Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8461613
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 85630 characters in sequence are not A, C, G, or T
File 12 of 18
Found at i:5581982 original size:45 final size:45
Alignment explanation
Indices: 5581930--5582065 Score: 137
Period size: 45 Copynumber: 3.0 Consensus size: 45
5581920 TTTGTGATTG
* * *
5581930 TGAAAATTGGTTGAACTACTTATTCTTGGTTGATTGTGATGACTA
1 TGAAAATTGATTCAACTACTTATCCTTGGTTGATTGTGATGACTA
* ** * *
5581975 TGAAAATTGTTTCCGCTACTCGTATCCTTGGTTGATTGTGATAACTG
1 TGAAAATTGATTCAACTACT--TATCCTTGGTTGATTGTGATGACTA
* * * **
5582022 TGAATATCGATTCAACTGCTTATCCTTGGTTGATAATGATGACT
1 TGAAAATTGATTCAACTACTTATCCTTGGTTGATTGTGATGACT
5582066 TCATGTTATC
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
45 37 0.51
47 36 0.49
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (45 bp):
TGAAAATTGATTCAACTACTTATCCTTGGTTGATTGTGATGACTA
Found at i:5583131 original size:17 final size:19
Alignment explanation
Indices: 5583085--5583132 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
5583075 CCATCAACAC
5583085 AAAACAAAGAAAGTATAAAG
1 AAAACAAAG-AAGTATAAAG
*
5583105 AGAACTAAAGAAG-A-AAAG
1 AAAAC-AAAGAAGTATAAAG
5583123 AAAACAAAGA
1 AAAACAAAGA
5583133 TATGTCAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 5 0.20
18 8 0.32
19 1 0.04
20 7 0.28
21 4 0.16
ACGTcount: A:0.71, C:0.06, G:0.17, T:0.06
Consensus pattern (19 bp):
AAAACAAAGAAGTATAAAG
Found at i:5595073 original size:35 final size:35
Alignment explanation
Indices: 5595025--5595091 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
5595015 TTTTTTCAAT
* *
5595025 AAGATCAGTCGTAATCTTTACAACATGCCTTTGAC
1 AAGATCAGTCGTAACCTTTAAAACATGCCTTTGAC
*
5595060 AAGATCAAG-CGTAACCTTTAAAATATGCCTTT
1 AAGATC-AGTCGTAACCTTTAAAACATGCCTTT
5595092 TGTAGGATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.93
36 2 0.07
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (35 bp):
AAGATCAGTCGTAACCTTTAAAACATGCCTTTGAC
Found at i:5604292 original size:27 final size:26
Alignment explanation
Indices: 5604259--5604309 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
5604249 TACTAATATT
5604259 TAAATTATAAATATTTTACAAAATTTA
1 TAAATTATAAATA-TTTACAAAATTTA
* *
5604286 TAAATTATTAATATTTATAAAATT
1 TAAATTATAAATATTTACAAAATT
5604310 AAATTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TAAATTATAAATATTTACAAAATTTA
Found at i:5605420 original size:16 final size:16
Alignment explanation
Indices: 5605399--5605438 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
5605389 CATACATACA
*
5605399 TATATATATATGTATG
1 TATATATATATATATG
5605415 TATATATATATATATG
1 TATATATATATATATG
*
5605431 TATGTATA
1 TATATATA
5605439 CCTTCTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (16 bp):
TATATATATATATATG
Found at i:5605423 original size:20 final size:20
Alignment explanation
Indices: 5605398--5605438 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
5605388 ACATACATAC
5605398 ATATATATATATGTATGTAT
1 ATATATATATATGTATGTAT
5605418 ATATATATATATGTATGTAT
1 ATATATATATATGTATGTAT
5605438 A
1 A
5605439 CCTTCTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
ATATATATATATGTATGTAT
Found at i:5605438 original size:10 final size:10
Alignment explanation
Indices: 5605405--5605438 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
5605395 TACATATATA
5605405 TATATGTATG
1 TATATGTATG
* *
5605415 TATATATATA
1 TATATGTATG
5605425 TATATGTATG
1 TATATGTATG
5605435 TATA
1 TATA
5605439 CCTTCTGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (10 bp):
TATATGTATG
Found at i:5608605 original size:6 final size:6
Alignment explanation
Indices: 5608596--5608621 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5608586 AAGGGAAGCG
5608596 GGGTGA GGGTGA GGGTGA GGGTGA GG
1 GGGTGA GGGTGA GGGTGA GGGTGA GG
5608622 AAAGGAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (6 bp):
GGGTGA
Found at i:5611980 original size:13 final size:13
Alignment explanation
Indices: 5611962--5611986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5611952 CTTACAACAG
5611962 AAAAAATTTTAAA
1 AAAAAATTTTAAA
5611975 AAAAAATTTTAA
1 AAAAAATTTTAA
5611987 TCTTGCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAAATTTTAAA
Found at i:5614477 original size:7 final size:7
Alignment explanation
Indices: 5614465--5614541 Score: 54
Period size: 7 Copynumber: 11.3 Consensus size: 7
5614455 TATTATAATT
5614465 AAAATAA
1 AAAATAA
*
5614472 AAAATATT
1 AAAATA-A
5614480 AAAATAA
1 AAAATAA
* *
5614487 AATATAT
1 AAAATAA
*
5614494 AATAT-A
1 AAAATAA
5614500 AAAATAA
1 AAAATAA
*
5614507 AAAAT-T
1 AAAATAA
5614513 AAAAT--
1 AAAATAA
5614518 AAAATAA
1 AAAATAA
*
5614525 AATATAA
1 AAAATAA
5614532 AAAATTAA
1 AAAA-TAA
5614540 AA
1 AA
5614542 TTTATATAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
5 5 0.09
6 9 0.16
7 31 0.55
8 11 0.20
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATAA
Found at i:5614482 original size:15 final size:15
Alignment explanation
Indices: 5614462--5614542 Score: 64
Period size: 15 Copynumber: 5.5 Consensus size: 15
5614452 CAATATTATA
5614462 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAT
*
5614477 ATTAAAATAAAATAT
1 ATTAAAATAAAAAAT
*
5614492 A-TAATAT-AAAAAT
1 ATTAAAATAAAAAAT
*
5614505 A-AAAAATTAAAATAA-
1 ATTAAAA-TAAAA-AAT
*
5614520 AATAAAATATAAAAA-
1 ATTAAAATA-AAAAAT
5614535 ATTAAAAT
1 ATTAAAAT
5614543 TTATATAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 9 0.17
14 6 0.11
15 30 0.56
16 9 0.17
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Found at i:5614514 original size:33 final size:35
Alignment explanation
Indices: 5614453--5614534 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 35
5614443 AATATTTTAC
5614453 AATATTATAAT-T-AAAATAAAAAATATTAAAATAA
1 AATA-TATAATATAAAAATAAAAAATATTAAAATAA
5614487 AATATATAATATAAAAAT-AAAAA-ATTAAAATAA
1 AATATATAATATAAAAATAAAAAATATTAAAATAA
5614520 AATA-A-AATATAAAAA
1 AATATATAATATAAAAA
5614535 ATTAAAATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
31 10 0.22
32 1 0.02
33 20 0.43
34 10 0.22
35 5 0.11
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (35 bp):
AATATATAATATAAAAATAAAAAATATTAAAATAA
Found at i:5614534 original size:13 final size:13
Alignment explanation
Indices: 5614472--5614534 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
5614462 ATTAAAATAA
*
5614472 AAAATATTAAAAT
1 AAAATATAAAAAT
*
5614485 AAAATATATAATAT
1 AAAATATA-AAAAT
