Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 39 of 150
Found at i:10667545 original size:21 final size:21
Alignment explanation
Indices: 10667499--10667545 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
10667489 ACAAAAGATT
10667499 TAAAATAATAAAATATAATAA
1 TAAAATAATAAAATATAATAA
*
10667520 CAAAATAA-ATAAATA-AATAAA
1 TAAAATAATA-AAATATAAT-AA
10667541 TAAAA
1 TAAAA
10667546 GGTGTAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAATAATAAAATATAATAA
Found at i:10672999 original size:18 final size:19
Alignment explanation
Indices: 10672973--10673010 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
10672963 ATCTTTTTCT
*
10672973 TTTATATATATATTTTAAA
1 TTTATATATATATTTAAAA
*
10672992 TTTA-ATATGTATTTAAAA
1 TTTATATATATATTTAAAA
10673010 T
1 T
10673011 ATTTATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTATATATATATTTAAAA
Found at i:10676728 original size:14 final size:14
Alignment explanation
Indices: 10676709--10676735 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10676699 CATTTCTTGG
10676709 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
10676723 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
10676736 ACTGGATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:10681100 original size:18 final size:19
Alignment explanation
Indices: 10681074--10681114 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10681064 GTGTAATTTG
*
10681074 ATTTGGTTA-TTTTACTTA
1 ATTTCGTTAGTTTTACTTA
*
10681092 ATTTCGTTAGTTTTATTTA
1 ATTTCGTTAGTTTTACTTA
10681111 ATTT
1 ATTT
10681115 AATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.22, C:0.05, G:0.10, T:0.63
Consensus pattern (19 bp):
ATTTCGTTAGTTTTACTTA
Found at i:10681111 original size:19 final size:18
Alignment explanation
Indices: 10681069--10681114 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
10681059 AATTGGTGTA
* *
10681069 ATTTGATTTGGTTATTTT
1 ATTTAATTTCGTTATTTT
*
10681087 ACTTAATTTCGTTAGTTTT
1 ATTTAATTTCGTTA-TTTT
10681106 ATTTAATTT
1 ATTTAATTT
10681115 AATTTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.63
Consensus pattern (18 bp):
ATTTAATTTCGTTATTTT
Found at i:10681116 original size:5 final size:5
Alignment explanation
Indices: 10681106--10681134 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10681096 CGTTAGTTTT
10681106 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
10681135 CTACATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:10685409 original size:67 final size:67
Alignment explanation
Indices: 10685250--10685451 Score: 190
Period size: 67 Copynumber: 3.0 Consensus size: 67
10685240 GAATATCGTC
* * * * * * * *
10685250 AGTCCAACCAACACACACCAAATTCTCATACGAACCAATCCAA-CAGAAACACGCCAATGCTCAT
1 AGTCCAACCAAAACACACC-AATGCTCACAAGAGCTAGTCCAACCA-AAACCCGCCAATGCTCAT
*
10685314 AAGAGCT
64 -A-TG-T
* *
10685321 AGTCCAACCAAAACACGCCAATGCTCACAAGAGCTAGTCCAACCAAAACCCGTCAATGCTCATAT
1 AGTCCAACCAAAACACACCAATGCTCACAAGAGCTAGTCCAACCAAAACCCGCCAATGCTCATAT
10685386 GT
66 GT
* * * * * **
10685388 AGTCCAACCGAAACACACCAATGCTCATAAGAGGTAGTCTATCTGAAACCCGCCAATGCTCATA
1 AGTCCAACCAAAACACACCAATGCTCACAAGAGCTAGTCCAACCAAAACCCGCCAATGCTCATA
10685452 AGAGTTAATC
Statistics
Matches: 110, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
67 56 0.51
68 1 0.01
69 1 0.01
70 33 0.30
71 19 0.17
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (67 bp):
AGTCCAACCAAAACACACCAATGCTCACAAGAGCTAGTCCAACCAAAACCCGCCAATGCTCATAT
GT
Found at i:10685436 original size:35 final size:35
Alignment explanation
Indices: 10685288--10685464 Score: 198
Period size: 35 Copynumber: 5.1 Consensus size: 35
10685278 TACGAACCAA
*
10685288 TCCAACAGAAACACGCCAATGCTCATAAGAGCTAG
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
* *
10685323 TCCAACCAAAACACGCCAATGCTCACAAGAGCTAG
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
* * * *
10685358 TCCAACCAAAACCCGTCAATGCTCAT-A-TG-TAG
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
* *
10685390 TCCAACCGAAACACACCAATGCTCATAAGAGGTAG
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
* * * * * *
10685425 TCTATCTGAAACCCGCCAATGCTCATAAGAGTTAA
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
10685460 TCCAA
1 TCCAA
10685465 TTAAAACAAG
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
32 25 0.21
33 2 0.02
34 2 0.02
35 89 0.75
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.18
Consensus pattern (35 bp):
TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
Found at i:10685478 original size:35 final size:35
Alignment explanation
Indices: 10685250--10685478 Score: 196
Period size: 35 Copynumber: 6.6 Consensus size: 35
10685240 GAATATCGTC
* * * * * *
10685250 AGTCCAACCAACACACACCAAATTCTCATACGAACC
1 AGTCCAACCAAAACACGCC-AATGCTCATAAGAGCT
*
10685286 AATCCAA-CAGAAACACGCCAATGCTCATAAGAGCT
1 AGTCCAACCA-AAACACGCCAATGCTCATAAGAGCT
*
10685321 AGTCCAACCAAAACACGCCAATGCTCACAAGAGCT
1 AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
* * *
10685356 AGTCCAACCAAAACCCGTCAATGCTCAT-A-TG-T
1 AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
* * *
10685388 AGTCCAACCGAAACACACCAATGCTCATAAGAGGT
1 AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
* * ** * *
10685423 AGTCTATCTGAAACCCGCCAATGCTCATAAGAGTT
1 AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
* ** *
10685458 AATCCAATTAAAACAAGCCAA
1 AGTCCAACCAAAACACGCCAA
10685479 ACAAAGAGTA
Statistics
Matches: 157, Mismatches: 31, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
32 25 0.16
33 2 0.01
34 2 0.01
35 113 0.72
36 15 0.10
ACGTcount: A:0.40, C:0.31, G:0.13, T:0.17
Consensus pattern (35 bp):
AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
Found at i:10698581 original size:44 final size:44
Alignment explanation
Indices: 10698517--10698615 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
10698507 CAACTTCAGA
*
10698517 GAGATAAGATCTAT-TACTTTAATCCGCTCCAAC-ACAACCTGAGG
1 GAGATAAGAT-TATCGACTTTAATCCGCTCC-ACTACAACCTGAGG
* * * *
10698561 GAGATAGGATTATCGACTTTAATCTGCTCCACTGCAACCTTAGG
1 GAGATAAGATTATCGACTTTAATCCGCTCCACTACAACCTGAGG
10698605 GAGATAAGATT
1 GAGATAAGATT
10698616 TGTTTTCTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 5 0.11
44 42 0.89
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (44 bp):
GAGATAAGATTATCGACTTTAATCCGCTCCACTACAACCTGAGG
Found at i:10698631 original size:44 final size:44
Alignment explanation
Indices: 10698583--10698696 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
10698573 TCGACTTTAA
*
10698583 TCTGCTCCACTGCAACCTTAGGGAGATAAGATTTGTTTTCTCAG
1 TCTGCTCCACTGCGACCTTAGGGAGATAAGATTTGTTTTCTCAG
* * * *
10698627 TCTGCCCCACTGTGA-CTTCAGGGGGATAAGATTTGTTTTCTCGG
1 TCTGCTCCACTGCGACCTT-AGGGAGATAAGATTTGTTTTCTCAG
* * *
10698671 TCTACTCCGCTGCGACCTCAGGGAGA
1 TCTGCTCCACTGCGACCTTAGGGAGA
10698697 AAGGACTCGT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
43 3 0.05
44 52 0.91
45 2 0.04
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCGACCTTAGGGAGATAAGATTTGTTTTCTCAG
Found at i:10698938 original size:129 final size:129
Alignment explanation
Indices: 10698674--10699019 Score: 371
Period size: 129 Copynumber: 2.7 Consensus size: 129
10698664 TTCTCGGTCT
* * *
10698674 ACTCCGCTGCGACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACACTTGAAGATA
1 ACTCCACTGCTACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATA
* * * * * *
10698739 AGATTCGCCGTCTTCGATCTGTCCCATTGCAACTTCAGGGGGATAAGACCTGCTTACTTAGTCC
66 AGATTCGCCGTCTTCGATCTGTCCCACTACAACTTCAGGGAGACAAGACCTGCTTACTCAGACC
* *
10698803 GCTCCACTG-TAACCTCAGGGAGAAAGGACTTGTGGCTTAAACCTGCTTCCTTACACTTGAAGAT
1 ACTCCACTGCT-ACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* ** * *
10698867 AAGATTCGCCGTCTTCGATCTGTCCCGCTACTGCTT-AGGGAGACAAGATCTGCAATTTC-CA-A
65 AAGATTCGCCGTCTTCGATCTGTCCCACTACAACTTCAGGGAGACAAGACCTGC--TTACTCAGA
10698929 CC
128 CC
* * * * * *
10698931 TATTCCACTGCTA-GTCAGGGACATAA-GACTTGTGGCTTAAATCTGTTTCCCTACTCTTGGGGA
1 -ACTCCACTGCTACCTCAGGGAGA-AAGGACTTGTGGCTTAAATCTGCTTCCTTACACTT---GA
*
10698994 AGATAAGATTCGCCCTCTTCGATCTG
61 AGATAAGATTCGCCGTCTTCGATCTG
10699020 CTTCACTGTC
Statistics
Matches: 183, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
128 52 0.28
129 100 0.55
130 4 0.02
131 27 0.15
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (129 bp):
ACTCCACTGCTACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATA
AGATTCGCCGTCTTCGATCTGTCCCACTACAACTTCAGGGAGACAAGACCTGCTTACTCAGACC
Found at i:10699157 original size:87 final size:87
Alignment explanation
Indices: 10699011--10699366 Score: 550
Period size: 87 Copynumber: 4.1 Consensus size: 87
10699001 ATTCGCCCTC
* * * * * * *
10699011 TTCGATCTGCTTCACTGTCGACGCGGGAGGGCAAGATCTGTTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
10699076 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
10699098 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
10699163 CTGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
10699185 TTCGATCTACTTCGCTGTTAATGCAAGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
10699250 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * *
10699272 TTCGATCTGCTTCGCTGTTAATGCTGGAAGACAAGATCTGTTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
10699337 CCAATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
10699359 TTCGATCT
1 TTCGATCT
10699367 TCACTGATCT
Statistics
Matches: 249, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 249 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:10701456 original size:15 final size:13
