Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold109
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: 1855911
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.34
Warning! 69956 characters in sequence are not A, C, G, or T
File 7 of 13
Found at i:900135 original size:72 final size:72
Alignment explanation
Indices: 899832--900134 Score: 328
Period size: 74 Copynumber: 4.2 Consensus size: 72
899822 TTCTACAATA
* * *
899832 ATACCCTAAAAATTTAAAC-T-TAT-GTCA-ACCCAAAAACAAATTTAAATTTCTACAAATAAAA
1 ATACCTTAAAAATTTAAACTTGTATAATCATACCCAAAAACAAATTTAAACTTCTACAAATAAAA
899893 ATAAATT
66 ATAAATT
* * * * *
899900 ATACAATAAAAAATATAAACTTGTATAATCATACCCCAAAAGCACATTTAAACTTCTACAAATAA
1 ATAC-CTTAAAAATTTAAACTTGTATAATCATA-CCCAAAAACAAATTTAAACTTCTACAAATAA
899965 AAATAAATT
64 AAATAAATT
* ** * * * * *
899974 ATACCATCAAAAATTTAAACTCATATAAGT-ACACCTAAAAAACACATTTAAACTTTTATAAATA
1 ATACC-TTAAAAATTTAAACTTGTATAA-TCATACC-CAAAAACAAATTTAAACTTCTACAAATA
*
900038 AAGATAAATT
63 AAAATAAATT
* * **
900048 ATACCTTAAAAATTTTAACTTGTATAATCATACCCAAAAATAAATTTAAACTTCTACAAATAACG
1 ATACCTTAAAAATTTAAACTTGTATAATCATACCCAAAAACAAATTTAAACTTCTACAAATAAAA
*
900113 ATAAATA
66 ATAAATT
900120 ATACCTTAAAAATTT
1 ATACCTTAAAAATTT
900135 TTTGATACAA
Statistics
Matches: 194, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
68 4 0.02
69 11 0.06
70 1 0.01
71 3 0.02
72 50 0.26
73 25 0.13
74 99 0.51
75 1 0.01
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (72 bp):
ATACCTTAAAAATTTAAACTTGTATAATCATACCCAAAAACAAATTTAAACTTCTACAAATAAAA
ATAAATT
Found at i:900311 original size:28 final size:28
Alignment explanation
Indices: 900270--900327 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
900260 TTGAGTTGGG
* *
900270 AAATCGCCATATGAGGTGGCCATTTCTC
1 AAATCGCCACATGAGATGGCCATTTCTC
* *
900298 AAATCGCCACATGATATGGCGATTTCTC
1 AAATCGCCACATGAGATGGCCATTTCTC
900326 AA
1 AA
900328 TAAATTCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (28 bp):
AAATCGCCACATGAGATGGCCATTTCTC
Found at i:901369 original size:20 final size:20
Alignment explanation
Indices: 901346--901418 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
901336 ACAATTCAAA
901346 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*****
901366 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCA-AT
901387 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
901407 GTATCGATACAT
1 GTATCGATACAT
901419 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:901390 original size:21 final size:21
Alignment explanation
Indices: 901364--901439 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
901354 ACATGTTGCA
901364 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
*****
901385 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATAAAAAAG
901405 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
901426 ATGTATCGATACAT
1 ATGTATCGATACAT
901440 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATAAAAAAG
Found at i:901397 original size:41 final size:41
Alignment explanation
Indices: 901346--901439 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
901336 ACAATTCAAA
901346 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
901387 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
901428 GTATCGATACAT
1 GTATCGATACAT
901440 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:901496 original size:13 final size:13
Alignment explanation
Indices: 901478--901503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
901468 TACAGCAAGT
901478 ATGTATCGATACA
1 ATGTATCGATACA
901491 ATGTATCGATACA
1 ATGTATCGATACA
901504 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:905585 original size:15 final size:15
Alignment explanation
Indices: 905565--905603 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
905555 TAAAGATGTC
*
905565 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
905580 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
905595 CCAAATGAA
1 CAAAATGAA
905604 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:907689 original size:20 final size:21
Alignment explanation
Indices: 907610--907688 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
907600 AATGTCCAAA
*
907610 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
907630 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
907655 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
907675 TTGTATCGATACAT
1 ATGTATCGATACAT
907689 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:907693 original size:13 final size:13
Alignment explanation
Indices: 907675--907713 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
907665 ACATTTTTCT
907675 TTGTATCGATACA
1 TTGTATCGATACA
907688 TTGTATCGATACA
1 TTGTATCGATACA
*
907701 CTGTATCGATACA
1 TTGTATCGATACA
907714 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:910174 original size:20 final size:20
Alignment explanation
Indices: 910151--910223 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
910141 ACAATTCAAA
910151 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*****
910171 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCA-AT
910192 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
910212 GTATCGATACAT
1 GTATCGATACAT
910224 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:910195 original size:21 final size:21
Alignment explanation
Indices: 910169--910244 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
910159 ACATGTTGCA
910169 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
*****
910190 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATAAAAAAG
910210 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
910231 ATGTATCGATACAT
1 ATGTATCGATACAT
910245 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATAAAAAAG
Found at i:910202 original size:41 final size:41
Alignment explanation
Indices: 910151--910244 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
910141 ACAATTCAAA
910151 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
910192 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
910233 GTATCGATACAT
1 GTATCGATACAT
910245 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:910301 original size:13 final size:13
Alignment explanation
Indices: 910283--910308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
910273 TACAGCAAGT
910283 ATGTATCGATACA
1 ATGTATCGATACA
910296 ATGTATCGATACA
1 ATGTATCGATACA
910309 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:914966 original size:32 final size:32
Alignment explanation
Indices: 914925--914988 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
914915 GCGAAAGATA
914925 TCAAGTCGGGTACGCCTTATTCCCTATCGTCG
1 TCAAGTCGGGTACGCCTTATTCCCTATCGTCG
914957 TCAAGTCGGGTACGCCTTATTCCCTATCGTCG
1 TCAAGTCGGGTACGCCTTATTCCCTATCGTCG
914989 AGGCGAGCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (32 bp):
TCAAGTCGGGTACGCCTTATTCCCTATCGTCG
Found at i:916168 original size:13 final size:13
Alignment explanation
Indices: 916139--916174 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
916129 TTTTGTGTTT
*
916139 TATAAATATTTAAA
1 TATAAATA-TAAAA
916153 TATAAATATAAAA
1 TATAAATATAAAA
916166 TATAAATAT
1 TATAAATAT
916175 TTTAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATAAATATAAAA
Found at i:916193 original size:27 final size:26
Alignment explanation
Indices: 916139--916211 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
916129 TTTTGTGTTT
916139 TATAAATATTTAAATATAAATATAAAA
1 TATAAATATTTAAATAT-AATATAAAA
916166 TATAAATATTTTAAATAT-ATATACAAA
1 TATAAATA-TTTAAATATAATATA-AAA
*
916193 TAT--TTATTTAAATA-AATAT
1 TATAAATATTTAAATATAATAT
916212 TTATATTTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
24 12 0.29
25 2 0.05
26 5 0.12
27 14 0.33
28 9 0.21
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (26 bp):
TATAAATATTTAAATATAATATAAAA
Found at i:916195 original size:21 final size:22
Alignment explanation
Indices: 916155--916197 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
916145 TATTTAAATA
*
916155 TAAATATAAAATATAAATATTT
1 TAAATATAAAATACAAATATTT
*
916177 TAAATAT-ATATACAAATATTT
1 TAAATATAAAATACAAATATTT
916198 ATTTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAATATAAAATACAAATATTT
Found at i:916205 original size:12 final size:12
Alignment explanation
Indices: 916144--916214 Score: 52
Period size: 12 Copynumber: 5.6 Consensus size: 12
916134 TGTTTTATAA
916144 ATATTTAAATAT
1 ATATTTAAATAT
* *
916156 AAATATAAAATAT
1 ATAT-TTAAATAT
916169 AAATATTTTAAATAT
1 --ATA-TTTAAATAT
**
916184 ATATACAAATAT
1 ATATTTAAATAT
* *
916196 TTATTTAAATAA
1 ATATTTAAATAT
916208 ATATTTA
1 ATATTTA
916215 TATTTGATAT
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
12 24 0.55
13 10 0.23
15 9 0.20
16 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATTTAAATAT
Found at i:917846 original size:17 final size:17
Alignment explanation
Indices: 917824--917860 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
917814 TAAATTAATT
*
917824 TTTTTATTTTAAAAATA
1 TTTTTATTTGAAAAATA
*
917841 TTTTTATTTGATAAATA
1 TTTTTATTTGAAAAATA
917858 TTT
1 TTT
917861 AGATATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTATTTGAAAAATA
Found at i:917870 original size:14 final size:14
Alignment explanation
Indices: 917851--917895 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
917841 TTTTTATTTG
*
917851 ATAAATATTTAGAT
1 ATAAATATTTAAAT
*
917865 ATAAATATTAAAAT
1 ATAAATATTTAAAT
917879 ATAAA-ATTTTAAAT
1 ATAAATA-TTTAAAT
917893 ATA
1 ATA
917896 TAATTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 1 0.04
14 26 0.96
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
ATAAATATTTAAAT
Found at i:918238 original size:14 final size:15
Alignment explanation
Indices: 918211--918239 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
918201 ATATATTTGA
918211 TTTAATAGTATAATT
1 TTTAATAGTATAATT
918226 TTTAATA-TATAATT
1 TTTAATAGTATAATT
918240 AAAAGATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTAATAGTATAATT
Found at i:918753 original size:2 final size:2
Alignment explanation
Indices: 918748--918801 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
918738 TTTTTTGCTT
918748 TA TA TA 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
918790 TA TA TA T- TA TA T
1 TA TA TA TA TA TA T
918802 GCAGACAGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:920111 original size:21 final size:21
Alignment explanation
Indices: 920082--920142 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
920072 TTGATTTTTT
920082 TTTTGTTTTTTATTTTCAACAG
1 TTTT-TTTTTTATTTTCAACAG
* * *
920104 TTTTTTTTTTAGTTTTTATCGG
1 TTTTTTTTTTA-TTTTCAACAG
920126 TTTTTTTTATATATTTT
1 TTTTTTTT-T-TATTTT
920143 TTTTAAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 7 0.21
22 19 0.58
23 5 0.15
24 2 0.06
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (21 bp):
TTTTTTTTTTATTTTCAACAG
Found at i:923833 original size:91 final size:91
Alignment explanation
Indices: 923663--924372 Score: 533
Period size: 91 Copynumber: 7.9 Consensus size: 91
923653 TTTATCATAT
* * * * * *
923663 CATTAGTCAAATATTTTTTATCGTGTCAAAAAGAATC-CATATCCCATGCATCTGTCACATCTTT
1 CATTAGTCAAATATTTTTTGTCATGTCAGAAGGAATCTAATACCCCATGCATCTGTCACAT-TTT
* * * *
923727 TGA-GTTCCAAGATTAAATTTTTTAAG
65 TCAGGTTTCAAGATTAAATTTATTAGG
* * * *
923753 CATTAGTCAAAT-TTTTTCTATCATGTCAGAAGGAATCTGATACCCCATGCATTTGTCATATTTT
1 CATTAGTCAAATATTTTT-TGTCATGTCAGAAGGAATCTAATACCCCATGCATCTGTCACATTTT
* **
923817 TCAGGTTTTAAGATTAAATTTATTAAT
65 TCAGGTTTCAAGATTAAATTTATTAGG
* * * * * *
923844 CATTAGTCAAAGATTTTTTGTCATGTCAGAAAGAATCTAATGCACTATGCATCTGTCACATCTTT
1 CATTAGTCAAATATTTTTTGTCATGTCAGAAGGAATCTAATACCCCATGCATCTGTCACATTTTT
*
923909 CGGGTTTCAAGATTAAATTTATTAGG
66 CAGGTTTCAAGATTAAATTTATTAGG
* * * * * * *
923935 CATTAGTCAAAGTCAAATATTTTCTGTCGTATTAGAAGAAATCTTATATCCAATGCATCTGTCAC
1 CATTAGTCAAA-T---AT-TTTT-TGTCATGTCAGAAGGAATCTAATACCCCATGCATCTGTCAC
* *
924000 A-TCTTCGGGTTTCAA-A--AAATTTATTAGG
60 ATTTTTCAGGTTTCAAGATTAAATTTATTAGG
* * ** *
924028 CATTATTCAAATATTTTTTGT-AGTGTCAGTAA-GAATCTAATACCTCATTTATCTATCACATTT
1 CATTAGTCAAATATTTTTTGTCA-TGTCAG-AAGGAATCTAATACCCCATGCATCTGTCACATTT
*
924091 TTC-GAGTTTTAAG---AAATTTATTAGG
64 TTCAG-GTTTCAAGATTAAATTTATTAGG
* * * * * * *
924116 TATTAGTTAAATATTTTCTGTCATGTTAGAAGAAATCTAATACCCCATGTATCTGTCGCATCTTT
1 CATTAGTCAAATATTTTTTGTCATGTCAGAAGGAATCTAATACCCCATGCATCTGTCACAT-TTT
* * *
924181 TGA-GTTTTAAGATTAATTTTATTAGG
65 TCAGGTTTCAAGATTAAATTTATTAGG
* * * ** * * * *
924207 CATTAGTCAAATATTTTCTGTCATATCAAAAAAAATCTGATGCCTCATGCATCTATCACATCTTT
1 CATTAGTCAAATATTTTTTGTCATGTCAGAAGGAATCTAATACCCCATGCATCTGTCACAT-TTT
* *
924272 T-GGGTTT-AAG---AAATTTATTAAG
65 TCAGGTTTCAAGATTAAATTTATTAGG
* * * * * * * ** *
924294 TATTAGTCAAATATTTTTTATCGTGTTAAAAGGAATC-GATATCCCATGCATCTGTTGCATCTTT
1 CATTAGTCAAATATTTTTTGTCATGTCAGAAGGAATCTAATACCCCATGCATCTGTCACATTTTT
924358 CAGGTTTCAAGATTA
66 CAGGTTTCAAGATTA
924373 GTCCAATATT
Statistics
Matches: 496, Mismatches: 96, Indels: 56
0.77 0.15 0.09
Matches are distributed among these distances:
85 3 0.01
86 22 0.04
87 72 0.15
88 82 0.17
89 12 0.02
90 37 0.07
91 189 0.38
92 6 0.01
93 22 0.04
95 3 0.01
96 16 0.03
97 32 0.06
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (91 bp):
CATTAGTCAAATATTTTTTGTCATGTCAGAAGGAATCTAATACCCCATGCATCTGTCACATTTTT
CAGGTTTCAAGATTAAATTTATTAGG
Found at i:924128 original size:88 final size:87
Alignment explanation
Indices: 923945--924704 Score: 346
Period size: 87 Copynumber: 8.8 Consensus size: 87
923935 CATTAGTCAA
* * * * * * * * *
923945 AGTCAAATATTTTCTGTCGTATTAGAAGAAATCTTATATCC-AATGCATCTGTCACATC-TTCGG
1 AGTCAAATATTTTCTGTCATGTCAGAAG-AATCTAATA-CCTCATGTATCTATCACATCTTTTGA
* *
924008 GTTTCAAAAAATTTATTAGGCATT
64 GTTTTAAGAAATTTATTAGGCATT
* * *
924032 ATTCAAATATTTTTTGT-AGTGTCAGTAAGAATCTAATACCTCATTTATCTATCACAT-TTTTCG
1 AGTCAAATATTTTCTGTCA-TGTCAG-AAGAATCTAATACCTCATGTATCTATCACATCTTTT-G
*
924095 AGTTTTAAGAAATTTATTAGGTATT
63 AGTTTTAAGAAATTTATTAGGCATT
* * * * *
924120 AGTTAAATATTTTCTGTCATGTTAGAAGAAATCTAATACCCCATGTATCTGTCGCATCTTTTGAG
1 AGTCAAATATTTTCTGTCATGTCAGAAG-AATCTAATACCTCATGTATCTATCACATCTTTTGAG
924185 TTTTAAGATTAATTTTATTAGGCATT
65 TTTTAAGA--AA-TTTATTAGGCATT
* * * * * *
924211 AGTCAAATATTTTCTGTCATATCAAAAAAAATCTGATGCCTCATGCATCTATCACATCTTTTG-G
1 AGTCAAATATTTTCTGTCATGTC-AGAAGAATCTAATACCTCATGTATCTATCACATCTTTTGAG
* * *
924275 GTTTAAGAAATTTATTAAGTATT
65 TTTTAAGAAATTTATTAGGCATT
* * * * * * * * ** *
924298 AGTCAAATATTTTTTATCGTGTTAAAAGGAATC-GATATCC-CATGCATCTGTTGCATC-TTTCA
1 AGTCAAATATTTTCTGTCATGTCAGAA-GAATCTAATA-CCTCATGTATCTATCACATCTTTTGA
* * *
924360 GGTTTCAAG--A-TTAGT--CCA--
64 -GTTTTAAGAAATTTATTAGGCATT
* * * * * * ** * *
924378 A-T--ATTTTTTATCTTGTTA-G--A-AGGAATCTGATACCCCATCCATCTATCGCATC-TTTCA
1 AGTCAAATATTT-TC-TGTCATGTCAGAAGAATCTAATACCTCATGTATCTATCACATCTTTTGA
*
924435 GGTTTCAAGATTAATTTTATTAGGCATT
64 -GTTTTAAGA--AA-TTTATTAGGCATT
* * * * * * * * * * *
924463 AGGCAAATATTTTCTATCGTATTAGAAGGAATCTGATACCCCATGCATCTATTATATCTTTCGAG
1 AGTCAAATATTTTCTGTCATGTCAGAA-GAATCTAATACCTCATGTATCTATCACATCTTTTGAG
*
924528 TTTCAAGAAATTTATTAGGCATT
65 TTTTAAGAAATTTATTAGGCATT
* * * * * * * * * * * *
924551 AATTAAATATTTTTTGCCGTATCAGTAGGAATCT-ATACCCCATGCATCTGTCACATCTTTCGGG
1 AGTCAAATATTTTCTGTCATGTCAG-AAGAATCTAATACCTCATGTATCTATCACATCTTTTGAG
* * * *
924615 TTTCAAGAGATTTATTAAGTATT
65 TTTTAAGAAATTTATTAGGCATT
* * * * * *
924638 AGTCAAATATTTTCTATCGTGTCAGTAAGAATCTAATACCCCATGCAT-AATTCACATCTTTCGA
1 AGTCAAATATTTTCTGTCATGTCAG-AAGAATCTAATACCTCATGTATCTA-TCACATCTTTTGA
924702 GTT
64 GTT
924705 CCAAGATTAA
Statistics
Matches: 526, Mismatches: 105, Indels: 83
0.74 0.15 0.12
Matches are distributed among these distances:
74 7 0.01
75 33 0.06
76 1 0.00
77 5 0.01
78 2 0.00
79 4 0.01
80 1 0.00
81 4 0.01
82 1 0.00
83 2 0.00
84 4 0.01
85 5 0.01
86 25 0.05
87 160 0.30
88 151 0.29
89 9 0.02
90 11 0.02
91 95 0.18
92 6 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (87 bp):
AGTCAAATATTTTCTGTCATGTCAGAAGAATCTAATACCTCATGTATCTATCACATCTTTTGAGT
TTTAAGAAATTTATTAGGCATT
Found at i:924435 original size:75 final size:74
Alignment explanation
Indices: 924295--924447 Score: 234
Period size: 75 Copynumber: 2.1 Consensus size: 74
924285 TTTATTAAGT
* * * *
924295 ATTAGTCAAATATTTTTTATCGTGTTAAAAGGAATCGATATCCCATGCATCTGTTGCATCTTTCA
1 ATTAGTCAAATATTTTTTATCGTGTTAAAAGGAATCGATACCCCATCCATCTATCGCATCTTTCA
924360 GGTTTCAAG
66 GGTTTCAAG
* * *
924369 ATTAGTCCAATATTTTTTATCTTGTTAGAAGGAATCTGATACCCCATCCATCTATCGCATCTTTC
1 ATTAGTCAAATATTTTTTATCGTGTTAAAAGGAATC-GATACCCCATCCATCTATCGCATCTTTC
924434 AGGTTTCAAG
65 AGGTTTCAAG
924444 ATTA
1 ATTA
924448 ATTTTATTAG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 33 0.46
75 38 0.54
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (74 bp):
ATTAGTCAAATATTTTTTATCGTGTTAAAAGGAATCGATACCCCATCCATCTATCGCATCTTTCA
GGTTTCAAG
Found at i:924524 original size:91 final size:88
Alignment explanation
Indices: 924369--924710 Score: 368
Period size: 88 Copynumber: 3.9 Consensus size: 88
924359 AGGTTTCAAG
* * * * * * *
924369 ATTAGTCCAATATTTTTTATCTTGTTAGAAGGAATCTGATACCCCATCCATCTATCGCATCTTTC
1 ATTAGTCAAATATTTTCTATCGTATCAGAAGGAATCTGATACCCCATGCATCTATCACATCTTTC
924434 -AGGTTTCAAGATTAATTTTATTAGGC
66 GA-GTTTCAAGA--AA-TTTATTAGGC
* * * *
924460 ATTAGGCAAATATTTTCTATCGTATTAGAAGGAATCTGATACCCCATGCATCTATTATATCTTTC
1 ATTAGTCAAATATTTTCTATCGTATCAGAAGGAATCTGATACCCCATGCATCTATCACATCTTTC
924525 GAGTTTCAAGAAATTTATTAGGC
66 GAGTTTCAAGAAATTTATTAGGC
* * * ** * *
924548 ATTAATTAAATATTTTTTGCCGTATCAGTAGGAATCT-ATACCCCATGCATCTGTCACATCTTTC
1 ATTAGTCAAATATTTTCTATCGTATCAGAAGGAATCTGATACCCCATGCATCTATCACATCTTTC
* * * *
924612 GGGTTTCAAGAGATTTATTAAGT
66 GAGTTTCAAGAAATTTATTAGGC
* * *
924635 ATTAGTCAAATATTTTCTATCGTGTCAGTAA-GAATCTAATACCCCATGCAT-AATTCACATCTT
1 ATTAGTCAAATATTTTCTATCGTATCAG-AAGGAATCTGATACCCCATGCATCTA-TCACATCTT
*
924698 TCGAGTTCCAAGA
64 TCGAGTTTCAAGA
924711 TTAATTTTAT
Statistics
Matches: 212, Mismatches: 35, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
87 71 0.33
88 73 0.34
89 2 0.01
91 65 0.31
92 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (88 bp):
ATTAGTCAAATATTTTCTATCGTATCAGAAGGAATCTGATACCCCATGCATCTATCACATCTTTC
GAGTTTCAAGAAATTTATTAGGC
Found at i:924609 original size:87 final size:88
Alignment explanation
Indices: 924369--924710 Score: 366
