Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397277.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2651878
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.33
Warning! 95949 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:15695 original size:60 final size:60
Alignment explanation
Indices: 15576--15697 Score: 140
Period size: 60 Copynumber: 2.0 Consensus size: 60
15566 AGACATAATC
* * * * *
15576 ACCTATTCGTGGGAATTGCCCACACCACCAGATATAAATTGGGGCTTCAGGGCCGCTTTT
1 ACCTATTCGTGGGAACTACACACACCACCAGATATAAATCGGGGCTTCAGGGCCCCTTTT
* * *
15636 ACCTATTCGTGGGAACTACATACACCACCTA-ATATGAATCGGGGCTTCCA-GTCCCCTTTT
1 ACCTATTCGTGGGAACTACACACACCACC-AGATATAAATCGGGGCTT-CAGGGCCCCTTTT
15696 AC
1 AC
15698 ATTCAAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
60 49 0.94
61 3 0.06
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (60 bp):
ACCTATTCGTGGGAACTACACACACCACCAGATATAAATCGGGGCTTCAGGGCCCCTTTT
Found at i:16784 original size:18 final size:18
Alignment explanation
Indices: 16761--16795 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
16751 TGAAAATGCA
16761 CATTGACTAATTCTTGAT
1 CATTGACTAATTCTTGAT
16779 CATTGACTAATTCTTGA
1 CATTGACTAATTCTTGA
16796 AATGATCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
CATTGACTAATTCTTGAT
Found at i:23602 original size:132 final size:132
Alignment explanation
Indices: 23308--23615 Score: 384
Period size: 132 Copynumber: 2.3 Consensus size: 132
23298 NNNNNNNNAA
*
23308 TTTCCTCAAGAAACGTCACATATATGCTTTTCTTTTGCACAAAATAGCTTTGCATTTGAATGGTT
1 TTTCCT-AAGAAACGTCACATATATGCTTTTCTTTTGCACAAAATAGCTTTGCATTTGAATGCTT
* * * *
23373 AGTATATTTGCACTAGCATGCATAAAAAAAGAGTCTATCATATGATTTTCCATCTTTTTATAGGN
65 AGCATATTTGCACTAGCATGCACAAAAAAAGAGTCTATCATATGATTTTCCATCTTGTTATAGGA
***
23438 NNN
130 AAG
****** * * *
23441 NNNNNNAAGAAACATCACATATATGCTTTTCTTTTGCACAAAATAGCTTTGTATTTGAATGCTTG
1 TTTCCTAAGAAACGTCACATATATGCTTTTCTTTTGCACAAAATAGCTTTGCATTTGAATGCTTA
23506 GCATATTTGCACTAGCATGCACAAAAAAAGAGTCTATCATATGATTTTCCATCTTGTTATA-GAA
66 GCATATTTGCACTAGCATGCACAAAAAAAGAGTCTATCATATGATTTTCCATCTTGTTATAGGAA
23570 AG
131 AG
* * * * * *
23572 TTTCCTAGAGAAACGTGAAATATTTACTTTTCCTTTACACAAAA
1 TTTCCTA-AGAAACGTCACATATATGCTTTTCTTTTGCACAAAA
23616 GCGCATCTTA
Statistics
Matches: 144, Mismatches: 30, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
131 2 0.01
132 142 0.99
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.36
Consensus pattern (132 bp):
TTTCCTAAGAAACGTCACATATATGCTTTTCTTTTGCACAAAATAGCTTTGCATTTGAATGCTTA
GCATATTTGCACTAGCATGCACAAAAAAAGAGTCTATCATATGATTTTCCATCTTGTTATAGGAA
AG
Found at i:65290 original size:24 final size:24
Alignment explanation
Indices: 65258--65310 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
65248 AAAGTTCACT
65258 TGCACCAGCAACAAG-TTCACTTGG
1 TGCACCAGC-ACAAGCTTCACTTGG
**
65282 TGCACCAGCAGTAGCTTCACTTGG
1 TGCACCAGCACAAGCTTCACTTGG
65306 TGCAC
1 TGCAC
65311 TAGNNNNNNN
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (24 bp):
TGCACCAGCACAAGCTTCACTTGG
Found at i:66479 original size:24 final size:24
Alignment explanation
Indices: 66415--66484 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
66405 CTAGCAGAGT
* * *
66415 AAGTGAAGCTGCTACTAGTGGACC
1 AAGTGAAGCTGCTGCTGGTGCACC
* *
66439 AAGTGAAGCTACAGCTGGTGCACC
1 AAGTGAAGCTGCTGCTGGTGCACC
*
66463 AAGTGAAGCTGTTGCTGGTGCA
1 AAGTGAAGCTGCTGCTGGTGCA
66485 AGTGAACTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.21
Consensus pattern (24 bp):
AAGTGAAGCTGCTGCTGGTGCACC
Found at i:77553 original size:23 final size:22
Alignment explanation
Indices: 77527--77680 Score: 94
Period size: 23 Copynumber: 6.7 Consensus size: 22
77517 TCAATCATGT
*
77527 TGTTACACACCATGTTAAAAAAA
1 TGTTACACGCCATGTT-AAAAAA
* *
77550 TGTTCCATGCCATGTTTAAAAAA
1 TGTTACACGCCATG-TTAAAAAA
* * *
77573 TGTTACATGCCATATTCAAAAA
1 TGTTACACGCCATGTTAAAAAA
* * *
77595 TGTTACAC-ACAAGTTCAAAAAT
1 TGTTACACGCCATGTT-AAAAAA
* * *
77617 TGTTTCACGCCATGTTCACAACA
1 TGTTACACGCCATGTT-AAAAAA
* * *
77640 TTTTACATGCTATGTTCAATAAAAA
1 TGTTACACGCCATGTT--A-AAAAA
*
77665 TGTTACACGTCATGTT
1 TGTTACACGCCATGTT
77681 CTAACACATG
Statistics
Matches: 97, Mismatches: 29, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
21 4 0.04
22 25 0.26
23 50 0.52
24 3 0.03
25 15 0.15
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (22 bp):
TGTTACACGCCATGTTAAAAAA
Found at i:77646 original size:67 final size:69
Alignment explanation
Indices: 77527--77672 Score: 161
Period size: 67 Copynumber: 2.1 Consensus size: 69
77517 TCAATCATGT
* * *
77527 TGTTACACACCATGTTAAAAAAATGTTCCATGCCATGTTTAAAAAATGTTACATGCCATATTC-A
1 TGTTACACACCAAGTTAAAAAAATGTTCCACGCCATGTTCAAAAAATGTTACATGCCATATTCAA
77591 AAAA
66 AAAA
* * * * * * * *
77595 TGTTACACA-CAAGTTCAAAAATTGTTTCACGCCATGTTCACAACATTTTACATGCTATGTTCAA
1 TGTTACACACCAAGTTAAAAAAATGTTCCACGCCATGTTCAAAAAATGTTACATGCCATATTC-A
77659 TAAAAA
65 -AAAAA
77665 TGTTACAC
1 TGTTACAC
77673 GTCATGTTCT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
67 42 0.66
68 9 0.14
70 13 0.20
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (69 bp):
TGTTACACACCAAGTTAAAAAAATGTTCCACGCCATGTTCAAAAAATGTTACATGCCATATTCAA
AAAA
Found at i:79075 original size:20 final size:21
Alignment explanation
Indices: 79028--79079 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
79018 GATTACGACA
*
79028 CTTGAGGATAACACTGTGATG
1 CTTGAGGATAACACTATGATG
*
79049 -TTGGAGG-TGACACTATGATG
1 CTT-GAGGATAACACTATGATG
79069 CTTGAGGATAA
1 CTTGAGGATAA
79080 TATTGCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (21 bp):
CTTGAGGATAACACTATGATG
Found at i:80343 original size:23 final size:23
Alignment explanation
Indices: 80312--80356 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
80302 ATTTTTTATT
80312 TTTTATTTTTTTCTTGCTTTTTG
1 TTTTATTTTTTTCTTGCTTTTTG
* * *
80335 TTTTGTTTTTTTTTTGTTTTTT
1 TTTTATTTTTTTCTTGCTTTTT
80357 AGGTATAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.84
Consensus pattern (23 bp):
TTTTATTTTTTTCTTGCTTTTTG
Found at i:80356 original size:11 final size:11
Alignment explanation
Indices: 80305--80356 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
80295 CCCTTTAATT
*
80305 TTTTATTTTTTA
1 TTTT-TTTTTTG
*
80317 TTTTTTTCTTG
1 TTTTTTTTTTG
*
80328 CTTTTTGTTTTG
1 -TTTTTTTTTTG
80340 TTTTTTTTTTG
1 TTTTTTTTTTG
80351 TTTTTT
1 TTTTTT
80357 AGGTATAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 21 0.62
12 13 0.38
ACGTcount: A:0.04, C:0.04, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:91472 original size:15 final size:15
Alignment explanation
Indices: 91447--91490 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
91437 TAGAAAGCTT
91447 AAAAAAT-AAATAAG
1 AAAAAATAAAATAAG
*
91461 AAAAAATAAAATAAT
1 AAAAAATAAAATAAG
*
91476 AAATAATAATAATAA
1 AAAAAATAA-AATAA
91491 TAGTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 7 0.27
15 14 0.54
16 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (15 bp):
AAAAAATAAAATAAG
Found at i:91492 original size:12 final size:13
Alignment explanation
Indices: 91450--91499 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
91440 AAAGCTTAAA
* *
91450 AAATAAATAAGAAA
1 AAAT-AATAATAAT
91464 AAATAA-AATAAT
1 AAATAATAATAAT
91476 AAATAATAATAAT
1 AAATAATAATAAT
*
91489 -AATAGTAATAA
1 AAATAATAATAA
91500 ATGAATAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 20 0.62
13 8 0.25
14 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:93939 original size:19 final size:19
Alignment explanation
Indices: 93915--93956 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
93905 NNNNNNNNNC
93915 ATTTATTA-CTATTATTATT
1 ATTTATTATCTATTATT-TT
*
93934 ATTTATTATTTATTATTTT
1 ATTTATTATCTATTATTTT
93953 ATTT
1 ATTT
93957 TTTCTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTATTATCTATTATTTT
Found at i:93941 original size:7 final size:7
Alignment explanation
Indices: 93915--93969 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
93905 NNNNNNNNNC
93915 ATTTATT
1 ATTTATT
*
93922 A-CTATT
1 ATTTATT
93928 A-TTATT
1 ATTTATT
93934 ATTTATT
1 ATTTATT
93941 ATTTATT
1 ATTTATT
93948 ATTTTATT
1 A-TTTATT
* *
93956 TTTTCTT
1 ATTTATT
93963 ATTTATT
1 ATTTATT
93970 TTTTTAAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 10 0.25
7 24 0.60
8 6 0.15
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTATT
Found at i:93954 original size:22 final size:22
Alignment explanation
Indices: 93924--93975 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
93914 CATTTATTAC
93924 TATTATTATTATTTATTATTTAT
1 TATT-TTATTATTTATTATTTAT
* *
93947 TATTTTATTTTTTCTTATTTAT
1 TATTTTATTATTTATTATTTAT
*
93969 TTTTTTA
1 TATTTTA
93976 AGCTTTCTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (22 bp):
