Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold219
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: 770726
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:474821 original size:13 final size:13
Alignment explanation
Indices: 474803--474828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
474793 CATTTTTCTG
474803 TGTATCGATACAT
1 TGTATCGATACAT
474816 TGTATCGATACAT
1 TGTATCGATACAT
474829 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:474825 original size:33 final size:33
Alignment explanation
Indices: 474783--474849 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
474773 GCCAAGGAAA
***
474783 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
474816 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
474849 T
1 T
474850 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:477276 original size:51 final size:51
Alignment explanation
Indices: 477200--477589 Score: 191
Period size: 52 Copynumber: 7.4 Consensus size: 51
477190 AATTCTCCGC
* * *
477200 AATCGGGGATATTCCACCTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTAT
* *
477251 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAAAATAAACACAAATTTT-TCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC------A-AAACACCAATTTTCT-AT
* **** * * ***
477309 AATCGGGGATACTCCAACTCCG-TTAATCATTGGGGATACTCCAA-CCCCGT-T
1 AATCGGGGATACTCCAACTCCGATT--TTATTTTCAAAACACCAATTTTC-TAT
* * * * * ***
477360 ATTTCCGAGGGGATACTCCAACCCCTACTTTATTCTT-AAAATATTGA-TTTCTCAT
1 A-AT-C--GGGGATACTCCAACTCCGATTTTATT-TTCAAAACACCAATTTTCT-AT
* * * * *
477415 AATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACCAA-TTTTCTAT
* * * *
477467 AATCGGGGATATTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTT-CTAT
* * * *
477519 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACCAATTTTCT-AT
* *
477572 AATTGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
477590 CTCGTTATTT
Statistics
Matches: 251, Mismatches: 60, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
49 1 0.00
50 1 0.00
51 65 0.26
52 74 0.29
53 39 0.16
54 9 0.04
55 18 0.07
56 1 0.00
57 4 0.02
58 35 0.14
59 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTAT
Found at i:477380 original size:28 final size:27
Alignment explanation
Indices: 477313--477384 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
477303 TTTCACAATC
* **
477313 GGGGATACTCCAACTCCGTTAATCATT
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
477340 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
477368 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
477385 TACTTTATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:477493 original size:52 final size:52
Alignment explanation
Indices: 477368--477590 Score: 216
Period size: 52 Copynumber: 4.3 Consensus size: 52
477358 TTATTTCCGA
* * * * *** * *
477368 GGGGATACTCCAACCCCTACTTTATTCTTAAAATATTGATTTCT-CATAATC
1 GGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAATTTTTCCACAATC
* *
477419 GGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAATTTTTCCACAATC
* ** **
477471 GGGGATATTCCAACCCCGATTTTATTTTTAAAACACCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAATTTTTCC-ACAATC
* * * * *
477523 GGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCACAATT
1 GGGGATACTCCAACCCCGATTTTA-TTCCTAAAACACCAATTTTTCCACAATC
*
477576 GAGGATACTCCAACC
1 GGGGATACTCCAACC
477591 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
51 42 0.30
52 66 0.47
53 27 0.19
54 5 0.04
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAATTTTTCCACAATC
Found at i:477610 original size:28 final size:28
Alignment explanation
Indices: 477578--477649 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
477568 TCACAATTGA
* * **
477578 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
477606 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
477634 GGATACTCCGACCCCG
1 GGATACTCCAACCCCG
477650 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:477672 original size:264 final size:266
Alignment explanation
Indices: 477199--477700 Score: 755
Period size: 264 Copynumber: 1.9 Consensus size: 266
477189 CAATTCTCCG
*
477199 CAATCGGGGATATTCCACCTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACT
1 CAATCGGGGATATTCCACCTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
*
477264 CCAACTCCGATTTTATTTTCAAAAAAATAAACACAAATTTTTCACAATCGGGGATACTCCAACTC
66 CCAACTCCGATTTTATTTTC-AAAAAATAAACACAAATTTTTCACAATCGAGGATACTCCAACTC
* * *
477329 CGTTAATCATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCTACTTTATT
130 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
**
477394 CTTAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAAT
195 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAAT
477459 TTTTCCA
260 TTTTCCA
* *
477466 CAATCGGGGATATTCCAACC-CCGATTTTATTTTTAAAACACCAATTTTCCTTTAATCGGGGATA
1 CAATCGGGGATATTCC-ACCTCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATA
* * * * *
477530 CTCCAGCTCCGATTTTA-TTTC-CAAAA-ACAC-CAATTTTTTCACAATTGAGGATACTCCAAC-
64 CTCCAACTCCGATTTTATTTTCAAAAAATAAACACAAATTTTTCACAATCGAGGATACTCCAACT
* * *
477590 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCGACCCCGGCTTT
129 C-CGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
*
477655 ATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
192 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
477701 TTATTTTCGA
Statistics
Matches: 213, Mismatches: 18, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
262 1 0.00
263 32 0.15
264 97 0.46
265 4 0.02
267 46 0.22
268 33 0.15
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (266 bp):
CAATCGGGGATATTCCACCTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCCGATTTTATTTTCAAAAAATAAACACAAATTTTTCACAATCGAGGATACTCCAACTCC
GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTC
CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATT
TTTCCA
Found at i:487619 original size:13 final size:13
Alignment explanation
Indices: 487601--487625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
487591 AGATTGCTTG
487601 GTATCGATACATT
1 GTATCGATACATT
487614 GTATCGATACAT
1 GTATCGATACAT
487626 GTTCTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:487770 original size:93 final size:93
Alignment explanation
Indices: 487611--487809 Score: 389
Period size: 93 Copynumber: 2.1 Consensus size: 93
487601 GTATCGATAC
*
487611 ATTGTATCGATACATGTTCTTTGTATTAATACACCATAAAATATATCGATAGATGTAATTGGCAC
1 ATTGTATCGATACATGTTCTTTGTATTAATACACCATAAAATATATCAATAGATGTAATTGGCAC
487676 TAGCTATCATGCCACTGTTCATAATTGA
66 TAGCTATCATGCCACTGTTCATAATTGA
487704 ATTGTATCGATACATGTTCTTTGTATTAATACACCATAAAATATATCAATAGATGTAATTGGCAC
1 ATTGTATCGATACATGTTCTTTGTATTAATACACCATAAAATATATCAATAGATGTAATTGGCAC
487769 TAGCTATCATGCCACTGTTCATAATTGA
66 TAGCTATCATGCCACTGTTCATAATTGA
487797 ATTGTATCGATAC
1 ATTGTATCGATAC
487810 TGTAGACACT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 105 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (93 bp):
ATTGTATCGATACATGTTCTTTGTATTAATACACCATAAAATATATCAATAGATGTAATTGGCAC
TAGCTATCATGCCACTGTTCATAATTGA
Found at i:488151 original size:13 final size:13
Alignment explanation
Indices: 488133--488157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
488123 CATAAAATGT
488133 TGTATCGATACAA
1 TGTATCGATACAA
488146 TGTATCGATACA
1 TGTATCGATACA
488158 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:488173 original size:32 final size:33
Alignment explanation
Indices: 488113--488178 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
488103 TTCAACGATT
488113 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
** *
488146 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
488178 T
1 T
488179 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:488237 original size:13 final size:13
Alignment explanation
Indices: 488219--488243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
488209 ATTACTCAAA
488219 TGTATCGATACAT
1 TGTATCGATACAT
488232 TGTATCGATACA
1 TGTATCGATACA
488244 CGGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:488345 original size:52 final size:52
Alignment explanation
Indices: 488252--488379 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
488242 CACGGATCTT
*
488252 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
488303 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
488355 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
488380 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:495285 original size:1 final size:1
Alignment explanation
Indices: 495281--495311 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
495271 AAGTAAACAC
*
495281 AAAAAACAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
495312 GTGTAAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:496739 original size:27 final size:27
Alignment explanation
Indices: 496680--496869 Score: 119
Period size: 28 Copynumber: 6.2 Consensus size: 27
496670 GTACCCTGTT
*
496680 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
* *
496707 CCTTTTAAAGCCCACAATTCTGTGGCAC
1 CCTTTT-AAGCCCACAACTCCGTGGCAC
* *
496735 TTTTTTCATCTTTAAGTCCACAACTCCGTGGCAC
1 ------CCT-TTTAAGCCCACAACTCCGTGGCAC
496769 CCTTTTTAAGCCCACAACTCCGTGGCAC
1 CC-TTTTAAGCCCACAACTCCGTGGCAC
496797 CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC
1 C-----C-TTTT-AAGCCCACAACTCCGTGGCAC
*
496831 CTTTTTCTTTTAAAGCCCACAACTCTGTGGCAC
1 C-----CTTTT-AAGCCCACAACTCCGTGGCAC
*
496864 TCTTTT
1 CCTTTT
496870 TCCCTTTTCA
Statistics
Matches: 137, Mismatches: 11, Indels: 29
0.77 0.06 0.16
Matches are distributed among these distances:
27 6 0.04
28 48 0.35
29 1 0.01
33 31 0.23
34 48 0.35
35 3 0.02
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:496756 original size:34 final size:34
Alignment explanation
Indices: 496588--497444 Score: 711
Period size: 34 Copynumber: 25.8 Consensus size: 34
496578 CAAATACCTT
* * * *
496588 TTTAAAGTCCACGACTCAGTGGCA-TTTTGTCTC
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
496621 ---AAAGTCCACGACTCAGTGGCA--TTTTT-TC
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* ** *
496649 TTTAAAGCCCACAACTCCGTGGTACCCTGTTC-C
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
496682 TTTTAAGTCCACAACTCCGTGGCAC-----CCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
496710 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATC
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TC
* *
496745 TTT-AAGTCCACAACTCCGTGGCAC-----CCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
496772 TTTTAAGCCCACAACTCCGTGGCACCTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
*
496806 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
496839 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
* *
496874 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 -TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
*
496910 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTC
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
* *
496945 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 -TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
*
496981 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
497014 TTTAAATCCCACAACTCCGTGGCACCTTTTTCTG
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
497048 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCACTC
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTT--CTC
* *
497085 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
497118 TTTCAAAGCCCACAACTCTGTGGCACCTTCTTCT-
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
497152 TTTCAAAGCCCACAACTCTGTGGCACCTTCTTCT-
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
497186 TTTCAAAGCCCACGACTCCGTGGCAC-----TCTT
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
*
497216 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTC-C
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
* *
497250 TCCT-AAGCCCACAACTCTGTGGCACTCTTTTTC-C
1 T-TTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
*
497284 TTCT-AAGCCCACAACTCTGTGGCA------TC-C
1 TT-TAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
497311 TTTTAAGCCCATAACTCCGTGGCACTTTTTTCATC
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TC
* * * *
497346 TTT-GAGTCCATAACTCCGTGGCACCTTTTTTTTC
1 TTTAAAGCCCACAACTCCGTGGCA-CTTTTTTCTC
*
497380 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 -TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
* *
497416 TTTTAAGTCCACAACTCCGTGGCATCTTT
1 TTTAAAGCCCACAACTCCGTGGCA-CTTT
497445 CTCCCTTCCT
Statistics
Matches: 706, Mismatches: 62, Indels: 110
0.80 0.07 0.13
Matches are distributed among these distances:
26 1 0.00
27 26 0.04
28 45 0.06
29 28 0.04
30 24 0.03
31 17 0.02
33 90 0.13
34 294 0.42
35 64 0.09
36 48 0.07
37 69 0.10
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
Found at i:496948 original size:71 final size:69
Alignment explanation
Indices: 496621--497444 Score: 856
Period size: 71 Copynumber: 12.4 Consensus size: 69
496611 ATTTTGTCTC
* * * * * * *
496621 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGTAC-CCTGTTC-C
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTC
496682 TTTT
66 TTTT
* * *
496686 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
496744 C-TTT
65 CTTTT
* *
496748 -AAGTCCACAACTCCGTGGCACC-----CTTTTTAAGCCCACAACTCCGTGGCAC-CTTTTTCT-
