Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004492.1 Hibiscus syriacus cultivar Beakdansim tig00009904_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: 302411
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 2
Found at i:9232 original size:4 final size:4
Alignment explanation
Indices: 9216--9277 Score: 81
Period size: 4 Copynumber: 15.8 Consensus size: 4
9206 GACTGGTATT
* * * *
9216 ATAC ATA- ATAC ATAC ATAC AGAC ATAC AGAC ATAC AGAC ATAC AGAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
9263 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
9278 TCTATATTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 3 0.06
4 46 0.94
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (4 bp):
ATAC
Found at i:15871 original size:4 final size:4
Alignment explanation
Indices: 15862--15887 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
15852 CCGACACGTT
15862 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
15888 ACAAATACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:17124 original size:36 final size:36
Alignment explanation
Indices: 17077--17148 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
17067 TTTCGATCAT
*
17077 CATCAACTATGTTTAAGTTGTAATAACATTGAAAGC
1 CATCAACTATGTTTAAGTTGTAATAACATAGAAAGC
17113 CATCAACTATGTTTAAGTTGTAATAACATAGAAAGC
1 CATCAACTATGTTTAAGTTGTAATAACATAGAAAGC
17149 ATTCTTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (36 bp):
CATCAACTATGTTTAAGTTGTAATAACATAGAAAGC
Found at i:20363 original size:2 final size:2
Alignment explanation
Indices: 20356--20385 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20346 AGCAAATCGC
20356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20386 CTGTATTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24405 original size:3 final size:3
Alignment explanation
Indices: 24397--24440 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
24387 ACAAAATTTG
*
24397 TAA TAA TAA TAT TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24441 ATTAAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24899 original size:83 final size:83
Alignment explanation
Indices: 24758--24933 Score: 255
Period size: 83 Copynumber: 2.1 Consensus size: 83
24748 ACTCGGTTCC
24758 TACGTGATGAGGACGGCTGGTTATCTAGGCGTGACACGGCTCATACGCGATGAAGAGATCTGGTC
1 TACGTGATGAGGACGGCTGGTTATCTAGGCGTGACACGGCTCATACGCGATGAAGAGATCTGGTC
* *
24823 GGGGGATGACACAACTCA
66 AGGAGATGACACAACTCA
* * * * *
24841 TACGTGATGAGGACGGCTTGTTATCTATGG-TTGACACGGCTCCTACGTGATGAGGAGATCTGGT
1 TACGTGATGAGGACGGCTGGTTATCTA-GGCGTGACACGGCTCATACGCGATGAAGAGATCTGGT
**
24905 CAGGAGATGACACGGCTCA
65 CAGGAGATGACACAACTCA
24924 TACGTGATGA
1 TACGTGATGA
24934 AGAGTTCTGG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 81 0.98
84 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (83 bp):
TACGTGATGAGGACGGCTGGTTATCTAGGCGTGACACGGCTCATACGCGATGAAGAGATCTGGTC
AGGAGATGACACAACTCA
Found at i:24928 original size:40 final size:39
Alignment explanation
Indices: 24789--24943 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 39
24779 TATCTAGGCG
* *
24789 TGACACGGCTCATACGCGATGAAGAGATCTGGTCGGGGGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTC-AGGGA
** * * * * *
24829 TGACACAACTCATACGTGATGAGGACG-GCTTGTTATCTATGGT
1 TGACACGGCTCATACGTGATGAAGA-GATC-TG--GTC-AGGGA
* *
24872 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGGAGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGG-GA
*
24912 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCATACGTGATGAAGAGATCTGG
24944 CCATCTTTAG
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
39 2 0.02
40 54 0.61
41 3 0.03
42 3 0.03
43 27 0.30
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (39 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGGGA
Found at i:25381 original size:91 final size:93
Alignment explanation
Indices: 25177--25390 Score: 254
Period size: 91 Copynumber: 2.3 Consensus size: 93
25167 CTCAAAGATT
* * *
25177 TTTCAAAAGGAACAGACTCAAAGATTTTTCTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAAAGAAACA-ACTCAAAGATTTTTCTCAAG-AAAACTGTCTCAAGAGAAACAAAACATTG
* *
25242 TTTCAAAAGAAACAAACTCAAAAATTTTGG
64 GTTCAAAAGAAACAAACTCAAAAATTTTGA
** * * *
25272 TTTCAAAAGAAATGACTCAAAGATTTTT-TCACG-AAATTGTCTTAAGAGAAACAAAACATTGGT
1 TTTCAAAAGAAACAACTCAAAGATTTTTCTCAAGAAAACTGTCTCAAGAGAAACAAAACATTGGT
* *
25335 TCAAAAGAAAC-AACTCAAAGATTTTTTA
66 TCAAAAGAAACAAACTCAAA-AATTTTGA
* *
25363 TTTCAAAAGAAACAACTCACATATTTTT
1 TTTCAAAAGAAACAACTCAAAGATTTTT
25391 ATTTCAAAAG
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
90 8 0.08
91 65 0.64
93 4 0.04
94 14 0.14
95 11 0.11
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.29
Consensus pattern (93 bp):
TTTCAAAAGAAACAACTCAAAGATTTTTCTCAAGAAAACTGTCTCAAGAGAAACAAAACATTGGT
TCAAAAGAAACAAACTCAAAAATTTTGA
Found at i:25399 original size:29 final size:30
Alignment explanation
Indices: 25334--25448 Score: 126
Period size: 29 Copynumber: 3.8 Consensus size: 30
25324 AAAACATTGG
25334 TTCAAAAGAAACAACTCAAAGATTTTTTAT
1 TTCAAAAGAAACAACTCAAAGATTTTTTAT
* *
25364 TTCAAAAGAAACAACTCACATA-TTTTTAT
1 TTCAAAAGAAACAACTCAAAGATTTTTTAT
* *
25393 TTCAAAAGAGAA-AACTCAAAGATAGGTTTTGT
1 TTCAAAAGA-AACAACTCAAAGAT--TTTTTAT
**
25425 TTCAAGGGAAACAATCTCAAAGAT
1 TTCAAAAGAAACAA-CTCAAAGAT
25449 GTTTGTTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
29 24 0.34
30 22 0.31
31 2 0.03
32 14 0.20
33 9 0.13
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (30 bp):
TTCAAAAGAAACAACTCAAAGATTTTTTAT
Found at i:25557 original size:66 final size:66
Alignment explanation
Indices: 25419--25650 Score: 224
Period size: 64 Copynumber: 3.5 Consensus size: 66
25409 CAAAGATAGG
* * * * *
25419 TTTTG-TTTCAAGGGAAACA-ATCTCAAAGATGTTTGT-TTTAATAGAAATTGTCTTAAAAGAGA
1 TTTTGTTTTCAA-AGAAACATA-CTCAAAGAT-TTT-TCTTCAAAAGAAACTGTCTCAAAAGAGA
*
25481 CAAAC
62 CAAAA
* * * * * *
25486 CTTTGTTTTCATAA-AAACAGATTTAAAGATTTTTCTTCAAAAGGAACTGTCTCAAAAGTGACAA
1 TTTTGTTTTCA-AAGAAACATACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAA
25550 AA
65 AA
* * * *
25552 TTTTGTTTCCAAAGAAACATACTCAATGA-TTCT-TTCAAAAGAAACTTTCTCAAAAGAGACAAA
1 TTTTGTTTTCAAAGAAACATACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAAA
25615 A
66 A
*
25616 TTTTGTTATCAAAGAAACATACTCAAAGATTTTTC
1 TTTTGTTTTCAAAGAAACATACTCAAAGATTTTTC
25651 ATTTTGTTAT
Statistics
Matches: 133, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
64 54 0.41
65 9 0.07
66 47 0.35
67 16 0.12
68 6 0.05
69 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (66 bp):
TTTTGTTTTCAAAGAAACATACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAAA
A
Found at i:25655 original size:36 final size:36
Alignment explanation
Indices: 25615--25687 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
25605 AAGAGACAAA
*
25615 ATTTTGTTATCAA-AGAAACATACTCAAAGATTTTTC
1 ATTTTGTTAT-AAGAGAAACAAACTCAAAGATTTTTC
*
25651 ATTTTGTTATAAGTGAAACAAACTCAAAGATTTTTC
1 ATTTTGTTATAAGAGAAACAAACTCAAAGATTTTTC
25687 A
1 A
25688 AGAAAATCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (36 bp):
ATTTTGTTATAAGAGAAACAAACTCAAAGATTTTTC
Found at i:25712 original size:99 final size:100
Alignment explanation
Indices: 25565--25744 Score: 249
Period size: 99 Copynumber: 1.8 Consensus size: 100
25555 TGTTTCCAAA
* * *
25565 GAAACATACTCAATGATTCTTTCAAAAGAAACTTTCTCAAAAGAGACAAAATTTTGTTATC-AAA
1 GAAACAAACTCAAAGATTCTTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTTGTT-TCAAAA
*
25629 GAAACATACTCAAAGATTTTTCATTTTGTTATAAGT
65 GAAACAAACTCAAAGATTTTTCATTTTGTTATAAGT
* * *
25665 GAAACAAACTCAAAGATT-TTTCAAGAA-AATCTGTCTCAAGAGAGACAAAGTTTTGTTTCAAAA
1 GAAACAAACTCAAAGATTCTTTCAA-AAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCAAAA
*
25728 GAAATAAACTCAAAGAT
65 GAAACAAACTCAAAGAT
25745 CATTTGTTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
98 2 0.03
99 50 0.71
100 18 0.26
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (100 bp):
GAAACAAACTCAAAGATTCTTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCAAAAG
AAACAAACTCAAAGATTTTTCATTTTGTTATAAGT
Found at i:25852 original size:36 final size:36
Alignment explanation
Indices: 25812--25949 Score: 172
Period size: 36 Copynumber: 3.8 Consensus size: 36
25802 ATAATTTGGA
*
25812 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
* * *
25848 AAATTGTCTCAAACGACACAAAATTTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
*
25884 AAATTGTCTCAAGCGAGACAACGTTTGTTTTT-GAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
** *
25919 AAAACGATCTCAAGTGAGATCAAC-TTTGTTT
1 AAATTG-TCTCAAGCGAGA-CAACATTTGTTT
25950 AATATGAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
35 7 0.08
36 78 0.88
37 4 0.04
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (36 bp):
AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
Found at i:26236 original size:105 final size:106
Alignment explanation
Indices: 25921--26237 Score: 419
Period size: 107 Copynumber: 3.0 Consensus size: 106
25911 TTTTTGAGAA
*
25921 AACGATCTCAAGTGAGATCAACTTTGTTTAATATGAAAACAAATTTGAAATTTGTATTCTCAAAG
1 AACGATCTCAAGTGAGATCAACTTTGTTTAATGTG-AAACAAATTTGAAATTTGTA-TCTCAAAG
*
25986 GAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAA-AGAAT
64 GAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAAAT
* * * * * *
26028 AACAATCTCAAGTGAGATTAATTTTTGTTTAAAGTGAATCAAATTTGAAATTTGTATATCAAAGG
1 AACGATCTCAAGTGAGATCAA-CTTTGTTTAATGTGAAACAAATTTGAAATTTGTATCTCAAAGG
* * *
26093 AAAAAAATGTCTCAAGCAAGACGAAGTTTGTTTT--AAGAAAAT
65 --AAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAAAT
* *
26135 -ACGATCTCAAATGAGATCAACTTTGTTTAATGTGAAACAAA-TTCAAATTTTGTATCTCAAAGG
1 AACGATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTTGAAA-TTTGTATCTCAAAGG
*
26198 AAAAATGTCTCAAATGAGACGAAATTTGTTTTGAAAGAAA
65 AAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAA
26238 TTGTCTCAAG
Statistics
Matches: 180, Mismatches: 23, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
103 28 0.16
104 5 0.03
105 38 0.21
106 27 0.15
107 42 0.23
108 40 0.22
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (106 bp):
AACGATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTTGAAATTTGTATCTCAAAGGA
AAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAAAT
Found at i:33529 original size:3 final size:3
Alignment explanation
Indices: 33521--33573 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
33511 ACAAAATTTG
*
33521 TAA TAA TAA TAT TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
33568 TAA TAA
1 TAA TAA
33574 ATTAAAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33893 original size:24 final size:22
Alignment explanation
Indices: 33856--33900 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
33846 TAAAATTTTA
33856 ATAAAATATCAAATTGAATAAAAT
1 ATAAAATATCAAA-T-AATAAAAT
* *
33880 ATAAAATTTTAAATAATAAAA
1 ATAAAATATCAAATAATAAAA
33901 ATTGTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 11 0.58
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
ATAAAATATCAAATAATAAAAT
Found at i:33897 original size:17 final size:18
Alignment explanation
Indices: 33845--33903 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
33835 AAGATTTTAC
33845 ATAAAATTTTAATAAAAT
1 ATAAAATTTTAATAAAAT
* *
33863 ATCAAA-TTGAATAAAAT
1 ATAAAATTTTAATAAAAT
*
33880 ATAAAATTTTAA-ATAAT
1 ATAAAATTTTAATAAAAT
33897 A-AAAATT
1 ATAAAATT
33904 GTTTAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 6 0.17
17 20 0.57
18 9 0.26
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAAAATTTTAATAAAAT
Found at i:37967 original size:19 final size:20
Alignment explanation
Indices: 37931--37978 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
37921 TCTAAATCCT
*
37931 TTTTCAAAATTTCATTTTAG
1 TTTTCAAAATTCCATTTTAG
37951 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
37970 CTTTCAAAA
1 TTTTCAAAA
37979 GAAAATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:52163 original size:18 final size:18
Alignment explanation
Indices: 52137--52171 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52127 ACTGAAAATT
* *
52137 TGTCTCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
52155 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
52172 TATCATCCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:56863 original size:36 final size:36
Alignment explanation
Indices: 56810--56928 Score: 166
Period size: 36 Copynumber: 3.3 Consensus size: 36
56800 CATCTTCATA
* *
56810 AGGTATCTATATCGAAAAGGATAATATCGATACCAT
1 AGGTATCGATATAGAAAAGGATAATATCGATACCAT
* *
56846 AGGTATCGATATTGAAAAGGATAGTATCGATACCAT
1 AGGTATCGATATAGAAAAGGATAATATCGATACCAT
* * *
56882 AGATATTGATATAAAAAAGGATAATATCGATACCAT
1 AGGTATCGATATAGAAAAGGATAATATCGATACCAT
*
56918 AAGTATCGATA
1 AGGTATCGATA
56929 CCAGAAGGCA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.28
Consensus pattern (36 bp):
AGGTATCGATATAGAAAAGGATAATATCGATACCAT
Found at i:56924 original size:15 final size:14
Alignment explanation
Indices: 56902--56931 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
56892 ATAAAAAAGG
56902 ATAATATCGATACC
1 ATAATATCGATACC
56916 ATAAGTATCGATACC
1 ATAA-TATCGATACC
56931 A
1 A
56932 GAAGGCAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (14 bp):
ATAATATCGATACC
Found at i:57356 original size:2 final size:2
Alignment explanation
Indices: 57349--57388 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
57339 CATATGTTTG
57349 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57389 GTTATTGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57758 original size:18 final size:18
Alignment explanation
Indices: 57735--57769 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
57725 GGACCTATGG
57735 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCTTCGGGAC
57753 ATAGTGGTCCTTCGGGA
1 ATAGTGGTCCTTCGGGA
57770 TAAATTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (18 bp):
ATAGTGGTCCTTCGGGAC
Found at i:59798 original size:7 final size:7
Alignment explanation
Indices: 59786--59811 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59776 TGTCTCATTT
59786 CTTCTTC
1 CTTCTTC
59793 CTTCTTC
1 CTTCTTC
59800 CTTCTTC
1 CTTCTTC
59807 CTTCT
1 CTTCT
59812 CCCAACTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
CTTCTTC
Found at i:59886 original size:95 final size:95
Alignment explanation
Indices: 59723--59899 Score: 354
Period size: 95 Copynumber: 1.9 Consensus size: 95
59713 ATGAAATAAT
59723 TAAATATTACTTGGGGATTATATTAGAACCACGTGGGCATTAGGTTCCAGAATTGTCTCATTTCT
1 TAAATATTACTTGGGGATTATATTAGAACCACGTGGGCATTAGGTTCCAGAATTGTCTCATTTCT
59788 TCTTCCTTCTTCCTTCTTCCTTCTCCCAAC
66 TCTTCCTTCTTCCTTCTTCCTTCTCCCAAC
59818 TAAATATTACTTGGGGATTATATTAGAACCACGTGGGCATTAGGTTCCAGAATTGTCTCATTTCT
1 TAAATATTACTTGGGGATTATATTAGAACCACGTGGGCATTAGGTTCCAGAATTGTCTCATTTCT
59883 TCTTCCTTCTTCCTTCT
66 TCTTCCTTCTTCCTTCT
59900 CCCAATGTGA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (95 bp):
TAAATATTACTTGGGGATTATATTAGAACCACGTGGGCATTAGGTTCCAGAATTGTCTCATTTCT
TCTTCCTTCTTCCTTCTTCCTTCTCCCAAC
Found at i:60399 original size:21 final size:21
Alignment explanation
Indices: 60357--60399 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
60347 TTTCTGGGTT
* * *
60357 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
60378 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
60399 A
1 A
60400 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:60510 original size:66 final size:68
Alignment explanation
Indices: 60379--60529 Score: 270
Period size: 67 Copynumber: 2.2 Consensus size: 68
60369 ACCCATTCAA
60379 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
60444 -GG
66 GGG
*
60446 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
60510 GGG
66 GGG
*
60513 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
60530 ATGAGAAAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
66 32 0.40
67 49 0.60
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.15
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GGG
Found at i:61278 original size:149 final size:149
Alignment explanation
Indices: 61008--61311 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
60998 GGGTAGAGGG
61008 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
1 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
* * *
61073 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
61138 TAGGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
61157 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
1 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
61222 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
61287 TATGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
61306 TCTACG
1 TCTACG
61312 GGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (149 bp):
TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TAGGGCACTACGGTGCAAT
Found at i:61334 original size:23 final size:23
Alignment explanation
Indices: 61290--61334 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
61280 ATCATTATAT
*
61290 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
61313 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
61335 AGCTGTGGTG
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:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:67433 original size:21 final size:21
Alignment explanation
Indices: 67391--67433 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
67381 TTTCTGGGTT
* * *
67391 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
67412 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
67433 A
1 A
67434 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:67494 original size:67 final size:67
Alignment explanation
Indices: 67412--67563 Score: 261
Period size: 67 Copynumber: 2.3 Consensus size: 67
67402 TACCCATTCA
67412 AGGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATACTAGAGGGGAATCGATACCCCC
67477 AGG
65 AGG
* *
67480 -GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCTA
1 AGGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATACTAGAGGGGAATCGATACCCCCA
67544 GG
66 GG
*
67546 AGGGGAACCGATTCCCCC
1 AGGGGAACCGATACCCCC
67564 ATGAGAAAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
66 33 0.41
67 47 0.59
ACGTcount: A:0.32, C:0.28, G:0.25, T:0.16
Consensus pattern (67 bp):
AGGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATACTAGAGGGGAATCGATACCCCCA
GG
Found at i:68313 original size:149 final size:149
Alignment explanation
Indices: 68043--68344 Score: 568
Period size: 149 Copynumber: 2.0 Consensus size: 149
