Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008647.1 Hibiscus syriacus cultivar Beakdansim tig00111634_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: 1422586
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:732844 original size:124 final size:123
Alignment explanation
Indices: 732595--732877 Score: 424
Period size: 124 Copynumber: 2.3 Consensus size: 123
732585 AAATTAAGGC
** * *
732595 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTC-TCATTCTTCTGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTA
* * *
732659 TGAACATTTCTGGAAATATTGATGTTGATCTATCTCCTTCTGTGATAAAGTCAAACAA
66 TGAACATTTCTGGAAAAATTGATGCTGATATATCTCCTTCTGTGATAAAGTCAAACAA
*
732717 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTA
* * ***
732782 TGAACTTTCTCTGGAAAAATTGATGCTGATATATCTCCTTCTGTGATAGAGTCGTGCAA
66 TGAACATT-TCTGGAAAAATTGATGCTGATATATCTCCTTCTGTGATAAAGTCAAACAA
*
732841 AAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCT
732878 GAAAATGTTG
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
122 33 0.23
123 33 0.23
124 79 0.54
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (123 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTA
TGAACATTTCTGGAAAAATTGATGCTGATATATCTCCTTCTGTGATAAAGTCAAACAA
Found at i:733053 original size:113 final size:113
Alignment explanation
Indices: 732855--733333 Score: 620
Period size: 113 Copynumber: 4.1 Consensus size: 113
732845 TTGAACAAGC
* ** * * *
732855 TCTTCTCATTATGAACTTTTTCTGAAAATGTTGATCCATCGAGTGATGAATTCGAGCAAAAGGTT
1 TCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
* *
732920 GAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGT
66 GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
* *
732968 TCTTCTCATTATAAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
1 TCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
*
733033 GAATAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
66 GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
* *
733081 TCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
1 TCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
* *
733146 GAACACGTTCTTCTCATTATGAACTTATTCTTCCTTCTTGAGATGAGT
66 GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
* * *** *
733194 TCTTCTCATTATGAACTCCT-TCTGGAAATGTTGATGCTGATATATCTCTTTCTGCGAT-AGAGT
1 TCTTCTCATTATGAACT-CTACCTGGAAATGTTGAT-C-----CA--TC-GAAT--GATGA-ATT
* *
733257 CGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
53 CGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
733318 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
733334 ACTTCTGTAA
Statistics
Matches: 324, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
113 238 0.73
114 3 0.01
119 1 0.00
121 2 0.01
122 1 0.00
123 1 0.00
124 78 0.24
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
TCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
Found at i:733456 original size:39 final size:39
Alignment explanation
Indices: 733413--733515 Score: 188
Period size: 39 Copynumber: 2.6 Consensus size: 39
733403 AAGGTTGAAC
*
733413 AAGTTCTTCTCATTATGAACTTTCTTTTTCTCTTCAAAT
1 AAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAAAT
*
733452 AAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAAAT
733491 AAGTTCTTCTCATTATGAACTTTCT
1 AAGTTCTTCTCATTATGAACTTTCT
733516 CTGGAAAAGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.22, C:0.21, G:0.07, T:0.50
Consensus pattern (39 bp):
AAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAAAT
Found at i:733782 original size:112 final size:111
Alignment explanation
Indices: 733561--733892 Score: 454
Period size: 112 Copynumber: 3.0 Consensus size: 111
733551 ATAGAGTTAT
* * *
733561 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATAAATTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
* * * * * ** *
733625 ATTATGAACTTTCTCTGCAACGCTGATCCATCGGGTGATGAATTTGA
66 ATTATGAACCTTCT-GGAAATGTTGATCCATCAAGTGATGGATTTGA
*
733672 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTTTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
733737 ATTATGAACACTTCTGGAAATGTTGATCCATCAAGTGATGGATTTGA
66 ATTATGAAC-CTTCTGGAAATGTTGATCCATCAAGTGATGGATTTGA
* *
733784 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTT-TCTTCTTCAGATGAGTTTTTCT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCT-TTCTTCAGATGAGTTCTTCT
* *
733848 CATTATGAACTCTTCCGGAAATGTTGATCCATTGAA-TGATGGATT
65 CATTATGAAC-CTTCTGGAAATGTTGATCCA-TCAAGTGATGGATT
733893 CGAATATTTG
Statistics
Matches: 199, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
111 43 0.22
112 149 0.75
113 7 0.04
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (111 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
ATTATGAACCTTCTGGAAATGTTGATCCATCAAGTGATGGATTTGA
Found at i:735270 original size:76 final size:76
Alignment explanation
Indices: 735019--735490 Score: 612
Period size: 76 Copynumber: 6.3 Consensus size: 76
735009 GATATGGGCC
* ** * ** *
735019 TTCAGCATGCCCCAACA-ATTGTTGATACGAACGTTCAAAATACATCAACATTCATGATTCTGAT
1 TTCAGCATGCCCCAACATTTTGTTGATATAAACATTCAGGATACATCAACATTCTTGATTCTGAT
*
735083 TGAAATA-GGCT
66 TGAAA-AGGGTT
* * * * ** * *
735094 TTCAGC-TGCCCCAATA-ATTGTTGATATGAACGTTCAAAATACATCAACATTCTTCAATCTGAT
1 TTCAGCATGCCCCAACATTTTGTTGATATAAACATTCAGGATACATCAACATTCTTGATTCTGAT
*
735157 T-AAAAGGGCT
66 TGAAAAGGGTT
* * * * * *
735167 TTCATCATGCCCCAACATTTTGCTGATATAAACACTCATGATACATCAACATTCCTCATTCTGAT
1 TTCAGCATGCCCCAACATTTTGTTGATATAAACATTCAGGATACATCAACATTCTTGATTCTGAT
*
735232 TGAAAGGGGTT
66 TGAAAAGGGTT
735243 TTCAGCATGCCCCAACATTTTGTTGATATAAACATTCAGGATACATCAACATTCTTGATTCTGAT
1 TTCAGCATGCCCCAACATTTTGTTGATATAAACATTCAGGATACATCAACATTCTTGATTCTGAT
735308 TGAAAAGGGTT
66 TGAAAAGGGTT
* * *
735319 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAGGATACATCAATATTCTTGATTCTGAT
1 TTCAGCATGCCCCAACATTTTGTTGATATAAACATTCAGGATACATCAACATTCTTGATTCTGAT
735384 TGAAAAGGGTT
66 TGAAAAGGGTT
* ** * *
735395 TTCAGTATGCCCCAGTATTTTGTTGATATAAATATTCAGGATACATCAACATTCCTGATTCTGAT
1 TTCAGCATGCCCCAACATTTTGTTGATATAAACATTCAGGATACATCAACATTCTTGATTCTGAT
735460 TGAAAAGGGTT
66 TGAAAAGGGTT
735471 TTCAGCATGCCCCAACATTT
1 TTCAGCATGCCCCAACATTT
735491 GCTTCTTGTT
Statistics
Matches: 356, Mismatches: 37, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
72 1 0.00
73 12 0.03
74 62 0.17
75 45 0.13
76 236 0.66
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (76 bp):
TTCAGCATGCCCCAACATTTTGTTGATATAAACATTCAGGATACATCAACATTCTTGATTCTGAT
TGAAAAGGGTT
Found at i:738253 original size:32 final size:32
Alignment explanation
Indices: 738212--738273 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
738202 GAAGAAATGA
* *
738212 TTGTTATGCTTATCTTGTAGAGATACTTCTCG
1 TTGTTATGCTCATCTCGTAGAGATACTTCTCG
*
738244 TTGTTATGCTCATCTCGTAGAGATATTTCT
1 TTGTTATGCTCATCTCGTAGAGATACTTCT
738274 TGTGTCTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (32 bp):
TTGTTATGCTCATCTCGTAGAGATACTTCTCG
Found at i:738889 original size:1 final size:1
Alignment explanation
Indices: 738879--738968 Score: 54
Period size: 1 Copynumber: 90.0 Consensus size: 1
738869 CTTGATTCAA
* * * * * ** ** *
738879 TTTTTCTTTTTTTCTTTTTTTTTTTCTTTTTTCTTTTTTTCTTTTTTTCCTTTTCGTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** *
738944 GTTTTTTTTCCTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
738969 CCTTCTTCTT
Statistics
Matches: 66, Mismatches: 23, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.84
Consensus pattern (1 bp):
T
Found at i:738892 original size:8 final size:8
Alignment explanation
Indices: 738879--738983 Score: 80
Period size: 8 Copynumber: 13.1 Consensus size: 8
738869 CTTGATTCAA
738879 TTTTTCTT
1 TTTTTCTT
738887 TTTTTC--
1 TTTTTCTT
738893 -TTTT-TT
1 TTTTTCTT
738899 TTTTTC-T
1 TTTTTCTT
738906 TTTTTCTT
1 TTTTTCTT
738914 TTTTTCTT
1 TTTTTCTT
738922 TTTTTCCTT
1 TTTTT-CTT
738931 TTCGTTT-TT
1 TT--TTTCTT
738940 GTTTGTT-TT
1 -TTT-TTCTT
*
738949 TTTTCCTT
1 TTTTTCTT
738957 TTTTTCTT
1 TTTTTCTT
*
738965 TTTTCCTT
1 TTTTTCTT
738973 CTTCTTTCTT
1 -TT-TTTCTT
738983 T
1 T
738984 GCTGGATGAG
Statistics
Matches: 80, Mismatches: 4, Indels: 25
0.73 0.04 0.23
Matches are distributed among these distances:
5 4 0.05
7 12 0.15
8 40 0.50
9 14 0.17
10 7 0.09
11 3 0.04
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:738896 original size:7 final size:7
Alignment explanation
Indices: 738879--738979 Score: 75
Period size: 7 Copynumber: 14.3 Consensus size: 7
738869 CTTGATTCAA
738879 TTTTTCT
1 TTTTTCT
738886 TTTTT-T
1 TTTTTCT
738892 CTTTTT-T
1 -TTTTTCT
738899 TTTTTCT
1 TTTTTCT
738906 TTTTTCTT
1 TTTTTC-T
738914 TTTTTCT
1 TTTTTCT
738921 TTTTT-T
1 TTTTTCT
* *
738927 CCTTTTCG
1 -TTTTTCT
*
738935 TTTTTGT
1 TTTTTCT
738942 TTGTTT-T
1 TT-TTTCT
*
738949 TTTTCCTT
1 TTTTTC-T
738957 TTTTTCT
1 TTTTTCT
*
738964 TTTTTCC
1 TTTTTCT
*
738971 TTCTTCT
1 TTTTTCT
738978 TT
1 TT
738980 CTTTGCTGGA
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
6 9 0.12
7 51 0.67
8 16 0.21
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:738923 original size:35 final size:34
Alignment explanation
Indices: 738879--738968 Score: 117
Period size: 35 Copynumber: 2.6 Consensus size: 34
738869 CTTGATTCAA
*
738879 TTTTTCTTTTTTTCTTTTTTTTTTTCTTTTTTCTT
1 TTTTTCTTTTTTTCTTTTTTTTTTTCTTTGTT-TT
** *
738914 TTTTTCTTTTTTTCCTTTTCGTTTTTGTTTGTTTT
1 TTTTTCTTTTTTT-CTTTTTTTTTTTCTTTGTTTT
*
738949 TTTTCCTTTTTTTCTTTTTT
1 TTTTTCTTTTTTTCTTTTTT
738969 CCTTCTTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
34 5 0.11
35 27 0.57
36 15 0.32
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.84
Consensus pattern (34 bp):