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTC
496805 TTTT
66 TTTT
* *
496809 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTC
496874 TTTT
66 TTTT
*
496878 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
496943 TCTTTT
64 TCTTTT
496949 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC-C-TTTT-
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
497011 TCTTTT
64 TCTTTT
* *
497017 AAATCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCA
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCT
497082 CTCTTT
65 CT-TTT
* * *
497088 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCAC-CTTCTTCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCT
*
497152 -TTTC
65 CTTTT
* * *
497156 AAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCCGTGGCA--C----TCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCT
497215 -TTTT
65 CTTTT
* ** *
497219 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
497283 -CTTCT
64 TCTTTT
* * *
497288 -AAGCCCACAACTCTGTGGCA-----TCCTTTT-AAGCCCATAACTCCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
497345 C-TTT
65 CTTTT
* * *
497349 -GAGTCCATAACTCCGTGGCACCTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 AAAGCCCACAACTCCGTGGCACC---TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
497413 CCCTTTT
63 CTCTTTT
* *
497420 -AAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
497445 CTCCCTTCCT
Statistics
Matches: 664, Mismatches: 51, Indels: 85
0.83 0.06 0.11
Matches are distributed among these distances:
60 7 0.01
61 71 0.11
62 78 0.12
63 47 0.07
64 23 0.03
65 4 0.01
67 81 0.12
68 91 0.14
69 24 0.04
70 64 0.10
71 174 0.26
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (69 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTC
TTTT
Found at i:497043 original size:138 final size:136
Alignment explanation
Indices: 496621--497444 Score: 887
Period size: 138 Copynumber: 6.2 Consensus size: 136
496611 ATTTTGTCTC
* * * * * * *
496621 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGTACCCTGTTC-CT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTCT
* *
496683 TTT-AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTT
66 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
*
496741 CATCTTT
131 CCT-TTT
* *
496748 -AAGTCCACAACTCCGTGGCACC-----CTTTTTAAGCCCACAACTCCGTGGCACCTTTTTCT-T
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTCT
496806 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
66 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
496871 CCCTTTT
131 -CCTTTT
*
496878 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
*
496943 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC-C
63 TCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCTGTGGCACTC
497007 TTTTT-CTTTT
126 TTTTTCCTTTT
* *
497017 AAATCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCA
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCT
*
497082 CTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCAC-CT
64 CT-TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCTGTGGCACTCT
*
497146 TCTT-CTTTT
127 TTTTCCTTTT
* * *
497155 CAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCCGTGGCA-C----TCT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT
* **
497215 -TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCT
64 CTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGCCCACAACTCTGTGGCACTCT
*
497278 TTTTCCTTCT
127 TTTTCCTTTT
* * * *
497288 -AAGCCCACAACTCTGTGGCA-----TCCTTTT-AAGCCCATAACTCCGTGGCACTTTTTTCATC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TC
* * * *
497346 -TTT-GAGTCCATAACTCCGTGGCACCTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
65 TTTTAAAGCCCACAACTCCGTGGCACC---TTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCT
497409 TTTTCCCTTTT
127 TTTT-CCTTTT
* *
497420 -AAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
497445 CTCCCTTCCT
Statistics
Matches: 604, Mismatches: 45, Indels: 86
0.82 0.06 0.12
Matches are distributed among these distances:
122 1 0.00
123 32 0.05
124 39 0.06
126 24 0.04
128 1 0.00
129 46 0.08
130 15 0.02
131 99 0.16
132 55 0.09
133 9 0.01
137 6 0.01
138 150 0.25
139 63 0.10
140 4 0.01
141 36 0.06
142 24 0.04
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (136 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTCT
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
CCTTTT
Found at i:497341 original size:27 final size:27
Alignment explanation
Indices: 497281--497334 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
497271 GCACTCTTTT
* *
497281 TCCTTCTAAGCCCACAACTCTGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
*
497308 TCCTTTTAAGCCCATAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
497335 CTTTTTTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
TCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:497450 original size:34 final size:34
Alignment explanation
Indices: 497309--497451 Score: 144
Period size: 36 Copynumber: 4.1 Consensus size: 34
497299 TCTGTGGCAT
* *
497309 CCTTTTAAGCCCATAACTCCGTGGCA-CTTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCATCTTTTTC
* * * * * *
497342 CATCTTTGAGTCCATAACTCCGTGGCACCTTTTTTT
1 CCT-TTTAAGCCCACAACTCCGTGGCATC-TTTTTC
*
497378 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 CCTTTT-AAGCCCACAACTCCGTGGCA-TCTTTTTC
* *
497414 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTC
1 CCTTTTAAGCCCACAACTCCGTGGCATCTTTTTC
497448 CCTT
1 CCTT
497452 CCTAAAGCCC
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
33 2 0.02
34 32 0.35
35 23 0.25
36 34 0.37
37 1 0.01
ACGTcount: A:0.17, C:0.32, G:0.12, T:0.38
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCCGTGGCATCTTTTTC
Found at i:497458 original size:71 final size:70
Alignment explanation
Indices: 497315--497464 Score: 178
Period size: 71 Copynumber: 2.1 Consensus size: 70
497305 GCATCCTTTT
* * * * **
497315 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTGAGTCCATAACTCCGTGGCACCTTTTTTTTC
1 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
*
497380 TTTTA
66 TTCTA
* *
497385 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATC-TTTCTC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCTTTTCTC
497448 CCTTCCTA
64 CCTT-CTA
497456 AAGCCCACA
1 AAGCCCACA
497465 CAAGTCGGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
70 29 0.43
71 39 0.57
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
TTCTA
Found at i:497492 original size:33 final size:35
Alignment explanation
Indices: 497449--497518 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
497439 ATCTTTCTCC
497449 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
497483 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
497517 CT
1 CT
497519 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:497582 original size:49 final size:49
Alignment explanation
Indices: 497518--498127 Score: 776
Period size: 49 Copynumber: 12.6 Consensus size: 49
497508 GCAACCCTTC
* *
497518 TAAGCCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
497567 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
497610 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
497659 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
497702 TAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * * * * * *
497751 GAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
497800 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * * * * *
497849 TATGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
497898 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * * * *
497947 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
497996 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCATTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-T--TCATCTT
*
498048 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
498097 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
498128 CGTTGACATC
Statistics
Matches: 478, Mismatches: 68, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
43 76 0.16
45 2 0.00
47 2 0.00
49 350 0.73
50 1 0.00
51 1 0.00
52 46 0.10
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
Found at i:497826 original size:98 final size:98
Alignment explanation
Indices: 497513--498127 Score: 885
Period size: 98 Copynumber: 6.4 Consensus size: 98
497503 CGGTGGCAAC
* *
497513 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
497578 TAGCTGGCCTTGAATCAGCACATTGG------CA
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
497606 CCTTTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
497671 AGCTGGCCTTGAATCAGCACATTGG------CA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
497698 CCTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
* *
497763 AGCTGGCCTTGACTCAACACATTGGCACCTTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
497796 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTATGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
497861 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
497894 CCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
497959 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
497992 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCATTTTTAAGTCCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-T--TCATCTTTAAGTCCAA
* * * *
498057 TATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
498093 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
498128 CGTTGACATC
Statistics
Matches: 485, Mismatches: 28, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
92 169 0.35
93 4 0.01
98 235 0.48
101 77 0.16
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:499092 original size:13 final size:13
Alignment explanation
Indices: 499074--499098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
499064 CATAAAATGT
499074 TGTATCGATACAA
1 TGTATCGATACAA
499087 TGTATCGATACA
1 TGTATCGATACA
499099 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:499114 original size:32 final size:33
Alignment explanation
Indices: 499054--499119 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
499044 TTCAACGATT
499054 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
** *
499087 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
499119 T
1 T
499120 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:499178 original size:13 final size:13
Alignment explanation
Indices: 499160--499184 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
499150 ATTACTCAAA
499160 TGTATCGATACAT
1 TGTATCGATACAT
499173 TGTATCGATACA
1 TGTATCGATACA
499185 CGGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:511065 original size:19 final size:20
Alignment explanation
Indices: 511017--511067 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
511007 CGCACCCAAA
511017 TGTATCGATACATATTGCTT
1 TGTATCGATACATATTGCTT
* *
511037 GGTATCGATACATGTT-CTT
1 TGTATCGATACATATTGCTT
*
511056 TGTATTGATACA
1 TGTATCGATACA
511068 CCATAAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATATTGCTT
Found at i:516767 original size:24 final size:24
Alignment explanation
Indices: 516735--516782 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
516725 CTTGACTAGA
516735 AAGAAAAAAAACCAACTAATGCAT
1 AAGAAAAAAAACCAACTAATGCAT
516759 AAGAAAAAAAACCAACTAATGCAT
1 AAGAAAAAAAACCAACTAATGCAT
516783 TTTTTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.62, C:0.17, G:0.08, T:0.12
Consensus pattern (24 bp):
AAGAAAAAAAACCAACTAATGCAT
Found at i:524980 original size:19 final size:20
Alignment explanation
Indices: 524956--525008 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
524946 AGCGATATAT
524956 TGTATCGATACAATACT-TA
1 TGTATCGATACAATACTGTA
* *
524975 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-ATACTGTA
524996 TGTATCGATACAA
1 TGTATCGATACAA
525009 ATTATTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTGTA
Found at i:525922 original size:16 final size:16
Alignment explanation
Indices: 525897--525929 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
525887 GTAGTAAATT
525897 TAATTAAGAATT-TAA
1 TAATTAAGAATTCTAA
525912 TAATGTAAGAATTCTAA
1 TAAT-TAAGAATTCTAA
525929 T
1 T
525930 TAAAAACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (16 bp):
TAATTAAGAATTCTAA
Found at i:526149 original size:21 final size:20
Alignment explanation
Indices: 526109--526147 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
526099 TTAAGTATAA
526109 ATATTTTTCAAGCATTAAATC
1 ATATTTTTCAA-CATTAAATC
526130 ATATGTTTTCAA-ATTAAA
1 ATAT-TTTTCAACATTAAA
526148 ATAACTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATTTTTCAACATTAAATC
Found at i:526287 original size:13 final size:13
Alignment explanation
Indices: 526269--526293 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
526259 TATATTGCTT
526269 TGTATCGATACAC
1 TGTATCGATACAC
526282 TGTATCGATACA
1 TGTATCGATACA
526294 TGATCTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:528517 original size:20 final size:21
Alignment explanation
Indices: 528477--528519 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
528467 AAAAAAAGAG
528477 TTAGAAAAGAAAATAAGTGAA
1 TTAGAAAAGAAAATAAGTGAA
* *
528498 TTAGAAAA-AAGATAATTGAA
1 TTAGAAAAGAAAATAAGTGAA
528518 TT
1 TT
