Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 3 of 276
Found at i:630531 original size:30 final size:30
Alignment explanation
Indices: 630495--630556 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
630485 CACATAGGAT
630495 AGGAAGAGTTCAAGGATTTCTTCGACTTCG
1 AGGAAGAGTTCAAGGATTTCTTCGACTTCG
*
630525 AGGAAGAGTTCAGGGATTTCTTCGACTTCG
1 AGGAAGAGTTCAAGGATTTCTTCGACTTCG
630555 AG
1 AG
630557 TCGTTGAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
AGGAAGAGTTCAAGGATTTCTTCGACTTCG
Found at i:638956 original size:108 final size:108
Alignment explanation
Indices: 638767--639739 Score: 1946
Period size: 108 Copynumber: 9.0 Consensus size: 108
638757 CTTATGCATG
638767 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
638832 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
638875 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
638940 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
638983 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
639048 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
639091 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
639156 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
639199 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
639264 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
639307 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
639372 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
639415 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
639480 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
639523 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
639588 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
639631 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
639696 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
639739 T
1 T
639740 GGGCTATGTG
Statistics
Matches: 865, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 865 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (108 bp):
TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
Found at i:640149 original size:43 final size:44
Alignment explanation
Indices: 640083--640166 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
640073 ATCGAAATAT
* *
640083 GATATTCGGGCTTCGGGCTTAGCAGGCTATAATGCCAGTGAGAC
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGAC
* *
640127 GATA-TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
640167 AATGAAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 32 0.89
44 4 0.11
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (44 bp):
GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGAC
Found at i:641554 original size:46 final size:46
Alignment explanation
Indices: 641503--641672 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
641493 ATGGTTGAGC
* *
641503 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAT
* * * * * * *
641549 GTCCGAACTCGTTGAGTTGAGTCCGAATTC-GTGAAATGTA-ACTAGGT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-AT
* *
641596 ATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAC
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAT
* * *
641642 ACCCGAGCTCGTTGAGTTGAGTCTGAGTTCA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCA
641673 ATTAGGGGTA
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 60 0.62
47 35 0.36
48 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAT
Found at i:649145 original size:46 final size:46
Alignment explanation
Indices: 649095--649263 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
649085 TGGTTGAGCA
*
649095 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
649141 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
649186 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
649234 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
649264 ATTAGGGGCG
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 56 0.55
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:649251 original size:93 final size:93
Alignment explanation
Indices: 649092--649262 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
649082 GGATGGTTGA
* *
649092 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAAAGCCCGAACTCGTTGAGT
649157 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
649185 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAAAGCCCGAACTCGTTGAGT
649250 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
649263 AATTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAAAGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:650890 original size:38 final size:38
Alignment explanation
Indices: 650827--651061 Score: 308
Period size: 38 Copynumber: 6.1 Consensus size: 38
650817 ATTTGATGTG
*
650827 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
* *
650867 TATTCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
650905 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
*
650945 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
650983 TGTCCGGGTTAAATCCTGCAGGCTTCATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * * *
651021 TATCCAGGTTAAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
651059 TAT
1 TAT
651062 TCAGGCCTTT
Statistics
Matches: 173, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 121 0.70
39 15 0.09
40 37 0.21
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:650956 original size:78 final size:78
Alignment explanation
Indices: 650827--651061 Score: 332
Period size: 78 Copynumber: 3.0 Consensus size: 78
650817 ATTTGATGTG
*
650827 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATATAT-TCGGGTTAAATCCCGTAGGCT
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATATATCT-GGGTTAAATCCCGCAGGCT
650891 TCGTGCTGGTAATA
65 TCGTGCTGGTAATA
650905 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCCCGCAGGCTT
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCCCGCAGGCTT
650970 CGTGCTGGTAATA
66 CGTGCTGGTAATA
* * * * * ** *
650983 TGTCCGGG-TTAAA-TCCTGCAGGCTTCATGCTGGTATTATATCCAGGTTAAATCCCGCAGGCCT
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCCCGCAGGCTT
* * *
651046 AGTACTGGTATTA
66 CGTGCTGGTAATA
651059 TAT
1 TAT
651062 TCAGGCCTTT
Statistics
Matches: 143, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
76 55 0.38
77 5 0.03
78 82 0.57
79 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (78 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCCCGCAGGCTT
CGTGCTGGTAATA
Found at i:651114 original size:45 final size:45
Alignment explanation
Indices: 651058--651189 Score: 139
Period size: 45 Copynumber: 3.0 Consensus size: 45
651048 TACTGGTATT
* * *
651058 ATATTCAGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * * *
651102 ACTATTCGGGCCTTTGAGCCTAGTATGCTATAATGCCAGTGACTTG
1 A-TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* *
651148 ATA-TCGAGCC-TTGAGCCTAGCAGG-TAAAATGCCGGTGA-ATG
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
651189 A
1 A
651190 ATAAAAGTCT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
41 3 0.04
42 12 0.16
43 12 0.16
44 7 0.10
45 38 0.52
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (45 bp):
ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:660384 original size:37 final size:37
Alignment explanation
Indices: 660334--660407 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
660324 ATTGGTCACC
660334 CTCTAAAATCCATGCACACTTGTAAGCTTCAAAGGTA
1 CTCTAAAATCCATGCACACTTGTAAGCTTCAAAGGTA
*
660371 CTCTAACATCCATGCACACTTGTAAGCTTCAAAGGTA
1 CTCTAAAATCCATGCACACTTGTAAGCTTCAAAGGTA
660408 TTTTACATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (37 bp):
CTCTAAAATCCATGCACACTTGTAAGCTTCAAAGGTA
Found at i:664450 original size:46 final size:47
Alignment explanation
Indices: 664344--664465 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
664334 TGTCTTCGAC
** * *
664344 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
664394 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
664440 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
664466 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:668887 original size:53 final size:53
Alignment explanation
Indices: 668829--668934 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
668819 CCCTGATTAC
* *
668829 TTTTACTTTCTGCTCAGCATCTTTAATCAAATCAACCCCGAAGATTTTTCTTT
1 TTTTACTTTCTGCTCAGCATCTTTAATCAAATCAACCCCGAAAATTTTACTTT
* *
668882 TTTTACTTTCTGTTCAGCATCTTTAATCAAATCAACTCCGAAAATTTTACTTT
1 TTTTACTTTCTGCTCAGCATCTTTAATCAAATCAACCCCGAAAATTTTACTTT
668935 CCCTAAGCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (53 bp):
TTTTACTTTCTGCTCAGCATCTTTAATCAAATCAACCCCGAAAATTTTACTTT
Found at i:679248 original size:107 final size:107
Alignment explanation
Indices: 679062--679449 Score: 767
Period size: 107 Copynumber: 3.6 Consensus size: 107
679052 TGTGATTATT
679062 TGATAGTGTGGTGATTTCTGACATTTGCAAATGTGTTTATTTATAGTAATGGATCCCGATCCCGA
1 TGATAGTGTGGTGATTTCTGACATTTGCAAATGTGTTTATTTATAGTAATGGATCCCGATCCCGA
679127 CCCCGACCGAGCGGTAGCTTATGATCTTGAGAGTGTAGTGCC
66 CCCCGACCGAGCGGTAGCTTATGATCTTGAGAGTGTAGTGCC
679169 TGATAGTGTGGTGATTTCTGACATTTGCAAATGTGTTTATTTATAGTAATGGATCCCGATCCCGA
1 TGATAGTGTGGTGATTTCTGACATTTGCAAATGTGTTTATTTATAGTAATGGATCCCGATCCCGA
*
679234 CCCCGACCGAGCGGTAGCTGATGATCTTGAGAGTGTAGTGCC
66 CCCCGACCGAGCGGTAGCTTATGATCTTGAGAGTGTAGTGCC
679276 TGATAGTGTGGTGATTTCTGACATTTGCAAATGTGTTTATTTATAGTAATGGATCCCGATCCCGA
1 TGATAGTGTGGTGATTTCTGACATTTGCAAATGTGTTTATTTATAGTAATGGATCCCGATCCCGA
679341 CCCCGACCGAGCGGTAGCTTATGATCTTGAGAGTGTAGTGCC
66 CCCCGACCGAGCGGTAGCTTATGATCTTGAGAGTGTAGTGCC
679383 TGATAGTGTGGTGATTTCTGACATTTGCAAATGTGTTTATTTATAGTAATGGATCCCGATCCCGA
1 TGATAGTGTGGTGATTTCTGACATTTGCAAATGTGTTTATTTATAGTAATGGATCCCGATCCCGA
679448 CC
66 CC
679450 GAGTAGTAGC
Statistics
Matches: 279, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 279 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (107 bp):
TGATAGTGTGGTGATTTCTGACATTTGCAAATGTGTTTATTTATAGTAATGGATCCCGATCCCGA
CCCCGACCGAGCGGTAGCTTATGATCTTGAGAGTGTAGTGCC
Found at i:705376 original size:20 final size:21
Alignment explanation
Indices: 705334--705381 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
705324 GTGGAAATGT
* *
705334 AAAAGAAA-A-GAAAAACGAG
1 AAAAGAAAGAGGAAAAACAAC
705353 AAAA-AAAGAGGAAAAACAAC
1 AAAAGAAAGAGGAAAAACAAC
705373 AAAAGAAAG
1 AAAAGAAAG
705382 TGAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 5 0.21
20 12 0.50
21 4 0.17
