Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008103.1 Hibiscus syriacus cultivar Beakdansim tig00110633_pilon, 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: 1996589
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:563957 original size:19 final size:19
Alignment explanation
Indices: 563933--563984 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
563923 AAAACTCTGA
563933 ATGCATCGATGCATAGTAT
1 ATGCATCGATGCATAGTAT
563952 ATGCATCGATGCATAGTAT
1 ATGCATCGATGCATAGTAT
* *
563971 GTGCATCGGTGCAT
1 ATGCATCGATGCAT
563985 GAAATGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (19 bp):
ATGCATCGATGCATAGTAT
Found at i:564550 original size:15 final size:15
Alignment explanation
Indices: 564514--564559 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
564504 AAAAGTGAAG
*
564514 AAAAAACAAAAAAAA
1 AAAAAAGAAAAAAAA
*
564529 AAAAAAGAAAAAACA
1 AAAAAAGAAAAAAAA
*
564544 AAGAAAGAAAGAAAAA
1 AAAAAAGAAA-AAAAA
564560 GCAAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAA
Found at i:564571 original size:25 final size:26
Alignment explanation
Indices: 564514--564603 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 26
564504 AAAAGTGAAG
564514 AAAAAACAAA-A-AAAAA-AAAAAG-
1 AAAAAACAAAGAGAAAAAGAAAAAGC
564536 AAAAAACAAAGA-AAGAAAGAAAAAGC
1 AAAAAACAAAGAGAA-AAAGAAAAAGC
* *
564562 AAATAA-AAAGAGCAAAAGAAAAAGC
1 AAAAAACAAAGAGAAAAAGAAAAAGC
* * *
564587 AAAGAGCAAAAAGAAAA
1 AAAAAACAAAGAGAAAA
564604 CAAGAAGCAC
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
22 10 0.18
23 3 0.05
24 3 0.05
25 26 0.46
26 14 0.25
ACGTcount: A:0.79, C:0.07, G:0.13, T:0.01
Consensus pattern (26 bp):
AAAAAACAAAGAGAAAAAGAAAAAGC
Found at i:564590 original size:11 final size:11
Alignment explanation
Indices: 564511--564591 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 11
564501 GAGAAAAGTG
*
564511 AAGAAAAAACA
1 AAGAAAAAGCA
* **
564522 AAAAAAAAAAA
1 AAGAAAAAGCA
*
564533 AAGAAAAAACA
1 AAGAAAAAGCA
564544 AAG--AAAG-A
1 AAGAAAAAGCA
564552 AAGAAAAAGCA
1 AAGAAAAAGCA
*
564563 AATAAAAAGAGCAA
1 AA-GAAAA-AGC-A
564577 AAGAAAAAGCA
1 AAGAAAAAGCA
564588 AAGA
1 AAGA
564592 GCAAAAAGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 4 0.07
11 29 0.51
12 7 0.12
13 7 0.12
14 3 0.05
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (11 bp):
AAGAAAAAGCA
Found at i:565920 original size:38 final size:37
Alignment explanation
Indices: 565872--566019 Score: 165
Period size: 36 Copynumber: 3.9 Consensus size: 37
565862 GTTTCTTTTG
*
565872 AAAAATCTTTGAGTCTATTTCACTTGAAACAAAACAAA
1 AAAAATCTTTGAGTCTGTTTCACTTGAAACAAAA-AAA
* * **
565910 AAAAATCTTTGTGTTTGTTTCACTTGAAAC-AAAATG
1 AAAAATCTTTGAGTCTGTTTCACTTGAAACAAAAAAA
565946 AAAAATCTTTGAGTCTGTTTCACTTGAAACAAAATGAAAA
1 AAAAATCTTTGAGTCTGTTTCACTTGAAAC-AAA--AAAA
* * *
565986 AAAAAACTTTGAGTTTGTTTC-TTTGATAACAAAA
1 AAAAATCTTTGAGTCTGTTTCACTTGA-AACAAAA
566020 TTTTGTCTCT
Statistics
Matches: 93, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
36 29 0.31
37 4 0.04
38 29 0.31
39 7 0.08
40 24 0.26
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (37 bp):
AAAAATCTTTGAGTCTGTTTCACTTGAAACAAAAAAA
Found at i:565954 original size:74 final size:75
Alignment explanation
Indices: 565870--566020 Score: 225
Period size: 74 Copynumber: 2.0 Consensus size: 75
565860 CAGTTTCTTT
* * *
565870 TGAAAAATCTTTGAGTCTATTTCACTTGAAACAAAA-CAAAAAAAATCTTTGTGTTTGTTTCACT
1 TGAAAAATCTTTGAGTCTATTTCACTTGAAACAAAAGAAAAAAAAAACTTTGAGTTTGTTTC-CT
565934 TGA-AACAAAA
65 TGATAACAAAA
* *
565944 TGAAAAATCTTTGAGTCTGTTTCACTTGAAACAAAATGAAAAAAAAAACTTTGAGTTTGTTTCTT
1 TGAAAAATCTTTGAGTCTATTTCACTTGAAACAAAA-GAAAAAAAAAACTTTGAGTTTGTTTCCT
566009 TGATAACAAAA
65 TGATAACAAAA
566020 T
1 T
566021 TTTGTCTCTT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
74 35 0.51
75 4 0.06
76 30 0.43
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (75 bp):
TGAAAAATCTTTGAGTCTATTTCACTTGAAACAAAAGAAAAAAAAAACTTTGAGTTTGTTTCCTT
GATAACAAAA
Found at i:565965 original size:36 final size:36
Alignment explanation
Indices: 565870--565986 Score: 171
Period size: 36 Copynumber: 3.2 Consensus size: 36
565860 CAGTTTCTTT
*
565870 TGAAAAATCTTTGAGTCTATTTCACTTGAAACAAAACA
1 TGAAAAATCTTTGAGTCTGTTTCACTTGAAAC-AAA-A
** * *
565908 AAAAAAATCTTTGTGTTTGTTTCACTTGAAACAAAA
1 TGAAAAATCTTTGAGTCTGTTTCACTTGAAACAAAA
565944 TGAAAAATCTTTGAGTCTGTTTCACTTGAAACAAAA
1 TGAAAAATCTTTGAGTCTGTTTCACTTGAAACAAAA
565980 TGAAAAA
1 TGAAAAA
565987 AAAAACTTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
36 40 0.57
37 3 0.04
38 27 0.39
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (36 bp):
TGAAAAATCTTTGAGTCTGTTTCACTTGAAACAAAA
Found at i:566109 original size:63 final size:63
Alignment explanation
Indices: 565986--566109 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 63
565976 AAAATGAAAA
* *
565986 AAAAAACTTTGAGTTTGTTTCTTTGATAACAAAATTTTGTCTCTTTTGAGACAATTTCTTTTG
1 AAAAAACTTTGAGTTTGTTTCTTTGATAACAAAATTTTGTCTCTCTTGAGACAATATCTTTTG
* * * *
566049 AAAAATCTTTGAGTTTGTTTCTTTGGA-AACAAAATTTTGTGTCTCTTGATACAGTATCTTT
1 AAAAAACTTTGAGTTTGTTTCTTT-GATAACAAAATTTTGTCTCTCTTGAGACAATATCTTT
566110 GAGTTTGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 52 0.96
64 2 0.04
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (63 bp):
AAAAAACTTTGAGTTTGTTTCTTTGATAACAAAATTTTGTCTCTCTTGAGACAATATCTTTTG
Found at i:566174 original size:32 final size:31
Alignment explanation
Indices: 566135--566194 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
566125 GAAACAAAAG
566135 TCTTTGAGTC-TATTTCTATTAAAACAAAACAA
1 TCTTTGAGTCGT-TTTCT-TTAAAACAAAACAA
*
566167 TCTTTGAGTCGTTTTCTTTGAAACAAAA
1 TCTTTGAGTCGTTTTCTTTAAAACAAAA
566195 TTTTGTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 10 0.38
32 15 0.58
33 1 0.04
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (31 bp):
TCTTTGAGTCGTTTTCTTTAAAACAAAACAA
Found at i:566541 original size:43 final size:43
Alignment explanation
Indices: 566282--566554 Score: 133
Period size: 43 Copynumber: 6.5 Consensus size: 43
566272 TGGCCTGCCA
*
566282 TCCTCATCACGTAGGAAC-GTGTCATCCCC--G---ACCAGACC
1 TCCTCATCACGTAGGAACTGTGTCA-CCCCTAGATAACCAGTCC
* * * **
566320 TCCTCATAACGTAAGTG-TC-GTATCACCCC-AGATAACCAACCC
1 TCCTCATCACGT-AG-GAACTGTGTCACCCCTAGATAACCAGTCC
* * * *
566362 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAATCAGTCG
1 TCCTCATCACGTAGGAACTGTGTCACCCCTAGATAACCAGTCC
* * ** ** * **
566405 TCCTCATCACATAGGAATCATGTTATCA-TTCTAAAGATGGCTAGTTG
1 TCCTCATCACGTAGGAA-C-TG-TGTCACCCCT--AGATAACCAGTCC
* * * *
566452 TCCTTATCATGTAGGAACCGTGTCATCCCC----TAACCAGACC
1 TCCTCATCACGTAGGAACTGTGTCA-CCCCTAGATAACCAGTCC
*
566492 TCCTCATCACGTAGGAACTGTGTCACCCCTAGATAACCAGTCA
1 TCCTCATCACGTAGGAACTGTGTCACCCCTAGATAACCAGTCC
**
566535 TCCTCATCGTGTAGGAACTG
1 TCCTCATCACGTAGGAACTG
566555 AGTTATCACC
Statistics
Matches: 172, Mismatches: 43, Indels: 35
0.69 0.17 0.14
Matches are distributed among these distances:
38 15 0.09
39 13 0.08
40 28 0.16
41 3 0.02
42 26 0.15
43 50 0.29
44 5 0.03
45 4 0.02
46 6 0.03
47 22 0.13
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (43 bp):
TCCTCATCACGTAGGAACTGTGTCACCCCTAGATAACCAGTCC
Found at i:566867 original size:3 final size:3
Alignment explanation
Indices: 566848--566895 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
566838 TCAGAAAAAA
*
566848 TAT TAAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT
1 TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
566895 T
1 T
566896 TACATATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:567278 original size:21 final size:20
Alignment explanation
Indices: 567253--567299 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
567243 GATTTCTGCC
567253 AAAAATC-CATCAAACAGTGAA
1 AAAAATCGCATC-AACAGT-AA
*
567274 AAAAATCGTATCAACAGTAA
1 AAAAATCGCATCAACAGTAA
567294 AAAAAT
1 AAAAAT
567300 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 13 0.54
22 3 0.12
ACGTcount: A:0.60, C:0.15, G:0.09, T:0.17
Consensus pattern (20 bp):
AAAAATCGCATCAACAGTAA
Found at i:568593 original size:2 final size:2
Alignment explanation
Indices: 568586--568616 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
568576 GTATGTATGC
568586 AT AT 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 AT AT A
568617 AATTATAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:568876 original size:30 final size:27
Alignment explanation
Indices: 568840--568907 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 27
568830 TTGTATTCGA
568840 TAATTATCTTTGTTCAACGTTTATTTATTT
1 TAATTATCTTTGTTC-AC-TTT-TTTATTT
*
568870 TGATTAT-TTT-TTCACTTTTTTATTT
1 TAATTATCTTTGTTCACTTTTTTATTT
568895 TAATTTATCTTTG
1 TAA-TTATCTTTG
568908 CAAAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
25 9 0.27
26 7 0.21
27 5 0.15
28 3 0.09
29 3 0.09
30 6 0.18
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (27 bp):
TAATTATCTTTGTTCACTTTTTTATTT
Found at i:571657 original size:3 final size:3
Alignment explanation
Indices: 571640--571700 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
571630 TAATATTTAT
* * *
571640 TAA T-A TAA AAA TAA TAA TTA T-A TTA TAA T-A TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
571684 TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA T-AA TAA TA
571701 TTAAATGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
2 10 0.21
3 36 0.75
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:571662 original size:27 final size:30
Alignment explanation
Indices: 571627--571701 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
571617 TTTGGGCCTG
571627 TAATAATATT-T-AT-TAATATAAAAATAA
1 TAATAATATTATAATATAATATAAAAATAA
* *
571654 TAATTATATTATAATATAATATAATAATAA
1 TAATAATATTATAATATAATATAAAAATAA
*
571684 TAATAATATAAATAATAT
1 TAATAATAT-TATAATAT
571702 TAAATGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 9 0.22
28 1 0.03
29 2 0.05
30 21 0.52
31 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
TAATAATATTATAATATAATATAAAAATAA
Found at i:571666 original size:5 final size:5
Alignment explanation
Indices: 571640--571701 Score: 58
Period size: 5 Copynumber: 12.2 Consensus size: 5
571630 TAATATTTAT
*
571640 TAATA TAA-A -AATAA TAATTA TATTA TAATA TAATA TAATAA TAATAA
1 TAATA TAATA TAAT-A TAA-TA TAATA TAATA TAATA TAAT-A TAAT-A
571687 TAATA TAA-A TAATA T
1 TAATA TAATA TAATA T
571702 TAAATGAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
3 2 0.04
4 5 0.10
5 25 0.51
6 16 0.33
7 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:572068 original size:110 final size:113
Alignment explanation
Indices: 571940--572595 Score: 629
Period size: 110 Copynumber: 5.9 Consensus size: 113
571930 GCTCTTCTCC
* * * * *
571940 TCTTTAGATGAG--TCTTCTTATTATGAACTCTTTCTAGCAATACTGATCCATCGAATGATGAAA
1 TCTTCAGATGAGTTTCTTCTCATTATGAACTCTTTCTGGCAATACTGATCCATCAAATGATGAAT
* *
572003 TCGAGCAAAAATTTGAACAAATTCTTCTCATTATGAATTCCTTCTTTCT
66 TCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATT-CTTCTTTCT