TATTTTATTATTTATTATTTAT
Found at i:93972 original size:15 final size:15
Alignment explanation
Indices: 93929--93975 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
93919 ATTACTATTA
*
93929 TTATTATTTA-TTAT
1 TTATTATTTATTTTT
93943 TTATTATTT-TATTTT
1 TTATTATTTAT-TTTT
*
93958 TTCTTATTTATTTTT
1 TTATTATTTATTTTT
93973 TTA
1 TTA
93976 AGCTTTCTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 9 0.33
15 17 0.63
16 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTATTTATTTTT
Found at i:93982 original size:22 final size:22
Alignment explanation
Indices: 93939--93983 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
93929 TTATTATTTA
***
93939 TTATTTATTATTTTATTTTTTC
1 TTATTTATTATTTTAAGCTTTC
*
93961 TTATTTATTTTTTTAAGCTTTC
1 TTATTTATTATTTTAAGCTTTC
93983 T
1 T
93984 ACCTAAATCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (22 bp):
TTATTTATTATTTTAAGCTTTC
Found at i:94577 original size:3 final size:3
Alignment explanation
Indices: 94569--94593 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
94559 CATCTAACCT
94569 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
94594 ACTTTTACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:97474 original size:60 final size:60
Alignment explanation
Indices: 97286--97721 Score: 403
Period size: 60 Copynumber: 7.2 Consensus size: 60
97276 TTTAGGTTTG
* * *
97286 ATTGAAATTCCTT-GACTTAATCTAGGCTCGATCTATCCCAAAACAGGTTCGATTTAAAAGAA
1 ATTGAAATT-CTTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCAATTT-AAA-AA
* * * * * * *
97348 ATTAAAATTTTTAGACTTGATCTAGGTTTGACCTATATCAAAATAGGTTCAATTTAAAAA
1 ATTGAAATTCTTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCAATTTAAAAA
* * * ** *
97408 AATGAAATTCTTAGACTTAATTTAGGCTCTGACCTATCTCACAACAGGTTTGATTT-GAAA
1 ATTGAAATTCTTAGACTTAATCTAGGCTC-GACCTATCTCAAAACAGGTTCAATTTAAAAA
* * * *
97468 ATTGAAATTCCTT-GACTTGATTTAGGCTCAACCTATCT-ACAAACAGGTTCAGTTTAAAATA
1 ATTGAAATT-CTTAGACTTAATCTAGGCTCGACCTATCTCA-AAACAGGTTCAATTTAAAA-A
* * ** * * * *
97529 ATTGAAATTCCTAGGCTTAATCTAGGCTCCTCTTATCTTAAAACAAGTTCAATGTAAAAA
1 ATTGAAATTCTTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCAATTTAAAAA
* * ** * * *
97589 ATTTAAATTCCTAGACTCGATCTAGGCTCAACCTATCTCACAACAGGTTCGATTTAAAAAAA
1 ATTGAAATTCTTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCAATTT--AAAAA
** * *
97651 GATAAAAATTCTTAGACTTAATCTAGGTTCGACCTATCTCAAAACAAGTTCAATTTAAAAA
1 -ATTGAAATTCTTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCAATTTAAAAA
97712 ATTGAAATTC
1 ATTGAAATTC
97722 CTTGAAAGAC
Statistics
Matches: 298, Mismatches: 65, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
58 1 0.00
59 19 0.06
60 106 0.36
61 79 0.27
62 48 0.16
63 45 0.15
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (60 bp):
ATTGAAATTCTTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCAATTTAAAAA
Found at i:97598 original size:121 final size:123
Alignment explanation
Indices: 97290--97726 Score: 379
Period size: 123 Copynumber: 3.6 Consensus size: 123
97280 GGTTTGATTG
* * * * * * * *
97290 AAATTCCTTGACTTAATCTAGGCTCGATCTATCCCAAAACAGGTTCGATTTAAAAGAAATTAAAA
1 AAATTCCTAGACTTAATCTAGGCTCCACCTATCTCAAAACAAGTTCAATGT-AAA-AAATTGAAA
* * * ** * * * * *
97355 TT-TTTAGACTTGATCTAGGTTTGACCTATATCAAAATAGGTTCAATTT-AAAAAA-AT-G
64 TTCCTT-GACTCGATCTAGGCTCAACCTATCTCACAACAGGTTCGATTTAAAAAAAGATAA
* * * * * ** **
97412 AAATTCTTAGACTTAATTTAGGCTCTGACCTATCTCACAACAGGTTTGAT-TTGAAAATTGAAAT
1 AAATTCCTAGACTTAATCTAGGCTC-CACCTATCTCAAAACAAGTTCAATGTAAAAAATTGAAAT
* * * **
97476 TCCTTGACTTGATTTAGGCTCAACCTATCT-ACAAACAGGTTC-AGTTT-AAAATA-ATTG
65 TCCTTGACTCGATCTAGGCTCAACCTATCTCAC-AACAGGTTCGA-TTTAAAAAAAGATAA
* * * * *
97533 AAATTCCTAGGCTTAATCTAGGCTCCTCTTATCTTAAAACAAGTTCAATGTAAAAAATTTAAATT
1 AAATTCCTAGACTTAATCTAGGCTCCACCTATCTCAAAACAAGTTCAATGTAAAAAATTGAAATT
*
97598 CCTAGACTCGATCTAGGCTCAACCTATCTCACAACAGGTTCGATTTAAAAAAAGATAA
66 CCTTGACTCGATCTAGGCTCAACCTATCTCACAACAGGTTCGATTTAAAAAAAGATAA
* * * *
97656 AAATTCTTAGACTTAATCTAGGTTCGACCTATCTCAAAACAAGTTCAATTTAAAAAATTGAAATT
1 AAATTCCTAGACTTAATCTAGGCTCCACCTATCTCAAAACAAGTTCAATGTAAAAAATTGAAATT
97721 CCTTGA
66 CCTTGA
97727 AAGACTCAAA
Statistics
Matches: 256, Mismatches: 49, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
119 2 0.01
120 64 0.25
121 76 0.30
122 31 0.12
123 83 0.32
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (123 bp):
AAATTCCTAGACTTAATCTAGGCTCCACCTATCTCAAAACAAGTTCAATGTAAAAAATTGAAATT
CCTTGACTCGATCTAGGCTCAACCTATCTCACAACAGGTTCGATTTAAAAAAAGATAA
Found at i:110914 original size:24 final size:22
Alignment explanation
Indices: 110878--110922 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
110868 TTGTTAATCC
*
110878 TTATTTAGTAATTAATTCTTTG
1 TTATTTAGTAATTAAGTCTTTG
110900 TTATATTAGTCAATTAAGTCTTT
1 TTAT-TTAGT-AATTAAGTCTTT
110923 TANNNNNNNN
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 11 0.55
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.56
Consensus pattern (22 bp):
TTATTTAGTAATTAAGTCTTTG
Found at i:117201 original size:39 final size:39
Alignment explanation
Indices: 117151--117228 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
117141 CTCCAATCTA
*
117151 CTCCAAGTAGCTCTAAAAATCAATTTAGGTGGTTAAGGT
1 CTCCAAATAGCTCTAAAAATCAATTTAGGTGGTTAAGGT
*
117190 CTCCAAATAGCTTTAAAAATCAATTTAGGTGGTTAAGGT
1 CTCCAAATAGCTCTAAAAATCAATTTAGGTGGTTAAGGT
117229 TTTGGGGGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (39 bp):
CTCCAAATAGCTCTAAAAATCAATTTAGGTGGTTAAGGT
Found at i:127588 original size:23 final size:23
Alignment explanation
Indices: 127562--127610 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
127552 AAATTTTGGT
127562 CATTTTAGATTATCTTCGTCAAG
1 CATTTTAGATTATCTTCGTCAAG
*
127585 CATTTTAGATTATCTTTGTCAAG
1 CATTTTAGATTATCTTCGTCAAG
127608 CAT
1 CAT
127611 CANNNNNNNN
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (23 bp):
CATTTTAGATTATCTTCGTCAAG
Found at i:138630 original size:49 final size:48
Alignment explanation
Indices: 138523--138665 Score: 169
Period size: 49 Copynumber: 3.0 Consensus size: 48
138513 TCTTTGCATG
** * * ** *
138523 ACTTGATCTTGAACAATTCTTCACACTTCAAAGTTCAATGACTTGAAT
1 ACTTGATCTTGAACAATTCTTCATGCTTCAAGGCTCAACAACTTGAAA
*** *
138571 ACTTGATCTTGAGTGATTCTTCATGCTTCAAGGGTCAAACAACTTGAAA
1 ACTTGATCTTGAACAATTCTTCATGCTTCAAGGCTC-AACAACTTGAAA
*
138620 ACTTGATCTTGAACAATTCTTCATGCTTCAAGGCTCTACAACTTGA
1 ACTTGATCTTGAACAATTCTTCATGCTTCAAGGCTCAACAACTTGA
138666 TCCTGGATGA
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 38 0.48
49 41 0.52
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (48 bp):
ACTTGATCTTGAACAATTCTTCATGCTTCAAGGCTCAACAACTTGAAA
Found at i:138663 original size:40 final size:40
Alignment explanation
Indices: 138619--138712 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
138609 ACAACTTGAA
138619 AACTTGATCTTGAACAATTCTTCATGCTTC-AAGGCTCTAC
1 AACTTGATCTTGAACAATTCTTCATGCTTCAAAGG-TCTAC
* * **
138659 AACTTGATCCTGGATGATTCTTCATGCTTCAAAGGTCTAC
1 AACTTGATCTTGAACAATTCTTCATGCTTCAAAGGTCTAC
*
138699 AACTTCATCTTGAA
1 AACTTGATCTTGAA
138713 AACAAGTTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (40 bp):
AACTTGATCTTGAACAATTCTTCATGCTTCAAAGGTCTAC
Found at i:140346 original size:18 final size:18
Alignment explanation
Indices: 140312--140346 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
140302 ATCCTCAACA
* *
140312 TGATTAGATGTAGCGTCG
1 TGATTAGATGCAACGTCG
140330 TGATTAGATGCAACGTC
1 TGATTAGATGCAACGTC
140347 ATGCTTGAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (18 bp):
TGATTAGATGCAACGTCG
Found at i:140922 original size:13 final size:13
Alignment explanation
Indices: 140904--140930 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
140894 ATGTTGGTTA
140904 ACTCTATTTCCTT
1 ACTCTATTTCCTT
140917 ACTCTATTTCCTT
1 ACTCTATTTCCTT
140930 A
1 A
140931 TGTTCATACA
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:0.19, C:0.30, G:0.00, T:0.52
Consensus pattern (13 bp):
ACTCTATTTCCTT
Found at i:144118 original size:134 final size:134
Alignment explanation
Indices: 143877--144135 Score: 313
Period size: 134 Copynumber: 1.9 Consensus size: 134
143867 GGAGAAGGAG
* * *
143877 AGCTGCGAGAGTTCAGGGAGATGAGAGACCTGATAGAGATAAGAGAGCATTTATTTTGTTTGTAT
1 AGCTGAGAGAGTTCAAGGAGATGAGAGACCTGATAGAGATAAGAGAGCATTTAATTTGTTTGTAT
* * *
143942 TGCAGGAAGAAGGGAGATATATAAGGATTAATTCCACCGTAATGTTTTGAAGGCTATTTTTGCTA
66 GGCAGGAAGAAGGGAGATATATAAGGATTAATTCCACAGTAATGTATTGAAGGCTATTTTTGCTA
144007 AGAA
131 AGAA
* * * * *
144011 AGCTGAGAGAGTTCAAGGAGTTGAGAGAGCTGGTGGAGATGAA-AGAGCATTTAATTTGTTTTTA
1 AGCTGAGAGAGTTCAAGGAGATGAGAGACCTGATAGAGAT-AAGAGAGCATTTAATTTGTTTGTA
** * * * * * ** *
144075 TGGTGGGAGGGAGGGGGGTATATAGGGATTAATTCCTTAGTAATGTATTGAAGGTTATTTT
