Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 200 of 410
Found at i:61175296 original size:31 final size:31
Alignment explanation
Indices: 61175255--61175320 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
61175245 CCTTTTCATA
*
61175255 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
61175286 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
61175317 TTTC
1 TTTC
61175321 TATAAACGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:61175562 original size:23 final size:23
Alignment explanation
Indices: 61175533--61175745 Score: 327
Period size: 23 Copynumber: 9.1 Consensus size: 23
61175523 CCTTGCCTCT
*
61175533 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
61175556 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
61175579 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
61175603 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* * *
61175626 TTTTGATCACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
61175650 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
61175673 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
61175697 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
61175720 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
61175743 TTT
1 TTT
61175746 TGCACTTCCT
Statistics
Matches: 172, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
23 110 0.64
24 62 0.36
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:61175591 original size:47 final size:47
Alignment explanation
Indices: 61175531--61175745 Score: 360
Period size: 47 Copynumber: 4.6 Consensus size: 47
61175521 GGCCTTGCCT
* * *
61175531 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
61175578 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
61175625 CTTTTGATCACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
61175672 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
61175719 C-TTTAATAACTGGGGCATAAGCCCTTT
1 CTTTTGATAACTGGGGCATAAGCCCTTT
61175746 TGCACTTCCT
Statistics
Matches: 160, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
46 25 0.16
47 135 0.84
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:61175747 original size:70 final size:70
Alignment explanation
Indices: 61175531--61175746 Score: 335
Period size: 70 Copynumber: 3.1 Consensus size: 70
61175521 GGCCTTGCCT
* * * *
61175531 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCA
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCA
61175596 TAAGCC
65 TAAGCC
* * *
61175602 C-TTTAATAACTGGGGCATAAGCCCTTTTGATCACTAGGGCATAAGCCCTTTAATAACTGGGGCA
1 CTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
61175666 TAAGCC
65 TAAGCC
*
61175672 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCAT
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCAT
61175737 AAGCC
66 AAGCC
61175742 CTTTT
1 CTTTT
61175747 GCACTTCCTC
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
70 90 0.68
71 42 0.32
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCAT
AAGCC
Found at i:61175818 original size:9 final size:9
Alignment explanation
Indices: 61175804--61175860 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
61175794 ATCTCATGTG
61175804 CATATCATA
1 CATATCATA
*
61175813 CATATCATGTG
1 CATATCA--TA
61175824 CATATCATA
1 CATATCATA
* *
61175833 CATGTCATGTG
1 CATATCA--TA
61175844 CATATCATA
1 CATATCATA
61175853 CATATCAT
1 CATATCAT
61175861 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:61175820 original size:20 final size:20
Alignment explanation
Indices: 61175792--61175862 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
61175782 GCATTTATGA
*
61175792 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
61175812 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
61175832 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
61175852 ACATATCATGT
1 ACATATCATGT
61175863 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:61175827 original size:11 final size:11
Alignment explanation
Indices: 61175797--61175851 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61175787 TATGAACATC
61175797 TCATGTGCATA
1 TCATGTGCATA
*
61175808 TCA--TACATA
1 TCATGTGCATA
61175817 TCATGTGCATA
1 TCATGTGCATA
* *
61175828 TCA--TACATG
1 TCATGTGCATA
61175837 TCATGTGCATA
1 TCATGTGCATA
61175848 TCAT
1 TCAT
61175852 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:61175941 original size:25 final size:25
Alignment explanation
Indices: 61175899--61175948 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
61175889 ATATATAAAC
* * *
61175899 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCACTTTTA
*
61175924 CCTAGGGGCAAAACGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCACTTTTA
61175949 TGTTATAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCACTTTTA
Found at i:61177244 original size:27 final size:27
Alignment explanation
Indices: 61177212--61177429 Score: 193
Period size: 27 Copynumber: 8.0 Consensus size: 27
61177202 TGGTAAATCA
* *
61177212 ACAAACCAAAGGTATTTCAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
* * **
61177239 ATAAACCAATGGTATTTCTATAATTTTT
1 ACAAACCAAGGGTATTTCGGTAA-TTTT
* * * *
61177267 AGAAAGTCAAGGGTATTTCTGTAACTTT
1 ACAAA-CCAAGGGTATTTCGGTAATTTT
** * * *
61177295 GTAAATCAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
*** *
61177322 ACAAATTGAGGGTATTTCGGTAATTTC
1 ACAAACCAAGGGTATTTCGGTAATTTT
*
61177349 ACAAACCAAGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
* * *
61177376 ACAAACTAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
**
61177403 ACAAACCAAGGGTATTTTAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
61177430 GTAAATCGAG
Statistics
Matches: 157, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
27 128 0.82
28 14 0.09
29 15 0.10
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
ACAAACCAAGGGTATTTCGGTAATTTT
Found at i:61177415 original size:81 final size:82
Alignment explanation
Indices: 61177222--61177428 Score: 217
Period size: 81 Copynumber: 2.5 Consensus size: 82
61177212 ACAAACCAAA
** * * * * *
61177222 GGTATTTCAGTAATTTTATAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTC
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTC-AGTAA-TTTCACAAAGCCAAGGGTATTTC
*
61177286 TGTAACTTTGTAAATCAGG
64 TGTAACTTTGTAAAACAGG
*** *
61177305 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAAGGGTATTT-TG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAAGCCAAGGGTATTTCT-
61177368 GTAA-TTT-TACAAACTAGG
65 GTAACTTTGTA-AAAC-AGG
*
61177386 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTT
61177429 TGTAAATCGA
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
79 2 0.02
80 7 0.07
81 56 0.54
82 7 0.07
83 31 0.30
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (82 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAAGCCAAGGGTATTTCTG
TAACTTTGTAAAACAGG
Found at i:61177441 original size:27 final size:27
Alignment explanation
Indices: 61177222--61177470 Score: 162
Period size: 27 Copynumber: 9.1 Consensus size: 27
61177212 ACAAACCAAA
* * *
61177222 GGTATTTCAGTAATTTTATAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
61177249 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * *
61177278 GGTATTTCT-GTAACTTTGTAAATCAGG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * **
61177305 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
** * * *
61177332 GGTATTTCGGTAATTTCACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * *
61177359 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* * *
61177386 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
61177413 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
61177440 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
61177467 GGTA
1 GGTA
61177471 AAACAGTAAT
Statistics
Matches: 181, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.01
27 148 0.82
28 16 0.09
29 15 0.08
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:61177471 original size:27 final size:27
Alignment explanation
Indices: 61177421--61177632 Score: 243
Period size: 27 Copynumber: 7.9 Consensus size: 27
61177411 AGGGTATTTT
*
61177421 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
61177448 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
61177475 AGTAATTCTATAAATTGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
61177502 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
61177529 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
61177556 -GATAA-TCATGTAAATC-AGGGGTAAAAC
1 AG-TAATTC-TGTAAATCGA-GGGTAAAAC
* * *
61177583 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
*
61177610 AGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
61177633 CTTTGGTAAT
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.02
27 155 0.96
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:61177480 original size:81 final size:81
Alignment explanation
Indices: 61177395--61177625 Score: 207
Period size: 81 Copynumber: 2.9 Consensus size: 81
61177385 GGGTATTTTG
* *** * *
61177395 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
61177460 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* *** * *
61177476 GTAATTCTATAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
* *
61177541 AGTCGAGGGTAAAAC-
66 AATCAAGGGTAAAACA
** * * ** * * *
61177556 GATAA-TCATGTAAATCAGGGGTAAAACGGTAATTATGTAAAT-TAGGGGTAAAACAGTAATTCT
1 G-TAATTC-TACAAACCAAGGGTAAAATAGTAATTCTATAAATCGA-GGGTAAAACAGTAATTCT
61177619 GTAAATC
63 GTAAATC
61177626 GGGGGTACTT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
80 4 0.03
81 119 0.97
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
AATCAAGGGTAAAACA
Found at i:61177659 original size:27 final size:26
Alignment explanation