* * *
572052 TCTTCAGATGAG-TTCTTCTCATTATGAACT-TTCTCTGG-AAAAGCTGATCCATCAAGTGATGG
1 TCTTCAGATGAGTTTCTTCTCATTATGAACTCTT-TCTGGCAATA-CTGATCCATCAAATGATGA
** * *
572114 ATTTGAGCAAAAGGTTGACCAAAATTCTTCTCATTATGAATTTCTTC-TTC-
64 ATTCAAGCAAAAAGTTGAAC-AAATTCTTCTCATTATGAA-TTCTTCTTTCT
* ** * ** *
572164 TCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATTTTAATCCATCAAATGATGA
1 TCTTCAGATGA-G-TTTCTTCTCATTATGAACTCTTTCTGGCAATACTGATCCATCAAATGATGA
* * * *
572229 ATTCAAACAAAAGGTTAAACAAA-T-TTCTCA-TATGAACTTCTTCTTCCT
64 ATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTTCT
* * *
572277 TCTTCAGATGAG-TTCTTCTCATTATGAACT-TCTCTGG-AAAAGTGATCCATCAAATGATGAAT
1 TCTTCAGATGAGTTTCTTCTCATTATGAACTCTTTCTGGCAATACTGATCCATCAAATGATGAAT
572339 TCAAGCAAAAAG-TGAACAAATTCTTCTCATTATGAATTTCTTC-TTC-
66 TCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTTCT
* * ** * *
572385 TCTTTAGATGAG-TTCTTCTTATTATGAACTCTTTCTGGCAATGTTAATCCATCAAATAATGAAT
1 TCTTCAGATGAGTTTCTTCTCATTATGAACTCTTTCTGGCAATACTGATCCATCAAATGATGAAT
* * * *
572449 TTAA--ACAAAGGTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCT
66 TCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTTCT
* *** * **
572496 TCTTCAGATGAG-TT-TTCTTATTATGAACTCGAACTGGTAATGA-TGATCCATTGAATGATGAA
1 TCTTCAGATGAGTTTCTTCTCATTATGAACTCTTTCTGGCAAT-ACTGATCCATCAAATGATGAA
*
572558 TTCAAGCAAAAAAGTTGAA-AAGTTCTTCTCATTATGAA
65 TTCAAGC-AAAAAGTTGAACAAATTCTTCTCATTATGAA
572596 CTTTTTTGGA
Statistics
Matches: 456, Mismatches: 64, Indels: 48
0.80 0.11 0.08
Matches are distributed among these distances:
107 7 0.02
108 65 0.14
109 49 0.11
110 97 0.21
111 25 0.05
112 54 0.12
113 76 0.17
114 26 0.06
115 54 0.12
116 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (113 bp):
TCTTCAGATGAGTTTCTTCTCATTATGAACTCTTTCTGGCAATACTGATCCATCAAATGATGAAT
TCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTCTTCTTTCT
Found at i:572411 original size:218 final size:223
Alignment explanation
Indices: 571932--572595 Score: 848
Period size: 218 Copynumber: 3.0 Consensus size: 223
571922 TTGAATAAGC
* * * * *
571932 TCTTCTCCTCTTTAGATGAG-TCTTCTTATTATGAACTCTTTCTAGCAATACTGATCCATCGAAT
1 TCTTCTTCTCTTTAGATGAGTTCTTCTTATTATGAACTCTTTCTGGCAATATTAATCCATCAAAT
* * * ** *
571996 GATGAAATCGAGCAAAAATTTGAACAAATTCTTCTCATTATGAA-TTCCTTCTTTCTTCTTCAGA
66 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTT-CTTCTTCCTTCTTCAGA
* * * **
572060 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAA
130 TGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGCAAA
* *
572125 AGGTTGACCAAAATTCTTCTCATTATGAATT
194 AAGTTGAAC-AAATTCTTCTCATTATGAATT
* * ** * *
572156 TCTTCTTCTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATTTTAATCCATCA
1 TCTTCTTCTCTT--TA-GATGAGTTCTTCTTATTATGAACTCTTTCTGGCAATATTAATCCATCA
*
572221 AATGATGAATTCAAACAAAAGGTTAAACAAA-T-TTCTCA-TATGAACTTCTTCTTCCTTCTTCA
63 AATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
572283 GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAG-TGATCCATCAAATGATGAATTCAAGCAA
128 GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGCAA
572347 AAAG-TGAACAAATTCTTCTCATTATGAATT
193 AAAGTTGAACAAATTCTTCTCATTATGAATT
*
572377 TCTTCTTCTCTTTAGATGAGTTCTTCTTATTATGAACTCTTTCTGGCAATGTTAATCCATCAAAT
1 TCTTCTTCTCTTTAGATGAGTTCTTCTTATTATGAACTCTTTCTGGCAATATTAATCCATCAAAT
* *
572442 AATGAATTTAAAC-AAAGG-TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
66 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * * **
572505 GAGTT-TTCTTATTATGAAC-TCGAACTGGTAATGATGATCCATTGAATGATGAATTCAAGCAAA
131 GAGTTCTTCTCATTATGAACTTC--TCTGGAAAAGATGATCCATCAAATGATGAATTCAAGC-AA
*
572568 AAAGTTGAA-AAGTTCTTCTCATTATGAA
193 AAAGTTGAACAAATTCTTCTCATTATGAA
572596 CTTTTTTGGA
Statistics
Matches: 387, Mismatches: 40, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
216 7 0.02
217 8 0.02
218 76 0.20
219 40 0.10
220 24 0.06
221 57 0.15
222 8 0.02
223 27 0.07
224 24 0.06
225 43 0.11
226 9 0.02
227 7 0.02
228 57 0.15
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (223 bp):
TCTTCTTCTCTTTAGATGAGTTCTTCTTATTATGAACTCTTTCTGGCAATATTAATCCATCAAAT
GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAA
GTTGAACAAATTCTTCTCATTATGAATT
Found at i:573532 original size:112 final size:114
Alignment explanation
Indices: 573321--573533 Score: 317
Period size: 112 Copynumber: 1.9 Consensus size: 114
573311 GATCATGCAG
* * *
573321 TTCATCTTTTAATTCCAATGATTGGTTTTGTGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAATTCCAATGATTGGTTATGTGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* ** *
573386 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGATCACA
66 ACACTTCCAGAAGATACTATTGGCACTTCATATTTCTACTATGATCACA
573435 TTCATCTTTCAATT-CAATGATTGGTTATGTGGTTCATA-CAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAATTCCAATGATTGGTTATGTGGTTCATACCAAACCAGATCAGATAACTCAAAGA
573498 ACACTTCCAG-AGATACTA-TGAGCACATTCATATTTC
66 ACACTTCCAGAAGATACTATTG-GCAC-TTCATATTTC
573534 AAATTCAATG
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
110 2 0.02
111 9 0.10
112 44 0.49
113 22 0.24
114 13 0.14
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAATTCCAATGATTGGTTATGTGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATACTATTGGCACTTCATATTTCTACTATGATCACA
Found at i:573860 original size:94 final size:93
Alignment explanation
Indices: 573424--573981 Score: 808
Period size: 94 Copynumber: 6.0 Consensus size: 93
573414 CTTATTTCTA
* * *
573424 CTATGATCACATTCATCTTTC-AATTCAATGATT-GGTTATGTGGTTCATA-CAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCAG
*
573486 ATAACTCAAAGAACACTTCCAG-AGATA
66 ATAACTCAAAGAACACTTCCAGAAGATG
* * * *
573513 CTATGAGCACATTCATATTTCAAATTCAATGATT-GGTTCTGTGGTTCCTACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCAG
* *
573577 ATAACCCAAAGAACACTTCCAGAAGGTG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* *
573605 TTATGAGCACATTCATCTTTCAAA-TCTAATGATGGGGTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTTCAAATTC-AATGATTGGGTTTTGGGGTTCATACCAAACCAGATCA
573669 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
* * * *
573698 -T-TGAGCACACTCATCTTTCAAGTCCAATGATGGGGTTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGG-TTTTGGGGTTCATACCAAACCAGATCA
573761 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
* **
573790 CTATGAGCACATTCATCTTTCAAATTAAATGATTGTTTTTTCGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGGTTTT-GGGGTTCATACCAAACCAGATCA
573855 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
* * * *
573884 CTATGAGCACACTCATCTTTCAAACTAAATGATTGGTTTTTCGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGGTTTT-GGGGTTCATACCAAACCAGATCA
*
573949 AATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
573978 CTAT
1 CTAT
573982 TGGGTCTTCT
Statistics
Matches: 430, Mismatches: 29, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
89 19 0.04
90 26 0.06
91 65 0.15
92 89 0.21
93 58 0.13
94 173 0.40
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (93 bp):
CTATGAGCACATTCATCTTTCAAATTCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:573958 original size:188 final size:184
Alignment explanation
Indices: 573424--573981 Score: 815
Period size: 185 Copynumber: 3.0 Consensus size: 184
573414 CTTATTTCTA
* * *
573424 CTATGATCACATTCATCTTTC-AATTCAATGATTGGTTATGTGGTTCATA-CAAACCAGATCAGA
1 CTATGAGCACATTCATCTTTCAAATT-AATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGA
* * * *
573487 TAACTCAAAGAACACTTCCAG-AGATACTATGAGCACATTCATATTTCAAATTCAATGATTGG-T
65 TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACACTCATCTTTCAAACTCAATGATTGGTT
* * * * *
573550 TCTGTGGTTCCTACCAAACCAGATCAGATAACCCAAAGAACACTTCCAGAAGGTG
130 TTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
* *
573605 TTATGAGCACATTCATCTTTCAAATCTAATGATGGGGTTTTGGGGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAAT-TAATGAT-TGGTTTTGGGGTTCATACCAAACCAGATCAG
* *
573670 ATAACTCAAAGAACACTTCCAGAAGATG-T-TGAGCACACTCATCTTTC-AAGTCCAATGATGGG
64 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACACTCATCTTTCAAACT-CAATGAT-TG
573732 GTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
127 GTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
573790 CTATGAGCACATTCATCTTTCAAATTAAATGATTGTTTTTTCGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTTCAAATT-AATGATTG-GTTTT-GGGGTTCATACCAAACCAGATCA
*
573855 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACACTCATCTTTCAAACTAAATGATTGG
63 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACACTCATCTTTCAAACTCAATGATTGG
*
573920 TTTTTCGGGGTTCATACCAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATG
128 TTTTT-GGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
573978 CTAT
1 CTAT
573982 TGGGTCTTCT
Statistics
Matches: 340, Mismatches: 22, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
181 19 0.06
182 12 0.04
183 38 0.11
184 40 0.12
185 89 0.26
186 52 0.15
187 8 0.02
188 79 0.23
189 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (184 bp):
CTATGAGCACATTCATCTTTCAAATTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGAT
AACTCAAAGAACACTTCCAGAAGATGCTATGAGCACACTCATCTTTCAAACTCAATGATTGGTTT
TTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:575266 original size:14 final size:14
Alignment explanation
Indices: 575243--575308 Score: 73
Period size: 14 Copynumber: 4.7 Consensus size: 14
575233 TGACCCCCCT
*
575243 TTTTCCTTTTTTTC
1 TTTTCTTTTTTTTC
*
575257 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTC
575271 TCTTTCTTCTTTTTTC
1 T-TTTCTT-TTTTTTC
*
575287 -TTTCTTCTTTTT-
1 TTTTCTTTTTTTTC
575299 TTTTCTTTTT
1 TTTTCTTTTT
575309 CTTCAAGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 13 0.30
14 19 0.43
15 6 0.14
16 6 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTTTTTC
Found at i:575286 original size:30 final size:30
Alignment explanation
Indices: 575241--575311 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 30
575231 CTTGACCCCC
575241 CTTTTTCCTTTTTT-TCTT-TTCTTTTTTTTTT
1 CTTTTT-CTTTTTTCT-TTCTTC-TTTTTTTTT
575272 CTTTCTTCTTTTTTCTTTCTTCTTTTTTTTT
1 CTTT-TTCTTTTTTCTTTCTTCTTTTTTTTT
575303 CTTTTTCTT
1 CTTTTTCTT
575312 CAAGCATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
30 5 0.14
31 26 0.70
32 6 0.16
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (30 bp):
CTTTTTCTTTTTTCTTTCTTCTTTTTTTTT
Found at i:575308 original size:7 final size:7
Alignment explanation
Indices: 575250--575299 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
575240 CCTTTTTCCT
575250 TTTTTTC
1 TTTTTTC
*
575257 TTTTCTTTT
1 -TTT-TTTC
575266 TTTTTTC
1 TTTTTTC
*
575273 TTTCTTC
1 TTTTTTC
575280 TTTTTTC
1 TTTTTTC
*
575287 TTTCTTC
1 TTTTTTC
575294 TTTTTT
1 TTTTTT
575300 TTTCTTTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
7 26 0.74
8 6 0.17
9 3 0.09
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:586776 original size:46 final size:44
Alignment explanation