5614499 AAAA-ATAAAAAAT
1 AAAATAT-AAAAAT
*
5614512 TAAA-AT-AAAAT
1 AAAATATAAAAAT
5614523 AAAATATAAAAA
1 AAAATATAAAAA
5614535 ATTAAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
11 8 0.20
12 2 0.05
13 22 0.54
14 9 0.22
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATATAAAAAT
Found at i:5614619 original size:33 final size:33
Alignment explanation
Indices: 5614567--5614653 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
5614557 TAAAAGAAAT
* *
5614567 TAAAATAAAATATATAATATAAAAAATTATATTAA
1 TAAAA-AAAA-ATAAAATATAAAAAATTATAATAA
* *
5614602 -AGAAAAAAAATAAAATATATAAGATTATAATAA
1 TA-AAAAAAAATAAAATATAAAAAATTATAATAA
**
5614635 TAAATGAAAATAAAATATA
1 TAAAAAAAAATAAAATATA
5614654 TGACATTAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
33 35 0.80
34 6 0.14
35 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (33 bp):
TAAAAAAAAATAAAATATAAAAAATTATAATAA
Found at i:5614649 original size:88 final size:87
Alignment explanation
Indices: 5614458--5614654 Score: 206
Period size: 88 Copynumber: 2.2 Consensus size: 87
5614448 TTTACAATAT
*
5614458 TATAATTAAAATAAAAAATATTAAAATAAAATATATAATATAAAAATAAAAAATTAAAATAAAAT
1 TATAA-TAAAATAAAAAATATTAAAATAAAATATATAATATAAAAATAAAAAATGAAAATAAAAT
*
5614523 AAAATATAAAAAATTAAAATTTA
65 AAAATATAAAAAATTAAAATTAA
** *
5614546 TATAATATAGGTAAAAGAA-ATTAAAATAAAATATATAATATAAAAAATTATATTAAA-GAAAA-
1 TATAATA-AAATAAAA-AATATTAAAATAAAATATATAATAT-AAAAA-TA-A-AAAATGAAAAT
* * *
5614608 AAAATAAAATATATAAGATTATAA-TAA
60 AAAATAAAATATAAAAAATTAAAATTAA
*
5614635 TA-AATGAAAATAAAATATAT
1 TATAAT-AAAATAAAAAATAT
5614655 GACATTAGAA
Statistics
Matches: 90, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
87 3 0.03
88 44 0.49
89 12 0.13
90 23 0.26
91 5 0.06
92 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (87 bp):
TATAATAAAATAAAAAATATTAAAATAAAATATATAATATAAAAATAAAAAATGAAAATAAAATA
AAATATAAAAAATTAAAATTAA
Found at i:5614839 original size:15 final size:14
Alignment explanation
Indices: 5614819--5614874 Score: 76
Period size: 15 Copynumber: 3.8 Consensus size: 14
5614809 TTTGCCCCGC
5614819 AATCACATTATCTGT
1 AATCACATTA-CTGT
*
5614834 AATCACATTACTTGC
1 AATCACATTAC-TGT
5614849 AATCACATTACCTGT
1 AATCACATTA-CTGT
5614864 AATCACATTAC
1 AATCACATTAC
5614875 ATTATAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (14 bp):
AATCACATTACTGT
Found at i:5614853 original size:30 final size:30
Alignment explanation
Indices: 5614817--5614874 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
5614807 TATTTGCCCC
*
5614817 GCAATCACATTATCTGTAATCACATTACTT
1 GCAATCACATTACCTGTAATCACATTACTT
5614847 GCAATCACATTACCTGTAATCACATTAC
1 GCAATCACATTACCTGTAATCACATTAC
5614875 ATTATAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (30 bp):
GCAATCACATTACCTGTAATCACATTACTT
Found at i:5618896 original size:22 final size:22
Alignment explanation
Indices: 5618845--5618896 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
5618835 TTGTTTTTCT
*
5618845 AATT-AAATTATATATAATTTT
1 AATTAAAATTATATATAATTTG
*
5618866 AA-TATAATTCATATATAA-TTG
1 AATTAAAATT-ATATATAATTTG
5618887 AATTAAAATT
1 AATTAAAATT
5618897 TAACCTAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.04
21 10 0.40
22 14 0.56
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
AATTAAAATTATATATAATTTG
Found at i:5619621 original size:21 final size:21
Alignment explanation
Indices: 5619595--5619634 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5619585 CTAAAAAATA
5619595 AAAAAT-ATGAAATTGTAAAAG
1 AAAAATCAT-AAATTGTAAAAG
*
5619616 AAAAATCATAATTTGTAAA
1 AAAAATCATAAATTGTAAA
5619635 TAATCGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.28
Consensus pattern (21 bp):
AAAAATCATAAATTGTAAAAG
Found at i:5622680 original size:34 final size:34
Alignment explanation
Indices: 5622622--5622731 Score: 157
Period size: 34 Copynumber: 3.2 Consensus size: 34
5622612 GACGTATAAT
* * * *
5622622 ATCTGGTGCTAAAGGTTTGACCTTGGCATGTAAC
1 ATCTGGTGATGAAGCTTTGACCTTGGCGTGTAAC
* *
5622656 ATCTGGTGTTGAAGCTTTGGCCTTGGCGTGTAAC
1 ATCTGGTGATGAAGCTTTGACCTTGGCGTGTAAC
*
5622690 ATCTGATGATGAAGCTTTGACCTTGGCGTGTAAC
1 ATCTGGTGATGAAGCTTTGACCTTGGCGTGTAAC
5622724 ATCTGGTG
1 ATCTGGTG
5622732 CNNNNNNNNN
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (34 bp):
ATCTGGTGATGAAGCTTTGACCTTGGCGTGTAAC
Found at i:5622845 original size:34 final size:34
Alignment explanation
Indices: 5622802--5622866 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
5622792 TACATTGGCT
* *
5622802 TTGGCATGTAACATCTGGTGCTGAAGCTTTGATC
1 TTGGCATGTAACATCTGCTACTGAAGCTTTGATC
*
5622836 TTGGCATGTAACATCTGCTACTGAAGTTTTG
1 TTGGCATGTAACATCTGCTACTGAAGCTTTG
5622867 GTGTGCGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (34 bp):
TTGGCATGTAACATCTGCTACTGAAGCTTTGATC
Found at i:5625415 original size:2 final size:2
Alignment explanation
Indices: 5625410--5625438 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5625400 AGCCACCAAC
5625410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5625439 GAAAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5625447 original size:2 final size:2
Alignment explanation
Indices: 5625442--5625482 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5625432 ATATATAGAA
5625442 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
5625483 AGGGTTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5639480 original size:80 final size:80
Alignment explanation
Indices: 5639347--5639514 Score: 223
Period size: 80 Copynumber: 2.1 Consensus size: 80
5639337 TGTAACATTT
* * *
5639347 TCATAAATCATCATCATGCTCAACCTATAGTGTATATGACTATCTCAACACATACATCTCATGGC
1 TCATAAATCATCATCATGCTCAACCTACAGTGTACATGAATATCTCAACACATACATCTCATGGC
* **
5639412 ATGCATTTCATAATC
66 ATACAGGTCATAATC
* *
5639427 TCATAAATCATTCA-CATGCTTAGCCTACAGTGTACATGAGAT-TCTCAACACATACATCTCATG
1 TCATAAATCA-TCATCATGCTCAACCTACAGTGTACATGA-ATATCTCAACACATACATCTCATG
*
5639490 GCATATAGGTCATAATC
64 GCATACAGGTCATAATC
5639507 TCATAAAT
1 TCATAAAT
5639515 GTAACTTATG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 73 0.95
81 4 0.05
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32
Consensus pattern (80 bp):
TCATAAATCATCATCATGCTCAACCTACAGTGTACATGAATATCTCAACACATACATCTCATGGC
ATACAGGTCATAATC
Found at i:5640602 original size:17 final size:17
Alignment explanation
Indices: 5640580--5640627 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 17
5640570 AAGCTTGTTT
5640580 ATCTATAAATAATGAAC