Indices: 61177629--61177727 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 26
61177619 GTAAATCGGG
61177629 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAA-TCGAA
* * *
61177656 GGTATTTCGGTAAATTTAGAAATCGAG
1 GGTATTTCGGTAATTTTA-CAATCGAA
* * * *
61177683 GGTATTTCAGTATTTTTACAAACTAA
1 GGTATTTCGGTAATTTTACAATCGAA
*
61177709 GGGTATTTTGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
61177728 GTAAACTAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
26 7 0.12
27 47 0.84
28 2 0.04
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAATCGAA
Found at i:61182216 original size:19 final size:19
Alignment explanation
Indices: 61182192--61182251 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
61182182 AAAAGCTATG
61182192 TGTTATAAGGATGAATTAC
1 TGTTATAAGGATGAATTAC
* *
61182211 TGTTATATGGATGAAGTAC
1 TGTTATAAGGATGAATTAC
*
61182230 TGTT-TAAACGGATGAGTTAC
1 TGTTAT-AA-GGATGAATTAC
61182250 TG
1 TG
61182252 ATATCGAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 1 0.03
19 22 0.65
20 11 0.32
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (19 bp):
TGTTATAAGGATGAATTAC
Found at i:61182250 original size:20 final size:19
Alignment explanation
Indices: 61182200--61182251 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
61182190 TGTGTTATAA
* * *
61182200 GGATGAATTACTGTTATAT
1 GGATGAGTTACTGTTAAAC
61182219 GGATGAAG-TACTGTTTAAAC
1 GGATG-AGTTACTG-TTAAAC
61182239 GGATGAGTTACTG
1 GGATGAGTTACTG
61182252 ATATCGAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
GGATGAGTTACTGTTAAAC
Found at i:61185524 original size:43 final size:43
Alignment explanation
Indices: 61185475--61185676 Score: 271
Period size: 43 Copynumber: 4.7 Consensus size: 43
61185465 TATGTGTGTG
61185475 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
** *
61185518 CGTGTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATGA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
* * *
61185561 CGTGTAAGACCACGTCTGGGACGTTGGCATTGATATGCGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
* * * * *
61185604 CATCTAAGACC-CTGTTTGGGACAGTGACATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATTA
* *
61185647 CATGTAAGACCACGTCTGGGACCTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
61185677 TGTACGATAT
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 135 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
Found at i:61192525 original size:29 final size:29
Alignment explanation
Indices: 61192492--61192623 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
61192482 CCTTCGAGCT
** * *
61192492 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
61192521 TGCACACTTAGTGTCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
61192550 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
61192579 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
61192608 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
61192624 ATCTCGTCAC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:61192526 original size:58 final size:58
Alignment explanation
Indices: 61192463--61192623 Score: 162
Period size: 58 Copynumber: 2.8 Consensus size: 58
61192453 AATTTAAGCC
* * * * *
61192463 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * * **
61192521 TGCACACTTAGTGTCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
* * * **
61192579 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCA
61192624 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
58 87 0.99
59 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:61194650 original size:50 final size:50
Alignment explanation
Indices: 61194576--61194976 Score: 312
Period size: 50 Copynumber: 7.9 Consensus size: 50
61194566 TAAGACAGTT
* *
61194576 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATTG-
1 TTAGG-CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * *
61194626 TTAGGC-CGTATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAGT
1 TTAGGCACG--TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGA
** * * *
61194677 TTCAATCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGA
1 TT-AGGCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* *
61194728 -TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGA
1 TTAGG-CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * * * *
61194778 TT-GGTAGCATATGTAGTACTAAGTGCAGGCTACCATGCGTACCTG-TTAA
1 TTAGGCA-CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * ** * *
61194827 CTTCGATCACGTGTGTAGTACCAAGTGCAAGCTACTATATGTATCAGATGGA
1 -TTAG-GCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* *
61194879 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACACCAGATTGA
1 TTAGGCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGT--ACCAGATTGA
* * * * * *
61194931 -TAGGTCGCATCTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGA
1 TTAGG-CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
61194977 GAGCTTCGAT
Statistics
Matches: 276, Mismatches: 58, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
48 2 0.01
49 6 0.02
50 153 0.55
51 71 0.26
52 42 0.15
53 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TTAGGCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
Found at i:61194710 original size:101 final size:101
Alignment explanation
Indices: 61194581--61194973 Score: 282
Period size: 101 Copynumber: 3.9 Consensus size: 101
61194571 CAGTTTTAGG
* * * *
61194581 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CTAGATTGTTAGG-C-CGTATGTGTAG
1 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGATAGGTCACG--TGTGTAG
61194643 TACTAAGTGCAGGCTACTATGCGTACCCAATAGTTTCAA
63 TACTAAGTGCAGGCTACTATGCGTACCCAATAGTTTCAA
61194682 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCACGTGTGTAGTAC
1 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCACGTGTGTAGTAC
* * * ** * * **
61194747 TAAGTGTAGGCTACTACGTGTACCGGATTGATT-GG
66 TAAGTGCAGGCTACTATGCGTACCCAATAGTTTCAA
* * * * * * * * ** * *
61194782 T-AGCATATGTAGTACTAAGTGCAGGCTACCATGCGTACCTG-TTAACTTCGATCACGTGTGTAG
1 TCA-CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGA--TAGGTCACGTGTGTAG
* * ** * **
61194845 TACCAAGTGCAAGCTACTATATGTA-TCAGAT-GGAT-AA
63 TACTAAGTGCAGGCTACTATGCGTACCCA-ATAGTTTCAA
* * * * * *
61194882 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACACCAGATTGATAGGTCGCATCTGTAG
1 -TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGT--ATCAGATGGATAGGTCACGTGTGTAG
*
61194947 TATTAAGTGCAGGCTACTATGCGTACC
63 TACTAAGTGCAGGCTACTATGCGTACC
61194974 AGAGAGCTTC
Statistics
Matches: 224, Mismatches: 55, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
99 3 0.01
100 33 0.15
101 145 0.65
102 34 0.15
103 6 0.03
104 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCACGTGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCAATAGTTTCAA
Found at i:61194853 original size:151 final size:151
Alignment explanation
Indices: 61194577--61194973 Score: 553
Period size: 151 Copynumber: 2.6 Consensus size: 151
61194567 AAGACAGTTT
* * * *
61194577 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATTG-TTAGGCCGTATGTGT
1 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATT-GGTCGCATATGT
** * *
61194641 AGTACTAAGTGCAGGCTACTATGCGTACCCAATAGTTTCAATCACGTGTGCAGTACTAAGTGCAG
65 AGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCAATCACGTGTGCAGTACCAAGTGCAA
*
61194706 GCTACTACGTGTATCAGATGGA
130 GCTACTACATGTATCAGATGGA
* *
61194728 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGATTGGTAGCATATGTA
1 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATTGGTCGCATATGTA
* *** * *
61194793 GTACTAAGTGCAGGCTACCATGCGTACCTGTTAACTTCGATCACGTGTGTAGTACCAAGTGCAAG
66 GTACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCAATCACGTGTGCAGTACCAAGTGCAAG
*
61194858 CTACTATATGTATCAGATGGA
131 CTACTACATGTATCAGATGGA
* * * *
61194879 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACACCAGATTGATAGGTCGCATCTG
1 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGT--ACCAGATTGATTGGTCGCATATG
*
61194944 TAGTATTAAGTGCAGGCTACTATGCGTACC
64 TAGTACTAAGTGCAGGCTACTATGCGTACC
61194974 AGAGAGCTTC
Statistics
Matches: 217, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
151 168 0.77
152 2 0.01
153 47 0.22
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (151 bp):
TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATTGGTCGCATATGTA
GTACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCAATCACGTGTGCAGTACCAAGTGCAAG
CTACTACATGTATCAGATGGA
Found at i:61197134 original size:7 final size:7
Alignment explanation
Indices: 61197122--61197207 Score: 127
Period size: 7 Copynumber: 12.3 Consensus size: 7
61197112 ATTATGAGCA
61197122 TAAACCC
1 TAAACCC
*
61197129 TAAACCT
1 TAAACCC
61197136 TAAACCC
1 TAAACCC
61197143 TAAACCC
1 TAAACCC
61197150 TAAACCC
1 TAAACCC
61197157 TAAACCC
1 TAAACCC
*
61197164 TAAACAC
1 TAAACCC
*
61197171 TAAACCT
1 TAAACCC
*
61197178 TAAACCT
1 TAAACCC
61197185 TAAACCC
1 TAAACCC
*
61197192 TAAACAC
1 TAAACCC
61197199 TAAACCC
1 TAAACCC
61197206 TA
1 TA
61197208 TGTGATAACA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 71 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:61199984 original size:50 final size:50
Alignment explanation
Indices: 61199916--61200113 Score: 227
Period size: 50 Copynumber: 4.0 Consensus size: 50
61199906 GTAAACAAGG
* *
61199916 CCATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATACGTGACCTAA
1 CCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * *
61199966 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCTAA
1 CCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
** * * * * *
61200016 GTTATCGGGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACC-AA
1 -CCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