68033 GGGTAGAGGG
68043 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
1 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
* * *
68108 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
68173 TAGGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
68192 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
1 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
68257 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
68322 TATGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
68341 TCTA
1 TCTA
68345 GGGGGCACTT
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (149 bp):
TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TAGGGCACTACGGTGCAAT
Found at i:69177 original size:45 final size:45
Alignment explanation
Indices: 69121--69507 Score: 490
Period size: 45 Copynumber: 8.6 Consensus size: 45
69111 GCATAACGAT
* * * *
69121 GCATTAAAGGATGCCATAACTAAAATGCATAACTGTGCATTAAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAG
* * *
69166 GCATGAAAGGATGTCATAAATGAAATGCATAACGGCGTATTAAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAG
*
69211 GCATGAAAGGATGTCATAAATGAAATGCATAACGGTGCATTAAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAG
*
69256 GAATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAG
* * * *
69301 GCATTAAAGGATGTCATAAATTAAATGCATAACGATGCATTAAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAG
*
69346 GCATGAAAGGATGCCATAAATGAAATGCATAATGGTGCATTAAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAG
* * * ** *
69391 GTATAAAAGGATGCCATAAATGAAAATGTATAACAATGCA-TAATTG
1 GCATGAAAGGATGCCATAAATG-AAATGCATAACGGTGCATTAA-AG
* * * * *
69437 GCATGAAAGAATGTCATAAATGAAAATGTATAACAGTGCA-TAATTG
1 GCATGAAAGGATGCCATAAATG-AAATGCATAACGGTGCATTAA-AG
*
69483 GCATGAAAGGATGCCACAAATGAAA
1 GCATGAAAGGATGCCATAAATGAAA
69508 ATATATATAA
Statistics
Matches: 304, Mismatches: 36, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
45 230 0.76
46 74 0.24
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.23
Consensus pattern (45 bp):
GCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAG
Found at i:70239 original size:23 final size:22
Alignment explanation
Indices: 70207--70249 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
70197 TACATTGATA
70207 ATAATAAAAAAACAGCTTCAAAC
1 ATAAT-AAAAAACAGCTTCAAAC
* *
70230 ATAATGAAAAACAGTTTCAA
1 ATAATAAAAAACAGCTTCAA
70250 GTAGTGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.58, C:0.14, G:0.07, T:0.21
Consensus pattern (22 bp):
ATAATAAAAAACAGCTTCAAAC
Found at i:71414 original size:17 final size:17
Alignment explanation
Indices: 71387--71426 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
71377 CAGACAATAA
* *
71387 AGGCTCACTTTTAGCATT
1 AGGC-CACTTTCACCATT
71405 AGGCCACTTTCACCATT
1 AGGCCACTTTCACCATT
71422 AGGCC
1 AGGCC
71427 CCAAAGTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (17 bp):
AGGCCACTTTCACCATT
Found at i:71505 original size:21 final size:21
Alignment explanation
Indices: 71479--71522 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
71469 CATTAACATG
71479 TTAAATAACAACACTACTTAT
1 TTAAATAACAACACTACTTAT
71500 TTAAATAACAACACTACTTAT
1 TTAAATAACAACACTACTTAT
71521 TT
1 TT
71523 TAGTCATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAAATAACAACACTACTTAT
Found at i:71660 original size:20 final size:20
Alignment explanation
Indices: 71635--71682 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
71625 TACTTTAGTT
*
71635 AAATAACATCATGTATATTC
1 AAATAACAACATGTATATTC
71655 AAATAACAACATGTATATTC
1 AAATAACAACATGTATATTC
71675 AAATAACA
1 AAATAACA
71683 CATATTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATAACAACATGTATATTC
Found at i:71811 original size:54 final size:54
Alignment explanation
Indices: 71739--71864 Score: 234
Period size: 54 Copynumber: 2.3 Consensus size: 54
71729 TATATAGCAG
*
71739 CAGAACAATGTTTATACAACTTAAACAAAATCACATACTTAAATATATAAACAA
1 CAGAACAATGTTTATACAACTTAAAAAAAATCACATACTTAAATATATAAACAA
*
71793 CAGAACAATGTTTCTACAACTTAAAAAAAATCACATACTTAAATATATAAACAA
1 CAGAACAATGTTTATACAACTTAAAAAAAATCACATACTTAAATATATAAACAA
71847 CAGAACAATGTTTATACA
1 CAGAACAATGTTTATACA
71865 TTTAAATAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (54 bp):
CAGAACAATGTTTATACAACTTAAAAAAAATCACATACTTAAATATATAAACAA
Found at i:71878 original size:30 final size:30
Alignment explanation
Indices: 71842--71901 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71832 TAAATATATA
71842 AACAACAGAACAATGTTTATACATTTAAAT
1 AACAACAGAACAATGTTTATACATTTAAAT
* * *
71872 AACAACATATCAATGTTTATATATTTAAAT
1 AACAACAGAACAATGTTTATACATTTAAAT
71902 CATATTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (30 bp):
AACAACAGAACAATGTTTATACATTTAAAT
Found at i:72417 original size:9 final size:9
Alignment explanation
Indices: 72403--72427 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
72393 AGCATAACAA
72403 CTTCATCAT
1 CTTCATCAT
72412 CTTCATCAT
1 CTTCATCAT
72421 CTTCATC
1 CTTCATC
72428 TATAAGGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.44
Consensus pattern (9 bp):
CTTCATCAT
Found at i:75079 original size:57 final size:60
Alignment explanation
Indices: 75010--75144 Score: 204
Period size: 61 Copynumber: 2.3 Consensus size: 60
75000 CTGTGATTAT
* *
75010 CAAGAACAAACACATACGCAA-ACGAATAACTGCATACTTAAAAAAG-GAA-AAAAAAAA
1 CAAGAACAAACACATACGAAATACGAATAACTGCATACTTAAAAAAGAAAAGAAAAAAAA
* *
75067 CAAGAACAAACACATACGAAATTACGAATAACTGTATACTTAGAAAAGAAAAGAAAAAAAA
1 CAAGAACAAACACATACGAAA-TACGAATAACTGCATACTTAAAAAAGAAAAGAAAAAAAA
75128 CAAGAACAAACACATAC
1 CAAGAACAAACACATAC
75145 ACACGAATTG
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
57 20 0.29
59 23 0.33
60 2 0.03
61 25 0.36
ACGTcount: A:0.61, C:0.17, G:0.10, T:0.12
Consensus pattern (60 bp):
CAAGAACAAACACATACGAAATACGAATAACTGCATACTTAAAAAAGAAAAGAAAAAAAA
Found at i:75644 original size:16 final size:17
Alignment explanation
Indices: 75612--75644 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
75602 ATTATTTAAA
*
75612 TTAGTATAATGTAAATT
1 TTAGAATAATGTAAATT
75629 TTAGAATAAT-TAAATT
1 TTAGAATAATGTAAATT
75645 AGATTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
TTAGAATAATGTAAATT
Found at i:76117 original size:15 final size:15
Alignment explanation
Indices: 76097--76135 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
76087 CACCTCGACT
76097 GAGCCTCGCGCCTCA
1 GAGCCTCGCGCCTCA
76112 GAGCCTCGCGCCTCA
1 GAGCCTCGCGCCTCA
76127 GAGCCTCGC
1 GAGCCTCGC
76136 TGCGCCTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.13, C:0.46, G:0.28, T:0.13
Consensus pattern (15 bp):
GAGCCTCGCGCCTCA
Found at i:76170 original size:48 final size:48
Alignment explanation
Indices: 76114--76216 Score: 206
Period size: 48 Copynumber: 2.1 Consensus size: 48
76104 GCGCCTCAGA
76114 GCCTCGCGCCTCAGAGCCTCGCTGCGCCTAGGTGCGCCTAGGCTACGT
1 GCCTCGCGCCTCAGAGCCTCGCTGCGCCTAGGTGCGCCTAGGCTACGT
76162 GCCTCGCGCCTCAGAGCCTCGCTGCGCCTAGGTGCGCCTAGGCTACGT
1 GCCTCGCGCCTCAGAGCCTCGCTGCGCCTAGGTGCGCCTAGGCTACGT
76210 GCCTCGC
1 GCCTCGC
76217 TTCAGTGTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.10, C:0.41, G:0.31, T:0.18
Consensus pattern (48 bp):
GCCTCGCGCCTCAGAGCCTCGCTGCGCCTAGGTGCGCCTAGGCTACGT
Found at i:76442 original size:15 final size:15
Alignment explanation
Indices: 76424--76457 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
76414 CCTGTCAAAA
76424 CCAAAGCATCAGATT
1 CCAAAGCATCAGATT
* *
76439 CCAAAGCATTATATT
1 CCAAAGCATCAGATT
76454 CCAA
1 CCAA
76458 CGTGGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (15 bp):
CCAAAGCATCAGATT
Found at i:76717 original size:53 final size:52
Alignment explanation
Indices: 76627--76728 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 52
76617 CTTAAATCCC
*
76627 AAATCAGAGAAGTTTAGGATACTAACCATGAAAGAAAAGCGAGAATGAAGCA
1 AAATCAGAGAAGATTAGGATACTAACCATGAAAGAAAAGCGAGAATGAAGCA
* * * *
76679 AAATCAAGAGAAGATTAGGGTACTTACCCTGAACGAAAAGCGAGAATGAA
1 AAATC-AGAGAAGATTAGGATACTAACCATGAAAGAAAAGCGAGAATGAA
76729 AATGGAAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 5 0.11
53 39 0.89
ACGTcount: A:0.48, C:0.13, G:0.24, T:0.16
Consensus pattern (52 bp):
AAATCAGAGAAGATTAGGATACTAACCATGAAAGAAAAGCGAGAATGAAGCA
Found at i:78732 original size:11 final size:11
Alignment explanation
Indices: 78713--78794 Score: 68
Period size: 11 Copynumber: 7.8 Consensus size: 11
78703 AAGAAAGGGA
78713 GAAGAAAGAAAG
1 GAAG-AAGAAAG
78725 GAAGAAGAAA-
1 GAAGAAGAAAG
*
78735 GAA-AGGAAAG
1 GAAGAAGAAAG
*
78745 GAAGAAGAAAT
1 GAAGAAGAAAG
78756 GAAGAAG-AAG
1 GAAGAAGAAAG
*
78766 AAATGAAG-AA-
1 GAA-GAAGAAAG
78776 GAAG-AGAAAG
1 GAAGAAGAAAG
*
78786 GGAGAAGAA
1 GAAGAAGAA
78795 GAGATCGAGT
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
8 2 0.04
9 8 0.14
10 15 0.26
11 28 0.49
12 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.02
Consensus pattern (11 bp):
GAAGAAGAAAG
Found at i:78745 original size:20 final size:20
Alignment explanation
Indices: 78714--78786 Score: 76
Period size: 20 Copynumber: 3.4 Consensus size: 20
78704 AGAAAGGGAG
78714 AAGAAA-GAAAGGAAGAAGA
1 AAGAAAGGAAAGGAAGAAGA
78733 AAGAAAGGAAAGGAAGAAGA
1 AAGAAAGGAAAGGAAGAAGA
*
78753 AATGAAGAAGAAGAAATGAAGAAGA
1 AA-G-A-AAG--GAAAGGAAGAAGA
78778 AGAGAAAGG
1 A-AGAAAGG