TTTTTCTTTTTTTCTTTTTTTTTTTCTTTGTTTT
Found at i:738951 original size:42 final size:41
Alignment explanation
Indices: 738888--738979 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 41
738878 ATTTTTCTTT
*
738888 TTTTCTTTTTTTTTTTCTTTTTT-CTTTTTTTCTTTTTTTCC
1 TTTTCTTTTTTTTGTTCTTTTTTCCTTTTTTTC-TTTTTTCC
738929 TTTTCGTTTTTGTTTGTT-TTTTTTCCTTTTTTTCTTTTTTCC
1 TTTTC-TTTTT-TTTGTTCTTTTTTCCTTTTTTTCTTTTTTCC
738971 TTCTTCTTT
1 TT-TTCTTT
738980 CTTTGCTGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
41 5 0.11
42 24 0.52
43 17 0.37
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (41 bp):
TTTTCTTTTTTTTGTTCTTTTTTCCTTTTTTTCTTTTTTCC
Found at i:739284 original size:2 final size:2
Alignment explanation
Indices: 739277--739322 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
739267 ACAATAAAGG
739277 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
739319 AT AT
1 AT AT
739323 GGATAAATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:741434 original size:12 final size:13
Alignment explanation
Indices: 741410--741439 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
741400 ATAAACGTAA
741410 AAATACAAAATGT
1 AAATACAAAATGT
741423 AAATAC-AAATGT
1 AAATACAAAATGT
741435 AAATA
1 AAATA
741440 TGTGAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (13 bp):
AAATACAAAATGT
Found at i:744055 original size:20 final size:20
Alignment explanation
Indices: 744015--744055 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
744005 TAAACATATA
* **
744015 AAAATAAATAAATAACGATT
1 AAAATAAATAAAAAAAAATT
744035 AAAATAAATAAAAAAAAATT
1 AAAATAAATAAAAAAAAATT
744055 A
1 A
744056 TATTATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAATAAATAAAAAAAAATT
Found at i:746656 original size:12 final size:13
Alignment explanation
Indices: 746639--746668 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
746629 TTTAACTTAT
746639 TTTTATTTTTAC-
1 TTTTATTTTTACA
746651 TTTTATTTTTACA
1 TTTTATTTTTACA
746664 TTTTA
1 TTTTA
746669 ATGTGTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTATTTTTACA
Found at i:749389 original size:18 final size:16
Alignment explanation
Indices: 749366--749399 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
749356 TGAAATATGG
749366 ATTTAATATATATAATAT
1 ATTTAATA-ATA-AATAT
749384 ATTTAATAATAAATAT
1 ATTTAATAATAAATAT
749400 TTTTGGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTAATAATAAATAT
Found at i:758279 original size:14 final size:14
Alignment explanation
Indices: 758260--758289 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
758250 GGAGCATATG
758260 AGCATGTTCTTATT
1 AGCATGTTCTTATT
758274 AGCATGTTCTTATT
1 AGCATGTTCTTATT
758288 AG
1 AG
758290 ATTATAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (14 bp):
AGCATGTTCTTATT
Found at i:760060 original size:38 final size:38
Alignment explanation
Indices: 760018--760116 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
760008 TGGGAACCAG
* * * * *
760018 TTTTAGGTTGCAACCTTATTTTTCATATAGAACCCATA
1 TTTTAGGTGGCAACCTGATTTTTCACATAGAAACCAAA
760056 TTTTAGGTGGCAACCTGATTTTTCACATAGAAACCAAA
1 TTTTAGGTGGCAACCTGATTTTTCACATAGAAACCAAA
* *
760094 TTTCCA-GTGGCAACCTAATTTTT
1 TTT-TAGGTGGCAACCTGATTTTT
760117 TTATTGGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
38 52 0.98
39 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (38 bp):
TTTTAGGTGGCAACCTGATTTTTCACATAGAAACCAAA
Found at i:765689 original size:26 final size:26
Alignment explanation
Indices: 765660--765713 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
765650 ACTTAGTGAA
*
765660 TATGGTAGGCACAACCTTATGTGTAT
1 TATGATAGGCACAACCTTATGTGTAT
* **
765686 TATGATGGGCATGACCTTATGTGTAT
1 TATGATAGGCACAACCTTATGTGTAT
765712 TA
1 TA
765714 GCATTTTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (26 bp):
TATGATAGGCACAACCTTATGTGTAT
Found at i:771539 original size:21 final size:21
Alignment explanation
Indices: 771510--771550 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
771500 AAGGGAGAAG
*
771510 AAAATGATAGAAAGTAAAAGT
1 AAAAAGATAGAAAGTAAAAGT
*
771531 AAAAAGATAGAAAGTGAAAG
1 AAAAAGATAGAAAGTAAAAG
771551 GTGAAAACGT
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:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (21 bp):
AAAAAGATAGAAAGTAAAAGT
Found at i:779301 original size:20 final size:20
Alignment explanation
Indices: 779264--779306 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
779254 AATCCACCAC
779264 ATGCAACTAAATGCTTCTAA
1 ATGCAACTAAATGCTTCTAA
* * *
779284 ATGCATCTATATGGTTCTAA
1 ATGCAACTAAATGCTTCTAA
779304 ATG
1 ATG
779307 GGCCTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
ATGCAACTAAATGCTTCTAA
Found at i:787183 original size:5 final size:5
Alignment explanation
Indices: 787173--787204 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
787163 GAAATGTGAA
787173 TGTGT TGTGT TGTGT TGTGT TGTGT TGTGT TG
1 TGTGT TGTGT TGTGT TGTGT TGTGT TGTGT TG
787205 CAAGTGATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.41, T:0.59
Consensus pattern (5 bp):
TGTGT
Found at i:790905 original size:18 final size:18
Alignment explanation
Indices: 790857--790907 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
790847 ACTAATCTAT
790857 TATT-TTTTAATAAATAA
1 TATTATTTTAATAAATAA
* *
790874 TAAAATATTATTAATTAATAA
1 T--ATTATT-TTAATAAATAA
790895 TATTATTTTAATA
1 TATTATTTTAATA
790908 CCAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 7 0.27
20 2 0.08
21 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTATTTTAATAAATAA
Found at i:791022 original size:21 final size:22
Alignment explanation
Indices: 790995--791065 Score: 103
Period size: 21 Copynumber: 3.4 Consensus size: 22
790985 TTTTTTAATG
790995 AGTTTAACGAGCAACGAGTTGA
1 AGTTTAACGAGCAACGAGTTGA
*
791017 AG-TTAATGAGCAACGAGTT-A
1 AGTTTAACGAGCAACGAGTTGA
*
791037 AGTTTAACGAGCAACAAGTTG-
1 AGTTTAACGAGCAACGAGTTGA
791058 AGTTTAAC
1 AGTTTAAC
791066 AATACTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
20 3 0.07
21 39 0.89
22 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (22 bp):
AGTTTAACGAGCAACGAGTTGA
Found at i:797738 original size:2 final size:2
Alignment explanation
Indices: 797725--797783 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
797715 CAAATGCATG
*
797725 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
797767 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
797784 CATGTAACAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:798258 original size:18 final size:18
Alignment explanation
Indices: 798235--798286 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
798225 CGTAGAAATT
*
798235 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
798253 TGTCCCAAAGGACCAATA
1 TGTCCCGAAGGACCACTA
*
798271 TATCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
798287 ATAGAACAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:798307 original size:28 final size:28
Alignment explanation
Indices: 798267--798321 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
798257 CCAAAGGACC
798267 AATATATCCCGAAGGACCACATAGAACA
1 AATATATCCCGAAGGACCACATAGAACA
* *
798295 AATATGTCCCGAAGGACCACGTAGAAC
1 AATATATCCCGAAGGACCACATAGAAC
798322 CCTCGACTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.25, G:0.18, T:0.15
Consensus pattern (28 bp):
AATATATCCCGAAGGACCACATAGAACA
Found at i:802066 original size:12 final size:12
Alignment explanation
Indices: 802049--802074 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
802039 TAACAAATTC
802049 ATGTATATATAT
1 ATGTATATATAT
802061 ATGTATATATAT
1 ATGTATATATAT
802073 AT
1 AT
802075 CTCATCTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:802551 original size:18 final size:18
Alignment explanation
Indices: 802528--802579 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
802518 CGTAGAAATT
802528 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
802546 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
802564 TGCCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
802580 ATAGAACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.27, C:0.37, G:0.23, T:0.13
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:803492 original size:11 final size:11
Alignment explanation
Indices: 803476--803512 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
803466 TGAGTGCATC
803476 GATGCATGGCT
1 GATGCATGGCT
803487 GATGCAT--C-
1 GATGCATGGCT
803495 GATGCATGGCT
1 GATGCATGGCT
803506 GATGCAT
1 GATGCAT
803513 CGATGCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.30
9 1 0.04
10 1 0.04
11 14 0.61
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (11 bp):
GATGCATGGCT
Found at i:803494 original size:19 final size:19
Alignment explanation
Indices: 803465--803520 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
803455 TCAAAATAGC
803465 CTGAGTGCATCGATGCATGG
1 CTGA-TGCATCGATGCATGG
803485 CTGATGCATCGATGCATGG
1 CTGATGCATCGATGCATGG
803504 CTGATGCATCGATGCAT
1 CTGATGCATCGATGCAT
803521 CAAATGCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 32 0.89
20 4 0.11
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (19 bp):
CTGATGCATCGATGCATGG
Found at i:803498 original size:8 final size:8
Alignment explanation
Indices: 803470--803535 Score: 51
Period size: 8 Copynumber: 7.2 Consensus size: 8
803460 ATAGCCTGAG
803470 TGCATCGA
1 TGCATCGA
803478 TGCATGGCTGA
1 TGCAT--C-GA
803489 TGCATCGA
1 TGCATCGA
803497 TGCATGGCTGA
1 TGCAT--C-GA
803508 TGCATCGA
1 TGCATCGA
*
803516 TGCATCAAA
1 TGCATC-GA
803525 TGCATTCGA
1 TGCA-TCGA
803534 TG
1 TG
803536 TTTTCATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
8 20 0.42
9 10 0.21