** * * *
61200066 TTATCCGGTACACGTAGTAGCCTGCATTTAGTACTACACACGTGACCT
1 CCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
61200114 CACAATAGAT
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
49 40 0.32
50 47 0.38
51 37 0.30
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
CCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:61200089 original size:49 final size:49
Alignment explanation
Indices: 61199930--61200112 Score: 222
Period size: 49 Copynumber: 3.7 Consensus size: 49
61199920 CTGGTACGCA
* ** * *
61199930 TAGTAGCCTGCACTTAGTACTACATACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
61199980 TAGTAGCCTGCACTTAGTACTACACACGTGATCTAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* * *
61200031 TAGTAGCCTGCACTTAATACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
61200080 TAGTAGCCTGCATTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
61200113 TCACAATAGA
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
49 40 0.36
50 35 0.31
51 37 0.33
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:61200105 original size:100 final size:101
Alignment explanation
Indices: 61199922--61200110 Score: 290
Period size: 100 Copynumber: 1.9 Consensus size: 101
61199912 AAGGCCATCT
* * * *
61199922 GGTACGCATAGTAGCCTGCACTTAGTACTACATACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAATACTACACACGCGACCTAACCATCCGATACACGTAGTAGC
61199987 CTGCACTTAGTACTACACACGTGATCTAAGTTATCG
66 CTGCACTTAGTACTACACACGTGATCTAAGTTATCG
* ** *
61200023 GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACC-AATTATCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAATACTACACACGCGACCTAACCATCCGATACACGTAGTAGC
*
61200087 CTGCATTTAGTACTACACACGTGA
66 CTGCACTTAGTACTACACACGTGA
61200111 CCTCACAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 42 0.53
101 37 0.47
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTGCACTTAATACTACACACGCGACCTAACCATCCGATACACGTAGTAGC
CTGCACTTAGTACTACACACGTGATCTAAGTTATCG
Found at i:61200388 original size:27 final size:27
Alignment explanation
Indices: 61200358--61200411 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
61200348 TCATACAACC
* *
61200358 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
61200385 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
61200412 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:61201720 original size:30 final size:29
Alignment explanation
Indices: 61201686--61201749 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
61201676 ATGAATCGAA
*
61201686 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTATGCGATTT-AACT
61201716 AGCTTTGGCACTAAGTATGCGATTTAACT
1 AGCTTTGGCACTAAGTATGCGATTTAACT
61201745 AGCTT
1 AGCTT
61201750 CGGCTGCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTATGCGATTTAACT
Found at i:61203142 original size:20 final size:19
Alignment explanation
Indices: 61203096--61203142 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
61203086 GTAATTCATG
61203096 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
61203115 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
61203136 TTTAATT
1 TTTAATT
61203143 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:61209897 original size:27 final size:26
Alignment explanation
Indices: 61209825--61209940 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 26
61209815 TGGAGGAAGC
* *
61209825 GTTCTGGTGCCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
61209852 GTTCCTAGTGGCTAC-GCCACAAATATCT
1 GTT-CTGGTGGCT-CTGCCAC-AATATCT
*
61209880 GTTCTGGTGGCTCTGCCACAATATTT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
61209906 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
61209933 GTTCTGGT
1 GTTCTGGT
61209941 AGCCATGCTG
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
26 14 0.19
27 38 0.51
28 23 0.31
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:61217775 original size:24 final size:23
Alignment explanation
Indices: 61217741--61217810 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 23
61217731 GGTGGAAGCA
61217741 TTCTGGTGGCTATGCCACATCTG
1 TTCTGGTGGCTATGCCACATCTG
*
61217764 TTCCTGGTGGCTACGCCACAAATATCTG
1 TT-CTGGTGGCTATGCCAC----ATCTG
*
61217792 TTCTGGTGGCTCTGCCACA
1 TTCTGGTGGCTATGCCACA
61217811 ATATCTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 3 0.08
24 15 0.38
27 14 0.36
28 7 0.18
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (23 bp):
TTCTGGTGGCTATGCCACATCTG
Found at i:61217801 original size:27 final size:27
Alignment explanation
Indices: 61217743--61217847 Score: 96
Period size: 27 Copynumber: 4.0 Consensus size: 27
61217733 TGGAAGCATT
*
61217743 CTGGTGGCTATGCCAC---ATCTGTTC
1 CTGGTGGCTCTGCCACAATATCTGTTC
61217767 CTGGTGGCTAC-GCCACAAATATCTGTT-
1 CTGGTGGCT-CTGCCAC-AATATCTGTTC
* *
61217794 CTGGTGGCTCTGCCACAATATCTATATT
1 CTGGTGGCTCTGCCACAATATCTGT-TC
* *
61217822 C-GGTGACTCTGTCACAATATCTGTTC
1 CTGGTGGCTCTGCCACAATATCTGTTC
61217848 TGGCAGCCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
24 14 0.21
26 10 0.15
27 35 0.52
28 8 0.12
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTTC
Found at i:61222411 original size:40 final size:40
Alignment explanation
Indices: 61222352--61222559 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
61222342 CAATTGAATG
* * * *
61222352 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
61222392 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
61222432 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
61222472 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
61222512 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
61222552 ATATCCGG
1 ATATCCGG
61222560 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:61222490 original size:80 final size:80
Alignment explanation
Indices: 61222353--61222559 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
61222343 AATTGAATGA
* * ** * * *
61222353 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
61222418 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
61222431 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
61222496 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
61222513 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
61222560 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:61230561 original size:40 final size:40
Alignment explanation
Indices: 61230502--61230709 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
61230492 CAATTGAATG
* * * *
61230502 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
61230542 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
61230582 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
61230622 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
61230662 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
61230702 ATATCCGG
1 ATATCCGG
61230710 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:61230640 original size:80 final size:80
Alignment explanation
Indices: 61230503--61230709 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
61230493 AATTGAATGA
* * ** * * *
61230503 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
61230568 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
61230581 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
61230646 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
61230663 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
61230710 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:61236609 original size:15 final size:15
Alignment explanation
Indices: 61236589--61236632 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
61236579 TATGATATTG
61236589 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
61236603 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
*
61236619 TATCTTGGACTTCT
1 TATCTTGGATTTCT
61236633 TAATCATGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:61236647 original size:30 final size:30
Alignment explanation
Indices: 61236589--61236647 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
61236579 TATGATATTG
* *
61236589 TATCTTGGATTTCCTTATCTTGGATTTCTC
1 TATCTTGGACTTCCTTATCATGGATTTCTC
*
61236619 TATCTTGGACTT-CTTAATCATGGTTTTCT
1 TATCTTGGACTTCCTT-ATCATGGATTTCT
61236648 TGTTATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.15, C:0.19, G:0.14, T:0.53
Consensus pattern (30 bp):
TATCTTGGACTTCCTTATCATGGATTTCTC
Found at i:61238068 original size:15 final size:17
Alignment explanation
Indices: 61238038--61238070 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
61238028 GAAAAAATCT
61238038 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
61238055 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
61238070 C
1 C
61238071 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:61248475 original size:29 final size:29
Alignment explanation
Indices: 61248433--61248491 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
61248423 TTGTAAAAGT
61248433 ATGGTTTTGGGAACTATATGAATAATGTG
1 ATGGTTTTGGGAACTATATGAATAATGTG
61248462 ATGGTTTTGGGAACTATATGAATAATGTG
1 ATGGTTTTGGGAACTATATGAATAATGTG
61248491 A
1 A
61248492 CTAATTAGTA
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:0.32, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
ATGGTTTTGGGAACTATATGAATAATGTG
Found at i:61248724 original size:18 final size:20
Alignment explanation
Indices: 61248688--61248734 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
61248678 AGTTGTAAGT
61248688 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
61248708 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
61248727 ATGATATA
1 AT-ATATA
61248735 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:61249362 original size:152 final size:151
Alignment explanation
Indices: 61249132--61249415 Score: 372