528520 GCAAGTTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (21 bp):
TTAGAAAAGAAAATAAGTGAA
Found at i:528575 original size:21 final size:21
Alignment explanation
Indices: 528536--528576 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
528526 TGGTAATAAA
*
528536 GAATTAGCTAATGAAAACAAC
1 GAATTAGCTAATAAAAACAAC
528557 GAATTAGCTAA-AAAGAACAA
1 GAATTAGCTAATAAA-AACAA
528577 GAACTTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (21 bp):
GAATTAGCTAATAAAAACAAC
Found at i:535863 original size:17 final size:17
Alignment explanation
Indices: 535841--535882 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
535831 TAAAAAATTA
535841 ATTTAATAAAATTAAAT
1 ATTTAATAAAATTAAAT
*
535858 ATTTAACAAAATTAAAT
1 ATTTAATAAAATTAAAT
535875 ATTTAATA
1 ATTTAATA
535883 TATGTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAATAAAATTAAAT
Found at i:541269 original size:62 final size:62
Alignment explanation
Indices: 541200--541323 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
541190 TTAGTAAAAG
*
541200 ATTACCTGTCAGCATCTTATTATCAATATATCAGCATTGGCTTCTTTGATGGTGTTATCAAT
1 ATTACCTGTCAGCATCTTATTATCAATATATCAGCATTGGCTTCTTTGATCGTGTTATCAAT
541262 ATTACCTGTCAGCATCTTATTATCAATATATCAGCATTGGCTTCTTTGATCGTGTTATCAAT
1 ATTACCTGTCAGCATCTTATTATCAATATATCAGCATTGGCTTCTTTGATCGTGTTATCAAT
541324 TGTTCTTAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (62 bp):
ATTACCTGTCAGCATCTTATTATCAATATATCAGCATTGGCTTCTTTGATCGTGTTATCAAT
Found at i:545663 original size:11 final size:11
Alignment explanation
Indices: 545633--545671 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
545623 ATAGATAATA
545633 TAAAT-TTTAT
1 TAAATATTTAT
545643 TAGTAATATTTAT
1 TA--AATATTTAT
545656 TAAATATTTAT
1 TAAATATTTAT
545667 TAAAT
1 TAAAT
545672 GATAATATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.08
11 14 0.54
12 3 0.12
13 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (11 bp):
TAAATATTTAT
Found at i:548524 original size:12 final size:11
Alignment explanation
Indices: 548510--548548 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
548500 ATATTAAGCA
548510 AAAAAGCAAGG
1 AAAAAGCAAGG
* *
548521 AAAAATCAAAG
1 AAAAAGCAAGG
*
548532 AAAAAGCTAGG
1 AAAAAGCAAGG
548543 AAAAAG
1 AAAAAG
548549 AAGAAACAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.67, C:0.08, G:0.21, T:0.05
Consensus pattern (11 bp):
AAAAAGCAAGG
Found at i:551521 original size:14 final size:14
Alignment explanation
Indices: 551502--551546 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
551492 GTGGCAAGCT
551502 AAAATTAAATTGAA
1 AAAATTAAATTGAA
*
551516 AAAATTAAATAGAA
1 AAAATTAAATTGAA
**
551530 AGGATTAAATTGTAA
1 AAAATTAAATTG-AA
551545 AA
1 AA
551547 GATAAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 22 0.88
15 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (14 bp):
AAAATTAAATTGAA
Found at i:551615 original size:27 final size:29
Alignment explanation
Indices: 551585--551650 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 29
551575 TAAAAAGATG
*
551585 AATTAAAAATTTACAT-AT-AATAAA-TTC
1 AATTAAAAATTTA-ATCATGAAAAAATTTC
*
551612 AATTAATAATTTAATCATGAAAAAATTTC
1 AATTAAAAATTTAATCATGAAAAAATTTC
551641 AATTAAAAAT
1 AATTAAAAAT
551651 CATAAGAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.06
27 14 0.42
28 5 0.15
29 12 0.36
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (29 bp):
AATTAAAAATTTAATCATGAAAAAATTTC
Found at i:552176 original size:19 final size:19
Alignment explanation
Indices: 552152--552205 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 19
552142 TAGCCAAACT
552152 TGTATCGATACATAAAATA
1 TGTATCGATACATAAAATA
*
552171 TGTATCGATACACAAAAAAATA
1 TGTATCGAT--AC-ATAAAATA
552193 TGTATCGATACAT
1 TGTATCGATACAT
552206 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 10 0.33
20 2 0.07
21 2 0.07
22 16 0.53
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATAAAATA
Found at i:556270 original size:15 final size:15
Alignment explanation
Indices: 556250--556280 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
556240 TAAAAATGTC
*
556250 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
556265 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
556280 C
1 C
556281 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:558380 original size:13 final size:13
Alignment explanation
Indices: 558362--558399 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
558352 CATTTTTCTT
558362 TGTATCGATACAA
1 TGTATCGATACAA
*
558375 TGTATCGATACAC
1 TGTATCGATACAA
558388 TGTATCGATACA
1 TGTATCGATACA
558400 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:558554 original size:20 final size:20
Alignment explanation
Indices: 558511--558556 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
558501 AAATCTTTTG
558511 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
558532 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
558552 CAAAA
1 CAAAA
558557 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:560964 original size:13 final size:13
Alignment explanation
Indices: 560946--560971 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
560936 TACACAAAAT
560946 ATGTATCGATACA
1 ATGTATCGATACA
560959 ATGTATCGATACA
1 ATGTATCGATACA
560972 CAAAAAAATA
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:560969 original size:32 final size:33
Alignment explanation
Indices: 560928--560993 Score: 107
Period size: 35 Copynumber: 2.0 Consensus size: 33
560918 TAGCCAAACT
560928 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
560960 TGTATCGATACACAAAAAAATATGTATCGATACA
1 TGTATCGATACAC--AAAAATATGTATCGATACA
560994 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 13 0.42
35 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:567521 original size:79 final size:79
Alignment explanation
Indices: 567364--567585 Score: 259
Period size: 79 Copynumber: 2.8 Consensus size: 79
567354 TGAGAAATTT
* * *
567364 AATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCC
1 AATATTTAGGAAATAA-AACCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCC
** *
567428 CGGTTGTGAAAAATC
65 CAATTATGAAAAATC
* * *
567443 GATGA-TTAGGAAATAAAATCGGGATTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCC
1 AAT-ATTTAGGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCC
*
567507 CAATTATGAGAAATC
65 CAATTATGAAAAATC
* * * * ** *
567522 AATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACAGGGTTGGAGTATCCC
1 AATATTTAGGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCC
567586 TGATGAAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 3 0.02
79 117 0.97
80 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (79 bp):
AATATTTAGGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCC
AATTATGAAAAATC
Found at i:567697 original size:52 final size:52
Alignment explanation
Indices: 567620--567996 Score: 262
Period size: 52 Copynumber: 7.2 Consensus size: 52
567610 TCCTCGATTG
* *
567620 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAA
1 TGAAAAATTGGTG-TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTAA
* *
567673 AGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT-G
1 TGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTAA
* * * *
567724 TGAAAAATTAGTGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCTGATT-A
1 TGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTAA
* *** * ** ** *
567775 TGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAA
1 TGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTAT-CCC-C-GA-TTAA
* *** * * * ***** * * * *
567831 CG--GGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATT-G
1 TGAAAAATTGGTGTTTTGAAAAT-AAA-ATCGGGGTTGGAGTATCCCCGATTAA
* * * *
567882 TGAAAAATTGATGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGATTAA
1 TGAAAAATTGGTG-TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTAA
* * *
567935 AGGAAAATTGGTGTTTTGAAAATATAATCGGGGTTGGAGTATCCCCGATT-A
1 TGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTAA
*
567986 TGAACAATTGG
1 TGAAAAATTGG
567997 GAAACTTAAC
Statistics
Matches: 244, Mismatches: 69, Indels: 24
0.72 0.20 0.07
Matches are distributed among these distances:
51 89 0.36
52 91 0.37
53 30 0.12
54 13 0.05
55 6 0.02
56 15 0.06
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (52 bp):
TGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTAA
Found at i:567818 original size:102 final size:104
Alignment explanation
Indices: 567600--567820 Score: 257
Period size: 102 Copynumber: 2.1 Consensus size: 104
567590 GAAATAACGA
* * * * ** *
567600 GGTTAGAGCATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAAAAATAAAACCGGAGTTGGAGTATCC
*** * *
567665 CCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAATCGG
66 CCGATTAAAGAAAAATCAATATTTTGAAAATAAAACCGG
*
567704 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTG-TTTTAAAAATAAAACCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAAAAATAAAACCGGAGTTGGAGTATCC
* * * ** *
567768 CTGATT-ATGAGAAATCAATATTTTGGGAATAAAGCCGG
66 CCGATTAAAGAAAAATCAATATTTTGAAAATAAAACCGG
567806 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
567821 TCGGAGGTAA
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
102 37 0.38
103 32 0.33
104 29 0.30
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (104 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAAAAATAAAACCGGAGTTGGAGTATCC
CCGATTAAAGAAAAATCAATATTTTGAAAATAAAACCGG
Found at i:567955 original size:262 final size:262
Alignment explanation
Indices: 567490--567994 Score: 893
Period size: 262 Copynumber: 1.9 Consensus size: 262
567480 TTGGAAATAA
567490 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
* *
567555 CCCCTCGGAGGTAACAGGGTTGGAGTATCCCTGATGAAATAACGAGGTTAGAGCATCCTCGATTG
66 CCCCTCGGAGGTAACAGGGTTAGAGTATCCCCGATGAAATAACGAGGTTAGAGCATCCTCGATTG
* *
567620 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAAATTGGT
131 TGAAAAATTGATGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGAAAAATTGGT
*
567685 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAATAAA
196 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAAAAATAAA
567750 AC
261 AC
**
567752 CGGGGTTGGAGTATCCCTGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
* * *
567817 CCCCTCGGAGGTAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACAGGGTTAGAGTATCCCCGATGAAATAACGAGGTTAGAGCATCCTCGATTG
*
567882 TGAAAAATTGATGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGATGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGAAAAATTGGT
* *
567947 GTTTTGAAAATATAATCGGGGTTGGAGTATCCCCGATTATGAACAATT
196 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATT
567995 GGGAAACTTA
Statistics
Matches: 230, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
262 230 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (262 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAGGTAACAGGGTTAGAGTATCCCCGATGAAATAACGAGGTTAGAGCATCCTCGATTG
TGAAAAATTGATGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGAAAAATTGGT
GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAAAAATAAA
AC
Found at i:570370 original size:13 final size:13
Alignment explanation
Indices: 570352--570377 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
570342 ACAAAGATAG
570352 ATGTATCGATACA
1 ATGTATCGATACA
570365 ATGTATCGATACA
1 ATGTATCGATACA
570378 TTTCCCTAAT
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:570390 original size:21 final size:21
Alignment explanation
Indices: 570364--570403 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
570354 GTATCGATAC
570364 AATGTATCGATACATTTCCCT
1 AATGTATCGATACATTTCCCT
570385 AATGTATCGATACATTTCC
1 AATGTATCGATACATTTCC
570404 TTGGCAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTCCCT
Found at i:570454 original size:19 final size:18
Alignment explanation
Indices: 570430--570492 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
570420 AGCGATACAT
570430 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
570449 TGTATCGATAC--A-TTA
1 TGTATCGATACAAACTTA
570464 --TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
570481 TGTATCGATACA
1 TGTATCGATACA
570493 TTTACGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
16 2 0.05
17 3 0.08
19 21 0.55
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:570468 original size:32 final size:32
Alignment explanation
Indices: 570422--570494 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
570412 AGCTTCATAG
*
570422 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
*
570454 CGATACATTATATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
570486 CGATACATT
1 CGATACATT
570495 TACGATTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:570615 original size:11 final size:11
Alignment explanation
Indices: 570599--570628 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
570589 GACAAAAATG
570599 TTTTTTTTAAA
1 TTTTTTTTAAA
*
570610 TTTTTTTAAAA
1 TTTTTTTTAAA
570621 TTTTTTTT
1 TTTTTTTT
570629 TTATTTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTTAAA
Found at i:571430 original size:55 final size:55
Alignment explanation
Indices: 571343--574039 Score: 2179
Period size: 55 Copynumber: 46.4 Consensus size: 55
571333 ATAAAGTGCA
** *
571343 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* ** * *
571398 TCCTGCTCTTTGAGGACT-GAAAGGTGCTACCAACTTGTGCAGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AAGCG