Indices: 586724--586809 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 44
586714 AAATTGTCTC
* *
586724 TATTA-TTAGAAATTTAAAAATTCAAAATATATTTAATTTATAATCT
1 TATTATTTAGAAA-TT-AAAATTAAAAAAATA-TTAATTTATAATCT
* *
586770 TATTATTTCGAAATTATAATTAAAAAAATATTAATTTATA
1 TATTATTTAGAAATTAAAATTAAAAAAATATTAATTTATA
586810 TATTATAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 10 0.29
45 12 0.34
46 7 0.20
47 6 0.17
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (44 bp):
TATTATTTAGAAATTAAAATTAAAAAAATATTAATTTATAATCT
Found at i:586839 original size:20 final size:23
Alignment explanation
Indices: 586783--586840 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 23
586773 TATTTCGAAA
586783 TTATA-ATTAAAAA-AATATTAAT
1 TTATATATTAAAAATAATATT-AT
*
586805 TTATATATTATAAATAATATT-T
1 TTATATATTAAAAATAATATTAT
586827 TT-TAT-TTAAAAATA
1 TTATATATTAAAAATA
586841 TCAGAAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 8 0.25
21 3 0.09
22 8 0.25
23 7 0.22
24 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTATATATTAAAAATAATATTAT
Found at i:588403 original size:3 final size:3
Alignment explanation
Indices: 588397--588442 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
588387 TAATATTTAT
*
588397 TAA TAA TAA -AA TAA TTA TAA TAA TAA TAA TAA TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
588441 TA
1 TA
588443 TTTAAATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:588443 original size:9 final size:10
Alignment explanation
Indices: 588384--588443 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 10
588374 TTTGGGCCTG
*
588384 TAATAATATT
1 TAATAATATA
*
588394 TATTAATAATA
1 TAATAAT-ATA
*
588405 AAATAAT-TA
1 TAATAATATA
588414 TAATAATA-A
1 TAATAATATA
588423 TAATAATAATA
1 TAATAAT-ATA
588434 TAAATAATAT
1 T-AATAATAT
588444 TTAAATGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.40
10 7 0.17
11 11 0.28
12 6 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAATAATATA
Found at i:594144 original size:21 final size:21
Alignment explanation
Indices: 594120--594178 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
594110 TGATTTATTA
**
594120 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
594141 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
594162 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
594179 TATTGGAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:594313 original size:42 final size:43
Alignment explanation
Indices: 594266--594473 Score: 231
Period size: 43 Copynumber: 4.9 Consensus size: 43
594256 AAAAGAGTAG
* * * *
594266 AAAACGCCACTATATAC-C-AGATCTTTTGCGATGTTTGTGGGA
1 AAAACGCCACTAAAT-CTCAAGACCTATTGCGACGTTTGTGGGA
* *
594308 AAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGGA
1 AAAACGCCACTAAATCTCAAGACCTATTGCGACGTTTGTGGGA
* * *
594351 AAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGGGA
1 AAAACGCCACTAAATCTCAAGACCTATTGCGACGTTTGTGGGA
* * * * *
594394 AAAACTCCACTAAATCTCAACACCTATTGCGGCGTTTGTTGAA
1 AAAACGCCACTAAATCTCAAGACCTATTGCGACGTTTGTGGGA
* * * *
594437 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTT
1 AAAACGCCACTAAATCTCAAGACCTATTGCGACGTTT
594474 ATTAGACAAA
Statistics
Matches: 150, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 1 0.01
42 14 0.09
43 135 0.90
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (43 bp):
AAAACGCCACTAAATCTCAAGACCTATTGCGACGTTTGTGGGA
Found at i:594345 original size:43 final size:43
Alignment explanation
Indices: 594298--594516 Score: 303
Period size: 43 Copynumber: 5.1 Consensus size: 43
594288 CTTTTGCGAT
*
594298 GTTTGTGGGAAAAACGCCGCTAAATCTCAAGACCTATTGCGGC
1 GTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGC
594341 GTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGC
1 GTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGC
* *
594384 GTTTGTGGGAAAAACTCCACTAAATCTCAACACCTATTGCGGC
1 GTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGC
* * *
594427 GTTTGTTGAAAAAACGCCGCTAAATATCAACACCTATTGCGGC
1 GTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGC
* ** * * * ***
594470 GTTTATTAGACAAACGCCGCTATATATCGTTACCTATTGCGGC
1 GTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGC
594513 GTTT
1 GTTT
594517 TTTGTTACCA
Statistics
Matches: 160, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 160 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
GTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGC
Found at i:600038 original size:14 final size:14
Alignment explanation
Indices: 600016--600045 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
600006 TTCGTGAACA
*
600016 TTCGGTTATGTTCG
1 TTCGATTATGTTCG
600030 TTCGATTATGTTCG
1 TTCGATTATGTTCG
600044 TT
1 TT
600046 TATGTTCATT
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:0.10, C:0.13, G:0.23, T:0.53
Consensus pattern (14 bp):
TTCGATTATGTTCG
Found at i:600043 original size:24 final size:24
Alignment explanation
Indices: 600016--600065 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
600006 TTCGTGAACA
*
600016 TTCGGTTATGTTCGTTCGA-TTATG
1 TTCGGTTATGTTCATTC-ATTTATG
*
600040 TTCGTTTATGTTCATTCATTTATG
1 TTCGGTTATGTTCATTCATTTATG
600064 TT
1 TT
600066 TAACCCAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.14, C:0.12, G:0.18, T:0.56
Consensus pattern (24 bp):
TTCGGTTATGTTCATTCATTTATG
Found at i:600815 original size:16 final size:16
Alignment explanation
Indices: 600794--600860 Score: 84
Period size: 16 Copynumber: 4.3 Consensus size: 16
600784 GTCTCCAACG
600794 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
600810 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
* *
600826 TTTATCTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
600842 TTTATATTCGT-TT-A
1 TTTATGTTCGTGTTCA
600856 TTTAT
1 TTTAT
600861 TAAATGAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 40 0.85
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:600836 original size:32 final size:32
Alignment explanation
Indices: 600792--600852 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
600782 GGGTCTCCAA
* *
600792 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATCTTCGTGTTCATTTATATTCGTGTT
*
600824 CGTTTATCTTCGTGTTCGTTTATATTCGT
1 CGTTTATCTTCGTGTTCATTTATATTCGT
600853 TTATTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.56
Consensus pattern (32 bp):
CGTTTATCTTCGTGTTCATTTATATTCGTGTT
Found at i:606650 original size:19 final size:20
Alignment explanation
Indices: 606626--606663 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
606616 AAAATGTTTT
606626 TATGAATAGTATTG-TACTG
1 TATGAATAGTATTGATACTG
606645 TATGAATAGTATTGATACT
1 TATGAATAGTATTGATACT
606664 ATATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (20 bp):
TATGAATAGTATTGATACTG
Found at i:606672 original size:20 final size:19
Alignment explanation
Indices: 606630--606672 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
606620 TGTTTTTATG
* *
606630 AATAGTATTGTACTGTATG
1 AATAGTATTGTACTATATA
606649 AATAGTATTGATACTATATA
1 AATAGTATTG-TACTATATA
606669 AATA
1 AATA
606673 ATACGATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (19 bp):
AATAGTATTGTACTATATA
Found at i:606985 original size:18 final size:18
Alignment explanation
Indices: 606962--607003 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
606952 GTTGTCCCAG
606962 CTACCTAACTTTGCTTGT
1 CTACCTAACTTTGCTTGT
606980 CTACCTAACTTTGCTTGT
1 CTACCTAACTTTGCTTGT
606998 CTACCT
1 CTACCT
607004 TCTTGGATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.31, G:0.10, T:0.43
Consensus pattern (18 bp):
CTACCTAACTTTGCTTGT
Found at i:607980 original size:19 final size:19
Alignment explanation
Indices: 607956--608004 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
607946 CCTTAAGGAG
607956 TGTATCGGTACACTACGGA
1 TGTATCGGTACACTACGGA
607975 TGTATCGGTACACTACGGA
1 TGTATCGGTACACTACGGA
607994 TGTATCGGTAC
1 TGTATCGGTAC
608005 CCAAATTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (19 bp):
TGTATCGGTACACTACGGA
Found at i:625285 original size:20 final size:21
Alignment explanation
Indices: 625255--625321 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 21
625245 AATGTTACAA
625255 ATATATTTATTAAAAAATTATT
1 ATAT-TTTATTAAAAAATTATT
625277 AT-TTTTATTCAATAAAA-TA-T
1 ATATTTTATT-AA-AAAATTATT
* *
625297 ATATTTAATTGAAAAATTATAT
1 ATATTTTATTAAAAAATTAT-T
625319 ATA
1 ATA
625322 GAGATATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
19 4 0.11
20 12 0.32
21 11 0.30
22 10 0.27
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (21 bp):
ATATTTTATTAAAAAATTATT
Found at i:626200 original size:35 final size:35
Alignment explanation
Indices: 626148--626517 Score: 425
Period size: 35 Copynumber: 10.5 Consensus size: 35
626138 CGCATTGACG
* *
626148 GTGGATAAGCTCAATTATGTAGGCATGCATGGATA
1 GTGGATAAGCTCAATTATGTATGCATGAATGGATA
** * * * *
626183 AAGGATAAGCTCGATTATGTAAGAATGCATGGATA
1 GTGGATAAGCTCAATTATGTATGCATGAATGGATA
* * * * *
626218 GAGGATAAGCTCGATTATATAGGCAAGAATGGATA
1 GTGGATAAGCTCAATTATGTATGCATGAATGGATA
* * *
626253 GTGAATAAGCTCGATTATGTAGGCATGAATGGATA
1 GTGGATAAGCTCAATTATGTATGCATGAATGGATA
* * *
626288 GTGGATAAGCTCGATTATGTAGGCATGCATGGATA
1 GTGGATAAGCTCAATTATGTATGCATGAATGGATA
* * * *
626323 GAGGATAAGCTCGATTATGTATACATGCATGGATA
1 GTGGATAAGCTCAATTATGTATGCATGAATGGATA
* *
626358 CTGGATATGCTCAATTATGTAATGCATGAATGGATA
1 GTGGATAAGCTCAATTATGT-ATGCATGAATGGATA
*
626394 GTGGATAAGATCAATTATGTAATGCATGAATGGATA
1 GTGGATAAGCTCAATTATGT-ATGCATGAATGGATA
** *
626430 CCGGATTAGCTCAATTATGTAATGCATGAATGGATA
1 GTGGATAAGCTCAATTATGT-ATGCATGAATGGATA
* * *
626466 CTGGATTAGCTCAATTATGTATGCATGCATGGATA
1 GTGGATAAGCTCAATTATGTATGCATGAATGGATA
626501 GTGGATAAGCTCAATTA
1 GTGGATAAGCTCAATTA
626518 CTCTTATCCA
Statistics
Matches: 297, Mismatches: 37, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
35 200 0.67
36 97 0.33
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (35 bp):
GTGGATAAGCTCAATTATGTATGCATGAATGGATA
Found at i:626324 original size:105 final size:105
Alignment explanation
Indices: 626149--626517 Score: 477
Period size: 105 Copynumber: 3.5 Consensus size: 105
626139 GCATTGACGG
* ** * *
626149 TGGATAAGCTCAATTATGTAGGCATGCATGGATAAAGGATAAGCTCGATTATGTAAGAATGCATG
1 TGGATAAGCTCAATTATGTAGGCATGAATGGATAGTGGATAAGCTCAATTATGTAAGCATGCATG
* * * *
626214 GATAGAGGATAAGCTCGATTATATAGGCAAGAATGGATAG
66 GATAGAGGATAAGCTCGATTATGTATGCATGAATGGATAC
* * * *
626254 TGAATAAGCTCGATTATGTAGGCATGAATGGATAGTGGATAAGCTCGATTATGTAGGCATGCATG
1 TGGATAAGCTCAATTATGTAGGCATGAATGGATAGTGGATAAGCTCAATTATGTAAGCATGCATG
* *
626319 GATAGAGGATAAGCTCGATTATGTATACATGCATGGATAC
66 GATAGAGGATAAGCTCGATTATGTATGCATGAATGGATAC
* * * *
626359 TGGATATGCTCAATTATGTAATGCATGAATGGATAGTGGATAAGATCAATTATGTAATGCATGAA
1 TGGATAAGCTCAATTATGT-AGGCATGAATGGATAGTGGATAAGCTCAATTATGTAA-GCATGCA
** * *
626424 TGGATACCGGATTAGCTCAATTATGTAATGCATGAATGGATAC
64 TGGATAGAGGATAAGCTCGATTATGT-ATGCATGAATGGATAC
* * *
626467 TGGATTAGCTCAATTATGTATGCATGCATGGATAGTGGATAAGCTCAATTA