Alignment explanation
Indices: 10701422--10701460 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
10701412 TGACCTCTCA
*
10701422 TTTTCTTTTTTTC
1 TTTTCCTTTTTTC
10701435 TTTTCCTTTTTTC
1 TTTTCCTTTTTTC
10701448 TTCTCTCCTTTTT
1 TT-T-TCCTTTTT
10701461 CATTTTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
14 1 0.04
15 8 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCCTTTTTTC
Found at i:10701524 original size:18 final size:17
Alignment explanation
Indices: 10701498--10701540 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
10701488 TTTTTCTTTT
10701498 TTTTGTTTTGATCTTGA
1 TTTTGTTTTGATCTTGA
* *
10701515 TTTTGCTTTTGCTTTTGA
1 TTTTG-TTTTGATCTTGA
10701533 TTTT-TTTT
1 TTTTGTTTT
10701541 ATTGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.72
Consensus pattern (17 bp):
TTTTGTTTTGATCTTGA
Found at i:10710500 original size:20 final size:20
Alignment explanation
Indices: 10710475--10710517 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
10710465 ATCTTGAATT
10710475 ATTTGATTCTAATCAATTTG
1 ATTTGATTCTAATCAATTTG
*
10710495 ATTTGATTTTAATCAATTTG
1 ATTTGATTCTAATCAATTTG
10710515 ATT
1 ATT
10710518 AAATTGCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTGATTCTAATCAATTTG
Found at i:10711292 original size:89 final size:88
Alignment explanation
Indices: 10711190--10711538 Score: 386
Period size: 89 Copynumber: 4.0 Consensus size: 88
10711180 TTTTGTTTCC
* * * *
10711190 AAATTAAAAGTAAATAAAATATGTTTCGGGATTTATTCCTGCCGATT-AACGGATTTTATTCCAT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCG-TTCAACGGATTTTATTCCAT
*
10711254 TATTTTGATTTTATTTCCAAACGAG
65 TATTTTAATTTTATTTCCAAA-GAG
* * * * *
10711279 AAATTAAAGGTAAATAAAATCTGTTTCGGGACTTATTCTCGTCGTTCAATGGATTTTATTCCATT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
*
10711344 ATTTTAATTTTATTTCCAAATGGG
66 ATTTTAATTTTATTTCCAAA-GAG
* * * ** *
10711368 AAATTAATGGTAAATAATATCCATTTCGCGG-TTTATTCCCGCCAATCAACGGATTTAATTCCAT
1 AAATTAAAGGTAAATAAAATCTATTTCG-GGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
* * *
10711432 TATTTTGATTTTATTACCAAATAGG
65 TATTTTAATTTTATTTCCAAAGA-G
* * *
10711457 ATACTAAAGGTAAATAAAAT-TCATTTCGGGATTGATTCCCGCCGTTCAAC-GATTTTATTCCA-
1 AAATTAAAGGTAAATAAAATCT-ATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
*
10711519 -ATTTTAATTTTATTTTCAAA
65 TATTTTAATTTTATTTCCAAA
10711539 ACTGAGTATG
Statistics
Matches: 218, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
86 17 0.08
88 15 0.07
89 184 0.84
90 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (88 bp):
AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
ATTTTAATTTTATTTCCAAAGAG
Found at i:10711505 original size:178 final size:175
Alignment explanation
Indices: 10711213--10711538 Score: 444
Period size: 178 Copynumber: 1.8 Consensus size: 175
10711203 ATAAAATATG
* * * * * *
10711213 TTTCGGGATTTATTCCTGCCGATTAACGGATTTTATTCCATTATTTTGATTTTATTTCCAAACGA
1 TTTCGGGATTTATTCCCGCCAATCAACGGATTTAATTCCATTATTTTGATTTTATTACCAAAAGA
* * * * *
10711278 GAAATTAAAGGTAAATAAAATCTGTTTCGGGACTTATTCTCGTCGTTCAATGGATTTTATTCCAT
66 GAAACTAAAGGTAAATAAAATCTATTTCGGGACTTATTCCCGCCGTTCAA-CGATTTTATTCCA-
10711343 TATTTTAATTTTATTTCCAAATGGGAAATTAATGGTAAATAATATCCA
129 -ATTTTAATTTTATTTCCAAATGGGAAATTAATGGTAAATAATATCCA
10711391 TTTCGCGG-TTTATTCCCGCCAATCAACGGATTTAATTCCATTATTTTGATTTTATTACCAAATA
1 TTTCG-GGATTTATTCCCGCCAATCAACGGATTTAATTCCATTATTTTGATTTTATTACCAAA-A
*
10711455 G-GATACTAAAGGTAAATAAAAT-TCATTTCGGGA-TTGATTCCCGCCGTTCAACGATTTTATTC
64 GAGAAACTAAAGGTAAATAAAATCT-ATTTCGGGACTT-ATTCCCGCCGTTCAACGATTTTATTC
*
10711517 CAATTTTAATTTTATTTTCAAA
127 CAATTTTAATTTTATTTCCAAA
10711539 ACTGAGTATG
Statistics
Matches: 131, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
175 19 0.15
177 15 0.11
178 94 0.72
179 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (175 bp):
TTTCGGGATTTATTCCCGCCAATCAACGGATTTAATTCCATTATTTTGATTTTATTACCAAAAGA
GAAACTAAAGGTAAATAAAATCTATTTCGGGACTTATTCCCGCCGTTCAACGATTTTATTCCAAT
TTTAATTTTATTTCCAAATGGGAAATTAATGGTAAATAATATCCA
Found at i:10711814 original size:84 final size:84
Alignment explanation
Indices: 10711654--10711815 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
10711644 AATAAATTTT
* * * ***
10711654 TTTCTGGATTTATTCCTGTCGTTTAACAAGATTTTATTTGATTTTTTTTGTTTTCCAAATTTGAA
1 TTTCAGGATTTATTCCTGTCGTTTAACAAGATTTTATTCGATTTGTTTTGTTTTCCAAAAAAGAA
* *
10711719 TTAAATCAAATAAAATCTG
66 TGAAATAAAATAAAATCTG
10711738 TTTCAGGATTTATT-CTCGTCGTTTAACAAGATTTTATTCGATATTGTTTTG-TTTCCAAACAAA
1 TTTCAGGATTTATTCCT-GTCGTTTAACAAGATTTTATTCGAT-TTGTTTTGTTTTCCAAA-AAA
*
10711801 G-ATGCAATAAAATAA
63 GAATGAAATAAAATAA
10711816 TTTTATTTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
83 2 0.03
84 56 0.85
85 8 0.12
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (84 bp):
TTTCAGGATTTATTCCTGTCGTTTAACAAGATTTTATTCGATTTGTTTTGTTTTCCAAAAAAGAA
TGAAATAAAATAAAATCTG
Found at i:10725421 original size:16 final size:17
Alignment explanation
Indices: 10725400--10725438 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
10725390 TTTATATATA
10725400 TATTTAAGTCA-TTTTT
1 TATTTAAGTCATTTTTT
*
10725416 TATTTAGGTCATTTTTT
1 TATTTAAGTCATTTTTT
10725433 TATTTA
1 TATTTA
10725439 TCTCTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.64
Consensus pattern (17 bp):
TATTTAAGTCATTTTTT
Found at i:10729960 original size:3 final size:3
Alignment explanation
Indices: 10729952--10729980 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10729942 TCTTAATACT
10729952 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
10729981 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:10730074 original size:19 final size:21
Alignment explanation
Indices: 10730050--10730088 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10730040 ACTAAAACAA
*
10730050 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
10730069 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
10730089 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:10730131 original size:11 final size:11
Alignment explanation
Indices: 10730115--10730151 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
10730105 AAAATACCTC
10730115 CTTTTTCTCCT
1 CTTTTTCTCCT
10730126 CTTTTTCT-CT
1 CTTTTTCTCCT
*
10730136 CTTTTTCTCTT
1 CTTTTTCTCCT
10730147 CTTTT
1 CTTTT
10730152 CTGCGCCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTTTTCTCCT
Found at i:10730316 original size:54 final size:54
Alignment explanation
Indices: 10730232--10730334 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
10730222 ATAATACGAG
**
10730232 TGGTGCCGCCAATTAGTATGGCACCATTGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATTAGTATGGCACCATTGGTGCCGCCAATCCCATTGGCACCAT
* * *
10730286 TGGTGCCGCCAA-TGGTTTTGGCACCTTTGGTGCCGCCAATCCCATTGGC
1 TGGTGCCGCCAATTAG-TATGGCACCATTGGTGCCGCCAATCCCATTGGC
10730335 GTGACCAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.05
54 41 0.95
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.26
Consensus pattern (54 bp):
TGGTGCCGCCAATTAGTATGGCACCATTGGTGCCGCCAATCCCATTGGCACCAT
Found at i:10730333 original size:27 final size:27
Alignment explanation
Indices: 10730232--10730334 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
10730222 ATAATACGAG
* *
10730232 TGGTGCCGCCAATTAGTA-TGGCACCAT
1 TGGTGCCGCCAA-TGGCATTGGCACCAT
10730259 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
10730286 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
10730313 TGGTGCCGCCAATCCCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
10730335 GTGACCAGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 3 0.05
27 63 0.95
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:10730381 original size:12 final size:12
Alignment explanation
Indices: 10730364--10730392 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
10730354 ATCGATTTGA
10730364 TTTTTTTTGGTT
1 TTTTTTTTGGTT
10730376 TTTTTTTTGGTT
1 TTTTTTTTGGTT
10730388 TTTTT
1 TTTTT
10730393 GATATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTGGTT
Found at i:10730455 original size:28 final size:27
Alignment explanation
Indices: 10730394--10730464 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
10730384 GGTTTTTTTG
* *
10730394 ATATATTTTGGTAAATAAAATAAATTT
1 ATATATTTTGGTAAATAAAAAAAAGTT
10730421 ATATATTTTGGTAAATAAAAAAAAGTT
1 ATATATTTTGGTAAATAAAAAAAAGTT
10730448 ATAATATTTTGGTAAAT
1 AT-ATATTTTGGTAAAT
10730465 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 27 0.66
28 14 0.34
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAAAGTT
Found at i:10739511 original size:48 final size:48
Alignment explanation
Indices: 10739440--10739535 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
10739430 AAGAAATAAA
10739440 ATGTGCCATCTTTGAAAACCTGTCAACAACAACAAATATACTATCTCT
1 ATGTGCCATCTTTGAAAACCTGTCAACAACAACAAATATACTATCTCT
10739488 ATGTGCCATCTTTGAAAACCTGTCAACAACAACAAATATACTATCTCT
1 ATGTGCCATCTTTGAAAACCTGTCAACAACAACAAATATACTATCTCT
10739536 TCCTTTCTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (48 bp):
ATGTGCCATCTTTGAAAACCTGTCAACAACAACAAATATACTATCTCT
Found at i:10744855 original size:4 final size:4
Alignment explanation
Indices: 10744846--10744872 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10744836 AACTAAGTAA
10744846 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
10744873 AATAAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:10747255 original size:9 final size:9
Alignment explanation
Indices: 10747241--10747274 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