Period size: 152 Copynumber: 1.9 Consensus size: 151
61249122 CATTTTTAGG
* ** * * * *
61249132 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACACGTACTAAATGGATAAGTCACATGTGTAGTAC
** * * * * *
61249197 TAAGTTCAGGCTACTATGTGTACCCGATAGTTTCGATCACGTGTGTAGTACTAAGTGCAAGCTAC
66 TAAGTGAAGGCTACTACGTGTACCAGATAG-ATAGATCACATGTGTAGTACTAAGTGCAAGCTAC
61249262 TATGCGTACCCGTTAACTTTGA
130 TATGCGTACCCGTTAACTTTGA
*
61249284 TCACGTGTGTAGTACTAAGTGCAAGCTACTACACGTA-TCAAATGGATAAGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACACGTACT-AAATGGATAAGTCACATGTGTAGTA
* * * *
61249348 CTAAGTGAAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGTAGGCTAC
65 CTAAGTGAAGGCTACTACGTGTACCAGATAGATAGATCACATGTGTAGTACTAAGTGCAAGCTAC
61249413 TAT
130 TAT
61249416 ATATACCAGA
Statistics
Matches: 112, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
151 32 0.29
152 80 0.71
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (151 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACACGTACTAAATGGATAAGTCACATGTGTAGTAC
TAAGTGAAGGCTACTACGTGTACCAGATAGATAGATCACATGTGTAGTACTAAGTGCAAGCTACT
ATGCGTACCCGTTAACTTTGA
Found at i:61249423 original size:50 final size:50
Alignment explanation
Indices: 61249085--61249425 Score: 297
Period size: 50 Copynumber: 6.7 Consensus size: 50
61249075 TGAGAACACA
* * ** * **
61249085 TGTGTAGTACTATGTGCAGGCTACTATATGTTTAAGACATTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTAC--TATGTGTACCAGATTGATAGGTCACG
* * * *
61249137 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACG
* * * * * *
61249187 TGTGTAGTACTAAGTTCAGGCTACTATGTGTACCCGATAGTTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-ATAGGTCACG
* * * * * *
61249238 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCG-TTAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGGTCACG
* *** * * * *
61249289 TGTGTAGTACTAAGTGCAAGCTACTACACGTATCAAATGGATAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACG
* * *
61249339 TGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAGATTGATAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACG
* * *
61249389 TGTGTAGTACTAAGTGTAGGCTACTATATATACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
61249426 GAGCTTCGGT
Statistics
Matches: 235, Mismatches: 50, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
50 133 0.57
51 77 0.33
52 25 0.11
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACG
Found at i:61249646 original size:16 final size:16
Alignment explanation
Indices: 61249625--61249656 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61249615 AGAATGGAGT
61249625 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
61249641 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
61249657 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:61251533 original size:27 final size:26
Alignment explanation
Indices: 61251503--61251561 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
61251493 ATTTACTAAG
*
61251503 ATACCCCTAAGAATG-AAAATTACCATT
1 ATACCCCT-AG-ATGCAAAATGACCATT
* *
61251530 ATACCCGTAGGTGCAAAATGACCATT
1 ATACCCCTAGATGCAAAATGACCATT
61251556 ATACCC
1 ATACCC
61251562 TAGGGTGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 19 0.68
27 7 0.25
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATGACCATT
Found at i:61251702 original size:24 final size:23
Alignment explanation
Indices: 61251667--61251735 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
61251657 TGGAGGAAGC
*
61251667 GTTCTGGAGGCTATGCCATATCT
1 GTTCTGGTGGCTATGCCATATCT
*
61251690 GTTCCTGGTGGCTACGCCACAAATATCT
1 GTT-CTGGTGGCTATG-C-C--ATATCT
*
61251718 GTTCTGGTGGCTCTGCCA
1 GTTCTGGTGGCTATGCCA
61251736 CAAAATCTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
23 4 0.11
24 10 0.27
25 2 0.05
26 2 0.05
27 10 0.27
28 9 0.24
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (23 bp):
GTTCTGGTGGCTATGCCATATCT
Found at i:61251735 original size:27 final size:27
Alignment explanation
Indices: 61251684--61251777 Score: 104
Period size: 27 Copynumber: 3.5 Consensus size: 27
61251674 AGGCTATGCC
61251684 ATATCTGTTCCTGGTGGCTAC-GCCACAA
1 ATATCTGTT-CTGGTGGCT-CTGCCACAA
61251712 ATATCTGTTCTGGTGGCTCTGCCACAA
1 ATATCTGTTCTGGTGGCTCTGCCACAA
* * * *
61251739 A-ATCTATATTTGGTGACTCTGTCAC-A
1 ATATCTGT-TCTGGTGGCTCTGCCACAA
61251765 ATATCTGTTCTGG
1 ATATCTGTTCTGG
61251778 CAGCCATGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
26 12 0.21
27 36 0.63
28 9 0.16
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTTCTGGTGGCTCTGCCACAA
Found at i:61256085 original size:29 final size:29
Alignment explanation
Indices: 61256052--61256125 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
61256042 GTGACGAGAT
61256052 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
61256081 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
61256110 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61256126 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:61256141 original size:29 final size:29
Alignment explanation
Indices: 61256109--61256184 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
61256099 CTGGAAATAT
* *
61256109 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
61256138 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
61256167 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
61256185 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:61256152 original size:58 final size:58
Alignment explanation
Indices: 61256052--61256184 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
61256042 GTGACGAGAT
* * * * * *
61256052 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
61256110 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
61256168 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
61256185 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:61264835 original size:40 final size:39
Alignment explanation
Indices: 61264749--61264932 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
61264739 AAATTGAATG
* * * * *
61264749 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
61264789 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
61264829 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
61264869 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
61264908 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
61264933 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:61268560 original size:4 final size:4
Alignment explanation
Indices: 61268551--61268587 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
61268541 GTCTTAGCAA
61268551 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
61268588 TCAACCTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:61274117 original size:28 final size:28
Alignment explanation
Indices: 61274073--61274164 Score: 157
Period size: 28 Copynumber: 3.3 Consensus size: 28
61274063 TGGGAAGTAG
61274073 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
61274101 TTGGGCCTGATGAGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
61274129 TTGGGCCTGATGGGCCATGTGAATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
61274157 TTGGGCCT
1 TTGGGCCT
61274165 AAAGGGGCCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:61274511 original size:27 final size:27
Alignment explanation
Indices: 61274481--61274874 Score: 401
Period size: 27 Copynumber: 14.6 Consensus size: 27
61274471 TAATAAAGAG
*
61274481 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
61274508 AAATTA-TCAAAATACCCCCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
61274535 AAATTA-TCGAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
*
61274561 AAATTACTGAAATACCCTCCATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
61274588 AAATTACCGAAATACCC-CTGATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
61274615 AAATTACCGAACTACCCTCGA-TTGTAA
1 AAATTACTGAAATACCCTCGATTTGT-A
* *
61274642 AAATTACTGAAATAACCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * * *
61274669 AAATTACCAAAATACCC-CTATTTTTTG
1 AAATTACTGAAATACCCTCGA-TTTGTA
* * *
61274696 AAATTATTGAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
61274723 AAATTACTGAAACACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
61274750 AAATTACTGAAATACCTTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
61274777 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
61274804 AAATTACTAAAATACCATTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
61274831 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
* *
61274858 AAATTACCGACATACCC
1 AAATTACTGAAATACCC
61274875 CTATAGGGTA
Statistics
Matches: 310, Mismatches: 43, Indels: 28
0.81 0.11 0.07
Matches are distributed among these distances:
26 33 0.11
27 269 0.87
28 8 0.03
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:61274684 original size:81 final size:81
Alignment explanation
Indices: 61274481--61274874 Score: 474
Period size: 81 Copynumber: 4.9 Consensus size: 81
61274471 TAATAAAGAG
* * *
61274481 AAATTACTGAAATACCCTTGATTTGTAAAATTATCAAAATACCCCCGATTTGTAAAATTATCGAA
1 AAATTACTGAAATACCCTTGATTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATCGAA
*
61274546 ATACCCTCGA-TTGTG
66 ATACCCTCGATTTGTA
** *
61274561 AAATTACTGAAATACCCTCCATTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTACCGAA
1 AAATTACTGAAATACCCTTGATTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATCGAA
*
61274626 CTACCCTCGA-TTGTAA
66 ATACCCTCGATTTGT-A
* ** * * * *
61274642 AAATTACTGAAATAACCTCAATTTGTAAAATTACCAAAATACCCCT-ATTTTTTGAAATTATTGA
1 AAATTACTGAAATACCCTTGATTTGTAAAATTACCGAAATACCCCTGA-TTTGTAAAATTATCGA
* *
61274706 AACACCCTCAATTTGTA
65 AATACCCTCGATTTGTA
* * *
61274723 AAATTACTGAAACACCCTTGATTTGTAAAATTACTGAAATA-CCTTCGATTTGTAAAATTATCGA
1 AAATTACTGAAATACCCTTGATTTGTAAAATTACCGAAATACCCCT-GATTTGTAAAATTATCGA