78787 GAGAAGAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
19 6 0.13
20 15 0.33
21 2 0.04
22 1 0.02
23 6 0.13
24 1 0.02
25 14 0.30
26 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (20 bp):
AAGAAAGGAAAGGAAGAAGA
Found at i:78796 original size:30 final size:31
Alignment explanation
Indices: 78696--78794 Score: 123
Period size: 30 Copynumber: 3.3 Consensus size: 31
78686 GGGTACGGTT
*
78696 AAGAAGAAAGAAAGGGAGAAGAA-AGAAAGG
1 AAGAAGAAAGAAAGGAAGAAGAAGAGAAAGG
* *
78726 AAGAAGAAAGAAAGGAA-AGGAAGAAGAAATG
1 AAGAAGAAAGAAAGGAAGAAGAAG-AGAAAGG
*
78757 AAGAAG-AAGAAATGAAGAAGAAGAGAAAGG
1 AAGAAGAAAGAAAGGAAGAAGAAGAGAAAGG
*
78787 GAGAAGAA
1 AAGAAGAA
78795 GAGATCGAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
29 4 0.07
30 36 0.62
31 18 0.31
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (31 bp):
AAGAAGAAAGAAAGGAAGAAGAAGAGAAAGG
Found at i:78832 original size:21 final size:21
Alignment explanation
Indices: 78808--78848 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
78798 ATCGAGTAAA
78808 AGTTTGTTAGTTTAAATTATT
1 AGTTTGTTAGTTTAAATTATT
*
78829 AGTTTGTTAGTTTAAGTTAT
1 AGTTTGTTAGTTTAAATTAT
78849 ATTATATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (21 bp):
AGTTTGTTAGTTTAAATTATT
Found at i:78857 original size:28 final size:30
Alignment explanation
Indices: 78825--78887 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
78815 TAGTTTAAAT
78825 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
78853 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
78883 TATTA
1 TATTA
78888 TATTATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.61
29 1 0.03
30 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGTTATATATTA
Found at i:79175 original size:5 final size:5
Alignment explanation
Indices: 79165--79192 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
79155 AAAGAAAAAA
79165 GAAAG GAAAG GAAAG GAAAG GAAAG GAA
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAA
79193 GAAGACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:79655 original size:20 final size:20
Alignment explanation
Indices: 79588--79661 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
79578 AAACTATTAG
* *
79588 ATTAATAATAATTATTAAATC
1 ATTATTAATAA-TATTAAATA
* *
79609 ATTATTAGTAATATT-AGTA
1 ATTATTAATAATATTAAATA
* *
79628 ATCAATTAATCATATTAAATA
1 AT-TATTAATAATATTAAATA
*
79649 ATTATTAGTAATA
1 ATTATTAATAATA
79662 ATATTAAAGC
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
19 4 0.10
20 22 0.55
21 14 0.35
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (20 bp):
ATTATTAATAATATTAAATA
Found at i:81633 original size:23 final size:23
Alignment explanation
Indices: 81607--81684 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
81597 CACCACAGCT
81607 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* * *
81630 CATATAATTGCACCGGAGTACCG
1 CATATAATTGCACCGAAGTGCCA
* *
81653 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
81676 TATAATAAT
1 CAT-ATAAT
81685 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:81862 original size:103 final size:103
Alignment explanation
Indices: 81691--81908 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
81681 TAATGTCCAT
*
81691 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTCACCA
81756 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
81794 AAGGACCACATATCATTCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTCACCA
81859 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
81897 AAGGACCACATA
1 AAGGACCACATA
81909 GACCCTCGAC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:83312 original size:22 final size:21
Alignment explanation
Indices: 83281--83339 Score: 84
Period size: 20 Copynumber: 2.8 Consensus size: 21
83271 TTCGCTTGAG
*
83281 GGGTATCGATTCCCCATTAAAT
1 GGGTACCGATTCCCC-TTAAAT
*
83303 GGGTACCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTAAAT
83323 GGGTACCGATTCCCCTT
1 GGGTACCGATTCCCCTT
83340 GCCCAGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 16 0.47
21 8 0.24
22 10 0.29
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTAAAT
Found at i:87066 original size:11 final size:11
Alignment explanation
Indices: 87050--87091 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
87040 ACTCAACAAA
87050 TTATTTATATT
1 TTATTTATATT
87061 TTATTTATATT
1 TTATTTATATT
*
87072 TTATGTAT-TT
1 TTATTTATATT
87082 ATTATTTATA
1 -TTATTTATA
87092 AATAGTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 2 0.07
11 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTATTTATATT
Found at i:87179 original size:16 final size:16
Alignment explanation
Indices: 87158--87215 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
87148 CCTTATTATT
87158 ATTTATAAATAGTCGA
1 ATTTATAAATAGTCGA
* *
87174 ATTTATTCAATTTAAATCGA
1 ATTTA-T-AA-AT-AGTCGA
*
87194 ATTTATAAATAGTTGA
1 ATTTATAAATAGTCGA
87210 ATTTAT
1 ATTTAT
87216 TATTTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 15 0.45
17 2 0.06
18 4 0.12
19 2 0.06
20 10 0.30
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (16 bp):
ATTTATAAATAGTCGA
Found at i:87179 original size:23 final size:22
Alignment explanation
Indices: 87153--87239 Score: 66
Period size: 23 Copynumber: 4.2 Consensus size: 22
87143 TTTTACCTTA
87153 TTATTATTTATAAATAGTCGAAT
1 TTATTATTTAT-AATAGTCGAAT
*
87176 TTATTCAATT-TAA-A-TCGAA-
1 TTATT-ATTTATAATAGTCGAAT
*
87195 -T-TTA--TA-AATAGTTGAAT
1 TTATTATTTATAATAGTCGAAT
87212 TTATTATTTATAAATAGTCGAAT
1 TTATTATTTAT-AATAGTCGAAT
87235 TTATT
1 TTATT
87240 CTTTTTACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 22
0.67 0.04 0.29
Matches are distributed among these distances:
14 3 0.06
15 1 0.02
16 5 0.10
17 2 0.04
18 2 0.04
19 3 0.06
20 5 0.10
21 3 0.06
22 2 0.04
23 21 0.42
24 3 0.06
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (22 bp):
TTATTATTTATAATAGTCGAAT
Found at i:87301 original size:17 final size:15
Alignment explanation
Indices: 87267--87306 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
87257 GGAGGCATGC
87267 ATATTTAATATTATA
1 ATATTTAATATTATA
*
87282 ATATTTAAGTTTTAATA
1 ATATTTAA-TATT-ATA
87299 ATATTTAA
1 ATATTTAA
87307 CATATTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 3 0.14
17 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATTTAATATTATA
Found at i:90069 original size:15 final size:14
Alignment explanation
Indices: 90042--90097 Score: 67
Period size: 15 Copynumber: 3.8 Consensus size: 14
90032 TTACGTACCC
90042 TTCTTCTTCTTTCT
1 TTCTTCTTCTTTCT
90056 TTCTTCTATCTTTCT
1 TTCTTCT-TCTTTCT
**
90071 TTCTTCCTTCTACCT
1 TTCTT-CTTCTTTCT
90086 TTCTTTCTTCTT
1 TTC-TTCTTCTT
90098 ACAACCGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.19
15 25 0.69
16 4 0.11
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (14 bp):
TTCTTCTTCTTTCT
Found at i:90072 original size:19 final size:19
Alignment explanation
Indices: 90048--90095 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
90038 ACCCTTCTTC
* *
90048 TTCTTTCTTTCTTCTATCT
1 TTCTTTCTTCCTTCTACCT
90067 TTCTTTCTTCCTTCTACCT
1 TTCTTTCTTCCTTCTACCT
90086 TTCTTTCTTC
1 TTCTTTCTTC
90096 TTACAACCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (19 bp):
TTCTTTCTTCCTTCTACCT
Found at i:94419 original size:21 final size:21
Alignment explanation
Indices: 94389--94429 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94379 GAAATGTTAA
* *
94389 AAACATTAATGTTTTAGGTAG
1 AAACAATAATATTTTAGGTAG
94410 AAACAATAATATTTTAGGTA
1 AAACAATAATATTTTAGGTA
94430 ATTTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (21 bp):
AAACAATAATATTTTAGGTAG
Found at i:103970 original size:19 final size:19
Alignment explanation
Indices: 103946--103988 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
103936 TAATTTAATC
103946 GAATATATAAT-TTAAAATT
1 GAATATA-AATCTTAAAATT
103965 GAATATAAATCTTAAAATT
1 GAATATAAATCTTAAAATT
*
103984 CAATA
1 GAATA
103989 ATACTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (19 bp):
GAATATAAATCTTAAAATT
Found at i:104094 original size:12 final size:13
Alignment explanation
Indices: 104074--104106 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
104064 GTAATTTTAA
104074 TTGAAAATC-ATT
1 TTGAAAATCAATT
*
104086 TTTAAAATCAATT
1 TTGAAAATCAATT
104099 TTGAAAAT
1 TTGAAAAT
104107 TACTCCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (13 bp):
TTGAAAATCAATT
Found at i:105890 original size:20 final size:19
Alignment explanation
Indices: 105865--105906 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
105855 TATAGTTTTC
*
105865 AAAACAACATAATTAAATCA
1 AAAACAACA-AATTAAAACA
105885 AAAACAACAAATTAAAACA
1 AAAACAACAAATTAAAACA
105904 AAA
1 AAA
105907 CATTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAACAACAAATTAAAACA
Found at i:111912 original size:19 final size:20
Alignment explanation
Indices: 111888--111931 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
111878 TAATTTAATC
*
111888 GAATATATAAT-TTAAAATT
1 GAATATAAAATCTTAAAATT
111907 GAATATAAAATCTTAAAATT
1 GAATATAAAATCTTAAAATT
*
111927 CAATA
1 GAATA
111932 ATACTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
GAATATAAAATCTTAAAATT
Found at i:113552 original size:19 final size:17
Alignment explanation
Indices: 113527--113572 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
113517 GCTTTGTATA