10747231 TTAATTGAAA
10747241 AATTAATTT
1 AATTAATTT
*
10747250 AGTTAATTT
1 AATTAATTT
*
10747259 AATTAATTC
1 AATTAATTT
10747268 AATTAAT
1 AATTAAT
10747275 AGAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (9 bp):
AATTAATTT
Found at i:10756387 original size:57 final size:57
Alignment explanation
Indices: 10756318--10756432 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
10756308 TAGATTCGTC
* * *
10756318 TACTAATATAAGTTATCTTTCCTTATTACGATCCAACCACGTAATACCGCTTAATAT
1 TACTAATATAAGTTACCTTTCCGTATTACGATCCAACCACGTAATACCACTTAATAT
* * * *
10756375 TACTAATATAAGTTACCTTTTCGTATTACGATCCGACCTCGTAATACCACTTAGTAT
1 TACTAATATAAGTTACCTTTCCGTATTACGATCCAACCACGTAATACCACTTAATAT
10756432 T
1 T
10756433 CATTAAACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (57 bp):
TACTAATATAAGTTACCTTTCCGTATTACGATCCAACCACGTAATACCACTTAATAT
Found at i:10759899 original size:23 final size:23
Alignment explanation
Indices: 10759873--10759920 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
10759863 TTCACCAAGT
* *
10759873 ATAAAATTTTTAACTCTATTAAC
1 ATAAAATTTTAAACCCTATTAAC
10759896 ATAAAATTTTAAACCCTATTAAC
1 ATAAAATTTTAAACCCTATTAAC
10759919 AT
1 AT
10759921 GACTCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAAAATTTTAAACCCTATTAAC
Found at i:10760066 original size:19 final size:19
Alignment explanation
Indices: 10760031--10760067 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10760021 AAATGCATAC
*
10760031 TGGCACACAAGGCGCATCT
1 TGGCACACAAAGCGCATCT
*
10760050 TGGCACACAAAGTGCATC
1 TGGCACACAAAGCGCATC
10760068 CTAGTGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (19 bp):
TGGCACACAAAGCGCATCT
Found at i:10764664 original size:32 final size:32
Alignment explanation
Indices: 10764627--10764697 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
10764617 TCTTTTCTTG
* ** *
10764627 CTATTTTTTTGTTGTTTTGCTGCTATTTGCTA
1 CTATTTTGTTGTCATTTTGCTACTATTTGCTA
*
10764659 CTATTTTGTTGTCATTTTGCTATTATTTGCTA
1 CTATTTTGTTGTCATTTTGCTACTATTTGCTA
10764691 CTATTTT
1 CTATTTT
10764698 AGAGATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.62
Consensus pattern (32 bp):
CTATTTTGTTGTCATTTTGCTACTATTTGCTA
Found at i:10780040 original size:11 final size:11
Alignment explanation
Indices: 10780024--10780056 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10780014 AAATATTGTT
10780024 TAAAATAATAA
1 TAAAATAATAA
10780035 TAAAATAATAA
1 TAAAATAATAA
*
10780046 CAAAAT-ATAA
1 TAAAATAATAA
10780056 T
1 T
10780057 CAACATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:10783036 original size:6 final size:6
Alignment explanation
Indices: 10783025--10783072 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
10783015 AATTTAGCCA
* *
10783025 TTTATT TTTA-T TGTA-T ATTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
10783071 TT
1 TT
10783073 CTAATTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 7 0.19
6 30 0.81
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:10792135 original size:13 final size:13
Alignment explanation
Indices: 10792081--10792128 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
10792071 ACTTAATATT
10792081 TAAGTAAATATATA
1 TAAGTAAATATA-A
*
10792095 TAA-TATA-ATAA
1 TAAGTAAATATAA
10792106 TAAAGTAAATATAA
1 T-AAGTAAATATAA
10792120 TAAGTAAAT
1 TAAGTAAAT
10792129 GAAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 2 0.07
12 5 0.17
13 14 0.48
14 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
TAAGTAAATATAA
Found at i:10792177 original size:29 final size:30
Alignment explanation
Indices: 10792125--10792207 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 30
10792115 TATAATAAGT
*
10792125 AAATGAAATAAAAAGAGAAAGAAAGAAACA
1 AAATGAAACAAAAAGAGAAAGAAAGAAACA
*
10792155 AAATGAAACACAAAG-GAAAGAAAGAAA-A
1 AAATGAAACAAAAAGAGAAAGAAAGAAACA
*
10792183 GAAA--AAACAAGAA-AGAAAGAAAGAA
1 -AAATGAAACAAAAAGAGAAAGAAAGAA
10792208 GAAGCATAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 18 0.38
28 1 0.02
29 15 0.32
30 13 0.28
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.04
Consensus pattern (30 bp):
AAATGAAACAAAAAGAGAAAGAAAGAAACA
Found at i:10793105 original size:19 final size:20
Alignment explanation
Indices: 10793081--10793129 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
10793071 TTGTTAGTAA
10793081 TTTTTGTGATTAGGTTAAT-
1 TTTTTGTGATTAGGTTAATG
*
10793100 TTTTTGT--TTAGTTTAATG
1 TTTTTGTGATTAGGTTAATG
10793118 TTTATTGTGATT
1 TTT-TTGTGATT
10793130 TGGTAGATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 11 0.44
21 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (20 bp):
TTTTTGTGATTAGGTTAATG
Found at i:10793110 original size:17 final size:18
Alignment explanation
Indices: 10793078--10793116 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10793068 ATTTTGTTAG
10793078 TAATTTTTGTGATTAGGT
1 TAATTTTTGTGATTAGGT
* *
10793096 TAATTTTT-TGTTTAGTT
1 TAATTTTTGTGATTAGGT
10793113 TAAT
1 TAAT
10793117 GTTTATTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (18 bp):
TAATTTTTGTGATTAGGT
Found at i:10808339 original size:40 final size:40
Alignment explanation
Indices: 10808284--10808432 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
10808274 TATGTCATGA
*
10808284 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCCGGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTGGTGT
* * * *
10808324 GATTATCAGGCTTAGTGCATAACAGGCTTTGTGTTGGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTGGTGT
* * *
10808364 GATTATTAGGCTTAGTGCCTAGCAGCCTTTATGCTAGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTGGTGT
* *
10808404 -AGTTATTAGACTTAGTGCCTAGTAGGCTT
1 GA-TTATTAGGCTTAGTGCCTAGCAGGCTT
10808433 CGTGTGGATA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 92 0.99
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.37
Consensus pattern (40 bp):
GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTGGTGT
Found at i:10813927 original size:3 final size:3
Alignment explanation
Indices: 10813919--10813965 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
10813909 TTTATATTTG
* *
10813919 TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10813966 CACGTTAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10821887 original size:12 final size:12
Alignment explanation
Indices: 10821868--10821897 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10821858 CCCGACTTCT
10821868 ACTAATTAATTA
1 ACTAATTAATTA
*
10821880 ATTAATTAATTA
1 ACTAATTAATTA
10821892 ACTAAT
1 ACTAAT
10821898 ACTCGTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ACTAATTAATTA
Found at i:10824004 original size:25 final size:25
Alignment explanation
Indices: 10823976--10824097 Score: 93
Period size: 25 Copynumber: 4.9 Consensus size: 25
10823966 TCGAGCCATG
* *
10823976 TAACGGAAAGCTCATGTGAGCTGAA
1 TAACGGGAAGCTCATGAGAGCTGAA
* * *
10824001 TAACGGGAAGCTCTTGCGAGCTAAA
1 TAACGGGAAGCTCATGAGAGCTGAA
* * *
10824026 TATCGGGAAGCTCATAAGAGCTGTA
1 TAACGGGAAGCTCATGAGAGCTGAA
** * * * *
10824051 TAACAAGAAGCTTAAGAGAGC-CAT
1 TAACGGGAAGCTCATGAGAGCTGAA
*
10824075 TAATTGGGAAGCTCATGAGAGCT
1 TAA-CGGGAAGCTCATGAGAGCT
10824098 ATGGTGTGTC
Statistics
Matches: 71, Mismatches: 24, Indels: 3
0.72 0.24 0.03
Matches are distributed among these distances:
24 3 0.04
25 68 0.96
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (25 bp):
TAACGGGAAGCTCATGAGAGCTGAA
Found at i:10824037 original size:50 final size:50
Alignment explanation
Indices: 10823956--10824054 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
10823946 CATGTAAAAA
* ** **
10823956 GGAAGCTCTTTCGAGCCATGTAACGGAAAGCTCATGTGAGCTGAATAACG
1 GGAAGCTCTTGCGAGCCAAATAACGGAAAGCTCATAAGAGCTGAATAACG
* * * *
10824006 GGAAGCTCTTGCGAGCTAAATATCGGGAAGCTCATAAGAGCTGTATAAC
1 GGAAGCTCTTGCGAGCCAAATAACGGAAAGCTCATAAGAGCTGAATAAC
10824055 AAGAAGCTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (50 bp):
GGAAGCTCTTGCGAGCCAAATAACGGAAAGCTCATAAGAGCTGAATAACG
Found at i:10839092 original size:49 final size:49
Alignment explanation
Indices: 10839033--10839468 Score: 466
Period size: 49 Copynumber: 8.9 Consensus size: 49
10839023 AATGACAACA
* ** *
10839033 CCCAACATATACGCCAATCTGGTTAGCAAATATCATGCTTTACCAACGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * *
10839082 CCCAACATATACGCCAAT-TGGGTTAGCAAATTACATGACCTACTAGTGG
1 CCCAACATATACGCCAATCT-GGTTAGCAAATAACATGCCCTACCAATGG
* *
10839131 CCCAACATATACGCCAATCTGGTTAGCGAATAACATACCCTA-CAAGTGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAA-TGG
* * ***
10839180 CCAAACATATACGCCAATCTGGTTAGCAAATAATATGCCCTACTGGTGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * *
10839229 CCCAACATATACGCCAATCTAGTTAGCAAATGACATGGCCTACCGATGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * * **
10839278 CTCAACATATACACCAACCTAGTTAGCAAATAACATGCCCTATTAATGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * * * *
10839327 CCC-ATATATATGCCAATTTGGTTAGCAAATAACATACCCTATCAGTGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * * *
10839375 CCTAACATATATGCCAATCTAGTTAGCAAATAAGC-TGCCCTACTAGTGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAA-CATGCCCTACCAATGG
* * *
10839424 CCCAACATATATGCCAATCTAGTTAACAAATAACATGCCCTACCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCA
10839469 GTGACCGCCT
Statistics
Matches: 324, Mismatches: 56, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
48 41 0.13
49 281 0.87
50 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (49 bp):
CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