65 TGGCAGGAAGAAGGGAGATATATAAGGATTAATTCCACAGTAATGTATTGAAGGCTATTTT
144136 GGTTAACTCA
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
134 101 0.98
135 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (134 bp):
AGCTGAGAGAGTTCAAGGAGATGAGAGACCTGATAGAGATAAGAGAGCATTTAATTTGTTTGTAT
GGCAGGAAGAAGGGAGATATATAAGGATTAATTCCACAGTAATGTATTGAAGGCTATTTTTGCTA
AGAA
Found at i:159931 original size:17 final size:17
Alignment explanation
Indices: 159909--159945 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
159899 ATATTGGCAA
159909 TAAATATAAATTATAAT
1 TAAATATAAATTATAAT
*
159926 TAAATATCAATTATAAT
1 TAAATATAAATTATAAT
159943 TAA
1 TAA
159946 TTTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATAAATTATAAT
Found at i:178969 original size:21 final size:22
Alignment explanation
Indices: 178928--178977 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
178918 AATAGCATTT
178928 TTTCAACTTGTTAAGAATCTAAGA
1 TTTCAACTTG-TAAGAATCT-AGA
178952 TTTCAACTTG-AA-AATCTAGA
1 TTTCAACTTGTAAGAATCTAGA
*
178972 GTTCAA
1 TTTCAA
178978 ATATTGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 8 0.32
21 5 0.20
22 2 0.08
24 10 0.40
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (22 bp):
TTTCAACTTGTAAGAATCTAGA
Found at i:179175 original size:3 final size:3
Alignment explanation
Indices: 179167--179200 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
179157 ACTAAATACT
179167 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
179201 CTCTTCTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:182428 original size:204 final size:204
Alignment explanation
Indices: 182073--182474 Score: 653
Period size: 204 Copynumber: 2.0 Consensus size: 204
182063 CGATTAGTCA
* * *
182073 AATTAACTGAACTAAAAATGTCAAATAAAAAAAATGCACAATTAGTTGGATAGAAGTCACGTGCT
1 AATTAACTGAACTAAAAATGTCAAATAAAAAAAAT-CACAATTACTTAGATAGAAGTCAAGTGCT
* * * *
182138 CTGCTAGCAAAGCTAAGACAACTTGTTTTGTTTAAATTGGTGTAGCTAGTTTAGCCTTCACAGAA
65 CTGCCAGCAAAACTAAGACAACCTGTTTTGTTTAAATTGGTGTAGCTAGTTCAGCCTTCACAGAA
* * *
182203 AACAATTTATAAATGAAAAATCCTGCTTAATTCTTCAATTTTCAGGTTAAGACATTACATTTTAC
130 AACAATTTATAAATCAAAAATCCTGCTTAATTCTGCAATTTTCAGGTTAAGACATTAAATTTTAC
182268 TTCTTAGTAG
195 TTCTTAGTAG
* *
182278 AATTAACTGAACTAAAAATGTCAAATCAAAATATAT-ACAATTACTTAGATAGAAGTCAAGTGCT
1 AATTAACTGAACTAAAAATGTCAAAT-AAAAAAAATCACAATTACTTAGATAGAAGTCAAGTGCT
* *
182342 CTGCCAGCAAAACTAGGACAACCTGTTTTGTTTAAATTGGTGTAGCTAGTTCAGGCTTCACAGAA
65 CTGCCAGCAAAACTAAGACAACCTGTTTTGTTTAAATTGGTGTAGCTAGTTCAGCCTTCACAGAA
182407 AACAATTTATAAATCAAAAATCCTGCTTAATTCTGCAATTTTCAGGTTAAGACATTAAATTTTAC
130 AACAATTTATAAATCAAAAATCCTGCTTAATTCTGCAATTTTCAGGTTAAGACATTAAATTTTAC
182472 TTC
195 TTC
182475 CTATTTGAGT
Statistics
Matches: 182, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
204 149 0.82
205 26 0.14
206 7 0.04
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (204 bp):
AATTAACTGAACTAAAAATGTCAAATAAAAAAAATCACAATTACTTAGATAGAAGTCAAGTGCTC
TGCCAGCAAAACTAAGACAACCTGTTTTGTTTAAATTGGTGTAGCTAGTTCAGCCTTCACAGAAA
ACAATTTATAAATCAAAAATCCTGCTTAATTCTGCAATTTTCAGGTTAAGACATTAAATTTTACT
TCTTAGTAG
Found at i:214019 original size:56 final size:56
Alignment explanation
Indices: 213952--214066 Score: 187
Period size: 56 Copynumber: 2.1 Consensus size: 56
213942 TTGTTGCAAC
*
213952 AAATCAATGTCAAATATAGAGGAATACAGTACTTACAACATCACTTTTG-ATGAGAA
1 AAATCAATGTCAAATATAGAGGAATACAGCACTTACAACATCACTTTTGAAT-AGAA
* *
214008 AAATCAATGTCAGATATGGAGGAATACAGCACTTACAACATCACTTTTGAATAGAA
1 AAATCAATGTCAAATATAGAGGAATACAGCACTTACAACATCACTTTTGAATAGAA
214064 AAA
1 AAA
214067 GATAATAGCT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 53 0.96
57 2 0.04
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (56 bp):
AAATCAATGTCAAATATAGAGGAATACAGCACTTACAACATCACTTTTGAATAGAA
Found at i:244097 original size:18 final size:16
Alignment explanation
Indices: 244047--244103 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 16
244037 CATAAATTTT
*
244047 AAAAAACTCTTTTAAA
1 AAAAAATTCTTTTAAA
*
244063 AAAATAATTTTTGTTAAA
1 AAAA-AATTCTT-TTAAA
244081 GAATAAAATTCTTTTAAA
1 -AA-AAAATTCTTTTAAA
244099 AAAAA
1 AAAAA
244104 CTTTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 7 0.21
17 7 0.21
18 10 0.29
19 8 0.24
20 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (16 bp):
AAAAAATTCTTTTAAA
Found at i:244275 original size:14 final size:15
Alignment explanation
Indices: 244256--244284 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
244246 CTAAAATTGT
244256 AACTTATAA-AAAAA
1 AACTTATAATAAAAA
244270 AACTTATAATAAAAA
1 AACTTATAATAAAAA
244285 TTTAACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
AACTTATAATAAAAA
Found at i:245782 original size:20 final size:19
Alignment explanation
Indices: 245757--245801 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
245747 GCAAAAGTAG
*
245757 AAACAATACAAAGAAAACGA
1 AAACAAT-CAAAGAAAACAA
*
245777 AAACAATGAAAGAAAACAA
1 AAACAATCAAAGAAAACAA
245796 AAACAA
1 AAACAA
245802 AGGCTAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.73, C:0.13, G:0.09, T:0.04
Consensus pattern (19 bp):
AAACAATCAAAGAAAACAA
Found at i:248287 original size:33 final size:34
Alignment explanation
Indices: 248244--248318 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
248234 GAAGCTCGAG
*
248244 AGAGGAAGCGGACCAAATGTGAAG-TCGTTAGAA
1 AGAGGAAGCGGACCAAATGTGAAGCTCGTGAGAA
* * *
248277 AGAGGCAGCGGAGCAAATGTGAAGCTCGTGAGAG
1 AGAGGAAGCGGACCAAATGTGAAGCTCGTGAGAA
248311 AGAGGAAG
1 AGAGGAAG
248319 ACGGCAGCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 22 0.61
34 14 0.39
ACGTcount: A:0.37, C:0.12, G:0.39, T:0.12
Consensus pattern (34 bp):
AGAGGAAGCGGACCAAATGTGAAGCTCGTGAGAA
Found at i:248668 original size:15 final size:15
Alignment explanation
Indices: 248629--248673 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
248619 AATTACTATT
248629 ATATATATACTTTT-A
1 ATATATATA-TTTTAA
248644 ATATATATATTTTAA
1 ATATATATATTTTAA
*
248659 ATATAAATATGTTTA
1 ATATATATAT-TTTA
248674 CTTTCTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 19 0.70
16 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (15 bp):
ATATATATATTTTAA
Found at i:249522 original size:6 final size:6
Alignment explanation
Indices: 249511--249598 Score: 86
Period size: 6 Copynumber: 13.7 Consensus size: 6
249501 ATGTCATATA
249511 TTTTAT TTTTAT TTTTAT TTTTAAT TTTATAT ATTTTAT TTTTAT TTTTAAT
1 TTTTAT TTTTAT TTTTAT TTTT-AT TTT-TAT -TTTTAT TTTTAT TTTT-AT
* * * *
249563 ATATAT TTTTAT ATTATAT ATTTTAT TTTAAT TTTT
1 TTTTAT TTTTAT -TTTTAT -TTTTAT TTTTAT TTTT
249599 TTAATAGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
6 40 0.58
7 25 0.36
8 4 0.06
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:249530 original size:33 final size:33
Alignment explanation
Indices: 249493--249560 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
249483 CTCTTAAATA
249493 TATTTTTAATGTCATATATTTTATTTTTATTTT
1 TATTTTTAATGTCATATATTTTATTTTTATTTT
* *
249526 TATTTTTAATTTTATATATTTTATTTTTATTTT
1 TATTTTTAATGTCATATATTTTATTTTTATTTT
249559 TA
1 TA
249561 ATATATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (33 bp):
TATTTTTAATGTCATATATTTTATTTTTATTTT
Found at i:249537 original size:13 final size:13
Alignment explanation
Indices: 249511--249573 Score: 76
Period size: 13 Copynumber: 4.8 Consensus size: 13
249501 ATGTCATATA
249511 TTTTATTTTT-AT
1 TTTTATTTTTAAT
249523 TTTTATTTTTAAT
1 TTTTATTTTTAAT
249536 TTTATATATTTT-AT
1 TTT-TAT-TTTTAAT
249550 TTTTATTTTTAAT
1 TTTTATTTTTAAT
* *
249563 ATATATTTTTA
1 TTTTATTTTTA
249574 TATTATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
12 14 0.31
13 19 0.42
14 8 0.18
15 4 0.09
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:249571 original size:33 final size:33
Alignment explanation
Indices: 249506--249591 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 33
249496 TTTTAATGTC
* *
249506 ATATATTTTATTTTTATTTTTATTTTTAATTTT
1 ATATATTTTATTTTTATTTTTATATATAATTTT
249539 ATATATTTTATTTTTATTTTTA-ATATATATTTT
1 ATATATTTTATTTTTATTTTTATATATA-ATTTT
*
249572 -TATATTATATATTTTATTTT
1 ATATATTTTAT-TTTTATTTT
249592 AATTTTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
32 12 0.25
33 36 0.75
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTTATATATAATTTT
Found at i:249587 original size:27 final size:26
Alignment explanation
Indices: 249514--249574 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 26
249504 TCATATATTT
*
249514 TATTTTTATTTTTATTTTTAATTTTA
1 TATTTTTATTTTTATTTTTAATTATA
249540 TATATTTTATTTTTATTTTTAA-TATA
1 TAT-TTTTATTTTTATTTTTAATTATA
249566 TATTTTTAT
1 TATTTTTAT
249575 ATTATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 6 0.18
