Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 80 of 325
Found at i:25327619 original size:27 final size:25
Alignment explanation
Indices: 25327569--25327665 Score: 70
Period size: 27 Copynumber: 3.6 Consensus size: 25
25327559 AAAAAGTCAA
*
25327569 GGGTATTTCTGTAATTTTGTAAATTAG
1 GGGTATTT-TGTAATTTT-CAAATTAG
25327596 GGGTATTTTGGTAATTTTACAAATT-G
1 GGGTATTTT-GTAATTTT-CAAATTAG
* * *
25327622 AGGGTATATCTATAATTTCTCAAACTAG
1 -GGGTAT-TTTGTAATTT-TCAAATTAG
*
25327650 TGGTATTTTGGTAATT
1 GGGTATTTT-GTAATT
25327666 CTATCCTACA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
26 4 0.07
27 48 0.86
28 4 0.07
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (25 bp):
GGGTATTTTGTAATTTTCAAATTAG
Found at i:25327752 original size:27 final size:27
Alignment explanation
Indices: 25327697--25327761 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
25327687 GTAATTTCAC
* * *
25327697 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
25327724 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGATAATTCTATA
25327751 AATCGAGGGTA
1 AATCGAGGGTA
25327762 CTTTGGTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTATA
Found at i:25330105 original size:31 final size:31
Alignment explanation
Indices: 25330062--25330140 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
25330052 TTTAACGATT
*
25330062 ACTGAGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
25330093 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
25330124 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
25330141 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:25330211 original size:42 final size:42
Alignment explanation
Indices: 25330164--25330255 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
25330154 TGGCCTATAG
* ** *
25330164 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
25330206 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
25330248 GCCCATTT
1 GCCCATTT
25330256 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:25330455 original size:50 final size:52
Alignment explanation
Indices: 25330388--25330522 Score: 190
Period size: 51 Copynumber: 2.7 Consensus size: 52
25330378 CTGGAGGCCT
25330388 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
* *
25330437 AGCCCTTTTCAATAAACTGTGGCATAATCCC-TTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
* *
25330488 AGCCCTTCTCAATAAACTGGGCCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
25330523 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
48 5 0.07
49 7 0.09
50 27 0.36
51 33 0.44
52 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:25330513 original size:26 final size:26
Alignment explanation
Indices: 25330388--25330522 Score: 154
Period size: 25 Copynumber: 5.3 Consensus size: 26
25330378 CTGGAGGCCT
25330388 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
25330412 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
25330437 AGCCCTTTTCAATAAACTGTGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* **
25330463 ATCCC-TTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
25330488 AGCCCTTCTCAATAAACTGGGCCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
25330514 AGCCCTTTT
1 AGCCCTTTT
25330523 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 53 0.58
26 29 0.32
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:25330597 original size:20 final size:20
Alignment explanation
Indices: 25330572--25330658 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
25330562 TTATGAATAC
*
25330572 ATCATGTGCATTTCGTACAT
1 ATCATGTGCATTTCATACAT
25330592 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
25330612 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
* *
25330632 TTCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
25330652 ATCATGT
1 ATCATGT
25330659 ATATCATATC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.41
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:25331036 original size:20 final size:20
Alignment explanation
Indices: 25331011--25331058 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
25331001 TGGGCCCAAA
*
25331011 AGCCCATTGGGCCTGATTCC
1 AGCCCATTGGGCCCGATTCC
25331031 AGCCCATTGGGCCCGATTCC
1 AGCCCATTGGGCCCGATTCC
*
25331051 TGCCCATT
1 AGCCCATT
25331059 AAGGCCCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.38, G:0.23, T:0.25
Consensus pattern (20 bp):
AGCCCATTGGGCCCGATTCC
Found at i:25331540 original size:27 final size:27
Alignment explanation
Indices: 25331502--25331610 Score: 96
Period size: 27 Copynumber: 3.9 Consensus size: 27
25331492 GTAAATCTAC
*
25331502 AAATCAAGGGTATTTCAGTAATTTTGT
1 AAATCAATGGTATTTCAGTAATTTTGT
* *
25331529 AAACCAATGGTATTCTTA-TAATTTT-T
1 AAATCAATGGTATT-TCAGTAATTTTGT
* *
25331555 AAAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 ---AAA-TCAATGGTATTTCAGTAATTTTGT
**
25331586 AAATCAATGGTATTTTGGTAATTTT
1 AAATCAATGGTATTTCAGTAATTTT
25331611 ACAAATTGAG
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
26 1 0.02
27 38 0.58
28 5 0.08
29 4 0.06
30 16 0.25
31 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (27 bp):
AAATCAATGGTATTTCAGTAATTTTGT
Found at i:25331616 original size:27 final size:26
Alignment explanation
Indices: 25331479--25331616 Score: 87
Period size: 27 Copynumber: 5.0 Consensus size: 26
25331469 TTTCATCCTA
* * *
25331479 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTT-GTAATTTTACAAAT
* ** *
25331506 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTT-TGTAATTTTACAAAT
* * *
25331533 CAATGGTATTCTTATAATTTTTAAAAAAGT
1 CAAGGGTATT-TTGTAA-TTTT-ACAAA-T
**
25331563 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGTAATTTTACAAAT
*
25331590 CAATGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTT-GTAATTTTACAAAT
25331617 TGAGAGTATT
Statistics
Matches: 84, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
26 1 0.01
27 54 0.64
28 8 0.10
29 8 0.10
30 13 0.15
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.41
Consensus pattern (26 bp):
CAAGGGTATTTTGTAATTTTACAAAT
Found at i:25331731 original size:27 final size:27
Alignment explanation
Indices: 25331698--25331811 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
25331688 TTTCACAATT
*
25331698 AGGGTAAAATGGTAATTTTGT-AAGCTG
1 AGGGTAAAATGGTAATTTTGTAAATC-G
25331725 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
* * * *
25331752 AGGGTAAAACGATAATTCTATAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
*** ** *
25331779 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
25331806 AGGGTA
1 AGGGTA
25331812 TTTCAGTAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 70 0.96
28 3 0.04
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTTTGTAAATCG
Found at i:25333837 original size:47 final size:47
Alignment explanation
Indices: 25333782--25334748 Score: 1355
Period size: 47 Copynumber: 20.6 Consensus size: 47
25333772 TATTTGAATA
*
25333782 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25333829 CATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25333878 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25333925 ACTGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
25333972 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334019 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334068 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334115 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334162 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334209 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334256 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334303 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334350 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25334397 AATATGAACATGTGTATGTGTGATAAGG-CGAATGGCC-ATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25334442 AATGTGAACATGTGTATGTCTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334489 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334536 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334583 AATGTG-A-ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25334628 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
25334675 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25334722 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
25334749 TCCCGAAGGG
Statistics
Matches: 865, Mismatches: 44, Indels: 22
0.93 0.05 0.02
Matches are distributed among these distances:
45 78 0.09
46 21 0.02
47 673 0.78
48 3 0.00
49 89 0.10
50 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:25334614 original size:23 final size:23
Alignment explanation
Indices: 25334545--25334615 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
25334535 GAATGTGAAC
25334545 ATGTGTATGTGTGATAAGGCCGA
1 ATGTGTATGTGTGATAAGGCCGA
* * * *
25334568 ATG-GCCA-ATGTGATGAATG-TGA
1 ATGTG-TATGTGTGAT-AAGGCCGA
25334590 ATGTGTATGTGTGATAAGGCCGA
1 ATGTGTATGTGTGATAAGGCCGA
25334613 ATG
1 ATG
25334616 GCCAATGTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.30
Consensus pattern (23 bp):
ATGTGTATGTGTGATAAGGCCGA
Found at i:25337230 original size:38 final size:38
Alignment explanation
Indices: 25337166--25337240 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
25337156 AATCCGAGTT
*
25337166 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
25337204 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
25337241 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:25337353 original size:40 final size:40
Alignment explanation
Indices: 25337294--25337650 Score: 544
Period size: 40 Copynumber: 9.1 Consensus size: 40
25337284 AGGTCTCGAC
25337294 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
25337333 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
25337373 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
25337413 GATGTATCC-GGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
25337452 GATGTATCCGGGCTAAGT-CCGAAGAGCATTC-TGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
25337490 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
25337530 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
25337570 GATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
25337609 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
25337649 GA
1 GA
25337651 CGTGTATTGG
Statistics
Matches: 300, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
38 25 0.08
39 101 0.34
40 174 0.58
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:25337468 original size:79 final size:80
Alignment explanation
Indices: 25337294--25337650 Score: 544
Period size: 79 Copynumber: 4.5 Consensus size: 80
25337284 AGGTCTCGAC
25337294 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