Found at i:10839142 original size:98 final size:98
Alignment explanation
Indices: 10839033--10839468 Score: 520
Period size: 98 Copynumber: 4.5 Consensus size: 98
10839023 AATGACAACA
* ** *
10839033 CCCAACATATACGCCAATCTGGTTAGCAAATATCATGCTTTACCAACGGCCCAACATATACGCCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGGCCCAACATATACGCCA
* * *
10839098 AT-TGGGTTAGCAAATTACATGACCTACTAGTGG
66 ATCT-AGTTAGCAAATAACATGCCCTACTAGTGG
* * *
10839131 CCCAACATATACGCCAATCTGGTTAGCGAATAACATACCCTA-CAAGTGGCCAAACATATACGCC
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAA-TGGCCCAACATATACGCC
* * *
10839195 AATCTGGTTAGCAAATAATATGCCCTACTGGTGG
65 AATCTAGTTAGCAAATAACATGCCCTACTAGTGG
* * * * * *
10839229 CCCAACATATACGCCAATCTAGTTAGCAAATGACATGGCCTACCGATGGCTCAACATATACACCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGGCCCAACATATACGCCA
* * *
10839294 ACCTAGTTAGCAAATAACATGCCCTATTAATGG
66 ATCTAGTTAGCAAATAACATGCCCTACTAGTGG
* * * * * * * *
10839327 CCC-ATATATATGCCAATTTGGTTAGCAAATAACATACCCTATCAGTGGCCTAACATATATGCCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGGCCCAACATATACGCCA
10839391 ATCTAGTTAGCAAATAAGC-TGCCCTACTAGTGG
66 ATCTAGTTAGCAAATAA-CATGCCCTACTAGTGG
* * *
10839424 CCCAACATATATGCCAATCTAGTTAACAAATAACATGCCCTACCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCA
10839469 GTGACCGCCT
Statistics
Matches: 284, Mismatches: 49, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
97 81 0.29
98 200 0.70
99 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (98 bp):
CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGGCCCAACATATACGCCA
ATCTAGTTAGCAAATAACATGCCCTACTAGTGG
Found at i:10839209 original size:25 final size:25
Alignment explanation
Indices: 10839181--10839258 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
10839171 TACAAGTGGC
10839181 CAAACATATACGCCAATCTGGTTAG
1 CAAACATATACGCCAATCTGGTTAG
* * * *
10839206 CAAATA-ATATGCC-CTACTGG-TGG
1 CAAACATATACGCCAAT-CTGGTTAG
* *
10839229 CCCAACATATACGCCAATCTAGTTAG
1 -CAAACATATACGCCAATCTGGTTAG
10839255 CAAA
1 CAAA
10839259 TGACATGGCC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
23 3 0.08
24 14 0.38
25 17 0.46
26 3 0.08
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (25 bp):
CAAACATATACGCCAATCTGGTTAG
Found at i:10839407 original size:195 final size:195
Alignment explanation
Indices: 10839033--10839468 Score: 565
Period size: 195 Copynumber: 2.2 Consensus size: 195
10839023 AATGACAACA
* * *
10839033 CCCAACATATACGCCAATCTGGTTAGCAAATATCAT-GCTTTACCAACGGCCCAACATATACGCC
1 CCCAACATATACGCCAATCTAGTTAGCAAATA-CATGGC-CTACCAACGGCCCAACATATACACC
* * * * *
10839097 AATTGGGTTAGCAAATTACATGACCTACTAGTGGCCCAACATATACGCCAATCTGGTTAGCGAAT
64 AACTGAGTTAGCAAATAACATGACCTACTAATGGCCCAACATATACGCCAATCTGGTTAGCAAAT
* * *
10839162 AACATACCCTACAAGTGGCCAAACATATACGCCAATCTGGTTAGCAAATAATATGCCCTACTGGT
129 AACATACCCTACAAGTGGCCAAACATATACGCCAATCTAGTTAGCAAATAAGATGCCCTACTAGT
10839227 GG
194 GG
* * *
10839229 CCCAACATATACGCCAATCTAGTTAGCAAATGACATGGCCTACCGATGGCTCAACATATACACCA
1 CCCAACATATACGCCAATCTAGTTAGCAAAT-ACATGGCCTACCAACGGCCCAACATATACACCA
* * * * *
10839294 ACCT-AGTTAGCAAATAACATGCCCTATTAATGGCCC-ATATATATGCCAATTTGGTTAGCAAAT
65 A-CTGAGTTAGCAAATAACATGACCTACTAATGGCCCAACATATACGCCAATCTGGTTAGCAAAT
* * *
10839357 AACATACCCTATC-AGTGGCCTAACATATATGCCAATCTAGTTAGCAAATAAGCTGCCCTACTAG
129 AACATACCCTA-CAAGTGGCCAAACATATACGCCAATCTAGTTAGCAAATAAGATGCCCTACTAG
10839421 TGG
193 TGG
* * *
10839424 CCCAACATATATGCCAATCTAGTTAACAAATAACATGCCCTACCA
1 CCCAACATATACGCCAATCTAGTTAGCAAAT-ACATGGCCTACCA
10839469 GTGACCGCCT
Statistics
Matches: 209, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
195 122 0.58
196 83 0.40
197 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (195 bp):
CCCAACATATACGCCAATCTAGTTAGCAAATACATGGCCTACCAACGGCCCAACATATACACCAA
CTGAGTTAGCAAATAACATGACCTACTAATGGCCCAACATATACGCCAATCTGGTTAGCAAATAA
CATACCCTACAAGTGGCCAAACATATACGCCAATCTAGTTAGCAAATAAGATGCCCTACTAGTGG
Found at i:10840150 original size:10 final size:10
Alignment explanation
Indices: 10840122--10840151 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
10840112 TAGTTTTAGG
10840122 TTTAGTTTTC
1 TTTAGTTTTC
10840132 TTTAGGTTTTC
1 TTTA-GTTTTC
10840143 TTTAGTTTT
1 TTTAGTTTT
10840152 TCTCTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:10849072 original size:50 final size:50
Alignment explanation
Indices: 10848997--10849097 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
10848987 TGTGTCAAAT
* * *
10848997 ATCACGTCTGGCTTGCAAAGAAAGGTATAGTTTTTA-CTATAGTTTGTCTG
1 ATCACATCTGGCTTGCAAAGAAAGGTATA-ATTCTACCTATAGTTTGTCTG
* *
10849047 ATCACATCTGGCTTGCAACGAAAGGTATAATTCTACCTTTAGTTTGTCTG
1 ATCACATCTGGCTTGCAAAGAAAGGTATAATTCTACCTATAGTTTGTCTG
10849097 A
1 A
10849098 AGTTAATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
49 4 0.09
50 41 0.91
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (50 bp):
ATCACATCTGGCTTGCAAAGAAAGGTATAATTCTACCTATAGTTTGTCTG
Found at i:10854014 original size:20 final size:20
Alignment explanation
Indices: 10853990--10854038 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
10853980 TGCTACTAAC
* *
10853990 GATTTAAATCTGCTTCAATCT
1 GATTTAAATCCGCTGCAAT-T
10854011 -ATTTAAATCCGCTGCAATT
1 GATTTAAATCCGCTGCAATT
10854030 GATTTAAAT
1 GATTTAAAT
10854039 ATGTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
GATTTAAATCCGCTGCAATT
Found at i:10857918 original size:3 final size:3
Alignment explanation
Indices: 10857912--10858074 Score: 131
Period size: 3 Copynumber: 52.7 Consensus size: 3
10857902 AGTCCTTTTT
* *
10857912 TTA TTA TTC TTG TTA TGTTA TTGA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-T-A TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* *
10857960 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA GGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
10858005 TTA TTA TT- GTA TTA GT- TTA TATA TCTA TTGA CCTT- TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TT-A --TTA TTA T-TA TTA
10858050 TT- TTA TT- TTA TTA TGTA TTA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TT
10858075 TTAATTCTTT
Statistics
Matches: 133, Mismatches: 12, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
2 10 0.08
3 99 0.74
4 20 0.15
5 2 0.02
6 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:10869285 original size:48 final size:49
Alignment explanation
Indices: 10869194--10869287 Score: 122
Period size: 48 Copynumber: 1.9 Consensus size: 49
10869184 ATTTAAATTT
* *
10869194 AAATTTATTATTAAGTTTTTTAAATAATTTTTGTTTTTATATATTTCTC
1 AAATTCATTATTAAGTTTTTTAAATAATTTATGTTTTTATATATTTCTC
*
10869243 AAATTCATTATT-ATTTTTTTAAA-ATATTTATGTATTTT-TATATTT
1 AAATTCATTATTAAGTTTTTTAAATA-ATTTATGT-TTTTATATATTT
10869288 TTTTAGAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
47 1 0.03
48 24 0.60
49 15 0.38
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (49 bp):
AAATTCATTATTAAGTTTTTTAAATAATTTATGTTTTTATATATTTCTC
Found at i:10871285 original size:16 final size:17
Alignment explanation
Indices: 10871264--10871309 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
10871254 TCGGGTTGAG
10871264 AAAATTATTTAATTAA-
1 AAAATTATTTAATTAAT
*
10871280 AAAATTAATTAATTAATT
1 AAAATTATTTAATTAA-T
10871298 AAAATTAATTTA
1 AAAATT-ATTTA
10871310 TTATGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.60
18 6 0.24
19 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATTATTTAATTAAT
Found at i:10885388 original size:2 final size:2
Alignment explanation
Indices: 10885381--10885410 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10885371 CCATTAATGA
10885381 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
10885411 GATTCTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10886142 original size:25 final size:24
Alignment explanation
Indices: 10886103--10886150 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
10886093 TTGACTCTCA
* * *
10886103 CGAGCTTCTCGTTATATGGTTCTTG
1 CGAGCTTCCCATTAT-TAGTTCTTG
10886128 CGAGCTTCCCATTATTAGTTCTT
1 CGAGCTTCCCATTATTAGTTCTT
10886151 TGGAGCATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (24 bp):
CGAGCTTCCCATTATTAGTTCTTG
Found at i:10899777 original size:15 final size:14
Alignment explanation
Indices: 10899753--10899785 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10899743 TACATTCTAT
10899753 ATGG-AAAAAATGAG
1 ATGGCAAAAAAT-AG
10899767 ATGGCAAAAAATAG
1 ATGGCAAAAAATAG
10899781 ATGGC
1 ATGGC
10899786 GATCAAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.52, C:0.06, G:0.27, T:0.15
Consensus pattern (14 bp):
ATGGCAAAAAATAG
Found at i:10902917 original size:98 final size:98
Alignment explanation
Indices: 10902797--10902993 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
10902787 AAAAAAGTCA
* *
10902797 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTAGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
* *
10902862 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
* *
10902895 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
10902960 TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
10902993 T
1 T
10902994 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
Found at i:10914676 original size:132 final size:132
Alignment explanation
Indices: 10914381--10915411 Score: 1684
Period size: 132 Copynumber: 7.9 Consensus size: 132
10914371 AATAGATCAG
* *
10914381 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
* * * * *