26 9 0.27
27 18 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (26 bp):
TATTTTTATTTTTATTTTTAATTATA
Found at i:249597 original size:39 final size:38
Alignment explanation
Indices: 249509--249598 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 38
249499 TAATGTCATA
* * *
249509 TATTTTATTTTTATTTTTATTTTTAATTTTATATATTT
1 TATTTTATTTTTATATATATTTTTAATATTATATATTT
249547 TATTTTTATTTTTAATATATATTTTT-ATATTATATATTT
1 TA-TTTTATTTTT-ATATATATTTTTAATATTATATATTT
249586 TATTTTAATTTTT
1 TATTTT-ATTTTT
249599 TTAATAGATA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
38 6 0.13
39 30 0.65
40 10 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (38 bp):
TATTTTATTTTTATATATATTTTTAATATTATATATTT
Found at i:249599 original size:13 final size:13
Alignment explanation
Indices: 249516--249599 Score: 55
Period size: 13 Copynumber: 6.4 Consensus size: 13
249506 ATATATTTTA
*
249516 TTTTTATTTTTAT
1 TTTTTATTTTAAT
*
249529 TTTTAATTTTATAT
1 TTTTTATTTTA-AT
* *
249543 ATTTTATTTTTA-
1 TTTTTATTTTAAT
* *
249555 TTTTTAATAT-AT
1 TTTTTATTTTAAT
*
249567 ATTTTTATATTATAT
1 -TTTTTATTTTA-AT
*
249582 ATTTTATTTTAAT
1 TTTTTATTTTAAT
249595 TTTTT
1 TTTTT
249600 TAATAGATAA
Statistics
Matches: 52, Mismatches: 14, Indels: 10
0.68 0.18 0.13
Matches are distributed among these distances:
11 1 0.02
12 7 0.13
13 23 0.44
14 19 0.37
15 2 0.04
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTATTTTAAT
Found at i:253277 original size:101 final size:101
Alignment explanation
Indices: 253093--253296 Score: 320
Period size: 101 Copynumber: 2.0 Consensus size: 101
253083 TTAAGCTTTG
* * * * * *
253093 TTGGAAGCTTATTTTGAATTATGGCATTGCACTCTTTAGTAAGTACAATAGTCTTAAACTTACCT
1 TTGGAAGCTTATTTTGAATTACGGCACTACACTCTTCAGTAAGCACAATAGTCTTAAACTCACCT
253158 AATTTCCTATTTTTACTCAAGATGTCTTTCAAGAAT
66 AATTTCCTATTTTTACTCAAGATGTCTTTCAAGAAT
* *
253194 TTGGTAGCTTATTTTGAATTACGGCACTACACTCTTCAGTAAGCGCAATAGTCTTAAACTCACCT
1 TTGGAAGCTTATTTTGAATTACGGCACTACACTCTTCAGTAAGCACAATAGTCTTAAACTCACCT
253259 AATTTCCT-TTTTTCACTCAAGATGTCTTTCAAGAAT
66 AATTTCCTATTTTT-ACTCAAGATGTCTTTCAAGAAT
253295 TT
1 TT
253297 CACATAATTG
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 5 0.05
101 89 0.95
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (101 bp):
TTGGAAGCTTATTTTGAATTACGGCACTACACTCTTCAGTAAGCACAATAGTCTTAAACTCACCT
AATTTCCTATTTTTACTCAAGATGTCTTTCAAGAAT
Found at i:260595 original size:38 final size:39
Alignment explanation
Indices: 260535--260653 Score: 161
Period size: 39 Copynumber: 3.1 Consensus size: 39
260525 GAAAAAGGTA
* *
260535 GAAAAGTTGTTCTTTAACCTTGAAAAGGCAA-ACTTTGT
1 GAAAGGTTGTGCTTTAACCTTGAAAAGGCAAGACTTTGT
* *
260573 GAAAGGTTGTGCTTTAATCTTGAAAAGGTAAAGACTTT-T
1 GAAAGGTTGTGCTTTAACCTTGAAAAGG-CAAGACTTTGT
*
260612 GAAAGGTTGTGCTTTAACCTTGGAAAGGCAATGACTTTGT
1 GAAAGGTTGTGCTTTAACCTTGAAAAGGCAA-GACTTTGT
260652 GA
1 GA
260654 GGTTATGCTT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
38 27 0.39
39 35 0.50
40 8 0.11
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (39 bp):
GAAAGGTTGTGCTTTAACCTTGAAAAGGCAAGACTTTGT
Found at i:262175 original size:7 final size:7
Alignment explanation
Indices: 262163--262227 Score: 103
Period size: 7 Copynumber: 9.3 Consensus size: 7
262153 TTAAATAGAG
262163 ACCCTAA
1 ACCCTAA
262170 ACCCTAA
1 ACCCTAA
262177 ACCCTAA
1 ACCCTAA
* *
262184 ACCTTGA
1 ACCCTAA
*
262191 ACTCTAA
1 ACCCTAA
262198 ACCCTAA
1 ACCCTAA
262205 ACCCTAA
1 ACCCTAA
262212 ACCCTAA
1 ACCCTAA
262219 ACCCTAA
1 ACCCTAA
262226 AC
1 AC
262228 TAAAGATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.17
Consensus pattern (7 bp):
ACCCTAA
Found at i:262732 original size:8 final size:8
Alignment explanation
Indices: 262721--262749 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
262711 ACTAAAAGGT
262721 AGAGAAAG
1 AGAGAAAG
262729 AGAGAAAG
1 AGAGAAAG
262737 AGAGAAAG
1 AGAGAAAG
262745 AGAGA
1 AGAGA
262750 GAGATAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (8 bp):
AGAGAAAG
Found at i:265430 original size:18 final size:18
Alignment explanation
Indices: 265407--265453 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
265397 TAATTATGTG
*
265407 CATTGGATATAGGAGATA
1 CATTGGATATAGGAAATA
*
265425 CATTGGATATTATGAAATA
1 CATTGGATA-TAGGAAATA
*
265444 CAATGGATAT
1 CATTGGATAT
265454 TCACATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.32
Consensus pattern (18 bp):
CATTGGATATAGGAAATA
Found at i:271545 original size:22 final size:21
Alignment explanation
Indices: 271520--271563 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
271510 GTGAGCATTC
271520 TACCTAAAATGTA-TCGATACAT
1 TACCT-AAATGTACT-GATACAT
*
271542 TACCTCAATGTACTGATACAT
1 TACCTAAATGTACTGATACAT
271563 T
1 T
271564 TACTCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (21 bp):
TACCTAAATGTACTGATACAT
Found at i:272219 original size:4 final size:4
Alignment explanation
Indices: 272210--272286 Score: 55
Period size: 4 Copynumber: 19.2 Consensus size: 4
272200 TGTGTTTATG
* * * * * * *
272210 TATA TATA TATA TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
272258 TATG TATG TGTA TATA TATG TATA TATA T
1 TATA TATA TATA TATA TATA TATA TATA T
272287 GATTGCCTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:272241 original size:16 final size:16
Alignment explanation
Indices: 272206--272280 Score: 86
Period size: 16 Copynumber: 4.9 Consensus size: 16
272196 AACATGTGTT
*
272206 TATGTATATA--TATA
1 TATGTATATATGTATG
*
272220 TATGTATGTATGTATG
1 TATGTATATATGTATG
272236 TATGTATATATGTATG
1 TATGTATATATGTATG
272252 TA--TATATATGTATG
1 TATGTATATATGTATG
* *
272266 TGTATATATATGTAT
1 TATGTATATATGTAT
272281 ATATATGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
14 22 0.42
16 31 0.58
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (16 bp):
TATGTATATATGTATG
Found at i:272283 original size:12 final size:12
Alignment explanation
Indices: 272210--272286 Score: 82
Period size: 12 Copynumber: 6.2 Consensus size: 12
272200 TGTGTTTATG
*
272210 TATATATATATA
1 TATATGTATATA
* *
272222 TGTATGTATGTA
1 TATATGTATATA
*
272234 TGTATGTATATA
1 TATATGTATATA
*
272246 TGTATGTATATA
1 TATATGTATATA
*
272258 TATGTATGTGTATA
1 TA--TATGTATATA
272272 TATATGTATATA
1 TATATGTATATA
272284 TAT
1 TAT
272287 GATTGCCTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
12 45 0.80
14 11 0.20
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (12 bp):
TATATGTATATA
Found at i:272298 original size:26 final size:26
Alignment explanation
Indices: 272214--272287 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
272204 TTTATGTATA
* *
272214 TATATATATGTATGTATGTATGTATGTA
1 TATATATATGTA--TATATATGTATGTG
*
272242 TATATGTATGTATATATATGTATGTG
1 TATATATATGTATATATATGTATGTG
272268 TATATATATGTATATATATG
1 TATATATATGTATATATATG
272288 ATTGCCTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 31 0.74
28 11 0.26
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (26 bp):
TATATATATGTATATATATGTATGTG
Found at i:275706 original size:7 final size:7
Alignment explanation
Indices: 275696--275724 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
275686 CTCCTCAAGG
275696 TTCAAAC
1 TTCAAAC
275703 TTCAAAC
1 TTCAAAC
275710 TTCAAAC
1 TTCAAAC
275717 TTCAAAC
1 TTCAAAC
275724 T
1 T
275725 ATATCTATAT
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:0.28, G:0.00, T:0.31
Consensus pattern (7 bp):
TTCAAAC
Found at i:286724 original size:21 final size:22
Alignment explanation
Indices: 286689--286732 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
286679 ACTCTTAAGT
286689 AATTTAAAATAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
*
286711 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
286732 A
1 A
286733 TAATCACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTAAAATAAAATAACTTAA
Found at i:287942 original size:21 final size:21
Alignment explanation
Indices: 287902--287942 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
287892 TAAATGCTAG
*
287902 TTTTTATTTTTTTATGTTATA
1 TTTTTATTTTTTTATATTATA
287923 TTTTTAATTTTTTTA-ATTAT
1 TTTTT-ATTTTTTTATATTAT
287943 TTTCATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTATTTTTTTATATTATA
Found at i:288743 original size:5 final size:5
Alignment explanation
Indices: 288735--288769 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
288725 GGCAACGCAA
*
288735 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAC AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
288770 CAATATGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:290299 original size:44 final size:44
Alignment explanation
Indices: 290251--290390 Score: 99
Period size: 45 Copynumber: 3.1 Consensus size: 44