25337358 AGCATTCATGCTAGT
66 AGCATTCATGCTAGT
*
25337373 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC-GGCTAAGTTCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
25337437 AGCATTCATGCTAGT
66 AGCATTCATGCTAGT
*
25337452 GATGTATCCGGGCTAAGT-CCGAAGAGCATTC-TGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
*
25337515 AGCATTCGTGCTAGT
66 AGCATTCATGCTAGT
* * * * *
25337530 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA-ACCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
* *
25337594 AGCATTCGTGCTGGT
66 AGCATTCATGCTAGT
* * * * *
25337609 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
25337651 CGTGTATTGG
Statistics
Matches: 260, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
77 16 0.06
78 60 0.23
79 119 0.46
80 65 0.25
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
AGCATTCATGCTAGT
Found at i:25337617 original size:157 final size:159
Alignment explanation
Indices: 25337298--25337650 Score: 550
Period size: 157 Copynumber: 2.2 Consensus size: 159
25337288 CTCGACGATG
25337298 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
*
25337363 TCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGCTAA
66 TCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGCTAA
** *
25337428 GTTCCGAAGAGCATTCATGCTAGTGATGT
131 GACCCGAAGAGCATTCATGCTAGTGATAT
*
25337457 ATCCGGGCTAAGT-CCGAAGAGCATTC-TGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
* * *
25337520 TCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTA
66 TCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCG-GCTA
* * *
25337585 A-ACCCGAAGAGCATTCGTGCTGGTGTTAT
130 AGACCCGAAGAGCATTCATGCTAGTGATAT
* * *
25337614 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
25337651 CGTGTATTGG
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
157 126 0.71
158 30 0.17
159 21 0.12
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (159 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
TCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGCTAA
GACCCGAAGAGCATTCATGCTAGTGATAT
Found at i:25339043 original size:44 final size:44
Alignment explanation
Indices: 25338910--25339043 Score: 104
Period size: 44 Copynumber: 3.1 Consensus size: 44
25338900 GCCATGAGCA
25338910 TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
1 TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
** * * * * *
25338954 TGGGGTAGTG-CATTATG-TAAGGATTAATAA-A----ATAAAGA-GCA
1 T-GGGT-G-GACAAGATGTTATGG-CTAAAAACATGTCATAAACATG-T
25338995 TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
1 TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
25339039 TGGGT
1 TGGGT
25339044 AGTGCATTAT
Statistics
Matches: 63, Mismatches: 14, Indels: 26
0.61 0.14 0.25
Matches are distributed among these distances:
38 1 0.02
39 11 0.17
40 10 0.16
41 7 0.11
44 12 0.19
45 10 0.16
46 11 0.17
47 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.27, T:0.28
Consensus pattern (44 bp):
TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
Found at i:25340403 original size:47 final size:47
Alignment explanation
Indices: 25340349--25341041 Score: 981
Period size: 47 Copynumber: 14.6 Consensus size: 47
25340339 TATTTGAATA
*
25340349 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25340396 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25340445 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25340492 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25340539 AATGTGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAATG
1 AA--TGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG-ATG
25340591 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
25340638 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGACCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGG-CCAATGTGATG
*
25340688 AATGTGAACATGTGTAT-TGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-A-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
25340736 AATGTGAACA-TG--TATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25340781 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
25340828 AATGTGAACA-TGT-TATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25340874 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25340921 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
25340968 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
25341015 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
25341042 TCCCGAAGGG
Statistics
Matches: 612, Mismatches: 17, Indels: 34
0.92 0.03 0.05
Matches are distributed among these distances:
44 1 0.00
45 42 0.07
46 49 0.08
47 297 0.49
48 51 0.08
49 99 0.16
50 32 0.05
51 33 0.05
52 8 0.01
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:25340779 original size:242 final size:242
Alignment explanation
Indices: 25340343--25341041 Score: 997
Period size: 242 Copynumber: 2.9 Consensus size: 242
25340333 GAAGTATATT
* *
25340343 TGAATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TGAATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
25340408 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A-GTGTATATATGTGATAA
66 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT-TATGTGATAA
* * * * *
25340471 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
130 GGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCGAATGGCCAATGTG
* *
25340536 ATGAATGTGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
194 ATGAATGTGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATG
25340585 TGAATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TGAATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
25340650 TATATATATGTGATAAGGCCGAATGGACCAATGTGATGAATGTGAACATGTGTATTGTGTGATAA
66 TATATATATGTGATAAGGCCGAATGG-CCAATGTGATGAATGTGAACATGTGTATTATGTGATAA
25340715 GGCCGAATGGCCAATGTGATGAATGTGAACA-TG-TATATGTGATAAGGCCGAATGGCCAATGTG
130 GGCCGAATGGCCAATGTGATGAATGTGAA-AGTGATATATGTGATAAGGCCGAATGGCCAATGTG
* *
25340778 ATGAA--TGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATG
194 ATGAATGTGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATG
*
25340823 TG-ATGAATGTGAACA-TGT-TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-
1 TGAATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AG
* * ** *
25340884 TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA-TATGAGATA
64 TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATTATGTGATA
25340946 AGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
129 AGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCGAATGGCCAATGT
*
25341011 GATGGATGTG-G-AAGTGTATA-A-ATGTGATAAG
193 GATGAATGTGTGAAAGTGTATATATATGTGATAAG
25341042 TCCCGAAGGG
Statistics
Matches: 418, Mismatches: 24, Indels: 38
0.87 0.05 0.08
Matches are distributed among these distances:
231 1 0.00
232 39 0.09
233 26 0.06
234 68 0.16
235 2 0.00
236 45 0.11
237 15 0.04
238 29 0.07
240 8 0.02
241 1 0.00
242 121 0.29
243 18 0.04
244 38 0.09
245 7 0.02
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (242 bp):
TGAATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATTATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCGAATGGCCAATGTGAT
GAATGTGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATG
Found at i:25345693 original size:23 final size:24
Alignment explanation
Indices: 25345649--25345698 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
25345639 TTTATTTGAT
*
25345649 AATATTTTCTGAAATAACAGTTTAA
1 AATATTTTCTGAAATAAAAG-TTAA
25345674 AATATTTT-TG-AATAAAAGTTAA
1 AATATTTTCTGAAATAAAAGTTAA
25345696 AAT
1 AAT
25345699 TGAACAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 7 0.29
24 2 0.08
25 8 0.33
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (24 bp):
AATATTTTCTGAAATAAAAGTTAA
Found at i:25349542 original size:27 final size:26
Alignment explanation
Indices: 25349494--25349553 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
25349484 GCGAGGCTGC
*
25349494 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
25349521 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
25349547 CATATAT
1 CAGATAT
25349554 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:25356353 original size:30 final size:30
Alignment explanation
Indices: 25356317--25356377 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
25356307 GTCCTTACTC
25356317 AAAC-TTTGACAAAATTACAATTTTGCCCCT
1 AAACTTTTG-CAAAATTACAATTTTGCCCCT
* * *
25356347 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
25356377 A
1 A
25356378 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:25359291 original size:27 final size:26
Alignment explanation
Indices: 25359243--25359302 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
25359233 GCGAGGCTGC
*
25359243 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
25359270 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
25359296 CAGATAT
1 CAGATAT
25359303 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:25361132 original size:44 final size:43
Alignment explanation
Indices: 25360988--25361146 Score: 137
Period size: 44 Copynumber: 3.7 Consensus size: 43
25360978 AGCTCGTACA
* * ** * *
25360988 ATGCCAACATCCCATATGTGGTCTTACATGT-AATCAAATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
* * * *
25361031 ATGCC-ACTGTCCCAGACAGGGTCTTACAC-AAAAT-TATATGCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAAT-CG
* *
25361073 ATGCCAATGTTCCAGACATGGTCTTACACGTAAATCACAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AAATCG
*
25361117 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
25361147 ATAACACATA
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 28 0.31
44 29 0.32
45 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAATCG
Found at i:25371493 original size:50 final size:48
Alignment explanation
Indices: 25371374--25371549 Score: 168
Period size: 47 Copynumber: 3.7 Consensus size: 48
25371364 TAGGGTATAA
* * * * * *
25371374 TGCCGATGCAATGTCCTAGACATGGTATTACATTGGCTCTCACGTTAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACG-TATG
*
25371423 T--CAATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTAT--G
* * * *
25371471 TGCCGATGCCATGTCCCAGACATGGTCTTAGACTAACACATCATGTA--
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACGTATG
25371518 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
25371550 GCTTACATCT
Statistics
Matches: 108, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
44 9 0.08
45 14 0.13
46 9 0.08
47 35 0.32
48 2 0.02
49 1 0.01
50 32 0.30
51 6 0.06
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTATG
Found at i:25371558 original size:46 final size:48
Alignment explanation
Indices: 25371430--25371746 Score: 178