1 ATCTATAAATAATGAAC
5640597 ATCTATCAATAATAATGAAC
1 ATCTAT--A-AATAATGAAC
*
5640617 ATCTATCAATA
1 ATCTATAAATA
5640628 GACGTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.37
19 1 0.04
20 16 0.59
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (17 bp):
ATCTATAAATAATGAAC
Found at i:5640610 original size:20 final size:20
Alignment explanation
Indices: 5640587--5640627 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
5640577 TTTATCTATA
5640587 AATAATGAACATCTATCAAT
1 AATAATGAACATCTATCAAT
5640607 AATAATGAACATCTATCAAT
1 AATAATGAACATCTATCAAT
5640627 A
1 A
5640628 GACGTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (20 bp):
AATAATGAACATCTATCAAT
Found at i:5642577 original size:37 final size:37
Alignment explanation
Indices: 5642507--5642627 Score: 145
Period size: 37 Copynumber: 3.3 Consensus size: 37
5642497 TGGGGCATCA
* * *
5642507 TACCACACAAACATGA-GGACCTTAATGTAGGGTGTTT
1 TACCACACAAACATGACGG-CCTTGATGTGGGGTGTTG
*
5642544 TACCACACAAACATGACGGCCATGATGTGGGGTGTTG
1 TACCACACAAACATGACGGCCTTGATGTGGGGTGTTG
* * * * *
5642581 AACCACACACATATGACGGCTTTGATGTGTGGTGTTG
1 TACCACACAAACATGACGGCCTTGATGTGGGGTGTTG
5642618 TACCACACAA
1 TACCACACAA
5642628 CTATATAGCC
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
37 69 0.97
38 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (37 bp):
TACCACACAAACATGACGGCCTTGATGTGGGGTGTTG
Found at i:5653131 original size:20 final size:20
Alignment explanation
Indices: 5653108--5653159 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
5653098 ATAAAATATC
5653108 TATTTTAAAAATTAA-TAAA
1 TATTTTAAAAATTAATTAAA
*
5653127 T-TATTTAAAATTTTAATTAAA
1 TAT-TTTAAAA-ATTAATTAAA
5653148 -ATTTTAAAAATT
1 TATTTTAAAAATT
5653160 GAAATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 1 0.04
19 10 0.37
20 11 0.41
21 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTTTAAAAATTAATTAAA
Found at i:5659186 original size:25 final size:25
Alignment explanation
Indices: 5659152--5659209 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
5659142 AGAACCTACG
* *
5659152 AAATGACAGTCAAACAATGCCATAC
1 AAATAACAGTCAAACAATGACATAC
* *
5659177 AAATAACAGTCACACAATGACTTAC
1 AAATAACAGTCAAACAATGACATAC
5659202 AAATAACA
1 AAATAACA
5659210 ATCACGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.52, C:0.22, G:0.09, T:0.17
Consensus pattern (25 bp):
AAATAACAGTCAAACAATGACATAC
Found at i:5659220 original size:25 final size:25
Alignment explanation
Indices: 5659174--5659425 Score: 136
Period size: 25 Copynumber: 10.1 Consensus size: 25
5659164 AACAATGCCA
** *
5659174 TACAAATAACAGTCACACAATGACT
1 TACAAATAACAGTCACGTAATGACC
* *
5659199 TACAAATAACAATCACGTAATGCCC
1 TACAAATAACAGTCACGTAATGACC
*
5659224 TA-AAGATAACAGTCACGTGATGACC
1 TACAA-ATAACAGTCACGTAATGACC
* * * *
5659249 TACAGATAACAATCATGTAAT-CCC
1 TACAAATAACAGTCACGTAATGACC
* * *
5659273 ATACAGATAATAGTCACGCAATGACC
1 -TACAAATAACAGTCACGTAATGACC
* * * *
5659299 TACAAATAACTGACATGAAATG-CC
1 TACAAATAACAGTCACGTAATGACC
* * * * *
5659323 ATACATATAAAAGTCAAGCAAT-TCC
1 -TACAAATAACAGTCACGTAATGACC
* * * * *
5659348 ATATAGACAGCGGTCACGTAATGACC
1 -TACAAATAACAGTCACGTAATGACC
* *
5659374 TATAGATAACAGTCACGTAATG-CC
1 TACAAATAACAGTCACGTAATGACC
* * *
5659398 ATACAGATAACAATCACGTAATGCCC
1 -TACAAATAACAGTCACGTAATGACC
5659424 TA
1 TA
5659426 TCAAGGAGTC
Statistics
Matches: 174, Mismatches: 44, Indels: 18
0.74 0.19 0.08
Matches are distributed among these distances:
24 8 0.05
25 159 0.91
26 7 0.04
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.21
Consensus pattern (25 bp):
TACAAATAACAGTCACGTAATGACC
Found at i:5659396 original size:75 final size:75
Alignment explanation
Indices: 5659206--5659413 Score: 206
Period size: 75 Copynumber: 2.8 Consensus size: 75
5659196 ACTTACAAAT
* * * * *
5659206 AACAATCACGTAATGCCCTAAAGATAACAGTCACGTGATGACC-TACAGATAACAATCATGTAAT
1 AACAGTCACGTAATGACCTAAAGATAACAGTCACGTAATG-CCATACAGATAACAATCAAGCAAT
*
5659270 CCCATACAGAT
65 CCCATACAGAC
* * * * * * *
5659281 AATAGTCACGCAATGACCTACAA-ATAACTGACATGAAATGCCATACATATAA-AAGTCAAGCAA
1 AACAGTCACGTAATGACCTA-AAGATAACAGTCACGTAATGCCATACAGATAACAA-TCAAGCAA
* *
5659344 TTCCATATAGAC
64 TCCCATACAGAC
* * *
5659356 AGCGGTCACGTAATGACCTATAGATAACAGTCACGTAATGCCATACAGATAACAATCA
1 AACAGTCACGTAATGACCTAAAGATAACAGTCACGTAATGCCATACAGATAACAATCA
5659414 CGTAATGCCC
Statistics
Matches: 103, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
74 5 0.05
75 94 0.91
76 4 0.04
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (75 bp):
AACAGTCACGTAATGACCTAAAGATAACAGTCACGTAATGCCATACAGATAACAATCAAGCAATC
CCATACAGAC
Found at i:5659426 original size:50 final size:49
Alignment explanation
Indices: 5659167--5659425 Score: 198
Period size: 50 Copynumber: 5.2 Consensus size: 49
5659157 ACAGTCAAAC
* * * * *
5659167 AATGCCATACAAATAACAGTCACACAATGACTTACAAATAACAATCACGT
1 AATGCCCTACAGATAACAGTCACGCAATG-CCTACAGATAACAATCACGT
* ** *
5659217 AATGCCCTAAAGATAACAGTCACGTGATGACCTACAGATAACAATCATGT
1 AATGCCCTACAGATAACAGTCACGCAATG-CCTACAGATAACAATCACGT
* * * * *
5659267 AAT-CCCATACAGATAATAGTCACGCAATGACCTACAAATAACTGA-CATGA
1 AATGCCC-TACAGATAACAGTCACGCAATG-CCTACAGATAAC-AATCACGT
* * * * * * * * **
5659317 AATGCCATACATATAAAAGTCAAGCAATTCCATATAGACAGCGGTCACGT
1 AATGCCCTACAGATAACAGTCACGCAATGCC-TACAGATAACAATCACGT
* * *
5659367 AATGACCTATAGATAACAGTCACGTAATGCCATACAGATAACAATCACGT
1 AATGCCCTACAGATAACAGTCACGCAATGCC-TACAGATAACAATCACGT
5659417 AATGCCCTA
1 AATGCCCTA
5659426 TCAAGGAGTC
Statistics
Matches: 162, Mismatches: 42, Indels: 10
0.76 0.20 0.05
Matches are distributed among these distances:
49 6 0.04
50 153 0.94
51 3 0.02
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.21
Consensus pattern (49 bp):
AATGCCCTACAGATAACAGTCACGCAATGCCTACAGATAACAATCACGT
Found at i:5661006 original size:17 final size:16
Alignment explanation
Indices: 5660984--5661028 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
5660974 TATATATATC
5660984 TAGATTTGAATGT-AGAT
1 TAGATTT-AAT-TAAGAT
5661001 TAGATTTAATTAAGAT
1 TAGATTTAATTAAGAT
5661017 TAGGATTTAATT
1 TA-GATTTAATT
5661029 CATTCATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.04
16 9 0.35
17 16 0.62
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (16 bp):
TAGATTTAATTAAGAT
Found at i:5662383 original size:15 final size:16
Alignment explanation
Indices: 5662363--5662397 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5662353 TCACTCGGAT
*
5662363 TTTTTTTCCA-TAAGG