290241 TACCCTCAGG
290251 TAATATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATC
1 TAATATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATC
* * ** * * *** *
290295 TAATAATTTATAATT-T--TATTGAATAAAAAAATTACA-ATACCCACC
1 TAAT-A-TGATTATTGTCCCCTT--ATAAAAAATTTATACAT-TTGATC
290340 GGTAATATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATC
1 --TAATATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATC
290386 TAATA
1 TAATA
290391 ATTTATAATT
Statistics
Matches: 65, Mismatches: 20, Indels: 22
0.61 0.19 0.21
Matches are distributed among these distances:
43 2 0.03
44 11 0.17
45 22 0.34
46 22 0.34
47 6 0.09
48 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (44 bp):
TAATATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATC
Found at i:290321 original size:45 final size:45
Alignment explanation
Indices: 290272--290415 Score: 109
Period size: 45 Copynumber: 3.2 Consensus size: 45
290262 TTGTCCCCTT
290272 ATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGA
1 ATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGA
* * *** * * * **
290317 ATAAAAAAATTACA-ATACCCACCGGTAAT-A-TGATTATTGTCCCCTT--
1 ATAAAAAATTTATACAT-TTGATC--TAATAATTTATAATT-T--TATTGA
290363 ATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGA
1 ATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGA
290408 ATAAAAAA
1 ATAAAAAA
290416 ATTACAATAC
Statistics
Matches: 68, Mismatches: 20, Indels: 22
0.62 0.18 0.20
Matches are distributed among these distances:
43 2 0.03
44 6 0.09
45 30 0.44
46 22 0.32
47 6 0.09
48 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.40
Consensus pattern (45 bp):
ATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGA
Found at i:290329 original size:91 final size:91
Alignment explanation
Indices: 290164--290450 Score: 504
Period size: 91 Copynumber: 3.2 Consensus size: 91
290154 GGGTTATTAC
* * * *
290164 ATGATTATTGTCTCCTTATAAAAAAAATTATACATTTGATCAAATAATTTATAATTTTAATGAAT
1 ATGATTATTGTCCCCTTAT-AAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGAAT
* *
290229 -AAAAAATTACAATACCCTCAGGTAAT
65 AAAAAAATTACAATACCCACCGGTAAT
290255 ATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGAATA
1 ATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGAATA
290320 AAAAAATTACAATACCCACCGGTAAT
66 AAAAAATTACAATACCCACCGGTAAT
290346 ATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGAATA
1 ATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGAATA
290411 AAAAAATTACAATACCCACCGGTAAT
66 AAAAAATTACAATACCCACCGGTAAT
290437 ATGATTATTGTCCC
1 ATGATTATTGTCCC
290451 ATATTAAATA
Statistics
Matches: 189, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
90 42 0.22
91 147 0.78
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (91 bp):
ATGATTATTGTCCCCTTATAAAAAATTTATACATTTGATCTAATAATTTATAATTTTATTGAATA
AAAAAATTACAATACCCACCGGTAAT
Found at i:290967 original size:19 final size:19
Alignment explanation
Indices: 290945--290984 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
290935 TTTAATGAAC
*
290945 TAATTCTAATTTATTAATA
1 TAATTCTAATTTAATAATA
* *
290964 TAATTTTCATTTAATAATA
1 TAATTCTAATTTAATAATA
290983 TA
1 TA
290985 TAATTATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATTCTAATTTAATAATA
Found at i:292023 original size:53 final size:53
Alignment explanation
Indices: 291911--292026 Score: 128
Period size: 53 Copynumber: 2.2 Consensus size: 53
291901 AAATCTCGAT
*
291911 GGAATTTTTCATTAGAAATGCATTTTTAACGGAATTACGTCAAAAAATTCTAAC
1 GGAA-TTTTCATTAGAAATGCATTTTTAACGGAATTACGTCAAAAAATTCCAAC
* * * * * *
291965 AGAATTTTCTTTGGAAATGC-TTTTCTAACGGAATTTCGTTAAAAATTTCCCAA-
1 GGAATTTTCATTAGAAATGCATTTT-TAACGGAATTACGTCAAAAAATT-CCAAC
292018 GGAATTTTC
1 GGAATTTTC
292027 CGTCAACAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
52 4 0.08
53 42 0.81
54 6 0.12
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (53 bp):
GGAATTTTCATTAGAAATGCATTTTTAACGGAATTACGTCAAAAAATTCCAAC
Found at i:293064 original size:15 final size:16
Alignment explanation
Indices: 293044--293086 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
293034 ACATAAAATT
*
293044 AAAATAACTTACT-TA
1 AAAATAACTAACTATA
*
293059 AAAATAGACTAATTATA
1 AAAATA-ACTAACTATA
293076 AAAATAACTAA
1 AAAATAACTAA
293087 AAATAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 10 0.42
17 8 0.33
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATAACTAACTATA
Found at i:293085 original size:16 final size:15
Alignment explanation
Indices: 293044--293096 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
293034 ACATAAAATT
*
293044 AAAATAACTTACTTA
1 AAAATAACTAACTTA
293059 AAAATAGACTAA-TTA
1 AAAATA-ACTAACTTA
*
293074 TAAA-AA-TAAC-TA
1 AAAATAACTAACTTA
293086 AAAATAACTAA
1 AAAATAACTAA
293097 ATTATAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
12 8 0.26
13 3 0.10
14 4 0.13
15 12 0.39
16 4 0.13
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAATAACTAACTTA
Found at i:300089 original size:7 final size:7
Alignment explanation
Indices: 300079--300107 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
300069 GAAAAAGAGG
300079 GTTGAAA
1 GTTGAAA
300086 GTTGAAA
1 GTTGAAA
300093 GTTGAAA
1 GTTGAAA
300100 GTTGAAA
1 GTTGAAA
300107 G
1 G
300108 AAAATCACAA
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:0.31, T:0.28
Consensus pattern (7 bp):
GTTGAAA
Found at i:303933 original size:16 final size:17
Alignment explanation
Indices: 303902--303933 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
303892 TAATTACTGT
303902 ATAAATATACTTTTAAG
1 ATAAATATACTTTTAAG
303919 ATAAATATA-TTTTAA
1 ATAAATATACTTTTAA
303934 TTTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
ATAAATATACTTTTAAG
Found at i:304728 original size:368 final size:357
Alignment explanation
Indices: 304231--304926 Score: 995
Period size: 360 Copynumber: 1.9 Consensus size: 357
304221 AATATATATA
304231 CTTTAAATATAAACATATTTACTTTCTATTTTGTGATAACATTACAAAAATTAATATTATAAATT
1 CTTTAAATATAAACATATTTACTTTCTATTTTGTGATAACATTACAAAAATTAATATTATAAATT
* * *
304296 ATTAATTATAATATATATAGCTTTGTTTATATAAACTTATAATATATAAACTTAAAAAGAAGTTG
66 ATTAATTACAATATATATACCTTTGTTTATATAAACTTATAATAAATAAACTTAAAAAGAAGTTG
* * * *
304361 TGAGAATTAGAATAGTTTTTGAAATCCCAGTTATTTTTTGTTTTAAATTTTATGTAATTAACGAC
131 TGAG-ATTAGAATAG-TTTTGAAA--CC--TAATTATTTG-TTT-AATTTCATGTAATTAAAGAC
* * * *
304426 AAACTTATATAGTTAATTAAATTAATTCATGAAACTATAA-TGATTAATTAACTTGTAGTGTCTT
188 AAACTCATATAGTTAATTAAATTAACTAATGAAACTATAATTG-TTAATTAACTTGTAATGTCTT
* * *
304490 TTAATA-ATATGTCATTTATATATATTAAGTTCATTTATAAGGAATATAATTACTATTACATATA
252 TTAATATATAT-AC-TTTATATAAATTAAGTTCATTTATAAGAAATATAATTACTATTACATATA
**
304554 TTAAAGTACTTTTAGAATATATATATATATATATACATATGTT
315 TTAAAACACTTTTAGAATATATATATATATATATACATATGTT
* *
304597 CTTTAAATATAAATATATTTACTTTCTATTTTGTGTTAACATTACAAAAATT-ATAATTTATAAA
1 CTTTAAATATAAACATATTTACTTTCTATTTTGTGATAACATTACAAAAATTAAT-A-TTAT-AA
* **
304661 ATTTTTAATTACAATATATATACCTTTGTTTATATAAACTTATAATAAATAAA-TCTAAAGGGAA
63 ATTATTAATTACAATATATATACCTTTGTTTATATAAACTTATAATAAATAAACT-TAAAAAGAA
304725 GTTGTGAGATTAGAATAGTTTTGAAACCTAATTATTTGTTTAATTTCATGTAATTAAAGACAAAC
127 GTTGTGAGATTAGAATAGTTTTGAAACCTAATTATTTGTTTAATTTCATGTAATTAAAGACAAAC
* *
304790 TCATATAGTTAATTAAATTACCTAATGAAACTATAATTGTTAATTGACTTGTAATGTCTTTTAAT
192 TCATATAGTTAATTAAATTAACTAATGAAACTATAATTGTTAATTAACTTGTAATGTCTTTTAAT
* * *
304855 ATATATACTTTATATAAATTATGTTCATTTATGAGAAATATAATTACTATTATATATATTAAAAC
257 ATATATACTTTATATAAATTAAGTTCATTTATAAGAAATATAATTACTATTACATATATTAAAAC
304920 ACTTTTA
322 ACTTTTA
304927 TTACATATAC
Statistics
Matches: 298, Mismatches: 26, Indels: 19
0.87 0.08 0.06
Matches are distributed among these distances:
359 57 0.19
360 80 0.27
361 9 0.03
362 8 0.03
364 2 0.01
365 2 0.01
366 59 0.20
367 15 0.05
368 66 0.22
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (357 bp):
CTTTAAATATAAACATATTTACTTTCTATTTTGTGATAACATTACAAAAATTAATATTATAAATT
ATTAATTACAATATATATACCTTTGTTTATATAAACTTATAATAAATAAACTTAAAAAGAAGTTG
TGAGATTAGAATAGTTTTGAAACCTAATTATTTGTTTAATTTCATGTAATTAAAGACAAACTCAT
ATAGTTAATTAAATTAACTAATGAAACTATAATTGTTAATTAACTTGTAATGTCTTTTAATATAT
ATACTTTATATAAATTAAGTTCATTTATAAGAAATATAATTACTATTACATATATTAAAACACTT
TTAGAATATATATATATATATATACATATGTT
Found at i:307078 original size:21 final size:22
Alignment explanation
Indices: 307054--307102 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
307044 ATTATATTTA
307054 AAAATGTTAT-AT-ATAAAAAAT
1 AAAAT-TTATGATGATAAAAAAT
*
307075 AAAATTTATGATGATAAAAATT
1 AAAATTTATGATGATAAAAAAT
307097 AAAATT
1 AAAATT
307103 ATTCGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 7 0.28
22 14 0.56
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (22 bp):