Period size: 46 Copynumber: 6.6 Consensus size: 48
25371420 AAGTCAATGC
*
25371430 CATGTCCCAGACATGGTCTTACACT-GACTCTCACGTATC-CGT--GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTCT-AC--ATCATGTAGGCCGATG
* *
25371479 CCATGTCCCAGACATGGTCTTAGACTA--AC-ACATCATGTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTACATCATGTAGGCCGATG
* *
25371525 CATGTCCCAGACATGTCTTACACTGGCT-TACATC-TCG-AGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCAT-GTAGGCCGATG
* * *
25371571 CATGTCCCAGACGTGTCTTACACTAGCTCTCATCTCTTACATCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-A---CAT-CAT-GT-AGGCCGATG
* * * * ** * * *
25371626 CTTGTCCCAAACATGTCTTACACTAGCACT-CGTC-TCAATGTCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCATGTAGGCCGATG
* * * * *
25371672 CCATATCCCAGACATGGTCTTACACTGGCTCT-CATAATCT-GGCCGGTG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTACATCATGTAGGCCGATG
25371720 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
25371747 ATACAAATAT
Statistics
Matches: 211, Mismatches: 36, Indels: 44
0.73 0.12 0.15
Matches are distributed among these distances:
44 12 0.06
45 18 0.09
46 65 0.31
47 25 0.12
48 23 0.11
49 3 0.01
50 26 0.12
51 2 0.01
52 1 0.00
53 2 0.01
55 34 0.16
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACATCATGTAGGCCGATG
Found at i:25371620 original size:55 final size:55
Alignment explanation
Indices: 25371551--25371661 Score: 159
Period size: 55 Copynumber: 2.0 Consensus size: 55
25371541 CTTACACTGG
* * * *
25371551 CTTACATCTCGAGGCTGATGCATGTCCCAGACGTGTCTTACACTAGCTCTCATCT
1 CTTACATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCT
* * *
25371606 CTTACATCTTGAGGCCGATGCTTGTCCCAAACATGTCTTACACTAGCACTCGTCT
1 CTTACATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCT
25371661 C
1 C
25371662 AATGTCAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.31
Consensus pattern (55 bp):
CTTACATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCT
Found at i:25373379 original size:31 final size:31
Alignment explanation
Indices: 25373341--25373419 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
25373331 TTTAACGGTT
25373341 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
25373372 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
25373403 ATTGGGCCGAACCCTTT
1 ACTGGGCCGAAGCCTTT
25373420 ACTATAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:25373502 original size:42 final size:42
Alignment explanation
Indices: 25373443--25373534 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
25373433 TGGCCCTTAG
* ** *
25373443 GCCCATTTCAATATCACATGTAATGTCAATGGATGTAAGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTAAGCAA
*
25373485 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTAAGCAA
25373527 GCCCATTT
1 GCCCATTT
25373535 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTAAGCAA
Found at i:25373747 original size:26 final size:26
Alignment explanation
Indices: 25373679--25373832 Score: 177
Period size: 26 Copynumber: 5.8 Consensus size: 26
25373669 CCTCTTTAAT
*
25373679 AACTGGGGCA-AAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
25373704 AACTGGGGCA-AAGACCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
25373729 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
25373755 AACTGAGGCATAAGTTATGCCCTTTTCGGTA
1 AACTGGGGCAT-A---A-GCCCTTTTCGGTA
**
25373786 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
25373812 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
25373833 GCACTTCCGC
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
25 30 0.27
26 53 0.48
27 2 0.02
30 2 0.02
31 23 0.21
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:25373788 original size:57 final size:52
Alignment explanation
Indices: 25373679--25373832 Score: 177
Period size: 57 Copynumber: 2.9 Consensus size: 52
25373669 CCTCTTTAAT
*
25373679 AACTGGGGCA-AAGCCTTTTTCGGTAAACTGGGGCA-AAGACCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGACCTTTTCAATA
* * **
25373729 AACTAGGGCATAAGCCCTTTTCGGTAAACTGAGGCATAAGTTATGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAG--A---CCTTTTCAATA
** *
25373786 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGACCTTTT
25373833 GCACTTCCGC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
50 9 0.10
51 23 0.26
52 9 0.10
54 1 0.01
57 45 0.52
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGACCTTTTCAATA
Found at i:25374733 original size:27 final size:27
Alignment explanation
Indices: 25374638--25374724 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
25374628 TATTCGTCAT
* *
25374638 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
25374665 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
25374692 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
25374719 TTTACC
1 TTTACC
25374725 TAATAGGGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:25374960 original size:81 final size:80
Alignment explanation
Indices: 25374866--25375100 Score: 337
Period size: 81 Copynumber: 2.9 Consensus size: 80
25374856 TTTGTAAATC
* * *
25374866 AGGGGTATTTTGGTAATTTTACAAATTGAGAGTATTTTGATAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAG-GGTATTTT
*
25374931 GGTAATTTTACAAACT
65 AGTAATTTTACAAACT
25374947 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCA-GGGTATTTT
* * *
25375012 AGCAATTTTATAGACT
65 AGTAATTTTACAAACT
* * **
25375028 A-GGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACC-AGGGTATTTT
25375092 AGTAATTTT
65 AGTAATTTT
25375101 GTAAATCGAG
Statistics
Matches: 140, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
80 65 0.46
81 74 0.53
82 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTA
GTAATTTTACAAACT
Found at i:25375113 original size:27 final size:27
Alignment explanation
Indices: 25374840--25375236 Score: 259
Period size: 27 Copynumber: 14.7 Consensus size: 27
25374830 TAGAAAGTCA
* *
25374840 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTATAAATCG
* *
25374866 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * * * *
25374894 AGAGTATTTTGATAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
25374920 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
* *
25374947 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* *
25374975 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * *
25375001 AGGGGTATTTTAGCAATTTTATAGA-CT
1 A-GGGTATTTTGGTAATTTTATAAATCG
25375028 AGGGTATTTTGGTAATTTTACT-AATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
* * *
25375055 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
25375082 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
***** * *
25375109 AGGGTAAAACAGTAATTCTATAAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
*** *
25375136 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * * *
25375163 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** *
25375190 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*
25375217 AGGGTACTTTGGTAATTTTA
1 AGGGTATTTTGGTAATTTTA
25375237 CAATTTGAGG
Statistics
Matches: 309, Mismatches: 52, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
26 24 0.08
27 282 0.91
28 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:25375113 original size:54 final size:54
Alignment explanation
Indices: 25374786--25375168 Score: 274
Period size: 54 Copynumber: 7.1 Consensus size: 54
25374776 ACAACCCAAA
** * * * * *
25374786 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTCAAG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTT-TGGTAA-TTTTACAAA-TCGAG
* * * * *
25374842 GGTATTTCT-GTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTT-TGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATCGAG
* * * * *
25374896 AGTATTTTGATAATTTCACAAACC-AGTGGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTATAAACCAAG-GGTATTTTGGTAATTTTACAAATCGA-G
* *** *
25374950 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAA-CCAGG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATCGA-G
* * * * *
25375004 GGTATTTTAGCAATTTTATAGA-CTAGGGTATTTTGGTAATTTTACTAATCGAG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATCGAG
* * **
25375057 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATCGAG
***** * * *** * *
25375111 GGTAAAACAGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATCGAG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATCGAG
25375165 GGTA
1 GGTA
25375169 AAACGATAAT
Statistics
Matches: 263, Mismatches: 56, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
53 45 0.17
54 176 0.67
55 11 0.04
56 31 0.12
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATCGAG
Found at i:25375167 original size:81 final size:81
Alignment explanation
Indices: 25375064--25375267 Score: 214
Period size: 81 Copynumber: 2.5 Consensus size: 81
25375054 GAGGGTATTT
* * * *
25375064 TGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTA
1 TGGTAATTTTATAAATCGAGGGTATTTAAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTA
25375129 TAAATCAAGGGTAAAA
66 TAAATCAAGGGTAAAA
* * * *
25375145 TGGTAATTCTATAAATCGAGGGTA--AAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTC
1 TGGTAATTTTATAAATCGAGGGTATTTAA-G-TAATTTTGTAAATCGAGGGTAAAACAGTAATTC
* ***
25375208 TATAAATCGAGGGTACTT
64 TATAAATCAAGGGTAAAA
* * * * * *
25375226 TGGTAATTTTACAATTTGAGGGCATTTCAGTAATTTGGTAAA
1 TGGTAATTTTATAAATCGAGGGTATTTAAGTAATTTTGTAAA
25375268 CTAAAGTATT
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 94 0.96
82 1 0.01
83 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (81 bp):
TGGTAATTTTATAAATCGAGGGTATTTAAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTA
TAAATCAAGGGTAAAA
Found at i:25382844 original size:18 final size:19
Alignment explanation
Indices: 25382806--25382845 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
25382796 TGATTCAAGC
*
25382806 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
25382825 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
25382843 TTT
1 TTT
25382846 ATAATTCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:25383068 original size:43 final size:46
Alignment explanation
Indices: 25383019--25383106 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
25383009 CCTGATCAGT
* *
25383019 ATACGACACAT-AAGTGCCT-G-ATACGACACATGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGGTATACGACACATAAAGTGCCTGAA
*
25383062 ATACGACACATAAAGTGCCTGGTATACGTCACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGGTATACGACACATAAAGTGCCTGA
25383107 TTGACAAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 11 0.28
44 8 0.21
45 1 0.03
46 19 0.49
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (46 bp):
ATACGACACATAAAGTGCCTGGTATACGACACATAAAGTGCCTGAA
