCCGAATGCCTTGAAGTAATT
148357 ATCCGAATGCCTTGAAGTAATT
1 ATCCGAATGCCTTGAAGTAATT
148379 A
1 A
148380 ACATTGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (22 bp):
ATCCGAATGCCTTGAAGTAATT
Found at i:151046 original size:13 final size:13
Alignment explanation
Indices: 151028--151053 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
151018 CATTTTTTGG
151028 TGTATCGATACAT
1 TGTATCGATACAT
151041 TGTATCGATACAT
1 TGTATCGATACAT
151054 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:151068 original size:32 final size:33
Alignment explanation
Indices: 151008--151071 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
150998 TACAAGCCAA
**
151008 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
151041 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
151072 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:154834 original size:21 final size:21
Alignment explanation
Indices: 154808--154885 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
154798 TACTTCATAG
154808 AATATATCAATACATTAGGCT
1 AATATATCAATACATTAGGCT
* * *
154829 AATATATTAATACATCAAAG-T
1 AATATATCAATACAT-TAGGCT
154850 AATATATCAATACATTAGGCT
1 AATATATCAATACATTAGGCT
*
154871 AATGTATCAATACAT
1 AATATATCAATACAT
154886 CATTAAATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (21 bp):
AATATATCAATACATTAGGCT
Found at i:154855 original size:42 final size:42
Alignment explanation
Indices: 154787--154887 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
154777 TTTTGGGCAA
* * *
154787 TAATGTATCAATACTTCATAG-AATATATCAATACATTAGGC
1 TAATATATCAATACATCAAAGTAATATATCAATACATTAGGC
*
154828 TAATATATTAATACATCAAAGTAATATATCAATACATTAGGC
1 TAATATATCAATACATCAAAGTAATATATCAATACATTAGGC
*
154870 TAATGTATCAATACATCA
1 TAATATATCAATACATCA
154888 TTAAATATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 17 0.32
42 36 0.68
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.34
Consensus pattern (42 bp):
TAATATATCAATACATCAAAGTAATATATCAATACATTAGGC
Found at i:156326 original size:16 final size:16
Alignment explanation
Indices: 156305--156410 Score: 113
Period size: 16 Copynumber: 6.6 Consensus size: 16
156295 CAATTAGGCA
**
156305 GGTTTGGGCAGGTTCG
1 GGTTTGGGCTCGTTCG
*
156321 GGTTTGGGCTCATTCG
1 GGTTTGGGCTCGTTCG
*
156337 GGTTTGAGCTCGTTCG
1 GGTTTGGGCTCGTTCG
*
156353 GGTTTGAGCTCGTTCG
1 GGTTTGGGCTCGTTCG
* *
156369 GGTTTGGGCTCATTCA
1 GGTTTGGGCTCGTTCG
* *
156385 GGTTTAGGCTTGTTCG
1 GGTTTGGGCTCGTTCG
* *
156401 AGTTTAGGCT
1 GGTTTGGGCT
156411 TTTTTGGGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 77 1.00
ACGTcount: A:0.08, C:0.16, G:0.38, T:0.38
Consensus pattern (16 bp):
GGTTTGGGCTCGTTCG
Found at i:156462 original size:16 final size:16
Alignment explanation
Indices: 156441--156484 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
156431 CAGGTTCCGA
156441 CTTTTCAAGTTCGGGC
1 CTTTTCAAGTTCGGGC
* *
156457 CTTTTCGAGTTTGGGC
1 CTTTTCAAGTTCGGGC
*
156473 TTTTTCAAGTTC
1 CTTTTCAAGTTC
156485 AAGTTCGAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.45
Consensus pattern (16 bp):
CTTTTCAAGTTCGGGC
Found at i:156625 original size:30 final size:29
Alignment explanation
Indices: 156591--156655 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
156581 AAAAAGAAAA
156591 TTATTAAATTATTA-ATTCTTAAGTAAATTT
1 TTATTAAATTATTATATTCTTAA-TAAA-TT
* * *
156621 TTATTATATTATTATATTTTTAATATATT
1 TTATTAAATTATTATATTCTTAATAAATT
156650 TTATTA
1 TTATTA
156656 TTTATTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 8 0.26
30 16 0.52
31 7 0.23
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTATTAAATTATTATATTCTTAATAAATT
Found at i:156641 original size:19 final size:19
Alignment explanation
Indices: 156617--156658 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
156607 TCTTAAGTAA
*
156617 ATTTTTATTATATTATTA-T
1 ATTTTTAATATATT-TTATT
156636 ATTTTTAATATATTTTATT