1 TGGATAAGCTCAATTATGTAGGCATGAATGGATAGTGGATAAGCTCAATTA
626518 CTCTTATCCA
Statistics
Matches: 230, Mismatches: 31, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
105 108 0.47
106 33 0.14
107 58 0.25
108 31 0.13
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (105 bp):
TGGATAAGCTCAATTATGTAGGCATGAATGGATAGTGGATAAGCTCAATTATGTAAGCATGCATG
GATAGAGGATAAGCTCGATTATGTATGCATGAATGGATAC
Found at i:626870 original size:59 final size:60
Alignment explanation
Indices: 626769--626893 Score: 189
Period size: 59 Copynumber: 2.1 Consensus size: 60
626759 GATAGGATCT
* * *
626769 CCTAAATTATGACCCACATTCTAAATTGATCCTTAAAATTTAAAATATTCTACATCAATC
1 CCTAAACTATGACCCACATTCTAAATGGATCCATAAAATTTAAAATATTCTACATCAATC
* *
626829 CCTAAACTATGACCCA-ATTCTAAATGGATCCATAAATTTTAAAATATTCTATATCAATC
1 CCTAAACTATGACCCACATTCTAAATGGATCCATAAAATTTAAAATATTCTACATCAATC
*
626888 CTTAAA
1 CCTAAA
626894 TTATCAATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 44 0.75
60 15 0.25
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (60 bp):
CCTAAACTATGACCCACATTCTAAATGGATCCATAAAATTTAAAATATTCTACATCAATC
Found at i:626894 original size:29 final size:29
Alignment explanation
Indices: 626786--626895 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 29
626776 TATGACCCAC
** *
626786 ATTCTAAATTGATCCTTAAAATTTAAAAT
1 ATTCTAAATCAATCCTTAAATTTTAAAAT
* * * * **
626815 ATTCTACATCAATCCCTAAACTATGACCCA-
1 ATTCTAAATCAATCCTTAAA-TTTTA-AAAT
** *
626845 ATTCTAAATGGATCCATAAATTTTAAAAT
1 ATTCTAAATCAATCCTTAAATTTTAAAAT
*
626874 ATTCTATATCAATCCTTAAATT
1 ATTCTAAATCAATCCTTAAATT
626896 ATCAATATAT
Statistics
Matches: 57, Mismatches: 21, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
28 1 0.02
29 37 0.65
30 18 0.32
31 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (29 bp):
ATTCTAAATCAATCCTTAAATTTTAAAAT
Found at i:635276 original size:24 final size:23
Alignment explanation
Indices: 635223--635311 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
635213 GAGTTAAGGG
* *
635223 TTCTACGTGGTCATTCGGGATAA
1 TTCTATGTGGTCCTTCGGGATAA
*
635246 TTCTATGTGGTCCTTTGGGATAAA
1 TTCTATGTGGTCCTTCGGGAT-AA
* ** * *
635270 TTCTATGCGGTCCTTCATGACAT
1 TTCTATGTGGTCCTTCGGGATAA
*
635293 TTCTACGTGGTCCTTCGGG
1 TTCTATGTGGTCCTTCGGG
635312 GCATTTCTAC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 34 0.65
24 18 0.35
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (23 bp):
TTCTATGTGGTCCTTCGGGATAA
Found at i:635304 original size:23 final size:23
Alignment explanation
Indices: 635223--635325 Score: 71
Period size: 23 Copynumber: 4.4 Consensus size: 23
635213 GAGTTAAGGG
* * * *
635223 TTCTACGTGGTCATTCGGGATAA
1 TTCTACGTGGTCCTTCAGGACAT
* ** * *
635246 TTCTATGTGGTCCTTTGGGATAAA
1 TTCTACGTGGTCCTTCAGGA-CAT
* * *
635270 TTCTATGCGGTCCTTCATGACAT
1 TTCTACGTGGTCCTTCAGGACAT
* *
635293 TTCTACGTGGTCCTTCGGGGCAT
1 TTCTACGTGGTCCTTCAGGACAT
635316 TTCTACGTGG
1 TTCTACGTGG
635326 CACTTCGGTG
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
23 46 0.72
24 18 0.28
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCAGGACAT
Found at i:635351 original size:24 final size:24
Alignment explanation
Indices: 635305--635367 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
635295 CTACGTGGTC
* *
635305 CTTCGGGGCAT-TTCTACGTGGCA
1 CTTCGGTGCATATTCTACGCGGCA
635328 CTTCGGTGCATATTCTACGCGGCA
1 CTTCGGTGCATATTCTACGCGGCA
* *
635352 CTTTGGTGTA-ATTCTA
1 CTTCGGTGCATATTCTA
635368 TGTGGCAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 16 0.46
24 19 0.54
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (24 bp):
CTTCGGTGCATATTCTACGCGGCA
Found at i:635374 original size:23 final size:24
Alignment explanation
Indices: 635293--635374 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 24
635283 TTCATGACAT
*
635293 TTCTACGTGGTC-CTTCGGGGCAT-
1 TTCTACGTGG-CACTTCGGTGCATA
635316 TTCTACGTGGCACTTCGGTGCATA
1 TTCTACGTGGCACTTCGGTGCATA
* * *
635340 TTCTACGCGGCACTTTGGTGTA-A
1 TTCTACGTGGCACTTCGGTGCATA
*
635363 TTCTATGTGGCA
1 TTCTACGTGGCA
635375 GTTTCGACTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
22 1 0.02
23 31 0.61
24 19 0.37
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (24 bp):
TTCTACGTGGCACTTCGGTGCATA
Found at i:639191 original size:38 final size:36
Alignment explanation
Indices: 639141--639374 Score: 167
Period size: 37 Copynumber: 6.4 Consensus size: 36
639131 TGAAAATATG
*
639141 TTTTCAAACATATAATATATAGTTTTTAGAAAACGTT
1 TTTTAAAACATATAATATATAGTTTTTA-AAAACGTT
* *
639178 TTTTAAAAGCATATAATATATAGTTTTTAAAAAAATTGGT
1 TTTTAAAA-CATATAATATATAGTTTTT--AAAAA-CGTT
* * * *
639218 TTTTGAAA-ATAT-ATAATATGGTTTTGAAAATAAGTT
1 TTTTAAAACATATAAT-ATATAGTTTTTAAAA-ACGTT
* * * *
639254 TTTAAAAACATATATTATATAGTTTTGAAAACACATT
1 TTTTAAAACATATAATATATAGTTTTTAAAA-ACGTT
* * *
639291 TTTGAAAACGTATAATATATCA--TTTTAAAAAGGATT
1 TTTTAAAACATATAATATAT-AGTTTTTAAAAACG-TT
* *
639327 TTTGAAAACATAT-A-ATATAG-TTTTAAAAACATAT
1 TTTTAAAACATATAATATATAGTTTTTAAAAACGT-T
*
639361 TTTGAAAACATATA
1 TTTTAAAACATATA
639375 GTTTTTTAAA
Statistics
Matches: 160, Mismatches: 24, Indels: 28
0.75 0.11 0.13
Matches are distributed among these distances:
33 2 0.01
34 27 0.17
35 2 0.01
36 33 0.21
37 48 0.30
38 34 0.21
39 4 0.03
40 10 0.06
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (36 bp):
TTTTAAAACATATAATATATAGTTTTTAAAAACGTT
Found at i:639495 original size:5 final size:5
Alignment explanation
Indices: 639465--639549 Score: 58
Period size: 5 Copynumber: 17.4 Consensus size: 5
639455 GTTTTTATTA
639465 TATAT TAT-T TATAT CTATAT CATATAT TATA- -ATAT TATAT T-T-T
1 TATAT TATAT TATAT -TATAT --TATAT TATAT TATAT TATAT TATAT
* *
639508 TATAT TCAT-T ATGTAT TAT-T TTTAT TATAT TATAT TATAT TA
1 TATAT T-ATAT -TATAT TATAT TATAT TATAT TATAT TATAT TA
639550 ATTTTATTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 22
0.70 0.05 0.24
Matches are distributed among these distances:
3 5 0.08
4 9 0.14
5 36 0.56
6 9 0.14
7 5 0.08
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:639511 original size:21 final size:20
Alignment explanation
Indices: 639487--639548 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 20
639477 ATCTATATCA
639487 TATATTATAATATTATATTTT
1 TATATTAT-ATATTATATTTT
639508 TATATTCAT-TATGTATTATTTT
1 TATATT-ATATAT-TA-TATTTT
639530 TAT-TATATTATATTATATT
1 TATAT-TA-TATATTATATT
639549 AATTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
20 3 0.09
21 14 0.40
22 15 0.43
23 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TATATTATATATTATATTTT
Found at i:639525 original size:54 final size:51
Alignment explanation
Indices: 639461--639564 Score: 129
Period size: 54 Copynumber: 2.0 Consensus size: 51
639451 TATAGTTTTT
639461 ATTATATATTATTTATATCTATATCATATATTATAAT-ATTATATTTTTATATTC
1 ATTATATATTATTTATAT-TATAT--TATATTATAATAATTATATTTTT-TATTC
* * * *
639515 ATTATGTATTATTTTTATTATATTATATTATATTAATTTTATTTTTTATT
1 ATTATATATTATTTATATTATATTATATTATAATAATTATATTTTTTATT
639565 TGGTCTAGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 14 0.31
52 10 0.22
53 5 0.11
54 16 0.36
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (51 bp):
ATTATATATTATTTATATTATATTATATTATAATAATTATATTTTTTATTC
Found at i:639557 original size:19 final size:19
Alignment explanation
Indices: 639465--639557 Score: 50
Period size: 19 Copynumber: 4.8 Consensus size: 19
639455 GTTTTTATTA
*
639465 TATATTATTTATATCTATAT
1 TATATTAATTATAT-TATAT
*
639485 CATATATT-ATAATATTATAT
1 --TATATTAATTATATTATAT
*
639505 T-T-TTATATTCAT-TATGTAT
1 TATATTA-ATT-ATAT-TATAT
* *
639524 TATTTTTATTATATTATAT
1 TATATTAATTATATTATAT
*
639543 TATATTAATTTTATT
1 TATATTAATTATATT
639558 TTTTATTTGG
Statistics
Matches: 55, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
16 2 0.04
17 1 0.02
18 4 0.07
19 25 0.45
20 10 0.18
21 7 0.13
22 6 0.11
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (19 bp):
TATATTAATTATATTATAT
Found at i:639669 original size:32 final size:32
Alignment explanation
Indices: 639633--639706 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
639623 GGCCATACCA
*
639633 GCCTGACCCAGCAAAGCATGCTCGGTTAGGGG
1 GCCTGACCCAGCAAAGCATGCCCGGTTAGGGG
639665 GCCTGACCCAGCAAAGCATGCCCGGTTAGGGG
1 GCCTGACCCAGCAAAGCATGCCCGGTTAGGGG
*
639697 GCCTAACCCA
1 GCCTGACCCA
639707 ACCCGAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.23, C:0.32, G:0.31, T:0.14
Consensus pattern (32 bp):
GCCTGACCCAGCAAAGCATGCCCGGTTAGGGG
Found at i:642598 original size:23 final size:23
Alignment explanation
Indices: 642572--642616 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
642562 CACCACAGCT
*
642572 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
642595 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
642617 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:642853 original size:149 final size:146
Alignment explanation
Indices: 642595--642895 Score: 514
Period size: 149 Copynumber: 2.0 Consensus size: 146
642585 CGAAGTGCCC
*
642595 CGTAGAATTGCACCGTAGTGCCATATAATGATGTACATAGGACCACATAGAATTCTTTAAGAATC
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTACATAGGACCACATAGAATTCTTTAAGAATC
*
642660 ATATACATATGCTAGGATCAAGTATGTGTCTTTTCCAGACTTCACACATGTTCCAAAGAATATAC
66 ATATACATATGCTAGGATCAAGTATGTGTCTTTTCCAGACTTCACACATGTTCCAAAG--CATAC
642725 ATATGTCCCGAAGAACCG
129 ATATGTCCCGAAGAACCG
*
642743 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTACAT-AGGACCACATAGAATTCTTTAAGAAT
* *
642808 CATATACATATGCTAGGGATCAAGTATGTGTC-TTTCTATACTTCACACATGTTCCAAAGCATAC
65 CATATACATATGCTA-GGATCAAGTATGTGTCTTTTCCAGACTTCACACATGTTCCAAAGCATAC
642872 ATATGTCCCGAAGAACCG
129 ATATGTCCCGAAGAACCG
642890 CGTAGA
1 CGTAGA
642896 CCCTCGACTC
Statistics
Matches: 146, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
147 28 0.19
148 36 0.25
149 66 0.45
150 16 0.11
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (146 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTACATAGGACCACATAGAATTCTTTAAGAATC
ATATACATATGCTAGGATCAAGTATGTGTCTTTTCCAGACTTCACACATGTTCCAAAGCATACAT
ATGTCCCGAAGAACCG
Found at i:647904 original size:30 final size:30
Alignment explanation
Indices: 647868--647926 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
647858 CTTCAGAAGG
*
647868 TTCAAGTGCCCCACAGAGAAAATGCATCAA
1 TTCAAGTGCCCCAAAGAGAAAATGCATCAA
* *
647898 TTCAAGTGCTCCAAAGAGAAAATGTATCA
1 TTCAAGTGCCCCAAAGAGAAAATGCATCA
647927 GTTTGAACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (30 bp):
TTCAAGTGCCCCAAAGAGAAAATGCATCAA
Found at i:649263 original size:16 final size:18
Alignment explanation
Indices: 649230--649264 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
649220 AATTAACCCG
649230 CCTTCTGAGCTATGTTTT
1 CCTTCTGAGCTATGTTTT
649248 CCTTCTGA-CT-TGTTTT
1 CCTTCTGAGCTATGTTTT
649264 C
1 C
649265 TGTCCTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 2 0.12
18 8 0.47
ACGTcount: A:0.09, C:0.26, G:0.14, T:0.51
Consensus pattern (18 bp):
CCTTCTGAGCTATGTTTT
Found at i:651393 original size:11 final size:11