Found at i:25383069 original size:23 final size:22
Alignment explanation
Indices: 25383019--25383106 Score: 108
Period size: 23 Copynumber: 4.0 Consensus size: 22
25383009 CCTGATCAGT
25383019 ATACGACACAT-AAGTGCCTG-
1 ATACGACACATAAAGTGCCTGA
* *
25383039 ATACGACACATGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTG-A
*
25383062 ATACGACACATAAAGTGCCTGGT
1 ATACGACACATAAAGTGCCT-GA
*
25383085 ATACGTCACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
25383107 TTGACAAAGC
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.19
21 8 0.14
22 1 0.02
23 37 0.64
24 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:25386913 original size:30 final size:30
Alignment explanation
Indices: 25386879--25386939 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25386869 TCCTTAACTC
25386879 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25386909 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25386939 A
1 A
25386940 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25391352 original size:30 final size:30
Alignment explanation
Indices: 25391318--25391378 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25391308 TCCTTAACTC
25391318 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25391348 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25391378 A
1 A
25391379 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25392842 original size:25 final size:25
Alignment explanation
Indices: 25392814--25392862 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
25392804 TTTGGCTTGA
*
25392814 CATTTACTAAGCAATATCATATATT
1 CATTTACTAAGCAATATCAAATATT
* * *
25392839 CATTTATTAGGTAATATCAAATAT
1 CATTTACTAAGCAATATCAAATAT
25392863 GCAAATTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:25394134 original size:11 final size:11
Alignment explanation
Indices: 25394118--25394142 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25394108 TCTAGTTGAT
25394118 GAAAATGAAGA
1 GAAAATGAAGA
25394129 GAAAATGAAGA
1 GAAAATGAAGA
25394140 GAA
1 GAA
25394143 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:25396225 original size:28 final size:28
Alignment explanation
Indices: 25396185--25396296 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
25396175 CATGACTGTA
* *
25396185 AATGTGATTTGGGCTTAGT-GGTCATATG
1 AATGTGA-TTGGGCTTAATGGGCCATATG
* *
25396213 AATGTGATTTGGGCTTAATGGGCCACATA
1 AATGTGA-TTGGGCTTAATGGGCCATATG
*
25396242 AATGTGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCTTAATGGGCCATATG
* * *
25396270 AAAGAGATTGGGCTTAGTGGGCCATAT
1 AATGTGATTGGGCTTAATGGGCCATAT
25396297 ATATTGGTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 59 0.82
29 13 0.18
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.31
Consensus pattern (28 bp):
AATGTGATTGGGCTTAATGGGCCATATG
Found at i:25396291 original size:56 final size:57
Alignment explanation
Indices: 25396183--25396293 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 57
25396173 AGCATGACTG
* * * * *
25396183 TAAATGTGATTTGGGCTTAGTGGTCATATGAATGTGATTTGGGCTTAATGGGCCACA
1 TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCTTAATGGGCCACA
*
25396240 TAAATGTGA-TTGGGCCTAATGGGCCATATGAAAGAGA-TTGGGCTTAGTGGGCCA
1 TAAATGTGATTTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCTTAATGGGCCA
25396294 TATATATTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 25 0.53
57 22 0.47
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.31
Consensus pattern (57 bp):
TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCTTAATGGGCCACA
Found at i:25397596 original size:10 final size:10
Alignment explanation
Indices: 25397581--25397607 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
25397571 TTTTGGCTTT
25397581 AAAAAAAAGA
1 AAAAAAAAGA
25397591 AAAAAAAAGA
1 AAAAAAAAGA
25397601 AAAAAAA
1 AAAAAAA
25397608 TATATTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:25408279 original size:34 final size:34
Alignment explanation
Indices: 25408238--25408305 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
25408228 GTCATTTCAC
25408238 CGAAAAAGTGAAATTTTGATTTCCTAATTTCATT
1 CGAAAAAGTGAAATTTTGATTTCCTAATTTCATT
25408272 CGAAAAAGTGAAATTTTGATTTCCTAATTTCATT
1 CGAAAAAGTGAAATTTTGATTTCCTAATTTCATT
25408306 TACTGTCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (34 bp):
CGAAAAAGTGAAATTTTGATTTCCTAATTTCATT
Found at i:25408759 original size:46 final size:46
Alignment explanation
Indices: 25408617--25408881 Score: 198
Period size: 46 Copynumber: 5.6 Consensus size: 46
25408607 TGTGTGCTAT
* * ** *
25408617 TGTAAGACATGTCTGGGACATGCATCGACCACACTATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGAGCCAG
* ** * *
25408663 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGAGAGCCAG
*
25408711 TGTAAGACATGTTTGGGACATGCATCGGCCTCAAGATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGAGCCAG
* * * * * *
25408757 TGTAAGACATGTCTGGGATATGCACCGG-CT-ATGA-GAGGTGTCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA-GAGCCAG
* * * **
25408801 TGTAAGACCATGTCTGGGACATGGCATCGACAC-AAACATGCTAGAGCTTG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCAAGATG--AGAGCCAG
25408851 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
25408882 ACTTGACCCC
Statistics
Matches: 172, Mismatches: 34, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 13 0.08
45 15 0.09
46 55 0.32
47 28 0.16
48 25 0.15
49 1 0.01
50 32 0.19
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGAGCCAG
Found at i:25411965 original size:39 final size:40
Alignment explanation
Indices: 25411848--25412032 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
25411838 GCTACTCGTT
*
25411848 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
25411888 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
25411928 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
25411967 CAAATGCCTTC-AGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
25412008 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25412033 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.27
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:25423124 original size:40 final size:40
Alignment explanation
Indices: 25422927--25423110 Score: 200
Period size: 40 Copynumber: 4.6 Consensus size: 40
25422917 TGAATGATGT
* * *
25422927 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA-A
* * *
25422968 -CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
25423007 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
25423045 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25423086 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25423111 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25423132 original size:79 final size:79
Alignment explanation
Indices: 25422979--25423143 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
25422969 GGACTAAGAT
* **
25422979 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
25423044 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
25423058 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
25423121 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
25423137 CCGAAGG
1 CCGAAGG
25423144 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:25427707 original size:23 final size:23
Alignment explanation
Indices: 25427663--25427707 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25427653 ATTCCATGTA
*
25427663 CATATATCATTGTCTCATATTTC
1 CATATATCATTGTATCATATTTC
25427686 CATATATCA-TGTATCATCATTT
1 CATATATCATTGTATCAT-ATTT
25427708 TCATGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (23 bp):
CATATATCATTGTATCATATTTC
Found at i:25446009 original size:22 final size:21
Alignment explanation
Indices: 25445991--25446030 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25445981 CCTGTGTGGT
25445991 CCAAGGGACACACCCGTGTGA
1 CCAAGGGACACACCCGTGTGA
*
25446012 CCCAGGGACACACCCGTGT
1 CCAAGGGACACACCCGTGT
25446031 TGGAGGCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.38, G:0.28, T:0.10
Consensus pattern (21 bp):
CCAAGGGACACACCCGTGTGA
Found at i:25456662 original size:47 final size:44
Alignment explanation
Indices: 25456594--25456713 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 44
25456584 TATTTGTGCA
* *
25456594 CTAGTGTAAGACATGTTTGGGACATGCATCGGCTACATT-ATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGG--A-ATTGACGAGAG
*
25456640 CTAGTGTAAAACCATGTCTGGGACATGGCATCGGAATTGAGACGAGAG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGAATT--GACGAGAG
25456688 CTAGTGTAAGACATGTCTGGGACATG
1 CTAGTGTAAGACATGTCTGGGACATG
25456714 AATTGGCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
45 3 0.05
46 12 0.18
47 27 0.42
48 23 0.35
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (44 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGAATTGACGAGAG
Found at i:25460238 original size:21 final size:21
Alignment explanation
Indices: 25460212--25460253 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
25460202 TTTAAGAGTA
25460212 TAATTAGGCCATGTGAAATAC
1 TAATTAGGCCATGTGAAATAC
*
25460233 TAATTAGGCCATGTTAAATAC
1 TAATTAGGCCATGTGAAATAC
25460254 CATTAAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (21 bp):
TAATTAGGCCATGTGAAATAC
Found at i:25468528 original size:40 final size:40
Alignment explanation
Indices: 25468479--25468573 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
25468469 CGGATGTAAC
*
25468479 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
25468519 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
25468559 AACCCGCACGAATGC
1 AACCCGCACGAATGC
25468574 TATGCACATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:25471916 original size:30 final size:30
Alignment explanation
Indices: 25471880--25471940 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
25471870 CCTTATACAA
*
25471880 AATGAATTAAATATCAATATAAGCCAATTT
1 AATGAATTAAATATCAACATAAGCCAATTT
25471910 AATGAATTAAATATCAACATAAGCCAATTT
1 AATGAATTAAATATCAACATAAGCCAATTT
25471940 A
1 A
25471941 CATCACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (30 bp):
AATGAATTAAATATCAACATAAGCCAATTT
Found at i:25488734 original size:40 final size:40
Alignment explanation
Indices: 25488685--25488859 Score: 296
Period size: 40 Copynumber: 4.4 Consensus size: 40
25488675 CGGATGTAAC
* *
25488685 AACCAGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
25488725 AACCCGCACGAATGCCTTTGGGACTTAACTCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
25488765 AACCCGCACGACTGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
25488805 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
25488845 AACCCGCACGAATGC
1 AACCCGCACGAATGC
25488860 TATGCACATA
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:25489311 original size:23 final size:23