10 4 0.08
11 14 0.29
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (8 bp):
TGCATCGA
Found at i:806307 original size:23 final size:22
Alignment explanation
Indices: 806276--806353 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
806266 GGCCTTGTAC
806276 ATCGATGCACATTCAAGGCGTGT
1 ATCGATGCACATTCAAGG-GTGT
* * *
806299 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACATTCAAGGGTGT
*
806320 ATCGATGCACATTCAAAGGGATGC
1 ATCGATGCACATTC-AAGGG-TGT
806344 ATCGATGCAC
1 ATCGATGCAC
806354 TGTTAAGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 16 0.36
22 2 0.04
23 15 0.33
24 12 0.27
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGGTGT
Found at i:812141 original size:19 final size:17
Alignment explanation
Indices: 812117--812163 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
812107 GGACGCTTAG
*
812117 TGCATCGGTGCACTAAGAA
1 TGCATCGATGCA-TAA-AA
812136 TGCATCGATGCATAAAA
1 TGCATCGATGCATAAAA
812153 TGCATTCGATG
1 TGCA-TCGATG
812164 TTTCAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 11 0.42
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (17 bp):
TGCATCGATGCATAAAA
Found at i:812183 original size:64 final size:63
Alignment explanation
Indices: 812115--812294 Score: 204
Period size: 65 Copynumber: 2.8 Consensus size: 63
812105 TTGGACGCTT
* *
812115 AGTGCATCGGTGCACTAAG-AATGCATCGATGCATAAAATGCATTCGATGTTTCA-AAATAGC-C
1 AGTGCATCGATGCA-T-AGTAATGCATCGATGTATAAAATGCATTCGATGTTTCATAAA-A-CTC
812177 TG
62 TG
* * * *
812179 AGTGCATCGATGCATGGTTGATGCATCGATGTATCAAATGCATTCTATGTTTTCATAAAACTCTG
1 AGTGCATCGATGCATAG-TAATGCATCGATGTATAAAATGCATTCGATG-TTTCATAAAACTCTG
* *
812244 AGTGCATCGATGCATAGTATATGCATCGGTGTATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATAGTA-ATGCATCGATGTATAAAATGCATTCGATGTT
812295 CAATTTATTC
Statistics
Matches: 99, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 43 0.43
65 51 0.52
66 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (63 bp):
AGTGCATCGATGCATAGTAATGCATCGATGTATAAAATGCATTCGATGTTTCATAAAACTCTG
Found at i:812268 original size:65 final size:65
Alignment explanation
Indices: 812135--812294 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
812125 TGCACTAAGA
* *
812135 ATGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGTTG
1 ATGCATCGATGTATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGTTG
* *
812199 ATGCATCGATGTATCAAATGCATTCTATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAGT
1 ATGCATCGATGTATAAAATGCATTCGATGTTTTCA-AAATAGC-CTGAGTGCATCGATGCATAGT
812262 AT-
64 -TG
* *
812264 ATGCATCGGTGTATGAAATGCATTCGATGTT
1 ATGCATCGATGTATAAAATGCATTCGATGTT
812295 CAATTTATTC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 27 0.32
65 54 0.64
66 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (65 bp):
ATGCATCGATGTATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGTTG
Found at i:814381 original size:3 final size:3
Alignment explanation
Indices: 814373--814397 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
814363 TTGAGCAGTT
814373 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
814398 TTGACGAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:817415 original size:30 final size:29
Alignment explanation
Indices: 817375--817626 Score: 240
Period size: 30 Copynumber: 8.5 Consensus size: 29
817365 CATTTTACCA
* *
817375 TTAAAAATATATTTTATTTTTATATTAAT
1 TTAAAAATATATTTTATTCTTATATTAAC
* * *
817404 TTATTAAATATATTTTATTCTTGTCTTAAC
1 TTA-AAAATATATTTTATTCTTATATTAAC
817434 TTAAAAATATATTTTATTCTTACT-TTAAC
1 TTAAAAATATATTTTATTCTTA-TATTAAC
*
817463 TTAAAAATATATTTTAGTCTTTATATTAAC
1 TTAAAAATATATTTTATTC-TTATATTAAC
* *
817493 TTAAAAATATACATTATATTCTTA-ACTTAAA
1 TTAAAAATAT--ATTTTATTCTTATA-TTAAC
* * * * *
817524 TTATTAAATATATTCTACTCTTATCTTAAA
1 TTA-AAAATATATTTTATTCTTATATTAAC
* * * *
817554 TTATTAAATATAATTAATTCTTATTTTAAC
1 TTA-AAAATATATTTTATTCTTATATTAAC
* *
817584 TT-AAAATATCTTTTATTCTTATCTTAAC
1 TTAAAAATATATTTTATTCTTATATTAAC
817612 TTAAAAATATATTTT
1 TTAAAAATATATTTT
817627 TATCTTAACT
Statistics
Matches: 186, Mismatches: 27, Indels: 20
0.80 0.12 0.09
Matches are distributed among these distances:
28 23 0.12
29 55 0.30
30 85 0.46
31 10 0.05
32 13 0.07
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (29 bp):
TTAAAAATATATTTTATTCTTATATTAAC
Found at i:817454 original size:24 final size:25
Alignment explanation
Indices: 817425--817483 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 25
817415 ATTTTATTCT
817425 TGTCTTAACTTAAAAATATATTTTA
1 TGTCTTAACTTAAAAATATATTTTA
*
817450 TTCTTACTTTAACTTAAAAATATATTTTA
1 -T-GT-C-TTAACTTAAAAATATATTTTA
817479 -GTCTT
1 TGTCTT
817484 TATATTAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
24 2 0.07
25 1 0.04
26 2 0.07
27 1 0.04
28 1 0.04
29 21 0.75
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (25 bp):
TGTCTTAACTTAAAAATATATTTTA
Found at i:817528 original size:120 final size:118
Alignment explanation
Indices: 817375--817622 Score: 313
Period size: 120 Copynumber: 2.1 Consensus size: 118
817365 CATTTTACCA
* * * * * * *
817375 TTAAAAATAT-ATTTTATTTTTATATTAATTTATTAAATATATTTTATTCTTGTCTTAACTTA-A
1 TTAAAAATATAATTATATTCTTATATTAAATTATTAAATATATTCTACTCTTATCTTAAATTATA
* *
817438 AAATATATTTTATTCTTACTTTAACTTAAAAATATATTTTAGTCTTTATATTAAC
66 AAATATAATTAATTCTTACTTTAACTT-AAAATATATTTTAGTC-TTATATTAAC
817493 TTAAAAATATACATTATATTCTTA-ACTTAAATTATTAAATATATTCTACTCTTATCTTAAATTA
1 TTAAAAATATA-ATTATATTCTTATA-TTAAATTATTAAATATATTCTACTCTTATCTTAAATTA
* * * * *
817557 TTAAATATAATTAATTCTTATTTTAACTTAAAATATCTTTTATTCTTATCTTAAC
64 TAAAATATAATTAATTCTTACTTTAACTTAAAATATATTTTAGTCTTATATTAAC
817612 TTAAAAATATA
1 TTAAAAATATA
817623 TTTTTATCTT
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
118 10 0.09
119 21 0.19
120 57 0.51
121 24 0.21
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (118 bp):
TTAAAAATATAATTATATTCTTATATTAAATTATTAAATATATTCTACTCTTATCTTAAATTATA
AAATATAATTAATTCTTACTTTAACTTAAAATATATTTTAGTCTTATATTAAC
Found at i:817645 original size:22 final size:24
Alignment explanation
Indices: 817570--817648 Score: 86
Period size: 24 Copynumber: 3.1 Consensus size: 24
817560 AATATAATTA
* *
817570 ATTCTTATTTTAACTTAAAATATCTTTT
1 ATTCTTATCTTAACTTAAAA-A---TAT
817598 ATTCTTATCTTAACTTAAAAATAT
1 ATTCTTATCTTAACTTAAAAATAT
* *
817622 ATTTTTATCTTAACTAAAAAATAT
1 ATTCTTATCTTAACTTAAAAATAT
817646 ATT
1 ATT
817649 ATATTTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 27 0.57
27 1 0.02
28 19 0.40
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTCTTATCTTAACTTAAAAATAT
Found at i:817681 original size:30 final size:29
Alignment explanation
Indices: 817378--817681 Score: 194
Period size: 30 Copynumber: 10.4 Consensus size: 29
817368 TTTACCATTA
* * *
817378 AAAATATATTTTATTTTTATATT-AATTT
1 AAAATATATTATATTCTTATCTTAAATTT
* * * *
817406 ATTAAATATATTTTATTCTTGTCTTAACTTA
1 A--AAATATATTATATTCTTATCTTAAATTT
* * *
817437 AAAATATATTTTATTCTTA-CTTTAACTTA
1 AAAATATATTATATTCTTATC-TTAAATTT
* * * * *
817466 AAAATATATTTTAGTCTTTATATTAACTTA
1 AAAATATATTATATTC-TTATCTTAAATTT
*
817496 AAAATATACATTATATTCTTAACTTAAATTAT
1 AAAATAT--ATTATATTCTTATCTTAAATT-T
* * *
817528 TAAATATATTCTACTCTTATCTTAAATTAT
1 AAAATATATTATATTCTTATCTTAAATT-T
* * *
817558 TAAATATAATTA-ATTCTTAT-TTTAACTT
1 AAAATAT-ATTATATTCTTATCTTAAATTT
* * *
817586 AAAATATCTTTTATTCTTATCTT-AACTT
1 AAAATATATTATATTCTTATCTTAAATTT
* **
817614 AAAA-ATA-TAT-TT-TTATCTTAACTAA
1 AAAATATATTATATTCTTATCTTAAATTT
*
817639 AAAATATATTATATTTTTATCTTAAATTT
1 AAAATATATTATATTCTTATCTTAAATTT
817668 AAAATATTATTATA
1 AAAATA-TATTATA
817682 ATAAAATGTA
Statistics
Matches: 224, Mismatches: 34, Indels: 34
0.77 0.12 0.12
Matches are distributed among these distances:
24 7 0.03
25 7 0.03
26 5 0.02
27 7 0.03
28 28 0.12
29 63 0.28
30 78 0.35
31 16 0.07
32 13 0.06
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (29 bp):
AAAATATATTATATTCTTATCTTAAATTT
Found at i:817730 original size:30 final size:30
Alignment explanation
Indices: 817695--817799 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
817685 AAATGTAAAT
* *
817695 ATTTAAGTTAAGAATAAATTATATTTTTTA
1 ATTTAAGATAAGAATAAAGTATATTTTTTA
*
817725 ATTTAAGATAAGATTAAAGTATA-TTTTT-
1 ATTTAAGATAAGAATAAAGTATATTTTTTA
* * **
817753 ATGTTACA-AAAAGAATAAAATATATTTAATA
1 AT-TTA-AGATAAGAATAAAGTATATTTTTTA
* *
817784 AGTTAAGATAAAAATA
1 ATTTAAGATAAGAATA
817800 TATTTTTAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
28 2 0.03
29 22 0.37
30 34 0.58
31 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.09, T:0.40
Consensus pattern (30 bp):
ATTTAAGATAAGAATAAAGTATATTTTTTA
Found at i:817797 original size:25 final size:27
Alignment explanation
Indices: 817763--817834 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 27
817753 ATGTTACAAA
817763 AAGA-ATAAAATATATTTAATAA-GTT
1 AAGACATAAAATATATTTAATAATGTT
* *
817788 AAGATA-AAAATATATTT-TTAATGTT
1 AAGACATAAAATATATTTAATAATGTT
817813 AAGACATAAAAT-TGATTTAATA
1 AAGACATAAAATAT-ATTTAATA
817835 TGTGAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 3 0.08
25 24 0.62
26 10 0.26
27 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (27 bp):
AAGACATAAAATATATTTAATAATGTT
Found at i:821584 original size:15 final size:15
Alignment explanation
Indices: 821566--821595 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
821556 AAAACCATGT
821566 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
821581 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
821596 GAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:821602 original size:15 final size:15
Alignment explanation
Indices: 821569--821603 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