AAAATTTATGATGATAAAAAAT
Found at i:309615 original size:36 final size:35
Alignment explanation
Indices: 309508--309634 Score: 136
Period size: 35 Copynumber: 3.7 Consensus size: 35
309498 AGTCCTTAAG
**** *
309508 AGGCCCAATTAACTTAATTGTTTAATTTAATCAATT
1 AGGCCCAA-TAACTTAATTAAACAATTTAATTAATT
309544 -GAGCCCAATAACTTAATTAAACAATTTAATTAATT
1 AG-GCCCAATAACTTAATTAAACAATTTAATTAATT
*
309579 AGGCCCAATAACTTGATTAAACAAGTTTAATTAATT
1 AGGCCCAATAACTTAATTAAACAA-TTTAATTAATT
*
309615 AGG--C-ACAACTTAATTAAACA
1 AGGCCCAATAACTTAATTAAACA
309635 CTTTTAATCA
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
33 14 0.17
34 1 0.01
35 44 0.55
36 21 0.26
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (35 bp):
AGGCCCAATAACTTAATTAAACAATTTAATTAATT
Found at i:311911 original size:17 final size:16
Alignment explanation
Indices: 311882--311921 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
311872 TTAATCTTTA
*
311882 TTTTAGTTTCATTTTCT
1 TTTTA-TTTCATTTTCC
311899 TTTTATTTCCATTTTCC
1 TTTTATTT-CATTTTCC
311916 TTTTAT
1 TTTTAT
311922 GCTGATGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTATTTCATTTTCC
Found at i:312114 original size:26 final size:26
Alignment explanation
Indices: 312067--312117 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
312057 AATTGATTAA
* *
312067 AAAATAAATAATAATAATAATCAATC
1 AAAATAAATAATAAAAAAAATCAATC
312093 AAAATAAAT-ATAAAAACAAATCAAT
1 AAAATAAATAATAAAAA-AAATCAAT
312118 AGATCTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.24
Consensus pattern (26 bp):
AAAATAAATAATAAAAAAAATCAATC
Found at i:318583 original size:14 final size:14
Alignment explanation
Indices: 318560--318590 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
318550 AAGATTAGAT
*
318560 TAACTCACCTAAAA
1 TAACTAACCTAAAA
318574 TAACTAACCTAAAA
1 TAACTAACCTAAAA
318588 TAA
1 TAA
318591 ATTAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (14 bp):
TAACTAACCTAAAA
Found at i:323637 original size:26 final size:26
Alignment explanation
Indices: 323601--323666 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
323591 TTAGTCATAA
*
323601 TAATATTTAAATTAAAAATAAAATAT
1 TAATACTTAAATTAAAAATAAAATAT
* *
323627 TAGTACTTAAATTACAAATAAAATAT
1 TAATACTTAAATTAAAAATAAAATAT
*
323653 TAATATTTAAATTA
1 TAATACTTAAATTA
323667 GCAATTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (26 bp):
TAATACTTAAATTAAAAATAAAATAT
Found at i:323693 original size:20 final size:21
Alignment explanation
Indices: 323650--323704 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
323640 ACAAATAAAA
323650 TATTAATATTTAAATTAGCAAT
1 TATTAATATTTAAATTA-CAAT
323672 TATTAATATCTTAAA-T-CAAT
1 TATTAATAT-TTAAATTACAAT
* *
323692 TATAAATTTTTAA
1 TATTAATATTTAA
323705 TATTTAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.13
20 11 0.37
22 10 0.33
23 5 0.17
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTAATATTTAAATTACAAT
Found at i:323693 original size:27 final size:26
Alignment explanation
Indices: 323662--323712 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
323652 TTAATATTTA
*
323662 AATTAGCAATTATTAATATCTTAAATC
1 AATTAGAAATTATTAATAT-TTAAATC
* *
323689 AATTATAAATTTTTAATATTTAAA
1 AATTAGAAATTATTAATATTTAAA
323713 ACATAAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTAGAAATTATTAATATTTAAATC
Found at i:342517 original size:5 final size:5
Alignment explanation
Indices: 342507--342585 Score: 56
Period size: 5 Copynumber: 16.2 Consensus size: 5
342497 ATGTTATAAT
* * * * *
342507 TAAAA TAAAA TATAT TAAAA TAAAA T-ATA TAATA TAAGAA T-CAA -AAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA
* * *
342555 TAAAA TAAAA TAAAA TATAA GAAAT TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
342586 TTATATTACA
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
4 7 0.12
5 47 0.84
6 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:342525 original size:15 final size:15
Alignment explanation
Indices: 342505--342536 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
342495 TAATGTTATA
342505 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
342520 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
342535 AT
1 AT
342537 AATATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTAAAATAAAATAT
Found at i:342689 original size:33 final size:34
Alignment explanation
Indices: 342625--342698 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 34
342615 TAAAGCATAT
* *
342625 AATATAAAAAATTATACTAAAGAAATAAAAATAA
1 AATATATAAAATTATAATAAAGAAATAAAAATAA
*
342659 AATATATAAAATTATAAT-AAGAAATGAAAATAA
1 AATATATAAAATTATAATAAAGAAATAAAAATAA
342692 AATATAT
1 AATATAT
342699 GACATTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (34 bp):
AATATATAAAATTATAATAAAGAAATAAAAATAA
Found at i:342935 original size:15 final size:15
Alignment explanation
Indices: 342915--342954 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
342905 ATTTTCTCTA
*
342915 CAATCACATTACTTG
1 CAATCACATTACCTG
342930 CAATCACATTACCTG
1 CAATCACATTACCTG
*
342945 TAATCACATT
1 CAATCACATT
342955 GAATTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (15 bp):
CAATCACATTACCTG
Found at i:360073 original size:18 final size:19
Alignment explanation
Indices: 360041--360077 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
360031 TAGAGGAAAA
360041 TTTTAGAATAAAATAATAT
1 TTTTAGAATAAAATAATAT
*
360060 TTTTAG-ATATAATAATAT
1 TTTTAGAATAAAATAATAT
360078 CAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTTAGAATAAAATAATAT
Found at i:362496 original size:25 final size:25
Alignment explanation
Indices: 362468--362520 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
362458 TATATATAAA
* *
362468 TGGCAAGGCCATTG-GTTGATATATG
1 TGGCAAGGCCA-CGAGTTGATATACG
*
362493 TGGCTAGGCCACGAGTTGATATACG
1 TGGCAAGGCCACGAGTTGATATACG
362518 TGG
1 TGG
362521 TTGCAACTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (25 bp):
TGGCAAGGCCACGAGTTGATATACG
Found at i:364109 original size:14 final size:13
Alignment explanation
Indices: 364084--364126 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
364074 TAAACTCAAA
364084 TTATTT-TTTTAT
1 TTATTTCTTTTAT
364096 TTACTTTCTTTTAT
1 TTA-TTTCTTTTAT
364110 TTATTTCTTTTAAT
1 TTATTTCTTTT-AT
364124 TTA
1 TTA
364127 ATTTACTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.11
13 11 0.39
14 14 0.50
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTCTTTTAT
Found at i:371121 original size:10 final size:12
Alignment explanation
Indices: 371081--371125 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
371071 AGAGATTTTT
371081 GAGGCAGCAAGA
1 GAGGCAGCAAGA
371093 GAGGCAGCAAGA
1 GAGGCAGCAAGA
371105 GAGGCAGCAAG-
1 GAGGCAGCAAGA
371116 GA-GCAGCAAG
1 GAGGCAGCAAG
371126 CAACTATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 8 0.24
11 2 0.06
12 23 0.70
ACGTcount: A:0.40, C:0.18, G:0.42, T:0.00
Consensus pattern (12 bp):
GAGGCAGCAAGA
Found at i:385263 original size:17 final size:17
Alignment explanation
Indices: 385241--385279 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
385231 CTCCTTTCAC
385241 CTTTTTTTGTATTTTTT
1 CTTTTTTTGTATTTTTT
* *
385258 CTTTTTTTTTCTTTTTT
1 CTTTTTTTGTATTTTTT
385275 -TTTTT
1 CTTTTT
385280 ACATTTCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.87
Consensus pattern (17 bp):
CTTTTTTTGTATTTTTT
Found at i:385278 original size:11 final size:10
Alignment explanation
Indices: 385252--385277 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
385242 TTTTTTTGTA
385252 TTTTTTCTTT
1 TTTTTTCTTT
385262 TTTTTTCTTT
1 TTTTTTCTTT
385272 TTTTTT
1 TTTTTT
385278 TTACATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:399623 original size:21 final size:21
Alignment explanation
Indices: 399564--399623 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
399554 GATCTTCATT
*
399564 TATCAATAAATG-AG-CCTATC
1 TATCAATAAATGAAGAGC-ATC
* *
399584 TATCTATAGATGAAGAGCATC
1 TATCAATAAATGAAGAGCATC
399605 TATCAATAAATTGAA-AGCA
1 TATCAATAAA-TGAAGAGCA
399624 AATTCTCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 10 0.31
21 17 0.53
22 5 0.16
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (21 bp):
TATCAATAAATGAAGAGCATC
Found at i:401065 original size:26 final size:27
Alignment explanation
Indices: 401035--401085 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
401025 ATGATGTGGT
401035 ATAAAA-TTGACATGGCAAATAACACA
1 ATAAAATTTGACATGGCAAATAACACA
*
401061 ATAAAATTTGACATGGTAAATAACA
1 ATAAAATTTGACATGGCAAATAACA
401086 TGACAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (27 bp):
ATAAAATTTGACATGGCAAATAACACA
Found at i:404427 original size:2 final size:2
Alignment explanation
Indices: 404420--404449 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