10914446 TTCCAAGATAGTGGGAAGCAGATTTGAGTCACC-AGCCTTATCTCCCTGAGCAGTAGCGGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGCAGCGGAGTAG
10914510 GT
131 GT
* * *
10914512 TGAAAATTATAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGAAAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
* * *
10914577 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACTAAGGCTTGTCTCCCTGAGCGGCAGCAGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGCAGCGGAGTAG
10914642 GT
131 GT
*
10914644 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
*
10914709 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGCAGCGGAGTAG
10914774 GT
131 GT
*
10914776 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
*
10914841 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCGGCAGCGGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGCAGCGGAGTAG
*
10914906 AT
131 GT
* * *
10914908 TAAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
*
10914973 TTCCAAGATAGTTGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGCAGCGGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGCAGCGGAGTAG
10915038 GT
131 GT
10915040 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
*
10915105 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGTAGCGGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGCAGCGGAGTAG
10915170 GT
131 GT
10915172 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
**
10915237 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATA
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGCAGCGGAG-TA
*
10915302 -AT
130 GGT
* * *
10915304 TGAAGATTGTAG-----A--TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
* * * * *
10915362 TTCCAGGATAGTGGGAAGCAGATTTAAGCCATCTAGTCTTATCTCCCTGA
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGA
10915412 AGTTGCAGTG
Statistics
Matches: 848, Mismatches: 50, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
125 88 0.10
127 1 0.00
131 90 0.11
132 667 0.79
133 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCGGCAGCGGAGTAG
GT
Found at i:10917472 original size:97 final size:98
Alignment explanation
Indices: 10917354--10917549 Score: 322
Period size: 97 Copynumber: 2.0 Consensus size: 98
10917344 AAAAAAGTCA
* * *
10917354 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
* *
10917419 TTAAATCTTGGATAAGTGG-TGTTCTTTTAAAG
66 TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
* *
10917451 TAAAGGAAGTATTCCGAGTTTGGGATTCTAGAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
10917516 TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
10917549 T
1 T
10917550 TTTATTGTAC
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
97 78 0.86
98 13 0.14
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
Found at i:10928765 original size:9 final size:10
Alignment explanation
Indices: 10928741--10928769 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
10928731 TTTTTATGAA
10928741 CTTTTTAAAG
1 CTTTTTAAAG
10928751 CTTTTTAAAG
1 CTTTTTAAAG
10928761 CTTTTTAAA
1 CTTTTTAAA
10928770 TTTGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (10 bp):
CTTTTTAAAG
Found at i:10928998 original size:24 final size:24
Alignment explanation
Indices: 10928971--10929017 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10928961 TTCATTATAA
* *
10928971 TCAACATTTTACTTTTCATCTTCC
1 TCAACATTTCACCTTTCATCTTCC
*
10928995 TCAACCTTTCACCTTTCATCTTC
1 TCAACATTTCACCTTTCATCTTC
10929018 TTATAACCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (24 bp):
TCAACATTTCACCTTTCATCTTCC
Found at i:10929184 original size:2 final size:2
Alignment explanation
Indices: 10929177--10929204 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10929167 CCCTACCTAC
10929177 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
10929205 GGAGTATACT
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):
TA
Found at i:10930464 original size:39 final size:39
Alignment explanation
Indices: 10930421--10930498 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
10930411 GAATCATTAG
*
10930421 AATCAATGTCTACTTGATATTTTCTTGGGGATGATATCT
1 AATCAATGTCTACTTGATATTTGCTTGGGGATGATATCT
10930460 AATCAATGTCTACTTGATATTTGCTTGGGGATGATATCT
1 AATCAATGTCTACTTGATATTTGCTTGGGGATGATATCT
10930499 TTCTCTTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (39 bp):
AATCAATGTCTACTTGATATTTGCTTGGGGATGATATCT
Found at i:10937556 original size:19 final size:19
Alignment explanation
Indices: 10937532--10937573 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
10937522 TGCATCACTA
10937532 TAGACCACAAATTCTTTAC
1 TAGACCACAAATTCTTTAC
10937551 TAGACCACAAATTCTTTAC
1 TAGACCACAAATTCTTTAC
10937570 TAGA
1 TAGA
10937574 TTTAGACTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (19 bp):
TAGACCACAAATTCTTTAC
Found at i:10939835 original size:24 final size:25
Alignment explanation
Indices: 10939808--10939858 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
10939798 TTCATTATAA
* *
10939808 TCAACCTTTCACTTTTCATC-TTCT
1 TCAACCTTTCACCTTTCACCTTTCT
10939832 TCAACCTTTCACCTTTCACCTTTCT
1 TCAACCTTTCACCTTTCACCTTTCT
10939857 TC
1 TC
10939859 TTCTTGTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.16, C:0.37, G:0.00, T:0.47
Consensus pattern (25 bp):
TCAACCTTTCACCTTTCACCTTTCT
Found at i:10940702 original size:23 final size:23
Alignment explanation
Indices: 10940676--10940724 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10940666 AAGTATTTTA
*
10940676 AAATGATCTCATGCCTTGTAATG
1 AAATGATCTCATGCCTTCTAATG
10940699 AAATGATCTCATGCCTTCTAATG
1 AAATGATCTCATGCCTTCTAATG
10940722 AAA
1 AAA
10940725 AAGGTTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (23 bp):
AAATGATCTCATGCCTTCTAATG
Found at i:10941606 original size:19 final size:19
Alignment explanation
Indices: 10941582--10941624 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
10941572 ATGTTTAAAC
10941582 CTTTATAGTTGTAAAGTTA
1 CTTTATAGTTGTAAAGTTA
10941601 CTTTATAGTTGTAAAGTTA
1 CTTTATAGTTGTAAAGTTA
10941620 CTTTA
1 CTTTA
10941625 ATCTGACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (19 bp):
CTTTATAGTTGTAAAGTTA
Found at i:10944480 original size:7 final size:7
Alignment explanation
Indices: 10944468--10944502 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
10944458 ATTATAATCA
10944468 ACCTTTC
1 ACCTTTC
10944475 ACCTTTC
1 ACCTTTC
10944482 ACCTTTC
1 ACCTTTC
10944489 ACCTTTC
1 ACCTTTC
10944496 ACCTTTC
1 ACCTTTC
10944503 TTCTTCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (7 bp):
ACCTTTC
Found at i:10962014 original size:14 final size:14
Alignment explanation
Indices: 10961983--10962029 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
10961973 AAAAATTACA
* *
10961983 AAAAATTTAATAAAT
1 AAAAATCTAA-AACT
10961998 AAAAATCTAAAACT
1 AAAAATCTAAAACT
*
10962012 AAAAGTCTAAAACT
1 AAAAATCTAAAACT
10962026 AAAA
1 AAAA
10962030 CACAATAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 20 0.69
15 9 0.31
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (14 bp):
AAAAATCTAAAACT
Found at i:10965994 original size:17 final size:17
Alignment explanation
Indices: 10965972--10966005 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10965962 GTGATTCAAC
10965972 ACTTTAAATCAGTTAAT
1 ACTTTAAATCAGTTAAT
* *
10965989 ACTTTAATTCGGTTAAT
1 ACTTTAAATCAGTTAAT
10966006 TCGGTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (17 bp):
ACTTTAAATCAGTTAAT
Found at i:10966004 original size:9 final size:9
Alignment explanation
Indices: 10965992--10966024 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10965982 AGTTAATACT
10965992 TTAATTCGG
1 TTAATTCGG
10966001 TTAATTCGG
1 TTAATTCGG
*
10966010 TTAATTCAG
1 TTAATTCGG
10966019 TTAATT
1 TTAATT
10966025 TTTATACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (9 bp):
TTAATTCGG
Found at i:10971026 original size:17 final size:17
Alignment explanation
Indices: 10971004--10971041 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10970994 AATTTCATCC
*
10971004 TTTACGGTAAGTTAAAG
1 TTTACGGTAAGTCAAAG
*
10971021 TTTACGTTAAGTCAAAG
1 TTTACGGTAAGTCAAAG
10971038 TTTA
1 TTTA
10971042 AGTTTATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (17 bp):
TTTACGGTAAGTCAAAG
Found at i:10973909 original size:15 final size:15
Alignment explanation
Indices: 10973889--10973919 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10973879 GCTTTATCCT
10973889 CCATTAAACCACTTG
1 CCATTAAACCACTTG
*
10973904 CCATTAGACCACTTG
1 CCATTAAACCACTTG
10973919 C
1 C
10973920 TTTTAAGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (15 bp):
CCATTAAACCACTTG
Found at i:10976453 original size:21 final size:21
Alignment explanation
Indices: 10976427--10976467 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10976417 GCTCATGTTC
*
10976427 TTTAGCGGCTCTTAAAAAAAT
1 TTTAGCGGCGCTTAAAAAAAT
10976448 TTTAGCGGCGCTTAAAAAAA
1 TTTAGCGGCGCTTAAAAAAA
10976468 AACGCCGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (21 bp):
TTTAGCGGCGCTTAAAAAAAT
Found at i:10976570 original size:42 final size:42
Alignment explanation
Indices: 10976511--10976590 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
10976501 AGCGCTTGTA
10976511 CAACAAACGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
1 CAACAAACGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
* ** *
10976553 CAACAAACGCCGCTAAAGTACATGTTCTTTAGCGGCGC
1 CAACAAACGCCGCTAAAGAACATGAGCTATAGCGGCGC
10976591 TTTCTTCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.29, G:0.21, T:0.15
Consensus pattern (42 bp):
CAACAAACGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
Found at i:10976612 original size:43 final size:43
Alignment explanation
Indices: 10976555--10976654 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
10976545 GCGCAAACCA
* *
10976555 ACAAACGCCGCTAAAGTACATGTTCTTTAGCGGCGCTTTCTTC-
1 ACAAACGCCGCTAAAG-AAATGTTCTTTAGCGGCGCTTTATTCT
* * *
10976598 ACAAATGCCGCTAAAAGAAATGTTCTTTAGCGGTGTTTTATTCT
1 ACAAACGCCGCT-AAAGAAATGTTCTTTAGCGGCGCTTTATTCT
10976642 ACAAACGCCGCTA
1 ACAAACGCCGCTA
10976655 TAAAACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 34 0.69
44 15 0.31
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAAATGTTCTTTAGCGGCGCTTTATTCT
Found at i:10979908 original size:13 final size:12
Alignment explanation
Indices: 10979881--10979919 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
10979871 CTAAATAAAC
10979881 TTCATTCAGAAA
1 TTCATTCAGAAA
10979893 TTCATTCAGAAAA
1 TTCATTCAG-AAA
*
10979906 TTCATTCAGCAA
1 TTCATTCAGAAA
10979918 TT
1 TT
10979920 TGTATGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (12 bp):
TTCATTCAGAAA
Found at i:10981022 original size:20 final size:20
Alignment explanation
Indices: 10980997--10981034 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10980987 AGTAATGCAT
*
10980997 TTTTAAAAAATAATTACACA
1 TTTTAAAAAATAAATACACA
10981017 TTTTAAAAAATAAATACA
1 TTTTAAAAAATAAATACA
10981035 TCAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAATAAATACACA
Found at i:10981266 original size:15 final size:16
Alignment explanation
Indices: 10981236--10981271 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
10981226 TTTTTTTAAA
*
10981236 ATATTAATTTATATTT
1 ATATTAATTTACATTT
10981252 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
10981267 ATATT
1 ATATT
10981272 CTTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:10981433 original size:7 final size:7
Alignment explanation
Indices: 10981423--10981472 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
10981413 TCCCAAACTA
10981423 TAAACCC
1 TAAACCC
10981430 TAAACCC
1 TAAACCC
* *
10981437 TAAATCG
1 TAAACCC
*
10981444 TAAACCT
1 TAAACCC
*
10981451 TAAATCC
1 TAAACCC
10981458 TAAACCC
1 TAAACCC
10981465 TAAACCC
1 TAAACCC
10981472 T
1 T
10981473 CAATTAATCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:10981433 original size:21 final size:21
Alignment explanation
Indices: 10981409--10981472 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
10981399 CCGTAAATCA
10981409 TAAATCCCAAACTATAAACCC
1 TAAATCCCAAACTATAAACCC
* *
10981430 TAAA-CCCTAAA-TCGTAAACCT
1 TAAATCCC-AAACT-ATAAACCC
* **
10981451 TAAATCCTAAACCCTAAACCC
1 TAAATCCCAAACTATAAACCC
10981472 T
1 T
10981473 CAATTAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 4 0.12
21 27 0.82
22 2 0.06
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAATCCCAAACTATAAACCC
Found at i:10981440 original size:28 final size:28
Alignment explanation
Indices: 10981409--10981468 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
10981399 CCGTAAATCA
10981409 TAAATCCCAAA-CTATAAACCCTAAACCC
1 TAAATCCCAAACCT-TAAACCCTAAACCC
** *
10981437 TAAATCGTAAACCTTAAATCCTAAACCC
1 TAAATCCCAAACCTTAAACCCTAAACCC
10981465 TAAA
1 TAAA
10981469 CCCTCAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.22
Consensus pattern (28 bp):
TAAATCCCAAACCTTAAACCCTAAACCC
Found at i:10981567 original size:21 final size:22
Alignment explanation
Indices: 10981549--10981591 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10981539 ACCGTAAATC
10981549 TTAAACCC-TAAACCATAAACA
1 TTAAACCCGTAAACCATAAACA
*
10981570 TTAAACCCGTAAACCACAAACA
1 TTAAACCCGTAAACCATAAACA
10981592 ATAACCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.16
Consensus pattern (22 bp):
TTAAACCCGTAAACCATAAACA
Found at i:10981675 original size:13 final size:13
Alignment explanation
Indices: 10981644--10981680 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
10981634 ACCCTAAAGT
10981644 CTAAACCATAAATC
1 CTAAACCAT-AATC
*
10981658 ATAAACCATAATC
1 CTAAACCATAATC
10981671 CTAAACCATA
1 CTAAACCATA
10981681 TCTTTGGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (13 bp):
CTAAACCATAATC
Found at i:10982484 original size:113 final size:114
Alignment explanation
Indices: 10982336--10982842 Score: 578
Period size: 115 Copynumber: 4.4 Consensus size: 114
10982326 CTATTGGCTC
* * * * * *
10982336 TATAGCTGAAGACCAAATGTTGCGTTTCGATTAAGATATTTTGCGGTGCTTTTTATATTA-CGCC
1 TATACCTGAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCGCC
* * *
10982400 GCTAATACTGTGATTTAGCGGCGAGTTTCATAAGCGCCACTAATTATAA
66 GCTAATACTGTGCTTTAGCGGCGATTTTCATAAGCGCCACTAATTCTAA
* * *
10982449 TATGCCTGAAGACCAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGCTTTTTAT-TTAGCACC
1 TATACCTGAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCGCC
* * ***
10982513 GCTAATACTGTGCTTTAGCGGCGTTTTTCATAAACGCCACTAATTCCGG
66 GCTAATACTGTGCTTTAGCGGCGATTTTCATAAGCGCCACTAATTCTAA
* * * * * *
10982562 TATACCTCAAGACAAAAACGCTGCATTTTTTGTTAAGATATTTTTCGGCGCTTTTTTTA-TAGCG
1 TATACCTGAAGAC-CAAACGCTGC-GTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCG
* *
10982626 CCGCTAATACTGTGCTTTAGCGGC-ATTTTTCGTAAGCGCCACTAATTCTGA
64 CCGCTAATACTGTGCTTTAGCGGCGA-TTTTCATAAGCGCCACTAATTCTAA
* * * *
10982677 TATACCTTAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCGGTGCTTTTTATATT-GCGC
1 TATACCTGAAGACC-AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCGC
* *
10982741 CGCTAATACTGTGCTTTAGCGGTGTTTTTGCATAAGCGCCACTAATTCTAA
65 CGCTAATACTGTGCTTTAGCGGCGATTTT-CATAAGCGCCACTAATTCTAA
* ** * *
10982792 TATACCTCAAG-CTCCTACGCTGCGTTTTGTTTAACAT-TTTCTGCGGCGCTT
1 TATACCTGAAGAC-CAAACGCTGCGTTTTGGTTAAGATATTT-TGCGGCGCTT
10982843 ACAAATAAAC
Statistics
Matches: 332, Mismatches: 51, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
112 3 0.01
113 106 0.32
114 94 0.28
115 129 0.39
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (114 bp):
TATACCTGAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCGCC
GCTAATACTGTGCTTTAGCGGCGATTTTCATAAGCGCCACTAATTCTAA
Found at i:10982630 original size:228 final size:230
Alignment explanation
Indices: 10982366--10982802 Score: 632
Period size: 228 Copynumber: 1.9 Consensus size: 230
10982356 TGCGTTTCGA
*
10982366 TTAAGATATTTTGCGGTGCTTTTTATATTACGCCGCTAATACTGTGATTTAGCGGCGA-GTTTCA
1 TTAAGATATTTTGCGGCGCTTTTTATATTACGCCGCTAATACTGTGATTTAGCGGC-ATGTTTCA
* * **
10982430 TAAGCGCCACTAATTATAATATGCCTGAAGACC-AAACGCTGTGTTTTGGTTAAGATATTTTGCG
65 TAAGCGCCACTAATTATAATATACCTGAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCG
10982494 GCGCTTTTTAT-TTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTT-CATAAACGCCACTAAT
130 GCGCTTTTTATATT-GCACCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAACGCCACTAAT
**
10982557 TCCGGTATACCTCAAGACAAAAACGCTGCATTTTTTG
194 TCCAATATACCTCAAGACAAAAACGCTGCATTTTTTG
* * * * *
10982594 TTAAGATATTTTTCGGCGCTTTTTTTA-TAGCGCCGCTAATACTGTGCTTTAGCGGCATTTTTCG
1 TTAAGATATTTTGCGGCGCTTTTTATATTA-CGCCGCTAATACTGTGATTTAGCGGCATGTTTCA
* * *
10982658 TAAGCGCCACTAATTCTGATATACCTTAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCG
65 TAAGCGCCACTAATTATAATATACCTGAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCG
* * * *
10982723 GTGCTTTTTATATTGCGCCGCTAATACTGTGCTTTAGCGGTGTTTTTGCATAAGCGCCACTAATT
130 GCGCTTTTTATATTGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAACGCCACTAATT
*
10982788 CTAATATACCTCAAG
195 CCAATATACCTCAAG
10982803 CTCCTACGCT
Statistics
Matches: 184, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
227 3 0.02
228 82 0.45
229 69 0.38
230 30 0.16
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (230 bp):
TTAAGATATTTTGCGGCGCTTTTTATATTACGCCGCTAATACTGTGATTTAGCGGCATGTTTCAT
AAGCGCCACTAATTATAATATACCTGAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCGG
CGCTTTTTATATTGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAACGCCACTAATTC
CAATATACCTCAAGACAAAAACGCTGCATTTTTTG
Found at i:10982858 original size:228 final size:228
Alignment explanation
Indices: 10982366--10982861 Score: 572
Period size: 228 Copynumber: 2.2 Consensus size: 228
10982356 TGCGTTTCGA
* * *** *
10982366 TTAAGATATTTTGCGGTGCTTTTTATATTACGCCGCTAATACTGTGATTTAGCGGCGAGTTTCAT
1 TTAACATATTTTGCGGCGCTTCAAATATAACGCCGCTAATACTGTGATTTAGCGGCGAGTTTCAT
* * **
10982431 AAGCGCCACTAATTATAATATGCCTGAAGACCAAACGCTGTGTTTTGGTTAAGATATTTTGCGGC
66 AAGCGCCACTAATTATAATATACCTGAAGACCAAACGCAGCATTTTGGTTAAGATATTTTGCGGC
*
10982496 GCTTTTTATTTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTCATAAACGCCACTAATTCCG
131 GCTTTTTATTTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTCATAAACGCCACTAATTCCA
* *
10982561 GTATACCTCAAGACAAAAACGCTGCATTTTTTG
196 ATATACCTCAAGACAAAAACGCTGCATTTTGTG
* * **** * * * *
10982594 TTAAGATATTTTTCGGCGCTTTTTTTATAGCGCCGCTAATACTGTGCTTTAGCGGC-ATTTTTCG
1 TTAACATATTTTGCGGCGCTTCAAATATAACGCCGCTAATACTGTGATTTAGCGGCGA-GTTTCA
* * *
10982658 TAAGCGCCACTAATTCTGATATACCTTAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCG
65 TAAGCGCCACTAATTATAATATACCTGAAGACC-AAACGCAGCATTTTGGTTAAGATATTTTGCG
* * * *
10982723 GTGCTTTTTATATT-GCGCCGCTAATACTGTGCTTTAGCGGTGTTTTTGCATAAGCGCCACTAAT
129 GCGCTTTTTAT-TTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTT-CATAAACGCCACTAAT
* **** *
10982787 TCTAATATACCTCAAG-CTCCTACGCTGCGTTTTGT-
192 TCCAATATACCTCAAGACAAAAACGCTGCATTTTGTG
10982822 TTAACAT-TTTCTGCGGCGCTTACAAATA-AACGCCGCTAAT
1 TTAACATATTT-TGCGGCGCTT-CAAATATAACGCCGCTAAT
10982862 TGTGCTCTAT
Statistics
Matches: 227, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
227 4 0.02