Period size: 87 Copynumber: 3.9 Consensus size: 88
924359 AGGTTTCAAG
* * * * * * * *
924369 ATTAGTCCAATATTTTTTATCTTGTTAGAAGGAATCTGATACCCCATCCATCTATCGCATCTTTC
1 ATTAGTCAAATATTTTCTATCGTATCAGTAGGAATCTGATACCCCATGCATCTATCACATCTTTC
924434 -AGGTTTCAAGATTAATTTTATTAGGC
66 GA-GTTTCAAGA--AA-TTTATTAGGC
* * * * *
924460 ATTAGGCAAATATTTTCTATCGTATTAGAAGGAATCTGATACCCCATGCATCTATTATATCTTTC
1 ATTAGTCAAATATTTTCTATCGTATCAGTAGGAATCTGATACCCCATGCATCTATCACATCTTTC
924525 GAGTTTCAAGAAATTTATTAGGC
66 GAGTTTCAAGAAATTTATTAGGC
* * * ** *
924548 ATTAATTAAATATTTTTTGCCGTATCAGTAGGAATCT-ATACCCCATGCATCTGTCACATCTTTC
1 ATTAGTCAAATATTTTCTATCGTATCAGTAGGAATCTGATACCCCATGCATCTATCACATCTTTC
* * * *
924612 GGGTTTCAAGAGATTTATTAAGT
66 GAGTTTCAAGAAATTTATTAGGC
* * * *
924635 ATTAGTCAAATATTTTCTATCGTGTCAGTAAGAATCTAATACCCCATGCAT-AATTCACATCTTT
1 ATTAGTCAAATATTTTCTATCGTATCAGTAGGAATCTGATACCCCATGCATCTA-TCACATCTTT
*
924699 CGAGTTCCAAGA
65 CGAGTTTCAAGA
924711 TTAATTTTAT
Statistics
Matches: 213, Mismatches: 35, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
87 73 0.34
88 72 0.34
89 2 0.01
91 65 0.31
92 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (88 bp):
ATTAGTCAAATATTTTCTATCGTATCAGTAGGAATCTGATACCCCATGCATCTATCACATCTTTC
GAGTTTCAAGAAATTTATTAGGC
Found at i:925047 original size:15 final size:15
Alignment explanation
Indices: 925027--925076 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
925017 CATCGCTGGT
*
925027 GCTTCTTCCTGAATA
1 GCTTCTTCCTGAGTA
**
925042 GCTTCTTGTTGAGTA
1 GCTTCTTCCTGAGTA
* *
925057 GTTTTTTCCTGAGTA
1 GCTTCTTCCTGAGTA
925072 GCTTC
1 GCTTC
925077 ATCTATAATA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (15 bp):
GCTTCTTCCTGAGTA
Found at i:925706 original size:19 final size:18
Alignment explanation
Indices: 925684--925735 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
925674 TACAAAGTCT
925684 TATAAAAAAGCAAAAAACC
1 TATAAAAAA-CAAAAAACC
*
925703 TATAAAAAAACAACAAACC
1 TAT-AAAAAACAAAAAACC
925722 TA-AAAAAACAAAAA
1 TATAAAAAACAAAAA
925736 CTTGAAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.37
19 13 0.43
20 6 0.20
ACGTcount: A:0.73, C:0.15, G:0.02, T:0.10
Consensus pattern (18 bp):
TATAAAAAACAAAAAACC
Found at i:926303 original size:11 final size:12
Alignment explanation
Indices: 926282--926306 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
926272 TGGTCCTTTG
926282 TTTCTTTTTTTT
1 TTTCTTTTTTTT
926294 TTTCTTTTTTTT
1 TTTCTTTTTTTT
926306 T
1 T
926307 CCTAATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:927090 original size:19 final size:21
Alignment explanation
Indices: 927068--927116 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
927058 TTATAATATA
927068 AAAATAATATGAAT-AT-AAT
1 AAAATAATATGAATAATCAAT
927087 AAAA-ATATATGAATAATCAAT
1 AAAATA-ATATGAATAATCAAT
927108 AAAAGTAAT
1 AAAA-TAAT
927117 GTATTAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.04
19 12 0.48
20 2 0.08
21 7 0.28
22 2 0.08
23 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (21 bp):
AAAATAATATGAATAATCAAT
Found at i:927090 original size:20 final size:22
Alignment explanation
Indices: 927065--927116 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
927055 AAATTATAAT
927065 ATAAAAATAATATGAAT-AT-A
1 ATAAAAATAATATGAATAATCA
927085 ATAAAAAT-ATATGAATAATCA
1 ATAAAAATAATATGAATAATCA
*
927106 ATAAAAGTAAT
1 ATAAAAATAAT
927117 GTATTAAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 8 0.29
20 10 0.36
21 8 0.29
22 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (22 bp):
ATAAAAATAATATGAATAATCA
Found at i:927101 original size:28 final size:28
Alignment explanation
Indices: 926987--927103 Score: 69
Period size: 28 Copynumber: 4.2 Consensus size: 28
926977 AATATTAAAA
* * *
926987 AATAATACGAATATAATATAAATATACG
1 AATAATATGAATATAATAAAAATATATG
* * *
927015 AATACGTTAT-AATCT-ATATAAATATAT-
1 AATA--ATATGAATATAATAAAAATATATG
* * * * * * **
927042 AATATTTTAAATAAAATTATAATATAAA
1 AATAATATGAATATAATAAAAATATATG
927070 AATAATATGAATATAATAAAAATATATG
1 AATAATATGAATATAATAAAAATATATG
927098 AATAAT
1 AATAAT
927104 CAATAAAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
25 3 0.05
26 3 0.05
27 12 0.18
28 41 0.63
29 4 0.06
30 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (28 bp):
AATAATATGAATATAATAAAAATATATG
Found at i:927570 original size:16 final size:16
Alignment explanation
Indices: 927529--927579 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
927519 TAAATCAAAT
* *
927529 TTATATTTTTA-TTAT
1 TTATATTTATATTTAA
*
927544 TTAATAATTATATTTAA
1 TT-ATATTTATATTTAA
*
927561 TTATATTTATTTTTAA
1 TTATATTTATATTTAA
927577 TTA
1 TTA
927580 AATAATCTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 2 0.07
16 22 0.76
17 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTTATATTTAA
Found at i:930780 original size:6 final size:6
Alignment explanation
Indices: 930769--930820 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
930759 GATAATTTTT
** * *
930769 AATTTA AATTTA AATTTA AATACA AATAATTA AATTTA AAATTA AATATA
1 AATTTA AATTTA AATTTA AATTTA AAT--TTA AATTTA AATTTA AATTTA
930819 AA
1 AA
930821 AATCAAGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
6 33 0.89
8 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (6 bp):
AATTTA
Found at i:931820 original size:22 final size:23
Alignment explanation
Indices: 931786--931829 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
931776 GAGACAACTC
931786 AGTTACTTATTTATTAAAATACT
1 AGTTACTTATTTATTAAAATACT
*
931809 AGTT-CTTCTTTATTAAAATAC
1 AGTTACTTATTTATTAAAATAC
931830 AAATGCATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (23 bp):
AGTTACTTATTTATTAAAATACT
Found at i:931993 original size:21 final size:21
Alignment explanation
Indices: 931969--932008 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
931959 AAAATTTTTT
931969 TAAATAT-AATTATAAAATATA
1 TAAATATGAA-TATAAAATATA
931990 TAAATATGAATATAAAATA
1 TAAATATGAATATAAAATA
932009 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAATATGAATATAAAATATA
Found at i:933635 original size:155 final size:154
Alignment explanation
Indices: 933449--933849 Score: 348
Period size: 155 Copynumber: 2.6 Consensus size: 154
933439 TATACCTTTA
* * * * * *
933449 ACATAAAAGTATCCTGGTTATTTTAATGGACTCG-TTCTAAAACAAAATCACCAAAATGTCCTTT
1 ACATTAAAGTATCTTGGTGATTCTAAAGGACTCGCTT-TAAAACAAAATCAACAAAATG-CCTTT
*
933513 AAAATATACCTTCAACATAAAAGTATCCTAG-TAATCCTAAAAAACTCT-ATATGATATGAAATG
64 AAAATATACCTTCAACATAAAAGTAT-CTAGATAACCCTAAAAAACT-TAATATGATATGAAATG
*
933576 ACAAACATATCCCTGAAGCACACATTTG
127 ACAAACATATCCCTAAAGCACACATTTG
* * * * * **
933604 ACATTAAAGTATCTTGATGATTCTAAAGGACTCAGCTTTAAGATAAAATTAATAAAATGGGTTTA
1 ACATTAAAGTATCTTGGTGATTCTAAAGGACTC-GCTTTAAAACAAAATCAACAAAATGCCTTTA
* * * * *** **
933669 AAGTATACCTTCGACATAAAAGTATCTCGATGACCCTAATGGACTTAATATGATATGAAATGATG
65 AAATATACCTTCAACATAAAAGTATCTAGATAACCCTAAAAAACTTAATATGATATGAAATGACA
* *
933734 AACCTATCCCTAAAGCACACCTTTG
130 AACATATCCCTAAAGCACACATTTG
* ** * * *
933759 ACA-TATAAGTAT-TTGGTGA-TCTTAAAGGACTCGGCTCTAAAGTAAAAT-TACTAAATTGCCC
1 ACATTA-AAGTATCTTGGTGATTC-TAAAGGACTC-GCTTTAAAACAAAATCAAC-AAAATGCCT
* * **
933820 TTAAGATATACTTTTGACATAAAAGTATCT
62 TTAAAATATACCTTCAACATAAAAGTATCT
933850 CGTAAACCCT
Statistics
Matches: 198, Mismatches: 41, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
153 3 0.02
154 65 0.33
155 111 0.56
156 17 0.09
157 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.31
Consensus pattern (154 bp):
ACATTAAAGTATCTTGGTGATTCTAAAGGACTCGCTTTAAAACAAAATCAACAAAATGCCTTTAA
AATATACCTTCAACATAAAAGTATCTAGATAACCCTAAAAAACTTAATATGATATGAAATGACAA
ACATATCCCTAAAGCACACATTTG
Found at i:933862 original size:154 final size:155
Alignment explanation
Indices: 933501--933872 Score: 398
Period size: 155 Copynumber: 2.4 Consensus size: 155
933491 CAAAATCACC
* * * * * *** *
933501 AAAATGTCCTTTAAAATATACCTTCAACATAAAAGTATC-CTAGTAATCCTAAAAAACTCTATAT
1 AAAATG-CCCTTAAAGTATACCTTCGACATAAAAGTATCTCGA-TAACCCTAATGGACTCAATAT
*
933565 GATATGAAATGACAAACATATCCCTGAAGCACACATTTGACATTAAAGTATCTTGATGATTCTAA
64 GATATGAAATGACAAACATATCCCTAAAGCACACATTTGACATTAAAGTATCTTGATGATTCTAA
*
933630 AGGACTCAGCTTTAAGATAAAATTAAT
129 AGGACTCAGCTTAAAGATAAAATTAAT
*** * *
933657 AAAATGGGTTTAAAGTATACCTTCGACATAAAAGTATCTCGATGACCCTAATGGACTTAATATGA
1 AAAATGCCCTTAAAGTATACCTTCGACATAAAAGTATCTCGATAACCCTAATGGACTCAATATGA
** * * *
933722 TATGAAATGATGAACCTATCCCTAAAGCACACCTTTGACA-TATAAGTAT-TTGGTGA-TCTTAA
66 TATGAAATGACAAACATATCCCTAAAGCACACATTTGACATTA-AAGTATCTTGATGATTC-TAA
* *
933784 AGGACTCGGCTCTAAAG-TAAAATTACT
129 AGGACTCAGCT-TAAAGATAAAATTAAT
* * *
933811 AAATTGCCCTT-AAGATATACTTTTGACATAAAAGTATCTCG-TAAACCCTAATGGACTCAATA
1 AAAATGCCCTTAAAG-TATACCTTCGACATAAAAGTATCTCGAT-AACCCTAATGGACTCAATA
933873 ATATTATGTA
Statistics
Matches: 181, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
153 6 0.03
154 78 0.43
155 89 0.49
156 8 0.04
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (155 bp):
AAAATGCCCTTAAAGTATACCTTCGACATAAAAGTATCTCGATAACCCTAATGGACTCAATATGA
TATGAAATGACAAACATATCCCTAAAGCACACATTTGACATTAAAGTATCTTGATGATTCTAAAG
GACTCAGCTTAAAGATAAAATTAAT
Found at i:934706 original size:145 final size:144