Alignment explanation
Indices: 651377--651405 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
651367 GAATTCATGT
651377 TTTGTTTTAAC
1 TTTGTTTTAAC
651388 TTTGTTTTAAC
1 TTTGTTTTAAC
651399 TTTGTTT
1 TTTGTTT
651406 GCTCTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.07, G:0.10, T:0.69
Consensus pattern (11 bp):
TTTGTTTTAAC
Found at i:652092 original size:160 final size:160
Alignment explanation
Indices: 651921--652536 Score: 852
Period size: 160 Copynumber: 3.9 Consensus size: 160
651911 AAGATTGTTG
* * * * * * *
651921 GATGAGTGAAAATAAAT-TACTGAGATTAATAGTAAGAAATTAGAAGATATTCATTGGGAAAAGA
1 GATGAGTGAAAATAGATGT-CTGATATTAACAGTATGAAATGAGAAGATATTCACTGGAAAAAGA
* * *
651985 ATATAATGAGTCAATCTCAGCCATTTATTTTCACTCATCTAACAGTCCTAAATTTATGTAAAACT
65 ATATAATGAGTCAATCTCAACCATCTATTTTCACTCATCTAACGGTCCTAAATTTATGTAAAACT
*
652050 AAAAGAGTTTTAAACACATTTAGGACCGTTA
130 AAAAGAGTTTTAAACAAATTTAGGACCGTTA
* *
652081 GATGAGTGAAAATAGATGTTTGATATTAACAGTATGAAATGAGAAGATATTCGCTGGAAAAAGAA
1 GATGAGTGAAAATAGATGTCTGATATTAACAGTATGAAATGAGAAGATATTCACTGGAAAAAGAA
** *
652146 TATAATGAGTCAATCTCAGTCATCTATTTTCACTCATCTAACGGTCCTAAATTTATGAAAAACTA
66 TATAATGAGTCAATCTCAACCATCTATTTTCACTCATCTAACGGTCCTAAATTTATGTAAAACTA
* * *
652211 AAAGAGCTTTAAACAAATTTAGAACAGTTA
131 AAAGAGTTTTAAACAAATTTAGGACCGTTA
* * *
652241 GATGAGTGAAAATAGATGTCTGATATTAACAATAGGAAATGAGAATATATTCACTGGAAAAAGAA
1 GATGAGTGAAAATAGATGTCTGATATTAACAGTATGAAATGAGAAGATATTCACTGGAAAAAGAA
* *
652306 TATAATGAGTCAATCTCAATCATCTATTTTCACTCATCTAACGGTCCTAAATTTATGTGAAACTA
66 TATAATGAGTCAATCTCAACCATCTATTTTCACTCATCTAACGGTCCTAAATTTATGTAAAACTA
* *
652371 AAAGAGTTTTAAACATATTTAAGACCGTTA
131 AAAGAGTTTTAAACAAATTTAGGACCGTTA
*
652401 GATGAGTGAAAATAGATGTCTGATATTAACAGTATG-AATGAGAAGATATTCACT-GAGAAA-AA
1 GATGAGTGAAAATAGATGTCTGATATTAACAGTATGAAATGAGAAGATATTCACTGGAAAAAGAA
* * * * * *
652463 -AT-A-GAGTTAATCTCAACCATCTATTTTCACTCATATAATGATCCTATAAATCTGTGTAAAAC
66 TATAATGAGTCAATCTCAACCATCTATTTTCACTCATCTAACGGTCC--TAAATTTATGTAAAAC
652525 TAAAA-AGTTTTA
129 TAAAAGAGTTTTA
652537 CTGTATAAGT
Statistics
Matches: 411, Mismatches: 42, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
154 36 0.09
155 8 0.02
156 20 0.05
157 2 0.00
158 5 0.01
159 17 0.04
160 322 0.78
161 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (160 bp):
GATGAGTGAAAATAGATGTCTGATATTAACAGTATGAAATGAGAAGATATTCACTGGAAAAAGAA
TATAATGAGTCAATCTCAACCATCTATTTTCACTCATCTAACGGTCCTAAATTTATGTAAAACTA
AAAGAGTTTTAAACAAATTTAGGACCGTTA
Found at i:654710 original size:14 final size:14
Alignment explanation
Indices: 654691--654719 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
654681 AGGAGCGGTG
654691 GATGAGTTAAAATA
1 GATGAGTTAAAATA
654705 GATGAGTTAAAATA
1 GATGAGTTAAAATA
654719 G
1 G
654720 GTGGCTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (14 bp):
GATGAGTTAAAATA
Found at i:661833 original size:16 final size:16
Alignment explanation
Indices: 661808--661852 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
661798 TAATAAATAA
*
661808 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
*
661824 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
661840 ACGAACATAAACG
1 ACGAACATAAACG
661853 TTGGAGACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.56, C:0.20, G:0.13, T:0.11
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:662962 original size:14 final size:14
Alignment explanation
Indices: 662945--662988 Score: 88
Period size: 14 Copynumber: 3.1 Consensus size: 14
662935 TGAACATAAG
662945 CGAACATAACCGAA
1 CGAACATAACCGAA
662959 CGAACATAACCGAA
1 CGAACATAACCGAA
662973 CGAACATAACCGAA
1 CGAACATAACCGAA
662987 CG
1 CG
662989 TTCACGAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.48, C:0.30, G:0.16, T:0.07
Consensus pattern (14 bp):
CGAACATAACCGAA
Found at i:663392 original size:2 final size:2
Alignment explanation
Indices: 663385--663436 Score: 63
Period size: 2 Copynumber: 27.0 Consensus size: 2
663375 ATTATAAAAG
* * *
663385 TA TA TA TA -A TT TT TA TA TA TA GA -A 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
663425 TA TA TA TA TA TA
1 TA TA TA TA TA TA
663437 GTAAATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:663402 original size:26 final size:24
Alignment explanation
Indices: 663367--663430 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
663357 GACATTTAAT
663367 ATTTGTATATTATAAAAGTATATATA
1 ATTTGTATA-TATAAAA-TATATATA
* *
663393 ATTTTTATATATAGAATATATATA
1 ATTTGTATATATAAAATATATATA
* *
663417 TATATATATATATA
1 -ATTTGTATATATA
663431 TATATAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 8 0.24
25 17 0.52
26 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (24 bp):
ATTTGTATATATAAAATATATATA
Found at i:664292 original size:2 final size:2
Alignment explanation
Indices: 664285--664319 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
664275 GAATACAACC
664285 AT AT AT AT 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 AT AT AT AT A
664320 GCTGAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:664560 original size:22 final size:22
Alignment explanation
Indices: 664513--664560 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
664503 TTTAGTCAAT
* *
664513 TTATATTACATATATATAACTT
1 TTATATTAAATATATATAACTA
664535 TTATATTAAATATATATATA-TA
1 TTATATTAAATATATATA-ACTA
664557 TTAT
1 TTAT
664561 GAAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATATTAAATATATATAACTA
Found at i:666539 original size:22 final size:21
Alignment explanation
Indices: 666514--666554 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
666504 TTTTAGTTTA
666514 ATTTAG-TCACTGTTAATTTTTG
1 ATTTAGCT-ACTGTT-ATTTTTG
666536 ATTTAGCTACTGTTATTTT
1 ATTTAGCTACTGTTATTTT
666555 AATTTTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 12 0.67
23 1 0.06
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.56
Consensus pattern (21 bp):
ATTTAGCTACTGTTATTTTTG
Found at i:674070 original size:31 final size:32
Alignment explanation
Indices: 674032--674091 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
674022 CAAATCCCCT
*
674032 AAAAATGATGTC-TTTAAGAATTGAACCGCTA
1 AAAAATGATGCCTTTTAAGAATTGAACCGCTA
*
674063 AAAAATGATGCCTTTTAAGTATTGAACCG
1 AAAAATGATGCCTTTTAAGAATTGAACCG
674092 AAATCTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (32 bp):
AAAAATGATGCCTTTTAAGAATTGAACCGCTA
Found at i:678929 original size:6 final size:6
Alignment explanation
Indices: 678918--678944 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
678908 TATATCAAAG
678918 ATAAAA ATAAAA ATAAAA ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATA
678945 GAACAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:679246 original size:21 final size:21
Alignment explanation
Indices: 679222--679292 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
679212 ATAAACGAGG
679222 GACCAACATGCAAGTTTTCTA
1 GACCAACATGCAAGTTTTCTA
679243 GACCAACATGCAAGTTTTCTA
1 GACCAACATGCAAGTTTTCTA
* * *
679264 GATCAACATGCAAGCTTTATA
1 GACCAACATGCAAGTTTTCTA
*
679285 AACCAACA
1 GACCAACA
679293 GCCAAGATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (21 bp):
GACCAACATGCAAGTTTTCTA
Found at i:679890 original size:4 final size:4
Alignment explanation
Indices: 679877--679905 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
679867 GTAAAAAGAG
679877 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
679906 TGGTTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:680445 original size:20 final size:20
Alignment explanation
Indices: 680422--680464 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
680412 GTTTCCATAT
*
680422 TCGCAACGTGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
680442 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
680462 TCG
1 TCG
680465 TAACATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:680487 original size:60 final size:60
Alignment explanation
Indices: 680420--680608 Score: 156
Period size: 60 Copynumber: 3.1 Consensus size: 60
680410 CAGTTTCCAT
* * *
680420 ATTCGCAACGTGAATCTGT-AAA-TCGCAACGCGAATTTGT-AAA-TCGTAACATAGAAGTCAA
1 ATTCGCAACGTGAA--TGTCAAATTCACAACGCG-A-TAGTCAAATTCGTAACACAGAAGTCAA
**
680480 ATTCGCAACACAGAA-GTCAAATTCACAACGCGATAGTCAAATTCGTAACACAGAAGTCAA
1 ATTCGCAAC-GTGAATGTCAAATTCACAACGCGATAGTCAAATTCGTAACACAGAAGTCAA
* * * * * ** *
680540 ATTCGCAACGCTGAATTTCAAATTCGCAACACAAAAGTCAAATTCACAACGC-GAAAGTCAA
1 ATTCGCAACG-TGAATGTCAAATTCACAACGCGATAGTCAAATTCGTAACACAG-AAGTCAA
680601 ATTCGCAA
1 ATTCGCAA
680609 AGCGTGTTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
58 5 0.05
59 7 0.07
60 48 0.45
61 46 0.43
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.21
Consensus pattern (60 bp):
ATTCGCAACGTGAATGTCAAATTCACAACGCGATAGTCAAATTCGTAACACAGAAGTCAA
Found at i:680494 original size:20 final size:20
Alignment explanation
Indices: 680466--680608 Score: 155
Period size: 20 Copynumber: 7.1 Consensus size: 20
680456 TGTAAATCGT
*
680466 AACATAGAAGTCAAATTCGC
1 AACACAGAAGTCAAATTCGC
*
680486 AACACAGAAGTCAAATTCAC
1 AACACAGAAGTCAAATTCGC
* *
680506 AACGC-GATAGTCAAATTCGT
1 AACACAGA-AGTCAAATTCGC
680526 AACACAGAAGTCAAATTCGC
1 AACACAGAAGTCAAATTCGC
* * *
680546 AACGCTGAATTTCAAATTCGC
1 AACACAGAA-GTCAAATTCGC
* *
680567 AACACAAAAGTCAAATTCAC
1 AACACAGAAGTCAAATTCGC
*
680587 AACGC-GAAAGTCAAATTCGC
1 AACACAG-AAGTCAAATTCGC
680607 AA
1 AA
680609 AGCGTGTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.02
20 81 0.80
21 18 0.18
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.19
Consensus pattern (20 bp):
AACACAGAAGTCAAATTCGC
Found at i:680518 original size:40 final size:39
Alignment explanation
Indices: 680472--680608 Score: 202
Period size: 40 Copynumber: 3.4 Consensus size: 39
680462 TCGTAACATA
680472 GAAGTCAAATTCGCAACACAGAAGTCAAATTCACAACGC
1 GAAGTCAAATTCGCAACACAGAAGTCAAATTCACAACGC
* *
680511 GATAGTCAAATTCGTAACACAGAAGTCAAATTCGCAACGC
1 GA-AGTCAAATTCGCAACACAGAAGTCAAATTCACAACGC
* *
680551 TGAATTTCAAATTCGCAACACAAAAGTCAAATTCACAACGC
1 -GAA-GTCAAATTCGCAACACAGAAGTCAAATTCACAACGC
680592 GAAAGTCAAATTCGCAA
1 G-AAGTCAAATTCGCAA
680609 AGCGTGTTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
39 2 0.02
40 49 0.56
41 36 0.41
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (39 bp):
GAAGTCAAATTCGCAACACAGAAGTCAAATTCACAACGC
Found at i:680792 original size:22 final size:22
Alignment explanation
Indices: 680767--680817 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
680757 CTACGGTGAC
680767 ATCCGTCCCCATCTCC-GACGAA
1 ATCCGTCCCCATCTCCTG-CGAA
680789 ATCCGTCCCCATCTCCTGCGAA
1 ATCCGTCCCCATCTCCTGCGAA
680811 ATCCGTC
1 ATCCGTC
680818 TATCTCCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.20, C:0.45, G:0.14, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCTGCGAA
Found at i:681219 original size:14 final size:14
Alignment explanation
Indices: 681197--681228 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
681187 GCGATTTTAG