1 ATTTTTAATATATTTTATT
156655 ATTT
1 ATTT
156659 ATTTATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTTAATATATTTTATT
Found at i:156703 original size:18 final size:18
Alignment explanation
Indices: 156680--156715 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
156670 TCTATATTTA
156680 TATATAAAATTAATTTTT
1 TATATAAAATTAATTTTT
156698 TATATAAAATTAATTTTT
1 TATATAAAATTAATTTTT
156716 CAAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATAAAATTAATTTTT
Found at i:156722 original size:18 final size:18
Alignment explanation
Indices: 156683--156722 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
156673 ATATTTATAT
* *
156683 ATAAAATTAATTTTTTAT
1 ATAAAATTAATTTTTCAA
156701 ATAAAATTAATTTTTCAA
1 ATAAAATTAATTTTTCAA
156719 ATAA
1 ATAA
156723 TTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAAAATTAATTTTTCAA
Found at i:157116 original size:60 final size:61
Alignment explanation
Indices: 157007--157131 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 61
156997 AAAATCATTT
** *
157007 TAATCTAACTTGTGCAGGGCTGAAAGCTTCATTTTTCACACAAGAAATAA-AAAAAAAGAA
1 TAATCTAACTTGTGCAGGGCTGAAAGCTTCATTCCTCAAACAAGAAATAATAAAAAAAGAA
* * * * *
157067 TAATCTAACTTGTGCAGGGCT-AAAGGCTTCATTACCTGAAATAA-CAATAATAATATAAGAA
1 TAATCTAACTTGTGCAGGGCTGAAA-GCTTCATT-CCTCAAACAAGAAATAATAAAAAAAGAA
157128 TAAT
1 TAAT
157132 ATTTAAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 3 0.06
60 34 0.63
61 17 0.31
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (61 bp):
TAATCTAACTTGTGCAGGGCTGAAAGCTTCATTCCTCAAACAAGAAATAATAAAAAAAGAA
Found at i:161617 original size:13 final size:13
Alignment explanation
Indices: 161599--161624 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
161589 TACACAAAGT
161599 ATGTATCGATACA
1 ATGTATCGATACA
161612 ATGTATCGATACA
1 ATGTATCGATACA
161625 CAAAAATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:161617 original size:17 final size:18
Alignment explanation
Indices: 161581--161642 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 18
161571 TAGCCAAACT
161581 TGTATCGATACACAAAGTA
1 TGTATCGATA-ACAAAGTA
161600 TGTATCGAT-AC--A--A
1 TGTATCGATAACAAAGTA
*
161613 TGTATCGATACACAAAAATA
1 TGTATCGATA-AC-AAAGTA
161633 TGTATCGATA
1 TGTATCGATA
161643 CATTGGCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.28
15 3 0.08
17 2 0.06
18 1 0.03
19 9 0.25
20 11 0.31
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (18 bp):
TGTATCGATAACAAAGTA
Found at i:161622 original size:32 final size:33
Alignment explanation
Indices: 161581--161644 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
161571 TAGCCAAACT
*
161581 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
161613 TGTATCGATACACAAAAATATGTATCGATACA
1 TGTATCGATACACAAAAATATGTATCGATACA
161645 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:166993 original size:13 final size:13
Alignment explanation
Indices: 166975--166999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
166965 TACACAAAGT
166975 ATGTATCGATACA
1 ATGTATCGATACA
166988 ATGTATCGATAC
1 ATGTATCGATAC
167000 GCAAAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:166998 original size:32 final size:33
Alignment explanation
Indices: 166957--167020 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
166947 TAGCCAAACT
*
166957 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
* *
166989 TGTATCGATACGCAAAAATATGTATTGATACA
1 TGTATCGATACACAAAAATATGTATCGATACA
167021 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:167346 original size:34 final size:35
Alignment explanation
Indices: 167308--167374 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
167298 CCTTACAACA
167308 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
167342 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
167375 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Done.