1 TTTTTTCCCATTAAGG
5662378 TTTTTTCCCATTAAGG
1 TTTTTTCCCATTAAGG
5662394 TTTT
1 TTTT
5662398 AATGAGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.57
Consensus pattern (16 bp):
TTTTTTCCCATTAAGG
Found at i:5664841 original size:19 final size:19
Alignment explanation
Indices: 5664800--5664848 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
5664790 CCCTAAAGCT
**
5664800 CTTTTTTTAAAAAATTTTA
1 CTTTTTTTAAAAAAAGTTA
5664819 -TTTTTTTAAAAAAAGTTA
1 CTTTTTTTAAAAAAAGTTA
5664837 CTTTTTTATAAA
1 CTTTTTT-TAAA
5664849 GAACTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 16 0.62
19 6 0.23
20 4 0.15
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (19 bp):
CTTTTTTTAAAAAAAGTTA
Found at i:5705870 original size:360 final size:357
Alignment explanation
Indices: 5705210--5705888 Score: 800
Period size: 360 Copynumber: 1.9 Consensus size: 357
5705200 GTTACTTAGA
* * * *
5705210 ATGATCATAGAAAATTAAATTTTTGATTGAGAATGGCATTATTATGGACAATTAATAATCTTTCA
1 ATGATCATAGAAAATTAAATTTTCGATTGAAAATGACATTATTATAGACAA-TAATAATCTTTCA
* * *
5705275 AATTTTCATGTTCATATTACATGTAACATATTAAGTCTTTTATATTGAAACATGGCAAGAAGCCT
65 AATTTTCATGTTCATATTACATGGAACATATTAAGTCTTTCATATTGAAACATCGCAAGAAGCCT
** * * * **
5705340 TGTTTTTTCTTTTATAGTCATTGTTAGTTTTTGTCACTTAATCATCCTTTTACAATGGAAAAAGA
130 TGTTTTTTCTTTTATAGTCATCATCAATTCTTACCACTTAATCATCCTTTTACAATGGAAAAAGA
* * * * *
5705405 TATATTTGAAAAAAAAGTTGAGCGTGACTTCTCAATTTCTCGATTATCAGGTGAAAACATTTTGA
195 TAAATTTGAAAAAAAAGTTGAGCCTAACTTCTCAATTTCTCAATTATCAAGTGAAAACATTTTGA
*** * * * *
5705470 CATGGCTTATTTACTTTTCTCATATCACATATGGGACAAAATGTTCTAAATAAAAGATTCTGGAT
260 CACAACTTAATTACCTTCCTCATATCACATATGAGACAAAATGTTCTAAATAAAAGATTCTGGAT
5705535 TTCTATCAAACTCATAATTAATAATGACTTATG
325 TTCTATCAAACTCATAATTAATAATGACTTATG
* *
5705568 ATGATCATAGAAAATTAAATTTTCGATT-AAAAGTGACATTGTTATAGAC-A-AATAATTTTTC-
1 ATGATCATAGAAAATTAAATTTTCGATTGAAAA-TGACATTATTATAGACAATAATAATCTTTCA
* * *
5705629 AATTTTCATGTTCATATTACATGGAACATGTTAAGTCTTTCATATT-AGAGCATCGCAAGTAGCC
65 AATTTTCATGTTCATATTACATGGAACATATTAAGTCTTTCATATTGA-AACATCGCAAGAAGCC
*
5705693 TTGTTTTTTTTTTTTGTTTTATCA-TCATCATCAATTCTTACCACTTAATCATCCATTTT-CAAT
129 TTG------TTTTTTCTTTTAT-AGTCATCATCAATTCTTACCACTTAATCATCC-TTTTACAAT
** * * * *
5705756 GTTAAAAGATAAATTTTG-AAAAAGAGTTGGGCCTAAC-TCTCCAATTTCTCAATTGTTAAGTGA
186 GGAAAAAGATAAA-TTTGAAAAAAAAGTTGAGCCTAACTTCT-CAATTTCTCAATTATCAAGTGA
* * * *
5705819 AAACATTTTGACACAACTTAATTCCCTTCCTCATATCACATCTGAGACAAAATGTTCTGAATAGA
249 AAACATTTTGACACAACTTAATTACCTTCCTCATATCACATATGAGACAAAATGTTCTAAATAAA
5705884 AGATT
314 AGATT
5705889 TTAGGTTTTT
Statistics
Matches: 267, Mismatches: 42, Indels: 22
0.81 0.13 0.07
Matches are distributed among these distances:
353 1 0.00
354 59 0.22
355 10 0.04
357 4 0.01
358 40 0.15
359 3 0.01
360 141 0.53
361 9 0.03
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (357 bp):
ATGATCATAGAAAATTAAATTTTCGATTGAAAATGACATTATTATAGACAATAATAATCTTTCAA
ATTTTCATGTTCATATTACATGGAACATATTAAGTCTTTCATATTGAAACATCGCAAGAAGCCTT
GTTTTTTCTTTTATAGTCATCATCAATTCTTACCACTTAATCATCCTTTTACAATGGAAAAAGAT
AAATTTGAAAAAAAAGTTGAGCCTAACTTCTCAATTTCTCAATTATCAAGTGAAAACATTTTGAC
ACAACTTAATTACCTTCCTCATATCACATATGAGACAAAATGTTCTAAATAAAAGATTCTGGATT
TCTATCAAACTCATAATTAATAATGACTTATG
Found at i:5724522 original size:20 final size:21
Alignment explanation
Indices: 5724497--5724546 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
5724487 ACAAAAAAAT
5724497 GAAATAAG-CATTTAACTAAA
1 GAAATAAGTCATTTAACTAAA
5724517 GAAAT-AGTCATTTAACTAAA
1 GAAATAAGTCATTTAACTAAA
5724537 GAAAT-AGTCA
1 GAAATAAGTCA
5724547 AATCTCATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (21 bp):
GAAATAAGTCATTTAACTAAA
Found at i:5737953 original size:68 final size:68
Alignment explanation
Indices: 5737790--5737968 Score: 225
Period size: 68 Copynumber: 2.6 Consensus size: 68
5737780 AATATGACAT
* * * *
5737790 GTTGCAATGTATGTGAT-ATTGTTTCCACAAACTATATGAGACAAGAATAAGCACATGATGTATG
1 GTTGTAATGTATGTGATGA-TGATTCCACATACTATATGAGATAAGAATAAGCACATGATGTATG
*
5737854 CTAT
65 CTAC
* * * * *
5737858 GTTGTATTGTATGTGGTGAGGATTCCACATACCATATGAGATAAGAATGAGCACATGATGTATGC
1 GTTGTAATGTATGTGATGATGATTCCACATACTATATGAGATAAGAATAAGCACATGATGTATGC
5737923 TAC
66 TAC
* * *
5737926 GTTGTAATGTATGTGATGATGAATCCACGTGCTATATGAGATA
1 GTTGTAATGTATGTGATGATGATTCCACATACTATATGAGATA
5737969 GTATGAGTAT
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
68 92 0.99
69 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (68 bp):
GTTGTAATGTATGTGATGATGATTCCACATACTATATGAGATAAGAATAAGCACATGATGTATGC
TAC
Found at i:5740567 original size:2 final size:2
Alignment explanation
Indices: 5740560--5740584 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5740550 NNNNNNNNNN
5740560 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
5740585 TTTACCGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5741168 original size:2 final size:2
Alignment explanation
Indices: 5741161--5741194 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5741151 TTTCCCATTC
*
5741161 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5741195 TTCTAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5742845 original size:2 final size:2
Alignment explanation
Indices: 5742838--5742864 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5742828 ATGCCCCCAT
5742838 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
5742865 AGGGAAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5749327 original size:14 final size:15
Alignment explanation
Indices: 5749303--5749340 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
5749293 TCTTTTTTGT
*
5749303 TTAAATTTTAGTTAA
1 TTAATTTTTAGTTAA
5749318 TT-ATTTTTAGTTAA
1 TTAATTTTTAGTTAA
5749332 TTAATTTTT
1 TTAATTTTT
5749341 TTATTTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (15 bp):
TTAATTTTTAGTTAA
Found at i:5751315 original size:18 final size:18
Alignment explanation
Indices: 5751275--5751388 Score: 54
Period size: 18 Copynumber: 6.8 Consensus size: 18
5751265 TTTTTATTTT
*
5751275 TATATAATATT-ATATTTA
1 TATATAATTTTAATA-TTA
*
5751293 AATATAATTTTAATATTA
1 TATATAATTTTAATATTA
5751311 TATATTATATATTT-AT-TT-
1 TATA-TA-AT-TTTAATATTA
*
5751329 TTTATAA---TAAT-TT-
1 TATATAATTTTAATATTA
* *
5751342 TATAT-ATTTTATTTTTA
1 TATATAATTTTAATATTA
5751359 -ATATAATTTT-ATATTA
1 TATATAATTTTAATATTA
*
5751375 TATATTATTTTAAT
1 TATATAATTTTAAT
5751389 TTTTTTTAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 26