Alignment explanation
Indices: 934444--934737 Score: 387
Period size: 145 Copynumber: 2.0 Consensus size: 144
934434 AAATGTGAAA
* * ***
934444 ATTTTAGACTCCATAGGTTTCAATCAACTTAAGAACACCCTAAATGAGTTTGAAAAAAATGTAAA
1 ATTTTAGACTCCATAGGTTTCAACCAACCTAAGAACACCCTAAATGAGTTTGAAAAAAAAAAAAA
* * * * * * *
934509 AATTATGAAACGGTCCTTATAAGTGCTACTATGAACCAAAAAAGCCCCTAAATGGCCTAAAACTT
66 AAATATGAAACAGCCCTTATAAGTGCTACCATGAACCAAAAAAGCCCCTAAATGACCTAAAAATC
**
934574 AAAGGAAAGTTTGC
131 AAAGGAAAAATTGC
*
934588 ATTTTAGACTCCATAGGTTTCGACCAACCTAAGAACACCCCTAAATGAGTTT-AAAAAATTAAAA
1 ATTTTAGACTCCATAGGTTTCAACCAACCTAAGAACA-CCCTAAATGAGTTTGAAAAAA--AAAA
*
934652 AAAAAATATGAAACAGCCCTTATAA-TGCTGCCATGAACCAAAACAA-CCCCTAAATGACCTAAA
63 AAAAAATATGAAACAGCCCTTATAAGTGCTACCATGAACCAAAA-AAGCCCCTAAATGACCTAAA
934715 AATCAAAGGAAAAATTGC
127 AATCAAAGGAAAAATTGC
934733 ATTTT
1 ATTTT
934738 TAACCTTAAA
Statistics
Matches: 130, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
144 40 0.31
145 65 0.50
146 25 0.19
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.25
Consensus pattern (144 bp):
ATTTTAGACTCCATAGGTTTCAACCAACCTAAGAACACCCTAAATGAGTTTGAAAAAAAAAAAAA
AAATATGAAACAGCCCTTATAAGTGCTACCATGAACCAAAAAAGCCCCTAAATGACCTAAAAATC
AAAGGAAAAATTGC
Found at i:935227 original size:2 final size:2
Alignment explanation
Indices: 935220--935340 Score: 95
Period size: 2 Copynumber: 60.0 Consensus size: 2
935210 TTAGTAGTTG
* * * * * *
935220 TA TA TA TA TG TA TA TG TA CA T- TA CA TA GA TA TA TG 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
* * * *
935261 TA TA TA TCA TA TA TA TA TA TA AA TA AA AA TA AA GTA TA TA T- TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
935304 GTGA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 -T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
935341 AGTGTGTGTG
Statistics
Matches: 94, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
1 3 0.03
2 85 0.90
3 5 0.05
4 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (2 bp):
TA
Found at i:935446 original size:14 final size:15
Alignment explanation
Indices: 935427--935455 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
935417 TGCATAACTT
935427 TAAATTT-AATTGCA
1 TAAATTTAAATTGCA
935441 TAAATTTAAATTGCA
1 TAAATTTAAATTGCA
935456 AGAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
TAAATTTAAATTGCA
Found at i:935465 original size:15 final size:15
Alignment explanation
Indices: 935447--935560 Score: 58
Period size: 15 Copynumber: 7.4 Consensus size: 15
935437 TGCATAAATT
935447 TAAATTGCAAGAAAA
1 TAAATTGCAAGAAAA
*
935462 TAAATTACATA-AATTAA
1 TAAATTGCA-AGAA--AA
*
935479 -AAATTACAAGAAAA
1 TAAATTGCAAGAAAA
* *
935493 TAAATTCCATA-ACTTAA
1 TAAATTGCA-AGA--AAA
*
935510 -AAATTGCAAGAAGA
1 TAAATTGCAAGAAAA
935524 TAAATTGCAA-AAATTA
1 TAAATTGCAAGAAA--A
*
935540 AAAATTGCAAGAAAA
1 TAAATTGCAAGAAAA
*
935555 AAAATT
1 TAAATT
935561 AACTATATGA
Statistics
Matches: 78, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
14 5 0.06
15 36 0.46
16 30 0.38
17 7 0.09
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (15 bp):
TAAATTGCAAGAAAA
Found at i:935489 original size:31 final size:31
Alignment explanation
Indices: 935434--935561 Score: 168
Period size: 31 Copynumber: 4.2 Consensus size: 31
935424 CTTTAAATTT
* *
935434 AATTGCATAAATT-TAAATTGCAAGAAAATA
1 AATTACATAAATTAAAAATTGCAAGAAAATA
*
935464 AATTACATAAATTAAAAATTACAAGAAAATA
1 AATTACATAAATTAAAAATTGCAAGAAAATA
* * *
935495 AATTCCATAACTTAAAAATTGCAAGAAGATA
1 AATTACATAAATTAAAAATTGCAAGAAAATA
* * *
935526 AATTGCAAAAATTAAAAATTGCAAGAAAAAA
1 AATTACATAAATTAAAAATTGCAAGAAAATA
935557 AATTA
1 AATTA
935562 ACTATATGAT
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
30 12 0.14
31 72 0.86
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (31 bp):
AATTACATAAATTAAAAATTGCAAGAAAATA
Found at i:935558 original size:16 final size:16
Alignment explanation
Indices: 935508--935558 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
935498 TCCATAACTT
*
935508 AAAAATTGCAAG-AAG
1 AAAAATTGCAAGAAAA
* *
935523 ATAAATTGCAA-AAATT
1 AAAAATTGCAAGAAA-A
935539 AAAAATTGCAAGAAAA
1 AAAAATTGCAAGAAAA
935555 AAAA
1 AAAA
935559 TTAACTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAATTGCAAGAAAA
Found at i:939269 original size:52 final size:51
Alignment explanation
Indices: 939185--939390 Score: 186
Period size: 51 Copynumber: 4.3 Consensus size: 51
939175 TTTTAACTAG
**** * *
939185 ATGTATCGATACATTTTTCAATGTATCGATACATCTGGGTAAAAAAAATAGA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGAT-AAAAAAACAGA
* * *
939237 ATGTATCGATACATTGAAAAATATATCAATACATCTGGATAAAAAAACAGA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGATAAAAAAACAGA
*
939288 ATGTATCGATACATTAAAAAATGTATCGATACAT-T-CAT------AC---
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGATAAAAAAACAGA
* * *
939328 ATGTATCGATACATT-GAAAATGTATCGATACATTTGGAT-AAAAAACAAA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGATAAAAAAACAGA
*
939377 ATGTATTGATACAT
1 ATGTATCGATACAT
939391 GTACTGTTTA
Statistics
Matches: 129, Mismatches: 15, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
39 17 0.13
40 16 0.12
41 2 0.02
43 2 0.02
46 2 0.02
49 15 0.12
50 1 0.01
51 41 0.32
52 33 0.26
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACATTAAAAAATGTATCGATACATCTGGATAAAAAAACAGA
Found at i:939312 original size:20 final size:19
Alignment explanation
Indices: 939287--939361 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 19
939277 AAAAAAACAG
939287 AATGTATCGATACATTAAAA
1 AATGTATCGATACATT-AAA
*
939307 AATGTATCGATACATTCATA
1 AATGTATCGATACATT-AAA
* *
939327 CATGTATCGATACATTGAA
1 AATGTATCGATACATTAAA
939346 AATGTATCGATACATT
1 AATGTATCGATACATT
939362 TGGATAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
19 16 0.33
20 33 0.67
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTAAA
Found at i:940460 original size:20 final size:20
Alignment explanation
Indices: 940437--940476 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
940427 TATATTATAC
940437 ATATAAATATATATGTCATT
1 ATATAAATATATATGTCATT
* *
940457 ATATATATGTATATGTCATT
1 ATATAAATATATATGTCATT
940477 TCATCTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
ATATAAATATATATGTCATT
Found at i:953138 original size:14 final size:14
Alignment explanation
Indices: 953119--953146 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
953109 ATCTAATACT
953119 AATAGAATAGAAAA
1 AATAGAATAGAAAA
953133 AATAGAATAGAAAA
1 AATAGAATAGAAAA
953147 TACTAATATA
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:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:956798 original size:12 final size:12
Alignment explanation
Indices: 956770--956799 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
956760 AGATTATATT
956770 ATTATTTAAAAA
1 ATTATTTAAAAA
956782 A-TATTTAAAAA
1 ATTATTTAAAAA
956793 ATTATTT
1 ATTATTT
956800 TTATGTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTATTTAAAAA
Found at i:956817 original size:23 final size:23
Alignment explanation
Indices: 956791--956846 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
956781 AATATTTAAA
* *
956791 AAATTATTTTTAT-GTTGATATTT
1 AAATTATTTTTATAATT-AAATTT
956814 AAA-TATTTTTATAATTAAATTT
1 AAATTATTTTTATAATTAAATTT
956836 AAATTATTTTT
1 AAATTATTTTT
956847 TTACTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
AAATTATTTTTATAATTAAATTT
Found at i:957073 original size:23 final size:24
Alignment explanation
Indices: 957036--957080 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
957026 AATTGGATTC
*
957036 AATAATATTAAATATAACATAAAA
1 AATAATATAAAATATAACATAAAA
*
957060 AATAAT-TAAAATATAATATAA
1 AATAATATAAAATATAACATAA
957081 TATAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
AATAATATAAAATATAACATAAAA
Found at i:958221 original size:21 final size:20
Alignment explanation
Indices: 958195--958248 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
958185 TCAAAGATAA
*
958195 AAAAAAATTATTATATAAAT
1 AAAAAAATAATTATATAAAT
* *
958215 TAAAAAATAAAATATATAAAT
1 AAAAAAAT-AATTATATAAAT
958236 AAAAAAATAATTA
1 AAAAAAATAATTA
958249 CAAATAGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAAATAATTATATAAAT
Found at i:958237 original size:25 final size:23
Alignment explanation
Indices: 958192--958238 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
958182 ACATCAAAGA
* *
958192 TAAAAAAAAATTATTATATAAAT
1 TAAAAAAAAAATATTAAATAAAT
958215 TAAAAAATAAAATATATAAATAAA
1 TAAAAAA-AAAATAT-TAAATAAA
958239 AAAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAAAAAAAATATTAAATAAAT
Found at i:959778 original size:33 final size:32
Alignment explanation
Indices: 959715--959779 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
959705 TAAAAATTTT
*
959715 TTAAAATAATATTTATTCTTAATACCATTAAA
1 TTAAAATAATATTTATTCTTAATACAATTAAA
*
959747 TTAAAGATAATATTTATTAC-TAATATAATTAAA
1 TTAAA-ATAATATTTATT-CTTAATACAATTAAA
959780 ATCTAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 5 0.17
33 23 0.79
34 1 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (32 bp):
TTAAAATAATATTTATTCTTAATACAATTAAA
Found at i:962666 original size:2 final size:2
Alignment explanation