681197 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
*
681211 TTTCTCGTTGCGAT
1 TTTCGCGTTGCGAT
681225 TTTC
1 TTTC
681229 ATTTTCGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.22, G:0.22, T:0.50
Consensus pattern (14 bp):
TTTCGCGTTGCGAT
Found at i:682657 original size:21 final size:21
Alignment explanation
Indices: 682603--682701 Score: 103
Period size: 21 Copynumber: 4.7 Consensus size: 21
682593 GATGCTCCTA
* *
682603 TCATCTTTCAAGAGGCGCCTC
1 TCATCATTCAAGAGGCCCCTC
*
682624 -CTATCCTTCAAGAGGCCCCTC
1 TC-ATCATTCAAGAGGCCCCTC
682645 TCATCA-TCTAAGAGGCCCCTC
1 TCATCATTC-AAGAGGCCCCTC
* * *
682666 CCACCATTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGCCCCTC
*
682687 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
682702 TCCCACCCGC
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
20 3 0.05
21 59 0.91
22 3 0.05
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTC
Found at i:682700 original size:42 final size:41
Alignment explanation
Indices: 682603--682701 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 41
682593 GATGCTCCTA
* *
682603 TCATCTTTCAAGAGGCGCCTCCTATCCTTCAAGAGGCCCCTC
1 TCATC-TTCAAGAGGCCCCTCCCATCCTTCAAGAGGCCCCTC
* *
682645 TCATCATCTAAGAGGCCCCTCCCA-CCATTCAAGAGGCCCCTG
1 TCATCTTC-AAGAGGCCCCTCCCATCC-TTCAAGAGGCCCCTC
682687 TCATCGTTCAAGAGG
1 TCATC-TTCAAGAGG
682702 TCCCACCCGC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 4 0.08
42 43 0.88
43 2 0.04
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (41 bp):
TCATCTTCAAGAGGCCCCTCCCATCCTTCAAGAGGCCCCTC
Found at i:684150 original size:14 final size:14
Alignment explanation
Indices: 684131--684168 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
684121 TTTTTTGCTT
684131 GTTGATTTGTAAAA
1 GTTGATTTGTAAAA
684145 GTTGATTTGTAAAA
1 GTTGATTTGTAAAA
684159 GTTGATTTGT
1 GTTGATTTGT
684169 TTAATTGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (14 bp):
GTTGATTTGTAAAA
Found at i:684371 original size:20 final size:20
Alignment explanation
Indices: 684346--684432 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 20
684336 AATTTTCTCG
684346 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
*
684366 TTGCGATAGTCAAATTTGCA
1 TTGCGATAGTCAAATTCGCA
** ** * *
684386 ACGTTAAAGTTAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** * *
684406 ACGCGAAAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCA
684426 TTGCGAT
1 TTGCGAT
684433 TTTCGGTTTG
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:684463 original size:20 final size:20
Alignment explanation
Indices: 684430--684482 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
684420 TTCGCGTTGC
684430 GATTTTCG-GTTTGC-AATTTT
1 GATTTTCGCG-TTGCGAA-TTT
684450 GATTTTCGCGTTGCGAATTT
1 GATTTTCGCGTTGCGAATTT
684470 GACTTTT-GCGTTG
1 GA-TTTTCGCGTTG
684483 GAAATTTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.13, C:0.13, G:0.25, T:0.49
Consensus pattern (20 bp):
GATTTTCGCGTTGCGAATTT
Found at i:684488 original size:20 final size:21
Alignment explanation
Indices: 684447--684495 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
684437 GGTTTGCAAT
684447 TTTGA-TTTTCGCGTTGCGAA
1 TTTGACTTTTCGCGTTGCGAA
684467 TTTGACTTTT-GCGTTG-GAAA
1 TTTGACTTTTCGCGTTGCG-AA
*
684487 TTTAACTTT
1 TTTGACTTT
684496 CGCAACAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 1 0.04
20 21 0.81
21 4 0.15
ACGTcount: A:0.18, C:0.12, G:0.20, T:0.49
Consensus pattern (21 bp):
TTTGACTTTTCGCGTTGCGAA
Found at i:687101 original size:24 final size:24
Alignment explanation
Indices: 687050--687101 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
687040 ATCCGTGTAT
** *
687050 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
* *
687074 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
687098 TGAC
1 TGAC
687102 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:688646 original size:31 final size:31
Alignment explanation
Indices: 688608--688687 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
688598 ATTGATTTTG
688608 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
688639 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
** * *
688670 TTAAATTTTCTCCCCCTT
1 AAAAACTTACTCCCCCTT
688688 TTTGTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.35, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAACTTACTCCCCCTTACTATAGCACATC
Found at i:690434 original size:14 final size:14
Alignment explanation
Indices: 690415--690444 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
690405 ACTATCACTT
690415 AATTTTAATTTCGA
1 AATTTTAATTTCGA
*
690429 AATTTTAATTTTGA
1 AATTTTAATTTCGA
690443 AA
1 AA
690445 AATTATGTGT
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:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (14 bp):
AATTTTAATTTCGA
Found at i:694779 original size:20 final size:20
Alignment explanation
Indices: 694737--694779 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
694727 TTGTTTTCAT
* *
694737 TTTTTAATTTTGAAACATCG
1 TTTTTAATTTTGAAAAATAG
694757 TTTTTATATTTT-AAAAATAG
1 TTTTTA-ATTTTGAAAAATAG
694777 TTT
1 TTT
694780 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAG
Found at i:697409 original size:14 final size:16
Alignment explanation
Indices: 697373--697410 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
697363 GAAATCATTG
697373 AAAAATTATATAGAAA
1 AAAAATTATATAGAAA
*
697389 TAAAATTAT-TA-AAA
1 AAAAATTATATAGAAA
697403 AAAAATTA
1 AAAAATTA
697411 GAGACGGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 10 0.50
15 2 0.10
16 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAAATTATATAGAAA
Found at i:697607 original size:20 final size:20
Alignment explanation
Indices: 697567--697698 Score: 117
Period size: 19 Copynumber: 6.7 Consensus size: 20
697557 ACTAAAACCT
* *
697567 GTTGCGAAATT-AAATTCGA
1 GTTGCGAATTTGAAAATCGA
*
697586 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAAATCGA
*
697606 GTTGCGAATTTG-AAATCCA
1 GTTGCGAATTTGAAAATCGA
*
697625 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAAATCGA
* * **
697644 GTTGTGAATTTGAAATTTAA
1 GTTGCGAATTTGAAAATCGA
* * *
697664 TGTTGTGAATTTGAAATTCAGT
1 -GTTGCGAATTTGAAAATC-GA
697686 GTTGCGAATTTGA
1 GTTGCGAATTTGA
697699 CTTATGTGTT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
19 44 0.46
20 23 0.24
21 29 0.30
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGA
Found at i:697670 original size:21 final size:21
Alignment explanation
Indices: 697606--697738 Score: 100
Period size: 19 Copynumber: 6.6 Consensus size: 21
697596 CGAAAATCGA
**
697606 GTTGCGAATTTGAAA-TCCA-
1 GTTGCGAATTTGAAATTTAAT
*
697625 GTTGCGAATTTGAAA-TTCA-
1 GTTGCGAATTTGAAATTTAAT
*
697644 GTTGTGAATTTGAAATTTAAT
1 GTTGCGAATTTGAAATTTAAT
* * *
697665 GTTGTGAATTTGAAATTCAGT
1 GTTGCGAATTTGAAATTTAAT
* *
697686 GTTGCGAATTTG--ACTTATGT
1 GTTGCGAATTTGAAATTTA-AT
* **
697706 GTTGCGAATTT-AACTTTTGT
1 GTTGCGAATTTGAAATTTAAT
697726 GTTGCGAATTTGA
1 GTTGCGAATTTGA
697739 CTTCTGTGTT
Statistics
Matches: 97, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
19 35 0.36
20 29 0.30
21 33 0.34
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTTAAT
Found at i:697685 original size:40 final size:38
Alignment explanation
Indices: 697567--697698 Score: 131
Period size: 39 Copynumber: 3.3 Consensus size: 38
697557 ACTAAAACCT
* * * *
697567 GTTGCGAAATT-AAATTCGAGTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAA-TCAAGTTGCGAATTTGAAATTC-A
*
697606 GTTGCGAATTTGAAATCCAGTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATCAAGTTGCGAATTTGAAATTCA
* * *
697644 GTTGTGAATTTGAAATTTAATGTTGTGAATTTGAAATTCA
1 GTTGCGAATTTGAAA-TCAA-GTTGCGAATTTGAAATTCA
697684 GTGTTGCGAATTTGA
1 --GTTGCGAATTTGA
697699 CTTATGTGTT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
38 15 0.19
39 31 0.39
40 21 0.27
42 12 0.15
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (38 bp):
GTTGCGAATTTGAAATCAAGTTGCGAATTTGAAATTCA
Found at i:697709 original size:20 final size:20
Alignment explanation
Indices: 697684--697772 Score: 142
Period size: 20 Copynumber: 4.5 Consensus size: 20
697674 TTGAAATTCA
697684 GTGTTGCGAATTTGACTTAT
1 GTGTTGCGAATTTGACTTAT
* *
697704 GTGTTGCGAATTTAACTTTT
1 GTGTTGCGAATTTGACTTAT
*
697724 GTGTTGCGAATTTGACTTCT
1 GTGTTGCGAATTTGACTTAT
*
697744 GTGTTACGAATTTGACTTAT
1 GTGTTGCGAATTTGACTTAT
697764 GTGTTGCGA
1 GTGTTGCGA
697773 TTTACAAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.45
Consensus pattern (20 bp):
GTGTTGCGAATTTGACTTAT
Found at i:697759 original size:60 final size:60
Alignment explanation
Indices: 697664--697776 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
697654 TGAAATTTAA
* *
697664 TGTTGTGAATTTGAAATTCAGTGTTGCGAATTTGACTTATGTGTTGCGAATTTAACTTTTG
1 TGTTGCGAATTTGAAATTCAGTGTTACGAATTTGACTTATGTGTTGCG-ATTTAACTTTTG
* *
697725 TGTTGCGAATTTG-ACTTCTGTGTTACGAATTTGACTTATGTGTTGCGATTTA
1 TGTTGCGAATTTGAAATTCAGTGTTACGAATTTGACTTATGTGTTGCGATTTA
697777 CAAATTCGCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 5 0.10
60 31 0.65
61 12 0.25
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (60 bp):
TGTTGCGAATTTGAAATTCAGTGTTACGAATTTGACTTATGTGTTGCGATTTAACTTTTG
Found at i:697790 original size:60 final size:61
Alignment explanation
Indices: 697665--697797 Score: 171
Period size: 60 Copynumber: 2.2 Consensus size: 61
697655 GAAATTTAAT
* * ** * *
697665 GTTGTGAATTTGAAATTCAGTGTTGCGAATTTGACTTATGTGTTGCGAATTTAACTTTTGT
1 GTTGCGAATTTGAAATTCAGTGTTACGAATTTGACTTATGTGTTGCGAATTTAAAATTCGC
* *
697726 GTTGCGAATTTG-ACTTCTGTGTTACGAATTTGACTTATGTGTTGCG-ATTTACAAATTCGC
1 GTTGCGAATTTGAAATTCAGTGTTACGAATTTGACTTATGTGTTGCGAATTTA-AAATTCGC
697786 GTTGCGAATTTG
1 GTTGCGAATTTG
697798 GAAACTGGGT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
59 5 0.08
60 47 0.75
61 11 0.17
ACGTcount: A:0.22, C:0.11, G:0.23, T:0.44
Consensus pattern (61 bp):
GTTGCGAATTTGAAATTCAGTGTTACGAATTTGACTTATGTGTTGCGAATTTAAAATTCGC
Found at i:697794 original size:40 final size:40
Alignment explanation
Indices: 697684--697797 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
697674 TTGAAATTCA
* * * *
697684 GTGTTGCGAATTTGACTTATGTGTTGCGAATTTAACTTTT
1 GTGTTGCGAATTTGACTTCTGCGTTGCGAATTTGACTTAT
* *
697724 GTGTTGCGAATTTGACTTCTGTGTTACGAATTTGACTTAT
1 GTGTTGCGAATTTGACTTCTGCGTTGCGAATTTGACTTAT
697764 GTGTTGCG-ATTT-ACAAATTC-GCGTTGCGAATTTG
1 GTGTTGCGAATTTGAC---TTCTGCGTTGCGAATTTG
697798 GAAACTGGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.03
39 4 0.06
40 56 0.86
41 3 0.05
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (40 bp):
GTGTTGCGAATTTGACTTCTGCGTTGCGAATTTGACTTAT
Found at i:697814 original size:60 final size:60
Alignment explanation
Indices: 697686--697814 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 60
697676 GAAATTCAGT
** * * ** *
697686 GTTGCGAATTTGACTTATGTGTTGCGAATTTAACTTTTGTGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTATGTGTTGCGAATTTAAAATTCGCGTTGCGAATTTGACAACTGG
*