404410 GGATGAAGTG
404420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
404450 ATTTTTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:406740 original size:57 final size:55
Alignment explanation
Indices: 406650--406817 Score: 198
Period size: 55 Copynumber: 3.0 Consensus size: 55
406640 AGAAACAATC
* * *
406650 ATGGGAT-AAAAAAATAGTTAGAAAACTTGCCTACTAGAGTTGAAT-ACGATACAGTT
1 ATGGGATAAAAAAAATAGTTAGAAAACTTACCTACCAGAGTTGAATCACCA-A-AG-T
406706 ATGGGATAAAAAAAATAGTTAGAAAACTTACCTACCAGAGTTGAATTCACCAAAGT
1 ATGGGATAAAAAAAATAGTTAGAAAACTTACCTACCAGAGTTGAA-TCACCAAAGT
* * * * *
406762 A-GGTATAAAAAAAACAATTAAAAAACTTACCTGCCAGAGTTGAATTCACCAAAGT
1 ATGGGATAAAAAAAATAGTTAGAAAACTTACCTACCAGAGTTGAA-TCACCAAAGT
406817 A
1 A
406818 GTCTTACACT
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
55 50 0.50
56 9 0.09
57 37 0.37
58 2 0.02
59 3 0.03
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (55 bp):
ATGGGATAAAAAAAATAGTTAGAAAACTTACCTACCAGAGTTGAATCACCAAAGT
Found at i:413247 original size:29 final size:30
Alignment explanation
Indices: 413199--413268 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
413189 TATTTATAAC
*
413199 ATCCATAGTAGCTAAACAAGA-TATACAAT
1 ATCCATAATAGCTAAACAAGAGTATACAAT
* * **
413228 ATCCATAATAGTTAAGCAAGATGTATTGAAT
1 ATCCATAATAGCTAAACAAGA-GTATACAAT
413259 ATCCATAATA
1 ATCCATAATA
413269 ACTGGCACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (30 bp):
ATCCATAATAGCTAAACAAGAGTATACAAT
Found at i:414659 original size:23 final size:23
Alignment explanation
Indices: 414633--414685 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
414623 ATTCTAATAT
414633 GTGTTTGCAAGCATATAGCGATA
1 GTGTTTGCAAGCATATAGCGATA
414656 GTGTTTGCAAGCATATAGCGATA
1 GTGTTTGCAAGCATATAGCGATA
414679 GTGTTTG
1 GTGTTTG
414686 GGCTAGTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (23 bp):
GTGTTTGCAAGCATATAGCGATA
Found at i:422101 original size:26 final size:26
Alignment explanation
Indices: 422072--422202 Score: 93
Period size: 26 Copynumber: 5.0 Consensus size: 26
422062 GGTAAAGGTG
422072 TCCATCAACTTCTGATGGTAAAATTA
1 TCCATCAACTTCTGATGGTAAAATTA
* * *
422098 TCCATCCACTTTTGATGGCAAAATTA
1 TCCATCAACTTCTGATGGTAAAATTA
** * ***
422124 TCTTTCCACTTCTGATAACAAAATTA
1 TCCATCAACTTCTGATGGTAAAATTA
* * * *
422150 TTCTAATTAAATTCTGATAGTAAAATTA
1 -TC-CATCAACTTCTGATGGTAAAATTA
* *
422178 TCCATCTACTT-TTAGTGGTAAAATT
1 TCCATCAACTTCTGA-TGGTAAAATT
422203 GTCTTTAGTT
Statistics
Matches: 81, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
25 2 0.02
26 58 0.72
27 4 0.05
28 17 0.21
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (26 bp):
TCCATCAACTTCTGATGGTAAAATTA
Found at i:423092 original size:28 final size:28
Alignment explanation
Indices: 423023--423092 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
423013 AGTGGATGGG
*
423023 ATAATTTTTCATATTAATAAAAATTAATGA
1 ATAA-TTTTCAT-TTAATAAAAATAAATGA
* *
423053 ATAA-ATTAATTTAATTAAAAATAAAT-A
1 ATAATTTTCATTTAA-TAAAAATAAATGA
423080 ATAATTTTCATTT
1 ATAATTTTCATTT
423093 TATTTGTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 9 0.27
28 20 0.61
30 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (28 bp):
ATAATTTTCATTTAATAAAAATAAATGA
Found at i:423431 original size:28 final size:28
Alignment explanation
Indices: 423399--423593 Score: 125
Period size: 28 Copynumber: 7.1 Consensus size: 28
423389 GCAACAACTG
423399 TTTCATCATGGCGTGTAACAACTAAATT
1 TTTCATCATGGCGTGTAACAACTAAATT
**
423427 TTTCAAT-ATAACGTGTAACAACTAAA-T
1 TTTC-ATCATGGCGTGTAACAACTAAATT
* * * *
423454 CTTCAAT-ATGGCATGTAACAACGATATT
1 TTTC-ATCATGGCGTGTAACAACTAAATT
* *** * *
423482 TTTCAACATGGCACATAATAACTAAA-A
1 TTTCATCATGGCGTGTAACAACTAAATT
* ** *
423509 TTTCAACATGATGTGTAACAACTACATT
1 TTTCATCATGGCGTGTAACAACTAAATT
423537 TTTCAAT-ATGGCGTGTAACAACT-AA-T
1 TTTC-ATCATGGCGTGTAACAACTAAATT
* ** * *
423563 TTTCAACATAACGTGCAACAACTACATT
1 TTTCATCATGGCGTGTAACAACTAAATT
423591 TTT
1 TTT
423594 AATGTAATTT
Statistics
Matches: 126, Mismatches: 33, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
25 1 0.01
26 18 0.14
27 43 0.34
28 61 0.48
29 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (28 bp):
TTTCATCATGGCGTGTAACAACTAAATT
Found at i:423471 original size:55 final size:54
Alignment explanation
Indices: 423399--423593 Score: 192
Period size: 55 Copynumber: 3.6 Consensus size: 54
423389 GCAACAACTG
* **
423399 TTTCATCATGGCGTGTAACAACTAAATTTTTCAATATAACGTGTAACAACTAAA
1 TTTCAACATGGCGTGTAACAACTAAATTTTTCAATATGGCGTGTAACAACTAAA
* * * * * *** *
423453 TCTTCAATATGGCATGTAACAACGATATTTTTCAACATGGCACATAATAACTAAAA
1 T-TTCAACATGGCGTGTAACAACTAAATTTTTCAATATGGCGTGTAACAACT-AAA
** * *
423509 TTTCAACATGATGTGTAACAACTACATTTTTCAATATGGCGTGTAACAACTAAT
1 TTTCAACATGGCGTGTAACAACTAAATTTTTCAATATGGCGTGTAACAACTAAA
** * *
423563 TTTCAACATAACGTGCAACAACTACATTTTT
1 TTTCAACATGGCGTGTAACAACTAAATTTTT
423594 AATGTAATTT
Statistics
Matches: 112, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
54 31 0.28
55 77 0.69
56 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (54 bp):
TTTCAACATGGCGTGTAACAACTAAATTTTTCAATATGGCGTGTAACAACTAAA
Found at i:423683 original size:31 final size:29
Alignment explanation
Indices: 423645--423715 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
423635 TGTCAACTTA
* *
423645 GCCCTTAATTGTAAGGAATCGAAAACGTTTG
1 GCCCTTAATTGTAA-CAATCG-AAACGGTTG
* *
423676 GCCCTTAATTGTTACAATTGAAACGGTTG
1 GCCCTTAATTGTAACAATCGAAACGGTTG
423705 GCCCTTAATTG
1 GCCCTTAATTG
423716 AAAAAGTGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 19 0.53
30 4 0.11
31 13 0.36
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (29 bp):
GCCCTTAATTGTAACAATCGAAACGGTTG
Found at i:423945 original size:21 final size:21
Alignment explanation
Indices: 423919--423958 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
423909 AGAGTTCAAT
*
423919 TTATGTATTTAAAT-TTTGGGG
1 TTATGT-TTCAAATGTTTGGGG
423940 TTATGTTTCAAATGTTTGG
1 TTATGTTTCAAATGTTTGG
423959 TTTGCAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.53
Consensus pattern (21 bp):
TTATGTTTCAAATGTTTGGGG
Found at i:434338 original size:66 final size:66
Alignment explanation
Indices: 434202--434344 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 66
434192 ATCTCATGGC
* * * * * *
434202 ATACATTTTATAACCTCATAAATCACTTACATGTTTAGCCTATAGTTTATATGACTATCTCAACC
1 ATACATTTCATAACCTCATAAATCACTTACATGCTTAGCCCATAGTTTACATGAATATCTCAACA
*
434267 C
66 A
434268 ATACATTTCATAACCTCATAAATCACTTACATGCTTAGCCCATAGTTTACAT-AATATACAT-AA
1 ATACATTTCATAACCTCATAAATCACTTACATGCTTAGCCCATAGTTTACATGAATAT-C-TCAA
434331 CAA
64 CAA
*
434334 ATACATCTCAT
1 ATACATTTCAT
434345 GGCATACATG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 4 0.06
66 62 0.93
67 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (66 bp):
ATACATTTCATAACCTCATAAATCACTTACATGCTTAGCCCATAGTTTACATGAATATCTCAACA
A
Found at i:435158 original size:36 final size:36
Alignment explanation
Indices: 435111--435182 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
435101 AGAAATCAAG
435111 ATTTAAAGTTTCTAAAGCTAAAAATTGACCTTTTTT
1 ATTTAAAGTTTCTAAAGCTAAAAATTGACCTTTTTT
435147 ATTTAAAGTTTCTAAAGCTAAAAATTGACCTTTTTT
1 ATTTAAAGTTTCTAAAGCTAAAAATTGACCTTTTTT
435183 CCATAACAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (36 bp):
ATTTAAAGTTTCTAAAGCTAAAAATTGACCTTTTTT
Found at i:435604 original size:15 final size:16
Alignment explanation
Indices: 435578--435608 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
435568 TACCCAGCTT
435578 ATTTACAGTAAATATC
1 ATTTACAGTAAATATC
435594 ATTTA-AGTAAATATC
1 ATTTACAGTAAATATC
435609 CTCTTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTTACAGTAAATATC
Found at i:439427 original size:16 final size:16
Alignment explanation
Indices: 439406--439437 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
439396 AATTAAACTC
439406 AACATGTGGTTTGAAT
1 AACATGTGGTTTGAAT
439422 AACATGTGGTTTGAAT
1 AACATGTGGTTTGAAT
439438 TCTTTCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
AACATGTGGTTTGAAT
Found at i:443388 original size:17 final size:19
Alignment explanation
Indices: 443352--443388 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
443342 TTTTCGCTGC
*
443352 ATTATATTTTAATTTATTG
1 ATTATATTTTAATGTATTG
443371 ATTAT-TTTTAATGT-TTG
1 ATTATATTTTAATGTATTG
443388 A
1 A
443389 GCATGAGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
ATTATATTTTAATGTATTG
Found at i:443692 original size:13 final size:13
Alignment explanation
Indices: 443674--443698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
443664 AAATTAAAAC
443674 TCTTATTTGTAGT
1 TCTTATTTGTAGT
443687 TCTTATTTGTAG
1 TCTTATTTGTAG
443699 ACTAAAACTC