Indices: 962659--962708 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
962649 CTAGCCACAG
962659 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
*
962701 AT GT AT AT
1 AT AT AT AT
962709 TATGTTTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:963134 original size:16 final size:16
Alignment explanation
Indices: 963113--963167 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
963103 TATAGGCATG
* *
963113 TATATACATACATACA
1 TATATATATATATACA
963129 TATATATATATATACA
1 TATATATATATATACA
*
963145 TATATATATATATATA
1 TATATATATATATACA
963161 TATATAT
1 TATATAT
963168 CCAAAAGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATATATATATACA
Found at i:963151 original size:4 final size:4
Alignment explanation
Indices: 963113--963167 Score: 74
Period size: 4 Copynumber: 13.8 Consensus size: 4
963103 TATAGGCATG
* * * *
963113 TATA TACA TACA TACA TATA TATA TATA TACA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
963161 TATA TAT
1 TATA TAT
963168 CCAAAAGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (4 bp):
TATA
Found at i:963527 original size:16 final size:16
Alignment explanation
Indices: 963485--963529 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
963475 CTAAATAAGA
963485 TATT-TTTAATTTAAAT
1 TATTATTTAA-TTAAAT
963501 TA--ATTTAAATTAAAT
1 TATTATTT-AATTAAAT
963516 TATTATTTAATTAA
1 TATTATTTAATTAA
963530 TAAAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 11 0.44
16 10 0.40
17 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATTTAATTAAAT
Found at i:964057 original size:2 final size:2
Alignment explanation
Indices: 964050--964088 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
964040 CATGTGCACT
964050 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
964089 TTCACTAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:965252 original size:32 final size:30
Alignment explanation
Indices: 965208--965274 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 30
965198 GGTTTAGACA
* *
965208 ATTTTAATTGAGTTATTTCAAATTTAAATT
1 ATTTTAATTGAGTCATTTCAAATTTAAATC
* *
965238 ATTTTAGATTTGAGTCATTTCAAGTTTATATC
1 ATTTTA-A-TTGAGTCATTTCAAATTTAAATC
965270 ATTTT
1 ATTTT
965275 TGGGCTTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 6 0.19
31 1 0.03
32 24 0.77
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (30 bp):
ATTTTAATTGAGTCATTTCAAATTTAAATC
Found at i:965658 original size:19 final size:19
Alignment explanation
Indices: 965627--965663 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
965617 AAAATTCGAT
965627 AAATTTTATTAATAATAAA
1 AAATTTTATTAATAATAAA
965646 AAATATTTA-TAATAATAA
1 AAAT-TTTATTAATAATAA
965664 TATAGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATTTTATTAATAATAAA
Found at i:965951 original size:18 final size:17
Alignment explanation
Indices: 965924--965957 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
965914 TCAATCTGAT
*
965924 TTAAATTATTATTTATTA
1 TTAAAATATT-TTTATTA
965942 TTAAAATATTTTTATT
1 TTAAAATATTTTTATT
965958 TAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAAAATATTTTTATTA
Found at i:965994 original size:27 final size:27
Alignment explanation
Indices: 965964--966024 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 27
965954 TATTTAAATC
965964 TAAAATATTT-AAATAAT-TATAATATTT
1 TAAAAT-TTTAAAATAATATATAA-ATTT
965991 TAAAATTTTAAAATAATAATATAAATTT
1 TAAAATTTTAAAATAAT-ATATAAATTT
*
966019 TTAAAT
1 TAAAAT
966025 CAATCTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.10
27 13 0.43
28 9 0.30
29 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAAATTTTAAAATAATATATAAATTT
Found at i:966008 original size:21 final size:21
Alignment explanation
Indices: 965982--966055 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 21
965972 TTAAATAATT
* *
965982 ATAATATTTTAAAATTTTAAA
1 ATAATAATATAAAATTTTAAA
*
966003 ATAATAATAT-AAATTTTTAA
1 ATAATAATATAAAATTTTAAA
966023 ATCAATCTAA-ATAAAATTTTAAA
1 AT-AA--TAATATAAAATTTTAAA
966046 A-AATAA-ATAA
1 ATAATAATATAA
966056 TACTTAAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
19 7 0.16
20 11 0.24
21 12 0.27
22 2 0.04
23 13 0.29
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAATAATATAAAATTTTAAA
Found at i:966057 original size:22 final size:21
Alignment explanation
Indices: 965991--966057 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
965981 TATAATATTT
965991 TAAAATTTTAAAATAATAAT-A
1 TAAAATTTTAAAA-AATAATAA
* * *
966012 TAAATTTTTAAATCAAT-CTAAA
1 TAAAATTTTAAA-AAATAAT-AA
966034 TAAAATTTTAAAAAATAAATAA
1 TAAAATTTTAAAAAAT-AATAA
966056 TA
1 TA
966058 CTTAAATCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
20 1 0.03
21 17 0.49
22 16 0.46
23 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATTTTAAAAAATAATAA
Found at i:966359 original size:18 final size:20
Alignment explanation
Indices: 966326--966364 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
966316 TATGTATTGG
*
966326 TATTATAATAATTTTTTAAA
1 TATTATAATAATTTTTAAAA
966346 TATTAT-AT-ATTTTTAAAA
1 TATTATAATAATTTTTAAAA
966364 T
1 T
966365 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATAATAATTTTTAAAA
Found at i:966654 original size:13 final size:14
Alignment explanation
Indices: 966627--966655 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
966617 AAATTTATTT
966627 TACTATTTAAAATA
1 TACTATTTAAAATA
966641 TACTATTT-AAATA
1 TACTATTTAAAATA
966654 TA
1 TA
966656 TTTTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (14 bp):
TACTATTTAAAATA
Found at i:967117 original size:21 final size:20
Alignment explanation
Indices: 967087--967127 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
967077 ATTAAAAAAT
967087 TATATTTAT-ATTAATATTTA
1 TATATTTATAATTAA-ATTTA
967107 TATATTTTATAATTAAATTTA
1 TATA-TTTATAATTAAATTTA
967128 AATTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATTTATAATTAAATTTA
Found at i:968122 original size:18 final size:20
Alignment explanation
Indices: 968087--968172 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
968077 ATACTCCTAT
*
968087 TATATA-AAAATAATTAAAA
1 TATATATAAAATCATTAAAA
968106 TATA-ATAAAAT-ATTAAAA
1 TATATATAAAATCATTAAAA
* * * *
968124 -AAAAATATAATCATAATAAA
1 TATATATAAAATCATTA-AAA
*
968144 TATATATAAATTCATTAAAA
1 TATATATAAAATCATTAAAA
968164 TATATATAA
1 TATATATAA
968173 CATAAATTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
17 2 0.04
18 14 0.26
19 12 0.22
20 15 0.28
21 11 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TATATATAAAATCATTAAAA
Found at i:968165 original size:24 final size:24
Alignment explanation
Indices: 968138--968185 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
968128 ATATAATCAT
*
968138 AATAAATAT-ATATAAATTCATTAA
1 AATAAATATAACATAAATT-ATTAA
*
968162 AATATATATAACATAAATTATTAA
1 AATAAATATAACATAAATTATTAA
968186 TATATCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
AATAAATATAACATAAATTATTAA
Found at i:971280 original size:33 final size:33
Alignment explanation
Indices: 971242--971314 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
971232 TTTAAAAATT
*
971242 TTTAAGAACAATATTTATTTTCAATACTATTAAA
1 TTTAAGAACAATATTTATTTT-AATACTAATAAA
** *
971276 -TTAAGAATTATATTTATTTTAATATTAATAAA
1 TTTAAGAACAATATTTATTTTAATACTAATAAA
971308 TTTAAGA
1 TTTAAGA
971315 TAAGAAAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 10 0.29
33 24 0.71
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (33 bp):
TTTAAGAACAATATTTATTTTAATACTAATAAA
Found at i:973568 original size:2 final size:2
Alignment explanation
Indices: 973561--973588 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
973551 TTATAAAGAA
973561 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
973589 GATAAAAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:974145 original size:33 final size:32
Alignment explanation
Indices: 974045--974146 Score: 91
Period size: 32 Copynumber: 3.1 Consensus size: 32
974035 ATTAAAATAC
* * *
974045 ATTTGTATTAAATAATAAAATATAAATAAAATTAT
1 ATTTATATCAAATAATAAAAT-T--ATAATATTAT
*
974080 ATTTATTTTCAAA-AAT-AAATTATTAATATTAT
1 ATTTA-TATCAAATAATAAAATTA-TAATATTAT
*
974112 ATTTATATGAAATAATAAAATCTATAATATTAT
1 ATTTATATCAAATAATAAAAT-TATAATATTAT
974145 AT
1 AT
974147 AATTTCTATC
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
31 6 0.11
32 16 0.29
33 16 0.29
34 6 0.11
35 7 0.12
36 5 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (32 bp):
ATTTATATCAAATAATAAAATTATAATATTAT
Found at i:974310 original size:19 final size:19
Alignment explanation
Indices: 974273--974311 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
974263 AAAGAAAAGG
**
974273 AAGGAAAGAAAGGGGAAAA
1 AAGGAAAGAAAGGAAAAAA
*
974292 AAGGAAAGAGAGGAAAAAA
1 AAGGAAAGAAAGGAAAAAA
974311 A
1 A
974312 TTGTATTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAGGAAAAAA
Found at i:975006 original size:17 final size:17
Alignment explanation
Indices: 974967--975023 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
974957 ATTAAAATTA
*
974967 AAAATTATACTTT-TATT
1 AAAA-TATAATTTATATT
*
974984 -AAATATTATTTATATT
1 AAAATATAATTTATATT
*
975000 AAAATATAATTTA-ATA
1 AAAATATAATTTATATT
975016 AAAATATA
1 AAAATATA