697746 GTTACGAATTTGACTTATGTGTTGCG-ATTTACAAATTCGCGTTGCGAATTTGGA-AACTGG
1 GTTGCGAATTTGACTTATGTGTTGCGAATTTA-AAATTCGCGTTGCGAATTT-GACAACTGG
697806 GTTGCGAAT
1 GTTGCGAAT
697815 AGGAGTTCGC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
59 5 0.09
60 51 0.88
61 2 0.03
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.41
Consensus pattern (60 bp):
GTTGCGAATTTGACTTATGTGTTGCGAATTTAAAATTCGCGTTGCGAATTTGACAACTGG
Found at i:698566 original size:13 final size:13
Alignment explanation
Indices: 698548--698590 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
698538 CAGATTTGGT
698548 GCTGATGATGGCA
1 GCTGATGATGGCA
* *
698561 GCTGAT-TTGG-T
1 GCTGATGATGGCA
698572 GCTGATGATGGCA
1 GCTGATGATGGCA
698585 GCTGAT
1 GCTGAT
698591 TTGGTGCTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.19, C:0.14, G:0.37, T:0.30
Consensus pattern (13 bp):
GCTGATGATGGCA
Found at i:698567 original size:24 final size:24
Alignment explanation
Indices: 698540--698599 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
698530 ACGAGGAACA
698540 GATTTGGTGCTGATGATGGCAGCT
1 GATTTGGTGCTGATGATGGCAGCT
698564 GATTTGGTGCTGATGATGGCAGCT
1 GATTTGGTGCTGATGATGGCAGCT
698588 GATTTGGTGCTG
1 GATTTGGTGCTG
698600 GCAGCTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.15, C:0.12, G:0.38, T:0.35
Consensus pattern (24 bp):
GATTTGGTGCTGATGATGGCAGCT
Found at i:700533 original size:58 final size:58
Alignment explanation
Indices: 700456--700718 Score: 253
Period size: 58 Copynumber: 4.5 Consensus size: 58
700446 ATGACACTTT
700456 GTGTGCTAAAATGATAAGGAAATCATACTGACTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCT-AAATGATAAGGAAATCATACTGACTGTATAGATTTCCATATGGAGCACTGA
* *
700515 GTGTTCTAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCTAAATGATAAGGAAATCATACTGACTGTATAGATTTCCATATGGAGCACTGA
* * *** * * * *
700573 GTGTGCTATATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGG-GCATTTTA
1 GTGTGCTAAATGATAAGGAAATCATACTGACTGTATAGATTTCCATAT-GGAGCA-CTGA
* * * * * * ** *
700632 -TGTGCTAAAAAGGTAAGGGAATCATATTGAGTGTAT-GAATTTCCAGATAAAGCACTAA
1 GTGTGCT-AAATGATAAGGAAATCATACTGACTGTATAG-ATTTCCATATGGAGCACTGA
* *
700690 GGGTGCTACAAAGATAAGGAAATCATACT
1 GTGTGCTA-AATGATAAGGAAATCATACT
700719 AATGGTATGG
Statistics
Matches: 170, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
58 103 0.61
59 67 0.39
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (58 bp):
GTGTGCTAAATGATAAGGAAATCATACTGACTGTATAGATTTCCATATGGAGCACTGA
Found at i:701004 original size:44 final size:44
Alignment explanation
Indices: 700949--701166 Score: 391
Period size: 44 Copynumber: 4.9 Consensus size: 44
700939 TAAATGAGGT
*
700949 TAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
*
700993 TAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
701037 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
*
701081 TAATGTTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
*
701125 TAAATGGTAAGTATGTTGGTAAAATAAGCTTACGAGCTTATG
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
701167 AGATAAATGG
Statistics
Matches: 167, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
44 129 0.77
45 38 0.23
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (44 bp):
TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
Found at i:702486 original size:219 final size:220
Alignment explanation
Indices: 702099--703175 Score: 1293
Period size: 219 Copynumber: 4.9 Consensus size: 220
702089 TAACCTTGAT
* * * ** *
702099 ATAATTTGGTGTTGAAGACGATACTGCTAATCAATGTTGAAGAGATCT-AACTGCTTTTAGATAA
1 ATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTC-GCTTTTAGGTAA
* * ** *
702163 TTTGTTTGCTGAAGATGAC-ATTGTTCATTCTAATTAAGGAAATTGGGTCAATCTGGAGA-AATT
65 ATTGTTTGCTGAAGATGACGA-TGTTCCTTCTCGTTGAGGAAATTGGGTCAATCTGGAGATAATT
** * ** *
702226 TGGAGACAACACAATTCATTCAAGTTGAGGAAGTCTGATTGTCTGAGGATGACATCGCTCTTTCG
129 TGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACATCGCTCCTTCG
*
702291 CGTTGAGGAGATCATGTCAATATAGAA
194 CGTTGAGGAGATCAGGTCAATATAGAA
* ** *
702318 ATAATTTGATGTTGAAGGTGACACTACTCATCCATGTTGAAGAGATCTGGTCGCTTTTAGGTAAA
1 ATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTCGCTTTTAGGTAAA
**
702383 TTGTTTGCTGAAGATGACGATGTTCCTTCTCGTTGAGGAAATCAGGTCAATCTGGAGATAATTTG
66 TTGTTTGCTGAAGATGACGATGTTCCTTCTCGTTGAGGAAATTGGGTCAATCTGGAGATAATTTG
* * * *
702448 GAGACAACACGGTTCCTTCG-GTTGAAGAAGTTTGATTGTTTGAGGATGACA-CTACTCCTTCGC
131 GAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACATC-GCTCCTTCGC
** * *
702511 GTTGAGGAGATTGGGTTAATCT-GAAA
195 GTTGAGGAGATCAGGTCAATATAG-AA
* * * *
702537 ATAATTTGGTGTTGAAGACGACACTACTCATCCATGTTTAAGAGATCTAGTCTCTTTTAGGTAAA
1 ATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTCGCTTTTAGGTAAA
* * * *
702602 TTGTTTGCTGAAGATGATGATGTTCCTTCTCGATGAGGAAATTAGGTAAATCTGGAGATAATTTG
66 TTGTTTGCTGAAGATGACGATGTTCCTTCTCGTTGAGGAAATTGGGTCAATCTGGAGATAATTTG
* * ** * * *
702667 GAGACAACACGATTCCTTTGCACTGAGGAAGT-TGATTGTCTGAGGATGACATTGTTCCTTC-AG
131 GAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACATCGCTCCTTCGCG
*
702730 TTGAGGAGATCGGGTCAATATAGAA
196 TTGAGGAGATCAGGTCAATATAGAA
* * * *
702755 ATAATTTGGTGTTGAAGACGACACTGCTCATCAATGTTGAAGAGATCTGGTCACTTTCAGATAAA
1 ATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTCGCTTTTAGGTAAA
* * **
702820 TTGCTTGCTGAAGAT---GATGTTCCTTCTCGTTGTGGAAATTGGGTCAATCTGGAGATAATTCC
66 TTGTTTGCTGAAGATGACGATGTTCCTTCTCGTTGAGGAAATTGGGTCAATCTGGAGATAATTTG
* ** * * *
702882 GAGACAACACGGTTTCTTCGTATTGAGGAAGTCTGATTGTCTGAGGATGGCA-CTCTCTTTCGCG
131 GAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACATCGCTCCTTCGCG
* *
702946 TTGAGGAGAT-ATGGTCAATCTGGAA
196 TTGAGGAGATCA-GGTCAATATAGAA
* * *
702971 ATACTTTGGTGTTGAAGACGAAACTGCTCATCCATGTTGAAGAGATCTGGTC-ATTTTCAGGTAA
1 ATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTCGCTTTT-AGGTAA
* * * * * *
703035 ATTGTTTGCTGAAGATGACGTTGTTCCTTATTGTTGAGGAAATCGGGCCAATCTGAAGATAATTT
65 ATTGTTTGCTGAAGATGACGATGTTCCTTCTCGTTGAGGAAATTGGGTCAATCTGGAGATAATTT
* * **
703100 AGAGACAACATGGTTCCTTCGCGTAAAGGAAGTCTGATTGTCTGAGGATGAC-TCTGCTCCTTCG
130 GGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACATC-GCTCCTTCG
703164 CGTTGAGGAGAT
194 CGTTGAGGAGAT
703176 ATGGTCAGTG
Statistics
Matches: 734, Mismatches: 107, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
215 76 0.10
216 109 0.15
218 95 0.13
219 403 0.55
220 51 0.07
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (220 bp):
ATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTCGCTTTTAGGTAAA
TTGTTTGCTGAAGATGACGATGTTCCTTCTCGTTGAGGAAATTGGGTCAATCTGGAGATAATTTG
GAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACATCGCTCCTTCGCG
TTGAGGAGATCAGGTCAATATAGAA
Found at i:703003 original size:434 final size:435
Alignment explanation
Indices: 702099--703175 Score: 1368
Period size: 434 Copynumber: 2.5 Consensus size: 435
702089 TAACCTTGAT
* * * * *
702099 ATAATTTGGTGTTGAAGACGATACTGCTAATCAATGTTGAAGAGATCTA-ACTGCTTTTAGATAA
1 ATAATTTGGTGTTGAAGACGAAACTGCTCATCCATGTTGAAGAGATCTAGTCT-CTTTTAGGTAA
* * * * *
702163 TTTGTTTGCTGAAGATGACATTGTTCATTCTAATTAAGGAAATTGGGTCAATCTGGAGA-AATTT
65 ATTGTTTGCTGAAGATGAGA-TGTTCCTTCTGA-TGAGGAAATTGGGTCAATCTGGAGATAATTT
* * * * *
702227 GGAGACAACACAATT-CATT-CAAGTTGAGGAAGTCTGATTGTCTGAGGATGACATCGCTCTTTC
128 GGAGACAACACGATTCCTTTGC-A-CTGAGGAAGTCTGATTGTCTGAGGATGACATTGCTCCTTC
* ** *
702290 GCGTTGAGGAGATCATGTCAATATAGAAATAATTTGATGTTGAAGGTGACACTACTCATCCATGT
191 GCGTTGAGGAGATCAGGTCAATATAGAAATAATTTGATGTTGAAGACGACACTACTCATCAATGT
* * * *
702355 TGAAGAGATCTGGTCGCTTTTAGGTAAATTGTTTGCTGAAGATGACGATGTTCCTTCTCGTTGAG
256 TGAAGAGATCTGGTCACTTTCAGATAAATTGCTTGCTGAAGAT-A-GATGTTCCTTCTCGTTGAG
** * *
702420 GAAATCAGGTCAATCTGGAGATAATTTGGAGACAACACGGTTCCTTCGGTTGAAGAAGTTTGATT
319 GAAATCAGGTCAATCTGGAGATAATTCCGAGACAACACGGTTCCTTCGATTGAAGAAGTCTGATT
* *
702485 GTTTGAGGATGACACTACTCCTTCGCGTTGAGGAGATTGGGTTAATCTGAAA
384 GTCTGAGGATGACACTACTCCTTCGCGTTGAGGAGATTGGGTCAATCTGAAA
* * *
702537 ATAATTTGGTGTTGAAGACGACACTACTCATCCATGTTTAAGAGATCTAGTCTCTTTTAGGTAAA
1 ATAATTTGGTGTTGAAGACGAAACTGCTCATCCATGTTGAAGAGATCTAGTCTCTTTTAGGTAAA
* *
702602 TTGTTTGCTGAAGATGATGATGTTCCTTCTCGATGAGGAAATTAGGTAAATCTGGAGATAATTTG
66 TTGTTTGCTGAAGATGA-GATGTTCCTTCT-GATGAGGAAATTGGGTCAATCTGGAGATAATTTG
* *
702667 GAGACAACACGATTCCTTTGCACTGAGGAAGT-TGATTGTCTGAGGATGACATTGTTCCTTC-AG
129 GAGACAACACGATTCCTTTGCACTGAGGAAGTCTGATTGTCTGAGGATGACATTGCTCCTTCGCG
* * *
702730 TTGAGGAGATCGGGTCAATATAGAAATAATTTGGTGTTGAAGACGACACTGCTCATCAATGTTGA
194 TTGAGGAGATCAGGTCAATATAGAAATAATTTGATGTTGAAGACGACACTACTCATCAATGTTGA
*
702795 AGAGATCTGGTCACTTTCAGATAAATTGCTTGCTGAAGAT-GATGTTCCTTCTCGTTGTGGAAAT
259 AGAGATCTGGTCACTTTCAGATAAATTGCTTGCTGAAGATAGATGTTCCTTCTCGTTGAGGAAAT
** * *
702859 TGGGTCAATCTGGAGATAATTCCGAGACAACACGGTTTCTTCGTATTGAGGAAGTCTGATTGTCT
324 CAGGTCAATCTGGAGATAATTCCGAGACAACACGGTTCCTTCG-ATTGAAGAAGTCTGATTGTCT
* * *
702924 GAGGATGGCACT-CTCTTTCGCGTTGAGGAGATAT-GGTCAATCTGGAA
388 GAGGATGACACTACTCCTTCGCGTTGAGGAGAT-TGGGTCAATCTGAAA
* * *
702971 ATACTTTGGTGTTGAAGACGAAACTGCTCATCCATGTTGAAGAGATCTGGTCAT-TTTCAGGTAA
1 ATAATTTGGTGTTGAAGACGAAACTGCTCATCCATGTTGAAGAGATCTAGTC-TCTTTTAGGTAA
* * * * * *
703035 ATTGTTTGCTGAAGATGACGTTGTTCCTTATTGTTGAGGAAATCGGGCCAATCTGAAGATAATTT
65 ATTGTTTGCTGAAGATGA-GATGTTCCTT-CTGATGAGGAAATTGGGTCAATCTGGAGATAATTT
* * * * * *
703100 AGAGACAACATGGTTCCTTCGC-GTAAAGGAAGTCTGATTGTCTGAGGATGAC-TCTGCTCCTTC
128 GGAGACAACACGATTCCTTTGCACT-GAGGAAGTCTGATTGTCTGAGGATGACAT-TGCTCCTTC
703163 GCGTTGAGGAGAT
191 GCGTTGAGGAGAT
703176 ATGGTCAGTG
Statistics
Matches: 556, Mismatches: 69, Indels: 30
0.85 0.11 0.05
Matches are distributed among these distances:
433 1 0.00
434 227 0.41
435 57 0.10
436 11 0.02
437 95 0.17
438 128 0.23
439 32 0.06
440 4 0.01
441 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (435 bp):
ATAATTTGGTGTTGAAGACGAAACTGCTCATCCATGTTGAAGAGATCTAGTCTCTTTTAGGTAAA
TTGTTTGCTGAAGATGAGATGTTCCTTCTGATGAGGAAATTGGGTCAATCTGGAGATAATTTGGA
GACAACACGATTCCTTTGCACTGAGGAAGTCTGATTGTCTGAGGATGACATTGCTCCTTCGCGTT
GAGGAGATCAGGTCAATATAGAAATAATTTGATGTTGAAGACGACACTACTCATCAATGTTGAAG
AGATCTGGTCACTTTCAGATAAATTGCTTGCTGAAGATAGATGTTCCTTCTCGTTGAGGAAATCA
GGTCAATCTGGAGATAATTCCGAGACAACACGGTTCCTTCGATTGAAGAAGTCTGATTGTCTGAG
GATGACACTACTCCTTCGCGTTGAGGAGATTGGGTCAATCTGAAA
Found at i:703381 original size:137 final size:138
Alignment explanation
Indices: 703092--703615 Score: 644
Period size: 139 Copynumber: 3.8 Consensus size: 138
703082 CCAATCTGAA
* * * * *
703092 GATAATTTAGAGACAACATGGTTCCTTCGCG-TAAAGGAAGTCTGATTGTCTGAGGATGAC-TCT
1 GATAATTTAGAGACAACACGGTTCCTACGTGAT-AAGAAAGTCTGATTGCCTGAGGATGACGT-T
* * * * *
703155 GCTCCT-TCGCGTTGAGGAGATATGGTCAGTGGATAACATTGTTTCTACGTGATAAGGATGTCTA
64 GCTCCTAT-GCGTTGAGGAGATCTGGTC-GTGGATGACATTGTTCCTACGTGATGAGGACGTCTA
*
703219 GCCGTCTTTAGG
127 GCAGTCTTTAGG
* * *
703231 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGCCTGAGAATGACGTTGC
1 GATAATTTAGAGACAACACGGTTCCTACGTGATAAGAAAGTCTGATTGCCTGAGGATGACGTTGC
* * *