821559 ACCATGTTAG
* *
821569 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
821584 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
821599 ATAAA
1 ATAAA
821604 TAAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:821714 original size:21 final size:21
Alignment explanation
Indices: 821688--821739 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
821678 TAAGTAATAT
*
821688 AAAAAATAAAGAAA-AAGAAGA
1 AAAAAATAAAGAAATAA-AACA
*
821709 AAAAAATATAGAAATAAAACA
1 AAAAAATAAAGAAATAAAACA
*
821730 AATAAATAAA
1 AAAAAATAAA
821740 ATAATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.12
Consensus pattern (21 bp):
AAAAAATAAAGAAATAAAACA
Found at i:821778 original size:41 final size:41
Alignment explanation
Indices: 821733--821838 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 41
821723 TAAAACAAAT
821733 AAATAAAATAATAATAAAAAAGTAAAAATAATATAGATAT-A
1 AAATAAAATAATAATAAAAAAGTAAAAAT-ATATAGATATAA
* * *
821774 AAATAAAA-AAAAATAAAAAAAGTAAATATATATATATATAA
1 AAATAAAATAATAAT-AAAAAAGTAAAAATATATAGATATAA
*
821815 ATTAATAAAACTGATAATAAAAAA
1 A--AATAAAA-TAATAATAAAAAA
821839 TAATATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
40 14 0.26
41 23 0.43
43 7 0.13
44 6 0.11
45 4 0.07
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.25
Consensus pattern (41 bp):
AAATAAAATAATAATAAAAAAGTAAAAATATATAGATATAA
Found at i:821805 original size:32 final size:33
Alignment explanation
Indices: 821720--821814 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 33
821710 AAAAATATAG
821720 AAATAAAACAAATAAATA-A-AATAATAATAAAA
1 AAATAAAA-AAATAAATATATAATAATAATAAAA
* * *
821752 AAGTAAAAATAATATAGATATAA-AATAA-AAAA
1 AAATAAAAA-AATAAATATATAATAATAATAAAA
821784 AAATAAAAAAAGTAAATATATATATATATAA
1 AAATAAAAAAA-TAAATATATA-ATA-ATAA
821815 ATTAATAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
31 3 0.06
32 33 0.66
33 7 0.14
34 3 0.06
35 4 0.08
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (33 bp):
AAATAAAAAAATAAATATATAATAATAATAAAA
Found at i:821845 original size:42 final size:42
Alignment explanation
Indices: 821729--821858 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 42
821719 GAAATAAAAC
* * *
821729 AAATAAATAAAATAATAATAAAAAAGTAAAAATAATATAGATAT
1 AAATTAATAAAATAATAATAAAAAA-TAAATAT-ATATATATAT
* * *
821773 AAAATAA-AAAAAAATAA-AAAAAGTAAATATATATATATAT
1 AAATTAATAAAATAATAATAAAAAATAAATATATATATATAT
* * *
821813 AAATTAATAAAACTGATAATAAAAAATAATATATTTATAAATAT
1 AAATTAATAAAA-TAATAATAAAAAATAA-ATATATATATATAT
821857 AA
1 AA
821859 TCTAAAAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
40 15 0.21
41 10 0.14
42 9 0.13
43 17 0.24
44 19 0.27
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (42 bp):
AAATTAATAAAATAATAATAAAAAATAAATATATATATATAT
Found at i:821925 original size:22 final size:21
Alignment explanation
Indices: 821871--821931 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
821861 TAAAAAAAAT
821871 AAAAATATATAC-T-AAAGTAA
1 AAAAATAT-TACATAAAAGTAA
* *
821891 AAAAGAAAATACATAAAATGTAA
1 AAAA-ATATTACATAAAA-GTAA
821914 AAAAATATTACATGAAAA
1 AAAAATATTACAT-AAAA
821932 AAAAGAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 10 0.31
23 12 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATATTACATAAAAGTAA
Found at i:822309 original size:34 final size:34
Alignment explanation
Indices: 822255--822323 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
822245 GAATCCTAGC
822255 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* * *
822289 AAAATTTTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
822323 A
1 A
822324 GTAGGACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:823084 original size:106 final size:104
Alignment explanation
Indices: 822785--823678 Score: 861
Period size: 105 Copynumber: 8.5 Consensus size: 104
822775 AATATTGTTC
* * * * *
822785 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAAT-TGAAAATGTTTGTTGACA
** * * * *
822850 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
822891 CGAGTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTG-AA-CG-AAAT-CTTGTTGACAAT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAAC
822952 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
822991 CGAGTCCAATATCCTTCACTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTG-AAAATGTTTGTTGACA
823056 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * ** * *
823097 CGAGTGGCACGATATCCTCCG-TCGTGGAGTT-AAAATCGCGGATGAAACTGAAAAGTTGTTCGT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-TCTGAAATTGAAAA--TGTTTGT
*
823160 TGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
59 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
823206 CGGGTAGCACGATATCC-TCTGTCATG-G-AGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTG
1 CGAGT--C-CAATATCCTTC-G-C-TGTGAAGTTGAAATTGGCTCTGAAATT--GAAAATGTTTG
*
823268 TTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
58 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * **
823315 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCCGAAA-T-----TGCTTGTCGACAGT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAAC
* * * *
823374 CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
66 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
823413 TGGGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAAT-TATTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGAAAATGT-TTGTTGACA
823477 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* ** * *
823518 GGAGTCCAATATCCTTCATTATGAAGTTGAAATTGGCTCTGAAATTGAGAA-GTTGTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATG-T-TTGTTGACA
** * * * * *
823582 GGCAGCGGTCCCTTCGTCGTGAAGTTTAATTTGCGTTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
823623 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-GTTTG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTG
823679 GCTTCGAGCT
Statistics
Matches: 659, Mismatches: 96, Indels: 69
0.80 0.12 0.08
Matches are distributed among these distances:
98 84 0.13
100 81 0.12
101 5 0.01
102 1 0.00
103 4 0.01
104 8 0.01
105 183 0.28
106 113 0.17
107 7 0.01
108 11 0.02
109 150 0.23
110 6 0.01
111 5 0.01
112 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (104 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAAC
CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:823318 original size:218 final size:206
Alignment explanation
Indices: 822785--823669 Score: 748
Period size: 206 Copynumber: 4.2 Consensus size: 206
822775 AATATTGTTC
* * * * *
822785 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCACTGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTGTTTGTTGACA
** * * * *
822850 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGA
66 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCTAATATCCTCCGCTGTGA
* * ** *
822915 AGATGAAATTGACTCTGAACGAAATCTTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAAC
131 AGATAAAATCGACGATGAACGAAATCTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
822980 TTGTGTTGTCT
196 TTGTGTTGTCT
* * * *
822991 CGAGTCCAATATCCTTCACTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCACTGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTGTTTGTTGACA
*
823056 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGC-ACGATATCCTCCG-T
66 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGT--CTA--ATATCCTCCGCT
* * * *
823119 CGTGGAGTTAAAATCG-CGGATGAAACTGAAAAGTTGTTCGTTGACAACCAGTCGTCCCTTCGTT
127 -GTGAAGATAAAATCGAC-GATG-AAC-G-AAA--TCTT-GTTGACAACCAGCCGTCCCTTCGTT
823183 GTGAAGTTGAACTTGTGTTGTCT
184 GTGAAGTTGAACTTGTGTTGTCT
* * *
823206 CGGGTAGCACGATATCCTCTGTCA-TG-G-AGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTG
1 CGAGT--C-CAATAT-C-CT-TCACTGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTGTTTG
* *
823268 TTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCG
60 TTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCTAATATCCTCCG
* * * * * * * ** * *
823333 CTGTGAAGTTGAGATTG--GCT--CCGAAATTGCTTGTCGACAGTCAGCCGCCCCTTCGCTGTGA
125 CTGTGAAGATAAAATCGACGATGAACGAAA-T-CTTGTTGACAACCAGCCGTCCCTTCGTTGTGA
* *
823394 AGTTGAGCTTGTGCTGTCT
188 AGTTGAACTTGTGTTGTCT
* * * * * * * * * *
823413 TGGGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAATT-ATTGTTGACA
1 CGAGTCCAATATCCTTCACTGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTGTTTGTTGACA
* * * * ** *
823477 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCATTATGA
66 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCTAATATCCTCCGCTGTGA
* * * * ** * * ** * *
823542 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGT
131 AGATAAAATCGACGATG-AA-CGA-AA--TCTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGT
* * *
823607 TTAATTTGCGTTGTCT
191 TGAACTTGTGTTGTCT
* ** * *
823623 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
1 CGAGTCCAATATCCTTCACTGCGAAGTTGAAATTGGCTCTGGAATTG
823670 AGAAGTTTGG
Statistics
Matches: 560, Mismatches: 87, Indels: 60
0.79 0.12 0.08
Matches are distributed among these distances:
201 2 0.00
202 4 0.01
203 81 0.14
204 29 0.05
205 3 0.01
206 96 0.17
207 47 0.08
208 8 0.01
209 25 0.04
210 85 0.15
211 3 0.01
212 3 0.01
213 2 0.00
214 3 0.01
215 70 0.12
216 2 0.00
217 2 0.00
218 86 0.15
219 2 0.00
220 4 0.01
221 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (206 bp):
CGAGTCCAATATCCTTCACTGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCTAATATCCTCCGCTGTGA
AGATAAAATCGACGATGAACGAAATCTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
TTGTGTTGTCT
Found at i:824417 original size:65 final size:65
Alignment explanation
Indices: 824309--824478 Score: 297