975024 GATCAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 6 0.18
16 17 0.50
17 11 0.32
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATATAATTTATATT
Found at i:975312 original size:13 final size:12
Alignment explanation
Indices: 975293--975354 Score: 58
Period size: 13 Copynumber: 5.2 Consensus size: 12
975283 AATAAATTTA
975293 ATTATTAAATAT
1 ATTATTAAATAT
*
975305 ATTAATTAAAAAT
1 ATT-ATTAAATAT
975318 A-TATT-AATAT
1 ATTATTAAATAT
**
975328 ATTATTTTTATAT
1 ATTA-TTAAATAT
975341 ATT-TTAAATAT
1 ATTATTAAATAT
975352 ATT
1 ATT
975355 TAAAATTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 5 0.12
11 14 0.34
12 6 0.15
13 16 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTATTAAATAT
Found at i:975319 original size:15 final size:15
Alignment explanation
Indices: 975279--975325 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
975269 ATAATAAAAA
*
975279 TAAAAATAAATTTAAT
1 TAAAAATATA-TTAAT
*
975295 TATTAAATATATTAAT
1 TA-AAAATATATTAAT
975311 TAAAAATATATTAAT
1 TAAAAATATATTAAT
975326 ATATTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 12 0.44
16 9 0.33
17 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAAATATATTAAT
Found at i:975405 original size:17 final size:17
Alignment explanation
Indices: 975371--975418 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
975361 TTTAACATAT
*
975371 ATTATTTTATATATTTA
1 ATTATTTTATATAATTA
975388 ATTATTTTA-ATTAATTA
1 ATTATTTTATA-TAATTA
975405 A-T-TTTTATATAATT
1 ATTATTTTATATAATT
975419 GTATAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 10 0.36
16 3 0.11
17 15 0.54
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTTTATATAATTA
Found at i:975409 original size:31 final size:32
Alignment explanation
Indices: 975348--975415 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
975338 TATATTTTAA
975348 ATATATTTAAAATTTTAACATATATTA-TTTT
1 ATATATTTAAAATTTTAACATATATTATTTTT
* *
975379 ATATATTTAATTATTTTAA-TTA-ATTAATTTTT
1 ATATATTTAA-AATTTTAACATATATT-ATTTTT
975411 ATATA
1 ATATA
975416 ATTGTATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 3 0.09
31 13 0.41
32 16 0.50
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (32 bp):
ATATATTTAAAATTTTAACATATATTATTTTT
Found at i:982389 original size:13 final size:13
Alignment explanation
Indices: 982367--982415 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
982357 GGTCAATTTT
*
982367 AATAAATATTAAA
1 AATAATTATTAAA
*
982380 AATAATTATTTAA
1 AATAATTATTAAA
982393 AA-AATTAAATTAAA
1 AATAATT--ATTAAA
982407 AATAATTAT
1 AATAATTAT
982416 ACTAAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 4 0.13
13 15 0.50
14 7 0.23
15 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATAATTATTAAA
Found at i:982413 original size:15 final size:14
Alignment explanation
Indices: 982374--982414 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
982364 TTTAATAAAT
982374 ATTAAAAATAATT-
1 ATTAAAAATAATTA
*
982387 ATTTAAAA-AATTAA
1 ATTAAAAATAATT-A
982401 ATTAAAAATAATTA
1 ATTAAAAATAATTA
982415 TACTAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
12 4 0.17
13 7 0.30
14 8 0.35
15 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTAAAAATAATTA
Found at i:983097 original size:20 final size:18
Alignment explanation
Indices: 983072--983122 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 18
983062 AAAAATTTAA
983072 TTATTTAAATTAAATTAAAT
1 TTATTTAAATTAAATT--AT
983092 TTATTTAGATATTAAATTAT
1 TTATTTA-A-ATTAAATTAT
*
983112 TTGTTTAAATT
1 TTATTTAAATT
983123 CGATATAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.11
19 1 0.04
20 15 0.54
21 1 0.04
22 8 0.29
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTATTTAAATTAAATTAT
Found at i:985105 original size:25 final size:26
Alignment explanation
Indices: 985076--985126 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
985066 CGACTAAATT
* *
985076 TTGC-TCACCATTTTTTTCAATGCTG
1 TTGCTTCACCATTTTCTTCAACGCTG
985101 TTGCTTCACCATTTTCTTCAACGCTG
1 TTGCTTCACCATTTTCTTCAACGCTG
985127 GCTACTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.16, C:0.27, G:0.12, T:0.45
Consensus pattern (26 bp):
TTGCTTCACCATTTTCTTCAACGCTG
Found at i:993715 original size:18 final size:18
Alignment explanation
Indices: 993694--993760 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
993684 ATAATATGAA
*
993694 TTATAAATATATTAAAAG
1 TTATAAATATATTAAAAC
*
993712 TTATATAA-ATATATAATAC
1 TTATA-AATATAT-TAAAAC
993731 TT-TAAATATAATTAAAAC
1 TTATAAATAT-ATTAAAAC
* *
993749 ATAAAAATATAT
1 TTATAAATATAT
993761 GAATGAGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.05
18 21 0.54
19 16 0.41
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (18 bp):
TTATAAATATATTAAAAC
Found at i:994026 original size:19 final size:18
Alignment explanation
Indices: 994004--994051 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
993994 AATTTGAATT
*
994004 AAAATAATTTAAATGTTAA
1 AAAATAATTTAAA-ATTAA
*
994023 AAAATATTTTTAAAATTAA
1 AAAATA-ATTTAAAATTAA
994042 ATAAATAATT
1 A-AAATAATT
994052 GATAAGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAATAATTTAAAATTAA
Found at i:996016 original size:18 final size:17
Alignment explanation
Indices: 995981--996027 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
995971 TAAATTATTT
995981 TAAAAGTAAATAACTAA
1 TAAAAGTAAATAACTAA
* *
995998 TAAATAGTAAGTAATTAA
1 TAAA-AGTAAATAACTAA
*
996016 TAAAAATAAATA
1 TAAAAGTAAATA
996028 TTTAGTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (17 bp):
TAAAAGTAAATAACTAA
Found at i:996512 original size:2 final size:2
Alignment explanation
Indices: 996505--996532 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
996495 TTATAGTAAG
996505 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
996533 CAATCATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:999474 original size:18 final size:18
Alignment explanation
Indices: 999448--999485 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
999438 ATGTCATAAA
* *
999448 ATAAGAAGCTCTGATACT
1 ATAAAAAGCTCTAATACT
999466 ATAAAAAGCTCTAATACT
1 ATAAAAAGCTCTAATACT
999484 AT
1 AT
999486 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (18 bp):
ATAAAAAGCTCTAATACT
Found at i:1002255 original size:46 final size:46
Alignment explanation
Indices: 1002202--1002292 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
1002192 TTACAAAACA
*
1002202 GTAAAACAGATGTGATAGAAAAATGACGAAAAAAAAGATTGGAGCT
1 GTAAAACAAATGTGATAGAAAAATGACGAAAAAAAAGATTGGAGCT
1002248 GTAAAACAAATGTGATAGAAAAATGACGAAAAAAAAGATTGGAGC
1 GTAAAACAAATGTGATAGAAAAATGACGAAAAAAAAGATTGGAGC
1002293 AGACCTTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.54, C:0.07, G:0.23, T:0.16
Consensus pattern (46 bp):
GTAAAACAAATGTGATAGAAAAATGACGAAAAAAAAGATTGGAGCT
Found at i:1002797 original size:29 final size:29
Alignment explanation
Indices: 1002765--1002888 Score: 113
Period size: 29 Copynumber: 4.2 Consensus size: 29
1002755 CACTTTTGCT
* * * *
1002765 AAAAGTACTTGTACTAAAGCACTTGTATC
1 AAAAGTACTTATGCTAAAGTACTTGTGTC
* *
1002794 AAAAATACTTATGTTAAAGTACTTGTGTC
1 AAAAGTACTTATGCTAAAGTACTTGTGTC
* * *
1002823 AAAGGTACCTATGCTAAAGTACTTGTGCC
1 AAAAGTACTTATGCTAAAGTACTTGTGTC
* * * * *
1002852 AAAGGTACTTGTGCCAAAAATACTTGTGCC
1 AAAAGTACTTATG-CTAAAGTACTTGTGTC
1002882 AAAAGTA
1 AAAAGTA
1002889 TATGTGCCAA
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
29 58 0.74
30 20 0.26
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (29 bp):
AAAAGTACTTATGCTAAAGTACTTGTGTC
Found at i:1002875 original size:15 final size:15
Alignment explanation
Indices: 1002809--1002955 Score: 124
Period size: 15 Copynumber: 9.9 Consensus size: 15
1002799 TACTTATGTT
*
1002809 AAAGTACTTGTGTCA
1 AAAGTACTTGTGCCA
* * * *
1002824 AAGGTACCTATG-CT
1 AAAGTACTTGTGCCA
1002838 AAAGTACTTGTGCCA
1 AAAGTACTTGTGCCA
*
1002853 AAGGTACTTGTGCCA
1 AAAGTACTTGTGCCA
*
1002868 AAAATACTTGTGCCA
1 AAAGTACTTGTGCCA
1002883 AAAGTA-TATGTGCC-
1 AAAGTACT-TGTGCCA
*
1002897 AAAGTA-TCTGTGCCG
1 AAAGTACT-TGTGCCA
*
1002912 AAAGTAAC-TGTACCA
1 AAAGT-ACTTGTGCCA
* * *
1002927 AAAATACTTATACCA
1 AAAGTACTTGTGCCA
1002942 AAAGTACTTGTGCC
1 AAAGTACTTGTGCC
1002956 TAGGTACCTG
Statistics
Matches: 106, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
14 26 0.25
15 79 0.75
16 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (15 bp):
AAAGTACTTGTGCCA
Found at i:1003501 original size:66 final size:68
Alignment explanation
Indices: 1003413--1003753 Score: 202
Period size: 68 Copynumber: 5.1 Consensus size: 68
1003403 TTTGAGAAAT
* * * * *
1003413 TTGTATATATG-AGAATGGCAAAAGTGGTGCATAAGACTACAATGGTCGACTTTTTCATTAAGAA
1 TTGTATATAGGAAGAATGACAAAAGTGGTGCATAGGACCACAATGGTCGACTTTTCCATTAAGAA
1003477 TAC
66 TAC
*** * **
1003480 TTGTAT-TAGGAAGAAT-ACAAAAGTAACGCACAGGACCACAACAGTCGACTTTTCCATTGGAAG
1 TTGTATATAGGAAGAATGACAAAAGTGGTGCATAGGACCACAATGGTCGACTTTTCCATT--AAG
1003543 -A-AC
64 AATAC
* * * * * *
1003546 TTGTATATGGGGAGAATGACAAAAGTGGTGCATGGGACCACAATGATCAACTTCTCCATTAA-AA
1 TTGTATATAGGAAGAATGACAAAAGTGGTGCATAGGACCACAATGGTCGACTTTTCCATTAAGAA
1003610 GTAC
66 -TAC
* * *** ** * *
1003614 TTGTA-A-ATGAGAGAGTGACGGGAGTGACGCAT-GAGACCACAATGATCGACTTCTCCATTGGA