703296 TTCTATGAGTTGAGGAGATCTGGT-GTGGACGACATTGTTCCTACGTGATGAGGACGTCTAGCAG
66 TCCTATGCGTTGAGGAGATCTGGTCGTGGATGACATTGTTCCTACGTGATGAGGACGTCTAGCAG
703360 TCTTTAGG
131 TCTTTAGG
* * * *
703368 GATAATTTAGAGACAACACGGTTCCTACATGATAAGGAAGTCTGATTACCTGAGGATGATGTTGC
1 GATAATTTAGAGACAACACGGTTCCTACGTGATAAGAAAGTCTGATTGCCTGAGGATGACGTTGC
*
703433 TCCTATGCGTTGAGGAGATCTGGTCAGTGGAAGACATTGTTCCTACGTGATGAGGACGTCTAGCC
66 TCCTATGCGTTGAGGAGATCTGGTC-GTGGATGACATTGTTCCTACGTGATGAGGACGTCTAG-C
*
703498 A-TCTTTATG
129 AGTCTTTAGG
* * * * * * * *
703507 GATAATTTGGAAACAACACGATTCCTACCTGATGAGAAAGTATGATTGCCTAAGGATGACGCTGC
1 GATAATTTAGAGACAACACGGTTCCTACGTGATAAGAAAGTCTGATTGCCTGAGGATGACGTTGC
* * *
703572 TCTTATGCGTTGAGAAGATCTGGTCGGTGGATGACATTGCTCCT
66 TCCTATGCGTTGAGGAGATCTGGTC-GTGGATGACATTGTTCCT
703616 TTATGTTGAG
Statistics
Matches: 335, Mismatches: 44, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
137 122 0.36
139 208 0.62
140 5 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (138 bp):
GATAATTTAGAGACAACACGGTTCCTACGTGATAAGAAAGTCTGATTGCCTGAGGATGACGTTGC
TCCTATGCGTTGAGGAGATCTGGTCGTGGATGACATTGTTCCTACGTGATGAGGACGTCTAGCAG
TCTTTAGG
Found at i:703593 original size:276 final size:277
Alignment explanation
Indices: 703092--703615 Score: 736
Period size: 276 Copynumber: 1.9 Consensus size: 277
703082 CCAATCTGAA
* * * **
703092 GATAATTTAGAGACAACATGGTTCCTTCGCGTAAAGGAAGTCTGATTGTCTGAGGATGACTCTGC
1 GATAATTTAGAGACAACACGGTTCCTACACGTAAAGGAAGTCTGATTACCTGAGGATGACTCTGC
* *
703157 TCCTTCGCGTTGAGGAGATATGGTCAGTGGATAACATTGTTTCTACGTGATAAGGATGTCTAGCC
66 TCCTTCGCGTTGAGGAGATATGGTCAGTGGATAACATTGTTCCTACGTGATAAGGACGTCTAGCC
* * * * * *
703222 GTCTTTAGGGATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGCCTGAGAA
131 ATCTTTAGGGATAATTTGGAAACAACACGATTCCTACCTGATGAGAAAGTATGATTGCCTAAGAA
* * *
703287 TGACGTTGCTTCTATGAGTTGAGGAGATCTGGT-GTGGACGACATTGTTCCTACGTGATGAGGAC
196 TGACGCTGCTTCTATGAGTTGAGAAGATCTGGTCGTGGACGACATTGCTCCTACGTGATGAGGAC
703351 GTCTAGCAGTCTTTAGG
261 GTCTAGCAGTCTTTAGG
* *
703368 GATAATTTAGAGACAACACGGTTCCTACATG-ATAAGGAAGTCTGATTACCTGAGGATGA-TGTT
1 GATAATTTAGAGACAACACGGTTCCTACACGTA-AAGGAAGTCTGATTACCTGAGGATGACT-CT
* *
703431 GCTCCTAT-GCGTTGAGGAGATCTGGTCAGTGGA-AGACATTGTTCCTACGTGATGAGGACGTCT
64 GCTCCT-TCGCGTTGAGGAGATATGGTCAGTGGATA-ACATTGTTCCTACGTGATAAGGACGTCT
*
703494 AGCCATCTTTATGGATAATTTGGAAACAACACGATTCCTACCTGATGAGAAAGTATGATTGCCTA
127 AGCCATCTTTAGGGATAATTTGGAAACAACACGATTCCTACCTGATGAGAAAGTATGATTGCCTA
* * *
703559 AGGATGACGCTGC-TCTTATGCGTTGAGAAGATCTGGTCGGTGGATGACATTGCTCCT
192 AGAATGACGCTGCTTC-TATGAGTTGAGAAGATCTGGTC-GTGGACGACATTGCTCCT
703616 TTATGTTGAG
Statistics
Matches: 217, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
275 5 0.02
276 195 0.90
277 1 0.00
278 16 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (277 bp):
GATAATTTAGAGACAACACGGTTCCTACACGTAAAGGAAGTCTGATTACCTGAGGATGACTCTGC
TCCTTCGCGTTGAGGAGATATGGTCAGTGGATAACATTGTTCCTACGTGATAAGGACGTCTAGCC
ATCTTTAGGGATAATTTGGAAACAACACGATTCCTACCTGATGAGAAAGTATGATTGCCTAAGAA
TGACGCTGCTTCTATGAGTTGAGAAGATCTGGTCGTGGACGACATTGCTCCTACGTGATGAGGAC
GTCTAGCAGTCTTTAGG
Found at i:704011 original size:103 final size:100
Alignment explanation
Indices: 703824--704074 Score: 283
Period size: 103 Copynumber: 2.5 Consensus size: 100
703814 AAGAGGAGCT
* *
703824 ATCTCAGGTGAGATAAAATTTTGTTTCAAGTGAAAC-ATTTCAAAATTTATGTTTCAAGGAAAAC
1 ATCTCAAGTGAGAT-CAATTTTGTTTCAAGTGAAACAATTTCAAAATTTATGTTTCAAGGAAAAC
* *
703888 TGTCTCAATCGAGAAGAAATTTGTTTTTAAGAAAAAA
65 TGTCTCAA-CGAGAAGAAATTAGTTTTCAAGAAAAAA
* ** * * * *
703925 ATCTCAATTGTTATCAATTTTGTTTCAAGTGGAACAATTTC-CAATTTTTGTGTTACGAGGGAAA
1 ATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAACAATTTCAAAATTTATGT-TT-C-AAGGAAA
* **
703989 ACTGTCTCAA-GAGATATGAAATTAGTTTTCAGGAAAACT
63 ACTGTCTCAACGAGA-A-GAAATTAGTTTTCAAGAAAAAA
*
704028 ATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAATAATTTCAAAATT
1 ATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAACAATTTCAAAATT
704075 CGGGGAAAAC
Statistics
Matches: 123, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
100 27 0.22
101 21 0.17
102 2 0.02
103 69 0.56
104 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (100 bp):
ATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAACAATTTCAAAATTTATGTTTCAAGGAAAACT
GTCTCAACGAGAAGAAATTAGTTTTCAAGAAAAAA
Found at i:707200 original size:27 final size:26
Alignment explanation
Indices: 707170--707227 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
707160 TTGCATGTGC
*
707170 TTTTTGTCTTTTTTTT-CTTCTTT-CT
1 TTTTTTTCTTTTTTTTACTT-TTTGCT
*
707195 TGTTTTTTTTTTTTTTTACTTTTTGCT
1 T-TTTTTTCTTTTTTTTACTTTTTGCT
707222 TTTTTT
1 TTTTTT
707228 ATTTTCGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.04
26 21 0.75
27 6 0.21
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (26 bp):
TTTTTTTCTTTTTTTTACTTTTTGCT
Found at i:707216 original size:24 final size:22
Alignment explanation
Indices: 707178--707232 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
707168 GCTTTTTGTC
* *
707178 TTTTTTTTCTTCTTTCTTGTTTT
1 TTTTTTTTTTTCTTT-TTGCTTT
707201 TTTTTTTTTTTACTTTTTGCTTT
1 TTTTTTTTTTT-CTTTTTGCTTT
*
707224 TTTTATTTT
1 TTTTTTTTT
707233 CGTTTTTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.84
Consensus pattern (22 bp):
TTTTTTTTTTTCTTTTTGCTTT
Found at i:709773 original size:20 final size:20
Alignment explanation
Indices: 709744--709781 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
709734 TTTCAAAGTG
709744 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
709764 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
709782 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:709858 original size:26 final size:26
Alignment explanation
Indices: 709828--709923 Score: 183
Period size: 26 Copynumber: 3.7 Consensus size: 26
709818 TGCACATACC
709828 ATGCATCGATGCACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
709854 ATGCATCGATGCACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
709880 ATGCATCGATGCACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
*
709906 ATGCATCGATGCAGTCAG
1 ATGCATCGATGCACTCAG
709924 GCTTTTTCAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (26 bp):
ATGCATCGATGCACTCAGTGCATTTG
Found at i:715722 original size:43 final size:43
Alignment explanation
Indices: 715672--715753 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
715662 AGTGCATCCT
* *
715672 TTGAATGTGCATCGATTCATCAT-GTTATGCACCGATGCACGCC
1 TTGAATGTGCATCGATGCA-CATGGTCATGCACCGATGCACGCC
*
715715 TTGAATGTGCATCGATGCACATGGTCATGCATCGATGCA
1 TTGAATGTGCATCGATGCACATGGTCATGCACCGATGCA
715754 TCCGTTGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 3 0.09
43 32 0.91
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (43 bp):
TTGAATGTGCATCGATGCACATGGTCATGCACCGATGCACGCC
Found at i:717305 original size:21 final size:21
Alignment explanation
Indices: 717263--717314 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
717253 ACTCCGGGAG
* * *
717263 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCCCGAGCTCCTC
*
717284 CTAGCTCCTCCCGTGCTCCTC
1 CTAGCTCCTCCCGAGCTCCTC
*
717305 CT-CCTCCTCC
1 CTAGCTCCTCC
717315 GGCTCTAGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.08, C:0.50, G:0.13, T:0.29
Consensus pattern (21 bp):
CTAGCTCCTCCCGAGCTCCTC
Found at i:717782 original size:2 final size:2
Alignment explanation
Indices: 717775--717809 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
717765 TTTAAACTTA
717775 AT AT AT AT 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 AT AT AT AT A
717810 GTTTAGTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:718478 original size:20 final size:20
Alignment explanation
Indices: 718449--718486 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
718439 TTTCAAAGTG
718449 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
718469 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
718487 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:718562 original size:91 final size:91
Alignment explanation
Indices: 718447--718620 Score: 244
Period size: 91 Copynumber: 1.9 Consensus size: 91
718437 TTTTTCAAAG
* * *
718447 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CAATTAATTTTTC-AAACATCGAATGCA
1 TGATGCACCGATGCACAAAACCATGCATCGATGCACTC-A-GAATTTTTCAAAACATCGAATGCA
718510 TTTTATGCATCGATGCACTCAGTGCATT
64 TTTTATGCATCGATGCACTCAGTGCATT
* * **
718538 TGATGCATCGATGCACAAAACCATGCATCGATTCACTCAGGCTTTTTCAAAACATCGAATGCATT
1 TGATGCACCGATGCACAAAACCATGCATCGATGCACTCAGAATTTTTCAAAACATCGAATGCATT
*
718603 TTATGCATCGGTGCACTC
66 TTATGCATCGATGCACTC
718621 TTAGTGCACC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 6 0.08
91 66 0.90
92 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (91 bp):
TGATGCACCGATGCACAAAACCATGCATCGATGCACTCAGAATTTTTCAAAACATCGAATGCATT
TTATGCATCGATGCACTCAGTGCATT
Found at i:720138 original size:40 final size:40
Alignment explanation
Indices: 720083--720171 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
720073 ACATCATCCC
*
720083 ACATGCTTTTCTACCCTTATTTGGTTAAATCCTACCCAAA
1 ACATGCTTTTCTACCCTTATTAGGTTAAATCCTACCCAAA
720123 ACATGCTTTTCTACCCTTATTAGGTTAAATCCTACCCAAA
1 ACATGCTTTTCTACCCTTATTAGGTTAAATCCTACCCAAA
*
720163 ATATGCTTT
1 ACATGCTTT
720172 CTGCCCCCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (40 bp):
ACATGCTTTTCTACCCTTATTAGGTTAAATCCTACCCAAA
Found at i:722405 original size:25 final size:25
Alignment explanation
Indices: 722380--722445 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
722370 TTTGTGTAAT
*
722380 AAAACAAAATGTTAGTAAGAACAATA
1 AAAATAAAA-GTTAGTAAGAACAATA
*
722406 AAAATAAAAGTTAGTATGAACAATA
1 AAAATAAAAGTTAGTAAGAACAATA
*
722431 AAATTAAAAAGTTAG
1 AAAAT-AAAAGTTAG
722446 AATGTCAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 19 0.53
26 17 0.47
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.23
Consensus pattern (25 bp):
AAAATAAAAGTTAGTAAGAACAATA
Found at i:722478 original size:32 final size:34
Alignment explanation
Indices: 722418--722487 Score: 108
Period size: 32 Copynumber: 2.1 Consensus size: 34
722408 AATAAAAGTT
*
722418 AGTATGAACAATAAAATTAAAAAGTTAGAATGTC
1 AGTATAAACAATAAAATTAAAAAGTTAGAATGTC
*
722452 AGTATAAACAATAAAA-T-AAAAGTTAGAATGTT
1 AGTATAAACAATAAAATTAAAAAGTTAGAATGTC
722484 AGTA
1 AGTA
722488 AGTTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 18 0.53
33 1 0.03
34 15 0.44
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.27
Consensus pattern (34 bp):
AGTATAAACAATAAAATTAAAAAGTTAGAATGTC
Found at i:722667 original size:29 final size:29
Alignment explanation
Indices: 722611--722667 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
722601 ATAGTTAGAA
** *
722611 TGCAAGAAAATAAAAGTCAGTGGTTAATG
1 TGCAAGAAAATAAAAGTCAGCAGCTAATG
* *
722640 TGCAATAAAATAAAAGTTAGCAGCTAAT
1 TGCAAGAAAATAAAAGTCAGCAGCTAAT
722668 TCAAAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (29 bp):
TGCAAGAAAATAAAAGTCAGCAGCTAATG
Done.