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGAGGAAAAACAAC
Found at i:705401 original size:13 final size:14
Alignment explanation
Indices: 705378--705422 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
705368 ACAACAAAAG
705378 AAAG-TGAAAAGAA
1 AAAGATGAAAAGAA
*
705391 AATGA-GAAAAGAA
1 AAAGATGAAAAGAA
705404 AAAGATGAGAAAGAA
1 AAAGATGA-AAAGAA
705419 AAAG
1 AAAG
705423 CATGTGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 15 0.56
14 2 0.07
15 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (14 bp):
AAAGATGAAAAGAA
Found at i:705418 original size:15 final size:16
Alignment explanation
Indices: 705392--705422 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
705382 TGAAAAGAAA
705392 ATGAGAAAAGAAAAAG
1 ATGAGAAAAGAAAAAG
705408 ATGAG-AAAGAAAAAG
1 ATGAGAAAAGAAAAAG
705423 CATGTGAGAA
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:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (16 bp):
ATGAGAAAAGAAAAAG
Found at i:708586 original size:29 final size:28
Alignment explanation
Indices: 708554--708624 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
708544 ATACAAGTCT
** *
708554 TTAATATGTCTTACCTTAAATTCATGTTA
1 TTAATATGTCTTAAATTAAAAT-ATGTTA
*
708583 TTAATATGTCTTAAAATTAAAATATGTTT
1 TTAATATGTCTT-AAATTAAAATATGTTA
708612 TTAATATGTCTTA
1 TTAATATGTCTTA
708625 GTGCAGCCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.03
29 29 0.78
30 7 0.19
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.49
Consensus pattern (28 bp):
TTAATATGTCTTAAATTAAAATATGTTA
Found at i:714761 original size:8 final size:8
Alignment explanation
Indices: 714728--714769 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
714718 AAATAAAATA
714728 AAATAATT
1 AAATAATT
714736 -AATAATT
1 AAATAATT
* *
714743 AAACAAGT
1 AAATAATT
714751 AAATAATT
1 AAATAATT
714759 AAATAATT
1 AAATAATT
714767 AAA
1 AAA
714770 AGAAATGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AAATAATT
Found at i:715627 original size:13 final size:14
Alignment explanation
Indices: 715609--715642 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
715599 AAAATATTCT
715609 TTTTAATTTAA-AA
1 TTTTAATTTAATAA
715622 TTTTAATTTAATTAA
1 TTTTAATTTAA-TAA
715637 TTTTAA
1 TTTTAA
715643 AAATAACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
15 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAATTTAATAA
Found at i:718142 original size:27 final size:27
Alignment explanation
Indices: 718103--718220 Score: 148
Period size: 27 Copynumber: 4.3 Consensus size: 27
718093 CAGAGTGAGT
* *
718103 CACCAGATACAGATAATCGTGGCAGGGC
1 CACCAGA-ACAGATAATTGTGGCAGAGC
*
718131 CACCATAACAGAT-ATATGTGGCAGAGC
1 CACCAGAACAGATAAT-TGTGGCAGAGC
* *
718158 CACCAGATCAGATATTTGTGGCAGAGC
1 CACCAGAACAGATAATTGTGGCAGAGC
* *
718185 CACCAGATCAGATATTTGTGGCAGAGC
1 CACCAGAACAGATAATTGTGGCAGAGC
718212 CACCAGAAC
1 CACCAGAAC
718221 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.02
27 72 0.89
28 7 0.09
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTGGCAGAGC
Found at i:718179 original size:54 final size:55
Alignment explanation
Indices: 718103--718218 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 55
718093 CAGAGTGAGT
* *
718103 CACCAGATACAGATAATCGTGGCAGGGCCACCATAACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
718158 CACCAGAT-CAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGC
1 CACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
718212 CACCAGA
1 CACCAGA
718219 ACGCTTCCTC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
54 47 0.85
55 8 0.15
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (55 bp):
CACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:719867 original size:26 final size:26
Alignment explanation
Indices: 719831--719966 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
719821 CATGAAATTC
*
719831 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
719857 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
719883 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
719909 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
719935 TTATTATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
719961 TTATCA
1 TTATCA
719967 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:722262 original size:27 final size:27
Alignment explanation
Indices: 722224--722402 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
722214 TAAATTGTAC
722224 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
722251 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** *
722277 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
722305 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
722333 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
722360 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
722387 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
722403 GCTCAATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 103 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:722392 original size:82 final size:81
Alignment explanation
Indices: 722221--722402 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 81
722211 GATTAAATTG
* *
722221 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
722286 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
722302 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
722366 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
722384 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
722403 GCTCAATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.21
82 68 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:729768 original size:18 final size:18
Alignment explanation
Indices: 729726--729768 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
729716 GCCCATTCCG
* *
729726 AAGTATATATATATATAC
1 AAGTATGTATATATACAC
729744 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
729762 AAGTATG
1 AAGTATG
729769 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:730282 original size:27 final size:27
Alignment explanation
Indices: 730244--730422 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
730234 TAAATTGTAC
730244 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
730271 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** *
730297 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
730325 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
730353 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
730380 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
730407 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
730423 GCTCAATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 103 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:730412 original size:82 final size:81
Alignment explanation
Indices: 730241--730422 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 81
730231 GATTAAATTG
* *
730241 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
730306 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
730322 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
730386 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
730404 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
730423 GCTCAATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.21
82 68 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:732348 original size:12 final size:12
Alignment explanation
Indices: 732314--732355 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
732304 AATCAGAATG
* *
732314 TAAAAATTAAAC
1 TAAAAAATAAAA
*
732326 TAAATAA-AAAA
1 TAAAAAATAAAA
732337 TAAAAAATAAAA
1 TAAAAAATAAAA
732349 TAAAAAA
1 TAAAAAA
732356 GGCTAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:732458 original size:37 final size:37
Alignment explanation
Indices: 732403--732473 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
732393 AGTCCCCAAT
732403 AATGGTGCCAAAAACTTGATAGTCACAAAACTAAAAC
1 AATGGTGCCAAAAACTTGATAGTCACAAAACTAAAAC
*
732440 AATGGTGCCAAAACCTTGATAGTCACAAAACTAA
1 AATGGTGCCAAAAACTTGATAGTCACAAAACTAA
732474 CTATAAATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (37 bp):
AATGGTGCCAAAAACTTGATAGTCACAAAACTAAAAC
Found at i:735795 original size:14 final size:14
Alignment explanation
Indices: 735776--735802 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
735766 AATACTTAGT
735776 TTTGTTCTTAATTA
1 TTTGTTCTTAATTA
735790 TTTGTTCTTAATT
1 TTTGTTCTTAATT
735803 CTTAGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTGTTCTTAATTA
Found at i:742177 original size:40 final size:40
Alignment explanation
Indices: 742117--742585 Score: 695
Period size: 40 Copynumber: 11.7 Consensus size: 40
742107 TGAGCATTGG
742117 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * **
742157 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAC
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
742197 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * **
742237 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAC
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
742277 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * **
742317 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAC
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
742357 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
742397 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
742437 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * **
742477 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAC
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
742517 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
742557 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
742586 ATGTGTTTGC
Statistics
Matches: 381, Mismatches: 48, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 381 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:742251 original size:80 final size:80
Alignment explanation
Indices: 742118--742585 Score: 882
Period size: 80 Copynumber: 5.8 Consensus size: 80
742108 GAGCATTGGA
742118 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
742183 CAATTATGCGAGACG
66 CAATTATGCGAGACG
742198 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
742263 CAATTATGCGAGACG
66 CAATTATGCGAGACG
742278 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
742343 CAATTATGCGAGACG
66 CAATTATGCGAGACG
742358 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
**
742423 CAATTATGCGAGTTG
66 CAATTATGCGAGACG