Period size: 65 Copynumber: 2.6 Consensus size: 65
824299 GGGAGATAAA
824309 ATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
824373 GTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
824438 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
824479 TTGTTTCGAG
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 3 0.03
65 96 0.97
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (65 bp):
ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
Found at i:824484 original size:102 final size:102
Alignment explanation
Indices: 824378--825141 Score: 1393
Period size: 102 Copynumber: 7.5 Consensus size: 102
824368 TCAATGTTTA
* * *
824378 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
824443 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
824480 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
824545 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
824582 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
824647 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
824684 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
824749 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
824786 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
824851 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
824888 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
824953 TGTTTCAAGAGAAACTGTCTCAATGGAGACAGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
824990 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTAAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
825055 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * **
825092 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
825142 CTGTCTCAAG
Statistics
Matches: 639, Mismatches: 23, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 639 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:824568 original size:167 final size:169
Alignment explanation
Indices: 824278--824595 Score: 523
Period size: 167 Copynumber: 1.9 Consensus size: 169
824268 AAGATGATGC
* *
824278 TTCAAGAGAAAACTGTCTCAAGGGAGATAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
824343 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
66 AAAATTAATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
824408 GAAA-TTCATTTCAAGGGAAATGTTTTCAATATTTATGT
131 AAAATTTCATTTCAAGGGAAATGTTTTCAATATTTATGT
* *
824446 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCGAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
824510 AAAATTAATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
66 AAAATTAATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
**
824575 AAAATTTTGTTTCAAGGGAAA
131 AAAATTTCATTTCAAGGGAAA
824596 CTATCTCAAG
Statistics
Matches: 138, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
167 116 0.84
168 22 0.16
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTAATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTTCATTTCAAGGGAAATGTTTTCAATATTTATGT
Found at i:826052 original size:22 final size:22
Alignment explanation
Indices: 826027--826077 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
826017 TTGTGTTTGG
826027 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
826049 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
826071 TCAAAGG
1 TCAAAGG
826078 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:826740 original size:23 final size:23
Alignment explanation
Indices: 826714--826777 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 23
826704 TTTTGCTCTT
826714 TTTTCCTTTTGTTCTTGTTTCTC
1 TTTTCCTTTTGTTCTTGTTTCTC
* * * *
826737 TTTTTCTTTGTGTTTTTTTTTTCTT
1 TTTTCCTTT-TG-TTCTTGTTTCTC
826762 TTTTCCTTCTT-TTCTT
1 TTTTCCTT-TTGTTCTT
826778 TTTTGTTCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
23 12 0.38
24 2 0.06
25 17 0.53
26 1 0.03
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTTCCTTTTGTTCTTGTTTCTC
Found at i:826740 original size:24 final size:25
Alignment explanation
Indices: 826709--826777 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
826699 TTGATTTTTG
826709 CTCTTTTTTCCTTTTGTTCTTGTTT
1 CTCTTTTTTCCTTTTGTTCTTGTTT
*
826734 CTC-TTTTT-CTTTGTGTT-TTTTTT
1 CTCTTTTTTCCTTT-TGTTCTTGTTT
*
826757 TTCTTTTTTCCTTCTT-TTCTT
1 CTCTTTTTTCCTT-TTGTTCTT
826778 TTTTGTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 11 0.30
24 16 0.43
25 9 0.24
26 1 0.03
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.75
Consensus pattern (25 bp):
CTCTTTTTTCCTTTTGTTCTTGTTT
Found at i:826750 original size:18 final size:17
Alignment explanation
Indices: 826729--826762 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
826719 CTTTTGTTCT
826729 TGTTTCTCTTTTTCTTTG
1 TGTTT-TCTTTTTCTTTG
*
826747 TGTTTTTTTTTTCTTT
1 TGTTTTCTTTTTCTTT
826763 TTTCCTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (17 bp):
TGTTTTCTTTTTCTTTG
Found at i:829735 original size:15 final size:15
Alignment explanation
Indices: 829717--829746 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
829707 AAAACCATGT
829717 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
829732 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
829747 GAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:829753 original size:15 final size:15
Alignment explanation
Indices: 829720--829754 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
829710 ACCATGTTAG
* *
829720 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
829735 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
829750 ATAAA
1 ATAAA
829755 TTAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:829818 original size:30 final size:31
Alignment explanation
Indices: 829761--829823 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
829751 TAAATTAATT
*
829761 AATTAAATTAAAATAAAATAAAGAGAAAACA
1 AATTAAATAAAAATAAAATAAAGAGAAAACA
*
829792 AATTAAATAAAAGATAAGAT-AA-AGAAAACA
1 AATTAAATAAAA-ATAAAATAAAGAGAAAACA
829822 AA
1 AA
829824 GATAAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 10 0.34
31 13 0.45
32 6 0.21
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.17
Consensus pattern (31 bp):
AATTAAATAAAAATAAAATAAAGAGAAAACA
Found at i:829870 original size:21 final size:21
Alignment explanation
Indices: 829844--829895 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
829834 TAAGTAATAT
*
829844 AAAAAATAAAGAAA-AAGAAGA
1 AAAAAATAAAGAAATAA-AACA
*
829865 AAAAAATATAGAAATAAAACA
1 AAAAAATAAAGAAATAAAACA
*
829886 AATAAATAAA
1 AAAAAATAAA
829896 ATAATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.12
Consensus pattern (21 bp):
AAAAAATAAAGAAATAAAACA
Found at i:829922 original size:49 final size:50
Alignment explanation
Indices: 829842--829948 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 50
829832 AGTAAGTAAT
* *
829842 ATAAAAAATAAAGAAAAAGAAGAAAAAAATATAGAAATAAA-ACAAATAA
1 ATAAAAAATAAAGAAAAAGAAGAAAAAAATATAGAAATAAATAAAAAAAA
* * * *
829891 ATAAAATAATAATA-AAAAAGTA-AAAATAATATATATATAAATAAAAAAAA
1 ATAAAA-AATAA-AGAAAAAGAAGAAAAAAATATAGAAATAAATAAAAAAAA
829941 ATAAAAAA
1 ATAAAAAA
829949 AGTAAATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
49 24 0.49
50 24 0.49
51 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.18
Consensus pattern (50 bp):
ATAAAAAATAAAGAAAAAGAAGAAAAAAATATAGAAATAAATAAAAAAAA
Found at i:829950 original size:40 final size:40
Alignment explanation
Indices: 829887--830028 Score: 130
Period size: 39 Copynumber: 3.5 Consensus size: 40
829877 AATAAAACAA
*
829887 ATAAATAAAATAATAAT-AAAAAAGTAAAAATAATATATAT
1 ATAAATAAAA-AAAAATAAAAAAAGTAAAAATAATATATAT
*
829927 ATAAATAAAAAAAAATAAAAAAAGTAAATAT-ATATATAT
1 ATAAATAAAAAAAAATAAAAAAAGTAAAAATAATATATAT
* * * * * *
829966 ATAAATTAATAAAACTGATAATA--AAAAATAATATATTTAT
1 ATAAATAAAAAAAAATAAAAAAAGTAAAAATAATATA--TAT
*
830006 ATATAATCTAAAAAAAATAAAAA
1 ATA-AAT-AAAAAAAAATAAAAA
830029 TATATACTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 10
0.78 0.12 0.09
Matches are distributed among these distances:
37 5 0.06
38 5 0.06
39 30 0.36
40 29 0.35
41 3 0.04
42 11 0.13
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (40 bp):
ATAAATAAAAAAAAATAAAAAAAGTAAAAATAATATATAT
Found at i:829979 original size:33 final size:33
Alignment explanation
Indices: 829904--829970 Score: 68
Period size: 31 Copynumber: 2.0 Consensus size: 33
829894 AAATAATAAT
*
829904 AAAAAAGTAAAAATAAT-ATATATAT--AAATAA
1 AAAAAAATAAAAA-AATAATATATATATAAATAA
*
829935 AAAAAAATAAAAAAAGTAAATATATATATATATAA
1 AAAAAAATAAAAAAA-T-AATATATATATAAATAA
829970 A
1 A
829971 TTAATAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
30 2 0.07
31 13 0.45
33 8 0.28
35 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (33 bp):
AAAAAAATAAAAAAATAATATATATATAAATAA
Found at i:830078 original size:22 final size:21
Alignment explanation
Indices: 830024--830084 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
830014 TAAAAAAAAT
830024 AAAAATATATAC-T-AAAGTAA
1 AAAAATAT-TACATAAAAGTAA
* *
830044 AAAAGAAAATACATAAAATGTAA
1 AAAA-ATATTACATAAAA-GTAA
830067 AAAAATATTACATGAAAA
1 AAAAATATTACAT-AAAA
830085 AAAAGAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 10 0.31
23 12 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATATTACATAAAAGTAA
Found at i:830452 original size:34 final size:34
Alignment explanation
Indices: 830409--830477 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
830399 GAATCCTAGC
830409 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
830443 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
830477 A
1 A
830478 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:831688 original size:5 final size:5