0.68 0.08 0.24
Matches are distributed among these distances:
12 2 0.03
13 8 0.11
15 3 0.04
16 11 0.15
17 16 0.22
18 20 0.27
19 7 0.09
20 4 0.05
21 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATAATTTTAATATTA
Found at i:5751328 original size:26 final size:25
Alignment explanation
Indices: 5751279--5751388 Score: 80
Period size: 26 Copynumber: 4.2 Consensus size: 25
5751269 TATTTTTATA
* *
5751279 TAATATTATAT-TTAAATATAATTT
1 TAATATTATATATTATATATTATTT
5751303 TAATATTATATATTATATATTTATTT
1 TAATATTATATATTATATA-TTATTT
* * *
5751329 T-TTATAATAATTTTATATATTTTATTTT
1 TAATATTAT-ATATTATATA--TTA-TTT
*
5751357 TAATATAATTTTATATTATATATTATTT
1 T-A-AT-ATTATATATTATATATTATTT
5751385 TAAT
1 TAAT
5751389 TTTTTTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
24 11 0.16
25 11 0.16
26 17 0.25
27 5 0.07
28 8 0.12
29 3 0.04
31 10 0.15
32 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TAATATTATATATTATATATTATTT
Found at i:5751379 original size:33 final size:33
Alignment explanation
Indices: 5751274--5751392 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 33
5751264 TTTTTTATTT
* *
5751274 TTATATA-ATATTATATTTAAATATAATTTTAATA
1 TTATATATATTTTAT-TTTTAATATAATTTT-ATA
5751308 TTATATATTATATATTTATTTTT--TATAA---TA-A
1 -T-TATA-TATAT-TTTATTTTTAATATAATTTTATA
*
5751339 TTTTATATATTTTATTTTTAATATAATTTTATA
1 TTATATATATTTTATTTTTAATATAATTTTATA
5751372 TTATATATTATTTTAATTTTT
1 TTATATA-TATTTT-ATTTTT
5751393 TTTAAAAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
27 9 0.13
28 5 0.07
29 8 0.12
30 1 0.01
31 1 0.01
32 3 0.04
33 8 0.12
34 6 0.09
35 7 0.10
36 9 0.13
37 2 0.03
38 5 0.07
39 4 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (33 bp):
TTATATATATTTTATTTTTAATATAATTTTATA
Found at i:5751416 original size:62 final size:65
Alignment explanation
Indices: 5751275--5751416 Score: 173
Period size: 62 Copynumber: 2.2 Consensus size: 65
5751265 TTTTTATTTT
* * *
5751275 TATATAATATTATATTTAAATATAATTTTAATATTATATATTATATATTTATTTTTTATAATAAT
1 TATA-AATTTTAT-TTTAAATATAATTTTAATATTATATATTATATATTAATTTTTTATAAAAAT
**
5751340 TT
64 AA
* * *
5751342 TATATATTTTATTTTTAATATAATTTT-ATATTATATATTAT-T-TTAATTTTTTTTAAAAATAA
1 TATAAATTTTATTTTAAATATAATTTTAATATTATATATTATATATTAATTTTTTATAAAAATAA
5751404 TATAAATTTTATT
1 TATAAATTTTATT
5751417 GAAAATAATA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
62 27 0.41
63 1 0.02
64 14 0.21
65 14 0.21
66 6 0.09
67 4 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (65 bp):
TATAAATTTTATTTTAAATATAATTTTAATATTATATATTATATATTAATTTTTTATAAAAATAA
Found at i:5755555 original size:23 final size:23
Alignment explanation
Indices: 5755514--5755557 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
5755504 AAGCATGATA
***
5755514 TTTAAAAAATTTTTCTAAATTAT
1 TTTAAAAAATTTAAATAAATTAT
5755537 TTTAAAAAATTTAAATAAATT
1 TTTAAAAAATTTAAATAAATT
5755558 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAAAAAATTTAAATAAATTAT
Found at i:5775141 original size:16 final size:16
Alignment explanation
Indices: 5775116--5775146 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5775106 ATGTAACAGA
5775116 AAATAAAACCACATAC
1 AAATAAAACCACATAC
*
5775132 AAATACAACCACATA
1 AAATAAAACCACATA
5775147 GAACAAAGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (16 bp):
AAATAAAACCACATAC
Found at i:5777958 original size:34 final size:32
Alignment explanation
Indices: 5777886--5777972 Score: 84
Period size: 34 Copynumber: 2.6 Consensus size: 32
5777876 TTTTAATATC
* *
5777886 ATATGTTTTATTTTTATTTATTATTATAATCTT
1 ATATATTTTA-TTTTATTTATTAATATAATCTT
* *
5777919 ATATATTTTATTTTCATTTCTTTAATATAATTTT
1 ATATATTTTATTTT-ATTT-ATTAATATAATCTT
*
5777953 GTATATTATATATTTTATTT
1 ATATATT-T-TATTTTATTT
5777973 TAATTACTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 4 0.09
33 13 0.29
34 17 0.38
35 5 0.11
36 6 0.13
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (32 bp):
ATATATTTTATTTTATTTATTAATATAATCTT
Found at i:5778019 original size:15 final size:14
Alignment explanation
Indices: 5777999--5778080 Score: 62
Period size: 15 Copynumber: 5.6 Consensus size: 14
5777989 TATTATATAA
5777999 ATTTTAATTTTTTAT
1 ATTTTAATTTTTT-T
*
5778014 ATTTTATTTTATTTT
1 ATTTTAATTT-TTTT
5778029 AATTTT--TTATTTTT
1 -ATTTTAATT-TTTTT
* *
5778043 ATATT-ATATATTTT
1 ATTTTAAT-TTTTTT
5778057 ATTTTAATATTTTTT
1 ATTTTAAT-TTTTTT
5778072 ATTTTAATT
1 ATTTTAATT
5778081 ATAATATTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
13 4 0.07
14 16 0.29
15 28 0.50
16 8 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTAATTTTTTT
Found at i:5778055 original size:33 final size:33
Alignment explanation
Indices: 5778006--5778088 Score: 111
Period size: 33 Copynumber: 2.5 Consensus size: 33
5777996 TAAATTTTAA
5778006 TTTTTTATATT-T-TATTTTATTTTAAT-TTTT
1 TTTTTTATATTATATATTTTATTTTAATATTTT
5778036 TATTTTTATATTATATATTTTATTTTAATATTTT
1 T-TTTTTATATTATATATTTTATTTTAATATTTT
5778070 TTATTTTA-ATTATAATATT
1 TT-TTTTATATTAT-ATATT
5778089 ATAAAAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
30 1 0.02
31 10 0.21
32 1 0.02
33 20 0.43
34 15 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (33 bp):
TTTTTTATATTATATATTTTATTTTAATATTTT
Found at i:5778072 original size:53 final size:53
Alignment explanation
Indices: 5777946--5778082 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 53
5777936 TTCTTTAATA
*
5777946 TAATTTTGTATATTATATATTTTATTTTAATTACTTTTACTTATATTATATAAATTT
1 TAATTTTATATATT-T-TATTTTATTTTAATTA-TTTTACTTATATTATAT-AATTT
* *
5778003 TAATTTTTTATATTTTATTTTATTTTAATT-TTTTATTTTTATATTATAT-ATTT
1 TAATTTTATATATTTTATTTTATTTTAATTATTTTA--CTTATATTATATAATTT
5778056 T-ATTTTA-ATA--TT-TTTTATTTTAATTAT
1 TAATTTTATATATTTTATTTTATTTTAATTAT
5778083 AATATTATAA
Statistics
Matches: 74, Mismatches: 3, Indels: 14
0.81 0.03 0.15
Matches are distributed among these distances:
48 13 0.18
49 3 0.04
51 3 0.04
52 5 0.07
53 10 0.14
55 26 0.35
56 1 0.01
57 13 0.18
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (53 bp):
TAATTTTATATATTTTATTTTATTTTAATTATTTTACTTATATTATATAATTT
Found at i:5780148 original size:22 final size:22
Alignment explanation
Indices: 5780122--5780166 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
5780112 AAGGGGGAGT
5780122 ACCCATGAACGAAGTTGAAACC
1 ACCCATGAACGAAGTTGAAACC
*
5780144 ACCCATGAATGAAGTTGAAACC
1 ACCCATGAACGAAGTTGAAACC
5780166 A
1 A
5780167 AGCCGCTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (22 bp):
ACCCATGAACGAAGTTGAAACC