* * * *
571453 TCCTGCTCTTTGAGGACTGGAAAATGCCAGCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* *
571508 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAAGCG
* **
571569 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG---A--AAA-GCG
* * *
571630 TCCTGCTCTTTGAGGACTGCAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCG
* * * *
571691 TCTTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AAGCG
* * *
571746 TCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAAGAAAGAAAAG-G
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT------GAAAAGCG
* * * *
571806 TGCCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTT-AAAAGGCG
1 T--CCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
* *
571863 TCCTGCTATTTGAGGACTGG-AAGTGCCACCAACTTCTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
* * *
571917 TCCTGCTCTTTGATGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* * * *
571972 TCCTGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAA-GCG
* * * *
572033 TCCTGTTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAA-GCG
* * * * * * * *
572093 TCTTCCTCTTTGAGGACTAGAAAATGCCATCGACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* *
572148 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTCTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
* * *
572203 TCCTGCTCTTTGATGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* * * *
572258 TCCTGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAA-GCG
* * *
572319 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCATTAAAAAGGAAAGG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAA-G---CG
* * * * *
572377 TGCCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCG
1 T--CCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* * *
572434 TCTTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAAG-CG
* * * *
572495 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAATGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAA-AGCG
* * * * *
572555 TCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* * * *
572610 TCCTACTCTTTGAGGACTGGGAAGTACCACCAACTTGTGTGGGCTTGAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTT-----TGAAAA-GCG
* * * * * *
572671 TCCTGCTCTTTTAGGACT-GAAGGTGCCACCAGCTTGTTTGGGCTTTAAAAAGGAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-G---CG
* * * * *
572729 TGCCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGCAAAGAGAAAGCA
1 T--CCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCG
* * *
572792 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG-TTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AAGCG
* *
572847 TCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAGAAAAG-G
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT------GAAAAGCG
* * * * *
572907 TGCCCTGCTTTTTGAGGACTAGAAAAATGCCACCGACTCGTGTGGGCTTT-AAAAGGCG
1 T--CCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
* * *
572965 TCCTGCTCTTTGATGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* * * * *
573020 TCCTACTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAA-GCG
* * *
573081 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAA-GCG
* * * * *
573141 TCTTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* *
573196 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAA-GCG
* * * * *
573257 TCATGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-G---CG
*
573315 TGCCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 T--CCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
*
573372 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
* * *
573427 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* *
573482 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAA-GCG
** * * *
573543 TTATGCTCTTTGAGGACT--AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----GAAAA-GCG
* * * * * * *
573603 TCCTGCTCTTTGAGGACTAGAAAATGCCATCGACTCGTGTGGGCTTTGATAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
573658 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAA-GCG
* * * * *
573719 TCCTGCTCTTTGAGGACT-GAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAAGGAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-G---CG
* * * *
573777 TGCCCTGCTTTTTGAGGAATGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 T--CCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCG
* * *
573840 TCATGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGCCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGG-AAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCG
* * * * *
573902 TCCTGCTCTTTGAGGGCT-GAAGGTGCCACTAGCTTGTGTGGGCTTT-AAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
*
573956 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGACG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAAG-CG
574018 TCCTGCTCTTTGAGGACTGGAA
1 TCCTGCTCTTTGAGGACTGGAA
574040 GGGCTAAAAG
Statistics
Matches: 2184, Mismatches: 295, Indels: 319
0.78 0.11 0.11
Matches are distributed among these distances:
53 2 0.00
54 85 0.04
55 868 0.40
56 61 0.03
57 7 0.00
58 11 0.01
59 12 0.01
60 406 0.19
61 542 0.25
62 150 0.07
63 29 0.01
66 5 0.00
67 6 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCG
Found at i:572153 original size:176 final size:174
Alignment explanation
Indices: 571343--574039 Score: 2523
Period size: 176 Copynumber: 15.5 Consensus size: 174
571333 ATAAAGTGCA
* *
571343 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTT--GAAAA-GCGTCCTGC
1 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAGCTTGTGTGGGCTTTAAGAAAAGGCGTCCTGC
* * ** *
571404 TCTTTGAGGACT-GAAAGGTGCTACCAACTTGTGCAGGCTTT-AAGAGGTGTCCTGCTCTTTGAG
65 TCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAG
* *
571467 GACTGGAAAA-TGCCAGCAACTTGTGTGGGCTTT-----G-AAAGGTG
128 GACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * *
571508 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
1 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAGCTTGTGTGGGCTTT---AAGAAAAGGCGTCC
* * **
571572 TGCTCTTTGAGGACTAGAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCGTCCTGCT
62 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------GAAAGGCGTCCTGCT
* * * *
571637 CTTTGAGGACTGCAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAA-GCA
121 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA-AAAGGCG
* * * * *
571691 TCTTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAG---AGGCGTCTTGCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAGCTTGTGTGGGCTTTAAGAAAAGGCGTCCTGCT
*
571753 CTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAAGAAAGAAAAG-GTGCCCTGCTCT
66 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAG----GCGT--CCTGCTCT
* *
571817 TTGAGGACTAGAAAA-TGCCACCGACTCGTGTGGGCTTT------AAAAGGCG
123 TTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * *
571863 TCCTGCTATTTGAGGACT-GGAAGTGCCACCAACTTCTGTGGGCTTT---AAAAGGCGTCCTGCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAGCTTGTGTGGGCTTTAAGAAAAGGCGTCCTGCT
* *
571924 CTTTGATGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAT
66 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
* * *
571989 TGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
131 TGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* ** * *
572033 TCCTGTTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAGCTTGTGTGGGCTTT--AA-GAAAAGGCGTCCT
* * * * *
572097 CCTCTTTGAGGACTAGAAAATGCCATCGACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
63 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
** *
572162 GACTGGGAAGTGCCACCAACTTCTGTGGGCTTT------AAAAGGCG
128 GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
572203 TCCTGCTCTTTGATGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--G-AAAGGCGTCCTGCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAGCTTGTGTGGGCTTTAAGAAAAGGCGTCCTGCT
* * *
572265 CTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTT
66 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G--AAAGGCGTCCTGCTCTTT
* * *
572330 GAGGACT-AAAGGTGCCACCAACTTGTGTGGGCATTAAAAAGG-AAAGGTG
125 GAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TTTAAAAGGAAAAGGCG
* * *
572379 CCCTGCTCTTTGAGGACTAGAAAATGCCACC-GACTCGTGTGGGCTTT--G-AAAGGCGTCTTGC
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAG-CTTGTGTGGGCTTTAAGAAAAGGCGTCCTGC
* *
572440 TTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACGTCCTGCTCTT
65 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G--AAAGGCGTCCTGCTCTT
* * * *
572505 TGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAATGGTG
124 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
572555 TCCTGCTCTTTGAGGACTAGAAAATGCCACC-GACTCGTGTGGGCTTT--G-AAAGGCGTCCTAC
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAG-CTTGTGTGGGCTTTAAGAAAAGGCGTCCTGC
* * * *
572616 TCTTTGAGGACTGGGAAGTACCACCAACTTGTGTGGGCTTGAAAAGGAAAAGGCGTCCTGCTCTT
65 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT-----TG-AAAGGCGTCCTGCTCTT
* * * * *
572681 TTAGGACTG-AAGGTGCCACCAGCTTGTTTGGGCTTTAAAAAGG-AAAGGTG
124 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * *
572731 CCCTGCTCTTTGAGGACTAGAAAATGCCACC-GACTCGTGTGGGCTTTGCAAAGAGAAA-GCATC
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAG-CTTGTGTGGGCTTT---AAGA-AAAGGCGTC
* *
572794 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG-TTTTAAGAGGCGTCTTGCTCTTT
61 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTT
* *
572858 GAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAGAAAGAAAAGGTG
125 GAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAA-AAGGAAAAGGCG
* * *
572909 CCCTGCTTTTTGAGGACTAGAAAAATGCCACC-GACTCGTGTGGGCTTT---AAAAGGCGTCCTG
1 TCCTGCTCTTTGAGGACTAG-AAAATGCCACCAG-CTTGTGTGGGCTTTAAGAAAAGGCGTCCTG
* *
572970 CTCTTTGATGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGG
64 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
* * * *
573035 ATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
129 ACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
** * *
573081 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAGCTTGTGTGGGCTTT--AA-GAAAAGGCGTCCT
* * * *
573145 GCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAAGCGTCCTGCTCTTTGAG
63 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
** * *
573210 GACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGTG
128 GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* ** * * *
573257 TCATGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAGGTGCCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAGCTTGTGTGGGCTTT---AAGAAAAGGCGTCCT
*
573321 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
63 GCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
**
573385 GGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
127 GGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
573427 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT--G-AAAGGCGTCCTGCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAGCTTGTGTGGGCTTTAAGAAAAGGCGTCCTGCT
* **
573489 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATTATGCTCTTT
66 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G--AAAGGCGTCCTGCTCTTT
* * * *
573554 GAGGACT-AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGTG
125 GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
573603 TCCTGCTCTTTGAGGACTAGAAAATGCCATC-GACTCGTGTGGGCTTT--G-ATAGGCGTCCTGC
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAG-CTTGTGTGGGCTTTAAGAAAAGGCGTCCTGC
*
573664 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTT
65 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G--AAAGGCGTCCTGCTCTT
* * * *
573729 TGAGGACTG-AAGGTGCCACTAGCTTGTGTGGGCTTTAAAAAGG-AAAGGTG
124 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * * * ** * * *
573779 CCCTGCTTTTTGAGGAATGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GCATCA
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAGCTTGTGTGGGCTTT---AAGA-AAAGGCGTCC
*
573843 TGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGCCTTTAAAAGGAGAAGGCGTCCTGC
62 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGC
* * * * *
573908 TCTTTGAGGGCTG-AAGGTGCCACTAGCTTGTGTGGGCTTT------AAAAGGCA
120 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
573956 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGACGTC
1 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAGCTTGTGTGGGCTTT--AA-G-AAAAGGCGTC
574020 CTGCTCTTTGAGGACTGGAA
61 CTGCTCTTTGAGGACTGGAA
574040 GGGCTAAAAG
Statistics
Matches: 2179, Mismatches: 222, Indels: 249
0.82 0.08 0.09
Matches are distributed among these distances:
163 5 0.00
164 37 0.02
165 134 0.06
166 8 0.00
169 7 0.00
170 164 0.08
171 215 0.10
172 55 0.03
173 96 0.04
174 5 0.00
175 14 0.01
176 938 0.43
177 178 0.08
178 91 0.04
179 30 0.01
180 3 0.00
181 4 0.00
182 67 0.03
183 117 0.05
184 11 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (174 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAGCTTGTGTGGGCTTTAAGAAAAGGCGTCCTGCT
CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
TGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:572469 original size:462 final size:460
Alignment explanation
Indices: 571343--574008 Score: 2760
Period size: 462 Copynumber: 5.8 Consensus size: 460
571333 ATAAAGTGCA