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (13 bp):
TCTTATTTGTAGT
Found at i:449647 original size:19 final size:21
Alignment explanation
Indices: 449605--449650 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
449595 AAATTACTGT
*
449605 TTATTATAATTTAGTAAACTTA
1 TTATTATAATTTAATAAAC-TA
449627 TTATTATAATTTAAT-AA-TA
1 TTATTATAATTTAATAAACTA
449646 TTATT
1 TTATT
449651 CCTTTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
21 2 0.09
22 14 0.61
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTATTATAATTTAATAAACTA
Found at i:450356 original size:33 final size:34
Alignment explanation
Indices: 450284--450348 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
450274 AGGTCTGCTG
*
450284 CTTCTTCTCCATTTGGCAGCAGACGTTTCTCCCC
1 CTTCTTCTCCATTTGGCAGCAGACGTTGCTCCCC
450318 CTTCTTCTCCATTT-GCAGCAGACGTTGCTCC
1 CTTCTTCTCCATTTGGCAGCAGACGTTGCTCC
450349 TCTTTCTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 16 0.53
34 14 0.47
ACGTcount: A:0.12, C:0.37, G:0.15, T:0.35
Consensus pattern (34 bp):
CTTCTTCTCCATTTGGCAGCAGACGTTGCTCCCC
Found at i:451008 original size:15 final size:15
Alignment explanation
Indices: 450988--451029 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
450978 TTATCTTCTC
*
450988 TGCAATCACATTGCT
1 TGCAATCACATTGCA
451003 TGCAATCACATTGCA
1 TGCAATCACATTGCA
*
451018 AGCAATCACATT
1 TGCAATCACATT
451030 ACACTGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (15 bp):
TGCAATCACATTGCA
Found at i:453091 original size:18 final size:18
Alignment explanation
Indices: 453068--453103 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
453058 TCTATGAGAA
*
453068 CTAAATCATTTGAAGCAT
1 CTAAATCATTTCAAGCAT
453086 CTAAATCATTTCAAGCAT
1 CTAAATCATTTCAAGCAT
453104 TTGTCAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (18 bp):
CTAAATCATTTCAAGCAT
Found at i:455987 original size:20 final size:21
Alignment explanation
Indices: 455947--455987 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
455937 ATTCTGGAGT
455947 GAAGATATTGAGACTTTGTTG
1 GAAGATATTGAGACTTTGTTG
* *
455968 GAAGGTATTGATAC-TTGTTG
1 GAAGATATTGAGACTTTGTTG
455988 CTTGGGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.27, C:0.05, G:0.29, T:0.39
Consensus pattern (21 bp):
GAAGATATTGAGACTTTGTTG
Found at i:457589 original size:22 final size:22
Alignment explanation
Indices: 457549--457593 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
457539 CTGATTTCAA
* *
457549 AAACCTTTACGTGTATATATAT
1 AAACCTTTACATATATATATAT
*
457571 AAACCTTTACATATTTATATAT
1 AAACCTTTACATATATATATAT
457593 A
1 A
457594 TATAGCTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (22 bp):
AAACCTTTACATATATATATAT
Found at i:471569 original size:20 final size:20
Alignment explanation
Indices: 471546--471583 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
471536 CTACAGGGGA
471546 AAATGTATCGATACATTCCC
1 AAATGTATCGATACATTCCC
471566 AAATGTATCGATACATTC
1 AAATGTATCGATACATTC
471584 TTGGCAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (20 bp):
AAATGTATCGATACATTCCC
Found at i:479072 original size:32 final size:32
Alignment explanation
Indices: 479031--479108 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
479021 CGACCAACAG
479031 TAGTTGCAAGCCTTCTTAAAAATTTGCTTAAA
1 TAGTTGCAAGCCTTCTTAAAAATTTGCTTAAA
* *
479063 TAGTTGCAAGCCTTCTTAAACATTTGTTTAAA
1 TAGTTGCAAGCCTTCTTAAAAATTTGCTTAAA
479095 TAGTTGCAAGCCTT
1 TAGTTGCAAGCCTT
479109 AAATTCTGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (32 bp):
TAGTTGCAAGCCTTCTTAAAAATTTGCTTAAA
Found at i:480926 original size:28 final size:28
Alignment explanation
Indices: 480868--481041 Score: 187
Period size: 29 Copynumber: 6.2 Consensus size: 28
480858 GACAGTTTTT
480868 ACATGTTTGTCTTAATTTAA-ACAAGAA
1 ACATGTTTGTCTTAATTTAAGACAAGAA
* *
480895 ACATGCTTGTCTTAATTGAAGACAAGAA
1 ACATGTTTGTCTTAATTTAAGACAAGAA
*
480923 ACATGTTTTGTCTTAATTT-AGACAAAATA
1 ACATG-TTTGTCTTAATTTAAGACAAGA-A
* *
480952 ACATGTTTTATCTTAATTTAA-ACAAGTGA
1 ACATG-TTTGTCTTAATTTAAGACAAG-AA
*
480981 ACATGTTTGTCTTAATTTAAGATAAGAA
1 ACATGTTTGTCTTAATTTAAGACAAGAA
* * *
481009 AAATATGTTGTCTTAATCT-AGACAAGAA
1 ACATGT-TTGTCTTAATTTAAGACAAGAA
481037 A-ATGT
1 ACATGT
481042 ATTTGCAATA
Statistics
Matches: 124, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
27 21 0.17
28 47 0.38
29 55 0.44
30 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAAGACAAGAA
Found at i:480991 original size:86 final size:84
Alignment explanation
Indices: 480868--481033 Score: 233
Period size: 86 Copynumber: 2.0 Consensus size: 84
480858 GACAGTTTTT
* * * *
480868 ACATGTTTGTCTTAATTTAAACAAGAAACATGCTTGTCTTAATTGAAGACAAGAAACATGTTTTG
1 ACATGTTTATCTTAATTTAAACAAGAAACATGCTTGTCTTAATTGAAGACAAGAAAAATATGTTG
*
480933 TCTTAATTTAGACAAAATA
66 TCTTAATCTAGACAAAATA
* * * *
480952 ACATGTTTTATCTTAATTTAAACAAGTGAACATGTTTGTCTTAATTTAAGATAAGAAAAATATGT
1 ACATG-TTTATCTTAATTTAAACAAG-AAACATGCTTGTCTTAATTGAAGACAAGAAAAATATGT
481017 TGTCTTAATCTAGACAA
64 TGTCTTAATCTAGACAA
481034 GAAAATGTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 5 0.07
85 19 0.27
86 47 0.66
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (84 bp):
ACATGTTTATCTTAATTTAAACAAGAAACATGCTTGTCTTAATTGAAGACAAGAAAAATATGTTG
TCTTAATCTAGACAAAATA
Found at i:481023 original size:57 final size:56
Alignment explanation
Indices: 480868--481041 Score: 171
Period size: 57 Copynumber: 3.1 Consensus size: 56
480858 GACAGTTTTT
* *
480868 ACATGTTTGTCTTAATTTAA-ACAAG--AAACATGCTTGTCTTAATTGAAGACAAGAA
1 ACATGTTTGTCTTAATTTAAGACAAGAAAAATATG-TTGTCTTAATTTAA-ACAAGAA
* * * *
480923 ACATGTTTTGTCTTAATTT-AGACAA-AATAACATGTTTTATCTTAATTTAAACAAGTGA
1 ACATG-TTTGTCTTAATTTAAGACAAGAA-AA-ATATGTTGTCTTAATTTAAACAAG-AA
* * *
480981 ACATGTTTGTCTTAATTTAAGATAAGAAAAATATGTTGTCTTAATCTAGACAAGAA
1 ACATGTTTGTCTTAATTTAAGACAAGAAAAATATGTTGTCTTAATTTAAACAAGAA
481037 A-ATGT
1 ACATGT
481042 ATTTGCAATA
Statistics
Matches: 97, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
55 10 0.10
56 19 0.20
57 37 0.38
58 27 0.28
59 4 0.04
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (56 bp):
ACATGTTTGTCTTAATTTAAGACAAGAAAAATATGTTGTCTTAATTTAAACAAGAA
Found at i:481121 original size:29 final size:28
Alignment explanation
Indices: 481060--481123 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
481050 TATGTTTTAT
* * *
481060 CTTAATCTAGACAAGAAAACGTGTTTGT
1 CTTAATTTAGACAAGAAAACATGTTTGC
* *
481088 CTTAATTTAGACAAGATAACATATTTTGC
1 CTTAATTTAGACAAGAAAACAT-GTTTGC
481117 CTTAATT
1 CTTAATT
481124 AAAGATAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (28 bp):
CTTAATTTAGACAAGAAAACATGTTTGC
Found at i:484634 original size:35 final size:35
Alignment explanation
Indices: 484395--484637 Score: 134
Period size: 35 Copynumber: 6.9 Consensus size: 35
484385 CTATGTGAGT
* *
484395 ATAAAGGCCAAATGTGGGGTGTTATACCACACGTG
1 ATAAGGGCCAAATGTGGGGTGTTATACCACATGTG
* * * *
484430 -TAAAGGGTCAGATAG-GGGGTGTTATATCACAAGTG
1 AT-AAGGGCCAAAT-GTGGGGTGTTATACCACATGTG
* * **
484465 AAAAAGGCCAAATGTGGGGCATTATACCACATGTG
1 ATAAGGGCCAAATGTGGGGTGTTATACCACATGTG
* * * ** * *
484500 AAAAAGGGCTAGATGTGAAGTGTTATATCACACGTG
1 -ATAAGGGCCAAATGTGGGGTGTTATACCACATGTG
* * * * *
484536 ATAAGAGCCATATGTGGGCTGTTGTACAACATGAAT-
1 ATAAGGGCCAAATGTGGGGTGTTATACCACATG--TG
** * * * *
484572 ATTCGAGCTAAATGTAGGGCT-TCATACCACATGTG
1 ATAAGGGCCAAATGT-GGGGTGTTATACCACATGTG
* *
484607 ATAAGGGCCAGATGTGGGGTATTATACCACA
1 ATAAGGGCCAAATGTGGGGTGTTATACCACA
484638 CACTTATATA
Statistics
Matches: 151, Mismatches: 47, Indels: 20
0.69 0.22 0.09
Matches are distributed among these distances:
34 7 0.05
35 91 0.60
36 47 0.31
37 6 0.04
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (35 bp):
ATAAGGGCCAAATGTGGGGTGTTATACCACATGTG
Found at i:489991 original size:34 final size:35
Alignment explanation
Indices: 489921--490000 Score: 103
Period size: 34 Copynumber: 2.3 Consensus size: 35
489911 CCTTGGCTTT
489921 CCTTCTCTCTTTCTCTTCTCCATTGGTCGACATTC
1 CCTTCTCTCTTTCTCTTCTCCATTGGTCGACATTC
*
489956 CCTT-TCTCTTTCTCTTCTCC-TCTGGTCGGTC-TTC
1 CCTTCTCTCTTTCTCTTCTCCAT-TGGTC-GACATTC
*
489990 CCTCCTCTCTT
1 CCTTCTCTCTT
490001 ATTCGTCGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
33 1 0.03
34 27 0.68
35 12 0.30
ACGTcount: A:0.04, C:0.40, G:0.09, T:0.47
Consensus pattern (35 bp):
CCTTCTCTCTTTCTCTTCTCCATTGGTCGACATTC
Found at i:507291 original size:20 final size:21
Alignment explanation
Indices: 507263--507301 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
507253 TATTTTTATT
*
507263 TAAACTTATAATAC-TAAATA
1 TAAAATTATAATACATAAATA
507283 TAAAATTATAATACATAAA
1 TAAAATTATAATACATAAA
507302 ACATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAATTATAATACATAAATA
Done.