113527 AATGATAAGTATAAGATT
1 AATGATAAG-ATAAGATT
*
113545 ATATGATAA-ATGAGATT
1 A-ATGATAAGATAAGATT
113562 AATGATAAGAT
1 AATGATAAGAT
113573 TATTGAGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
18 1 0.04
19 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (17 bp):
AATGATAAGATAAGATT
Found at i:114948 original size:22 final size:21
Alignment explanation
Indices: 114923--114970 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
114913 TATGGGGATG
114923 TTTTTAGT-TTTTTATTAAAT
1 TTTTTAGTATTTTTATTAAAT
* *
114943 ATTTTTGGTATTTTTATTTAAT
1 -TTTTTAGTATTTTTATTAAAT
114965 TTTTTA
1 TTTTTA
114971 AATAATTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (21 bp):
TTTTTAGTATTTTTATTAAAT
Found at i:115343 original size:23 final size:23
Alignment explanation
Indices: 115317--115364 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
115307 ATAAAGTACA
*
115317 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
115340 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
115363 AT
1 AT
115365 TTAACTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:116291 original size:23 final size:23
Alignment explanation
Indices: 116265--116327 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
116255 ATATAACCAC
116265 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
116288 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
116311 TACCTATTACATCATAT
1 TACCTATTACATTATAT
116328 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:116379 original size:22 final size:22
Alignment explanation
Indices: 116345--116389 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
116335 TATTATATTG
*
116345 AAAGTGTCCATACTT-TTTATAA
1 AAAGGGTCCATACTTCTTT-TAA
*
116367 AAAGGGTCGATACTTCTTTTAA
1 AAAGGGTCCATACTTCTTTTAA
116389 A
1 A
116390 GTTATGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (22 bp):
AAAGGGTCCATACTTCTTTTAA
Found at i:116630 original size:430 final size:430
Alignment explanation
Indices: 115881--119097 Score: 5886
Period size: 430 Copynumber: 7.5 Consensus size: 430
115871 CTACCGCTAA
*
115881 GCTACCTATTACATCATA-TTTTACCTATTATATTGAAAGTGTCCATACTTTCTATAAAAAGGAT
1 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
*
115945 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCA
66 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
*
116010 ACTACAATATTAATTTAATAA-TTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
131 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
*
116074 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAG
196 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAG
116139 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
261 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
*
116204 CCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATAATTTACAATATAACCACTACC
326 CCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACC
116269 TATTACATTATATAAACGATACCTATTACATTATATAAGC
391 TATTACATTATATAAACGATACCTATTACATTATATAAGC
*
116309 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGGT
1 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
*
116374 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCA
66 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
116439 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
131 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
116504 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAG
196 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAG
116569 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
261 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
* * *
116634 TCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACC
326 CCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACC
* *
116699 TATTACATTATATAAACGCTACTTATTACATTATATAAGC
391 TATTACATTATATAAACGATACCTATTACATTATATAAGC
*
116739 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTTCATACTTTTTATAAAAAGGAT
1 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
116804 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
66 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
*
116869 CCTACAACATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT-
131 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
*
116933 -AA-AATATTTAGAATTTTTAATTTAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAG
196 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAG
*
116994 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTT
261 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
*
117059 CAACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACC
326 CCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACC
117124 TATTACATTATATAAACGATACCTATTACATTATATAAGC
391 TATTACATTATATAAACGATACCTATTACATTATATAAGC
117164 GCTACCTATTACATCATA--TTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
1 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
117227 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCC
66 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCC
117292 A-CTACAATATTAATTTAATAATTTCATTTGCAC-AAAAA--A-TT-ATTGTTTTGATATTTTAT
130 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
117351 AAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTA
195 AAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTA
117416 GACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTT
260 GACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTT
*
117481 TCCACAGTGAAAAAAGTATAGACACTTTTAT-AAAAGGATAGATACTTTACAATATAAGCACTAC
325 TCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTAC
*
117545 CTATTACA-T-TATAAACGCTACCTATTACATTATATAAGC
390 CTATTACATTATATAAACGATACCTATTACATTATATAAGC
117584 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
1 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
*
117649 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTAAATTTTTTTAATAGTGTTTCATGTTTTCCA
66 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
117714 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
131 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
*
117779 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAG
196 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAG
*
117844 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTT
261 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
117909 CCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACC
326 CCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACC
* *
117974 TATTACATTATATAAACGACACCTATTACATTATATAAGT
391 TATTACATTATATAAACGATACCTATTACATTATATAAGC
118014 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
1 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
118079 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTG-TTCATGTTTTCC
66 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCC
*
118143 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAATATTATTTGATTG-TTTGATATTTTAT
130 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
118207 AAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTA
195 AAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTA
* *
118272 GACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAAATAACTTTAAATTAATGTTT
260 GACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTT
* *
118337 TCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATAATTTACAATATAAGCACTAC
325 TCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTAC
* *
118402 CTATTACATTATATAAACGCTACATATTACATTATATAAGC
390 CTATTACATTATATAAACGATACCTATTACATTATATAAGC
*
118443 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGAT
1 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
118508 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCC
66 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCC
118573 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
130 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
118638 AAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTA
195 AAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTA
*
118703 GACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAATCTTAAATTAATGTTT
260 GACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTT
* * *
118768 TCCATAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAACACTAC
325 TCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTAC
118833 CTATTACATTATATAAACGATACCTATTACATTATATAAGC
390 CTATTACATTATATAAACGATACCTATTACATTATATAAGC
*
118874 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATA-TTTTTACAAAAAGGAT
1 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
118938 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
66 CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
*
119003 CCTACAATATTAA-TTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATA
131 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
* *
119067 AAATAATATTTAGAA-TTTAAATTTAACAATA
196 AAATAATATTTAGAATTTTTAATTTAATAATA
119098 TTAACCAAAG
Statistics
Matches: 2703, Mismatches: 64, Indels: 45
0.96 0.02 0.02
Matches are distributed among these distances:
418 18 0.01
419 2 0.00
420 50 0.02
421 56 0.02
422 159 0.06
423 240 0.09
424 28 0.01
425 212 0.08
426 3 0.00
427 218 0.08
428 125 0.05
429 526 0.19