571343 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAA-GCGTCCT
1 TCCTGCTCTTTGAGGACTAAAAA-TGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCCT
* ** * *
571402 GCTCTTTGAGGACTGAAAGGTGCTACCAACTTGTGCAGGCTT--TAA-GAGGTGTCCTGCTCTTT
65 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTAAAAAGGAGGTGCCCTGCTCTTT
* * *
571464 GAGGACTGGAAAATGCCAGCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACT-GA
130 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGA
* *
571528 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA-GCATCCTGCTCTTTGAGGACTAGAAA
195 AA-ATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAA
** **
571592 GTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCGTCCTGCTCTTTGAGGACT-GCAAGGTG
258 GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAATG
* * *
571656 CCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCTTGCTCTTTGAGGACTGGAAAATGCCAC
321 CCACCAACTTGTGTGGGCTTTG-AAA-AG---GCATCCTGCTCTTTGAGGACTGGGAAGTGCCAC
* * * * *
571721 TAACTTGTGTGGGCTTTAAGAGGCGTCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTAT
381 CAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGT
571786 GGGCTTTAAGAAAGAAAAG-G
446 GGGCTTT--GAAAG----GCG
*
571806 TGCCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTT------AAAAGGCGTC
1 T--CCTGCTCTTTGAGGACTA-AAAATGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTC
* * * * *
571865 CTGCTATTTGAGGACTGGAA-GTGCCACCAACTTCTGTGGGCTTTAAAAGG-CGT--CCTGCTCT
63 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTAAAAAGGAGGTGCCCTGCTCT
* *
571926 TTGATGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTG
128 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
* * * *
571991 AAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGTTCTTTGAGGACT-GAAG
193 GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAA
* * * *
572055 GTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTCCTCTTTGAGGACTAGAAAATGC
258 GTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGC
* * * *
572120 CATCGACTCGTGTGGGCTTTG-AAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTT
322 CACCAACTTGTGTGGGCTTTGAAAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTT
* * *
572184 CTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGATGACTGGAAAATGCCACCAACTTGTGTGGGCTT
387 GTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTT
572249 TGAAAGGCG
452 TGAAAGGCG
* * *
572258 TCCTGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCCT
572323 GCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCATTAAAAAGGAAAGGTGCCCTGCTC
65 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TTAAAAAGG--AGGTGCCCTGCTC
* * * * *
572387 TTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCGTCTTGCTTTTTGAGGACT
127 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
*
572452 GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACGTCCTGCTCTTTGAGGACT-GAA
192 GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAA
* * *
572516 GGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAATGGTGTCCTGCTCTTTGAGGACTAGAAAATG
257 AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-GGCGTCCTGCTCTTTGAGGACTAGAAAATG
* * * * *
572581 CCACCGACTCGTGTGGGCTTTG-AAAGGCGTCCTACTCTTTGAGGACTGGGAAGTACCACCAACT
321 CCACCAACTTGTGTGGGCTTTGAAAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACT
* * ** * *
572645 TGTGTGGGCTTGAAAAGGAAAAGGCGTCCTGCTCTTTTAGGACT-GAAGGTGCCACCAGCTTGTT
386 TGTGTGGGCTT------TAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTG
*
572709 TGGGCTTTAAAAAGGAAAGGTG
445 TGGGCTTT------GAAAGGCG
* * * * *
572731 CCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGCAAAGAGAAA-GCATCC
1 TCCTGCTCTTTGAGGACTA-AAAATGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCGTCC
* ** * * *
572795 TGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGG-TT-TTAA-GAGGCGTCTTGCTCT
64 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTAAAAAGGAGGTGCCCTGCTCT
*
572856 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAGAAAAG-GTGCCCTGCTTTTT
128 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAG----GCGT--CCTGCTCTTT
* * * *
572920 GAGGACTAGAAAAATGCCACCGACTCGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGAT
185 GAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAG
* * * *
572979 GACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAGGCGTCCTACTCTTTGAGGA-TT
249 GACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCGTCCTGCTCTTTGAGGACTA
573038 GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT--GA
314 G-AAAATGCCACCAACTTGTGTGGGCTTT----G-AAAAGGCATCCTGCTCTTTGAGGACTGGGA
* * *
573101 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTGCTCTTTGAGGACTAGAAAAT
373 A-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAT
* * *
573166 GCCACCGACTCGTGTGGGCTTTGAAAAGCG
431 GCCACCAACTTGTGTGGGCTTTGAAAGGCG
** * * * * * *
573196 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGTGTCAT
1 TCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCCT
*
573261 GCTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGGAAAGGTGCCCTGCTC
65 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TTAAAAAGG--AGGTGCCCTGCTC
*
573325 TTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
127 TTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
* *
573389 TGGGAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGAGGACTAGA
191 TGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGA
* *
573448 AAATGCCACCAACTTGTGTGGGCTTT-----GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATG
256 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATG
** * *
573508 CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATTATGCTCTTTGAGGACT--AAAGGTGTCA
321 CCACCAACTTGTGTGGGCTTT----G-AAAAGGCATCCTGCTCTTTGAGGACTGGGAA-GTGCCA
* * * *
573571 CCAGCTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCATCGA
380 CCAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAA
* *
573636 CTCGTGTGGGCTTTGATAGGCG
439 CTTGTGTGGGCTTTGAAAGGCG
* * *
573658 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCCT
* * *
573723 GCTCTTTGAGGACTG-AAGGTGCCACTAGCTTGTGTGGGCTTTAAAAAGGAAAGGTGCCCTGCTT
65 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TTAAAAAGG--AGGTGCCCTGCTC
* ** * *
573787 TTTGAGGAATGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCATGCTCTTTG
127 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG--AA-AG---GCGTCCTGCTCTTTG
* * *
573852 AGGACTGGAAAAGTGCCACCAACTTGTGTGGCCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGG
186 AGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGG
* * * * *
573917 GCT-GAAGGTGCCACTAGCTTGTGTGGGCTTT---A--AAAGGCATCCTGCTCTTTGAGGACT-G
250 ACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCGTCCTGCTCTTTGAGGACTAG
573975 AAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGG
315 AAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGG
574009 AAAAAGACGT
Statistics
Matches: 1930, Mismatches: 177, Indels: 187
0.84 0.08 0.08
Matches are distributed among these distances:
450 41 0.02
451 2 0.00
452 2 0.00
455 7 0.00
456 44 0.02
457 103 0.05
460 4 0.00
461 5 0.00
462 665 0.34
463 103 0.05
464 165 0.09
465 177 0.09
466 14 0.01
467 27 0.01
468 105 0.05
469 30 0.02
470 117 0.06
471 72 0.04
472 3 0.00
473 76 0.04
474 99 0.05
475 43 0.02
476 26 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (460 bp):
TCCTGCTCTTTGAGGACTAAAAATGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCCTG
CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTAAAAAGGAGGTGCCCTGCTCTTTG
AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAA
AATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTG
CCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACC
AACTTGTGTGGGCTTTGAAAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGT
GGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAA
AGGCG
Found at i:579683 original size:79 final size:79
Alignment explanation
Indices: 579559--579784 Score: 206
Period size: 79 Copynumber: 2.9 Consensus size: 79
579549 TGAGAAATTT
* * * * * *
579559 AATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCT-TGAAAATAACGGGGTTGGAGTATCC
1 AATATTTCGGAAATAA-AACCGGGATTAGAGTATCCCCTCAG-AAATAAAGGGGTTGGAGTATCC
* *
579622 CCGGTTGTGAAAAATC
64 CCGATTATGAAAAATC
* *
579638 GATGA-TTCGGAAATAAAATCGGGATTAGAGTATCCCCTCAGAAATAAAGGGGTTGGAGTATCCC
1 AAT-ATTTCGGAAATAAAACCGGGATTAGAGTATCCCCTCAGAAATAAAGGGGTTGGAGTATCCC
* *
579702 CAATTATGAGAAATC
65 CGATTATGAAAAATC
* * * * * * *** *
579717 AATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGGGGTAATGGGGTTGGAGTATCCCC
1 AATATTTCGGAAATAAAACCGGGATTAGAGTATCCCCTCAGAAATAAAGGGGTTGGAGTATCCCC
579782 GAT
66 GAT
579785 GAAATAACGA
Statistics
Matches: 119, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
78 3 0.03
79 114 0.96
80 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (79 bp):
AATATTTCGGAAATAAAACCGGGATTAGAGTATCCCCTCAGAAATAAAGGGGTTGGAGTATCCCC
GATTATGAAAAATC
Found at i:579904 original size:53 final size:51
Alignment explanation
Indices: 579795--580192 Score: 237
Period size: 52 Copynumber: 7.6 Consensus size: 51
579785 GAAATAACGA
* * * *
579795 GGTTAGAGTATCCTCGA-TGTGAAAAATTGGTGTTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAATCGG
*
579846 AGTTGGAGTATCCCCGATT-TAAAGAAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGT---GAAAAATTGGTGTTTTGAAAATAAAATCGG
* * *
579899 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAAATAAAATCGG
* *** * ** **
579951 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGGAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGG
* *** * * * ***** * *
580002 GGTTGGAGTATCCCCTCGGA-GGT-AACGGGGTTAGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTAT-CCC-C-GATTGTGAA--AAATTGGTGTTTTGAAAAT-AAA-ATCGG
* * * * *
580058 GGTTGAAGTATCCTCGATTGTAAAAAATTGGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAATCGG
* * ** * * * *
580110 AGTCGGAGTATCCCCGATTAAAGGAAAATTGGTATTTTGAAAATATAATTGG
1 GGTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGAAAATAAAATCGG
*
580162 GGTTGGAGTATCCCCGATTATGAAAAATTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGG
580193 GAAACTTAAC
Statistics
Matches: 261, Mismatches: 69, Indels: 34
0.72 0.19 0.09
Matches are distributed among these distances:
51 61 0.23
52 99 0.38
53 54 0.21
54 28 0.11
55 7 0.03
56 12 0.05
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGG
Found at i:579956 original size:52 final size:51
Alignment explanation
Indices: 579795--580016 Score: 232
Period size: 51 Copynumber: 4.3 Consensus size: 51
579785 GAAATAACGA
* * * * **
579795 GGTTAGAGTATCCTCGA-TGTGAAAAATTGGTGTTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTG-TTTTGAAAATAAAACCGG
* * *
579846 AGTTGGAGTATCCCCGATT-TAAAGAAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGT---GAAAAATTAGTGTTTTGAAAATAAAACCGG
*
579899 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT-GAAAATAAAACCGG
* * * * ** *
579951 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGGAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGG
580002 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
580017 TCGGAGGTAA
Statistics
Matches: 148, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
51 55 0.37
52 46 0.31
53 34 0.23
54 13 0.09
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:580153 original size:263 final size:263
Alignment explanation
Indices: 579686--580190 Score: 852
Period size: 263 Copynumber: 1.9 Consensus size: 263
579676 CAGAAATAAA
*
579686 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
* * * *
579751 CCCTCGGGGGTAATGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATGTG
66 CCCTCGGAGGTAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATGTA
** * *
579816 AAAAATTGGTGTTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTTAAAGAAAAATTGGTG
131 AAAAATTGGTGTTTTTGGAAATAAAATCAGAGTCGGAGTATCCCCGATTTAAAGAAAAATTGGTA
*
579881 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAAATAAA
196 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAAAAAATAAA
579946 ACC
261 ACC
*
579949 GGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
580014 CCCTCGGAGGTAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTT-GAAGTATCCTCGATTG
66 CCCTCGGAGGTAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTAG-AGTATCCTCGA-TG
*
580078 TAAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTCGGAGTATCCCCGA-TTAAAGGAAAATTGG
129 TAAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTCGGAGTATCCCCGATTTAAAGAAAAATTGG
* *
580142 TATTTTGAAAATATAATTGGGGTTGGAGTATCCCCGATTATGAAAAATT
194 TATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATT
580191 GGGAAACTTA
Statistics
Matches: 226, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
262 1 0.00
263 178 0.79
264 47 0.21
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (263 bp):
GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
CCCTCGGAGGTAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATGTA
AAAAATTGGTGTTTTTGGAAATAAAATCAGAGTCGGAGTATCCCCGATTTAAAGAAAAATTGGTA
TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAAAAAATAAA
ACC
Found at i:581095 original size:33 final size:33
Alignment explanation
Indices: 581058--581122 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
581048 TTGAAGTTGC
*
581058 TCATATCTTCTT-TTTCCTTTTTCTCTTGCTTCT