61274787 AATACCCTCGATTTGTA
65 AATACCCTCGATTTGTA
* * * * * *
61274804 AAATTACTAAAATACCATTGATTTGTAAAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGA
1 AAATTACTGAAATACCCTTGATTTGTAAAATTACCGAAATACCCCTGAT-TTGTAAAATTATCGA
*
61274868 CATACCC
65 AATACCC
61274875 CTATAGGGTA
Statistics
Matches: 269, Mismatches: 38, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
80 77 0.29
81 183 0.68
82 9 0.03
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (81 bp):
AAATTACTGAAATACCCTTGATTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATCGAA
ATACCCTCGATTTGTA
Found at i:61274885 original size:27 final size:27
Alignment explanation
Indices: 61274828--61274888 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
61274818 CCATTGATTT
* * * *
61274828 GTAAAATTATCGAAATACCCTTGTAGT
1 GTAAAATTACCGAAATACCCCTATAGG
*
61274855 GTAAAATTACCGACATACCCCTATAGG
1 GTAAAATTACCGAAATACCCCTATAGG
61274882 GTAAAAT
1 GTAAAAT
61274889 GACTATTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTATAGG
Found at i:61275449 original size:27 final size:26
Alignment explanation
Indices: 61275394--61275450 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
61275384 GGCTAAGATA
* * *
61275394 GGCTATGCCCAATTGATTCTGTTATG
1 GGCTATGCCCAAATGATTCTGTAACG
61275420 GGCTATGACCCAAATGATAT-TGTAACG
1 GGCTATG-CCCAAATGAT-TCTGTAACG
61275447 GGCT
1 GGCT
61275451 TTGGCCTACG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 18 0.69
28 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (26 bp):
GGCTATGCCCAAATGATTCTGTAACG
Found at i:61277738 original size:28 final size:28
Alignment explanation
Indices: 61277698--61277789 Score: 148
Period size: 28 Copynumber: 3.3 Consensus size: 28
61277688 TGGAAAGTAG
61277698 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
61277726 TTGGGTCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
61277754 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
61277782 TTGGGCCT
1 TTGGGCCT
61277790 AAAGGGGCCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:61278170 original size:27 final size:27
Alignment explanation
Indices: 61278106--61278391 Score: 285
Period size: 27 Copynumber: 10.7 Consensus size: 27
61278096 TAATAAAGAG
**
61278106 AAATTACTAAAATACCCTCGATTTGT-
1 AAATTACCGAAATACCCTCGATTTGTA
61278132 AAATTACCGAAATA-CCTCCGATTTGTA
1 AAATTACCGAAATACCCT-CGATTTGTA
* * *
61278159 AAATTACCGAAATACCCTTGA-GTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
61278185 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
61278212 AAATTACCTAAATACCC-CAAATTTGTG
1 AAATTACCGAAATACCCTC-GATTTGTA
* *
61278239 AAATTACCGAAAAACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
61278266 AAATTATCGAAACACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
61278293 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * *
61278320 AAATTGTCGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
61278347 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
61278374 AAATTACCGACATACCCT
1 AAATTACCGAAATACCCT
61278392 TGTAGTGTAA
Statistics
Matches: 217, Mismatches: 36, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
25 3 0.01
26 44 0.20
27 166 0.76
28 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:61278392 original size:27 final size:27
Alignment explanation
Indices: 61278343--61278431 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
61278333 ACCCCCGATT
*
61278343 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGACATACCCTTGTAG
*
61278370 TGTAAAATTACCGACATACCCTTGTAG
1 TGTAAAATTATCGACATACCCTTGTAG
*
61278397 TGTAAAATGATCGACATACCCTTGTAG
1 TGTAAAATTATCGACATACCCTTGTAG
*
61278424 GGTAAAAT
1 TGTAAAAT
61278432 GACTATTTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (27 bp):
TGTAAAATTATCGACATACCCTTGTAG
Found at i:61280021 original size:11 final size:11
Alignment explanation
Indices: 61280005--61280047 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
61279995 TGTTTTATCT
61280005 CTATTTTGCTA
1 CTATTTTGCTA
* *
61280016 CCATTTTACTA
1 CTATTTTGCTA
* *
61280027 TTATGTTGCTA
1 CTATTTTGCTA
61280038 CTATTTTGCT
1 CTATTTTGCT
61280048 GTTATTGTTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:61280127 original size:29 final size:29
Alignment explanation
Indices: 61280085--61280141 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
61280075 TATTTTATTG
61280085 TTAATTTTTTATTATTTTAAAGGCATTTC
1 TTAATTTTTTATTATTTTAAAGGCATTTC
*
61280114 TTAATTTTTTATTATTTTAGAGGCATTT
1 TTAATTTTTTATTATTTTAAAGGCATTT
61280142 GCTTGTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (29 bp):
TTAATTTTTTATTATTTTAAAGGCATTTC
Found at i:61282720 original size:30 final size:30
Alignment explanation
Indices: 61282686--61282747 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
61282676 ACTTATTTTA
*
61282686 TTGTTAATTTTGTTTTTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
61282716 TTGTTAATTTTGTTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
61282746 TT
1 TT
61282748 ACTTATTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:61289802 original size:41 final size:40
Alignment explanation
Indices: 61289752--61289918 Score: 162
Period size: 41 Copynumber: 4.0 Consensus size: 40
61289742 CCGACTCTTA
*
61289752 ACACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAG
1 ACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAG
* * *
61289792 ACTACTGGCTCGAAGGCCCTTC-AGAACTAAG-TCCGG-TTATG
1 AC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGATTA-G
* * *
61289833 ACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 ACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--ATTAG
61289877 -CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTTAG
1 ACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA-TTAG
61289917 AC
1 AC
61289919 CCCGATTAGC
Statistics
Matches: 104, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
39 1 0.01
40 20 0.19
41 50 0.48
42 18 0.17
43 11 0.11
44 1 0.01
45 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
ACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAG
Found at i:61289952 original size:2 final size:2
Alignment explanation
Indices: 61289945--61289979 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
61289935 ACGTATATGC
61289945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
61289980 CACATCTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61309795 original size:14 final size:14
Alignment explanation
Indices: 61309776--61309803 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61309766 AGGTAAAATG
61309776 AATTAAAAGACAAA
1 AATTAAAAGACAAA
61309790 AATTAAAAGACAAA
1 AATTAAAAGACAAA
61309804 TGTTCCATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
AATTAAAAGACAAA
Found at i:61316280 original size:48 final size:48
Alignment explanation
Indices: 61316126--61316273 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
61316116 ATATATACAC
* **
61316126 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
61316174 GGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
61316222 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
61316270 ATCT
1 ATCT
61316274 TGTACATCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:61317584 original size:26 final size:27
Alignment explanation
Indices: 61317539--61317591 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
61317529 TTAAATTCTG
* *
61317539 GCATGCATTCGGACACTTAAAAATTCA
1 GCATACATTCGAACACTTAAAAATTCA
*
61317566 GCATACATTCGAACA-TTAAAATTTCA
1 GCATACATTCGAACACTTAAAAATTCA
61317592 CTAGCTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
GCATACATTCGAACACTTAAAAATTCA
Found at i:61319986 original size:57 final size:58
Alignment explanation
Indices: 61319917--61320027 Score: 179
Period size: 57 Copynumber: 1.9 Consensus size: 58
61319907 GTGCCCACTG
*
61319917 ACCGATCTCGCACACATAGTGCTCGGTT-GAAGAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
* * *
61319974 ACCGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
61320028 TAATCATTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 27 0.55
58 22 0.45
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
Found at i:61320015 original size:29 final size:28
Alignment explanation
Indices: 61319926--61320024 Score: 83
Period size: 29 Copynumber: 3.5 Consensus size: 28
61319916 GACCGATCTC
* * * *
61319926 GCACACATAGTGCTCGGTTGAAGAACTC
1 GCACACACAGTGCTCGGTTAAAGAATTT
** **
61319954 GCACACACAGTGCCTCAATTACCG-ATTT
1 GCACACACAGTG-CTCGGTTAAAGAATTT
*
61319982 CGCACACATAGTGCTCGGTTAAAAGAATTT
1 -GCACACACAGTGCTCGGTT-AAAGAATTT
61320012 GCACACACAGTGC
1 GCACACACAGTGC
61320025 CTCTAATCAT
Statistics
Matches: 53, Mismatches: 14, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
28 18 0.34
29 31 0.58
30 4 0.08
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTAAAGAATTT
Found at i:61320386 original size:40 final size:40
Alignment explanation
Indices: 61320309--61320540 Score: 378
Period size: 40 Copynumber: 5.8 Consensus size: 40
61320299 ATTTTGTCCT
* *
61320309 AGCACGAATGC-CTTTGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* *
61320348 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
61320388 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* *
61320428 AGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
61320468 AGCACGAATGCTCTTCAGGG-CTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTC-GGGACTTAGCCCGGATACATCACC
*
61320508 AGCACGAATGCTCTTTGGGACTTAGCCCGGATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
61320541 TAACATATTG
Statistics
Matches: 179, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 14 0.08
40 162 0.91
41 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
Found at i:61322511 original size:48 final size:48
Alignment explanation