1 TTGTATATAGGA-AGAATGACAAAAGTGGTGCATAG-GACCACAATGGTCGACTTTTCCATT--A
1003676 AG-A-AC
62 AGAATAC
* * * * * * * * *
1003681 TTGTACAT-GGATAGAGTGATAGAAGTGGCGCATGGGATCGCAATGGTCGACTTCTCCATTAAGA
1 TTGTATATAGGA-AGAATGACAAAAGTGGTGCATAGGACCACAATGGTCGACTTTTCCATTAAGA
*
1003745 TTAC
65 ATAC
1003749 TTGTA
1 TTGTA
1003754 AATGAAAAAG
Statistics
Matches: 213, Mismatches: 43, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
66 51 0.24
67 67 0.31
68 91 0.43
69 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (68 bp):
TTGTATATAGGAAGAATGACAAAAGTGGTGCATAGGACCACAATGGTCGACTTTTCCATTAAGAA
TAC
Found at i:1003584 original size:68 final size:67
Alignment explanation
Indices: 1003423--1003872 Score: 213
Period size: 67 Copynumber: 6.7 Consensus size: 67
1003413 TTGTATATAT
* * ** * * *
1003423 GAGAATGGCAAAAGTGGTGCATAAGACTACAATGGTCGACTTTTTCATT--AAGAATACTTGTAT
1 GAGAATGACAAAAGTGGCGCATGGGACCACAA-GGTCGACTTCTCCATTGGAAG-A-ACTTGTAT
1003486 -TAGGA
63 AT-GGA
** ** * *
1003491 -AGAAT-ACAAAAGTAACGCACAGGACCACAACAGTCGACTTTTCCATTGGAAGAACTTGTATAT
1 GAGAATGACAAAAGTGGCGCATGGGACCACAA-GGTCGACTTCTCCATTGGAAGAACTTGTATAT
*
1003554 GGG
65 GGA
* * * ** * *
1003557 GAGAATGACAAAAGTGGTGCATGGGACCACAATGATCAACTTCTCCATTAAAAGTACTTGTAAAT
1 GAGAATGACAAAAGTGGCGCATGGGACCACAA-GGTCGACTTCTCCATTGGAAGAACTTGTATAT
1003622 -GA
65 GGA
* *** * * * *
1003624 GAGAGTGACGGGAGTGACGCATGAGACCACAATGATCGACTTCTCCATTGGAAGAACTTGTACAT
1 GAGAATGACAAAAGTGGCGCATGGGACCACAA-GGTCGACTTCTCCATTGGAAGAACTTGTATAT
1003689 GGA
65 GGA
* * * * * * *
1003692 TAGAGTGATAGAAGTGGCGCATGGGATCGCAATGGTCGACTTCTCCATT--AAGATTACTTGTAA
1 GAGAATGACAAAAGTGGCGCATGGGACCACAA-GGTCGACTTCTCCATTGGAAGA--ACTTGTAT
1003755 AT-GA
63 ATGGA
* * * * ** * * ** * **
1003759 -AAAAGTGACAGAAGTGGCACATGAGACCACAACGACCAACTTCTCTATTAAAAGTACTTACAT-
1 GAGAA-TGACAAAAGTGGCGCATGGGACCACAA-GGTCGACTTCTCCATTGGAAGAACTTGTATA
*
1003822 TGGG
64 TGGA
* * *
1003826 GAGAGTGACGAAAA-TGGCGCATGAGACCATAACGGTCGACTTCTCCA
1 GAGAATGAC-AAAAGTGGCGCATGGGACCACAA-GGTCGACTTCTCCA
1003873 CAATGTGAAA
Statistics
Matches: 294, Mismatches: 74, Indels: 29
0.74 0.19 0.07
Matches are distributed among these distances:
66 49 0.17
67 139 0.47
68 103 0.35
69 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (67 bp):
GAGAATGACAAAAGTGGCGCATGGGACCACAAGGTCGACTTCTCCATTGGAAGAACTTGTATATG
GA
Found at i:1003656 original size:67 final size:67
Alignment explanation
Indices: 1003562--1003817 Score: 269
Period size: 67 Copynumber: 3.8 Consensus size: 67
1003552 ATGGGGAGAA
* * * *
1003562 TGACAAAAGTGGTGCATGGGACCACAATGATCAACTTCTCCATTAAAAGTACTTGTAAATGAGAG
1 TGACAGAAGTGGCGCATGAGACCACAATGATCAACTTCTCCATTAAAAGTACTTGTAAATGAAAG
1003627 AG
66 AG
* * * * ** * * *
1003629 TGACGGGAGTGACGCATGAGACCACAATGATCGACTTCTCCATTGGAAGAACTTGTACATGGATA
1 TGACAGAAGTGGCGCATGAGACCACAATGATCAACTTCTCCATTAAAAGTACTTGTAAAT-GAAA
1003694 GAG
65 GAG
* * * * * * * * *
1003697 TGATAGAAGTGGCGCATGGGATCGCAATGGTCGACTTCTCCATTAAGATTACTTGTAAATGAAAA
1 TGACAGAAGTGGCGCATGAGACCACAATGATCAACTTCTCCATTAAAAGTACTTGTAAATGAAAG
1003762 AG
66 AG
* * * *
1003764 TGACAGAAGTGGCACATGAGACCACAACGACCAACTTCTCTATTAAAAGTACTT
1 TGACAGAAGTGGCGCATGAGACCACAATGATCAACTTCTCCATTAAAAGTACTT
1003818 ACATTGGGGA
Statistics
Matches: 148, Mismatches: 40, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
67 96 0.65
68 52 0.35
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (67 bp):
TGACAGAAGTGGCGCATGAGACCACAATGATCAACTTCTCCATTAAAAGTACTTGTAAATGAAAG
AG
Found at i:1003707 original size:135 final size:135
Alignment explanation
Indices: 1003524--1003790 Score: 354
Period size: 135 Copynumber: 2.0 Consensus size: 135
1003514 ACCACAACAG
* * * *
1003524 TCGACTTTTCCATTGGAAGAACTTGTATATGGGGAGAATGACAAAAGTGGTGCATGGGACCACAA
1 TCGACTTCTCCATTGGAAGAACTTGTACATGGAGAGAATGACAAAAGTGGCGCATGGGACCACAA
* * * * *
1003589 TGATCAACTTCTCCATTAAAAGTACTTGTAAATGAGAGAGTGACGGGAGTGACGCATGAGACCAC
66 TGATCAACTTCTCCATTAAAAGTACTTGTAAATGAAAAAGTGACAGAAGTGACACATGAGACCAC
1003654 AATGA
131 AATGA
* * * * * *
1003659 TCGACTTCTCCATTGGAAGAACTTGTACATGGATAGAGTGATAGAAGTGGCGCATGGGATCGCAA
1 TCGACTTCTCCATTGGAAGAACTTGTACATGGAGAGAATGACAAAAGTGGCGCATGGGACCACAA
* * * * *
1003724 TGGTCGACTTCTCCATTAAGATTACTTGTAAATGAAAAAGTGACAGAAGTGGCACATGAGACCAC
66 TGATCAACTTCTCCATTAAAAGTACTTGTAAATGAAAAAGTGACAGAAGTGACACATGAGACCAC
1003789 AA
131 AA
1003791 CGACCAACTT
Statistics
Matches: 112, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
135 112 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (135 bp):
TCGACTTCTCCATTGGAAGAACTTGTACATGGAGAGAATGACAAAAGTGGCGCATGGGACCACAA
TGATCAACTTCTCCATTAAAAGTACTTGTAAATGAAAAAGTGACAGAAGTGACACATGAGACCAC
AATGA
Found at i:1003801 original size:135 final size:135
Alignment explanation
Indices: 1003527--1003872 Score: 347
Period size: 135 Copynumber: 2.6 Consensus size: 135
1003517 ACAACAGTCG
* * * *
1003527 ACTTTTCCATTGGAAGAACTTGTATATGGGGAGAATGACAAAAGTGGTGCATGGGACCACAATGA
1 ACTTCTCCATTGGAAGAACTTGTACATGGAGAGAATGACAAAAGTGGCGCATGGGACCACAATGA
* * * * * *
1003592 TCAACTTCTCCATTAAAAGTACTTGTAAATGAGAGAGTGACGGGAGTGACGCATGAGACCACAAT
66 TCAACTTCTCCATTAAAAGTACTTGTAAATGAAAAAGTGACAGAAGTGACACATGAGACCACAAC
* *
1003657 GATCG
131 GACCA
* * * * * * *
1003662 ACTTCTCCATTGGAAGAACTTGTACATGGATAGAGTGATAGAAGTGGCGCATGGGATCGCAATGG
1 ACTTCTCCATTGGAAGAACTTGTACATGGAGAGAATGACAAAAGTGGCGCATGGGACCACAATGA
* * * *
1003727 TCGACTTCTCCATTAAGATTACTTGTAAATGAAAAAGTGACAGAAGTGGCACATGAGACCACAAC
66 TCAACTTCTCCATTAAAAGTACTTGTAAATGAAAAAGTGACAGAAGTGACACATGAGACCACAAC
1003792 GACCA
131 GACCA
* ** * * * * * *
1003797 ACTTCTCTATTAAAAGTAC-T-TACATTGGGGAGAGTGACGAAAA-TGGCGCATGAGACCATAAC
1 ACTTCTCCATTGGAAGAACTTGTACA-TGGAGAGAATGAC-AAAAGTGGCGCATGGGACCACAAT
* *
1003859 GGTCGACTTCTCCA
64 GATCAACTTCTCCA
1003873 CAATGTGAAA
Statistics
Matches: 173, Mismatches: 36, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
133 4 0.02
134 39 0.23
135 130 0.75
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (135 bp):
ACTTCTCCATTGGAAGAACTTGTACATGGAGAGAATGACAAAAGTGGCGCATGGGACCACAATGA
TCAACTTCTCCATTAAAAGTACTTGTAAATGAAAAAGTGACAGAAGTGACACATGAGACCACAAC
GACCA
Found at i:1006236 original size:15 final size:15
Alignment explanation
Indices: 1006210--1006258 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
1006200 CCAAACCACC
*
1006210 ACTTGTGCCAAAAGT
1 ACTTATGCCAAAAGT
*
1006225 ACTTATGTCAAAA-T
1 ACTTATGCCAAAAGT
* *
1006239 ACTTGTGCCACAAGT
1 ACTTATGCCAAAAGT
1006254 ACTTA
1 ACTTA
1006259 AAGGTATCTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (15 bp):
ACTTATGCCAAAAGT
Found at i:1007985 original size:29 final size:29
Alignment explanation
Indices: 1007951--1008018 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
1007941 CCAAAAAATG
*
1007951 TTGTGCCAAACCACCTATGCTAAAAGTAC
1 TTGTGCCAAACCACCTATGCCAAAAGTAC
*
1007980 TTGTGCCAAACCACCTGTGCCAAAAGTAC
1 TTGTGCCAAACCACCTATGCCAAAAGTAC
*
1008009 TTGTACCAAA
1 TTGTGCCAAA
1008019 GATACCTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.24
Consensus pattern (29 bp):
TTGTGCCAAACCACCTATGCCAAAAGTAC
Found at i:1008000 original size:14 final size:14
Alignment explanation
Indices: 1007952--1008003 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1007942 CAAAAAATGT
1007952 TGTGCCAAACCACC
1 TGTGCCAAACCACC
* * ** *
1007966 TATGCTAAAAGTACT
1 TGTGC-CAAACCACC
1007981 TGTGCCAAACCACC
1 TGTGCCAAACCACC
1007995 TGTGCCAAA
1 TGTGCCAAA
1008004 AGTACTTGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (14 bp):
TGTGCCAAACCACC
Found at i:1008019 original size:14 final size:14
Alignment explanation
Indices: 1007973--1008145 Score: 107
Period size: 14 Copynumber: 11.9 Consensus size: 14
1007963 ACCTATGCTA
1007973 AAAGTACTTGTGCC
1 AAAGTACTTGTGCC
** *
1007987 AAACCACCTGTGCC
1 AAAGTACTTGTGCC
*
1008001 AAAAGTACTTGTACC
1 -AAAGTACTTGTGCC
* *
1008016 AAAGATACCTGTGCT
1 AAAG-TACTTGTGCC
* *
1008031 AAAGGTACCTGTGTCA
1 AAA-GTACTTGTG-CC
*
1008047 AAAGTACTTATGCC
1 AAAGTACTTGTGCC
* *
1008061 AAAGTACCTGTGTC
1 AAAGTACTTGTGCC
*
1008075 AAAGTATTTGTGTCC
1 AAAGTACTTGTG-CC
1008090 AAAAGTAAC-TGTGCC
1 -AAAGT-ACTTGTGCC
* * *
1008105 AAAATACCT-TACC
1 AAAGTACTTGTGCC
*
1008118 AAAAGTACATGTGCC
1 -AAAGTACTTGTGCC
*
1008133 AAAGTACCTGTGC
1 AAAGTACTTGTGC
1008146 TAAAAATACT
Statistics
Matches: 122, Mismatches: 27, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
13 5 0.04
14 61 0.50
15 41 0.34
16 14 0.11
17 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (14 bp):
AAAGTACTTGTGCC
Found at i:1008034 original size:29 final size:28
Alignment explanation
Indices: 1007951--1008034 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
1007941 CCAAAAAATG
* * *
1007951 TTGTGCCAAACCACCTATGCTAAAAGTAC
1 TTGTACCAAAACACCTGTGCT-AAAGTAC
* * *
1007980 TTGTGCCAAACCACCTGTGCCAAAAGTAC
1 TTGTACCAAAACACCTGTG-CTAAAGTAC
*
1008009 TTGTACCAAAGATACCTGTGCTAAAG
1 TTGTACCAAA-ACACCTGTGCTAAAG
1008035 GTACCTGTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 39 0.83
30 8 0.17
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (28 bp):
TTGTACCAAAACACCTGTGCTAAAGTAC
Found at i:1008093 original size:44 final size:45
Alignment explanation
Indices: 1007992--1008113 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 45