Alignment explanation
Indices: 831678--831735 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
831668 AAATCAAGGA
831678 AAAAT AAAAT AAAAT AAAAT AAAA- AGAACA- AAAAT AGAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AA-AT AAAAT A-AAAT AAAAT
*
831723 AAAAG AAAA- AAAA
1 AAAAT AAAAT AAAA
831736 AGGAAAATTG
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
4 10 0.21
5 31 0.65
6 7 0.15
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.10
Consensus pattern (5 bp):
AAAAT
Found at i:831731 original size:21 final size:20
Alignment explanation
Indices: 831688--831736 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
831678 AAAATAAAAT
*
831688 AAAATAAAATAAAAAGAACA
1 AAAATAAAATAAAAAAAACA
*
831708 AAAATAGAAATAAAAAAAAGA
1 AAAATA-AAATAAAAAAAACA
831729 AAAA-AAAA
1 AAAATAAAA
831737 GGAAAATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 7 0.27
21 16 0.62
ACGTcount: A:0.84, C:0.02, G:0.06, T:0.08
Consensus pattern (20 bp):
AAAATAAAATAAAAAAAACA
Found at i:831741 original size:24 final size:26
Alignment explanation
Indices: 831689--831737 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
831679 AAATAAAATA
*
831689 AAATAAAATAAAAAGAACAAAAATAG
1 AAATAAAATAAAAAGAACAAAAAAAG
831715 AAAT-AAA-AAAAAGAA-AAAAAAAG
1 AAATAAAATAAAAAGAACAAAAAAAG
831738 GAAAATTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 8 0.36
25 3 0.14
26 4 0.18
ACGTcount: A:0.82, C:0.02, G:0.08, T:0.08
Consensus pattern (26 bp):
AAATAAAATAAAAAGAACAAAAAAAG
Found at i:831743 original size:31 final size:32
Alignment explanation
Indices: 831673--831743 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 32
831663 CCGAAAAATC
*
831673 AAGGAAAAATAAAATAAAATAAAATAAAAAGAA
1 AAGG-AAAATAAAATAAAATAAAAGAAAAAGAA
*
831706 CA--AAAATAGAAATAAAA-AAAAGAAAAA-AA
1 AAGGAAAATA-AAATAAAATAAAAGAAAAAGAA
831735 AAGGAAAAT
1 AAGGAAAAT
831744 TGGGTTGCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
29 3 0.09
30 15 0.47
31 13 0.41
33 1 0.03
ACGTcount: A:0.79, C:0.01, G:0.10, T:0.10
Consensus pattern (32 bp):
AAGGAAAATAAAATAAAATAAAAGAAAAAGAA
Found at i:836666 original size:20 final size:20
Alignment explanation
Indices: 836611--836666 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
836601 GATACTGACC
**
836611 CTTTA-GTATCGATACATAA
1 CTTTAGGTATCGATACCCAA
* *
836630 CCTTGGGTATCGATACCCAA
1 CTTTAGGTATCGATACCCAA
836650 CTTTAGGTATCGATACC
1 CTTTAGGTATCGATACC
836667 GACTTACTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (20 bp):
CTTTAGGTATCGATACCCAA
Found at i:841322 original size:59 final size:60
Alignment explanation
Indices: 841248--841369 Score: 201
Period size: 59 Copynumber: 2.0 Consensus size: 60
841238 CCTTGAGTTC
* * * *
841248 TCAGTAATGTTCATGGGCTTATAAAAGATATCAGTACTGTACAT-GTCTTATAAAAGATA
1 TCAGTAATGTACATGGGCTTATAAAAGATATCAGTACCGTACATGGGCCTATAAAAGATA
841307 TCAGTAATGTACATGGGCTTATAAAAGATATCAGTACCGTACATGGGCCTATAAAAGATA
1 TCAGTAATGTACATGGGCTTATAAAAGATATCAGTACCGTACATGGGCCTATAAAAGATA
841367 TCA
1 TCA
841370 AAAGTATACA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
59 42 0.72
60 16 0.28
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (60 bp):
TCAGTAATGTACATGGGCTTATAAAAGATATCAGTACCGTACATGGGCCTATAAAAGATA
Found at i:841330 original size:30 final size:30
Alignment explanation
Indices: 841248--841369 Score: 183
Period size: 30 Copynumber: 4.1 Consensus size: 30
841238 CCTTGAGTTC
*
841248 TCAGTAATGTTCATGGGCTTATAAAAGATA
1 TCAGTAATGTACATGGGCTTATAAAAGATA
* *
841278 TCAGTACTGTACAT-GTCTTATAAAAGATA
1 TCAGTAATGTACATGGGCTTATAAAAGATA
841307 TCAGTAATGTACATGGGCTTATAAAAGATA
1 TCAGTAATGTACATGGGCTTATAAAAGATA
** *
841337 TCAGTACCGTACATGGGCCTATAAAAGATA
1 TCAGTAATGTACATGGGCTTATAAAAGATA
841367 TCA
1 TCA
841370 AAAGTATACA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 27 0.33
30 56 0.67
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (30 bp):
TCAGTAATGTACATGGGCTTATAAAAGATA
Found at i:841380 original size:30 final size:30
Alignment explanation
Indices: 841259--841385 Score: 159
Period size: 30 Copynumber: 4.3 Consensus size: 30
841249 CAGTAATGTT
*
841259 CATGGGCTTATAAAAGATATCAGTACTGTA
1 CATGGGCTTATAAAAGATATCAGAACTGTA
*
841289 CAT-GTCTTATAAAAGATATCAGTAA-TGTA
1 CATGGGCTTATAAAAGATATCAG-AACTGTA
* *
841318 CATGGGCTTATAAAAGATATCAGTACCGTA
1 CATGGGCTTATAAAAGATATCAGAACTGTA
* * * *
841348 CATGGGCCTATAAAAGATATCAAAAGTATA
1 CATGGGCTTATAAAAGATATCAGAACTGTA
841378 CATGGGCT
1 CATGGGCT
841386 AATACATGGG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
29 26 0.32
30 56 0.68
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (30 bp):
CATGGGCTTATAAAAGATATCAGAACTGTA
Found at i:842459 original size:18 final size:18
Alignment explanation
Indices: 842436--842480 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
842426 TTTTTTGCAT
842436 TTCCTTAGTTTCAAAATC
1 TTCCTTAGTTTCAAAATC
842454 TTCCTTAGTTTCAAAATC
1 TTCCTTAGTTTCAAAATC
842472 TTCCTTAGT
1 TTCCTTAGT
842481 GTGTTGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.47
Consensus pattern (18 bp):
TTCCTTAGTTTCAAAATC
Found at i:844697 original size:16 final size:17
Alignment explanation
Indices: 844663--844703 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
844653 AAAATTATAT
*
844663 AATATATGGTTTTTAAA
1 AATATATAGTTTTTAAA
844680 AATATATAGTTTTTAAA
1 AATATATAGTTTTTAAA
844697 ACATATA
1 A-ATATA
844704 ATATATAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (17 bp):
AATATATAGTTTTTAAA
Found at i:844782 original size:20 final size:20
Alignment explanation
Indices: 844748--844847 Score: 86
Period size: 20 Copynumber: 5.3 Consensus size: 20
844738 AAACATATAT
*
844748 AATATA-TATAATTTTTGAA
1 AATATATTATAGTTTTTGAA
844767 AATATATTATAGTTTTTGAA
1 AATATATTATAGTTTTTGAA
* * *
844787 AACATATTACAGTGTTTG--
1 AATATATTATAGTTTTTGAA
* *
844805 -ATA-A-CATAATTTTTGAA
1 AATATATTATAGTTTTTGAA
* *
844822 AATATATTAGAGTTTTTGGA
1 AATATATTATAGTTTTTGAA
844842 AATATA
1 AATATA
844848 ATGTATGTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
15 7 0.11
16 1 0.02
17 2 0.03
18 3 0.05
19 7 0.11
20 42 0.68
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (20 bp):
AATATATTATAGTTTTTGAA
Found at i:844849 original size:35 final size:35
Alignment explanation
Indices: 844774--844849 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
844764 GAAAATATAT
*
844774 TATAGTTTTTGAAAACATATTACAGTGTTTGATAA
1 TATAATTTTTGAAAACATATTACAGTGTTTGATAA
* * * *
844809 CATAATTTTTGAAAATATATTAGAGTTTTTGGA-AA
1 TATAATTTTTGAAAACATATTACAGTGTTT-GATAA
844844 TATAAT
1 TATAAT
844850 GTATGTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 32 0.94
36 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (35 bp):
TATAATTTTTGAAAACATATTACAGTGTTTGATAA
Found at i:848539 original size:20 final size:21
Alignment explanation
Indices: 848514--848560 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
848504 TGAAAAGATT
* *
848514 TAATAAAATAAAATAG-ATAA
1 TAATAAAATAAAAAAGAAAAA
848534 TAAT-AAATAAAAAAGAAAAA
1 TAATAAAATAAAAAAGAAAAA
848554 TAATAAA
1 TAATAAA
848561 TTAATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (21 bp):
TAATAAAATAAAAAAGAAAAA
Found at i:848566 original size:24 final size:24
Alignment explanation
Indices: 848513--848568 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
848503 TTGAAAAGAT
*
848513 TTAATAAAATAAAATAGATAATAA
1 TTAATAAAATAAAATAAATAATAA
*
848537 TAAATAAAA-AAGAA-AAATAATAAA
1 TTAATAAAATAA-AATAAATAAT-AA
848561 TTAATAAA
1 TTAATAAA
848569 TTATAATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (24 bp):
TTAATAAAATAAAATAAATAATAA
Found at i:848642 original size:14 final size:14
Alignment explanation
Indices: 848625--848652 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
848615 AATAAAAGAT
848625 AACAATTAAATAAA
1 AACAATTAAATAAA
848639 AACAATTAAATAAA
1 AACAATTAAATAAA
848653 TAATTTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AACAATTAAATAAA
Found at i:849376 original size:85 final size:81
Alignment explanation
Indices: 849263--849495 Score: 284
Period size: 75 Copynumber: 2.9 Consensus size: 81
849253 AAATAATTCC
* *
849263 TAAAATAATAACTTAAATCCTAATTAAAACT-CTTAAAACTATTTAAACTAAAATACCTAAAACA
1 TAAAATAATATCCTAAATCCTAATTAAAA-TAC-TAAAACTATTTAAACTAAAATACCTAAAACA
*
849327 AAGATAAAATAAAATATTATT
64 AAGATAAAAT---ATAATATT
849348 TAAAATAATATCCTAAATCCTAATTAAAATACTAAAACATATTTAAACT-AAA-A--T---ACAA
1 TAAAATAATATCCTAAATCCTAATTAAAATACTAAAAC-TATTTAAACTAAAATACCTAAAACAA
849406 AGATAAAATATAATATT
65 AGATAAAATATAATATT
* * *
849423 TAAAATATTATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAA
1 TAAAATAATATCCTAAATCCTAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAA
*
849488 TGATAAAA
65 AGATAAAA
849496 ATATTATCCT
Statistics
Matches: 131, Mismatches: 7, Indels: 23
0.81 0.04 0.14
Matches are distributed among these distances:
75 51 0.39
76 4 0.03
77 1 0.01
78 13 0.10
79 1 0.01
81 1 0.01
82 11 0.08
83 1 0.01
84 10 0.08
85 38 0.29
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (81 bp):
TAAAATAATATCCTAAATCCTAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAA
GATAAAATATAATATT
Found at i:849522 original size:75 final size:73
Alignment explanation
Indices: 849335--849517 Score: 221
Period size: 75 Copynumber: 2.5 Consensus size: 73
849325 CAAAGATAAA
* * * * *
849335 ATAAAATATTATTTAAAATAATATCCTAAATCCTAATTAAAATACTAAAACATATTTAAACTAAA
1 ATAAAATATAATATAAAATATTATCCTAAAACTTAATTAAAATACTAAAACATATTTAAACTAAA
849400 ATACAAAG
66 ATACAAAG
*
849408 ATAAAATATAATATTTAAAATATTATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTA
1 ATAAAATATAATA--TAAAATATTATCCTAAAACTTAATTAAAATACTAAAACATATTTAAACTA