1 TCATATCTTCTTCTTT-CTTCTTCTCTTGCTTCT
581091 TCATATCTTCTTCTTTCTTCTTCTCTTGCTTC
1 TCATATCTTCTTCTTTCTTCTTCTCTTGCTTC
581123 CTCTAACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.06, C:0.29, G:0.03, T:0.62
Consensus pattern (33 bp):
TCATATCTTCTTCTTTCTTCTTCTCTTGCTTCT
Found at i:583012 original size:41 final size:41
Alignment explanation
Indices: 582960--583045 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
582950 TGAAACGTCG
* *
582960 CTATATGATTTTATTTAGCGACGTTTTA-ATGTAAAATGCCA
1 CTATATAATTTTATTTAGAGACGTTTTACAT-TAAAATGCCA
* *
583001 CTATATAATTTTATTTAGAGGCGTTTTACATTAAAATGCCG
1 CTATATAATTTTATTTAGAGACGTTTTACATTAAAATGCCA
583042 CTAT
1 CTAT
583046 GAATTATCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 38 0.95
42 2 0.05
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (41 bp):
CTATATAATTTTATTTAGAGACGTTTTACATTAAAATGCCA
Found at i:583395 original size:30 final size:30
Alignment explanation
Indices: 583344--583426 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 30
583334 TAGACTATGG
* *
583344 AAATAATCTAAATGACCTTAAAATGAATGA
1 AAATAACCTAAATGACCTTAAAATGAAGGA
* *
583374 AAATTA-CTAAATGATCCTT-AAATTAAGGA
1 AAATAACCTAAATGA-CCTTAAAATGAAGGA
*
583403 CAATAACCTAAATGACCTTAAAAT
1 AAATAACCTAAATGACCTTAAAAT
583427 ACATAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 24 0.53
30 21 0.47
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (30 bp):
AAATAACCTAAATGACCTTAAAATGAAGGA
Found at i:583414 original size:59 final size:59
Alignment explanation
Indices: 583344--583555 Score: 180
Period size: 59 Copynumber: 3.6 Consensus size: 59
583334 TAGACTATGG
*
583344 AAATAATCTAAATGACCTTAAAATGAATGAAAATTACTAAATGATCCTTAAATTAAGGA
1 AAATAACCTAAATGACCTTAAAATGAATGAAAATTACTAAATGATCCTTAAATTAAGGA
* * ** *
583403 CAATAACCTAAATGACCTTAAAAT-ACATAAAAATTA-TGAAAT-AGTCCTTAAATTGTGAA
1 AAATAACCTAAATGACCTTAAAATGA-ATGAAAATTACT-AAATGA-TCCTTAAATTAAGGA
* *** ** * * * * *
583462 AAATAACATAAGCAATTTTAAAATGAATGGAAATTGCTAAATGGTCTTTAGATTATA-GA
1 AAATAACCTAAATGACCTTAAAATGAATGAAAATTACTAAATGATCCTTAAATTA-AGGA
* **
583521 AAATAACCTAAATGACATTAAAATTCATGAAAATT
1 AAATAACCTAAATGACCTTAAAATGAATGAAAATT
583556 TATACACATG
Statistics
Matches: 115, Mismatches: 31, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
58 3 0.03
59 110 0.96
60 2 0.02
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (59 bp):
AAATAACCTAAATGACCTTAAAATGAATGAAAATTACTAAATGATCCTTAAATTAAGGA
Found at i:584769 original size:80 final size:78
Alignment explanation
Indices: 584685--584893 Score: 253
Period size: 80 Copynumber: 2.7 Consensus size: 78
584675 TGGAAGTGAT
* * *
584685 GGGGTTGGAGTATCCCTGATGGTGAAAAA-TTAATATTTTAAAAATAAAAATGGGGGTTAAAGTA
1 GGGGTTGGAGTATCCCTGA-GATGAAAAATTTAATATTTTGAAAATAAAAA-CGGGGTTAAAGTA
* ***
584749 TCTCTTTGGAAATAAC
64 TC-CCTAAAAAATAAC
* *
584765 GGGGTTGGAGTATCCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACGGGGTTGAAGTAT
1 GGGGTTGGAGTAT-CCCTGAGATGAAAAATTTAATATTTTGAAAATAAAAACGGGGTTAAAGTAT
*
584830 CCCTAAAAAATAAT
65 CCCTAAAAAATAAC
*
584844 GGGGTTGGAGTAT-CCTCGCGAT-AAAAATTTAATATTTTGAAAATAAAAAC
1 GGGGTTGGAGTATCCCT-GAGATGAAAAATTTAATATTTTGAAAATAAAAAC
584894 CGTGATGGAA
Statistics
Matches: 114, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
77 30 0.26
78 4 0.04
79 21 0.18
80 34 0.30
81 25 0.22
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCTGAGATGAAAAATTTAATATTTTGAAAATAAAAACGGGGTTAAAGTATC
CCTAAAAAATAAC
Found at i:584923 original size:112 final size:113
Alignment explanation
Indices: 584785--585006 Score: 299
Period size: 112 Copynumber: 2.0 Consensus size: 113
584775 TATCCCCCGA
*
584785 GATGAAAAATTTAATATTTTGAAAATAAAAACGGGGTTGAAGTATCCC-TAAAAAATAATGGGGT
1 GATGAAAAATTTAATATTTTGAAAATAAAAACGGGGTTG-AGAATCCCTTAAAAAATAATGGGGT
*
584849 TGGAGTAT-CCTCGCGAT-AAAAATTTAATA-TTTTGAAAATAAAAACCGT
65 TGGAGTATCCCT-GAGATGAAAAATTTAATATTTTTG-AAATAAAAACCGT
* * * * * * *
584897 GATGGAAAATTTAATATTTTGGAAATAAAAACGGGGTTGGGAATCCCTTCAGAATTGATGGGGTT
1 GATGAAAAATTTAATATTTTGAAAATAAAAACGGGGTTGAGAATCCCTTAAAAAATAATGGGGTT
*
584962 GGAGTATCCCTGAGATGAAAATTTTAATATTTTTGAAATAAAAAC
66 GGAGTATCCCTGAGATGAAAAATTTAATATTTTTGAAATAAAAAC
585007 GGGGTTGGAG
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
111 6 0.06
112 61 0.64
113 24 0.25
114 5 0.05
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (113 bp):
GATGAAAAATTTAATATTTTGAAAATAAAAACGGGGTTGAGAATCCCTTAAAAAATAATGGGGTT
GGAGTATCCCTGAGATGAAAAATTTAATATTTTTGAAATAAAAACCGT
Found at i:585060 original size:79 final size:78
Alignment explanation
Indices: 584892--585233 Score: 322
Period size: 78 Copynumber: 4.4 Consensus size: 78
584882 GAAAATAAAA
* * * * * * *
584892 ACCGTGATGGAAAATTTAATATTTTGGAAATAAAAACGGGGTTGG-GAATCCCTTCAGAATTGAT
1 ACCGAGAT-GAAAATTTAATATTTTTGAAATAAAAACGGGGTTGGAGTATCTCTTCAGAAATAAC
584956 GGGGTTGGAGTATC
65 GGGGTTGGAGTATC
**
584970 -CCTGAGATGAAAATTTTAATATTTTTGAAATAAAAACGGGGTTGGAGTATCTCTTTGGAAATAA
1 ACC-GAGATGAAAA-TTTAATATTTTTGAAATAAAAACGGGGTTGGAGTATCTCTTCAGAAATAA
585034 CGGGGTTGGAGTATC
64 CGGGGTTGGAGTATC
* * ** * * * * *
585049 ATCGAGATGAAAAATCGATATTTTGGAAGTATAAATGGGGTTGGAGTATC-CTT-AGAAAATAAT
1 ACCGAGATGAAAATTTAATATTTTTGAAATAAAAACGGGGTTGGAGTATCTCTTCAG-AAATAAC
*
585112 GAGGTTGGAGTATC
65 GGGGTTGGAGTATC
* *
585126 -CTCGCA-ATAAAAAATTTAATA-TTATGAAAATAAAAACGGGGTTGGAGTAT-TCTCTCAGAAA
1 AC-CG-AGAT-GAAAATTTAATATTTTTG-AAATAAAAACGGGGTTGGAGTATCTCT-TCAGAAA
*
585187 TAACGGGGTTGGAATATC
61 TAACGGGGTTGGAGTATC
* * *
585205 ACCAAGATGAAAAATTGATATTTTTGAAA
1 ACCGAGATGAAAATTTAATATTTTTGAAA
585234 AGAAAAATTT
Statistics
Matches: 211, Mismatches: 38, Indels: 30
0.76 0.14 0.11
Matches are distributed among these distances:
76 1 0.00
77 36 0.17
78 108 0.51
79 62 0.29
80 4 0.02
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (78 bp):
ACCGAGATGAAAATTTAATATTTTTGAAATAAAAACGGGGTTGGAGTATCTCTTCAGAAATAACG
GGGTTGGAGTATC
Found at i:585144 original size:156 final size:156
Alignment explanation
Indices: 584910--585233 Score: 399
Period size: 156 Copynumber: 2.1 Consensus size: 156
584900 GGAAAATTTA
* * *
584910 ATATTTTGGAAATAAAAACGGGGTTGGGAATCCCTTCAGAATTGATGGGGTTGGAGTATCCCTGA
1 ATATTTTGGAAATAAAAACGGGGTTGGGAATCCCTTCAGAAATAATGAGGTTGGAGTATCCCTGA
* * * **
584975 GATGAAAATTTTAATATTTTTG-AAATAAAAACGGGGTTGGAGTA-TCTCTTTGGAAATAACGGG
66 GATAAAAAATTTAATA-TTATGAAAATAAAAACGGGGTTGGAGTATTCTC-TCAGAAATAACGGG
* * *
585038 GTTGGAGTATCATCGAGATGAAAAATCG
129 GTTGGAATATCACCAAGATGAAAAATCG
* * * *
585066 ATATTTTGGAAGTATAAATGGGGTTGGAGTAT-CCTT-AGAAAATAATGAGGTTGGAGTAT-CCT
1 ATATTTTGGAAATAAAAACGGGGTTGG-GAATCCCTTCAG-AAATAATGAGGTTGGAGTATCCCT
585128 CGCA-ATAAAAAATTTAATATTATGAAAATAAAAACGGGGTTGGAGTATTCTCTCAGAAATAACG
64 -G-AGATAAAAAATTTAATATTATGAAAATAAAAACGGGGTTGGAGTATTCTCTCAGAAATAACG
*
585192 GGGTTGGAATATCACCAAGATGAAAAATTG
127 GGGTTGGAATATCACCAAGATGAAAAATCG
*
585222 ATATTTTTGAAA
1 ATATTTTGGAAA
585234 AGAAAAATTT
Statistics
Matches: 144, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
155 9 0.06
156 127 0.88
157 8 0.06
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.30
Consensus pattern (156 bp):
ATATTTTGGAAATAAAAACGGGGTTGGGAATCCCTTCAGAAATAATGAGGTTGGAGTATCCCTGA
GATAAAAAATTTAATATTATGAAAATAAAAACGGGGTTGGAGTATTCTCTCAGAAATAACGGGGT
TGGAATATCACCAAGATGAAAAATCG
Found at i:585234 original size:79 final size:79
Alignment explanation
Indices: 584913--585240 Score: 289
Period size: 79 Copynumber: 4.2 Consensus size: 79
584903 AAATTTAATA
* * * * * * *
584913 TTTTGGAAATAAAAACGGGGTTGG-GAATCCCTTCAGAATTGATGGGGTTGGAGTATCCCTGAGA
1 TTTTGAAAATAAAAACGGGGTTGGAGTATCTCTTCAGAAATAACGGGGTTGGAGTATCCCGGAGA
* *
584977 TGAAAATTTTAATAT
66 TGAAAA-ATTGATAT
** *
584992 TTTTG-AAATAAAAACGGGGTTGGAGTATCTCTTTGGAAATAACGGGGTTGGAGTATCATC-GAG
1 TTTTGAAAATAAAAACGGGGTTGGAGTATCTCTTCAGAAATAACGGGGTTGGAGTATC-CCGGAG
*
585055 ATGAAAAATCGATA-
65 ATGAAAAATTGATAT
* * * * * * *
585069 TTTTGGAAGTATAAATGGGGTTGGAGTATC-CTT-AGAAAATAATGAGGTTGGAGTATCCTCGCA
1 TTTTGAAAATAAAAACGGGGTTGGAGTATCTCTTCAG-AAATAACGGGGTTGGAGTATCC-CGGA
* *
585132 -ATAAAAAATTTA-AT
64 GATGAAAAATTGATAT
* * *
585146 ATTATGAAAATAAAAACGGGGTTGGAGTAT-TCTCTCAGAAATAACGGGGTTGGAATATCACC-A
1 -TTTTGAAAATAAAAACGGGGTTGGAGTATCTCT-TCAGAAATAACGGGGTTGGAGTATC-CCGG
585209 AGATGAAAAATTGATAT
63 AGATGAAAAATTGATAT
*
585226 TTTTGAAAAGAAAAA
1 TTTTGAAAATAAAAA
585241 TTTAGAAATT
Statistics
Matches: 200, Mismatches: 35, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
76 2 0.01
77 37 0.19
78 71 0.35
79 84 0.42
80 6 0.03
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (79 bp):
TTTTGAAAATAAAAACGGGGTTGGAGTATCTCTTCAGAAATAACGGGGTTGGAGTATCCCGGAGA
TGAAAAATTGATAT
Found at i:601155 original size:8 final size:8
Alignment explanation
Indices: 601142--601209 Score: 57
Period size: 8 Copynumber: 8.0 Consensus size: 8
601132 TTCATACCCA
601142 AAAAAAAC
1 AAAAAAAC
601150 AAAAAAA-
1 AAAAAAAC
*
601157 ATAAAAAAA
1 A-AAAAAAC
601166 AGTAAAAAAC
1 A--AAAAAAC
*
601176 AAAAAAAAT
1 -AAAAAAAC
*
601185 AAAAAAAT
1 AAAAAAAC
601193 AAAAAAAC
1 AAAAAAAC
601201 AGAAAAAAC
1 A-AAAAAAC
601210 CAAGGAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
7 1 0.02
8 29 0.56
9 14 0.27
10 7 0.13
11 1 0.02
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (8 bp):
AAAAAAAC
Found at i:601173 original size:26 final size:25
Alignment explanation
Indices: 601142--601208 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 25
601132 TTCATACCCA
601142 AAAAAAACAAAAAAAATAAAAAAA-
1 AAAAAAACAAAAAAAATAAAAAAAT
601166 AGTAAAAAACAAAAAAAATAAAAAAAT
1 A--AAAAAACAAAAAAAATAAAAAAAT
*
601193 AAAAAAACAGAAAAAA
1 AAAAAAACAAAAAAAA
601209 CCAAGGAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.36
26 23 0.59
27 1 0.03
ACGTcount: A:0.87, C:0.04, G:0.03, T:0.06
Consensus pattern (25 bp):
AAAAAAACAAAAAAAATAAAAAAAT
Found at i:601219 original size:1 final size:1
Alignment explanation
Indices: 601141--601199 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
601131 CTTCATACCC
* * ** * * *
601141 AAAAAAAACAAAAAAAATAAAAAAAAGTAAAAAACAAAAAAAATAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
601200 CAGAAAAAAC
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.03, G:0.02, T:0.07
Consensus pattern (1 bp):
A
Found at i:601237 original size:9 final size:9
Alignment explanation
Indices: 601141--601231 Score: 71
Period size: 9 Copynumber: 9.8 Consensus size: 9
601131 CTTCATACCC
*
601141 AAAAAAAAC
1 AAAAAAAAT
601150 AAAAAAAAT
1 AAAAAAAAT
601159 AAAAAAAAGT
1 AAAAAAAA-T
*
601169 --AAAAAAC
1 AAAAAAAAT
601176 AAAAAAAAT
1 AAAAAAAAT
601185 -AAAAAAAT
1 AAAAAAAAT
*
601193 AAAAAAACAG
1 AAAAAAA-AT
*
601203 AAAAAACCAAGG
1 AAAAAA--AA-T
601215 AAAAAATAAT
1 AAAAAA-AAT
601225 AAAAAAA
1 AAAAAAA
601232 CGAAAAGGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
8 14 0.21
9 29 0.43
10 14 0.21
11 3 0.04
12 8 0.12
ACGTcount: A:0.84, C:0.05, G:0.04, T:0.07
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:602491 original size:28 final size:28
Alignment explanation
Indices: 602450--603008 Score: 668
Period size: 28 Copynumber: 19.5 Consensus size: 28
602440 CGTTCATCTC
*
602450 TTCAAAGCCCACAAGTCAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
602478 TTCAAATCCTACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
602506 TTCAAAGCCCACAAGTCAGTAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* **
602534 TTCAAAGCCCACAAGTCAATGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
602563 TTCAAAGCCCACACGAGTCGGTGGCCACTCTT
1 TTCAAAGCCCACA--AGTCAGTGG-CAC-CCT
* * ***
602595 TTCAAAGCCCACAAGTTAGTGGTATTTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
602623 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
602651 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
602680 TTCAAAGCCCACACGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
602712 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
602740 TTCAAAGCCCACAAGTCGGTGGAAACTATT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* *
602770 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
602798 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
602826 TTCAAAGCCCACAAGTCAGTGGCACACT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
****
602854 TTCAAAGCCCACAAGTCAGTGGCGTTTTT
1 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
* * *
602883 TTCAAAACCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
602911 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
602939 TTCAAATCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
602967 TTCAAAGCCTACAAGTCAGTAGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
602996 TTCAAAGCCCACA
1 TTCAAAGCCCACA
603009 TAAGTCGGTG
Statistics
Matches: 459, Mismatches: 60, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
28 297 0.65
29 69 0.15
30 38 0.08
31 17 0.04
32 38 0.08
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:602683 original size:117 final size:112
Alignment explanation
Indices: 602444--603054 Score: 709
Period size: 117 Copynumber: 5.3 Consensus size: 112
602434 CTAGAACGTT
* * * * *
602444 CATCTCTTCAAAGCCCACAAGTCAGTGGAACCCTTTCAAATCCTACAAGTCAATGGCACCCTTTC
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
602509 AAAGCCCACAAGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAATGG
66 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG
* * * * * **
602556 CACTTTTTTCAAAGCCCACACGAGTCGGTGGCCACTCTTTTCAAAGCCCACAAGTTAGTGGTATT