742438 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
742503 CAATTATGCGAGACG
66 CAATTATGCGAGACG
* * * *
742518 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
742583 CAA
66 CAA
742586 ATGTGTTTGC
Statistics
Matches: 380, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 380 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
CAATTATGCGAGACG
Found at i:751210 original size:47 final size:47
Alignment explanation
Indices: 751124--751242 Score: 148
Period size: 47 Copynumber: 2.5 Consensus size: 47
751114 TATTTGAATA
* * * *
751124 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGACAAGGCCGAATGGCCAACGTGATG
* *
751173 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
* *
751220 GATGTGAAAGTGTATAAATGTGA
1 AATGTGAAAGTGTATATATGTGA
751243 TAAGTCCCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 50 0.81
49 12 0.19
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:751859 original size:101 final size:101
Alignment explanation
Indices: 751684--751886 Score: 379
Period size: 101 Copynumber: 2.0 Consensus size: 101
751674 TATCAATGTC
751684 ACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATATTCGG
1 ACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATATTCGG
*
751749 TAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAA
66 CAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAA
*
751785 ACATGATCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATATTCGG
1 ACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATATTCGG
*
751850 CAAAGGGATGGTATGCCCGAAGGAAGTGTGAAATAA
66 CAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAA
751886 A
1 A
751887 AATACGAACA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (101 bp):
ACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATATTCGG
CAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAA
Found at i:768674 original size:46 final size:46
Alignment explanation
Indices: 768607--768781 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
768597 TGTAACCCGC
768607 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * * *
768653 CCATAAGTGAAATCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
768703 CTC-T---TGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
768746 CCATAAGTGAACTCAGTCTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
768782 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 59 0.57
47 25 0.24
48 1 0.01
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:768727 original size:93 final size:93
Alignment explanation
Indices: 768614--768786 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
768604 CGCCCATAAG
* * *
768614 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAATCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCA
*
768679 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * * * *
768707 TGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCATCCATAAGTGAACTCAGTCTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCA
*
768772 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
768787 CAAATATCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:770594 original size:30 final size:30
Alignment explanation
Indices: 770550--770638 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
770540 CAAAGATAAC
770550 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
770579 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
770609 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
770639 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:770598 original size:15 final size:15
Alignment explanation
Indices: 770550--770629 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
770540 CAAAGATAAC
*
770550 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
770564 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
770579 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
770594 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
770609 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
770624 AAGAAA
1 AAGAAA
770630 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:770638 original size:15 final size:15
Alignment explanation
Indices: 770561--770638 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
770551 AGAAAACCGA
770561 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
770576 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
770590 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
770605 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
770621 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
770636 ATA
1 ATA
770639 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:772646 original size:63 final size:63
Alignment explanation
Indices: 772547--772671 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
772537 AACCCGGCTC
*
772547 ATATGGTCGTTTCGTTTCTTTCATATGAAAATAGACTCATCAAGATTCGATTAAATAATTTAG
1 ATATGGTCGTTTCGTTTCTTTCATATGAAAATAGACTCATCAAGATTCGATAAAATAATTTAG
772610 ATATGGTCGTTTCGTTTCTTTCATATGAAAATAGACTCATCAAGATTCGATAAAATAATTTA
1 ATATGGTCGTTTCGTTTCTTTCATATGAAAATAGACTCATCAAGATTCGATAAAATAATTTA
772672 TTCATTATTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (63 bp):
ATATGGTCGTTTCGTTTCTTTCATATGAAAATAGACTCATCAAGATTCGATAAAATAATTTAG
Found at i:773756 original size:40 final size:42
Alignment explanation
Indices: 773712--773869 Score: 118
Period size: 41 Copynumber: 3.9 Consensus size: 42
773702 TGATTCTTAA
773712 CACTGGCTC-AAAGCCCTTCGAGA-CCAAGCTCGGATTAGGC
1 CACTGGCTCAAAAGCCCTTCGAGACCCAAGCTCGGATTAGGC
* * * * * * *
773752 CACTGGCTCGAAGGCCCTTCG-GATCTATG-TCCGATTATGAC
1 CACTGGCTCAAAAGCCCTTCGAGACCCAAGCTCGGATTA-GGC
* * * * *
773793 C-CTGTCTCAAAAGCCCTTC-AAAACTAAGTTCGGTTATTA-G-
1 CACTGGCTCAAAAGCCCTTCGAGACCCAAGCTCGG--ATTAGGC
773833 CACTGGCTCAAAAGCCCTTCGA-ACCCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTCGAGACCCAAGCTCGGATT
773870 TACACCCCAA
Statistics
Matches: 92, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
39 3 0.03
40 39 0.42
41 45 0.49
42 1 0.01
43 4 0.04
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.23
Consensus pattern (42 bp):
CACTGGCTCAAAAGCCCTTCGAGACCCAAGCTCGGATTAGGC
Found at i:776345 original size:60 final size:60
Alignment explanation
Indices: 776242--776363 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 60
776232 CGATCTACAG
* * * * *
776242 CTGCTTTCAGACTTTCCCTGATTACTTTTACTTTCTGCTCAGCATCTTTAATCAAATCAA
1 CTGCCTTCAAACTTTCACGGATTACCTTTACTTTCTGCTCAGCATCTTTAATCAAATCAA
*
776302 CTGCCTTCAAACTTTCACGGATTACCTTTACTTTCTGTTCAGCATCTTTAATCAAATCAA
1 CTGCCTTCAAACTTTCACGGATTACCTTTACTTTCTGCTCAGCATCTTTAATCAAATCAA
776362 CT
1 CT
776364 CCAAAAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.40
Consensus pattern (60 bp):
CTGCCTTCAAACTTTCACGGATTACCTTTACTTTCTGCTCAGCATCTTTAATCAAATCAA
Found at i:782255 original size:40 final size:39
Alignment explanation
Indices: 782211--782368 Score: 160
Period size: 41 Copynumber: 3.9 Consensus size: 39
782201 CGATTCTTAA
*
782211 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTA-G
* * *
782250 CCACTGGCTCGAAGGCCCTTCGAAACTAAG-TCCGG-TTATG
1 -CACTGGCTCAAAAGCCCTTCGAAACCAAGCT-CGGATTA-G
* * *
782290 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCAGTTATTAG
1 -CACTGGCTCAAAAGCCCTTCGAAACCAAGCTC-G-GATTAG
*
782332 CACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
782369 TACACCCCGA
Statistics
Matches: 100, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
39 3 0.03
40 43 0.43
41 50 0.50
42 1 0.01
43 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAG
Found at i:782348 original size:41 final size:40
Alignment explanation
Indices: 782211--782354 Score: 159
Period size: 40 Copynumber: 3.6 Consensus size: 40
782201 CGATTCTTAA
* * * *
782211 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCG-GATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGTTATTA-G
* * * *
782250 CCACTGGCTCGAAGGCCCTTCGAAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTC-GTTATTAG
782291 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCAGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTC-GTTATTAG
782332 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
782355 CCCAAGCTCG
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
40 44 0.50
41 40 0.45
42 1 0.01
43 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGTTATTAG
Found at i:788475 original size:40 final size:40
Alignment explanation
Indices: 788431--788692 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
788421 GCTCCTCGTT
* *
788431 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
788471 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
788511 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
788550 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
788589 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
788628 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
788669 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
788693 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:790809 original size:15 final size:16
Alignment explanation
Indices: 790789--790821 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
790779 TATGTATGCT
790789 TATTTCTT-ATATTAA
1 TATTTCTTGATATTAA
790804 TATTTCTTGGATATTAA
1 TATTTCTT-GATATTAA
790821 T
1 T
790822 TCATGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TATTTCTTGATATTAA
Found at i:795812 original size:13 final size:14
Alignment explanation
Indices: 795781--795814 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
795771 CTTATTTTAT
795781 TTTTTTGATAGTGA
1 TTTTTTGATAGTGA
795795 TTTTTTGATAGTGA
1 TTTTTTGATAGTGA
795809 TTTTTT
1 TTTTTT
795815 TTTATTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (14 bp):
TTTTTTGATAGTGA
Found at i:798261 original size:26 final size:25
Alignment explanation
Indices: 798232--798313 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 25
798222 CATACCGCAA
*
798232 CTCTTTGTGAGCGTCCTGTTATATGG
1 CTCTTTGTGAGCTTCCTGTTA-ATGG
* ** *
798258 CTCTTCGTGAGCTTCCCAATTAAAGG
1 CTCTTTGTGAGCTT-CCTGTTAATGG
798284 CTCTTTGTGAGCTTCCTGATTAATGG
1 CTCTTTGTGAGCTTCCTG-TTAATGG
798310 CTCT
1 CTCT
798314 CCGGAGCTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
25 2 0.04
26 38 0.84
27 5 0.11
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (25 bp):
CTCTTTGTGAGCTTCCTGTTAATGG
Found at i:798392 original size:24 final size:24
Alignment explanation