Alignment explanation
Indices: 25489285--25489334 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
25489275 TTTAGCTATT
25489285 CAATTTAATACATGTATACCATA
1 CAATTTAATACATGTATACCATA
*
25489308 CAATTTAATACATGTATACCATT
1 CAATTTAATACATGTATACCATA
25489331 CAAT
1 CAAT
25489335 CTAAATCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (23 bp):
CAATTTAATACATGTATACCATA
Found at i:25491886 original size:30 final size:30
Alignment explanation
Indices: 25491850--25491910 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
25491840 CCTTATACAA
25491850 AATGAATTAAATATCAATATAAGCCAATTT
1 AATGAATTAAATATCAATATAAGCCAATTT
25491880 AATGAATTAAATATCAATATAAGCCAATTT
1 AATGAATTAAATATCAATATAAGCCAATTT
25491910 A
1 A
25491911 CATCGCTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (30 bp):
AATGAATTAAATATCAATATAAGCCAATTT
Found at i:25493169 original size:42 final size:42
Alignment explanation
Indices: 25493100--25493212 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
25493090 TATCAATGTT
* * * * *
25493100 ATATCCCGGATATGGTCTTACATGAAAT-ATCATATCGACACC
1 ATATCCCAGACATGGTCTTATACGAAATCA-CATACCGACACC
* * * **
25493142 ATGTCCCTGACATGGTCTTATACGAAATCACTTACCGATTCC
1 ATATCCCAGACATGGTCTTATACGAAATCACATACCGACACC
*
25493184 ATATCCCAGATATGGTCTTATACGAAATC
1 ATATCCCAGACATGGTCTTATACGAAATC
25493213 TCGGTAGCCC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 57 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATATCCCAGACATGGTCTTATACGAAATCACATACCGACACC
Found at i:25496190 original size:25 final size:25
Alignment explanation
Indices: 25496158--25496206 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
25496148 CTTTATTATT
*
25496158 ATCATTATGATGAATTACGTGATTA
1 ATCATTATCATGAATTACGTGATTA
* *
25496183 ATCATTATCATGAGTTATGTGATT
1 ATCATTATCATGAATTACGTGATT
25496207 GGTCCTCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (25 bp):
ATCATTATCATGAATTACGTGATTA
Found at i:25498815 original size:288 final size:288
Alignment explanation
Indices: 25498299--25498876 Score: 1093
Period size: 288 Copynumber: 2.0 Consensus size: 288
25498289 TATGTGAATG
25498299 TGCAAATGAGAGTGGTGAATGGCTTGGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
1 TGCAAATGAGAGTGGTGAATGGCTTGGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
* *
25498364 GCTATGTGTCTCAGCCGTGTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
66 GCTATGTGTCTCAGCCATCTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
25498429 CCCTAAATTGTGCATAACGTCATAAACAAAGAGTTACACGGGCTGAGGACACAGGCGTGTCCCAA
131 CCCTAAATTGTGCATAACGTCATAAACAAAGAGTTACACGGGCTGAGGACACAGGCGTGTCCCAA
*
25498494 GCCACACGGACCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTTGTAAAAGTTCCAAAAGC
196 GCCACACGGACCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTAGTAAAAGTTCCAAAAGC
**
25498559 TTTCGGTTTAGTCCCGAACCACTCCCAA
261 TTTCAATTTAGTCCCGAACCACTCCCAA
25498587 TGCAAATGAGAGTGGTGAATGGCTTGGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
1 TGCAAATGAGAGTGGTGAATGGCTTGGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
25498652 GCTATGTGTCTCAGCCATCTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
66 GCTATGTGTCTCAGCCATCTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
*
25498717 CCCTAAATTGTGCATAACGTCATAAACAAAGAGTTACACGGGCTGAGGACACAGGTGTGTCCCAA
131 CCCTAAATTGTGCATAACGTCATAAACAAAGAGTTACACGGGCTGAGGACACAGGCGTGTCCCAA
*
25498782 GCCACACGGGCCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTAGTAAAAGTTCCAAAAGC
196 GCCACACGGACCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTAGTAAAAGTTCCAAAAGC
25498847 TTTCAATTTAGTCCCGAACCACTCCCAA
261 TTTCAATTTAGTCCCGAACCACTCCCAA
25498875 TG
1 TG
25498877 TATGTTTTGG
Statistics
Matches: 283, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
288 283 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (288 bp):
TGCAAATGAGAGTGGTGAATGGCTTGGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
GCTATGTGTCTCAGCCATCTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
CCCTAAATTGTGCATAACGTCATAAACAAAGAGTTACACGGGCTGAGGACACAGGCGTGTCCCAA
GCCACACGGACCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTAGTAAAAGTTCCAAAAGC
TTTCAATTTAGTCCCGAACCACTCCCAA
Found at i:25513417 original size:40 final size:40
Alignment explanation
Indices: 25513139--25513418 Score: 384
Period size: 40 Copynumber: 7.0 Consensus size: 40
25513129 CCAAATCCAG
* * * *
25513139 TTACTAGCACAAAGCCTGCAGGACTTTAGGCCCGGATAT--A
1 TTACCAGCACTAAGCCTGCGGGA-TTTA-ACCCGGATATACA
* *
25513179 GTACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACT
1 TTACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACA
* *
25513219 TTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATA
1 TTACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACA
** * *
25513259 TTACCAGCACTAAGTATGCAGGATTTAACCCGGATATACT
1 TTACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACA
* *
25513299 TTACCAGCCCGAAGCCTGCGGGATTTAACCCGGATATACA
1 TTACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACA
*
25513339 TTACCAGCACTAAGCCTGCGGGATTTAACCTGGATATACA
1 TTACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACA
*
25513379 TTACCAGCACTAAGCCTGCGGGATCTAACCCGGATATACA
1 TTACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACA
25513419 ATATATCGAG
Statistics
Matches: 211, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 9 0.04
39 4 0.02
40 198 0.94
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
TTACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACA
Found at i:25541731 original size:35 final size:35
Alignment explanation
Indices: 25541640--25541731 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 35
25541630 ATAAGTATTT
*
25541640 TTATACATTTAATTTTCAATATAAATATGATTTTTTA
1 TTATA-ATTTAACTTT-AATATAAATATGATTTTTTA
* *
25541677 TTATAATTTAACGTAAATATAAATAT-ATTTTATTA
1 TTATAATTTAACTTTAATATAAATATGATTTT-TTA
*
25541712 TATATTATTTAA-TTTAATAT
1 T-TATAATTTAACTTTAATAT
25541732 CTAAAAATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
34 5 0.11
35 21 0.45
36 16 0.34
37 5 0.11
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (35 bp):
TTATAATTTAACTTTAATATAAATATGATTTTTTA
Found at i:25544856 original size:161 final size:161
Alignment explanation
Indices: 25544591--25544917 Score: 636
Period size: 161 Copynumber: 2.0 Consensus size: 161
25544581 ATTTACTTCC
25544591 ACAACTCTATGATTCTGATTCCAATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
1 ACAACTCTATGATTCTGATTCCAATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
25544656 CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
66 CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
25544721 AACTACTCCAAGCTTGAGTTAAATATGTGTT
131 AACTACTCCAAGCTTGAGTTAAATATGTGTT
*
25544752 ACAACTCTATGATTCTGATTCCGATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
1 ACAACTCTATGATTCTGATTCCAATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
25544817 CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
66 CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
25544882 AACTACTCCAAGCTTGAGTTAAATATGTGTT
131 AACTACTCCAAGCTTGAGTTAAATATGTGTT
*
25544913 GCAAC
1 ACAAC
25544918 AAGTGATTAG
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 164 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (161 bp):
ACAACTCTATGATTCTGATTCCAATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
AACTACTCCAAGCTTGAGTTAAATATGTGTT
Found at i:25545703 original size:18 final size:19
Alignment explanation
Indices: 25545680--25545715 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25545670 ATTGTTTTCA
25545680 TACCTT-TAGGTATATCAC
1 TACCTTGTAGGTATATCAC
25545698 TACCTTGTAGGTATATCA
1 TACCTTGTAGGTATATCA
25545716 TTAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (19 bp):
TACCTTGTAGGTATATCAC
Found at i:25546779 original size:18 final size:18
Alignment explanation
Indices: 25546756--25546791 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25546746 CCTATTGTAT
25546756 TACTGATTTATGCTTACA
1 TACTGATTTATGCTTACA
25546774 TACTGATTTATGCTTACA
1 TACTGATTTATGCTTACA
25546792 CTTGTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
TACTGATTTATGCTTACA
Found at i:25548042 original size:32 final size:32
Alignment explanation
Indices: 25548006--25548158 Score: 200
Period size: 32 Copynumber: 4.8 Consensus size: 32
25547996 ACTATGCTAG
*
25548006 TTTTTAATATGTAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * * *
25548038 TTTTTCATTTGCAAAACTAATGTATGATCTAT
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
25548070 TTTTTTATATGTGAACCTAATGTATTATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
*
25548102 TTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
*
25548134 TTTTTTATACT-TAAACCTAATGTAT
1 TTTTTTATA-TGTAAAACTAATGTAT
25548159 CATATTTTTT
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 102 0.99
33 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (32 bp):
TTTTTTATATGTAAAACTAATGTATGATCTAC
Found at i:25548115 original size:64 final size:64
Alignment explanation
Indices: 25548006--25548158 Score: 227
Period size: 64 Copynumber: 2.4 Consensus size: 64
25547996 ACTATGCTAG
* * * *
25548006 TTTTTAATATGTAAAACTAATGTATGATCTACTTTTTCATTTGCAAAACTAATGTATGATCTAT
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
* * *
25548070 TTTTTTATATGTGAACCTAATGTATTATCTACTTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
25548134 TTTTTTATACT-TAAACCTAATGTAT
1 TTTTTTATA-TGTAAACCTAATGTAT
25548159 CATATTTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
64 79 0.99
65 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (64 bp):
TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
Found at i:25551704 original size:21 final size:21
Alignment explanation
Indices: 25551678--25551730 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
25551668 CGCTGTTTCT
*
25551678 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
25551699 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
25551720 AATCTCACCGC
1 AATCTCACCGC
25551731 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:25552150 original size:47 final size:47
Alignment explanation
Indices: 25552096--25552186 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
25552086 TAAGAGTTAG
**
25552096 ATTTATATTTTATCTTTTGAAAATAAATAAAATAATTTCTATACGTA
1 ATTTATATTTTATCTTTCAAAAATAAATAAAATAATTTCTATACGTA
* *
25552143 ATTTATATTTTATCTTTCAAAAATAGATAAATTAATTTCTATAC
1 ATTTATATTTTATCTTTCAAAAATAAATAAAATAATTTCTATAC
25552187 ATCAAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (47 bp):
ATTTATATTTTATCTTTCAAAAATAAATAAAATAATTTCTATACGTA
Found at i:25558537 original size:19 final size:19
Alignment explanation