Found at i:5789144 original size:34 final size:35
Alignment explanation
Indices: 5789075--5789148 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
5789065 ATAATAAAAT
* * *
5789075 TTAAATAATCAAAAATAAATCTCTCAAATATCAAC
1 TTAAATAATCAAAAATAAATATCTCAAACAACAAC
*
5789110 TTAAATAATTAAAAATAAATAT-TCAAACAACAAC
1 TTAAATAATCAAAAATAAATATCTCAAACAACAAC
5789144 TTAAA
1 TTAAA
5789149 CATTACAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
34 15 0.43
35 20 0.57
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (35 bp):
TTAAATAATCAAAAATAAATATCTCAAACAACAAC
Found at i:5793916 original size:31 final size:31
Alignment explanation
Indices: 5793878--5794197 Score: 332
Period size: 31 Copynumber: 10.6 Consensus size: 31
5793868 AACATGGCAC
* *
5793878 AAATGTGGTTACACACCATGCATAACAAGTA
1 AAATGTGGTCACACGCCATGCATAACAAGTA
*
5793909 AAATGTGGTCACATGCCATG-----C-A-T-
1 AAATGTGGTCACACGCCATGCATAACAAGTA
* *
5793932 AAATGTGGTTACACGCCATGCATAACGAGTA
1 AAATGTGGTCACACGCCATGCATAACAAGTA
* * * *
5793963 AAATATGGTCGCATGCTATGCATAACAAGTA
1 AAATGTGGTCACACGCCATGCATAACAAGTA
*
5793994 AAATGTAGTCACACGCCATGCATAACAAGTA
1 AAATGTGGTCACACGCCATGCATAACAAGTA
*
5794025 AAATGTTGTCACACGCCATGCATAACAAGTA
1 AAATGTGGTCACACGCCATGCATAACAAGTA
* * * *
5794056 AAAGGTGGTCACATGCCATGCAAAACAATTA
1 AAATGTGGTCACACGCCATGCATAACAAGTA
** *
5794087 AAACATGGTCACACACCATGCATAACAAGTA
1 AAATGTGGTCACACGCCATGCATAACAAGTA
* * ** *
5794118 AAATGTTGTTACACGCCATGCATATTAAGTC
1 AAATGTGGTCACACGCCATGCATAACAAGTA
* * *
5794149 AAATGTCGTGACACGCCATGCATAACAAGTC
1 AAATGTGGTCACACGCCATGCATAACAAGTA
* *
5794180 AAATGTTGTAACACGCCA
1 AAATGTGGTCACACGCCA
5794198 ACCATGTCGT
Statistics
Matches: 239, Mismatches: 42, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
23 18 0.08
24 1 0.00
25 1 0.00
26 1 0.00
28 1 0.00
29 1 0.00
30 1 0.00
31 215 0.90
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (31 bp):
AAATGTGGTCACACGCCATGCATAACAAGTA
Found at i:5793936 original size:23 final size:23
Alignment explanation
Indices: 5793909--5793956 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
5793899 ATAACAAGTA
*
5793909 AAATGTGGTCACATGCCATGCAT
1 AAATGTGGTCACACGCCATGCAT
*
5793932 AAATGTGGTTACACGCCATGCAT
1 AAATGTGGTCACACGCCATGCAT
5793955 AA
1 AA
5793957 CGAGTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (23 bp):
AAATGTGGTCACACGCCATGCAT
Found at i:5793951 original size:54 final size:54
Alignment explanation
Indices: 5793878--5794049 Score: 191
Period size: 54 Copynumber: 3.0 Consensus size: 54
5793868 AACATGGCAC
*
5793878 AAATGTGGTTACACACCATGCATAACAAGTAAAATGTGGTCACATGCCATGCAT
1 AAATGTGGTTACACGCCATGCATAACAAGTAAAATGTGGTCACATGCCATGCAT
* * * *
5793932 AAATGTGGTTACACGCCATGCATAACGAGTAAAATATGGTCGCATGCTATGCATAACAAGT
1 AAATGTGGTTACACGCCATGCATAACAAGTAAAATGTGGTCACATGC----CAT-GC-A-T
* * * *
5793993 AAAATGTAGTCACACGCCATGCATAACAAGTAAAATGTTGTCACACGCCATGCAT
1 -AAATGTGGTTACACGCCATGCATAACAAGTAAAATGTGGTCACATGCCATGCAT
5794048 AA
1 AA
5794050 CAAGTAAAAG
Statistics
Matches: 97, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
54 45 0.46
55 1 0.01
56 1 0.01
57 1 0.01
58 6 0.06
59 1 0.01
60 1 0.01
61 1 0.01
62 40 0.41
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (54 bp):
AAATGTGGTTACACGCCATGCATAACAAGTAAAATGTGGTCACATGCCATGCAT
Found at i:5794934 original size:22 final size:22
Alignment explanation
Indices: 5794909--5794986 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 22
5794899 ATCCTAAATG
5794909 CTGGCATGTCAAACTCTGAACC
1 CTGGCATGTCAAACTCTGAACC
** * * ***
5794931 CTGGTGTGTCACAAATTTCCTCC
1 CTGGCATGTCA-AACTCTGAACC
* *
5794954 ATGGCATGTCAAACTCTGAACA
1 CTGGCATGTCAAACTCTGAACC
*
5794976 CTCGCATGTCA
1 CTGGCATGTCA
5794987 CAGATTCCTT
Statistics
Matches: 37, Mismatches: 18, Indels: 2
0.65 0.32 0.04
Matches are distributed among these distances:
22 23 0.62
23 14 0.38
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (22 bp):
CTGGCATGTCAAACTCTGAACC
Found at i:5794963 original size:23 final size:23
Alignment explanation
Indices: 5794937--5795173 Score: 72
Period size: 23 Copynumber: 10.2 Consensus size: 23
5794927 AACCCTGGTG
5794937 TGTCACAAATTTCCTCCATGGCA
1 TGTCACAAATTTCCTCCATGGCA
* * *** *
5794960 TGTCA-AACTCT-GAACACTCGCA
1 TGTCACAAATTTCCTCCA-TGGCA
* *
5794982 TGTCACAGA-TTCCTTCCGTGGCA
1 TGTCACAAATTTCC-TCCATGGCA
* ***
5795005 TGTCACAAACTCTAAACCATGGCA
1 TGTCACAAA-TTTCCTCCATGGCA
* * *
5795029 TCTCACAGATTCCCTCCATGGCA
1 TGTCACAAATTTCCTCCATGGCA
*** * *
5795052 TGTCACAAACTTT-GAACATTGACG
1 TGTCACAAA-TTTCCTCCA-TGGCA
* * *
5795076 TGTCACAGATTCCCTCCATGCCA
1 TGTCACAAATTTCCTCCATGGCA
* * * *
5795099 TGTCACAGATTCCCTCCATGCCG
1 TGTCACAAATTTCCTCCATGGCA
* * *
5795122 TGTCACAAA-CT-CTGAACACTGACA
1 TGTCACAAATTTCCT--CCA-TGGCA
* *
5795146 TGTCACAAATTCCCTCCATGGCG
1 TGTCACAAATTTCCTCCATGGCA
5795169 TGTCA
1 TGTCA
5795174 AACTCTGAAC
Statistics
Matches: 146, Mismatches: 54, Indels: 28
0.64 0.24 0.12
Matches are distributed among these distances:
21 4 0.03
22 14 0.10
23 81 0.55
24 44 0.30
25 1 0.01
26 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (23 bp):
TGTCACAAATTTCCTCCATGGCA
Found at i:5794964 original size:45 final size:45
Alignment explanation
Indices: 5794910--5795103 Score: 201
Period size: 47 Copynumber: 4.2 Consensus size: 45
5794900 TCCTAAATGC
* ** * *
5794910 TGGCATGTCAAACTCTGAACCCTGGTGTGTCACAAATTTCCTCCA
1 TGGCATGTCAAACTCTGAACACTGGCATGTCACAGATTCCCTCCA
* * *
5794955 TGGCATGTCAAACTCTGAACACTCGCATGTCACAGATTCCTTCCG
1 TGGCATGTCAAACTCTGAACACTGGCATGTCACAGATTCCCTCCA
* *
5795000 TGGCATGTCACAAACTCTAAAC-CATGGCATCTCACAGATTCCCTCCA
1 TGGCATGT--CAAACTCTGAACAC-TGGCATGTCACAGATTCCCTCCA
* * * *
5795047 TGGCATGTCACAAACTTTGAACATTGACGTGTCACAGATTCCCTCCA
1 TGGCATGT--CAAACTCTGAACACTGGCATGTCACAGATTCCCTCCA
*
5795094 TGCCATGTCA
1 TGGCATGTCA
5795104 CAGATTCCCT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
45 47 0.38
46 1 0.01
47 77 0.62
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (45 bp):
TGGCATGTCAAACTCTGAACACTGGCATGTCACAGATTCCCTCCA
Found at i:5795118 original size:162 final size:161
Alignment explanation
Indices: 5794937--5795269 Score: 388
Period size: 162 Copynumber: 2.1 Consensus size: 161
5794927 AACCCTGGTG
* * * * *
5794937 TGTCACAAATTTCCTCCATGGCATGT-CAAACTCTGAACACTCG-CATGTCACAGATTCCTTCCG
1 TGTCACAAATTCCCTCCATGCCATGTACAAACTCTGAACACT-GACATGTCACAAATTCCCTCCA
* ** *
5795000 TGGCATGTCACAAACTCTAAAC-CATGGCATCTCACAGATTCCCTCCATGGCATGTCACAAACTT