Indices: 798365--798435 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
798355 ATGGCTATCT
*
798365 AAAGTTTCCTATTAATGGCTCTTC
1 AAAGCTTCCTATTAATGGCTCTTC
* * *
798389 AAAGCTACCTATTATTGGCTC-GC
1 AAAGCTTCCTATTAATGGCTCTTC
798412 ATAAGCTTCCTGATT-ATGGCTCTT
1 A-AAGCTTCCT-ATTAATGGCTCTT
798436 ATGAGCTTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 2 0.05
24 32 0.86
25 3 0.08
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (24 bp):
AAAGCTTCCTATTAATGGCTCTTC
Found at i:799095 original size:13 final size:13
Alignment explanation
Indices: 799077--799102 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
799067 GAAATATTTT
799077 CGTTGGAACTAGC
1 CGTTGGAACTAGC
799090 CGTTGGAACTAGC
1 CGTTGGAACTAGC
799103 ACATGGGCGT
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:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
CGTTGGAACTAGC
Found at i:811708 original size:6 final size:7
Alignment explanation
Indices: 811691--811715 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
811681 CTTTATAATT
811691 TTTTTTA
1 TTTTTTA
811698 TTTTTTA
1 TTTTTTA
811705 TTTTTTA
1 TTTTTTA
811712 TTTT
1 TTTT
811716 ACTATGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:846225 original size:47 final size:47
Alignment explanation
Indices: 846162--846465 Score: 419
Period size: 47 Copynumber: 6.4 Consensus size: 47
846152 CCCTTCGGGA
* * *
846162 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
846209 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
846256 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * * * *
846303 CTCATCACATATATACACTTTCACATTCATTACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
846350 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
846397 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
846446 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
846466 GTACATCAAT
Statistics
Matches: 234, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 189 0.81
49 45 0.19
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:855553 original size:43 final size:43
Alignment explanation
Indices: 855395--855561 Score: 126
Period size: 43 Copynumber: 3.9 Consensus size: 43
855385 GGTTAACGAG
* *
855395 ATGTGATTACATGTAAGACCATGTCT-GGAACATTGGCAT-TAT
1 ATGTGATTACATGTAAGACCATATCTAGG-ACATTGGCATCAAT
** * * **
855437 ATTGTGATTATGTGTAAGACCATATCTGGGACATTTGCATCGTT
1 A-TGTGATTACATGTAAGACCATATCTAGGACATTGGCATCAAT
* * * * * * *
855481 AAT-CGATTTCGTGTAAGACCCTTTTTAGGACAGTGGCATCAAT
1 -ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCAAT
* *
855524 ATGTGATAACATGTAAGACCATATCTAGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTAGGACATTGGCAT
855562 TATACAAGCT
Statistics
Matches: 95, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 9 0.09
43 81 0.85
44 4 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCAAT
Found at i:863996 original size:28 final size:28
Alignment explanation
Indices: 863965--864059 Score: 154
Period size: 28 Copynumber: 3.4 Consensus size: 28
863955 CAATGCCTCA
* *
863965 CACACTAAGTGTCATACTCGATATCTCG
1 CACACTAAGTGCCACACTCGATATCTCG
* *
863993 CACACAAAGTGCCACACTCGATATCTTG
1 CACACTAAGTGCCACACTCGATATCTCG
864021 CACACTAAGTGCCACACTCGATATCTCG
1 CACACTAAGTGCCACACTCGATATCTCG
864049 CACACTAAGTG
1 CACACTAAGTG
864060 TCGTACACAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
CACACTAAGTGCCACACTCGATATCTCG
Found at i:864091 original size:40 final size:40
Alignment explanation
Indices: 864046--864142 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
864036 ACTCGATATC
* *
864046 TCGCACACTAAGTGTCGTACACAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
* * * *
864086 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
*
864126 TCGTACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
864143 CAAATAACTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
Found at i:866305 original size:17 final size:17
Alignment explanation
Indices: 866283--866315 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
866273 ATCTGACAAA
*
866283 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
866300 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
866316 ATGATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:868465 original size:50 final size:50
Alignment explanation
Indices: 867511--868455 Score: 1790
Period size: 50 Copynumber: 18.9 Consensus size: 50
867501 CATCGCCTAC
* * *
867511 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
867559 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
867609 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
867659 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
867709 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
867759 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
867809 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
867859 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
867909 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
867959 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
868009 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
868059 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
868109 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
868159 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
868209 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
868259 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
868309 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
* *
868359 ATATTTCACATTAGCCATTCGGCTTTACCACAAATATACTTATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCAC-AA-ATACATATCTCATATAT
*
868409 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATA
868456 CATCAATTTC
Statistics
Matches: 884, Mismatches: 7, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
48 52 0.06
49 1 0.00
50 819 0.93
51 2 0.00
52 10 0.01
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (50 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATAT
Found at i:878907 original size:27 final size:27
Alignment explanation
Indices: 878805--878908 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
878795 AATACTTTAG
*
878805 TTTACCAAATTATTGAAATACCCTCGA
1 TTTACAAAATTATTGAAATACCCTCGA
* ** ** *
878832 CTTGTAAAATTA-ACAAAGTACCCCCGA
1 TTTACAAAATTATTGAAA-TACCCTCGA
** *** *
878859 TTTACAAAATTACCGTTTTACCATCGA
1 TTTACAAAATTATTGAAATACCCTCGA
878886 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTATTGAAATACCC
878909 CTGTAGGGTA
Statistics
Matches: 52, Mismatches: 23, Indels: 4
0.66 0.29 0.05
Matches are distributed among these distances:
26 3 0.06
27 49 0.94
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTATTGAAATACCCTCGA
Found at i:878929 original size:27 final size:27
Alignment explanation
Indices: 878893--879033 Score: 133
Period size: 27 Copynumber: 5.2 Consensus size: 27
878883 CGATTTACAA
* *
878893 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
*
878920 AGTTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* * *
878947 AATTA-TCGAAATACCCTTGTAGGGCAG
1 AATTACT-GAAATACCCCTATAGGGTAG
* **
878974 AAATACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* * * *
879001 AATTA-TCGAGATACCCTTATGGGGTAA
1 AATTACT-GAAATACCCCTATAGGGTAG
879028 AATTAC
1 AATTAC
879034 CATTTTGCCC
Statistics
Matches: 90, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 89 0.99
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTATAGGGTAG
Found at i:878958 original size:54 final size:54
Alignment explanation
Indices: 878893--879016 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
878883 CGATTTACAA
* * ** **
878893 AATTATTGAAATACCCCTGTAGGGTAGAGTTACTGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGCAGAAATACCAAAATACCCCTATAGGGTAG
*
878947 AATTATCGAAATACCCTTGTAGGGCAGAAATACCAAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGCAGAAATACCAAAATACCCCTATAGGGTAG
*
879001 AATTATCGAGATACCC
1 AATTATCGAAATACCC
879017 TTATGGGGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTATCGAAATACCCCTGTAGGGCAGAAATACCAAAATACCCCTATAGGGTAG
Found at i:879600 original size:27 final size:26
Alignment explanation
Indices: 879526--879655 Score: 134
Period size: 27 Copynumber: 4.8 Consensus size: 26
879516 TGGAGGAAGC
*
879526 GTTCTGGTGGCAATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
879553 GTTTCTGGTGGCTATGTCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
879581 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * **
879607 GTTTCTGGTGACTCTATCACAATATCT
1 G-TTCTGGTGGCTATGCCACAATATCT
* * *
879634 GTTCTGGTAGCCATGCTACAAT
1 GTTCTGGTGGCTATGCCACAAT
879656 TTCTATGGTG
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.25
27 40 0.46
28 25 0.29
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:879627 original size:54 final size:54
Alignment explanation
Indices: 879526--879641 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
879516 TGGAGGAAGC
* *
879526 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGGCTATGTCACAAATATCT
1 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGACTATATCAC-AATATCT
** *
879581 GTTCTGGTGGCTCTGCCAC-AATATCTGTTTCTGGTGACTCTATCACAATATCT
1 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGACTATATCACAATATCT
879634 GTTCTGGT
1 GTTCTGGT
879642 AGCCATGCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 15 0.27
54 24 0.43
55 17 0.30
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGACTATATCACAATATCT
Found at i:879655 original size:53 final size:54
Alignment explanation
Indices: 879526--879655 Score: 174
Period size: 53 Copynumber: 2.4 Consensus size: 54
879516 TGGAGGAAGC
* * *
879526 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGGCTATGTCACAAATATCT
1 GTTCTGGTGGCCATGCCAC-AATATCTGTTTCTGGTGACTATATCACAAATATCT
*
879581 GTTCTGGTGGCTC-TGCCACAATATCTGTTTCTGGTGACTCTATCAC-AATATCT
1 GTTCTGGTGGC-CATGCCACAATATCTGTTTCTGGTGACTATATCACAAATATCT
* *
879634 GTTCTGGTAGCCATGCTACAAT
1 GTTCTGGTGGCCATGCCACAAT
879656 TTCTATGGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
52 1 0.01
53 25 0.37
54 24 0.36
55 17 0.25
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCCATGCCACAATATCTGTTTCTGGTGACTATATCACAAATATCT
Found at i:905029 original size:19 final size:21
Alignment explanation
Indices: 905001--905043 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
904991 TTTGTTTTTC
*
905001 TTTCTTTTCTTC-CTGC-CAA
1 TTTCTATTCTTCTCTGCACAA
905020 TTTCTATTCTTCTCTGCACAA
1 TTTCTATTCTTCTCTGCACAA
905041 TTT
1 TTT