**
849473 AAATACCTA-
64 AAATACAAAG
* *
849482 A-AACA-ATGATA-AAAATATTATCCTAAAACTTGAATT
1 ATAAAATATAATATAAAATATTATCCTAAAACTT-AATT
849518 TAATTCAAAT
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
69 20 0.21
70 4 0.04
72 5 0.05
73 14 0.14
74 1 0.01
75 53 0.55
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (73 bp):
ATAAAATATAATATAAAATATTATCCTAAAACTTAATTAAAATACTAAAACATATTTAAACTAAA
ATACAAAG
Found at i:855458 original size:15 final size:14
Alignment explanation
Indices: 855434--855466 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
855424 AAATTAAAAA
855434 TTTC-TTTTTCAAAT
1 TTTCATTTTTC-AAT
855448 TTTCATTTTTCAAT
1 TTTCATTTTTCAAT
855462 TTTCA
1 TTTCA
855467 AATCTCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTCATTTTTCAAT
Found at i:856549 original size:19 final size:19
Alignment explanation
Indices: 856525--856579 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
856515 TATAAGACTT
856525 AGTGCATCGGTACACTAGG
1 AGTGCATCGGTACACTAGG
856544 AGTGCATCGGTACACTAGG
1 AGTGCATCGGTACACTAGG
* *
856563 GGTGCATCGATACACTA
1 AGTGCATCGGTACACTA
856580 ATTACATTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (19 bp):
AGTGCATCGGTACACTAGG
Found at i:856674 original size:65 final size:65
Alignment explanation
Indices: 856564--856720 Score: 181
Period size: 65 Copynumber: 2.4 Consensus size: 65
856554 TACACTAGGG
* * * * ** *
856564 GTGCATCGATACACTAATTACATTCGATGTTTTGAAAGAGCCAAGAGTACATCAATGCATGG-TC
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTACATCAATACATGGCT-
856628 T
65 T
* ** * *
856629 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCATCGATACATGGCTT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTACATCAATACATGGCTT
*
856694 GTGCATCGGTACACAAAATGCAATCGA
1 GTGCATCGGTACACAAAATGCATTCGA
856721 AATGGGTGTG
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
65 77 0.99
66 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTACATCAATACATGGCTT
Found at i:859382 original size:23 final size:22
Alignment explanation
Indices: 859351--859427 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 22
859341 AGCATTGTGC
859351 ATCGATGCACATTCAAGGAGTGT
1 ATCGATGCACATTCAAGG-GTGT
* * *
859374 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACATTCAAGGGTGT
*
859395 ATCGATGCACATTCAAGGGATGC
1 ATCGATGCACATTCAAGGG-TGT
859418 ATCGATGCAC
1 ATCGATGCAC
859428 TGTCTAGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
21 16 0.36
22 5 0.11
23 24 0.53
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGGTGT
Found at i:859396 original size:21 final size:21
Alignment explanation
Indices: 859326--859446 Score: 86
Period size: 23 Copynumber: 5.7 Consensus size: 21
859316 AAACCCGACG
* *
859326 GGTGTATCGATGCATA-GCAT
1 GGTGTATCGATGCACATTCAT
* * *
859346 TGTGCATCGATGCACATTCAAG
1 GGTGTATCGATGCACATTC-AT
* *
859368 GAGTGTATCGGTGCACCTTCAT
1 G-GTGTATCGATGCACATTCAT
*
859390 GGTGTATCGATGCACATTCAAG
1 GGTGTATCGATGCACATTC-AT
*
859412 GGATGCATCGATGCAC-TGTC-T
1 GG-TGTATCGATGCACAT-TCAT
*
859433 AGTGTATCGATGCA
1 GGTGTATCGATGCA
859447 TAGTGCACAA
Statistics
Matches: 78, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
20 24 0.31
21 18 0.23
22 7 0.09
23 29 0.37
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (21 bp):
GGTGTATCGATGCACATTCAT
Found at i:859402 original size:44 final size:43
Alignment explanation
Indices: 859351--859446 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 43
859341 AGCATTGTGC
* * *
859351 ATCGATGCACATTCAA-GGAGTGTATCGGTGCACCT-TCATGGTGT
1 ATCGATGCACATTCAAGGGA-TGCATCGATGCA-CTGTC-TAGTGT
859395 ATCGATGCACATTCAAGGGATGCATCGATGCACTGTCTAGTGT
1 ATCGATGCACATTCAAGGGATGCATCGATGCACTGTCTAGTGT
859438 ATCGATGCA
1 ATCGATGCA
859447 TAGTGCACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
43 16 0.34
44 28 0.60
45 3 0.06
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (43 bp):
ATCGATGCACATTCAAGGGATGCATCGATGCACTGTCTAGTGT
Found at i:865231 original size:19 final size:19
Alignment explanation
Indices: 865207--865252 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
865197 AGAGCCAGAA
865207 GTGCATCGATGCATGGTCT
1 GTGCATCGATGCATGGTCT
865226 GTGCATCGATGCATGGTCT
1 GTGCATCGATGCATGGTCT
865245 GTGCATCG
1 GTGCATCG
865253 GTACACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (19 bp):
GTGCATCGATGCATGGTCT
Found at i:865313 original size:84 final size:84
Alignment explanation
Indices: 865161--865317 Score: 201
Period size: 84 Copynumber: 1.9 Consensus size: 84
865151 TACACTAGGG
* * * * *
865161 GTGCATCGGTACACCAATTATATTCGATGTTTCAAAAGAGCCAGAAGTGCATCGATGCATGGTCT
1 GTGCATCGGTACACAAAATACATTCGATGTTTCAAAAGAGCAAGAAGTGCATCGATGCATGCTCT
865226 GTGCATCGATGCATGGTCT
66 GTGCATCGATGCATGGTCT
* * * *
865245 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATATTCAAG-AGTGCATTGATGCATGACT
1 GTGCATCGGTACACAAAATACATTCGATGTTTCAAAAGA-GCAAGAAGTGCATCGATGCATG-CT
865309 -TGTGCATCG
64 CTGTGCATCG
865318 GTACACAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 58 0.94
85 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (84 bp):
GTGCATCGGTACACAAAATACATTCGATGTTTCAAAAGAGCAAGAAGTGCATCGATGCATGCTCT
GTGCATCGATGCATGGTCT
Found at i:865369 original size:20 final size:20
Alignment explanation
Indices: 865344--865391 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
865334 CAAAATGGGT
865344 GTGCATCGATGCATCATGGA
1 GTGCATCGATGCATCATGGA
865364 GTGCATCGATGCATCATGGA
1 GTGCATCGATGCATCATGGA
865384 GTGCATCG
1 GTGCATCG
865392 GCACATCCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (20 bp):
GTGCATCGATGCATCATGGA
Found at i:865398 original size:20 final size:20
Alignment explanation
Indices: 865344--865398 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
865334 CAAAATGGGT
**
865344 GTGCATCGATGCATCATGGA
1 GTGCATCGACACATCATGGA
**
865364 GTGCATCGATGCATCATGGA
1 GTGCATCGACACATCATGGA
*
865384 GTGCATCGGCACATC
1 GTGCATCGACACATC
865399 CCTTTGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (20 bp):
GTGCATCGACACATCATGGA
Found at i:867251 original size:21 final size:21
Alignment explanation
Indices: 867227--867306 Score: 108
Period size: 21 Copynumber: 3.8 Consensus size: 21
867217 CTTTTATGGA
867227 AAGGGATCGATCCTTTTCATC
1 AAGGGATCGATCCTTTTCATC
867248 AAGGGATCGATCCTTTTCATC
1 AAGGGATCGATCCTTTTCATC
* *
867269 AAGGGATCAATTCTTTT-ACTC
1 AAGGGATCGATCCTTTTCA-TC
* *
867290 GAGGGATCGATTCTTTT
1 AAGGGATCGATCCTTTT
867307 GTGAAAGGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 1 0.02
21 53 0.98
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (21 bp):
AAGGGATCGATCCTTTTCATC
Found at i:870405 original size:13 final size:14
Alignment explanation
Indices: 870383--870419 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
870373 GTCAAAGAAA
870383 GTCAACGGTCAACG
1 GTCAACGGTCAACG
870397 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
870410 GTCAACGGTC
1 GTCAACGGTC
870420 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:870431 original size:17 final size:17
Alignment explanation
Indices: 870409--870466 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
870399 CACGGTCAAC
870409 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
870426 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
870443 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
870460 GGTCAAC
1 GGTCAAC
870467 CCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:870436 original size:7 final size:7
Alignment explanation
Indices: 870383--870419 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
870373 GTCAAAGAAA
870383 GTCAACG
1 GTCAACG
870390 GTCAACG
1 GTCAACG
870397 GTC-ACG
1 GTCAACG
870403 GTCAACG
1 GTCAACG
870410 GTCAACG
1 GTCAACG
870417 GTC
1 GTC
870420 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:870484 original size:19 final size:19
Alignment explanation
Indices: 870460--870530 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
870450 AGTCGGGTCG
*
870460 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
870479 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
870498 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
870518 GGTCAAACCGGTT
1 GGTCAAACCGGTT
870531 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 32 0.67
20 16 0.33
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:870498 original size:10 final size:10
Alignment explanation
Indices: 870462--870530 Score: 72
Period size: 9 Copynumber: 7.1 Consensus size: 10
870452 TCGGGTCGGG
*
870462 TCAACCCGGT
1 TCAAACCGGT
*
870472 TCAGACCGG-
1 TCAAACCGGT
870481 TCAAACCGGT
1 TCAAACCGGT
*
870491 TCAGACCGG-
1 TCAAACCGGT
870500 TCAAACCGGT
1 TCAAACCGGT
*
870510 TCAAAACTGG-
1 TC-AAACCGGT
870520 TCAAACCGGT
1 TCAAACCGGT
870530 T
1 T
870531 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.46
10 20 0.42
11 6 0.12
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:877689 original size:20 final size:21
Alignment explanation
Indices: 877664--877707 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
877654 GTCAAAGAAA
877664 GTCAACGGTCAACGGTC-ACG
1 GTCAACGGTCAACGGTCAACG
877684 GTCAACGGTCAACGGTCAACG
1 GTCAACGGTCAACGGTCAACG
877705 GTC
1 GTC
877708 GGGTCGGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.16
Consensus pattern (21 bp):
GTCAACGGTCAACGGTCAACG
Found at i:877719 original size:17 final size:17
Alignment explanation
Indices: 877697--877754 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
877687 AACGGTCAAC
877697 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
877714 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
877731 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
877748 GGTCAAC