430 764 0.28
431 302 0.11
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
CGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAG
ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
CCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACC
TATTACATTATATAAACGATACCTATTACATTATATAAGC
Found at i:116720 original size:23 final size:23
Alignment explanation
Indices: 116685--116757 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
116675 ATACTTTACA
*
116685 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
116708 ATATAAACGCTACTTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
116731 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
116754 ATAT
1 ATAT
116758 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:117146 original size:23 final size:23
Alignment explanation
Indices: 117120--117182 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
117110 ATATAACCAC
117120 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
117143 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
117166 TACCTATTACATCATAT
1 TACCTATTACATTATAT
117183 TTACCTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:117552 original size:21 final size:21
Alignment explanation
Indices: 117527--117596 Score: 95
Period size: 21 Copynumber: 3.2 Consensus size: 21
117517 GATAGATACT
*
117527 TTACAATATAAGCACTACCTA
1 TTACAATATAAGCGCTACCTA
* *
117548 TTACATTATAAACGCTACCTA
1 TTACAATATAAGCGCTACCTA
117569 TTACATTATATAAGCGCTACCTA
1 TTACA--ATATAAGCGCTACCTA
117592 TTACA
1 TTACA
117597 TCATATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 23 0.55
23 19 0.45
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.33
Consensus pattern (21 bp):
TTACAATATAAGCGCTACCTA
Found at i:117586 original size:23 final size:23
Alignment explanation
Indices: 117532--117602 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
117522 ATACTTTACA
*
117532 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
117555 ATA-AA-CGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
117576 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
117599 ATAT
1 ATAT
117603 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.41
22 4 0.09
23 22 0.50
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:118020 original size:23 final size:24
Alignment explanation
Indices: 117960--118032 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 24
117950 ATACTTTACA
*
117960 ATAT-AACCACTACCTATTACATT
1 ATATAAACGACTACCTATTACATT
117983 ATATAAACGAC-ACCTATTACATT
1 ATATAAACGACTACCTATTACATT
** *
118006 ATATAAGTG-CTACCTATTACATC
1 ATATAAACGACTACCTATTACATT
118029 ATAT
1 ATAT
118033 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 38 0.86
24 5 0.11
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (24 bp):
ATATAAACGACTACCTATTACATT
Found at i:118424 original size:23 final size:23
Alignment explanation
Indices: 118389--118461 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
118379 ATAATTTACA
*
118389 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
118412 ATATAAACGCTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
*
118435 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
118458 ATAT
1 ATAT
118462 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:118850 original size:23 final size:23
Alignment explanation
Indices: 118820--118892 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
118810 ATACTTTACA
118820 ATATAAACACTACCTATTACATT
1 ATATAAACACTACCTATTACATT
118843 ATATAAACGA-TACCTATTACATT
1 ATATAAAC-ACTACCTATTACATT
* * *
118866 ATATAAGCGCTACCTATTACATC
1 ATATAAACACTACCTATTACATT
118889 ATAT
1 ATAT
118893 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 44 0.98
24 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACACTACCTATTACATT
Found at i:121059 original size:200 final size:200
Alignment explanation
Indices: 120709--122482 Score: 3260
Period size: 200 Copynumber: 8.9 Consensus size: 200
120699 TTTAAATTAG
* *
120709 TATCGACACAAACTAAAAAAGTGTCGACACGTTATTTAGACATATTCTCTCATAAAACCGATATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
120774 CTTGTACCGGTTAGATTGAAAAACTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
120839 TCGACACTTTGTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
120904 AAAAC
196 AAAAC
* * *
120909 TATCGATACAAACTAAAAAAGTGCCGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
**
120974 CTTGTATTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
121039 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
121104 AAAAA
196 AAAAC
*
121109 TATCGACACAAACTAAAACAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
121174 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
121239 TCGACGCTTTGTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
121304 AAAAC
196 AAAAC
121309 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
121374 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
121439 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGAACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
121504 AAAAC
196 AAAAC
* *
121509 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTGATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
121574 CTTGTACCGGTTAGATTGAAAAATTACATATTACGTTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
121639 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
121704 AAAAA
196 AAAAC
* *
121709 TATCGACACAGACTAAAACAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
121774 CTTTTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTTTTTAGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
121839 TCGACACTTTGTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
121904 AAAAC
196 AAAAC
*
121909 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACAGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
121974 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
122039 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
122104 AAAAA
196 AAAAC
* *
122109 TATCGACACAAACTAAAACAGTGTCAACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
122174 CTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
122239 TCGACACTTTGTATATATGGATCGATACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
122304 AAAAC
196 AAAAC
*
122309 TATCGACACAAACTAAAAAAGTATCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
122374 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
122439 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCT
122483 TAATTGGTAT
Statistics
Matches: 1515, Mismatches: 59, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 1515 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAC
Found at i:122586 original size:18 final size:18
Alignment explanation
Indices: 122563--122623 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
122553 TCTCATTCAT
*
122563 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
122581 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
122600 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
122619 AATTA
1 AATTA
122624 ACCCTATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:122599 original size:19 final size:19
Alignment explanation
Indices: 122575--122623 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
122565 TTATATTCAC
122575 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
122594 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
122613 ATACAAAATTA
1 ATACAAAATTA
122624 ACCCTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:124462 original size:32 final size:32
Alignment explanation
Indices: 124420--124480 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
124410 TTAATATCAC
*
124420 CCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCTCAACACCCCAACTTCTTTCACCACTTCA
* *
124452 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCCCAACTTCTTTCACCACT
124481 CCATCTATTT
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:0.23, C:0.48, G:0.00, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCCCAACTTCTTTCACCACTTCA
Found at i:124539 original size:21 final size:21
Alignment explanation
Indices: 124514--124578 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
124504 CCCCTTATGC
* *
124514 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
124535 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
124556 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
124577 CT
1 CT
124579 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:126639 original size:24 final size:24
Alignment explanation
Indices: 126601--126653 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
126591 CCGTTCTATC
*
126601 TATTTTCAGATGATAT-TTAGCTTA
1 TATTTTCAGAGGATATATTA-CTTA
* *
126625 TATTTTCATAGGATATATTATTTA
1 TATTTTCAGAGGATATATTACTTA
126649 TATTT
1 TATTT
126654 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (24 bp):
TATTTTCAGAGGATATATTACTTA
Found at i:126801 original size:17 final size:18
Alignment explanation
Indices: 126779--126821 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
126769 ATATATCCGG
126779 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
126796 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
126816 TATCAT
1 TATCAT
126822 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:126839 original size:20 final size:19