905044 TCTTTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.14, C:0.28, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTCTATTCTTCTCTGCACAA
Found at i:905685 original size:16 final size:16
Alignment explanation
Indices: 905650--905701 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
905640 TATGTATCGA
* * *
905650 AAAAAGCTGAAATGCC
1 AAAAAGCCGAAAAGCG
905666 AAAAAGCCGAAAAGCG
1 AAAAAGCCGAAAAGCG
* *
905682 AAAATGTCGAAAAGCTG
1 AAAAAGCCGAAAAGC-G
905699 AAA
1 AAA
905702 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.10
Consensus pattern (16 bp):
AAAAAGCCGAAAAGCG
Found at i:905959 original size:28 final size:28
Alignment explanation
Indices: 905912--905996 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
905902 GTGAGCATGA
*
905912 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
905940 AT-TTAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
905968 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
905996 A
1 A
905997 AATACAGGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
27 8 0.16
28 35 0.70
29 7 0.14
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:916261 original size:19 final size:19
Alignment explanation
Indices: 916224--916267 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
916214 AATTTAGGGA
**
916224 TTATTTTTTTCCTTTAATT
1 TTATTTTTTTCCTAAAATT
916243 TTATTTTTTTCCTAAAATT
1 TTATTTTTTTCCTAAAATT
*
916262 CTATTT
1 TTATTT
916268 CCCGTTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTTTCCTAAAATT
Found at i:921040 original size:43 final size:43
Alignment explanation
Indices: 920984--921199 Score: 233
Period size: 43 Copynumber: 5.0 Consensus size: 43
920974 CATAGGATTT
* *
920984 TCGATATGTGATTTCGTGCAAGACCATGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* * * * *
921027 TCGACT-TATGATTTACATGTAAGATCATGTCTGGGACATCGGCA
1 TCGA-TATTTGATTT-CGTGTAAGACCATGTCTGGGACGTTGGCA
*
921071 TC-ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA
* * * *
921113 TCGATATTTGATTTTGTGTAAGACCCTGTTTGGGATAG-TGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGA-CGTTGGCA
* * *
921156 TCGATATTTGATTACATGTAAGACCAAGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
921199 T
1 T
921200 TGTATGAGCT
Statistics
Matches: 144, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
42 27 0.19
43 90 0.62
44 27 0.19
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:923083 original size:33 final size:33
Alignment explanation
Indices: 923009--923071 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
922999 TCTCTGTTTG
*
923009 GTGTGTTGGTTGGACTAGCTCTTATAAGCACTA
1 GTGTGTTGGTTGGACTAGCTCTTATAAACACTA
* *
923042 GTGTGTTGGTTGGATTAGCTCTTCTAAACA
1 GTGTGTTGGTTGGACTAGCTCTTATAAACA
923072 TTGATGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (33 bp):
GTGTGTTGGTTGGACTAGCTCTTATAAACACTA
Found at i:932024 original size:5 final size:5
Alignment explanation
Indices: 932016--932045 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
932006 CCTTAATACT
932016 ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
932046 GTAAATTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:934001 original size:48 final size:48
Alignment explanation
Indices: 933930--934160 Score: 277
Period size: 48 Copynumber: 4.8 Consensus size: 48
933920 GACATCGTGC
* *
933930 TATATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCAGCGATAA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* *
933978 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * * *
934026 TATGTATGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * **
934074 TATGTGTGCCGGTCAAAGACCATGTCTGGGACATGGCATC-GACGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAG-CGATGA
* ** * *
934122 TCTATG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 TATATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
934161 TAGTACTTTA
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 156 0.99
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
Found at i:935580 original size:21 final size:19
Alignment explanation
Indices: 935551--935590 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
935541 ATTATGTTCC
935551 TTAACTATTTTGGTACAATTT
1 TTAACTATTTT--TACAATTT
*
935572 TTAATTATTTTTACAATTT
1 TTAACTATTTTTACAATTT
935591 AGAACAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (19 bp):
TTAACTATTTTTACAATTT
Found at i:936157 original size:38 final size:38
Alignment explanation
Indices: 936114--936268 Score: 175
Period size: 38 Copynumber: 3.8 Consensus size: 38
936104 ATAACCTGTA
936114 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTT
*
936152 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCGATATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTAC----AT-G---T-T
* * *
936199 GTAAACGTGGCATATTCACTTAGCACCACGTTACATGTA
1 -TAACCGTGGCATATCCACTTAGCACCACGTTACATGTT
*
936238 TAACCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGCATATCCACTTAGCACCACGTT
936269 TTTCCATTCT
Statistics
Matches: 99, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
38 60 0.61
40 1 0.01
42 2 0.02
43 2 0.02
44 2 0.02
46 1 0.01
47 1 0.01
48 30 0.30
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (38 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTT
Found at i:936227 original size:48 final size:48
Alignment explanation
Indices: 936147--936238 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
936137 ACCACGTTAC
* * *
936147 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCGAT
1 ATGTGTAAACGTGGCATATCCACTTAGCACCACGTTACATGTATCGAT
*
936195 ATGTGTAAACGTGGCATATTCACTTAGCACCACGTTACATGTAT
1 ATGTGTAAACGTGGCATATCCACTTAGCACCACGTTACATGTAT
936239 AACCGTGGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (48 bp):
ATGTGTAAACGTGGCATATCCACTTAGCACCACGTTACATGTATCGAT
Found at i:943247 original size:38 final size:38
Alignment explanation
Indices: 943204--943412 Score: 175
Period size: 38 Copynumber: 5.0 Consensus size: 38
943194 TTTTCGAATA
*
943204 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
943242 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
943283 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
943327 ACATGTATCGATATGTGTAAACGTGGTATATTCACTTAGCACCACGTT
1 AC----AT-G-TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
943375 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
943413 TTTCCATTCC
Statistics
Matches: 140, Mismatches: 15, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
38 62 0.44
39 1 0.01
41 2 0.01
42 3 0.02
43 2 0.01
44 5 0.04
45 3 0.02
46 3 0.02
47 27 0.19
48 32 0.23
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:943318 original size:47 final size:48
Alignment explanation
Indices: 943249--943377 Score: 188
Period size: 48 Copynumber: 2.7 Consensus size: 48
943239 GTTACATGTT
*
943249 TAACCATGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
943296 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCGATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* *
943344 TAAACGTGGTATATTCACTTAGCACCACGTTACA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACA
943378 CGTATAACCG
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 30 0.41
48 43 0.59
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:948048 original size:30 final size:30
Alignment explanation
Indices: 948014--948074 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
948004 TCCTTAACTC
948014 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
948044 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
948074 A
1 A
948075 GGATCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:950939 original size:49 final size:49
Alignment explanation
Indices: 950718--951811 Score: 1987
Period size: 49 Copynumber: 22.6 Consensus size: 49
950708 CCCTTCGGGA
* * * * *
950718 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
950765 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
950812 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
950859 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
950906 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
950955 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951004 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951053 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951102 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951151 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951200 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951249 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951298 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951347 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951396 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951445 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951494 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951543 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951592 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
951641 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951690 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
951737 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
951786 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
951812 CACAATTATC
Statistics
Matches: 1023, Mismatches: 18, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 186 0.18
49 836 0.82
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:959550 original size:44 final size:44
Alignment explanation
Indices: 959476--959561 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
959466 TACATGTATT
* *
959476 GCATCCATAATGAACCCAGAACAACTCAACGAGCTCGGATGCTC
1 GCATCCATAATGAACCCAGAACAACCCAACGAGCTCAGATGCTC
*** *
959520 GCATCCATAATGAACTTGGACCAACCCAACGAGCTCAGATGC
1 GCATCCATAATGAACCCAGAACAACCCAACGAGCTCAGATGC
959562 CTCATACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (44 bp):
GCATCCATAATGAACCCAGAACAACCCAACGAGCTCAGATGCTC
Found at i:966303 original size:27 final size:27
Alignment explanation
Indices: 966273--966562 Score: 222
Period size: 27 Copynumber: 10.7 Consensus size: 27
966263 TATAGGATAG
* *
966273 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
966300 AATTACCAAAATACCCATGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
966327 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
966354 AATTACCGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
966381 AATTATCGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCTT-GATTTGTAA