Indices: 25558510--25558547 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25558500 GCGCAAAAAT
25558510 GCTCCAATATACCTACTAA
1 GCTCCAATATACCTACTAA
*
25558529 GCTCTAATATACCTACTAA
1 GCTCCAATATACCTACTAA
25558548 CAAATGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
GCTCCAATATACCTACTAA
Found at i:25563787 original size:20 final size:20
Alignment explanation
Indices: 25563764--25563802 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25563754 ATTAAATTTA
25563764 TTTTA-AATAAATAAATAATG
1 TTTTAGAATAAA-AAATAATG
*
25563784 TTTTAGAATAGAAAATAAT
1 TTTTAGAATAAAAAATAAT
25563803 TTATTGGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
TTTTAGAATAAAAAATAATG
Found at i:25568088 original size:43 final size:42
Alignment explanation
Indices: 25568012--25568130 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
25568002 TATACCAATG
* * * * **
25568012 CCATATCCTAGATATGGTCTAACATGGGATCTCATAACGATA
1 CCATAACCCAGATATGGTCTTACACGTAATCTCATAACGATA
* * * * *
25568054 CCAATAGCCCAGCTGTGGTCTTACACG-AAGTCTCATATCGATG
1 CC-ATAACCCAGATATGGTCTTACACGTAA-TCTCATAACGATA
25568097 CCATAACCCAGATATGGTCTTACACGTAATCTCA
1 CCATAACCCAGATATGGTCTTACACGTAATCTCA
25568131 AATAACCCTA
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
CCATAACCCAGATATGGTCTTACACGTAATCTCATAACGATA
Found at i:25577154 original size:35 final size:35
Alignment explanation
Indices: 25577115--25577186 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
25577105 AAATTAAGTC
25577115 AACATATACATTTGCAAGACATTACAAATAACCAA
1 AACATATACATTTGCAAGACATTACAAATAACCAA
25577150 AACATATACATTTGCAAGACATTACAAATAACCAA
1 AACATATACATTTGCAAGACATTACAAATAACCAA
25577185 AA
1 AA
25577187 TCATTATCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (35 bp):
AACATATACATTTGCAAGACATTACAAATAACCAA
Found at i:25581699 original size:46 final size:46
Alignment explanation
Indices: 25581639--25581911 Score: 404
Period size: 46 Copynumber: 5.9 Consensus size: 46
25581629 TTTGACATGA
* * * * * *
25581639 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGT
** * *
25581685 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
**
25581731 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
*
25581777 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
25581823 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
*
25581869 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
25581912 GAGAGCACAC
Statistics
Matches: 213, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 209 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:25584060 original size:11 final size:11
Alignment explanation
Indices: 25584044--25584088 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
25584034 CTTTATATAC
*
25584044 TAATAAAATAA
1 TAATAAAATAT
25584055 TAATAAAATATCT
1 TAATAAAATA--T
*
25584068 TATTAAAATAT
1 TAATAAAATAT
25584079 TAATAAAATA
1 TAATAAAATA
25584089 CTATTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 20 0.69
13 9 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:25584129 original size:31 final size:31
Alignment explanation
Indices: 25584059--25584129 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
25584049 AAATAATAAT
*
25584059 AAAATATCTTATTAAAATATTAATAAAATAC
1 AAAATATCTAATTAAAATATTAATAAAATAC
* **
25584090 TATTTATCTAATT-AAATAATT-ATAAAATATC
1 AAAATATCTAATTAAAAT-ATTAATAAAATA-C
25584121 AAAATATCT
1 AAAATATCT
25584130 CTAGCATCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (31 bp):
AAAATATCTAATTAAAATATTAATAAAATAC
Found at i:25597794 original size:6 final size:6
Alignment explanation
Indices: 25597783--25597830 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
25597773 TGATAATTTT
*
25597783 ATATTA ATATTA AT-TAAA ATTATTA ATATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATAT-TA A-TATTA ATATTA ATATTA ATATTA ATATT
25597831 TAAAAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 1 0.03
6 32 0.86
7 3 0.08
8 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:25603138 original size:463 final size:467
Alignment explanation
Indices: 25602205--25603180 Score: 1166
Period size: 463 Copynumber: 2.1 Consensus size: 467
25602195 CAGAGTGAGG
* * *
25602205 TTTCATTGCTATAGAGCATGTGATTAAGTTGCT-AGAAGTAGGAGTTTGCTATTATGAAGTAGGA
1 TTTCATTGCTATAGAGCATGTGATTGAGTTGCTCA-AAGTAGGAGTTTGCCATTATGAAGTACGA
* * *** * *
25602269 ATTCACATTATTCAGAGAAAGATTTCATTGCTTGGGTGGGAGCAAGACATTGGGTTAGGTGGAGG
65 ATTCACATTACTCAGAAAAAGATTTCACCACTTGGGTGGGAGCAAGACATTGGGCTAGGTGGAGA
* ** * * *
25602334 AAGATTTTATTGCTCTGGAGTAGGAGTTCGGGTTTAGCAGAGTAAGAGTTCAAGCTATGCCGTGT
130 AAGATTTTATTGCTATGGAGTAAAAGTTCGAGTTTAGCAGAATAAGAGTTCAAACTATGCCGTGT
* * * *
25602399 AAGATTTCACTAATAAGAAGGAGTTTGGGTTATAAAGAGTAGGATTTCATCATTTTAGAGCAAGA
195 AAGATTTCACT-ATAAGAAGGAGTTTGGGTTATAAAGAGTAAGATTTCACCACTGTAGAGCAAGA
25602464 GTTGAAGATGCTTAGAGTAAGATTTAATTGTTATAGATCAGAAGTTTGCATTGCTCAAAGTAGGA
259 GTTGAAGATGCTTAGAGTAAGATTTAATTGTTATAGATCAGAAGTTTGCATTGCTCAAAGTAGGA
** * * * *
25602529 TTTATGGAGCAAGAGTTTAGGCTATACAGAACAACATTTCACTATTATAGACCTATAATTTGGGT
324 TTTATGGAGCAAGAACTAAGGCTACACAGAACAACATTTCACTATTATAGACCTAGAATTTAGGT
** * * * * **
25602594 TGCATGAAGCAAGAGTTTGGGCTAGGCGAACTAGAATCTCACTGTTATGAAGCAAGAGTTTGGGA
389 TGCATGAAGCAAGAGTTTGGGCTAAACAAACTAGAATCTCACTGTTATAAAGAAAAAGTTAAGGA
*
25602659 TGTGCAGAGCAAGA
454 TGTGCAGAACAAGA
* * * *
25602673 TTTCATTGCTATAGAGCATCTAATTGAGTTGCTCAAAGTAGGGGTTTGCCATTATTAAGTACGAG
1 TTTCATTGCTATAGAGCATGTGATTGAGTTGCTCAAAGTAGGAGTTTGCCATTATGAAGTACGA-
* * * * *
25602738 ATTGA-ATTACTCA-AAAAAGGATTTCACCATTTGGGTGGGAGTAAGACCTTGGGCTGGGTGGAG
65 ATTCACATTACTCAGAAAAA-GATTTCACCACTTGGGTGGGAGCAAGACATTGGGCTAGGTGGAG
* * * *
25602801 AAAGATTTTATTTCTATGGAGTAAAAGTTCGAGTTTAGCAGAATAGGTGTTCAAACTATGTCGTG
129 AAAGATTTTATTGCTATGGAGTAAAAGTTCGAGTTTAGCAGAATAAGAGTTCAAACTATGCCGTG
* ** * * * *
25602866 TAAGATTTCA-T-T-AG-AGGATTTTGGGTTATGGAGAGTAAGATTTTACCACTGTGGAGTAGGA
194 TAAGATTTCACTATAAGAAGGAGTTTGGGTTATAAAGAGTAAGATTTCACCACTGTAGAGCAAGA
* * * *
25602927 GTTGAAGATGCTTGGAGTAAGATTTATTTGTTATGGAGT-AGAAGTTTGCATTGCT-AGAATTAG
259 GTTGAAGATGCTTAGAGTAAGATTTAATTGTTATAGA-TCAGAAGTTTGCATTGCTCA-AAGTAG
* ** * *
25602990 GATTTATGGAGCAAGAACTAAGGCTGCACAGTGCAAGATTTCACTATTATGGACCTAGAATTTAG
322 GATTTATGGAGCAAGAACTAAGGCTACACAGAACAACATTTCACTATTATAGACCTAGAATTTAG
* *
25603055 GTTG-ATTGAAGCAAGAGTTTGGGCTAAACAAAGTATG-ATCTCATTGTTATAAAGAAAAAGTTA
387 GTTGCA-TGAAGCAAGAGTTTGGGCTAAACAAACTA-GAATCTCACTGTTATAAAGAAAAAGTTA
*
25603118 AGGATGTGTC-GAATAAGA
450 AGGATGTG-CAGAACAAGA
* *
25603136 TTTCATTGCTATAGAGCATGTGATTGAATTGCTCGAAGTAGGAGT
1 TTTCATTGCTATAGAGCATGTGATTGAGTTGCTCAAAGTAGGAGT
25603181 GTAACAGCTC
Statistics
Matches: 428, Mismatches: 72, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
462 2 0.00
463 248 0.58
464 5 0.01
465 1 0.00
467 5 0.01
468 162 0.38
469 5 0.01
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (467 bp):
TTTCATTGCTATAGAGCATGTGATTGAGTTGCTCAAAGTAGGAGTTTGCCATTATGAAGTACGAA
TTCACATTACTCAGAAAAAGATTTCACCACTTGGGTGGGAGCAAGACATTGGGCTAGGTGGAGAA
AGATTTTATTGCTATGGAGTAAAAGTTCGAGTTTAGCAGAATAAGAGTTCAAACTATGCCGTGTA
AGATTTCACTATAAGAAGGAGTTTGGGTTATAAAGAGTAAGATTTCACCACTGTAGAGCAAGAGT
TGAAGATGCTTAGAGTAAGATTTAATTGTTATAGATCAGAAGTTTGCATTGCTCAAAGTAGGATT
TATGGAGCAAGAACTAAGGCTACACAGAACAACATTTCACTATTATAGACCTAGAATTTAGGTTG
CATGAAGCAAGAGTTTGGGCTAAACAAACTAGAATCTCACTGTTATAAAGAAAAAGTTAAGGATG
TGCAGAACAAGA
Found at i:25604461 original size:48 final size:48
Alignment explanation
Indices: 25604389--25604709 Score: 263
Period size: 48 Copynumber: 6.7 Consensus size: 48
25604379 TATGTGCGCT
* *
25604389 AGTGTAAGACCCTGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * *
25604437 AGTGTAAGACCATGTTTGGAACATGGCATCGGCGATG-TCGTGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGAT-ATGAGAGCC
* * ** * * * *
25604485 AGTGTAAGACCATGTCTAGGACATGGCATC-AACATTGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * *
25604533 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA-TATGAGAGCC
* * * * * ** *
25604581 AGTGTAAAACCATGTCTGGGACATGGCATCAG-CATTGAGACAAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * * * * * * *
25604629 AGTGTAAGACCATGTCTCGGACATGGCATCAGTCTCAACATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* *
25604677 AGTGTAAGACCATGTTTGGAACATAGCATCGGC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
25604710 AATTCACCCT
Statistics
Matches: 219, Mismatches: 46, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
47 5 0.02
48 209 0.95
49 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:25604557 original size:96 final size:96
Alignment explanation
Indices: 25604389--25604706 Score: 341
Period size: 96 Copynumber: 3.3 Consensus size: 96
25604379 TATGTGCGCT
* ** * * *
25604389 AGTGTAAGACCCTGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-AACATTGATATGAGAGCTAGTGTAAGACCATGTC
* * ** *
25604453 TGGAACATGGCATCGGCGATGTCGTGAGAGCC
65 TGGGACATGGCATCGGCCACATCATGAGAGCC
* * *
25604485 AGTGTAAGACCATGTCTAGGACATGGCATCAACATTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCTAGTGTAAGACCATGTCT
* * *
25604550 GGGACATGGCATTGGCCACATTATGAGAGCT
66 GGGACATGGCATCGGCCACATCATGAGAGCC
* * * **
25604581 AGTGTAAAACCATGTCTGGGACATGGCATCAGCATTGAGACAAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCTAGTGTAAGACCATGTCT
* * * * * *
25604646 CGGACATGGCATCAGTCTCAACATGTGAGCC
66 GGGACATGGCATCGGCCACATCATGAGAGCC
* * *
25604677 AGTGTAAGACCATGTTTGGAACATAGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
25604707 GGCAATTCAC
Statistics
Matches: 183, Mismatches: 38, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
95 2 0.01
96 181 0.99
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCTAGTGTAAGACCATGTCT
GGGACATGGCATCGGCCACATCATGAGAGCC
Found at i:25604636 original size:144 final size:144
Alignment explanation
Indices: 25604376--25604709 Score: 417
Period size: 144 Copynumber: 2.3 Consensus size: 144
25604366 GACATTTAGG
*
25604376 TGATATGTGCGCTAGTGTAAGACCCTGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* * * *
25604441 TAAGACCATGTTTGGAACATGGCATCGGCGATGTCGTGAGAGCCAGTGTAAGACCATGTCTAGGA
66 TAAAACCATGTCTGGAACATGGCATCAGCGATGTCGAGAGAGCCAGTGTAAGACCATGTCTAGGA
25604506 CATGGCATCAACAT
131 CATGGCATCAACAT
* *
25604520 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGCTAGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCAGT
* *
25604584 GTAAAACCATGTCTGGGACATGGCATCAGC-AT-T-GAGACAAGAGCTAGTGTAAGACCATGTCT
65 GTAAAACCATGTCTGGAACATGGCATCAGCGATGTCGAG---AGAGCCAGTGTAAGACCATGTCT
* *
25604646 CGGACATGGCATCAGTC-T
127 AGGACATGGCATCA-ACAT
** * * * * * *
25604664 CAACATGTGAGCCAGTGTAAGACCATGTTTGGAACATAGCATCGGC
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
25604710 AATTCACCCT
Statistics