Alignment explanation
Indices: 126784--126830 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
126774 TCCGGTATCA
126784 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
126803 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
126824 TTTTACC
1 TTTTACC
126831 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:126992 original size:20 final size:20
Alignment explanation
Indices: 126965--127011 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
126955 TCCGGTAACG
126965 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
126984 TTATTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
127005 TTTTACC
1 TTTTACC
127012 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:127225 original size:181 final size:180
Alignment explanation
Indices: 126733--127223 Score: 714
Period size: 181 Copynumber: 2.7 Consensus size: 180
126723 TATTTCTTTG
* ** * *
126733 AAAGTGTCGATACTTA-CGAAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTT
1 AAAGTGTCGATCCTTATATAAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTT
* *
126797 ATCATTTTGATACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTT
66 ATCATTTT-ATACCGGTTTTATCATATTTTTACCTGTTATATCGTTCTGGATCGATACATTTTTT
* *
126862 TAAAGTATCGACACATTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCAC
130 AAAAGTATCGACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCAC
*
126913 AAAGTGTCGATCCTTATATAAAGTATCGACACGTTCAATATATCCGGTAACGTTTTACCGGTTTT
1 AAAGTGTCGATCCTTATATAAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTT
* *
126978 ATCATTTTATTACCGGTTTTATCATATTTTTACCTGGTATATCGTACTGGATCGATACATTTTTT
66 ATCATTTTA-TACCGGTTTTATCATATTTTTACCTGTTATATCGTTCTGGATCGATACATTTTTT
* **
127043 AAAAGTATCGACACTTTATAGGATTTAAAACTGCTTCTCTTTTAAATTCAC
130 AAAAGTATCGACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCAC
* * * * * *
127094 GAAGTGTCGATCCTTATATTAAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTT
1 AAAGTGTCGATCCTTATA-TAAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTT
* * * *
127159 TATCATTTCTATACCGGTTTTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TATCATTT-TATACCGGTTTTATCATATTTTTACCTGTTATATCGTTCTGGATCGATACATTTTT
127224 AATTTGGATC
Statistics
Matches: 279, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
180 16 0.06
181 165 0.59
182 96 0.34
183 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (180 bp):
AAAGTGTCGATCCTTATATAAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTT
ATCATTTTATACCGGTTTTATCATATTTTTACCTGTTATATCGTTCTGGATCGATACATTTTTTA
AAAGTATCGACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCAC
Found at i:127693 original size:230 final size:228
Alignment explanation
Indices: 127290--127785 Score: 911
Period size: 230 Copynumber: 2.2 Consensus size: 228
127280 ACCTACTTTT
127290 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
127355 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACCA
66 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
127420 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
131 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTT-AATTTAACAATATTAA
* *
127485 CCAAATATAATAATAAATATGTTTTCCACAGTGAA
195 CCAAAGATAATAATAAATATATTTT-CACAGTGAA
127520 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
127585 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACACAA
66 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
127650 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAATTTAACAATATTAAC
131 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAATTTAACAATATTAAC
127715 CAAAGATAATAATAAATATATTTTCACAGTGAA
196 CAAAGATAATAATAAATATATTTTCACAGTGAA
* * *
127748 ATAAGTATTGACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
127786 ACAATATAAT
Statistics
Matches: 259, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
228 44 0.17
229 39 0.15
230 176 0.68
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:128048 original size:11 final size:11
Alignment explanation
Indices: 128032--128056 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
128022 ATCTGATAAT
128032 ACCGTATATTA
1 ACCGTATATTA
128043 ACCGTATATTA
1 ACCGTATATTA
128054 ACC
1 ACC
128057 CGCATTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:142300 original size:19 final size:19
Alignment explanation
Indices: 142276--142334 Score: 118
Period size: 19 Copynumber: 3.1 Consensus size: 19
142266 GTGTTTTAAG
142276 TGTGTTTTAAAATGATAAA
1 TGTGTTTTAAAATGATAAA
142295 TGTGTTTTAAAATGATAAA
1 TGTGTTTTAAAATGATAAA
142314 TGTGTTTTAAAATGATAAA
1 TGTGTTTTAAAATGATAAA
142333 TG
1 TG
142335 GGAGAAGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
TGTGTTTTAAAATGATAAA
Found at i:143761 original size:22 final size:22
Alignment explanation
Indices: 143671--143762 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
143661 CAATGCATGG
* *
143671 AAGTGCCTTAGCACT-AGTACTA
1 AAGTGCATTCGCACTGA-TACTA
* * *
143693 AAGTGC-CTCGACACTGACACAA
1 AAGTGCATTCG-CACTGATACTA
*
143715 AAGTGCATTCACACTGATA-TAA
1 AAGTGCATTCGCACTGATACT-A
*
143737 AAGTGCATTCGCATTGATACTA
1 AAGTGCATTCGCACTGATACTA
143759 AAGT
1 AAGT
143763 ACCTTAGCAC
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.04
22 49 0.89
23 4 0.07
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (22 bp):
AAGTGCATTCGCACTGATACTA
Found at i:145187 original size:2 final size:2
Alignment explanation
Indices: 145180--145241 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
145170 AAAGTTTTGA
145180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
145222 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
145242 GTATGTATGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:149563 original size:3 final size:3
Alignment explanation
Indices: 149555--149581 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
149545 ATATTATAAA
149555 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
149582 TAAAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:151192 original size:2 final size:2
Alignment explanation
Indices: 151137--151172 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
151127 TATACAATAC
151137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
151173 TTCTATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:153070 original size:30 final size:29
Alignment explanation
Indices: 153028--153099 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
153018 ATATTTTTAG
*
153028 TTATTAGAATTTT-AAAAATTATAAAATAC
1 TTATTA-AATTTTCAAAAATTATAAAATAA
**
153057 TTATTTAATATTTTCAATTATTATAAAATAA
1 TTA-TTAA-ATTTTCAAAAATTATAAAATAA
153088 TTATTAAATTTT
1 TTATTAAATTTT
153100 GTCAAACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 9 0.24
30 12 0.32
31 16 0.43
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (29 bp):
TTATTAAATTTTCAAAAATTATAAAATAA
Found at i:153081 original size:31 final size:32
Alignment explanation
Indices: 153045--153119 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
153035 AATTTTAAAA
* * *
153045 ATTATAAAATACTTATTTAATATTT-TC-AATT
1 ATTATAAAATAATTATTAAAT-TTTGTCAAACT
153076 ATTATAAAATAATTATTAAATTTTGTCAAACT
1 ATTATAAAATAATTATTAAATTTTGTCAAACT
*
153108 ATTACAAAATAA
1 ATTATAAAATAA
153120 ATCTTGAGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 3 0.08
31 21 0.55
32 14 0.37
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (32 bp):
ATTATAAAATAATTATTAAATTTTGTCAAACT
Found at i:164076 original size:29 final size:29
Alignment explanation
Indices: 164034--164091 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
164024 CAGTAGTCTT
164034 ACAAGTCGCCATGTAATCAAAACGACCAA
1 ACAAGTCGCCATGTAATCAAAACGACCAA
*
164063 ACAAGTCGTCATGTAATCAAAACGACCAA
1 ACAAGTCGCCATGTAATCAAAACGACCAA
164092 GCAAAGGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.26, G:0.14, T:0.16
Consensus pattern (29 bp):
ACAAGTCGCCATGTAATCAAAACGACCAA
Found at i:164758 original size:14 final size:14
Alignment explanation
Indices: 164714--164751 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
164704 AGTTTATTAG
164714 TTTAGGATTTAGGGT
1 TTTAGG-TTTAGGGT
164729 TTATA-GTTTAGGGT
1 TT-TAGGTTTAGGGT
164743 TTTAGGTTT
1 TTTAGGTTT
164752 TAGGTTTCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.10
14 14 0.67
15 3 0.14
16 2 0.10
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (14 bp):
TTTAGGTTTAGGGT
Found at i:164930 original size:33 final size:34
Alignment explanation
Indices: 164888--164954 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
164878 AGTAGTTATA
*
164888 TTATAATAAAA-AATAGTTTATTAGTTAGTTTAAG
1 TTATAATAAAAGAATAGTGTATTAGTT-GTTTAAG
164922 TTAT-ATAAAAGAATAGTGTATTAGTTGTTTAAG
1 TTATAATAAAAGAATAGTGTATTAGTTGTTTAAG
164955 GGGAAAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (34 bp):
TTATAATAAAAGAATAGTGTATTAGTTGTTTAAG
Found at i:165006 original size:22 final size:21
Alignment explanation
Indices: 164967--165054 Score: 117
Period size: 22 Copynumber: 4.2 Consensus size: 21
164957 GAAAATTCAC
164967 GTTTA-AG-TTATGATTTAGG
1 GTTTATAGTTTATGATTTAGG
* *
164986 GTTTATAGTTTGTTAGTTTAGG
1 GTTTATAGTTTATGA-TTTAGG
165008 GTTTATAGTTTATGATTTAGG
1 GTTTATAGTTTATGATTTAGG
*
165029 GTTTTATAGTTTATGATTTAGT
1 G-TTTATAGTTTATGATTTAGG
165051 GTTT
1 GTTT