1 CA-TCTTTTCAAAGCCCACA--AGTCAGTGG-CAC-CCTTTCAAAGCCCACAAGTCAGTGGCACC
* *
602621 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG
61 CTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG
* *
602673 CACTCTTTTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATC
1 CA-TCTTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACC
* * * *
602738 CTTTCAAAGCCCACAAGTCGGTGGAAACTATTTTCAAAGCCCATAAGTCAGTGG
61 CTTTCAAAGCCCACAAGTCAGTGG-CAC-CTTTTCAAAGCCCACAAGTCAGTGG
* *
602792 CATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACACTTTC
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
*** * *
602857 AAAGCCCACAAGTCAGTGGCGTTTTTTTCAAAACCCACAAGTCAATGG
66 AAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAGCCCACAAGTCAGTGG
* *
602905 CATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAATCCCACAAGTCAGTGGCACCCTTTC
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
602970 AAAGCCTACAAGTCAGTAGCACTCTTTTCAAAGCCCACATAAGTCGGTGG
66 AAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCAC--AAGTCAGTGG
* *
603020 CAATTCTTTTCAAAGCTCATACAAGTTAGTGGCAC
1 C-A-TCTTTTCAAAGC-C-CACAAGTCAGTGGCAC
603055 ATTTTTTTTA
Statistics
Matches: 432, Mismatches: 51, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
112 2 0.00
113 130 0.30
114 49 0.11
115 19 0.04
116 14 0.03
117 161 0.37
118 19 0.04
119 38 0.09
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (112 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:605285 original size:13 final size:13
Alignment explanation
Indices: 605267--605297 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
605257 ACATTTCTTC
605267 ATGTATCGATACA
1 ATGTATCGATACA
605280 ATGTATCGATACA
1 ATGTATCGATACA
*
605293 TTGTA
1 ATGTA
605298 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:605387 original size:19 final size:19
Alignment explanation
Indices: 605342--605398 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
605332 CTGCCAGTTT
**
605342 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
605363 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
605382 CATGTATCGATACAATG
1 CATGTATCGATACAATG
605399 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:605401 original size:13 final size:13
Alignment explanation
Indices: 605383--605409 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
605373 TACAATGAAC
605383 ATGTATCGATACA
1 ATGTATCGATACA
605396 ATGTATCGATACA
1 ATGTATCGATACA
605409 A
1 A
605410 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:605424 original size:33 final size:32
Alignment explanation
Indices: 605364--605428 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
605354 CAATTTGTCC
*
605364 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
605396 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
605429 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:606024 original size:19 final size:19
Alignment explanation
Indices: 605962--606024 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
605952 TTTAAAAAAT
*
605962 TCTCCCCCTTAAACGATTA
1 TCTCCCCCTTAAACAATTA
* * **
605981 TCTCCTCCTTTATAAAAAAAAA
1 TCTCC-CC-CT-TAAACAATTA
606003 TCTCCCCCTTAAACAATTA
1 TCTCCCCCTTAAACAATTA
606022 TCT
1 TCT
606025 TCTCCCCCTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 3 0.09
22 11 0.34
ACGTcount: A:0.33, C:0.32, G:0.02, T:0.33
Consensus pattern (19 bp):
TCTCCCCCTTAAACAATTA
Found at i:607897 original size:13 final size:13
Alignment explanation
Indices: 607879--607906 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
607869 AATAGTACCT
607879 AATGTATCGATAC
1 AATGTATCGATAC
607892 AATGTATCGATAC
1 AATGTATCGATAC
607905 AA
1 AA
607907 GGAATGTTGT
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:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:614038 original size:33 final size:33
Alignment explanation
Indices: 614001--614067 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
613991 GTTACAAGCT
*
614001 ATGTATCGATACATT-TCTTCATGTATCGATACA
1 ATGTATCGATACATTGT-ATCATGTATCGATACA
614034 ATGTATCGATACATTGTATCATGTATCGATACA
1 ATGTATCGATACATTGTATCATGTATCGATACA
614067 A
1 A
614068 ATAGTGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTGTATCATGTATCGATACA
Found at i:614039 original size:13 final size:13
Alignment explanation
Indices: 614021--614053 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
614011 ACATTTCTTC
614021 ATGTATCGATACA
1 ATGTATCGATACA
614034 ATGTATCGATACA
1 ATGTATCGATACA
*
614047 TTGTATC
1 ATGTATC
614054 ATGTATCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:615808 original size:20 final size:20
Alignment explanation
Indices: 615766--615819 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
615756 GTTAGAAGCA
* *
615766 ATGTATTGATACAATTCATC
1 ATGTATCGATACAATTCACC
615786 ATGTATCGATACAATGT-ACC
1 ATGTATCGATACAAT-TCACC
*
615806 ATGTATCAATACAA
1 ATGTATCGATACAA
615820 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:620482 original size:27 final size:27
Alignment explanation
Indices: 620444--621070 Score: 643
Period size: 27 Copynumber: 23.0 Consensus size: 27
620434 TTTCTTTTCA
*
620444 AAGTCCATAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
620471 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
620498 AAAGTTCACAAATCCATGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
*
620526 AAAGTCCACAACTCCGTGCCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
620554 AAGTCCACAACT-CGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
620580 AAGTCCACAACTCCATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
620607 AAGGTCCACCACTTCGTGGTACCCTTTT
1 AA-GTCCACAACTCCGTGGCATCCTTTT
* *
620635 AAGTTCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
620662 AAGTCCACAACTTCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
620689 AAGTCCATAACTCCGTGGCATCCGTTTC
1 AAGTCCACAACTCCGTGGCATCC-TTTT
* * *
620717 AAGT-C-TAACTCCGTGGCGTTCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
620742 AAAGTCCATAACTTCGTGGTACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
*
620770 AAGTCCACAACTTCGTGGCA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
*
620797 AAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
620824 AAGTCCACAACTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
620851 AAGTCCACAACTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
620878 AAGTCCACAACTTCGTGGCA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
*
620905 AAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
620932 AAGTCCACAACTTCGTGGCATCTTTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* * * * **
620960 AAGCCCACAAGTCAGTGGCACCCTTCCA
1 AAGTCCACAACTCCGTGGCATCCTT-TT
* *
620988 AAGTCCACAACTTCATGGCATCCTTTTT
1 AAGTCCACAACTCCGTGGCATCC-TTTT
* * ** * *
621016 AAGCCCACAAGTTAGTGGCACCCTTTC
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
621043 ACAGCCCACAAGTCAGTGGCACCCTTTT
1 A-AGTCCACAACTCCGTGGCATCCTTTT
621071 TTAAGCCCAC
Statistics
Matches: 509, Mismatches: 76, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
25 3 0.01
26 43 0.08
27 288 0.57
28 173 0.34
29 2 0.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:621227 original size:28 final size:28
Alignment explanation
Indices: 620439--621589 Score: 579
Period size: 28 Copynumber: 40.9 Consensus size: 28
620429 TGGCATTTCT
* * *
620439 TTTCAAAGTCCATAACTCCGTGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* * *
620467 TTT-TAAGTCCACAACTCCGTGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* * * *
620494 TTTTAAAGTTCACAAATCCA-TGGCACCC
1 TTTCAAAGTCCACAAGT-CAGTGGCATCC
* * * *
620522 TTTTAAAGTCCACAACTCCGTGCCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* * *
620550 TTT-TAAGTCCACAACTC-GTGGCACCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* *
620576 TTT-AAAGTCCACAACTCCA-TGGCACCC
1 TTTCAAAGTCCACAAGT-CAGTGGCATCC
* * ** * *
620603 TTTTAAGGTCCACCACTTC-GTGGTACCC
1 TTTCAAAGTCCA-CAAGTCAGTGGCATCC
* * * *
620631 TTT-TAAGTTCACAACTCTGTGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* * *
620658 TTT-TAAGTCCACAACTTC-GTGGCACCC
1 TTTCAAAGTCCACAA-GTCAGTGGCATCC
* * * *
620685 TTT-TAAGTCCATAACTCCGTGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* * * * *
620712 GTTTC-AAGT-C-TAACTCCGTGGCGTTC
1 -TTTCAAAGTCCACAAGTCAGTGGCATCC
* * * * *
620738 TTTTAAAGTCCATAACTTC-GTGGTACCC
1 TTTCAAAGTCCACAA-GTCAGTGGCATCC
* *
620766 TTT-TAAGTCCACAACTTC-GTGGCA-CTC
1 TTTCAAAGTCCACAA-GTCAGTGGCATC-C
* *
620793 TTT-TAAGTCCACAACTCCA-TGGCATCC
1 TTTCAAAGTCCACAAGT-CAGTGGCATCC
* *
620820 TTT-TAAGTCCACAACTTC-GTGGCATCC
1 TTTCAAAGTCCACAA-GTCAGTGGCATCC
* *
620847 TTT-TAAGTCCACAACTTC-GTGGCATCC
1 TTTCAAAGTCCACAA-GTCAGTGGCATCC
* *
620874 TTT-TAAGTCCACAACTTC-GTGGCA-CTC
1 TTTCAAAGTCCACAA-GTCAGTGGCATC-C
* *
620901 TTT-TAAGTCCACAACTCCA-TGGCATCC
1 TTTCAAAGTCCACAAGT-CAGTGGCATCC
* * *
620928 TTT-TAAGTCCACAACTTC-GTGGCATCT
1 TTTCAAAGTCCACAA-GTCAGTGGCATCC
** * *
620955 TTTTTAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* *
620983 TTCCAAAGTCCACAACTTCA-TGGCATCC
1 TTTCAAAGTCCACAA-GTCAGTGGCATCC
** * * *
621011 TTTTTAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* * *
621039 TTTCACAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
** * * * **
621067 TTTTTTAAGCCCACAAGTCAATGGTATTA
1 -TTTCAAAGTCCACAAGTCAGTGGCATCC
* * * * *
621096 ATTCAAAACCTACACAAGTCGGTGGCAACTCA
1 TTTC-AAA-GTCCACAAGTCAGTGGC-A-TCC
* * * * *
621128 TTTGAAAGCCCACACAATTCGGTGGCAACCC
1 TTTCAAAG-TC-CACAAGTCAGTGGC-ATCC
* * * *
621159 ATTTCAAAGCCCACACAAGTCGGTGGTAACC
1 -TTTCAAAG-TC-CACAAGTCAGTGGCATCC
621190 TATTTCAAAGTCCACAAGTCAGTGGCATCC
1 --TTTCAAAGTCCACAAGTCAGTGGCATCC
* * *
621220 TTTCAAAGCCCACAATTTAGTGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* *
621248 TTCTCAAAGCCCACAAGTCAGTGACATCC
1 TT-TCAAAGTCCACAAGTCAGTGGCATCC
* * *
621277 TTCTCAAAGCCCACACAAATCAATGGCATCC
1 TT-TCAAAG-TC-CACAAGTCAGTGGCATCC
*
621308 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* * *
621336 CTTCAAAGCCCACAAATCAGTGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* * *
621364 TTCTCAAAGCCCACAAGTTAGTGGCATTC
1 TT-TCAAAGTCCACAAGTCAGTGGCATCC
* *
621393 TCCTCAAAGCCCACAAGTCAGTGGCATCC
1 T-TTCAAAGTCCACAAGTCAGTGGCATCC
* *
621422 TTCTCAAAGCCCACACAAG-CAGTGGCATCT
1 TT-TCAAAG-TC-CACAAGTCAGTGGCATCC
*
621452 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* *
621480 TTTCAAAGCCCACAAGTCAATGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
*
621508 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGTCCACAAGTCAGTGGCATCC
* * *
621536 TTTCGAAG-CTCACAAGGCAATGGCATCC
1 TTTCAAAGTC-CACAAGTCAGTGGCATCC
* *
621564 TTTCAAAGCTCACATAAGTCGGTGGC
1 TTTCAAAG-TC-CACAAGTCAGTGGC
621590 TTCAAAGCCC
Statistics
Matches: 931, Mismatches: 138, Indels: 106
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.00
26 50 0.05
27 279 0.30
28 331 0.36
29 126 0.14
30 59 0.06
31 32 0.03
32 51 0.05
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
TTTCAAAGTCCACAAGTCAGTGGCATCC
Found at i:621323 original size:116 final size:114
Alignment explanation
Indices: 620946--621577 Score: 596
Period size: 116 Copynumber: 5.4 Consensus size: 114
620936 CCACAACTTC
* ** * * * *
620946 GTGGCATCTTTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGTCCACAACTTCA-TGGCATC
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAA-ATCAGTGGCATC
** * * *
621010 CTT-TTTAAGCCCACAAGTTAGTGGCACCCTT-TCACAGCCCACAAGTCA
65 CTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCA
* ** * * *** * * *
621058 GTGGCACCCTTTTTTAAGCCCACAAGTCAATGGTATTAATTCAAAACCTACACAAGTCGGTGGCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC--CACAAATCAGTGGC-
* * * * * *
621123 ACTCATT-TGAAAGCCCACACAATTCGGTGGCAACCCATT-TCAAAGCCCACACAAGTCG
62 A-TCCTTCTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTCTCAAAG-CC-CACAAGTCA
* * * * *
621181 GTGGTAACCTATTTCAAAGTCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAATTTAGTGGCAT
1 GTGGCATCC--TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCAGTGGCAT
* *
621246 CCTTCTCAAAGCCCACAAGTCAGTGACATCCTTCTCAAAGCCCACACAAATCA
64 CCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAG-CC-CACAAGTCA
* *
621299 ATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCCTTCAAAGCCCACAAATCAGTGGCATCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCAGTGGCATCC
* * *
621364 TTCTCAAAGCCCACAAGTTAGTGGCATTCTCCTCAAAGCCCACAAGTCA
66 TTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
621413 GTGGCATCCTTCTCAAAGCCCACACAAG-CAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA
1 GTGGCATCCTT-TCAAAG-CC-CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCAGTGGCA
*
621477 TCCTT-TCAAAGCCCACAAGTCAATGGCATCCTT-TCAAAGCCCACAAGTCA
63 TCCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCA
* * * * *
621527 GTGGCATCCTTTCGAAGCTCACAAGGCAATGGCATCCTTTCAAAGCTCACA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
621578 TAAGTCGGTG
Statistics
Matches: 432, Mismatches: 69, Indels: 38
0.80 0.13 0.07
Matches are distributed among these distances:
111 6 0.01
112 30 0.07
113 34 0.08
114 48 0.11
115 41 0.09
116 127 0.29
117 16 0.04
118 28 0.06
119 22 0.05
120 10 0.02
121 13 0.03
122 13 0.03
123 15 0.03
124 29 0.07
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (114 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCAGTGGCATCC
TTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCA
Found at i:621613 original size:25 final size:25
Alignment explanation
Indices: 621565--621614 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
621555 ATGGCATCCT
* *
621565 TTCAAAGCTCACATAAGTCGGTGGC
1 TTCAAAGCCCACATAAGTCAGTGGC
*
621590 TTCAAAGCCCACATAAGTTAGTGGC
1 TTCAAAGCCCACATAAGTCAGTGGC
621615 ATCTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
TTCAAAGCCCACATAAGTCAGTGGC
Found at i:629940 original size:79 final size:79
Alignment explanation
Indices: 629787--630011 Score: 267
Period size: 79 Copynumber: 2.9 Consensus size: 79
629777 AGATAAAAAT
** * * * * *
629787 GGGGTTGGAGTATCCTTGATGGTTGG-AAATCGATGTTTTGGAAA-CAAACTGAGGTTAGAGTAT
1 GGGGTTGGAGTATCCCCGATGG-TGGAAAATTGATATTTTGGAAATAAAACCGGGGTTAGAGTAT
*
629850 CCTCTCAAAAATAAC
65 CCCCTCAAAAATAAC
* *
629865 GGGGTTGGAGTATCCCCGATTGTGGAAAATTGATATTTTAGAAATAAAACCGGGGTTAGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGGAAAATTGATATTTTGGAAATAAAACCGGGGTTAGAGTATC
* *
629930 CCCTCGAAAATAAT
66 CCCTCAAAAATAAC
* * * *
629944 GGGGTTGGAGTGTCTCCGATGGTGGAAAA-TCAGTATTTTGGAAATAAAATCGGGGTTAGAGTAT
1 GGGGTTGGAGTATCCCCGATGGTGGAAAATTGA-TATTTTGGAAATAAAACCGGGGTTAGAGTAT
630008 CCCC
65 CCCC
630012 AATTGTGAAA
Statistics
Matches: 126, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
77 3 0.02
78 36 0.29
79 87 0.69
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATGGTGGAAAATTGATATTTTGGAAATAAAACCGGGGTTAGAGTATC
CCCTCAAAAATAAC
Found at i:630053 original size:45 final size:45
Alignment explanation
Indices: 630003--630112 Score: 220
Period size: 45 Copynumber: 2.4 Consensus size: 45
629993 TCGGGGTTAG
630003 AGTATCCCCAATTGTGAAAAATTGATGTTAAAATAACAGAGTTGA
1 AGTATCCCCAATTGTGAAAAATTGATGTTAAAATAACAGAGTTGA
630048 AGTATCCCCAATTGTGAAAAATTGATGTTAAAATAACAGAGTTGA
1 AGTATCCCCAATTGTGAAAAATTGATGTTAAAATAACAGAGTTGA
630093 AGTATCCCCAATTGTGAAAA
1 AGTATCCCCAATTGTGAAAA
630113 GTCAGTGTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (45 bp):
AGTATCCCCAATTGTGAAAAATTGATGTTAAAATAACAGAGTTGA
Found at i:631653 original size:17 final size:18
Alignment explanation
Indices: 631619--631665 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
631609 TCATTTTTTC
*
631619 TTTATTTTTTTTTATTAT
1 TTTATTATTTTTTATTAT
631637 TTTATTATTTTTT-TTAT
1 TTTATTATTTTTTATTAT
631654 TTT-TTGATTTTT
1 TTTATT-ATTTTT
631666 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.07
17 13 0.48
18 12 0.44
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTATTATTTTTTATTAT
Found at i:631674 original size:9 final size:9
Alignment explanation
Indices: 631613--631658 Score: 56
Period size: 10 Copynumber: 4.7 Consensus size: 9
631603 ATTTCATCAT
631613 TTTTTCTTTA
1 TTTTT-TTTA
631623 TTTTTTTTTA
1 -TTTTTTTTA
631633 TTATTTTATTA
1 TT-TTTT-TTA
631644 TTTTTTTTA
1 TTTTTTTTA
631653 TTTTTT
1 TTTTTT
631659 GATTTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 11 0.33
10 12 0.36
11 10 0.30
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:632846 original size:20 final size:21
Alignment explanation
Indices: 632817--632870 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
632807 CATTTTTGGC
*
632817 ATGTACCGATACATTCACT-T
1 ATGTATCGATACATTCACTAT
*
632837 ATGTATCGATACATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
632858 TTATATCGATACA
1 ATGTATCGATACA
632871 AATTAGAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:635018 original size:20 final size:20
Alignment explanation
Indices: 634985--635023 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
634975 TATAAGTTGC
* *
634985 TATTGCTAAAATTTTTCTAT
1 TATTGATAAAATTTATCTAT
*
635005 TATTGATAAGATTTATCTA
1 TATTGATAAAATTTATCTA
635024 GTTTATAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (20 bp):
TATTGATAAAATTTATCTAT
Found at i:635786 original size:18 final size:18
Alignment explanation
Indices: 635763--635804 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
635753 TACCAAAGTA
*
635763 ATATAAAATTAATTTGTT
1 ATATAAAATCAATTTGTT
635781 ATATAAAATCAATTTGTT
1 ATATAAAATCAATTTGTT
*
635799 AAATAA
1 ATATAA
635805 TTTATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATAAAATCAATTTGTT
Found at i:637514 original size:51 final size:51
Alignment explanation
Indices: 637459--637561 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
637449 TCAAGACGAG
* * *
637459 CTAAACAAAAAATTTAAATTTTTATTGAATCCTGCCCTGAACCAATTCAAC
1 CTAAACAAAAAATCTAAATTTTTATTAAATCCTGACCTGAACCAATTCAAC
637510 CTAAACAAAAAATCTAAATTTTTATTAAATCCTGACCTGAACCAATTCAAC
1 CTAAACAAAAAATCTAAATTTTTATTAAATCCTGACCTGAACCAATTCAAC
637561 C
1 C
637562 CAGTAACACC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (51 bp):
CTAAACAAAAAATCTAAATTTTTATTAAATCCTGACCTGAACCAATTCAAC
Found at i:638284 original size:23 final size:24
Alignment explanation
Indices: 638240--638285 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
638230 TGCTAATGTT
* *
638240 TTTTTTTAATTAAGTAATATTATA
1 TTTTATTAATTAAGTAAAATTATA
*
638264 TTTTATTAATTATG-AAAATTAT
1 TTTTATTAATTAAGTAAAATTAT
638286 TTTATGATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTATTAATTAAGTAAAATTATA
Found at i:639550 original size:24 final size:26
Alignment explanation
Indices: 639512--639572 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
639502 CAAAATTACA
*
639512 CATTTT-TCTTGTTTTTT-TCTCA-TT
1 CATTTTCTCTT-TTTTTTCTATCATTT
639536 C-TTTTCTCTTTTTTTTCTATCATTT
1 CATTTTCTCTTTTTTTTCTATCATTT
639561 CATTTTCTCTTT
1 CATTTTCTCTTT
639573 CCTCTCGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 10 0.31
24 9 0.28
25 3 0.09
26 10 0.31
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.70
Consensus pattern (26 bp):
CATTTTCTCTTTTTTTTCTATCATTT
Found at i:639631 original size:14 final size:15
Alignment explanation
Indices: 639604--639638 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
639594 TTCCATTTTC
*
639604 CTTTTTTGTCTCTTT
1 CTTTTTCGTCTCTTT
639619 CTTTTTCGT-TCTTT
1 CTTTTTCGTCTCTTT
639633 CTTTTT
1 CTTTTT
639639 ATTATTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (15 bp):
CTTTTTCGTCTCTTT
Found at i:639702 original size:9 final size:9
Alignment explanation
Indices: 639683--639728 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
639673 CTTAAAGATT
639683 TTTTTTCTTC
1 TTTTTT-TTC
639693 TTTTTTTTC
1 TTTTTTTTC
**
639702 TTTCCTTTC
1 TTTTTTTTC
639711 TTCTTTTTTC
1 TT-TTTTTTC
639721 TTTTTTTT
1 TTTTTTTT
639729 TCCTACCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 18 0.58
10 13 0.42
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:639729 original size:12 final size:12
Alignment explanation
Indices: 639681--639729 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
639671 TTCTTAAAGA
*
639681 TTTTTTTTCTTC
1 TTTTTTTTTTTC
639693 TTTTTTTTCTTTCC
1 TTTTTTTT-TTT-C
639707 TTTCTTCTTTTTTC
1 TTT-TT-TTTTTTC
639721 TTTTTTTTT
1 TTTTTTTTT
639730 CCTACCCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 12 0.38
13 4 0.12
14 8 0.25
15 5 0.16
16 3 0.09
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:639826 original size:2 final size:2
Alignment explanation
Indices: 639821--639847 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
639811 ATATATTCTT
639821 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 T
639848 GTTATAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:642261 original size:30 final size:30
Alignment explanation
Indices: 642227--642283 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
642217 TGCATTACTC
*
642227 CAAGACATATTGTTGCTAGGCACATTGCTT
1 CAAGACATATTGATGCTAGGCACATTGCTT
* *
642257 CAAGACATTTTGATGCTAGGCGCATTG
1 CAAGACATATTGATGCTAGGCACATTG
642284 GTGTTAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (30 bp):
CAAGACATATTGATGCTAGGCACATTGCTT
Found at i:647239 original size:30 final size:30
Alignment explanation
Indices: 647205--647265 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
647195 TAGCAAATCT
647205 TTCCATAATAGGTTTAGTTTCATTCATTTA
1 TTCCATAATAGGTTTAGTTTCATTCATTTA
647235 TTCCATAATAGGTTTAGTTTCATTCATTTA
1 TTCCATAATAGGTTTAGTTTCATTCATTTA
647265 T
1 T
647266 ATGACTTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (30 bp):
TTCCATAATAGGTTTAGTTTCATTCATTTA
Found at i:650858 original size:12 final size:12
Alignment explanation
Indices: 650836--650877 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
650826 TATTTGTTAA
650836 AATTATTTTATTT
1 AATT-TTTTATTT
650849 AATTTTTTATTT
1 AATTTTTTATTT
*
650861 AATTTTCTATTT
1 AATTTTTTATTT
650873 GAATT
1 -AATT
650878 ATTATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
AATTTTTTATTT
Found at i:653860 original size:28 final size:28
Alignment explanation
Indices: 653802--653857 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
653792 AAATTAGATA
* * * *
653802 AAAAAATATTATATTTTAATTTAAATTT
1 AAAAAATATCATAATTTAAGTGAAATTT
653830 AAAAAATATCATAAATTTAAGTGAAATT
1 AAAAAATATCAT-AATTTAAGTGAAATT
653858 AAATAATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (28 bp):
AAAAAATATCATAATTTAAGTGAAATTT
Found at i:653952 original size:30 final size:31
Alignment explanation
Indices: 653918--653982 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
653908 TAAATATGAT
*
653918 AATTTTTA-AAATATTAATAGGTACCCAACC
1 AATTTTAACAAATATTAATAGGTACCCAACC
* * *
653948 AA-TTTAACAAATGTTAATGGGTACCCAACG
1 AATTTTAACAAATATTAATAGGTACCCAACC
653978 AATTT
1 AATTT
653983 AACTAATCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 4 0.14
30 23 0.79
31 2 0.07
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (31 bp):
AATTTTAACAAATATTAATAGGTACCCAACC
Found at i:653983 original size:30 final size:30
Alignment explanation
Indices: 653926--653985 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
653916 ATAATTTTTA
653926 AAATATTAATAGGTACCCAACCAATTTAAC
1 AAATATTAATAGGTACCCAACCAATTTAAC
* * *
653956 AAATGTTAATGGGTACCCAACGAATTTAAC
1 AAATATTAATAGGTACCCAACCAATTTAAC
653986 TAATCTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (30 bp):
AAATATTAATAGGTACCCAACCAATTTAAC
Found at i:654844 original size:21 final size:21
Alignment explanation
Indices: 654798--654844 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
654788 AAAATAATAA
654798 TAATTAAAAATTTTAATTTAT
1 TAATTAAAAATTTTAATTTAT
* *
654819 AAATTAAAAAATTTT-ATTTTT
1 TAATT-AAAAATTTTAATTTAT
654840 TAATT
1 TAATT
654845 TTTAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTAAAAATTTTAATTTAT
Found at i:656478 original size:7 final size:7
Alignment explanation
Indices: 656466--656494 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
656456 ATAAATATAT
656466 TTTTAAA
1 TTTTAAA
656473 TTTTAAA
1 TTTTAAA
656480 TTTTAAA
1 TTTTAAA
656487 TTTTAAA
1 TTTTAAA
656494 T
1 T
656495 AATAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:656527 original size:23 final size:25
Alignment explanation
Indices: 656474--656528 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
656464 ATTTTTAAAT
*
656474 TTTAAATTTTAAATTTTAAATAATA
1 TTTAATTTTTAAATTTTAAATAATA
**
656499 AATAATTTTTAAA-TTT-AATAATA
1 TTTAATTTTTAAATTTTAAATAATA
656522 TTTAATT
1 TTTAATT
656529 ATTATTTAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 12 0.48
24 3 0.12
25 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTAATTTTTAAATTTTAAATAATA
Found at i:659188 original size:18 final size:18
Alignment explanation
Indices: 659165--659199 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
659155 TGTAATCATA
659165 TCATTTAATTTATTATTT
1 TCATTTAATTTATTATTT
*
659183 TCATTTATTTTATTATT
1 TCATTTAATTTATTATT
659200 ATTTAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TCATTTAATTTATTATTT
Found at i:661389 original size:17 final size:18
Alignment explanation
Indices: 661353--661390 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
661343 ACTATTATCT
* *
661353 AAAAAATTAAATTAATAA
1 AAAAAATTAAATGAAGAA
661371 AAAAAATTAAA-GAAGAA
1 AAAAAATTAAATGAAGAA
661388 AAA
1 AAA
661391 CCCAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAAAATTAAATGAAGAA
Found at i:661939 original size:17 final size:17
Alignment explanation
Indices: 661917--661951 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
661907 AATAAATAAG
661917 ATCATTTAATTGAAACC
1 ATCATTTAATTGAAACC
661934 ATCATTTAATTGAAACC
1 ATCATTTAATTGAAACC
661951 A
1 A
661952 ATTTAAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (17 bp):
ATCATTTAATTGAAACC
Found at i:663484 original size:13 final size:13
Alignment explanation
Indices: 663466--663490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
663456 CAATTTTTTG
663466 TGTATCGATACAT
1 TGTATCGATACAT
663479 TGTATCGATACA
1 TGTATCGATACA
663491 AGTTTGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:663567 original size:20 final size:21
Alignment explanation
Indices: 663520--663574 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
663510 AATCCCAATG
* *
663520 ACATGTATCGATACATCTTTT
1 ACATGTATCGATACATCTGTA
*
663541 TCATGTATCGATACAT-TGTA
1 ACATGTATCGATACATCTGTA
663561 ACATGTATCGATAC
1 ACATGTATCGATAC
663575 TTTGAATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (21 bp):
ACATGTATCGATACATCTGTA
Found at i:664435 original size:13 final size:13
Alignment explanation
Indices: 664417--664442 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
664407 CAATTTTTTG
664417 TGTATCGATACAT
1 TGTATCGATACAT
664430 TGTATCGATACAT
1 TGTATCGATACAT
664443 ACTTACTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.