1 GGTCAAC
877755 CCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:877724 original size:7 final size:7
Alignment explanation
Indices: 877664--877707 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
877654 GTCAAAGAAA
877664 GTCAACG
1 GTCAACG
877671 GTCAACG
1 GTCAACG
877678 GTC-ACG
1 GTCAACG
877684 GTCAACG
1 GTCAACG
877691 GTCAACG
1 GTCAACG
877698 GTCAACG
1 GTCAACG
877705 GTC
1 GTC
877708 GGGTCGGGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.17
7 30 0.83
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:877772 original size:19 final size:19
Alignment explanation
Indices: 877748--877818 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
877738 AGTCGGGTCG
*
877748 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
877767 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
877786 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
877806 GGTCAAACCGGTT
1 GGTCAAACCGGTT
877819 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 32 0.67
20 16 0.33
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:877786 original size:10 final size:10
Alignment explanation
Indices: 877750--877818 Score: 72
Period size: 9 Copynumber: 7.1 Consensus size: 10
877740 TCGGGTCGGG
*
877750 TCAACCCGGT
1 TCAAACCGGT
*
877760 TCAGACCGG-
1 TCAAACCGGT
877769 TCAAACCGGT
1 TCAAACCGGT
*
877779 TCAGACCGG-
1 TCAAACCGGT
877788 TCAAACCGGT
1 TCAAACCGGT
*
877798 TCAAAACTGG-
1 TC-AAACCGGT
877808 TCAAACCGGT
1 TCAAACCGGT
877818 T
1 T
877819 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.46
10 20 0.42
11 6 0.12
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:880111 original size:16 final size:16
Alignment explanation
Indices: 880085--880126 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
880075 ACCCCCGTTA
880085 CTATCTGTTTTTTATTT
1 CTAT-TGTTTTTTATTT
*
880102 CTATTGTTTTTTGTTT
1 CTATTGTTTTTTATTT
880118 CTATTGTTT
1 CTATTGTTT
880127 GGTTTCGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
CTATTGTTTTTTATTT
Found at i:883869 original size:12 final size:12
Alignment explanation
Indices: 883854--883894 Score: 73
Period size: 12 Copynumber: 3.3 Consensus size: 12
883844 AAATACTAAG
883854 AAAAAAAAAACC
1 AAAAAAAAAACC
883866 AAAAAAAAAACC
1 AAAAAAAAAACC
883878 AAAAAAAAAAACC
1 -AAAAAAAAAACC
883891 AAAA
1 AAAA
883895 TTTCAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACC
Found at i:883870 original size:13 final size:13
Alignment explanation
Indices: 883854--883894 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
883844 AAATACTAAG
883854 AAAAAAAAAACC-
1 AAAAAAAAAACCA
883866 AAAAAAAAAACCA
1 AAAAAAAAAACCA
883879 AAAAAAAAAACCA
1 AAAAAAAAAACCA
883892 AAA
1 AAA
883895 TTTCAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACCA
Found at i:888999 original size:57 final size:56
Alignment explanation
Indices: 888938--889100 Score: 136
Period size: 58 Copynumber: 2.9 Consensus size: 56
888928 AACGATTTAA
* *
888938 TTTCTTGTACAAAACAGAATCATACAAGATTCTATGAAAATAAATTTAACAACTTAT
1 TTTCTT-TACAAAACAGAATCATATAAGATTCTAAGAAAATAAATTTAACAACTTAT
* * * ***
888995 TTTCTTCTACAAGA-TGAAATCGAT-TAAGATTTCTAAGAAAATAAATTTGACGTTTTAT
1 TTTCTT-TACAAAACAG-AATC-ATATAAGA-TTCTAAGAAAATAAATTTAACAACTTAT
* * *
889053 TTCCTTTAC-AAACTA-ATTCATATAAGATTCATAGGAAAATAAATTTAA
1 TTTCTTTACAAAAC-AGAATCATATAAGATTC-TAAGAAAATAAATTTAA
889101 TGATTTATTT
Statistics
Matches: 84, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
55 5 0.06
56 26 0.31
57 23 0.27
58 30 0.36
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (56 bp):
TTTCTTTACAAAACAGAATCATATAAGATTCTAAGAAAATAAATTTAACAACTTAT
Found at i:891078 original size:23 final size:23
Alignment explanation
Indices: 891035--891078 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
891025 TTCGAGGGTT
*
891035 CTATGTGGTCCTTCTGAACAATC
1 CTATGTGGTCCTTCAGAACAATC
*
891058 CTATGTGGTCCTTCAGGACAA
1 CTATGTGGTCCTTCAGAACAA
891079 ATATGTGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (23 bp):
CTATGTGGTCCTTCAGAACAATC
Found at i:891085 original size:21 final size:21
Alignment explanation
Indices: 891036--891103 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
891026 TCGAGGGTTC
* * *
891036 TATGTGGTCCTTCTGAACAATCC
1 TATGTGGTCCTTCAGGACAA--A
891059 TATGTGGTCCTTCAGGACAAA
1 TATGTGGTCCTTCAGGACAAA
* *
891080 TATGTGG-CACTTCGGGATAAA
1 TATGTGGTC-CTTCAGGACAAA
891101 TAT
1 TAT
891104 ATGGCACCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 1 0.03
21 20 0.51
23 18 0.46
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (21 bp):
TATGTGGTCCTTCAGGACAAA
Found at i:891108 original size:21 final size:21
Alignment explanation
Indices: 891068--891115 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
891058 CTATGTGGTC
* *
891068 CTTCAGGACAAATATGTGGCA
1 CTTCGGGACAAATATATGGCA
*
891089 CTTCGGGATAAATATATGGCA
1 CTTCGGGACAAATATATGGCA
*
891110 CCTCGG
1 CTTCGG
891116 TGCAAATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (21 bp):
CTTCGGGACAAATATATGGCA
Found at i:895944 original size:28 final size:28
Alignment explanation
Indices: 895901--895954 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
895891 TGTATATACT
895901 AACTTTCATTTGCTGATACATGTGTTAA
1 AACTTTCATTTGCTGATACATGTGTTAA
* * *
895929 AACTTTTATTTTCTGATATATGTGTT
1 AACTTTCATTTGCTGATACATGTGTT
895955 TAATGTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (28 bp):
AACTTTCATTTGCTGATACATGTGTTAA
Found at i:899574 original size:196 final size:194
Alignment explanation
Indices: 899339--900024 Score: 609
Period size: 196 Copynumber: 3.6 Consensus size: 194
899329 TCACGTTGAA
* * *
899339 GAGAATCTGGAT-GCTTATGATGACATTTCTCTTTCATGTTGAGGAGGTCTAGTCAGTGGACGAC
1 GAGAATCTGG-TCACTTATGATGACA-TTCTCATTCATGTTGAGGAGGTCTAGTCAGTGGACAAC
* * * *
899403 ATTATTCCTACTTGATGAGGACGTTTAGTCGTATTTGAAAGACTGTGCATATGAGGACAACACTG
64 ATTGTTCCTACTTGATAAGGACGTCTAGTCGTATTTGAAAGACTGTGCATCTGAGGACAACACTG
* * * * *
899468 TTCATTCTTGTTGAGGAAATCTGATTGCCTTTTGGTGTTGAAAATGATA-TGAATCCTACATGAT
129 TTCATTCTTGTTGAGAAAATCTAATT-CCTTTTGGTGTTGAAAATGATACAG-CTCCTACGTGAT
899532 GAG
192 GAG
* * * *
899535 GAGAATCTGGTCGCTTATGATGACATTGCTCATTCATGTTAAGGAGGTCTAGCCAGTAGACAACA
1 GAGAATCTGGTCACTTATGATGACATT-CTCATTCATGTTGAGGAGGTCTAGTCAGTGGACAACA
* * * * *
899600 TTGTTCCTACTTGATGAGAACGTATAGTCGTATTTGAAAGAC--TGCGTCTGAAGACAACACTGT
65 TTGTTCCTACTTGATAAGGACGTCTAGTCGTATTTGAAAGACTGTGCATCTGAGGACAACACTGT
* * * * * * *
899663 TAATTCTTATTGAGAAAATCTAATTTC-TTGGAGATAATTTGGAAATGACACAGCTCCTACGTGA
130 TCATTCTTGTTGAGAAAATCTAATTCCTTTTG-G-T--GTTGAAAATGATACAGCTCCTACGTGA
899727 TGCA-
191 TG-AG
* * * * * * **
899731 GAAAATCTGGTCACTTCTAATG--ATT-T-ACTTGATG-TCA--A-ATCTA---A-T-GATGACA
1 GAGAATCTGGTCACTTATGATGACATTCTCA-TTCATGTTGAGGAGGTCTAGTCAGTGGACAACA
* * * * * * * * * * *
899783 TTGCTCCTTCATGTTAAGGAGGCCTAGTCGTATTTGAAAGACTATGCATCTAAGGATAATATTGT
65 TTGTTCCTACTTGATAAGGACGTCTAGTCGTATTTGAAAGACTGTGCATCTGAGGACAACACTGT
* * * *
899848 TCCTTCTTGTTGAGTAAATCTTATTACCTTTTGATGTTGAAAATGATACAGCTCCTACGTGATGA
130 TCATTCTTGTTGAGAAAATCTAATT-CCTTTTGGTGTTGAAAATGATACAGCTCCTACGTGATGA
899913 G
194 G
* * * *
899914 GATAGTCTGGTCACTTATGATGACATTACTCCTTCATGTTGAGGAGGTCTAGTCAGTGGACAATA
1 GAGAATCTGGTCACTTATGATGACATT-CTCATTCATGTTGAGGAGGTCTAGTCAGTGGACAACA
* *
899979 TTGTTCCTATTTGATAAGGACGTCTAGTCGTATTTGAAAGATTGTG
65 TTGTTCCTACTTGATAAGGACGTCTAGTCGTATTTGAAAGACTGTG
900025 TAACACCCCT
Statistics
Matches: 384, Mismatches: 78, Indels: 56
0.74 0.15 0.11
Matches are distributed among these distances:
182 1 0.00
183 82 0.21
184 1 0.00
185 40 0.10
186 1 0.00
187 9 0.02
188 6 0.02
189 1 0.00
190 1 0.00
191 7 0.02
192 9 0.02
193 2 0.01
194 44 0.11
195 4 0.01
196 174 0.45
197 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (194 bp):
GAGAATCTGGTCACTTATGATGACATTCTCATTCATGTTGAGGAGGTCTAGTCAGTGGACAACAT
TGTTCCTACTTGATAAGGACGTCTAGTCGTATTTGAAAGACTGTGCATCTGAGGACAACACTGTT
CATTCTTGTTGAGAAAATCTAATTCCTTTTGGTGTTGAAAATGATACAGCTCCTACGTGATGAG
Found at i:904985 original size:2 final size:2
Alignment explanation
Indices: 904978--905026 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
904968 ACATAAACGC
904978 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
905020 AT AT AT A
1 AT AT AT A
905027 CCATTTCATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:907160 original size:45 final size:46
Alignment explanation
Indices: 907094--907200 Score: 164
Period size: 45 Copynumber: 2.3 Consensus size: 46
907084 GGTGCACTAA
*
907094 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAGCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAA-ACCCT
* *
907139 GAGTGCATCGATTCATCAAATGCATTCGATGTTTTCATAAAACCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCT
907185 GAGTGCATCGATGCAT
1 GAGTGCATCGATGCAT
907201 GGTATATGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 29 0.52
46 24 0.43
47 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (46 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCT
Found at i:915807 original size:45 final size:46
Alignment explanation
Indices: 915741--915847 Score: 146
Period size: 45 Copynumber: 2.3 Consensus size: 46
915731 GGTGCACTAA
* *
915741 GAGTGCATCTATGCATAAAATGCATTCGAT-ATTTCA-AAATAGCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGATTTCATAAA-ACCCT
* *
915786 GAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGATTTCATAAAACCCT
*
915832 GAGTGCATTGATGCAT
1 GAGTGCATCGATGCAT
915848 GGTATGTGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 28 0.51
46 24 0.44
47 3 0.05
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (46 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGATTTCATAAAACCCT
Done.