Indices: 61322447--61322597 Score: 187
Period size: 48 Copynumber: 3.1 Consensus size: 48
61322437 GCCACAATAT
* *
61322447 ATATACACATCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
1 ATATACATAGCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
* * *
61322495 ATATGCATGGCTCATACATATTTCACATTAGCC-TTTCGACTTTACCAC
1 ATATACATAGCTCATACATATTTCACATTAGCCATTT-GGCTTTACCAC
* * * *
61322543 ATATATATATATCTCATACATATTTTACATTAGCCATTCGGCTTTACCAC
1 --ATATACATAGCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
61322593 ATATA
1 ATATA
61322598 TATATCTTGT
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
47 3 0.03
48 44 0.51
50 38 0.44
51 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
ATATACATAGCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
Found at i:61322602 original size:50 final size:50
Alignment explanation
Indices: 61322445--61322599 Score: 215
Period size: 50 Copynumber: 3.1 Consensus size: 50
61322435 CGGCCACAAT
* *
61322445 ATATATACACATCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
1 ATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* ** * *
61322495 --ATATGCATGGCTCATACATATTTCACATTAGCCTTTCGACTTTACCAC
1 ATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
61322543 ATATATATATATCTCATACATATTTTACATTAGCCATTCGGCTTTACCAC
1 ATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
61322593 ATATATA
1 ATATATA
61322600 TATCTTGTAC
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 41 0.46
50 48 0.54
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:61324418 original size:40 final size:40
Alignment explanation
Indices: 61324373--61324539 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
61324363 CGGAATATAA
61324373 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
61324413 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
61324453 CCGGATATAGCCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
61324493 CCGGATATAATTTCTAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
61324532 CCGGATAT
1 CCGGATAT
61324540 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 92 0.87
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:61325807 original size:58 final size:56
Alignment explanation
Indices: 61325730--61325849 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 56
61325720 ATCCTCCCCC
*
61325730 TTTTCCCTTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTT
1 TTTTTCCTTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAAC-AATTTTTTTCTT
*** *
61325787 TTCTTTCCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTCTT
1 TT-TTTCCTTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTTTCTT
61325844 TTTTTC
1 TTTTTC
61325850 TTTTTCATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
56 4 0.07
57 15 0.27
58 32 0.58
59 4 0.07
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (56 bp):
TTTTTCCTTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTTTCTT
Found at i:61329388 original size:12 final size:12
Alignment explanation
Indices: 61329371--61329395 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61329361 TCAAGTGCAG
61329371 ATTTTGGGTGAA
1 ATTTTGGGTGAA
61329383 ATTTTGGGTGAA
1 ATTTTGGGTGAA
61329395 A
1 A
61329396 AATGAAGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (12 bp):
ATTTTGGGTGAA
Found at i:61333689 original size:24 final size:25
Alignment explanation
Indices: 61333662--61333713 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
61333652 AATTACTACT
*
61333662 ATTTTA-TGAATCCAAACTAGTTAG
1 ATTTTATTAAATCCAAACTAGTTAG
61333686 A-TTTATTAAATCCAAACTAGTTAG
1 ATTTTATTAAATCCAAACTAGTTAG
61333710 ATTT
1 ATTT
61333714 CTTACGCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 4 0.16
24 19 0.76
25 2 0.08
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (25 bp):
ATTTTATTAAATCCAAACTAGTTAG
Found at i:61339356 original size:43 final size:43
Alignment explanation
Indices: 61339308--61339401 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
61339298 CCTAGATATG
** *
61339308 GTCTTACATGTTATCACATATCGATGCCAATGTCCCAGACATA
1 GTCTTACATGAAATCACATAACGATGCCAATGTCCCAGACATA
*
61339351 GTCTTACATGAAATCATATAACGATGCCAATGTCCCAGACATA
1 GTCTTACATGAAATCACATAACGATGCCAATGTCCCAGACATA
61339394 GTCTTACA
1 GTCTTACA
61339402 CGTAGTCTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
GTCTTACATGAAATCACATAACGATGCCAATGTCCCAGACATA
Found at i:61339409 original size:12 final size:12
Alignment explanation
Indices: 61339392--61339417 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61339382 GTCCCAGACA
61339392 TAGTCTTACACG
1 TAGTCTTACACG
61339404 TAGTCTTACACG
1 TAGTCTTACACG
61339416 TA
1 TA
61339418 ATCACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (12 bp):
TAGTCTTACACG
Found at i:61339734 original size:22 final size:22
Alignment explanation
Indices: 61339708--61339751 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
61339698 ATTTCCCCCG
61339708 ATCTAAATCCAATTTATTTCTT
1 ATCTAAATCCAATTTATTTCTT
61339730 ATCTAAATCCAATTTATTTCTT
1 ATCTAAATCCAATTTATTTCTT
61339752 TCTTGATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (22 bp):
ATCTAAATCCAATTTATTTCTT
Found at i:61347567 original size:41 final size:41
Alignment explanation
Indices: 61347522--61347639 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61347512 TGAAAGATAA
61347522 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61347563 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61347593 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61347634 ATGTAG
1 ATGTAG
61347640 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61347578 original size:71 final size:71
Alignment explanation
Indices: 61347490--61347653 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61347480 GAGATGTATC
61347490 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61347555 AGGACA
66 AGGACA
61347561 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61347626 AGGACA
66 AGGACA
61347632 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61347654 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61355148 original size:41 final size:41
Alignment explanation
Indices: 61355103--61355220 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61355093 TGAAAGATAA
61355103 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61355144 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61355174 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61355215 ATGTAG
1 ATGTAG
61355221 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61355159 original size:71 final size:71
Alignment explanation
Indices: 61355071--61355234 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61355061 GAGATGTATC
61355071 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61355136 AGGACA
66 AGGACA
61355142 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61355207 AGGACA
66 AGGACA
61355213 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61355235 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61362717 original size:41 final size:41
Alignment explanation
Indices: 61362672--61362789 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61362662 TGAAAGATAA
61362672 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61362713 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61362743 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61362784 ATGTAG
1 ATGTAG
61362790 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61362727 original size:71 final size:71
Alignment explanation
Indices: 61362640--61362803 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61362630 GAGATGTATC
61362640 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61362705 AGGACA
66 AGGACA
61362711 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61362776 AGGACA
66 AGGACA
61362782 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61362804 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61364404 original size:40 final size:40
Alignment explanation
Indices: 61364359--61364526 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
61364349 CGGAATACAA
61364359 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
61364399 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
61364439 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
61364479 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
61364519 CCGGATAT
1 CCGGATAT
61364527 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:61372436 original size:40 final size:40
Alignment explanation
Indices: 61372391--61372558 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
61372381 CGGAATACAA
61372391 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
61372431 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
61372471 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
61372511 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
61372551 CCGGATAT
1 CCGGATAT
61372559 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:61375203 original size:18 final size:20
Alignment explanation
Indices: 61375167--61375213 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
61375157 AGTTGTAAGT
61375167 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
61375187 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
61375206 ATGATATA
1 AT-ATATA
61375214 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:61375741 original size:101 final size:101
Alignment explanation
Indices: 61375611--61375800 Score: 274
Period size: 101 Copynumber: 1.9 Consensus size: 101
61375601 CATTTTTAGG
* * * * * *
61375611 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAAT-AGATTGATAGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTAAGAGCAAGCTACTACGTGT-ATCAAATGGATAAGTCACATGTGTAGTA