228 109 0.48
229 84 0.37
230 30 0.13
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (228 bp):
TTAACATATTTTGCGGCGCTTCAAATATAACGCCGCTAATACTGTGATTTAGCGGCGAGTTTCAT
AAGCGCCACTAATTATAATATACCTGAAGACCAAACGCAGCATTTTGGTTAAGATATTTTGCGGC
GCTTTTTATTTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTCATAAACGCCACTAATTCCA
ATATACCTCAAGACAAAAACGCTGCATTTTGTG
Found at i:10986711 original size:31 final size:31
Alignment explanation
Indices: 10986676--10986741 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
10986666 TTTTGAGTTA
* * * * *
10986676 AATTTGGCCCTCAACTTTTTAAAAAGAGTCG
1 AATTTGACCATCAACCTTTCAAAAAAAGTCG
10986707 AATTTGACCATCAACCTTTCAAAAAAAGTCG
1 AATTTGACCATCAACCTTTCAAAAAAAGTCG
10986738 AATT
1 AATT
10986742 GTTATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (31 bp):
AATTTGACCATCAACCTTTCAAAAAAAGTCG
Found at i:10986890 original size:23 final size:22
Alignment explanation
Indices: 10986851--10986901 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
10986841 TTATAAATTT
* * * *
10986851 TTATTTTTTTTGAGTTATTTTA
1 TTATTATTTTTAAGTTATATAA
10986873 TTATTATTTTTAATGTTATATAA
1 TTATTATTTTTAA-GTTATATAA
10986896 TTATTA
1 TTATTA
10986902 AATTATTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (22 bp):
TTATTATTTTTAAGTTATATAA
Found at i:10989258 original size:20 final size:20
Alignment explanation
Indices: 10989233--10989272 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10989223 CGTAAAATGA
*
10989233 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
10989253 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
10989273 GGAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:10989262 original size:34 final size:34
Alignment explanation
Indices: 10989219--10989284 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
10989209 AGTAAAATGT
*
10989219 TTTTCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
10989252 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGGAAAATATTTT
10989285 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:10989288 original size:14 final size:15
Alignment explanation
Indices: 10989212--10989288 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
10989202 GATTGCCAGT
* *
10989212 AAAATGTTTTTC-GT
1 AAAATGATTTTCTGG
10989226 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
10989240 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
10989260 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
10989275 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
10989289 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
13 4 0.08
14 21 0.42
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:10989724 original size:13 final size:13
Alignment explanation
Indices: 10989706--10989733 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10989696 ATTCTTTCTC
10989706 TATTTATGAAGTT
1 TATTTATGAAGTT
10989719 TATTTATGAAGTT
1 TATTTATGAAGTT
10989732 TA
1 TA
10989734 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:10991873 original size:18 final size:18
Alignment explanation
Indices: 10991846--10991922 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
10991836 AAATTTGAAG
*
10991846 GAATGAATGAAGGGAGAA
1 GAATGGATGAAGGGAGAA
**
10991864 GAATGGATGAA-GGATGCT
1 GAATGGATGAAGGGA-GAA
* *
10991882 TACTGGATGAAGGGAGAA
1 GAATGGATGAAGGGAGAA
10991900 GAATGGATGAAGGGAGAA
1 GAATGGATGAAGGGAGAA
10991918 GAATG
1 GAATG
10991923 CCTGAGAGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
17 3 0.06
18 42 0.88
19 3 0.06
ACGTcount: A:0.42, C:0.03, G:0.40, T:0.16
Consensus pattern (18 bp):
GAATGGATGAAGGGAGAA
Found at i:10995274 original size:13 final size:13
Alignment explanation
Indices: 10995251--10995288 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
10995241 ACCTTCTGGT
10995251 GGTTC-TAATGGC
1 GGTTCTTAATGGC
10995263 GGTTCTTAATGGC
1 GGTTCTTAATGGC
*
10995276 GGTTTTTAATGGC
1 GGTTCTTAATGGC
10995289 TATTCCTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.16, C:0.13, G:0.32, T:0.39
Consensus pattern (13 bp):
GGTTCTTAATGGC
Found at i:10995688 original size:27 final size:27
Alignment explanation
Indices: 10995622--10995718 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
10995612 TCTCGATAAG
* * **
10995622 CTATCTCACTTTAAATTTCTAGACAGA
1 CTATCTCACTTTTAATTTCTTGATGGA
**
10995649 CTATCTCGTTTTTAATTTCTTGATGGA
1 CTATCTCACTTTTAATTTCTTGATGGA
* * *
10995676 CTATCCCACTTTTAATGTCCTGATGGA
1 CTATCTCACTTTTAATTTCTTGATGGA
*
10995703 TTATCTCACTTTTAAT
1 CTATCTCACTTTTAAT
10995719 GTCCCGGCAG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (27 bp):
CTATCTCACTTTTAATTTCTTGATGGA
Found at i:10996900 original size:17 final size:18
Alignment explanation
Indices: 10996878--10996913 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
10996868 GAGCAACCCG
*
10996878 AGAAGAAGATGAA-AAAA
1 AGAAGAAAATGAATAAAA
10996895 AGAAGAAAATGAATAAAA
1 AGAAGAAAATGAATAAAA
10996913 A
1 A
10996914 ATGAGAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AGAAGAAAATGAATAAAA
Found at i:10999643 original size:17 final size:17
Alignment explanation
Indices: 10999623--10999661 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
10999613 CACATCTCTT
10999623 TTTCACTCTCCTTTGCC
1 TTTCACTCTCCTTTGCC
* * *
10999640 TTTCATTTTCTTTTGCC
1 TTTCACTCTCCTTTGCC
10999657 TTTCA
1 TTTCA
10999662 TTTTCTTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.08, C:0.31, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTCACTCTCCTTTGCC
Found at i:10999662 original size:17 final size:17
Alignment explanation
Indices: 10999634--10999669 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
10999624 TTCACTCTCC
10999634 TTTGCCTTTCATTTTCT
1 TTTGCCTTTCATTTTCT
10999651 TTTGCCTTTCATTTTCT
1 TTTGCCTTTCATTTTCT
10999668 TT
1 TT
10999670 CCCCTTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTGCCTTTCATTTTCT
Found at i:10999675 original size:17 final size:17
Alignment explanation
Indices: 10999638--10999682 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
10999628 CTCTCCTTTG
**
10999638 CCTTTCATTTTCTTTTG
1 CCTTTCATTTTCTTTCC
10999655 CCTTTCATTTTCTTTCC
1 CCTTTCATTTTCTTTCC
*
10999672 CCTTTCCTTTT
1 CCTTTCATTTT
10999683 ATGATTTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.04, C:0.31, G:0.02, T:0.62
Consensus pattern (17 bp):
CCTTTCATTTTCTTTCC
Found at i:11011279 original size:16 final size:17
Alignment explanation
Indices: 11011242--11011283 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
11011232 ATTTAATTAT
*
11011242 TTATTATTATAAATAGAA
1 TTATTA-TAAAAATAGAA
11011260 -TATTATAAAAATA-AA
1 TTATTATAAAAATAGAA
11011275 TTATTATAA
1 TTATTATAA
11011284 TTTATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.09
16 15 0.68
17 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TTATTATAAAAATAGAA
Found at i:11013878 original size:12 final size:12
Alignment explanation
Indices: 11013861--11013885 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11013851 ACCAAAATAG
11013861 GCTTTTAGCGGC
1 GCTTTTAGCGGC
11013873 GCTTTTAGCGGC
1 GCTTTTAGCGGC
11013885 G
1 G
11013886 TTTGGACAAA
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:0.08, C:0.24, G:0.36, T:0.32
Consensus pattern (12 bp):
GCTTTTAGCGGC
Found at i:11014142 original size:41 final size:41
Alignment explanation
Indices: 11014092--11014262 Score: 245
Period size: 41 Copynumber: 4.2 Consensus size: 41
11014082 TTTACATAAT
* * *
11014092 CGCCACTAATGCTGCGGTCTTTAGCGGCGTTTTTTACTAAG
1 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
*
11014133 CGCCGCTAATGCTACGGTCTTTCGCGGCGTTTTTTACGAAG
1 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
*
11014174 CGCCGCAAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
1 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
* * **
11014215 CGCCGCTAATGCT-CAGGTATTTAGCGGCGTTTCTTAAAAAG
1 CGCCGCTAATGCTAC-GGTCTTTAGCGGCGTTTTTTACGAAG
11014256 CGCCGCT
1 CGCCGCT
11014263 CAAAACTGCA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 117 0.99
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (41 bp):
CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
Found at i:11014280 original size:41 final size:41
Alignment explanation
Indices: 11014235--11014328 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
11014225 GCTCAGGTAT
*
11014235 TTAGCGGCGTTTCTTA-AAAAGCGCCGCTCAAA-A-CTGCAGCA
1 TTAGCGGCGTTTATTAGAAAA-CGCCGCT-AAAGATC-GCAGCA
** *
11014276 TTAGCGGCGCATATTAGAAAACGCCGCTAAAGATCGGAGCA
1 TTAGCGGCGTTTATTAGAAAACGCCGCTAAAGATCGCAGCA
11014317 TTAGCGGCGTTT
1 TTAGCGGCGTTT
11014329 TGTAGCTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
40 3 0.07
41 36 0.82
42 5 0.11
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGTTTATTAGAAAACGCCGCTAAAGATCGCAGCA
Found at i:11014280 original size:82 final size:82
Alignment explanation
Indices: 11014112--11014284 Score: 208
Period size: 82 Copynumber: 2.1 Consensus size: 82
11014102 GCTGCGGTCT
* * * * **
11014112 TTAGCGGCGTTTTTTACTAAGCGCCGCTAATGCTACGGTCTTTCGCGGCGTTTTTTACGAAGCGC
1 TTAGCGGCGTTTTTTACGAAGCGCCGCTAATGCTACGGTATTTAGCGGCGTTTCTTAAAAAGCGC
* * *
11014177 CGCAAATGCTACGGTCT
66 CGCAAATACTACAGTCA
11014194 TTAGCGGCGTTTTTTACGAAGCGCCGCTAATGCT-CAGGTATTTAGCGGCGTTTCTTAAAAAGCG
1 TTAGCGGCGTTTTTTACGAAGCGCCGCTAATGCTAC-GGTATTTAGCGGCGTTTCTTAAAAAGCG
*
11014258 CCGCTCAAA-ACTGCAG-CA
65 CCG--CAAATACTACAGTCA
11014276 TTAGCGGCG
1 TTAGCGGCG
11014285 CATATTAGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
81 1 0.01
82 69 0.88
83 4 0.05
84 4 0.05