1007982 GTGCCAAACC
*
1007992 ACCTGTG-CCAAAAGTACTTGTACCAAAGATACCTGTGCTAAAGGT
1 ACCTGTGTCCAAAAGTACTTGTGCCAAAG-TACCTGTGCTAAAGGT
*
1008037 ACCTGTGT-CAAAAGTACTTATGCCAAAGTACCTGTG-TCAAA-GT
1 ACCTGTGTCCAAAAGTACTTGTGCCAAAGTACCTGTGCT-AAAGGT
** *
1008080 ATTTGTGTCCAAAAGTAAC-TGTGCCAAAATACCT
1 ACCTGTGTCCAAAAGT-ACTTGTGCCAAAGTACCT
1008114 TACCAAAAGT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
43 9 0.13
44 31 0.46
45 27 0.40
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (45 bp):
ACCTGTGTCCAAAAGTACTTGTGCCAAAGTACCTGTGCTAAAGGT
Found at i:1010303 original size:16 final size:15
Alignment explanation
Indices: 1010284--1010328 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 15
1010274 AAAATATCTT
1010284 AAATTTTATATAATA
1 AAATTTTATATAATA
1010299 CAAATTATTAATATAATA
1 -AAATT-TT-ATATAATA
1010317 AAA-TTTATATAA
1 AAATTTTATATAA
1010329 ATATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.22
15 2 0.07
16 6 0.22
17 5 0.19
18 8 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATTTTATATAATA
Found at i:1010321 original size:33 final size:36
Alignment explanation
Indices: 1010283--1010351 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 36
1010273 AAAAATATCT
* *
1010283 TAAATTTTATAT-AATA-CAAAT-TATTAA-TATAA
1 TAAAATTTATATAAATATAAAATATATTAATTATAA
1010315 TAAAATTTATATAAATATAAAATATATTAATTATAA
1 TAAAATTTATATAAATATAAAATATATTAATTATAA
1010351 T
1 T
1010352 TATAATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 11 0.35
33 4 0.13
34 4 0.13
35 6 0.19
36 6 0.19
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (36 bp):
TAAAATTTATATAAATATAAAATATATTAATTATAA
Found at i:1010376 original size:17 final size:17
Alignment explanation
Indices: 1010291--1010387 Score: 64
Period size: 17 Copynumber: 5.9 Consensus size: 17
1010281 CTTAAATTTT
*
1010291 ATATAATACAAATTATTA
1 ATATAATA-AAAATATTA
1010309 ATATAAT-AAAAT-TT-
1 ATATAATAAAAATATTA
1010323 ATATAAATATAAAATA-T-
1 ATAT-AATA-AAAATATTA
* *
1010340 AT-TAATTATAAT-TATA
1 ATATAATAAAAATAT-TA
*
1010356 ATATGATAAAAATATTA
1 ATATAATAAAAATATTA
*
1010373 ATATAATATAAATAT
1 ATATAATAAAAATAT
1010388 ACGAATTGCG
Statistics
Matches: 62, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
14 8 0.13
15 9 0.15
16 7 0.11
17 30 0.48
18 8 0.13
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (17 bp):
ATATAATAAAAATATTA
Found at i:1010380 original size:11 final size:11
Alignment explanation
Indices: 1010308--1010388 Score: 55
Period size: 11 Copynumber: 7.5 Consensus size: 11
1010298 ACAAATTATT
1010308 AATATAATA-A
1 AATATAATATA
*
1010318 AAT-TTATATA
1 AATATAATATA
*
1010328 AATATAAAATA
1 AATATAATATA
*
1010339 TAT-TAATTATA
1 AATATAA-TATA
*
1010350 ATTATAATATGA
1 AATATAATAT-A
*
1010362 TAA-A-AATATT
1 -AATATAATATA
1010372 AATATAATATA
1 AATATAATATA
1010383 AATATA
1 AATATA
1010389 CGAATTGCGA
Statistics
Matches: 53, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
9 6 0.11
10 11 0.21
11 30 0.57
12 5 0.09
13 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
AATATAATATA
Found at i:1011533 original size:5 final size:5
Alignment explanation
Indices: 1011523--1011559 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
1011513 AAAGAAATGA
1011523 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1011560 CTCTAATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:1016501 original size:45 final size:45
Alignment explanation
Indices: 1016450--1016543 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
1016440 TTTCATTAAA
*
1016450 TTAAAAATGAATATTAAAATAAATTTAATA-TTT-AA-TTTAATATTT
1 TTAAAAAT-AATATT-AAATAAATTTAA-ACTTTAAATTTTAAAATTT
* *
1016495 TTAAAAATAATATTTAATAATTTTAAACTTTAAATTTTAAAATTT
1 TTAAAAATAATATTAAATAAATTTAAACTTTAAATTTTAAAATTT
1016540 TTAA
1 TTAA
1016544 TTTTTAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
42 1 0.02
43 13 0.30
44 8 0.19
45 21 0.49
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (45 bp):
TTAAAAATAATATTAAATAAATTTAAACTTTAAATTTTAAAATTT
Found at i:1016531 original size:22 final size:21
Alignment explanation
Indices: 1016467--1016546 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 21
1016457 TGAATATTAA
*
1016467 AATAAATTTAATATTT-AATTT
1 AATAATTTTAA-ATTTAAATTT
* **
1016488 AATATTTTTAAAAATAATATTT
1 AATAATTTTAAATTTAA-ATTT
1016510 AATAATTTTAAACTTTAAATTTT
1 AATAATTTTAAA-TTTAAA-TTT
*
1016533 AA-AATTTTTAATTT
1 AATAATTTTAAATTT
1016547 TTAATTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
20 2 0.04
21 13 0.28
22 24 0.51
23 8 0.17
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (21 bp):
AATAATTTTAAATTTAAATTT
Found at i:1016533 original size:23 final size:22
Alignment explanation
Indices: 1016507--1016554 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1016497 AAAAATAATA
1016507 TTTAATAATTTTAAACTTTAAAT
1 TTTAA-AATTTTAAACTTTAAAT
* * *
1016530 TTTAAAATTTTTAATTTTTAAT
1 TTTAAAATTTTAAACTTTAAAT
1016552 TTT
1 TTT
1016555 TTATCTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTAAAATTTTAAACTTTAAAT
Found at i:1016552 original size:14 final size:14
Alignment explanation
Indices: 1016512--1016555 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1016502 TAATATTTAA
*
1016512 TAATTTTAAACTTT
1 TAATTTTAAATTTT
*
1016526 AAATTTTAAAATTTT
1 TAATTTT-AAATTTT
*
1016541 TAATTTTTAATTTT
1 TAATTTTAAATTTT
1016555 T
1 T
1016556 TATCTTCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
TAATTTTAAATTTT
Found at i:1019821 original size:21 final size:19
Alignment explanation
Indices: 1019780--1019822 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
1019770 TGTTTCATGT
**
1019780 TAAGAATAAAAACATCTAA
1 TAAGAATAAAAACATAAAA
1019799 TAAGAAGTATAAAACATAAAA
1 TAAGAA-TA-AAAACATAAAA
1019820 TAA
1 TAA
1019823 AGTAGGACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 12 0.60
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (19 bp):
TAAGAATAAAAACATAAAA
Found at i:1022193 original size:27 final size:27
Alignment explanation
Indices: 1022163--1022234 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 27
1022153 TAATTATATT
1022163 ATATTAATATAAATAAAAATAAATAA-A
1 ATATTAATATAAATAAAAA-AAATAATA
* *
1022190 ATA-TGATAT-AATATAAAAAATAATA
1 ATATTAATATAAATAAAAAAAATAATA
*
1022215 ATTTATAATATAATATAAAA
1 ATAT-TAATATAA-ATAAAA
1022235 TATTTTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
24 6 0.17
25 10 0.29
26 5 0.14
27 8 0.23
28 1 0.03
29 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (27 bp):
ATATTAATATAAATAAAAAAAATAATA
Found at i:1022241 original size:22 final size:21
Alignment explanation
Indices: 1022181--1022241 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
1022171 ATAAATAAAA
**
1022181 ATAAATAAAATATGATATAAT
1 ATAAATAAAATATTTTATAAT
* *
1022202 ATAAAAAATAATAATTTATAAT
1 ATAAATAA-AATATTTTATAAT
1022224 ATAATATAAAATATTTTA
1 ATAA-ATAAAATATTTTA
1022242 ATTATGATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 7 0.22
22 22 0.69
23 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAAATAAAATATTTTATAAT
Found at i:1022277 original size:17 final size:17
Alignment explanation
Indices: 1022257--1022301 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1022247 GATTATGATT
*
1022257 AAATTTATTTATAAGTA
1 AAATATATTTATAAGTA
* * *
1022274 AAATAAAATTATAATTA
1 AAATATATTTATAAGTA
1022291 AAATATATTTA
1 AAATATATTTA
1022302 ATTTTTAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
AAATATATTTATAAGTA
Found at i:1022381 original size:6 final size:6
Alignment explanation
Indices: 1022367--1022398 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
1022357 ATATTAAAAA
*
1022367 TTATTT TTATAT TTATAT TTATAT TTATAT TT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TT
1022399 TTTAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTATAT
Found at i:1022727 original size:17 final size:17
Alignment explanation
Indices: 1022705--1022807 Score: 57
Period size: 17 Copynumber: 5.9 Consensus size: 17
1022695 ATATATTGAC
1022705 ATATTTATATTTAATAA
1 ATATTTATATTTAATAA
* ** *
1022722 ATATTTAAAAATAAAAA
1 ATATTTATATTTAATAA
* *
1022739 TATAATTTTTATTAAAATAA
1 -AT-ATTTATATT-TAATAA
* * *
1022759 AT-TTTAAAAATTAA-AT
1 ATATTT-ATATTTAATAA
* *
1022775 ATATTTATATTAAATAT
1 ATATTTATATTTAATAA
1022792 ATATTTATATTTAATA
1 ATATTTATATTTAATA
1022808 TTTTTATATT
Statistics
Matches: 61, Mismatches: 19, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
16 8 0.13
17 38 0.62
18 4 0.07
19 7 0.11
20 4 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATTTATATTTAATAA
Found at i:1022758 original size:37 final size:34
Alignment explanation
Indices: 1022705--1022798 Score: 118
Period size: 36 Copynumber: 2.7 Consensus size: 34
1022695 ATATATTGAC
*
1022705 ATATTTATATTTAATAAATATTTAAAAATAAAAAT
1 ATATTTATATTAAATAAATATTTAAAAAT-AAAAT
* *
1022740 ATAATTTTTATTAAAATAAAT-TTTAAAAATTAAAT
1 AT-ATTTATATT-AAATAAATATTTAAAAATAAAAT
*
1022775 ATATTTATATTAAATATATATTTA
1 ATATTTATATTAAATAAATATTTA
1022799 TATTTAATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
33 7 0.14
34 12 0.24
35 8 0.16
36 17 0.33
37 7 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
ATATTTATATTAAATAAATATTTAAAAATAAAAT
Done.