165055 GGTGATTAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
19 5 0.08
20 2 0.03
21 14 0.23
22 39 0.65
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.55
Consensus pattern (21 bp):
GTTTATAGTTTATGATTTAGG
Found at i:165072 original size:7 final size:7
Alignment explanation
Indices: 165045--165104 Score: 84
Period size: 7 Copynumber: 8.6 Consensus size: 7
165035 TAGTTTATGA
165045 TTTAGTG
1 TTTAGTG
*
165052 TTTGGTG
1 TTTAGTG
*
165059 ATTAGTG
1 TTTAGTG
165066 TTTAGTG
1 TTTAGTG
165073 TTTAGTG
1 TTTAGTG
*
165080 TTTAGTA
1 TTTAGTG
*
165087 ATTAGTG
1 TTTAGTG
165094 TTTAGTG
1 TTTAGTG
165101 TTTA
1 TTTA
165105 TGATTTAAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (7 bp):
TTTAGTG
Found at i:165098 original size:14 final size:14
Alignment explanation
Indices: 165037--165100 Score: 85
Period size: 14 Copynumber: 4.6 Consensus size: 14
165027 GGGTTTTATA
165037 GTTTA-TGATTTAGT
1 GTTTAGTGA-TTAGT
*
165051 GTTTGGTGATTAGT
1 GTTTAGTGATTAGT
*
165065 GTTTAGTGTTTAGT
1 GTTTAGTGATTAGT
*
165079 GTTTAGTAATTAGT
1 GTTTAGTGATTAGT
165093 GTTTAGTG
1 GTTTAGTG
165101 TTTATGATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
14 40 0.93
15 3 0.07
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (14 bp):
GTTTAGTGATTAGT
Found at i:165158 original size:7 final size:7
Alignment explanation
Indices: 165146--165296 Score: 63
Period size: 7 Copynumber: 21.7 Consensus size: 7
165136 GCATATACTA
165146 TAAACCC
1 TAAACCC
165153 TAAACCC
1 TAAACCC
*
165160 TAAACTC
1 TAAACCC
*
165167 T-AACCT
1 TAAACCC
* *
165173 TAAATCA
1 TAAACCC
**
165180 TAAACTA
1 TAAACCC
165187 TAAA-CC
1 TAAACCC
* *
165193 TTAGCCC
1 TAAACCC
* *
165200 TTAAGCTC
1 -TAAACCC
165208 TAAACCC
1 TAAACCC
165215 TAAACCC
1 TAAACCC
*
165222 TAAACCA
1 TAAACCC
* **
165229 AAAACTA
1 TAAACCC
165236 TAAACCC
1 TAAACCC
**
165243 TAAACAA
1 TAAACCC
* *
165250 TAAATCT
1 TAAACCC
**
165257 TAAATAC
1 TAAACCC
* *
165264 TAGACCT
1 TAAACCC
* *
165271 TAGACTC
1 TAAACCC
165278 TAAACCC
1 TAAACCC
165285 TAAACCC
1 TAAACCC
165292 TAAAC
1 TAAAC
165297 TATAATTTAG
Statistics
Matches: 105, Mismatches: 36, Indels: 6
0.71 0.24 0.04
Matches are distributed among these distances:
6 6 0.06
7 94 0.90
8 5 0.05
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:165169 original size:14 final size:14
Alignment explanation
Indices: 165146--165296 Score: 76
Period size: 14 Copynumber: 10.9 Consensus size: 14
165136 GCATATACTA
*
165146 TAAACCCTAAACCC
1 TAAACTCTAAACCC
*
165160 TAAACTCT-AACCT
1 TAAACTCTAAACCC
**
165173 TAAA-TCATAAACTA
1 TAAACTC-TAAACCC
* *
165187 TAAAC-CTTAGCCC
1 TAAACTCTAAACCC
*
165200 TTAAGCTCTAAACCC
1 -TAAACTCTAAACCC
* *
165215 TAAACCCTAAACCA
1 TAAACTCTAAACCC
* *
165229 AAAACTATAAACCC
1 TAAACTCTAAACCC
** * *
165243 TAAACAATAAATCT
1 TAAACTCTAAACCC
* *
165257 TAAA-TACTAGACCT
1 TAAACT-CTAAACCC
*
165271 TAGACTCTAAACCC
1 TAAACTCTAAACCC
*
165285 TAAACCCTAAAC
1 TAAACTCTAAAC
165297 TATAATTTAG
Statistics
Matches: 99, Mismatches: 31, Indels: 14
0.69 0.22 0.10
Matches are distributed among these distances:
12 2 0.02
13 12 0.12
14 78 0.79
15 7 0.07
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:165375 original size:21 final size:22
Alignment explanation
Indices: 165315--165381 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 22
165305 AGTTTGTTAG
*
165315 TTTATTAGTTTAGGGCTT-AGTA
1 TTTATT-GTTTAGGGTTTAAGTA
* *
165337 TTTA-TGATTTAAGATTTAAG-A
1 TTTATTG-TTTAGGGTTTAAGTA
165358 TTTATTGTTTAGGGTTTATAGTA
1 TTTATTGTTTAGGGTTTA-AGTA
165381 T
1 T
165382 ATGTAACATG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
20 1 0.03
21 22 0.63
22 10 0.29
23 2 0.06
ACGTcount: A:0.27, C:0.01, G:0.19, T:0.52
Consensus pattern (22 bp):
TTTATTGTTTAGGGTTTAAGTA
Found at i:165413 original size:7 final size:7
Alignment explanation
Indices: 165397--165463 Score: 53
Period size: 7 Copynumber: 9.6 Consensus size: 7
165387 ACATGAGTGG
*
165397 AAACCTT
1 AAACCCT
165404 AAACCCT
1 AAACCCT
*
165411 AAACACT
1 AAACCCT
***
165418 AAATATT
1 AAACCCT
*
165425 AAATCCT
1 AAACCCT
*
165432 AAACCAT
1 AAACCCT
**
165439 AAACTAT
1 AAACCCT
165446 AAACCCT
1 AAACCCT
165453 AAACCCT
1 AAACCCT
165460 AAAC
1 AAAC
165464 TAACAAACTA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:165432 original size:21 final size:21
Alignment explanation
Indices: 165402--165465 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
165392 AGTGGAAACC
165402 TTAAACCCTAAACACTAAA-TA
1 TTAAACCCTAAAC-CTAAACTA
*
165423 TTAAATCCTAAACCATAAACTA
1 TTAAACCCTAAACC-TAAACTA
165445 -TAAACCCTAAACCCTAAACTA
1 TTAAACCCTAAA-CCTAAACTA
165466 ACAAACTAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.03
21 33 0.87
22 4 0.11
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (21 bp):
TTAAACCCTAAACCTAAACTA
Found at i:165708 original size:22 final size:22
Alignment explanation
Indices: 165683--165731 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
165673 TCGGAAACTC
*
165683 TAAACCCTAAACCCTAAACTAA
1 TAAACCATAAACCCTAAACTAA
**
165705 TAAATTATAAACCCTAAACTAA
1 TAAACCATAAACCCTAAACTAA
*
165727 CAAAC
1 TAAAC
165732 TGACAAACTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCATAAACCCTAAACTAA
Found at i:165793 original size:39 final size:36
Alignment explanation
Indices: 165750--165830 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 36
165740 TAATTCTTTT
165750 ATATAACTTAAACTAACTAA-TAAACTATTTTTTATTATA
1 ATATAACTTAAACTAACTAACT-AA--ATTTTTTA-TATA
*
165789 ATATAACTTAAACTAATTAACTAAATTTTTTATATA
1 ATATAACTTAAACTAACTAACTAAATTTTTTATATA
165825 ATATAA
1 ATATAA
165831 ATTCAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
36 10 0.25
37 8 0.20
39 21 0.52
40 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (36 bp):
ATATAACTTAAACTAACTAACTAAATTTTTTATATA
Found at i:165970 original size:2 final size:2
Alignment explanation
Indices: 165963--165992 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
165953 AAATTAGAAT
165963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
165993 ATTGTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:166481 original size:20 final size:20
Alignment explanation
Indices: 166456--166498 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
166446 TTTTTCAACG
166456 CATTATCTAAAAAATTTAGC
1 CATTATCTAAAAAATTTAGC
166476 CATTATCTAAAAAATTTAGC
1 CATTATCTAAAAAATTTAGC
166496 CAT
1 CAT
166499 CAATAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (20 bp):
CATTATCTAAAAAATTTAGC
Found at i:171922 original size:21 final size:21
Alignment explanation
Indices: 171885--171924 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
171875 AATTAATTAA
171885 AAAAGTAAATATAAATTATTT
1 AAAAGTAAATATAAATTATTT
*
171906 AAAA-TAAATAATTAATTAT
1 AAAAGTAAAT-ATAAATTAT
171925 ATTATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAAGTAAATATAAATTATTT
Found at i:173683 original size:2 final size:2
Alignment explanation
Indices: 173678--173740 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
173668 TTACAACTTA
173678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
173720 AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
173741 CTCAATTGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:176529 original size:22 final size:22
Alignment explanation
Indices: 176503--176584 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 22
176493 TATGTATCTG
176503 CAATGCTAAGGCACTTTAGTAT
1 CAATGCTAAGGCACTTTAGTAT
* * *
176525 CAATGCGAATGCACTTTTGTAT
1 CAATGCTAAGGCACTTTAGTAT
* * * * *
176547 CAGTGTTGAGGCACTTTAATAC
1 CAATGCTAAGGCACTTTAGTAT
*
176569 CAGTGCTAAGGCACTT
1 CAATGCTAAGGCACTT
176585 CAGTGTATTG
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (22 bp):
CAATGCTAAGGCACTTTAGTAT
Found at i:177556 original size:20 final size:20
Alignment explanation
Indices: 177531--177605 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
177521 CCGTTGCAGT
*
177531 CAGGGTGTATGGATACACTA
1 CAGGGTGTATCGATACACTA
177551 CAGGGTGTATCGATACACTA
1 CAGGGTGTATCGATACACTA
*
177571 C----TGTATGGATACACT-
1 CAGGGTGTATCGATACACTA
* *
177586 CAAGGTGTATCCATACACTA
1 CAGGGTGTATCGATACACTA
177606 TTTGCATTCG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
15 1 0.02
16 13 0.28
19 12 0.26
20 20 0.43
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (20 bp):
CAGGGTGTATCGATACACTA
Found at i:177602 original size:35 final size:36
Alignment explanation
Indices: 177536--177605 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 36
177526 GCAGTCAGGG
* *
177536 TGTATGGATACACTACAGGGTGTATCGATACACTAC
1 TGTATGGATACACTACAAGGTGTATCCATACACTAC
177572 TGTATGGATACACT-CAAGGTGTATCCATACACTA
1 TGTATGGATACACTACAAGGTGTATCCATACACTA
177606 TTTGCATTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 18 0.56
36 14 0.44
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (36 bp):
TGTATGGATACACTACAAGGTGTATCCATACACTAC
Found at i:177695 original size:20 final size:19
Alignment explanation
Indices: 177670--177722 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
177660 TCGATACACC
177670 AGTGTATGGATACACTGCA
1 AGTGTATGGATACACTGCA
*
177689 GAGTGTATGGATACACTGTA
1 -AGTGTATGGATACACTGCA
177709 AGGTGTATGGATAC
1 A-GTGTATGGATAC
177723 CCTTTGACAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.28
Consensus pattern (19 bp):
AGTGTATGGATACACTGCA
Done.