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.29
Consensus pattern (82 bp):
TTAGCGGCGTTTTTTACGAAGCGCCGCTAATGCTACGGTATTTAGCGGCGTTTCTTAAAAAGCGC
CGCAAATACTACAGTCA
Found at i:11015211 original size:17 final size:16
Alignment explanation
Indices: 11015184--11015215 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11015174 TTACTTCTTA
11015184 TTATAATATATATATG
1 TTATAATATATATATG
11015200 TTATATATATATATAT
1 TTATA-ATATATATAT
11015216 ATATTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTATAATATATATATG
Found at i:11015211 original size:19 final size:18
Alignment explanation
Indices: 11015185--11015222 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
11015175 TACTTCTTAT
*
11015185 TATAATATATATATGTTA
1 TATAATATATATATATTA
11015203 TATATATATATATATATTA
1 TATA-ATATATATATATTA
11015222 T
1 T
11015223 GAAACATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATAATATATATATATTA
Found at i:11015470 original size:74 final size:73
Alignment explanation
Indices: 11015327--11015472 Score: 213
Period size: 74 Copynumber: 2.0 Consensus size: 73
11015317 ATAAACGCTG
* *
11015327 CAAAAGTTTAACCAAAACGACTTCATTTTTATACTATTTATTGGTATTAGCGGCGTTTCTGGTAA
1 CAAAACTTTAACCAAAACGACTTCATTTTTATACTATTTATTGGTATTAGCGGCGTTTCTAGTAA
11015392 AAACGCCA
66 AAACGCCA
* * *
11015400 CAAAACTTTAACCAAAACGACTTCGTTTTT-TCAACTGTTTATTGGTATTAGCGGCGTTTCTATT
1 CAAAACTTTAACCAAAACGACTTCATTTTTAT--ACTATTTATTGGTATTAGCGGCGTTTCTAGT
*
11015464 ACAAACGCC
64 AAAAACGCC
11015473 GCNNNNNNNN
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
72 1 0.02
73 28 0.43
74 36 0.55
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (73 bp):
CAAAACTTTAACCAAAACGACTTCATTTTTATACTATTTATTGGTATTAGCGGCGTTTCTAGTAA
AAACGCCA
Found at i:11017836 original size:9 final size:9
Alignment explanation
Indices: 11017822--11017877 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
11017812 TTTAAAATGA
11017822 TACATAACT
1 TACATAACT
11017831 TACATAACT
1 TACATAACT
*
11017840 TA-TTAA--
1 TACATAACT
11017846 TACATAACT
1 TACATAACT
*
11017855 TATATAA--
1 TACATAACT
11017862 TACATAACT
1 TACATAACT
11017871 TACATAA
1 TACATAA
11017878 TACGACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.05
7 9 0.24
8 3 0.08
9 24 0.63
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:11017842 original size:43 final size:40
Alignment explanation
Indices: 11017789--11017877 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 40
11017779 ACATAATACG
* * * *
11017789 ACATAGCTTATTAATATATATATTTTAAAATGATACATAACTT
1 ACATAACTTATTAATACATA-A-CTT-AAATAATACATAACTT
*
11017832 ACATAACTTATTAATACATAACTTATATAATACATAACTT
1 ACATAACTTATTAATACATAACTTAAATAATACATAACTT
11017872 ACATAA
1 ACATAA
11017878 TACGACATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 20 0.49
41 2 0.05
42 1 0.02
43 18 0.44
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (40 bp):
ACATAACTTATTAATACATAACTTAAATAATACATAACTT
Found at i:11017864 original size:16 final size:16
Alignment explanation
Indices: 11017831--11017880 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
11017821 ATACATAACT
11017831 TACATAACTTAT-TAA
1 TACATAACTTATATAA
11017846 TACATAACTTATATAA
1 TACATAACTTATATAA
*
11017862 TACATAACTTACATAA
1 TACATAACTTATATAA
11017878 TAC
1 TAC
11017881 GACATAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (16 bp):
TACATAACTTATATAA
Found at i:11018092 original size:16 final size:15
Alignment explanation
Indices: 11018059--11018194 Score: 97
Period size: 16 Copynumber: 8.8 Consensus size: 15
11018049 TTTTAAAATG
11018059 ATACATAACTTATTA
1 ATACATAACTTATTA
*
11018074 ATACATAACATTTTTA
1 ATACATAAC-TTATTA
*
11018090 ATACATAACTTACATA
1 ATACATAACTTA-TTA
11018106 ATACGACATAACTTATTA
1 AT---ACATAACTTATTA
*
11018124 ATATATATA-TT-TTA
1 ATACATA-ACTTATTA
11018138 A-A-ATGATAC--A-TA
1 ATACAT-A-ACTTATTA
11018150 ACTTACATAACTTATTA
1 A--TACATAACTTATTA
11018167 ATACATAACTTATATA
1 ATACATAACTTAT-TA
11018183 ATACATAACTTA
1 ATACATAACTTA
11018195 CATAATACGA
Statistics
Matches: 99, Mismatches: 5, Indels: 33
0.72 0.04 0.24
Matches are distributed among these distances:
12 5 0.05
13 4 0.04
14 6 0.06
15 31 0.31
16 36 0.36
17 3 0.03
18 4 0.04
19 10 0.10
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (15 bp):
ATACATAACTTATTA
Found at i:11018116 original size:50 final size:50
Alignment explanation
Indices: 11018061--11018302 Score: 223
Period size: 50 Copynumber: 5.1 Consensus size: 50
11018051 TTAAAATGAT
11018061 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
1 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
* * * *
11018111 ACATAACTTATTAATATAT-ATA-TTTTAA-A-ATGA--TACAT-A-ACTT
1 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATAC-G
*
11018154 ACATAACTTATTAATACATAAC-TTATATAATACATAACTTACATAATACG
1 ACATAACTTATTAATACATAACATT-TTTAATACATAACTTACATAATACG
* ** * * *
11018204 ACATAACTTACTAAT--AT---ATTTATGGATAAATGA--TACAT-A-ACTT
1 ACATAACTTATTAATACATAACATTT-TTAATACATAACTTACATAATAC-G
11018247 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
1 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
11018297 ACATAA
1 ACATAA
11018303 TAACATAAAT
Statistics
Matches: 148, Mismatches: 22, Indels: 44
0.69 0.10 0.21
Matches are distributed among these distances:
42 4 0.03
43 34 0.23
44 12 0.08
45 7 0.05
46 12 0.08
47 11 0.07
48 12 0.08
49 12 0.08
50 40 0.27
51 4 0.03
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (50 bp):
ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
Found at i:11018158 original size:9 final size:9
Alignment explanation
Indices: 11018144--11018199 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
11018134 TTTAAAATGA
11018144 TACATAACT
1 TACATAACT
11018153 TACATAACT
1 TACATAACT
*
11018162 TA-TTAA--
1 TACATAACT
11018168 TACATAACT
1 TACATAACT
*
11018177 TATATAA--
1 TACATAACT
11018184 TACATAACT
1 TACATAACT
11018193 TACATAA
1 TACATAA
11018200 TACGACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.05
7 9 0.24
8 3 0.08
9 24 0.63
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:11018162 original size:43 final size:43
Alignment explanation
Indices: 11018111--11018262 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 43
11018101 ACATAATACG
11018111 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTT
1 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTT
* * *
11018154 ACATAACTTATTAATACATA-ACTTATATAATACATAACTTACATAA-TACG
1 ACATAACTTATTAATATATATA-TT-T-TAA-A-ATGA--TACATAACT--T
* * **
11018204 ACATAACTTACTAATATATTTA-TGGATAAATGATACATAACTT
1 ACATAACTTATTAATATATATATTTTA-AAATGATACATAACTT
11018247 ACATAACTTATTAATA
1 ACATAACTTATTAATA
11018263 CATAACATTT
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
42 1 0.01
43 36 0.42
44 8 0.09
45 4 0.05
46 4 0.05
47 5 0.06
48 2 0.02
49 8 0.09
50 17 0.20
51 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (43 bp):
ACATAACTTATTAATATATATATTTTAAAATGATACATAACTT
Found at i:11018188 original size:84 final size:83
Alignment explanation
Indices: 11018020--11018283 Score: 263
Period size: 93 Copynumber: 3.0 Consensus size: 83
11018010 NTAACTTACT
11018020 TAATACGACATAACTTATTAATATATATATTTTAAAATGATACATAACTTATTAATACATAACAT
1 TAATACGACATAACTTATTAATATATATATTTTAAAATGATACATAAC----T--TACATAAC-T
*
11018085 TTTTAATACATAAC----T--TACA
59 TATTAATACATAACATTTTAATACA
11018104 TAATACGACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAAT
1 TAATACGACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAAT
11018169 ACATAACTTATATAATACATAACTTACA
66 ACATAAC--AT-T--T---TAA--TACA
* * **
11018197 TAATACGACATAACTTACTAATATATTTA-TGGATAAATGATACATAACTTACATAACTTATTAA
1 TAATACGACATAACTTATTAATATATATATTTTA-AAATGATACATAACTTACATAACTTATTAA
11018261 TACATAACATTTTTAATACA
65 TACATAACA-TTTTAATACA
11018281 TAA
1 TAA
11018284 CTTACATAAT
Statistics
Matches: 157, Mismatches: 5, Indels: 36
0.79 0.03 0.18
Matches are distributed among these distances:
77 14 0.09
78 8 0.05
80 1 0.01
84 55 0.35
86 3 0.02
89 2 0.01
91 2 0.01
92 3 0.02
93 69 0.44
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (83 bp):
TAATACGACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAAT
ACATAACATTTTAATACA
Found at i:11018198 original size:40 final size:43
Alignment explanation
Indices: 11018111--11018199 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 43
11018101 ACATAATACG
* * *
11018111 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTT
1 ACATAACTTATTAATACATATATCTTAAAATAATACATAACTT
*
11018154 ACATAACTTATTAATACATA-A-CTT-ATATAATACATAACTT
1 ACATAACTTATTAATACATATATCTTAAAATAATACATAACTT
11018194 ACATAA
1 ACATAA
11018200 TACGACATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 20 0.48
41 2 0.05
42 1 0.02
43 19 0.45
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.38
Consensus pattern (43 bp):
ACATAACTTATTAATACATATATCTTAAAATAATACATAACTT
Found at i:11018209 original size:19 final size:17
Alignment explanation
Indices: 11018144--11018219 Score: 70
Period size: 16 Copynumber: 4.5 Consensus size: 17
11018134 TTTAAAATGA
*
11018144 TACATAACTTACATAACT
1 TACATAA-TAACATAACT
*
11018162 TA-TTAAT-ACATAACT
1 TACATAATAACATAACT
*
11018177 TATATAAT-ACATAACT
1 TACATAATAACATAACT
11018193 TACATAATACGACATAACT
1 TACATAATA--ACATAACT
11018212 TAC-TAATA
1 TACATAATA
11018220 TATTTATGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
15 10 0.20
16 20 0.39
17 3 0.06
18 7 0.14
19 11 0.22
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (17 bp):
TACATAATAACATAACT
Done.