Matches: 165, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
141 2 0.01
142 1 0.01
143 3 0.02
144 158 0.96
145 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
TAAAACCATGTCTGGAACATGGCATCAGCGATGTCGAGAGAGCCAGTGTAAGACCATGTCTAGGA
CATGGCATCAACAT
Found at i:25610493 original size:79 final size:81
Alignment explanation
Indices: 25610369--25610552 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
25610359 GCTACTCGTT
* *
25610369 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* *
25610432 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
25610448 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
25610511 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
25610528 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25610553 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 48 0.53
80 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:25610552 original size:40 final size:40
Alignment explanation
Indices: 25610350--25610552 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
25610340 CGGAATTTAA
** *
25610350 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25610390 CCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
25610429 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25610468 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
25610508 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25610548 CCGGA
1 CCGGA
25610553 CATCATTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 68 0.49
40 57 0.41
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25618433 original size:79 final size:82
Alignment explanation
Indices: 25618322--25618506 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
25618312 GCTACTCGTT
* * *
25618322 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
25618385 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
25618402 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
25618465 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
25618482 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25618507 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:25618506 original size:40 final size:40
Alignment explanation
Indices: 25618303--25618506 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
25618293 CGGAATTTAA
** *
25618303 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
25618343 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
25618383 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25618422 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
25618462 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25618502 CCGGA
1 CCGGA
25618507 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25623565 original size:15 final size:14
Alignment explanation
Indices: 25623546--25623586 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 14
25623536 GTTTTCTTGT
25623546 TTTGGATTTCTTTA
1 TTTGGATTTCTTTA
25623560 TGTTGGATTTCTTTA
1 T-TTGGATTTCTTTA
25623575 TTCTGGATTTCT
1 TT-TGGATTTCT
25623587 CTGTTATGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.61
Consensus pattern (14 bp):
TTTGGATTTCTTTA
Found at i:25625784 original size:8 final size:8
Alignment explanation
Indices: 25625770--25625799 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25625760 TAGATCGGGT
25625770 GAAAATTG
1 GAAAATTG
*
25625778 AAAAATTG
1 GAAAATTG
25625786 GAAAATTG
1 GAAAATTG
25625794 GAAAAT
1 GAAAAT
25625800 GTGATATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (8 bp):
GAAAATTG
Found at i:25626365 original size:50 final size:50
Alignment explanation
Indices: 25626292--25626527 Score: 178
Period size: 50 Copynumber: 4.7 Consensus size: 50
25626282 TAAGATGGTT
** * *
25626292 TTAGGTCATGTGTGGAGCACTAAGTGCAGGCTACTACTTGTACTAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACTAGATAG
* * * * * *
25626342 TTAGGTCGCATGTGTAGTTCTAAGTGCAGGCTACTA-TGCGTACTCGAAAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACT-TGTACTAG-ATAG
* * * * * *
25626393 TTCA-ATCACGTGTGTAATACTAAGTACAGGCTACTACATGCA-TCAGAT-G
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACT-AGATAG
* * * *
25626442 ATTAGGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTAC-AGGATTG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACTA-GATAG
* *
25626493 TT-GGTCGCATGTGTAGTACTAAGTACAGGCTACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
25626528 TGCGTACCAG
Statistics
Matches: 144, Mismatches: 32, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
49 32 0.22
50 77 0.53
51 34 0.24
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACTAGATAG
Found at i:25631118 original size:47 final size:47
Alignment explanation
Indices: 25631027--25631143 Score: 207
Period size: 47 Copynumber: 2.4 Consensus size: 47
25631017 ATTTTGTTAC
*
25631027 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGACCGAATGGCCAATGT
25631076 GATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGT
25631123 GATGAATGTGAAAGTGTATGT
1 GATGAATGTGAAAGTGTATGT
25631144 GATGAATGTG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 47 0.70
49 20 0.30
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGT
Found at i:25631145 original size:21 final size:21
Alignment explanation
Indices: 25631119--25631164 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
25631109 CGAATGGCCA
25631119 ATGTGATGAATGTGAAAGTGT
1 ATGTGATGAATGTGAAAGTGT
25631140 ATGTGATGAATGTGAAAGTGT
1 ATGTGATGAATGTGAAAGTGT
25631161 ATGT
1 ATGT
25631165 ATGTGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (21 bp):
ATGTGATGAATGTGAAAGTGT
Found at i:25631149 original size:68 final size:68
Alignment explanation
Indices: 25631072--25631211 Score: 271
Period size: 68 Copynumber: 2.1 Consensus size: 68
25631062 CGAATGGCCA
25631072 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
25631137 TGT
66 TGT
*
25631140 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
25631205 TGT
66 TGT
25631208 ATGT
1 ATGT
25631212 ATATGTGATA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.33, C:0.06, G:0.31, T:0.30
Consensus pattern (68 bp):
ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
TGT
Found at i:25631193 original size:47 final size:47
Alignment explanation
Indices: 25631140--25631490 Score: 593
Period size: 47 Copynumber: 7.5 Consensus size: 47
25631130 GTGAAAGTGT
25631140 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
25631187 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCA
25631236 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
*
25631283 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
25631330 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
25631377 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCC-
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
* * *
25631423 --GTGATGAATGTGAAAGTGTATATATATGATAAGGCCGAATGGTCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
* *
25631468 ATGGGATGGAA-GTGGAAGTGTAT
1 ATGTGAT-GAATGTGAAAGTGTAT
25631491 AACTGTGATA
Statistics
Matches: 291, Mismatches: 7, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
44 41 0.14
47 200 0.69
48 3 0.01
49 47 0.16
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
Found at i:25631237 original size:117 final size:116
Alignment explanation
Indices: 25631027--25631260 Score: 425
Period size: 117 Copynumber: 2.0 Consensus size: 116
25631017 ATTTTGTTAC
25631027 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATG-ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
25631092 TATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
65 TATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
25631144 GATGAATGTGAAAGTGTATG-TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
1 GATGAATGTGAAAGTGTATGATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
*
25631208 ATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
66 ATG--TATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
25631261 ATGTGATAAG
Statistics
Matches: 114, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
115 47 0.41
117 67 0.59
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (116 bp):
GATGAATGTGAAAGTGTATGATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
ATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
Found at i:25631369 original size:190 final size:185
Alignment explanation
Indices: 25631140--25631490 Score: 596
Period size: 190 Copynumber: 1.9 Consensus size: 185
25631130 GTGAAAGTGT
25631140 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
25631205 TGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAA
66 TGTATG--TATGTGATAAGGCCGAATGGCC---GTGATGAATGTGAAAGTGTATATATATGATAA
*
25631270 GGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGACCA
126 GGCCGAATGGCCAATGGGATGGAA-GTGAAAGTGTATGTATGTGATAAGGCCGAATGACCA
25631330 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
25631395 TGTATGTATGTGATAAGGCCGAATGGCCGTGATGAATGTGAAAGTGTATATATATGATAAGGCCG
66 TGTATGTATGTGATAAGGCCGAATGGCCGTGATGAATGTGAAAGTGTATATATATGATAAGGCCG
* *
25631460 AATGGTCAATGGGATGGAAGTGGAAGTGTAT
131 AATGGCCAATGGGATGGAAGTGAAAGTGTAT
25631491 AACTGTGATA
Statistics
Matches: 155, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
185 59 0.38
186 3 0.02
188 22 0.14
190 71 0.46
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (185 bp):
ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATGTATGTGATAAGGCCGAATGGCCGTGATGAATGTGAAAGTGTATATATATGATAAGGCCG
AATGGCCAATGGGATGGAAGTGAAAGTGTATGTATGTGATAAGGCCGAATGACCA
Found at i:25635890 original size:18 final size:18
Alignment explanation
Indices: 25635867--25635901 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25635857 GACTTGATCA
*
25635867 AATTCAAAACTTTTTCTT
1 AATTCAAAACCTTTTCTT
25635885 AATTCAAAACCTTTTCT
1 AATTCAAAACCTTTTCT
25635902 AACTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTCAAAACCTTTTCTT
Found at i:25648056 original size:49 final size:49
Alignment explanation
Indices: 25648003--25648127 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
25647993 AAGTTGATGA
*
25648003 CATGTCCCAAACAAGTCTTACACTGACT-TC-CATACATC-GAGGGCAATGC
1 CATGTCCCAGACAAGTCTTACACTGACTCTCAC-T-CATCTG-GGGCAATGC
* * * * * *
25648052 CATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGC
1 CATGTCCCAGACAAGTCTTACACTGACTCTCACTCATCTGGGGCAATGC
25648101 CATGTCCCAGACAAGTCTTACACTGAC
1 CATGTCCCAGACAAGTCTTACACTGAC
25648128 ACACCTCAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 59 0.92
50 4 0.06
51 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (49 bp):
CATGTCCCAGACAAGTCTTACACTGACTCTCACTCATCTGGGGCAATGC
Found at i:25648168 original size:93 final size:93
Alignment explanation
Indices: 25647948--25648217 Score: 231