65 TGGCATGT--CAAACTCTAAACTC-TGACATCTCACAGATTCCCTCCATACCATGTCACAAACTC
5795064 TGAACAT-T-GACGTGTCACAGATTCCCTCCATGCCA
127 TGAAC-TCTAGA-GTGTCACAGATTCCCTCCATGCCA
* *
5795099 TGTCACAGATTCCCTCCATGCCGTGTCACAAACTCTGAACACTGACATGTCACAAATTCCCTCCA
1 TGTCACAAATTCCCTCCATGCCATGT-ACAAACTCTGAACACTGACATGTCACAAATTCCCTCCA
* * * * * *
5795164 TGGCGTGTCAAACTCTGAACTCTGACGTGTCACAGATTCCTTCCATACCGTGTCACAAACTCTGA
65 TGGCATGTCAAACTCTAAACTCTGACATCTCACAGATTCCCTCCATACCATGTCACAAACTCTGA
* * *
5795229 ACTCTAGAGTGTCACAGATTCCTTCCATGTCG
130 ACTCTAGAGTGTCACAGATTCCCTCCATGCCA
5795261 TGTCACAAA
1 TGTCACAAA
5795270 CTCTGAACCC
Statistics
Matches: 144, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
161 1 0.01
162 100 0.69
163 4 0.03
164 39 0.27
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (161 bp):
TGTCACAAATTCCCTCCATGCCATGTACAAACTCTGAACACTGACATGTCACAAATTCCCTCCAT
GGCATGTCAAACTCTAAACTCTGACATCTCACAGATTCCCTCCATACCATGTCACAAACTCTGAA
CTCTAGAGTGTCACAGATTCCCTCCATGCCA
Found at i:5795173 original size:70 final size:70
Alignment explanation
Indices: 5795021--5795173 Score: 225
Period size: 70 Copynumber: 2.2 Consensus size: 70
5795011 AAACTCTAAA
* * * * * *
5795021 CCATGGCATCTCACAGATTCCCTCCATGGCATGTCACAAACTTTGAACATTGACGTGTCACAGAT
1 CCATGGCATGTCACAGATTCCCTCCATGCCATGTCACAAACTCTGAACACTGACATGTCACAAAT
5795086 TCCCT
66 TCCCT
* *
5795091 CCATGCCATGTCACAGATTCCCTCCATGCCGTGTCACAAACTCTGAACACTGACATGTCACAAAT
1 CCATGGCATGTCACAGATTCCCTCCATGCCATGTCACAAACTCTGAACACTGACATGTCACAAAT
5795156 TCCCT
66 TCCCT
*
5795161 CCATGGCGTGTCA
1 CCATGGCATGTCA
5795174 AACTCTGAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (70 bp):
CCATGGCATGTCACAGATTCCCTCCATGCCATGTCACAAACTCTGAACACTGACATGTCACAAAT
TCCCT
Found at i:5795209 original size:92 final size:93
Alignment explanation
Indices: 5795099--5795292 Score: 266
Period size: 92 Copynumber: 2.1 Consensus size: 93
5795089 CTCCATGCCA
*
5795099 TGTCACAGATTCCCTCCATGCCGTGTCACAAACTCTGAACACT-GACATGTCACAAATTCCCTCC
1 TGTCACAGATTCCCTCCATACCGTGTCACAAACTCTGAACACTAGA-ATGTCACAAATTCCCTCC
*
5795163 ATGGCGTGT-CAAACTCTGAACTCTGACG
65 ATGGCGTGTACAAACTCTGAACCCTGACG
* * * * *
5795191 TGTCACAGATTCCTTCCATACCGTGTCACAAACTCTGAACTCTAGAGTGTCACAGATTCCTTCCA
1 TGTCACAGATTCCCTCCATACCGTGTCACAAACTCTGAACACTAGAATGTCACAAATTCCCTCCA
* **
5795256 TGTCGTGTCACAAACTCTGAACCCTGTTG
66 TGGCGTGT-ACAAACTCTGAACCCTGACG
5795285 TGTCACAG
1 TGTCACAG
5795293 CCCTGTCACA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
92 63 0.71
93 2 0.02
94 24 0.27
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (93 bp):
TGTCACAGATTCCCTCCATACCGTGTCACAAACTCTGAACACTAGAATGTCACAAATTCCCTCCA
TGGCGTGTACAAACTCTGAACCCTGACG
Found at i:5795288 original size:47 final size:47
Alignment explanation
Indices: 5795099--5795292 Score: 259
Period size: 47 Copynumber: 4.2 Consensus size: 47
5795089 CTCCATGCCA
* *
5795099 TGTCACAGATTCCCTCCATGCCGTGTCACAAACTCTGAACACTGACA
1 TGTCACAGATTCCCTCCATGCCGTGTCACAAACTCTGAACTCTGACG
* *
5795146 TGTCACAAATTCCCTCCATGGCGTGT--CAAACTCTGAACTCTGACG
1 TGTCACAGATTCCCTCCATGCCGTGTCACAAACTCTGAACTCTGACG
* *
5795191 TGTCACAGATTCCTTCCATACCGTGTCACAAACTCTGAACTCTAGA-G
1 TGTCACAGATTCCCTCCATGCCGTGTCACAAACTCTGAACTCT-GACG
* * * **
5795238 TGTCACAGATTCCTTCCATGTCGTGTCACAAACTCTGAACCCTGTTG
1 TGTCACAGATTCCCTCCATGCCGTGTCACAAACTCTGAACTCTGACG
5795285 TGTCACAG
1 TGTCACAG
5795293 CCCTGTCACA
Statistics
Matches: 131, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
45 39 0.30
46 1 0.01
47 89 0.68
48 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (47 bp):
TGTCACAGATTCCCTCCATGCCGTGTCACAAACTCTGAACTCTGACG
Found at i:5799190 original size:18 final size:18
Alignment explanation
Indices: 5799115--5799191 Score: 63
Period size: 18 Copynumber: 4.4 Consensus size: 18
5799105 TAGTATACTG
5799115 TAGTAATATAACTTATAT
1 TAGTAATATAACTTATAT
* *
5799133 TACTAA-AGTAATTTATAT
1 TAGTAATA-TAACTTATAT
* * *
5799151 TAAT-ATTTGTA-TTATA-
1 TAGTAATAT-AACTTATAT
5799167 TAGTAATATAACTTATAT
1 TAGTAATATAACTTATAT
5799185 TAGTAAT
1 TAGTAAT
5799192 TAAATATAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
16 4 0.09
17 16 0.36
18 25 0.56
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (18 bp):
TAGTAATATAACTTATAT
Found at i:5799215 original size:47 final size:50
Alignment explanation
Indices: 5799115--5799215 Score: 111
Period size: 52 Copynumber: 2.0 Consensus size: 50
5799105 TAGTATACTG
**
5799115 TAGTAATATAACTTATATTACTAAAGTAATTTATATTAATATTTGTATTATA
1 TAGTAATATAACTTATATTACTAAAGTAA--TATATTAATAACTGTATTATA
* *
5799167 TAGTAATATAACTTATATTAGT-AATTAA-ATA-TAATAACT-TATTAATA
1 TAGTAATATAACTTATATTACTAAAGTAATATATTAATAACTGTATT-ATA
5799214 TA
1 TA
5799216 TTATATGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
46 4 0.09
47 11 0.25
48 3 0.07
51 5 0.11
52 21 0.48
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (50 bp):
TAGTAATATAACTTATATTACTAAAGTAATATATTAATAACTGTATTATA
Found at i:5802335 original size:2 final size:2
Alignment explanation
Indices: 5802330--5802354 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5802320 AGTATATAGA
5802330 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5802355 ATTAGCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5805988 original size:15 final size:16
Alignment explanation
Indices: 5805962--5805995 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
5805952 GTAAATTTAG
5805962 AATTACGTGACTAGTT
1 AATTACGTGACTAGTT
5805978 AATTA-GTGACTAGTT
1 AATTACGTGACTAGTT
5805993 AAT
1 AAT
5805996 ATGAAATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (16 bp):
AATTACGTGACTAGTT
Found at i:5806078 original size:23 final size:23
Alignment explanation
Indices: 5806052--5806492 Score: 179
Period size: 23 Copynumber: 19.2 Consensus size: 23
5806042 ATTAAATTGT
* *
5806052 GTGAGTAGTAAATATAGAATCGC
1 GTGAGTAGTTAATATGGAATCGC
** * *
5806075 GTGAACAGTTAAGATAGAATCGC
1 GTGAGTAGTTAATATGGAATCGC
* * *
5806098 ATGAGTAGTAAATATTGAATCGC
1 GTGAGTAGTTAATATGGAATCGC
* * ** * * *
5806121 ATGACTA-TGCGATTTAGAATCTC
1 GTGAGTAGT-TAATATGGAATCGC
* * **
5806144 GTGATTAGTTGATA-GTGAATCAT
1 GTGAGTAGTTAATATG-GAATCGC
*
5806167 GTGAGTAGTAAATATTGG-ATCGC
1 GTGAGTAGTTAATA-TGGAATCGC
* * * *
5806190 GTTACTAGTTATTATGGAATCAC
1 GTGAGTAGTTAATATGGAATCGC
* * *
5806213 GTGACTAGTTGATATGGAATCGT
1 GTGAGTAGTTAATATGGAATCGC
* *
5806236 GTGAGTAGTAAATATGGAATTGC
1 GTGAGTAGTTAATATGGAATCGC
* * * * *
5806259 ATTACTAGTTATTATGGAATTGC
1 GTGAGTAGTTAATATGGAATCGC
** * *
5806282 GCAAGTATTTGATATGGAATCGC