** *
61375675 CTAAGTTCAGGCTACTATGTGTACCCGATAGTTTTGA
65 CTAAGTGAAGGCTACTACGTGTACCCGATAGTTTTGA
*
61375712 TCACGTGTGTAGTACTAAGAGCAAGCTACTACGTGTATCAAATGGATAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGAGCAAGCTACTACGTGTATCAAATGGATAAGTCACATGTGTAGTAC
61375777 TAAGTGAAGGCTACTACGTGTACC
66 TAAGTGAAGGCTACTACGTGTACC
61375801 AGATTGATAG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 2 0.03
101 76 0.97
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGAGCAAGCTACTACGTGTATCAAATGGATAAGTCACATGTGTAGTAC
TAAGTGAAGGCTACTACGTGTACCCGATAGTTTTGA
Found at i:61375849 original size:50 final size:50
Alignment explanation
Indices: 61375560--61375853 Score: 273
Period size: 50 Copynumber: 5.8 Consensus size: 50
61375550 GTTGTGAGAA
* * * ** * **
61375560 CACATGTGTAGTACTATGTGCAGGCTACTATATGTTTAAGACATTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTAC--TACGTGTACCAGATTGATAGGT
* **
61375612 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAATAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* * * * * * * *
61375662 CGCATGTGTAGTACTAAGTTCAGGCTACTATGTGTACCCGATAGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-ATAGGT
* * * * * * *
61375713 CACGTGTGTAGTACTAAGAGCAAGCTACTACGTGTATCAAATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* *
61375763 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* * **
61375813 CGCATGTGTAGTACTAAGTGTAGGCTACTATATGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
61375854 GAGCTTCGGT
Statistics
Matches: 196, Mismatches: 45, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
50 133 0.68
51 37 0.19
52 26 0.13
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
Found at i:61376074 original size:16 final size:16
Alignment explanation
Indices: 61376053--61376084 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61376043 AGAATGGAGT
61376053 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
61376069 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
61376085 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:61380461 original size:43 final size:43
Alignment explanation
Indices: 61380045--61380459 Score: 512
Period size: 43 Copynumber: 9.7 Consensus size: 43
61380035 TGTGTGTGCA
*
61380045 TGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTATC-
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA-CG
* ** * * *
61380088 TGTAAGACCACATCTAAGACATTGGCATCGATATATGATTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * * *
61380131 TATAACATCACATCTGGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* *
61380174 TGTAAGACCACGTTTAGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * *
61380217 TGTAAGACCAAGTCTGTGACGTTGGCATCTATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* *
61380260 TGTAAGACCAAGTCTGTGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
** * *
61380303 TGTAAGATGACATCTGGGACGTTGGCATCGATATGTGATTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * * *
61380346 AGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * *
61380389 TGTAAGACC-CTGTCTGGGATAG-TGGCATTGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGTGATTACG
*
61380432 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
61380460 TGTACGATAT
Statistics
Matches: 321, Mismatches: 46, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
42 2 0.01
43 319 0.99
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
Found at i:61383731 original size:28 final size:29
Alignment explanation
Indices: 61383699--61383797 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
61383689 ATAATAAGCC
*
61383699 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
61383727 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
61383755 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
61383784 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61383798 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:61391742 original size:28 final size:29
Alignment explanation
Indices: 61391710--61391808 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
61391700 ATAATAAGCC
*
61391710 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
61391738 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
61391766 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
61391795 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61391809 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:61406875 original size:43 final size:42
Alignment explanation
Indices: 61406827--61406967 Score: 144
Period size: 44 Copynumber: 3.3 Consensus size: 42
61406817 TTCCTAGACA
*
61406827 TGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGATAG
1 TGGTCTTACACGTAATCAAATATCGATGCCAC-ATCCCAGA-AG
* * *
61406871 -GGTCTTACACGAAATCAAATA-CAATGCCAACATCCCAGACG
1 TGGTCTTACACGTAATCAAATATCGATGCC-ACATCCCAGAAG
* * *
61406912 TGGTCTTACACGTAAATCATAA-GTCGATGCCAACGTCCCAGACG
1 TGGTCTTACACGT-AATCA-AATATCGATGCC-ACATCCCAGAAG
61406956 TGGTCTTACACG
1 TGGTCTTACACG
61406968 AAAACACATA
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 25 0.30
43 26 0.31
44 32 0.38
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
TGGTCTTACACGTAATCAAATATCGATGCCACATCCCAGAAG
Found at i:61406951 original size:44 final size:42
Alignment explanation
Indices: 61406809--61406967 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
61406799 AGCTCATACA
* * * *
61406809 ATGCCAACTTCCTAGACATGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATC-AA-ATCG
* *
61406852 ATGCC-ACTATCCCAGATAG-GGTCTTACACG-AAATCAAATACA
1 ATGCCAAC-ATCCCAGA-CGTGGTCTTACACGTAAATCAAAT-CG
61406894 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCA-AA-TCG
*
61406938 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACATCCCAGACGTGGTCTTACACG
61406968 AAAACACATA
Statistics
Matches: 98, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.30
43 33 0.34
44 32 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCAAATCG
Found at i:61406961 original size:86 final size:85
Alignment explanation
Indices: 61406804--61406970 Score: 214
Period size: 86 Copynumber: 2.0 Consensus size: 85
61406794 CGGAAAGCTC
* * *
61406804 ATACAATGCCAACTTCCTAGACATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGAT
1 ATACAATGCCAACATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGAT
61406869 AGGGTCTTACACGAAATCAA
66 AGGGTCTTACACGAAATCAA
* * *
61406889 ATACAATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCA
1 ATACAATGCCAACATCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTATCCCA
*
61406952 GA-CGTGGTCTTACACGAAA
63 GATAG-GGTCTTACACGAAA
61406971 ACACATATCG
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
85 33 0.46
86 34 0.48
87 4 0.06
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (85 bp):
ATACAATGCCAACATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGAT
AGGGTCTTACACGAAATCAA
Found at i:61415055 original size:19 final size:20
Alignment explanation
Indices: 61415033--61415083 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
61415023 ATGTTATACT
*
61415033 GATGAATTACT-CTTATATG
1 GATGAATTACTGCTTAAATG
* *
61415052 GATGAAGTACTGTTTAAATG
1 GATGAATTACTGCTTAAATG
*
61415072 GATGAGTTACTG
1 GATGAATTACTG
61415084 ATATCGAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (20 bp):
GATGAATTACTGCTTAAATG
Found at i:61420186 original size:18 final size:18
Alignment explanation
Indices: 61420165--61420207 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
61420155 AGTTCGTCAT
61420165 ATTAATACAGATCACCAA
1 ATTAATACAGATCACCAA
* * *
61420183 ATTAACACAGTTCACCAT
1 ATTAATACAGATCACCAA
61420201 ATTAATA
1 ATTAATA
61420208 TAATTTGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.28
Consensus pattern (18 bp):
ATTAATACAGATCACCAA
Found at i:61420567 original size:31 final size:32
Alignment explanation
Indices: 61420506--61420571 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
61420496 GCATATGTAT
*
61420506 TATTATATATATAATCAAGACCCATACATATA
1 TATTATATATATAATCAAAACCCATACATATA
* *
61420538 TATTATATATCTAA-CAAAACCTATACATATA
1 TATTATATATATAATCAAAACCCATACATATA
61420569 TAT
1 TAT
61420572 ATTATACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
31 18 0.58
32 13 0.42
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (32 bp):
TATTATATATATAATCAAAACCCATACATATA
Found at i:61422416 original size:15 final size:16
Alignment explanation
Indices: 61422389--61422424 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
61422379 TATATTTGGA
61422389 TAATTATTTAAAATTT
1 TAATTATTTAAAATTT
61422405 TAATTA-TTAAAATTT
1 TAATTATTTAAAATTT
61422420 TAATT
1 TAATT
61422425 CAACTAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTATTTAAAATTT
Found at i:61427199 original size:46 final size:46
Alignment explanation
Indices: 61427112--61427231 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
61427102 TATGAGAGCC
* * ** *
61427112 AGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCTTCGGCATCAAGACGTA-AGCT
* *
61427160 AGTGTAAGACATGTTTGGGACATGCTTCGGCCTCAAGACGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCTTCGGCATCAAGACGTAAGCT
61427206 AGTGTAAGACATGTCTGGGACATGCT
1 AGTGTAAGACATGTCTGGGACATGCT
61427232 GTAACAGCCC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 41 0.65
47 13 0.21
48 9 0.14
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCTTCGGCATCAAGACGTAAGCT
Found at i:61428489 original size:26 final size:27
Alignment explanation
Indices: 61428453--61428505 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
61428443 TGTCAGCTAG
* *
61428453 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
61428479 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
61428506 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:61429811 original size:41 final size:46
Alignment explanation