Period size: 93 Copynumber: 2.8 Consensus size: 93
25647938 GGGTACGATA
* * * *
25647948 CCGACGCCATGTTTCAAACATGATCTTACACTGGCTCTCACATCTAAGTTGATGACATGTCCCAA
1 CCGATGCCATGTCTCAGACA-GATCTTACACTGGCTCTCACATCTAAGTCGATGACATGTCCCAA
* *
25648013 ACAAGTCTTACACTGACTTCCATACATCGAGG
65 ACAAGTCTTACACTGA---CCACACATCGAAG
* * * * ** *
25648045 GCAATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCA
1 CCGATGCCATGTCTCAGACAGATCTTACACTGGCTCTCAC--ATCTAAGTCGATGACATGTCCCA
* *
25648110 GACAAGTCTTACACTGA-CACACCTC-AAG
64 AACAAGTCTTACACTGACCACACATCGAAG
* * * * * *
25648138 CCGATGCCATGTCTCAGACAGTTCTTACACTAGCT-TGCATATCTTAGGGCCGATGTCATGTCCC
1 CCGATGCCATGTCTCAGACAGATCTTACACTGGCTCT-CACATC-TA-AGTCGATGACATGTCCC
* *
25648202 AAATAGGTCTTACACT
63 AAACAAGTCTTACACT
25648218 AGCTCTCATC
Statistics
Matches: 140, Mismatches: 28, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
91 3 0.02
92 2 0.01
93 61 0.44
94 6 0.04
96 19 0.14
97 14 0.10
98 35 0.25
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (93 bp):
CCGATGCCATGTCTCAGACAGATCTTACACTGGCTCTCACATCTAAGTCGATGACATGTCCCAAA
CAAGTCTTACACTGACCACACATCGAAG
Found at i:25652184 original size:17 final size:16
Alignment explanation
Indices: 25652145--25652188 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
25652135 ATAAATTCTT
* *
25652145 AATTTTATTATTTTTAG
1 AATTTTAAT-TTTTTAA
25652162 AATTTTAATTTTTTAA
1 AATTTTAATTTTTTAA
25652178 AATTTTTAATT
1 AA-TTTTAATT
25652189 CCTTTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
AATTTTAATTTTTTAA
Found at i:25659233 original size:41 final size:41
Alignment explanation
Indices: 25659187--25659274 Score: 176
Period size: 41 Copynumber: 2.1 Consensus size: 41
25659177 ATCTGTACTG
25659187 TACATATATATATATATTCACAGATTTTAGTTATAGTTACA
1 TACATATATATATATATTCACAGATTTTAGTTATAGTTACA
25659228 TACATATATATATATATTCACAGATTTTAGTTATAGTTACA
1 TACATATATATATATATTCACAGATTTTAGTTATAGTTACA
25659269 TACATA
1 TACATA
25659275 CATGCATCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (41 bp):
TACATATATATATATATTCACAGATTTTAGTTATAGTTACA
Found at i:25664049 original size:25 final size:25
Alignment explanation
Indices: 25664001--25664049 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
25663991 TAATATATAA
* **
25664001 TTTATAAATATATAAAAATTCATAG
1 TTTATAAAAATATAAAAACACATAG
*
25664026 TTTATAAAAATATATAAACACATA
1 TTTATAAAAATATAAAAACACATA
25664050 AAATTACTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (25 bp):
TTTATAAAAATATAAAAACACATAG
Found at i:25665565 original size:8 final size:8
Alignment explanation
Indices: 25665552--25665592 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
25665542 TATTTAAGAA
25665552 ATTATTAT
1 ATTATTAT
25665560 ATTATTAT
1 ATTATTAT
*
25665568 ATTGTTAT
1 ATTATTAT
25665576 ATTATTAT
1 ATTATTAT
*
25665584 TTTATTAT
1 ATTATTAT
25665592 A
1 A
25665593 ATTAAAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (8 bp):
ATTATTAT
Found at i:25667229 original size:2 final size:2
Alignment explanation
Indices: 25667222--25667255 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
25667212 TTGGTTTGCT
*
25667222 TA TA TA TA TA TA TA TA TA TA TC T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25667256 GTTAGGGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:25668466 original size:37 final size:32
Alignment explanation
Indices: 25668387--25668450 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
25668377 TAAATGATAT
*
25668387 TTAAATAATTGAATATAATGATACATAAAATA
1 TTAAATAATTTAATATAATGATACATAAAATA
*
25668419 TTAAATAATTTAATATAATGATATATAAAATA
1 TTAAATAATTTAATATAATGATACATAAAATA
25668451 AAAATTAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (32 bp):
TTAAATAATTTAATATAATGATACATAAAATA
Found at i:25668613 original size:16 final size:15
Alignment explanation
Indices: 25668592--25668681 Score: 72
Period size: 16 Copynumber: 5.5 Consensus size: 15
25668582 ATTAATTTTA
25668592 AAAAATAAAAATATTT
1 AAAAATAAAAA-ATTT
* ***
25668608 AAAAATATATTTTTT
1 AAAAATAAAAAATTT
25668623 AAAAAATAAAAAATTAAT
1 -AAAAATAAAAAATT--T
25668641 AAAATTATTAAAAAATTT
1 AAAA--A-TAAAAAATTT
25668659 AAAAATATAAAAATTT
1 AAAAATA-AAAAATTT
25668675 AAAAATA
1 AAAAATA
25668682 CATAATTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
15 5 0.08
16 34 0.58
17 4 0.07
18 6 0.10
19 1 0.02
20 9 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATAAAAAATTT
Found at i:25668645 original size:32 final size:31
Alignment explanation
Indices: 25668587--25668649 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
25668577 TTAGTATTAA
*
25668587 TTTTAAAAAATAAAAATATTTAAAAATATATT
1 TTTTAAAAAATAAAAATATTAAAAAAT-TATT
25668619 TTTTAAAAAATAAAAA-ATTAATAAAATTATT
1 TTTTAAAAAATAAAAATATTAA-AAAATTATT
25668650 AAAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 8 0.28
32 21 0.72
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTAAAAAATAAAAATATTAAAAAATTATT
Found at i:25668662 original size:27 final size:25
Alignment explanation
Indices: 25668620--25668679 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
25668610 AAATATATTT
* *
25668620 TTTAAAAAATAAAAAATTAATAAAAT
1 TTTAAAAAATAAAAAAAT-ATAAAAA
**
25668646 TATTAAAAAATTTAAAAATATAAAAA
1 T-TTAAAAAATAAAAAAATATAAAAA
25668672 TTTAAAAA
1 TTTAAAAA
25668680 TACATAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 7 0.24
26 8 0.28
27 14 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
TTTAAAAAATAAAAAAATATAAAAA
Found at i:25668664 original size:8 final size:8
Alignment explanation
Indices: 25668651--25668680 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25668641 AAAATTATTA
25668651 AAAAATTT
1 AAAAATTT
*
25668659 AAAAATAT
1 AAAAATTT
25668667 AAAAATTT
1 AAAAATTT
25668675 AAAAAT
1 AAAAAT
25668681 ACATAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAAATTT
Found at i:25671503 original size:43 final size:43
Alignment explanation
Indices: 25671455--25671625 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
25671445 ATTACCGAGA
*
25671455 TGTGATTACATGTAAGACCATGTCCGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
25671498 TGTGATTACGTGTAAGACCATGTCTAGGACATTGACATCAT-TA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * * * *
25671541 TATGATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
25671583 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
25671626 GAGGTTTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 92 0.89
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:25684642 original size:21 final size:21
Alignment explanation
Indices: 25684618--25684667 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
25684608 CTTAAAGTGG
*
25684618 AGGCAACAGCGAGGG-AAGCAA
1 AGGCAACAGCAAGGGCAA-CAA
*
25684639 AGGCAGCAGCAAGGGCAACAA
1 AGGCAACAGCAAGGGCAACAA
*
25684660 AGACAACA
1 AGGCAACA
25684668 AGAAAATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.46, C:0.22, G:0.32, T:0.00
Consensus pattern (21 bp):
AGGCAACAGCAAGGGCAACAA
Found at i:25686408 original size:29 final size:28
Alignment explanation
Indices: 25686369--25686423 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
25686359 TATATTTTTC
*
25686369 AAAAAAATATAAATAT-TATAAAAATTCT
1 AAAAAAATATAAAAATGT-TAAAAATTCT
25686397 AAAAAATATATAAAAATGTTAAAAATT
1 AAAAAA-ATATAAAAATGTTAAAAATT
25686424 AAAAATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 6 0.25
29 17 0.71
30 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAAAAATATAAAAATGTTAAAAATTCT
Found at i:25686419 original size:20 final size:21
Alignment explanation
Indices: 25686379--25686421 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
25686369 AAAAAAATAT
25686379 AAATATTATAAAAATTCTAAA
1 AAATATTATAAAAATTCTAAA
25686400 AAATA-TATAAAAATGT-TAAA
1 AAATATTATAAAAAT-TCTAAA
25686420 AA
1 AA
25686422 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATATTATAAAAATTCTAAA
Found at i:25686721 original size:28 final size:28
Alignment explanation
Indices: 25686682--25686735 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
25686672 CTCTCTTTCT
25686682 AAAATTAACCTAATCCAATAAATTTTGA
1 AAAATTAACCTAATCCAATAAATTTTGA
* * *
25686710 AAAATTGACCTAATCTAATAAGTTTT
1 AAAATTAACCTAATCCAATAAATTTT
25686736 TTTTGGGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (28 bp):
AAAATTAACCTAATCCAATAAATTTTGA
Found at i:25691080 original size:60 final size:59
Alignment explanation
Indices: 25690948--25691093 Score: 161
Period size: 60 Copynumber: 2.4 Consensus size: 59
25690938 CTTTAAGGTT
*
25690948 TTCAAGGATTAACTTGGATAAAAAAAAGTTGAACTCCCAATGAGGAAATATTGGTCAAG
1 TTCAAGGCTTAACTTGGATAAAAAAAAGTTGAACTCCCAATGAGGAAATATTGGTCAAG
* * * *
25691007 TTCAAGGCCTAACTTGGATAAAAGAAAAGTTTAGA-TCCCAATGTGGAAATAATT-TTCAAG
1 TTCAAGGCTTAACTTGGATAAAA-AAAAGTTGA-ACTCCCAATGAGGAAAT-ATTGGTCAAG
* * * *
25691067 TTTAGGGTTTAACTTAGGTTAAAAAAA
1 TTCAAGGCTTAACTT-GGATAAAAAAA
25691094 TTTAGGCCCC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 21 0.29
60 41 0.56
61 11 0.15
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (59 bp):
TTCAAGGCTTAACTTGGATAAAAAAAAGTTGAACTCCCAATGAGGAAATATTGGTCAAG
Found at i:25693670 original size:53 final size:53
Alignment explanation
Indices: 25693605--25693721 Score: 198
Period size: 53 Copynumber: 2.2 Consensus size: 53
25693595 CTTGATACAC
*
25693605 GCCTGTGTCTATGGCTCGTGTTCCTCACACGGCCATGACACACTCGTGTCCTA
1 GCCTGTGTCTATGGCCCGTGTTCCTCACACGGCCATGACACACTCGTGTCCTA
* *
25693658 GCCTGTGTCTATGGCCCGTGTTCCTCACACGGTCATGACACGCTCGTGTCCTA
1 GCCTGTGTCTATGGCCCGTGTTCCTCACACGGCCATGACACACTCGTGTCCTA
*
25693711 GCCCGTGTCTA
1 GCCTGTGTCTA
25693722 AAAACCTTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.14, C:0.34, G:0.24, T:0.28
Consensus pattern (53 bp):
GCCTGTGTCTATGGCCCGTGTTCCTCACACGGCCATGACACACTCGTGTCCTA
Found at i:25696511 original size:52 final size:52
Alignment explanation
Indices: 25696433--25696536 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
25696423 GGAGTTACAA
25696433 GTTAAGTTTTAGAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
1 GTTAAGTTTTAGAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
*
25696485 GTTAAGTTTTATAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
1 GTTAAGTTTTAGAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
25696537 TGCATGCTTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (52 bp):
GTTAAGTTTTAGAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
Found at i:25701441 original size:5 final size:5
Alignment explanation
Indices: 25701431--25701455 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25701421 TATTGGGGTT
25701431 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
25701456 AAATGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Done.