* * *
966408 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * **
966435 AATTATAAAAATACCCTTAATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
966462 AATTACAAAAATGCCCTTGACTTTCAAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * * *
966490 AATTACTAAAATACCATTGGTTTGCAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * * * *
966517 AATTGTCGAAATACCTTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
966544 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
966563 TAGGGTGAAA
Statistics
Matches: 212, Mismatches: 48, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 3 0.01
27 185 0.87
28 24 0.11
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:966518 original size:28 final size:28
Alignment explanation
Indices: 966433--966508 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 28
966423 CCTAATTTGG
* * *
966433 AAAATTATAAAAATACCCTT-AATTT-A
1 AAAATTACAAAAATACCATTGACTTTCA
* *
966459 CAAAATTACAAAAATGCCCTTGACTTTCA
1 -AAAATTACAAAAATACCATTGACTTTCA
*
966488 AAAATTACTAAAATACCATTG
1 AAAATTACAAAAATACCATTG
966509 GTTTGCAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.44
28 22 0.54
29 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAATTACAAAAATACCATTGACTTTCA
Found at i:967034 original size:22 final size:22
Alignment explanation
Indices: 966982--967046 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
966972 GCCCATTATT
* *
966982 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
967004 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
967026 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
967047 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:967274 original size:22 final size:22
Alignment explanation
Indices: 967256--967320 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
967246 CGTTGCTGCT
* *
967256 ATGTTTACGGCTATGTGCTATC
1 ATGTTTACGGCTATGTGCTGTA
967278 ATGTTTACGGCTATGTGCTGTA
1 ATGTTTACGGCTATGTGCTGTA
*
967300 ATGTTTATGGCTATGTGCTGT
1 ATGTTTACGGCTATGTGCTGT
967321 CCTGTCTACG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.43
Consensus pattern (22 bp):
ATGTTTACGGCTATGTGCTGTA
Found at i:971209 original size:183 final size:181
Alignment explanation
Indices: 970893--971260 Score: 567
Period size: 183 Copynumber: 2.0 Consensus size: 181
970883 TAGCTTCTCC
**
970893 GATGACTCGTTTAATGCAAAAAGATGTAAAATTTGAGTGGACTAATAAATGCCAATAGAGTTTTG
1 GATGACTCGTTTAATGCAAAAAGATGTAAAATTTGAGCAGACTAATAAATGCCAATAGAGTTTTG
* * * *
970958 ATAGATTAAAAGCTTTATTGACAGAAGCACCAGTGTTAGTTCAACCAGAATTGGGTGAGGAATTT
66 ATAGATGAAAAGCTTTATTGACAGAAACAACAGTGTTAGTTCAACCAGAATCGGGTGAGGAATTT
*
971023 ACAGTTTAGAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
131 ACAGTTTACAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
* *
971074 GATGACTCGTTTATTGCAAAAAAAGATGTAAAATTTGAGCAGACTAATAAATTCCAATAGAGTTT
1 GATGACTCGTTTAATGC--AAAAAGATGTAAAATTTGAGCAGACTAATAAATGCCAATAGAGTTT
** * *
971139 TGATAGATGAAAAGCTTTATTGATTGAAACAACAGTGTTAGTTCAGCCAGAATCGGGT-ATGAAG
64 TGATAGATGAAAAGCTTTATTGACAGAAACAACAGTGTTAGTTCAACCAGAATCGGGTGAGGAA-
* *
971203 TTTACAGTTTACAGTGATGTGTCATTGAATGGTTTAGGCTGTGTTTTGATGCAA
128 TTTACAGTTTACAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
971257 GATG
1 GATG
971261 GTAAAGTAGT
Statistics
Matches: 169, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
181 16 0.09
182 4 0.02
183 149 0.88
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (181 bp):
GATGACTCGTTTAATGCAAAAAGATGTAAAATTTGAGCAGACTAATAAATGCCAATAGAGTTTTG
ATAGATGAAAAGCTTTATTGACAGAAACAACAGTGTTAGTTCAACCAGAATCGGGTGAGGAATTT
ACAGTTTACAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
Found at i:972974 original size:490 final size:490
Alignment explanation
Indices: 972054--973033 Score: 1942
Period size: 490 Copynumber: 2.0 Consensus size: 490
972044 ACCCCCATCT
972054 CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACAAAGTTTACACACTTTATTCCAATATGTA
1 CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACAAAGTTTACACACTTTATTCCAATATGTA
972119 TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
66 TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
972184 CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
131 CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
972249 AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
196 AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
972314 GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
261 GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
972379 ACGTATTTTCCCCTGGTCCAATTTGCTTATAATAACAGTTATCAGTCTAGTATTAAAATGGCACC
326 ACGTATTTTCCCCTGGTCCAATTTGCTTATAATAACAGTTATCAGTCTAGTATTAAAATGGCACC
972444 GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
391 GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
972509 AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
456 AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
972544 CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACAAAGTTTACACACTTTATTCCAATATGTA
1 CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACAAAGTTTACACACTTTATTCCAATATGTA
972609 TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
66 TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
972674 CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
131 CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
972739 AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
196 AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
972804 GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
261 GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
* *
972869 ACGTATTTTCCCCTGGTCGAATTTGCTTATAATAATAGTTATCAGTCTAGTATTAAAATGGCACC
326 ACGTATTTTCCCCTGGTCCAATTTGCTTATAATAACAGTTATCAGTCTAGTATTAAAATGGCACC
972934 GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
391 GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
972999 AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
456 AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
973034 GGAAAGGTAA
Statistics
Matches: 488, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
490 488 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (490 bp):
CTAAGGAAGAAAGATGCCATTTGTTGATCGGTTGACAAAGTTTACACACTTTATTCCAATATGTA
TGGATTATTCCTTGGATAGATTGGCTAAATTATATGTTTCTGAGATTGTCAGATTGCATGGAGTG
CCTGTCTCCATTATTTTAGATAGAGATCCTCTGTTTACATCTCGATTCTAGAGTAAATTACAAGA
AGCTCCAGGTACTCAGTTACACTTTAGTACTACATTTCATCCCCAGATAGATGGTCAATCTAAAC
GGGTAATACAAATCTTGAAAGATATGCTTCAGTGTTGTGTACTTGAGTTTGAAGGTAACTGGGAA
ACGTATTTTCCCCTGGTCCAATTTGCTTATAATAACAGTTATCAGTCTAGTATTAAAATGGCACC
GTGTGAAGCCTTGTATGGACACAAATGTAGAACTCCATTGTATTGGACAGAACTCAGTGAGAGAA
AATTACATGGAGTTGACTTGGTCCGAGAGGCCAAG
Found at i:975138 original size:49 final size:51
Alignment explanation
Indices: 975007--975252 Score: 293
Period size: 49 Copynumber: 4.9 Consensus size: 51
974997 TCTATTGTGA
* * * *
975007 GGTCGGATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
* * * * * *
975058 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAA-T-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
* * * *
975107 GGTCGCATGTGTAGTACTAAATGCAGACTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
* * * * *
975158 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTA-T-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
975207 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
975253 GCTTCGGCTA
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 80 0.50
50 3 0.02
51 76 0.48
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
Found at i:975180 original size:100 final size:100
Alignment explanation
Indices: 975007--975247 Score: 428
Period size: 100 Copynumber: 2.4 Consensus size: 100
974997 TCTATTGTGA
*
975007 GGTCGGATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
*
975072 TACTAAGTGTAGGCTACTACGTGTACCAGATAATT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
975107 GGTCGCATGTGTAGTACTAAATGCAGACTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
* *
975172 TACTAAGTGCAGGCTACTATGTGTACCAGATTATT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
975207 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACC
975248 AGATAGCTTC
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 134 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:978616 original size:29 final size:29
Alignment explanation
Indices: 978583--978641 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
978573 TTATTACTTA
978583 TACATTTATACCATGCTTGCCTAAGTCAT
1 TACATTTATACCATGCTTGCCTAAGTCAT
978612 TACATTTATACCATGCTTGCCTAAGTCAT
1 TACATTTATACCATGCTTGCCTAAGTCAT
978641 T
1 T
978642 CCACACCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (29 bp):
TACATTTATACCATGCTTGCCTAAGTCAT
Found at i:980196 original size:43 final size:43
Alignment explanation
Indices: 980135--980221 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
980125 GTTACATGTA
* *
980135 TCGCATCCATTATGAACTCGAACCAGTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGAACAAGTCAACGAGCTCAGATGC
* * * *
980178 TCGCATTCATAATGAACTCGGACAATTCAATGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGAACAAGTCAACGAGCTCAGATGC
980221 T
1 T
980222 ACATATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACAAGTCAACGAGCTCAGATGC
Found at i:981999 original size:29 final size:29
Alignment explanation
Indices: 981967--982024 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
981957 ATATGATAAT
*
981967 GACTTGAAAGAATATTGCTTGATGAGCTC
1 GACTTGAAAGAATATTGCTCGATGAGCTC
*
981996 GACTTGAAATAATATTGCTCGATGAGCTC
1 GACTTGAAAGAATATTGCTCGATGAGCTC
982025 ATCTATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (29 bp):
GACTTGAAAGAATATTGCTCGATGAGCTC
Found at i:985591 original size:40 final size:40
Alignment explanation
Indices: 985514--985695 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
985504 AAACCAAGTA
* * * *
985514 CCTTCGGGATTTAG-CTGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* * *
985553 CCTTCGGGATTTAGCCTGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
985593 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
985633 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
985673 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
985696 CATCCAAATA
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.11
40 116 0.89
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:993621 original size:40 final size:40