Indices: 61429777--61429916 Score: 165
Period size: 47 Copynumber: 3.0 Consensus size: 46
61429767 TGTACAAGAT
*
61429777 ATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATA
1 ATATATATATGTGGTAAAGCCGAAAGGCTAATGTAAAATATGTATA
*
61429823 GATATATATATGTGGTAAAGCCGAAAGGCTAATGTGAAATATGTATGA
1 -ATATATATATGTGGTAAAGCCGAAAGGCTAATGTAAAATATGTAT-A
** ** * *
61429871 GCCATGCATATGTGGTAAAGCC-AAATGGTTAATGTGAAATATGTAT
1 -ATATATATATGTGGTAAAGCCGAAA-GGCTAATGTAAAATATGTAT
61429917 GAGATATTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
47 46 0.55
48 38 0.45
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.31
Consensus pattern (46 bp):
ATATATATATGTGGTAAAGCCGAAAGGCTAATGTAAAATATGTATA
Found at i:61429838 original size:47 final size:48
Alignment explanation
Indices: 61429777--61429923 Score: 215
Period size: 48 Copynumber: 3.1 Consensus size: 48
61429767 TGTACAAGAT
*
61429777 ATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTAT-AG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
61429824 ATATATATATGTGGTAAAGCCGAAAGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** ** * *
61429872 CCATGCATATGTGGTAAAGCCAAATGGTTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
61429920 ATAT
1 ATAT
61429924 TTGATGAGGC
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 43 0.49
48 45 0.51
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:61431159 original size:45 final size:45
Alignment explanation
Indices: 61431095--61431195 Score: 175
Period size: 45 Copynumber: 2.2 Consensus size: 45
61431085 GGGGTGTTAC
61431095 ACATGCATCGGCTACGAGATATGTCAGTGTAAGACCATGTCTAGG
1 ACATGCATCGGCTACGAGATATGTCAGTGTAAGACCATGTCTAGG
* *
61431140 ACATGCATCGGCTACGAGATATGTCAGTGTAAGACCATGTTTGGG
1 ACATGCATCGGCTACGAGATATGTCAGTGTAAGACCATGTCTAGG
61431185 ACATGGCATCG
1 ACAT-GCATCG
61431196 ACACAGATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
45 47 0.89
46 6 0.11
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (45 bp):
ACATGCATCGGCTACGAGATATGTCAGTGTAAGACCATGTCTAGG
Found at i:61439825 original size:46 final size:46
Alignment explanation
Indices: 61439758--61439887 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
61439748 ATGTAACCCG
* * * *
61439758 CCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCA
1 CCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
61439804 CCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 CCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
*
61439850 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61439888 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (46 bp):
CCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
Found at i:61447394 original size:93 final size:93
Alignment explanation
Indices: 61447282--61447453 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61447272 CGCCCATAAG
* *
61447282 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61447347 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
61447375 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61447440 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
61447454 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:61447450 original size:46 final size:46
Alignment explanation
Indices: 61447275--61447450 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
61447265 TGTAACCCGC
* * *
61447275 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
61447321 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
61447371 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
61447414 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
61447451 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:61462774 original size:40 final size:41
Alignment explanation
Indices: 61462730--61462909 Score: 171
Period size: 40 Copynumber: 4.5 Consensus size: 41
61462720 GCTCGATTTT
* *
61462730 CTTCGGGACA-TAGCCCGG-TTATAGTGATTCGCAC-AATTGC
1 CTTCGGGACATTAGCCCGGATT-TAGTAACTCGCACGAA-TGC
61462770 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACATTAGCCCGGATTTAGTAACTCGCACGAATGC
* *
61462810 CTTCGGGAC-TTAACCC-GATTTTGGTAACTCGCACGAATGC
1 CTTCGGGACATTAGCCCGGA-TTTAGTAACTCGCACGAATGC
* * * * *
61462850 CTTTGGGA-ATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATTAG-CCCGGATTTAGTAAC-TCGCACGAATGC
61462891 CTTCGGGAC-TTAGCCCGGA
1 CTTCGGGACATTAGCCCGGA
61462910 CACATTCGAA
Statistics
Matches: 117, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
39 3 0.03
40 83 0.71
41 30 0.26
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (41 bp):
CTTCGGGACATTAGCCCGGATTTAGTAACTCGCACGAATGC
Found at i:61462842 original size:80 final size:81
Alignment explanation
Indices: 61462758--61462907 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 81
61462748 TTATAGTGAT
* * *
61462758 TCGCAC-AATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACT
1 TCGCACGAA-TGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACT
61462820 TAACCCGATTTTGGTAAC
64 TAACCCGATTTTGGTAAC
* *
61462838 TCGCACGAATGCCTTTGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACGAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
61462903 GCCCG
66 ACCCG
61462908 GACACATTCG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
80 33 0.54
81 28 0.46
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TCGCACGAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGATTTTGGTAAC
Found at i:61466098 original size:46 final size:45
Alignment explanation
Indices: 61466047--61466177 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 45
61466037 ATATTTTGGC
* *
61466047 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-AC-AAGG
** * *
61466094 -TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGATATGTAACTAGG
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGAACAAGG
61466139 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61466178 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.03
46 35 0.49
47 35 0.49
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAACAAGG
Found at i:61466163 original size:47 final size:44
Alignment explanation
Indices: 61466044--61466176 Score: 158
Period size: 47 Copynumber: 2.9 Consensus size: 44
61466034 AGGATATTTT
* * *
61466044 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACATATGAATA
* * *
61466088 CGAATGTCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGATATGTAACTA
1 GGCA--TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACATATG-AA-TA
*
61466137 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACATATG
61466177 GGCGGGTTAC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
44 2 0.03
46 33 0.45
47 34 0.46
48 1 0.01
49 4 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACATATGAATA
Found at i:61468020 original size:34 final size:34
Alignment explanation
Indices: 61467982--61468050 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
61467972 TACTTTTGAG
61467982 ATGTACTCTTATTTTATTATGAACTAAACCCCTT
1 ATGTACTCTTATTTTATTATGAACTAAACCCCTT
61468016 ATGTACTCTTATTTTATTATGAACTAAACCCCTT
1 ATGTACTCTTATTTTATTATGAACTAAACCCCTT
61468050 A
1 A
61468051 GATACCTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.43
Consensus pattern (34 bp):
ATGTACTCTTATTTTATTATGAACTAAACCCCTT
Found at i:61468593 original size:13 final size:13
Alignment explanation
Indices: 61468575--61468603 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61468565 TTTAGTTTAA
61468575 TTAGTTAATTAGT
1 TTAGTTAATTAGT
61468588 TTAGTTAATTAGT
1 TTAGTTAATTAGT
61468601 TTA
1 TTA
61468604 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:61474302 original size:43 final size:44
Alignment explanation
Indices: 61474240--61474395 Score: 192
Period size: 43 Copynumber: 3.6 Consensus size: 44
61474230 GATTACCGAG
* *
61474240 ATGTGATTACATGTAAGACCATGTTTGAGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTAT
*
61474284 -TGTGATTACATGTAAGACCATGTCTGAAACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTAT
* * * * * *
61474326 ATATAATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTAT
* *
61474369 ATGTGATAACATGTAAGACCATATCTG
1 ATGTGATTACATGTAAGACCATGTCTG
61474396 GGATATGGCA
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 93 0.99
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTAT
Found at i:61482502 original size:43 final size:41
Alignment explanation
Indices: 61482409--61482511 Score: 97
Period size: 43 Copynumber: 2.5 Consensus size: 41
61482399 TTTGAGATTT
* *
61482409 ACGTCTGGGACA-TCGACATCGTATTTGATTTATGTAAGACC
1 ACGTCTGGGACAGT-GGCATCGTATTTGATTCATGTAAGACC
*
61482450 -CTGTTTGGGACAGTGGCATCGATATTTGATTACATGTACA-ACC
1 AC-GTCTGGGACAGTGGCATCG-TATTTGATT-CATGTA-AGACC
61482493 ACGTCTGGGAC-GTTGGCAT
1 ACGTCTGGGACAG-TGGCAT
61482512 TGTACGAGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
40 1 0.02
41 15 0.29
42 11 0.22
43 22 0.43
44 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
ACGTCTGGGACAGTGGCATCGTATTTGATTCATGTAAGACC
Found at i:61483898 original size:22 final size:21
Alignment explanation
Indices: 61483856--61483898 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
61483846 TATGTTGATA
*
61483856 TTTGACTTTGATATGGTAATG
1 TTTGACTTTGATATGGAAATG
61483877 TTTGACTTTTGAT-TGTGAAATG
1 TTTGAC-TTTGATATG-GAAATG
61483899 ATTGTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (21 bp):
TTTGACTTTGATATGGAAATG
Found at i:61486257 original size:21 final size:21
Alignment explanation
Indices: 61486231--61486275 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
61486221 TGTATGTGAA
* *
61486231 GTTTAGCAAATGTGATTTTTG
1 GTTTAGCAAATGTGAATTCTG
61486252 GTTTAGCAAATGTGAATTCTG
1 GTTTAGCAAATGTGAATTCTG
61486273 GTT
1 GTT
61486276 ACGAGAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (21 bp):
GTTTAGCAAATGTGAATTCTG
Done.