Alignment explanation
Indices: 993540--993761 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
993530 AAACCAAGTA
* ** *
993540 CCTTCGGGATTTAG-CCGGAAATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
993579 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGAACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
993619 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
993659 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* **
993699 CCTCCGGGACTTAGCCCGGTTATAGTAACAAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
993739 CCTTCGGGACTTAGCCCAGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
993762 CATCCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.09
40 153 0.91
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:995741 original size:40 final size:40
Alignment explanation
Indices: 995667--995811 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 40
995657 AACCCAAGTA
* * *
995667 CCTTCGGGATTTAG-CTGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
*
995706 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATG
995746 CCTTCGGGACTTAGCCCAGG-TATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGCAACTA---GCACAAATG
995789 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
995812 CATCTGAATA
Statistics
Matches: 93, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
39 13 0.14
40 46 0.49
41 3 0.03
42 2 0.02
43 29 0.31
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:1003150 original size:33 final size:33
Alignment explanation
Indices: 1003108--1003174 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
1003098 ACCTTGGTTA
* *
1003108 CATTTTTAGGTGGTTTCATGTAACACCCCGTAC
1 CATTTTTAGGAGGATTCATGTAACACCCCGTAC
*
1003141 CATTTTTAGGAGGATTCCTGTAACACCCCGTAC
1 CATTTTTAGGAGGATTCATGTAACACCCCGTAC
1003174 C
1 C
1003175 TGAGACCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (33 bp):
CATTTTTAGGAGGATTCATGTAACACCCCGTAC
Found at i:1004785 original size:37 final size:37
Alignment explanation
Indices: 1004735--1004813 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
1004725 TTATTACGAC
* * * *
1004735 GTCTTACCCGGACATAATCTCCACATGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
1004772 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
1004809 GTCTT
1 GTCTT
1004814 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:1005051 original size:49 final size:49
Alignment explanation
Indices: 1004932--1005795 Score: 1589
Period size: 49 Copynumber: 17.8 Consensus size: 49
1004922 CCCTTCGGGA
* * * * * *
1004932 CTTATCACAT-T-TATACACTTTCACATCCATAACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
1004979 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005026 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005075 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005124 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005173 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005222 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005271 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005320 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005369 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005418 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005467 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005516 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005565 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005614 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005663 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1005712 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
1005761 CTTATCAC--ATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATATACACT-TTCACATTCATCACAT
1005796 AGAATCCTAA
Statistics
Matches: 801, Mismatches: 11, Indels: 10
0.97 0.01 0.01
Matches are distributed among these distances:
46 2 0.00
47 66 0.08
49 733 0.92
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:1009024 original size:35 final size:35
Alignment explanation
Indices: 1008985--1009055 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
1008975 TTTCCACAAA
* * *
1008985 AAAATTTACACATTTTACAAATAATTCCTTATTTG
1 AAAATTTACACATTTCACAAACAAATCCTTATTTG
*
1009020 AAAATTTACATATTTCACAAACAAATCCTTATTTG
1 AAAATTTACACATTTCACAAACAAATCCTTATTTG
1009055 A
1 A
1009056 CATTTCACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (35 bp):
AAAATTTACACATTTCACAAACAAATCCTTATTTG
Found at i:1012671 original size:39 final size:39
Alignment explanation
Indices: 1012620--1012879 Score: 189
Period size: 39 Copynumber: 6.1 Consensus size: 39
1012610 AACCCAAAAT
* *
1012620 TATATTAT-CAGCACAAAGCCTGTGGGACTTTAACCCGGA
1 TATATT-TCCAGCACAAAGCCTGCGGGACTTTAGCCCGGA
*
1012659 TATATTTCCAGCACGAAGCCTGCGGGAAGCCTGCGGGACTTTGGCCCGGA
1 TATATTTCCAGCAC-AA---------A-GCCTGCGGGACTTTAGCCCGGA
* * *
1012709 TACATTTCCAGCACGAAGCCTGCGGGACTTTAGTCCGGA
1 TATATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGA
* * * *
1012748 TACATTTCCAGCACGAAGCCTGCGGGGCTTTGGCCCGGA
1 TATATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGA
1012787 TATATTTCCAGCACGAAGCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
1 TATATTT----C-C--AG-CA-CA--AAGCCTGCGGGACTTTAGCCCGGA
* * *
1012837 TACATTTCCAGCACGAAGCCTGTGGGACTTTAGCCCGGA
1 TATATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGA
1012876 TATA
1 TATA
1012880 AGCACAAAAT
Statistics
Matches: 180, Mismatches: 18, Indels: 46
0.74 0.07 0.19
Matches are distributed among these distances:
38 1 0.01
39 100 0.56
40 3 0.02
41 1 0.01
42 2 0.01
43 3 0.02
44 1 0.01
45 1 0.01
46 3 0.02
47 2 0.01
48 1 0.01
49 2 0.01
50 60 0.33
ACGTcount: A:0.24, C:0.28, G:0.27, T:0.22
Consensus pattern (39 bp):
TATATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGA
Found at i:1012710 original size:50 final size:48
Alignment explanation
Indices: 1012635--1012858 Score: 214
Period size: 39 Copynumber: 5.0 Consensus size: 48
1012625 TATCAGCACA
* * *
1012635 AAGCCTGTGGGACTTTAACCCGGATATATTTCCAGCACGAAGCCTGCGGG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGC--G
*
1012685 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAG--C--A-----CG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCG
*
1012724 AAGCCTGCGGGACTTTAGTCCGGATACATTTCCAGCACGAAGCCT---
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCG
* * *
1012769 --G-C-G-GGG-CTTTGGCCCGGATATATTTCCAGCACGAAGCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTG--CG
1012813 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTG
1012859 TGGGACTTTA
Statistics
Matches: 142, Mismatches: 13, Indels: 38
0.74 0.07 0.20
Matches are distributed among these distances:
39 63 0.44
40 3 0.02
41 3 0.02
42 1 0.01
43 2 0.01
46 2 0.01
47 1 0.01
48 2 0.01
49 3 0.02
50 62 0.44
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.21
Consensus pattern (48 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCG
Found at i:1012809 original size:89 final size:89
Alignment explanation
Indices: 1012716--1012879 Score: 292
Period size: 89 Copynumber: 1.8 Consensus size: 89
1012706 GGATACATTT
* * *
1012716 CCAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTCCAGCACGAAGCCTGCGGGGCTTTGG
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
1012781 CCCGGATATATTTCCAGCACGAAG
66 CCCGGATATATTTCCAGCACGAAG
*
1012805 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGTGGGACTTTAG
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
1012870 CCCGGATATA
66 CCCGGATATA
1012880 AGCACAAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.20
Consensus pattern (89 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
CCCGGATATATTTCCAGCACGAAG
Found at i:1012856 original size:128 final size:128
Alignment explanation
Indices: 1012628--1012877 Score: 401
Period size: 128 Copynumber: 2.0 Consensus size: 128
1012618 ATTATATTAT
* * **
1012628 CAGCACAAAGCCTGTGGGACTTTAACCCGGATATATTTCCAGCACGAAGCCTGCGGGAAGCCTGC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATATATTTCCAGCACGAAGCCAGCACGAAGCCTGC
* *
1012693 GGGACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
66 GGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * **
1012756 CAGCACGAAGCCTGCGGGGCTTTGGCCCGGATATATTTCCAGCACGAAGCCAGCACGAAGCCTGC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATATATTTCCAGCACGAAGCCAGCACGAAGCCTGC
*
1012821 GGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGTGGGACTTTAGCCCGGATA
66 GGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATA
1012878 TAAGCACAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 111 1.00
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (128 bp):
CAGCACAAAGCCTGCGGGACTTTAACCCGGATATATTTCCAGCACGAAGCCAGCACGAAGCCTGC
GGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:1015223 original size:15 final size:15
Alignment explanation
Indices: 1015203--1015258 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
1015193 GTATCTTGGG
1015203 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
1015218 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
1015233 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
1015248 TTTCTTTATTC
1 TTTCTTTATTC
1015259 GCTTTTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:1017526 original size:50 final size:50
Alignment explanation
Indices: 1017391--1017586 Score: 205
Period size: 50 Copynumber: 3.9 Consensus size: 50
1017381 ATGATCTATT
* * * *
1017391 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-AAA
* * * * * ** *
1017442 CTGTGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATTAGAAG
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAA
* **
1017492 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAA
* * * *
1017542 GT-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
1017587 AATAGTTTTG
Statistics
Matches: 120, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
49 38 0.32
50 46 0.38
51 36 0.30
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (50 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAA
Found at i:1022471 original size:28 final size:28
Alignment explanation
Indices: 1022431--1022528 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
1022421 ATAGTAAGTC
*
1022431 CGCACACTTAGTGTTAGATAATCAAACT
1 CGCACACTTAGTGTTACATAATCAAACT
1022459 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTACATAATCAAACT
* * * *
1022488 CACACAGTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTACATAATCAAACT
*
1022516 TGCACACTTAGTG
1 CGCACACTTAGTG
1022529 CTATGCAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 36 0.59
29 25 0.41
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGTTACATAATCAAACT
Found at i:1022529 original size:28 final size:28
Alignment explanation
Indices: 1022431--1022558 Score: 148
Period size: 29 Copynumber: 4.5 Consensus size: 28
1022421 ATAGTAAGTC
* *
1022431 CGCACACTTAGTGTTAGATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
1022459 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
* *
1022488 CACACAGTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
1022516 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
1022545 CGCACACTTAGTGC
1 CGCACACTTAGTGC
1022559 CGAAATCAAC
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 42 0.49
29 43 0.51
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:1022556 original size:57 final size:57
Alignment explanation
Indices: 1022430--1022558 Score: 161
Period size: 57 Copynumber: 2.3 Consensus size: 57
1022420 TATAGTAAGT
*
1022430 CCGCACACTTAGTGTTAGATAATCAAACTCGCACACTTAGTGCTTACATAATCAAAC
1 CCGCACACTTAGTGCTAGATAATCAAACTCGCACACTTAGTGCTTACATAATCAAAC
* * * * * * * *
1022487 TCACACAGTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCA-ATTTAAAC
1 CCGCACACTTAGTGCTAGATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1022544 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
1022559 CGAAATCAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 56 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (57 bp):
CCGCACACTTAGTGCTAGATAATCAAACTCGCACACTTAGTGCTTACATAATCAAAC
Found at i:1027178 original size:42 final size:42
Alignment explanation
Indices: 1027048--1027208 Score: 121
Period size: 42 Copynumber: 3.7 Consensus size: 42
1027038 TAAGATGCTA
* * * ** *
1027048 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCC
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCG
** *
1027090 ATGCCAATAG-CCCAG-CTATGGTCTTACACGATGTCTCATAAT-G
1 ATGCC-AT-GTCCCAGAC-ATGGTCTTACACGAAATCACAT-ATCG
*
1027133 ATGCCATGTCGCAGACATGGTCTTACACGAAATCACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCG
1027175 ATGCCGCTACCATGTCCCAGACATGGTCTTACAC
1 AT---G---CCATGTCCCAGACATGGTCTTACAC
1027209 TGTCTCACAC
Statistics
Matches: 93, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
41 3 0.03
42 33 0.35
43 30 0.32
44 2 0.02
45 1 0.01
48 24 0.26
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:1027207 original size:48 final size:48
Alignment explanation
Indices: 1027132--1027303 Score: 193
Period size: 48 Copynumber: 3.6 Consensus size: 48
1027122 GTCTCATAAT
*
1027132 GATGCCATGTCGCAGACATGGTCTTACACGAAATCACATATCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCC
* * ** ** *
1027180 GCTACCATGTCCCAGACATGGTCTTACACTG-TCTCACACGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC-GAAATCACATATCGATGCC
* * * * *
1027228 GATGCCATGTCCCAGACATGGTCTTATACGAGATCTCATCTTGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCC
* *
1027276 AATGCCATGTCCCAAACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
1027304 TTGGATCTCA
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 99 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCC
Found at i:1031977 original size:27 final size:27
Alignment explanation
Indices: 1031939--1032012 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
1031929 AGTAACACAA
*
1031939 CAAAGCTGCCAGTATCAGTATATGTGG
1 CAAAGCTACCAGTATCAGTATATGTGG
1031966 CAAAGCTACCAGTAAT-AGTATATGTGG
1 CAAAGCTACCAGT-ATCAGTATATGTGG
* * *
1031993 CAAAGCCAGCAGTAACAGTA
1 CAAAGCTACCAGTATCAGTA
1032013 CACTTCCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 38 0.93
28 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
CAAAGCTACCAGTATCAGTATATGTGG
Found at i:1040276 original size:26 final size:26
Alignment explanation
Indices: 1040246--1040318 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
1040236 CCAACACACC
*
1040246 AATATCGCAGCAAAGCTGCCAATAGT
1 AATATCGCAGCAAAGCTGCCAATAAT
* *
1040272 AATATCACAGCAAAGCTGCCAGTAAT
1 AATATCGCAGCAAAGCTGCCAATAAT
* * *
1040298 AGTAACGCAGGAAAGCTGCCA
1 AATATCGCAGCAAAGCTGCCA
1040319 GTATTTGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
AATATCGCAGCAAAGCTGCCAATAAT
Found at i:1043470 original size:17 final size:17
Alignment explanation
Indices: 1043450--1043482 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1043440 AAGGAAAATA
1043450 AATGAATCTTAAAAACG
1 AATGAATCTTAAAAACG
*
1043467 AATGAGTCTTAAAAAC
1 AATGAATCTTAAAAAC
1043483 TTAATAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
AATGAATCTTAAAAACG
Found at i:1049577 original size:27 final size:26
Alignment explanation
Indices: 1049521--1049577 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
1049511 TAACCTTAAC
* * *
1049521 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
1049547 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
1049574 CCTA
1 CCTA
1049578 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:1052129 original size:40 final size:40
Alignment explanation
Indices: 1052061--1052236 Score: 221
Period size: 40 Copynumber: 4.4 Consensus size: 40
1052051 ATCTCTGGGT
* *
1052061 TAAGTCCCGAAGGCATTCATGCTAGTTGTTATATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCTAGTTGTTATATCCGGGC
* * *
1052101 TAAGTCCCAAAGG-AGTTCGTGCTGGTTGTTATATCTGGGC
1 TAAGTCCCGAAGGCA-TTCGTGCTAGTTGTTATATCCGGGC
*
1052141 TAAGTCCTGAAGGCATTCGTGCTAGTTGTTATATCCGGGC
1 TAAGTCCCGAAGGCATTCGTGCTAGTTGTTATATCCGGGC
* * * * *
1052181 CAAGTTCCGAAGGCACTCGTACT-GGTGTTATATCCGGGC
1 TAAGTCCCGAAGGCATTCGTGCTAGTTGTTATATCCGGGC
*
1052220 TAAGTCCCAAAGGCATT
1 TAAGTCCCGAAGGCATT
1052237 TGTGTTTGGA
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
39 29 0.25
40 85 0.74
41 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTCGTGCTAGTTGTTATATCCGGGC
Found at i:1061238 original size:13 final size:13
Alignment explanation
Indices: 1061220--1061256 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
1061210 TGGTAGTGAT
1061220 TGGTTTCGGGAAG
1 TGGTTTCGGGAAG
1061233 TGGTTTCGGGAAG
1 TGGTTTCGGGAAG
1061246 TGGTTTCGGGA
1 TGGTTTCGGGA
1061257 CCACAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.14, C:0.08, G:0.46, T:0.32
Consensus pattern (13 bp):
TGGTTTCGGGAAG
Found at i:1062910 original size:39 final size:40
Alignment explanation
Indices: 1062815--1063004 Score: 173
Period size: 40 Copynumber: 4.8 Consensus size: 40
1062805 TTGAATGATG
1062815 TCCGGGCTAAGTCCCGAAGGC-TTGTGCTA--AG-TGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATT-TG-TACGAGAT-ACTAAT
*
1062853 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGATACTAAT
* * *
1062894 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTAAT
* *
1062933 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGA-TACTAAT
* * *
1062972 AACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAG
1063005 GAGCTATATC
Statistics
Matches: 127, Mismatches: 13, Indels: 20
0.79 0.08 0.12
Matches are distributed among these distances:
38 2 0.02
39 55 0.43
40 66 0.52
41 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTAAT
Found at i:1062950 original size:79 final size:81
Alignment explanation
Indices: 1062815--1062998 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
1062805 TTGAATGATG
1062815 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1062878 TGTACGAGA-TACTA-A
66 TGTACGA-ATTACTATA
* * **
1062893 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
*
1062954 ATTTGTGCGAATTACTATA
63 ATTTGTACGAATTACTATA
* *
1062973 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1062999 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 11 0.12
79 57 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTACGAATTACTATA
Found at i:1063020 original size:79 final size:79
Alignment explanation
Indices: 1062867--1063031 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
1062857 GGACTAAGAT
* ** *
1062867 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
1062932 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
1062946 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTACGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
1063008 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
1063025 CCGAAGG
1 CCGAAGG
1063032 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:1068397 original size:58 final size:58
Alignment explanation
Indices: 1068307--1068421 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
1068297 TGGTCAATCT
1068307 GAGCGGATAATTCAGATACTTGAGGATATGTTGAGATATAGCATCCTCGAGTTCAGTC
1 GAGCGGATAATTCAGATACTTGAGGATATGTTGAGATATAGCATCCTCGAGTTCAGTC
* *
1068365 GAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCGAGTTCAGT
1 GAGCGGATAATTCAGATACTTGAGGATATGTTGAGATATAGCATCCTCGAGTTCAGT
1068422 AGTTCATGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (58 bp):
GAGCGGATAATTCAGATACTTGAGGATATGTTGAGATATAGCATCCTCGAGTTCAGTC
Found at i:1070882 original size:39 final size:40
Alignment explanation
Indices: 1070787--1071009 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
1070777 TTGAATGATG
*
1070787 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
1070825 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
1070866 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
1070905 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
1070944 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
1070983 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
1071010 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 92 0.57
40 59 0.36
41 10 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:1070971 original size:79 final size:81
Alignment explanation
Indices: 1070787--1071015 Score: 276
Period size: 79 Copynumber: 2.9 Consensus size: 81
1070777 TTGAATGATG
* * *
1070787 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
1070849 TTGTACGAGATACTAAT
65 TTGTACGAGATACTAAA
1070866 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
* *
1070927 TTGTGCGAGTTACTAAA
65 TTGTACGAGATACTAAA
* * * * *
1070944 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
*
1071008 TGAACGAG
66 TGTACGAG
1071016 GAGCTATATC
Statistics
Matches: 130, Mismatches: 12, Indels: 15
0.83 0.08 0.10
Matches are distributed among these distances:
78 45 0.35
79 56 0.43
80 29 0.22
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTACGAGATACTAAA
Done.