1 GTGAGTAGTTAATATGGAATCGC
* *
5806305 GTGAGTAGTAAATATGGAATCAC
1 GTGAGTAGTTAATATGGAATCGC
* * ** **
5806328 ATTG-CTAGTTGTTATGGAATAAC
1 -GTGAGTAGTTAATATGGAATCGC
* *
5806351 ATGATTAGTTAATATGGAATCGC
1 GTGAGTAGTTAATATGGAATCGC
* * *
5806374 ATGAGTAGTAAATATGAAATCGC
1 GTGAGTAGTTAATATGGAATCGC
*** *
5806397 GTTTCTAGTTATTATGGAATCGC
1 GTGAGTAGTTAATATGGAATCGC
** * * * *
5806420 AAGAGAATTTGATATGAAATCGC
1 GTGAGTAGTTAATATGGAATCGC
* * * *
5806443 ATAAGTAGTAAATATGGAATTGC
1 GTGAGTAGTTAATATGGAATCGC
* * * * *
5806466 GTTACTAGCTATTATGGAATCGT
1 GTGAGTAGTTAATATGGAATCGC
5806489 GTGA
1 GTGA
5806493 CTTTCTGATA
Statistics
Matches: 299, Mismatches: 111, Indels: 16
0.70 0.26 0.04
Matches are distributed among these distances:
22 6 0.02
23 288 0.96
24 4 0.01
25 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.33
Consensus pattern (23 bp):
GTGAGTAGTTAATATGGAATCGC
Found at i:5806487 original size:69 final size:69
Alignment explanation
Indices: 5806091--5806487 Score: 354
Period size: 69 Copynumber: 5.8 Consensus size: 69
5806081 AGTTAAGATA
* * * ** * * ** *
5806091 GAATCGCATGAGTAGTAAATATTGAATCGCATGACTATGCGATT-TAGAATCTCGTGATTAGTTG
1 GAATCGCATGAGTAGTAAATATGGAATCGCGTTACTA-GTTATTATGGAATCGCAAGAGTAGTTG
5806155 ATA-G
65 ATATG
*** * ** *
5806159 TGAATCATGTGAGTAGTAAATATTGG-ATCGCGTTACTAGTTATTATGGAATCACGTGACTAGTT
1 -GAATCGCATGAGTAGTAAATA-TGGAATCGCGTTACTAGTTATTATGGAATCGCAAGAGTAGTT
5806223 GATATG
64 GATATG
** * * *
5806229 GAATCGTGTGAGTAGTAAATATGGAATTGCATTACTAGTTATTATGGAATTGCGC-A-AGTATTT
1 GAATCGCATGAGTAGTAAATATGGAATCGCGTTACTAGTTATTATGGAA-T-CGCAAGAGTAGTT
5806292 GATATG
64 GATATG
* * * * * ** * * *
5806298 GAATCGCGTGAGTAGTAAATATGGAATCACATTGCTAGTTGTTATGGAATAACATGATTAGTTAA
1 GAATCGCATGAGTAGTAAATATGGAATCGCGTTACTAGTTATTATGGAATCGCAAGAGTAGTTGA
5806363 TATG
66 TATG
* * * *
5806367 GAATCGCATGAGTAGTAAATATGAAATCGCGTTTCTAGTTATTATGGAATCGCAAGAGAATTTGA
1 GAATCGCATGAGTAGTAAATATGGAATCGCGTTACTAGTTATTATGGAATCGCAAGAGTAGTTGA
5806432 TATG
66 TATG
* * * *
5806436 AAATCGCATAAGTAGTAAATATGGAATTGCGTTACTAGCTATTATGGAATCG
1 GAATCGCATGAGTAGTAAATATGGAATCGCGTTACTAGTTATTATGGAATCG
5806488 TGTGACTTTC
Statistics
Matches: 272, Mismatches: 48, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
67 1 0.00
68 8 0.03
69 257 0.94
70 4 0.01
71 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (69 bp):
GAATCGCATGAGTAGTAAATATGGAATCGCGTTACTAGTTATTATGGAATCGCAAGAGTAGTTGA
TATG
Found at i:5809534 original size:12 final size:12
Alignment explanation
Indices: 5809502--5809535 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5809492 TGAGAAATTT
5809502 TTTTAATTATTA
1 TTTTAATTATTA
* *
5809514 TTATCATTATTA
1 TTTTAATTATTA
5809526 TTTTAATTAT
1 TTTTAATTAT
5809536 GATATTACTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTAATTATTA
Found at i:5809936 original size:13 final size:12
Alignment explanation
Indices: 5809914--5809956 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
5809904 AGTTTACCCA
5809914 AAATTTAATTAT
1 AAATTTAATTAT
5809926 AAATATTAATTAT
1 AAAT-TTAATTAT
** *
5809939 TGATTTAATTTT
1 AAATTTAATTAT
5809951 AAATTT
1 AAATTT
5809957 GTAACTTCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
AAATTTAATTAT
Found at i:5810862 original size:31 final size:30
Alignment explanation
Indices: 5810826--5810934 Score: 97
Period size: 31 Copynumber: 3.7 Consensus size: 30
5810816 TAATATTATT
5810826 ATTAAAATAAATATATAATATAAGAATAAAA
1 ATTAAAATAAATATATAATAT-AGAATAAAA
5810857 ATTAAAATAAA-ATA-AA-AT---ATAAAA
1 ATTAAAATAAATATATAATATAGAATAAAA
* ** *
5810881 ATTAATATTTATA-ATAATATAGATAAAACAA
1 ATTAAAATAAATATATAATATAGA-ATAA-AA
5810912 ATTAAAATAAAATATATAATATA
1 ATTAAAAT-AAATATATAATATA
5810935 AAAATATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
24 15 0.25
25 3 0.05
26 2 0.03
28 2 0.03
29 2 0.03
30 6 0.10
31 20 0.33
32 3 0.05
33 8 0.13
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (30 bp):
ATTAAAATAAATATATAATATAGAATAAAA
Found at i:5810878 original size:24 final size:25
Alignment explanation
Indices: 5810829--5810939 Score: 93
Period size: 26 Copynumber: 4.2 Consensus size: 25
5810819 TATTATTATT
*
5810829 AAAA-TAAATATATAATATAAGA-ATA
1 AAAATTAAA-ATAAAATATAA-ATATA
5810854 AAAATTAAAATAAAATA-AAATATA
1 AAAATTAAAATAAAATATAAATATA
* *
5810878 AAAATTAATATTTATAATAATATAGATAAA
1 AAAATTAA-A---ATAA-AATATAAATATA
5810908 ACAAATTAAAATAAAATATATAATATA
1 A-AAATTAAAATAAAATATA-AATATA
5810935 AAAAT
1 AAAAT
5810940 ATATTAAAGA
Statistics
Matches: 71, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
23 1 0.01
24 13 0.18
25 12 0.17
26 14 0.20
27 9 0.13
28 4 0.06
29 4 0.06
30 7 0.10
31 7 0.10
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAATTAAAATAAAATATAAATATA
Found at i:5810885 original size:55 final size:57
Alignment explanation
Indices: 5810826--5810939 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 57
5810816 TAATATTATT
*
5810826 ATTAAAATAAATATATAATATAAGA-ATAA-AAATTAAAATAAAATA-A-AATATAAAA
1 ATTAAAATAAATA-ATAATAT-AGATAAAACAAATTAAAATAAAATATATAATATAAAA
* **
5810881 ATTAATATTTATAATAATATAGATAAAACAAATTAAAATAAAATATATAATATAAAA
1 ATTAAAATAAATAATAATATAGATAAAACAAATTAAAATAAAATATATAATATAAAA
5810938 AT
1 AT
5810940 ATATTAAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
53 3 0.06
54 10 0.20
55 26 0.51
56 1 0.02
57 11 0.22
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.31
Consensus pattern (57 bp):
ATTAAAATAAATAATAATATAGATAAAACAAATTAAAATAAAATATATAATATAAAA
Found at i:5810887 original size:12 final size:13
Alignment explanation
Indices: 5810829--5811222 Score: 101
Period size: 12 Copynumber: 30.0 Consensus size: 13
5810819 TATTATTATT
5810829 AAAATA-AATAT-
1 AAAATATAATATA
* *
5810840 ATAATATAAGAATA
1 AAAATATAA-TATA
*
5810854 AAAAT-TAAAAT-
1 AAAATATAATATA
*
5810865 AAAATAAAATATA
1 AAAATATAATATA
5810878 AAAAT-TAATATTTA
1 AAAATATAATA--TA
*
5810892 TAATAATATAGATAAA
1 -AA-AATATA-ATATA
*
5810908 ACAAAT-TAAAATA
1 A-AAATATAATATA
5810921 AAATATATAATATA
1 AAA-ATATAATATA
5810935 AAAATAT-AT-TA
1 AAAATATAATATA
5810946 AAGAA-ATAA-A-A
1 AA-AATATAATATA
5810957 ATAAA-AT-ATATA
1 A-AAATATAATATA
*
5810969 AAATTATAATA-A
1 AAAATATAATATA
*
5810981 TAAATA-AA-ATA
1 AAAATATAATATA
5810992 AAATATATGACAT-TA
1 AAA-ATAT-A-ATATA
*
5811007 AAAATAT-ATTTA
1 AAAATATAATATA
5811019 AAATATGATATTATATA
1 AAA-AT-ATA--ATATA
5811036 AAAATTAATAATATA
1 AAAA-T-ATAATATA
*
5811051 TATATAA-ATAATATT
1 -A-A-AATATAATATA
*
5811066 AAAATAAAATATA
1 AAAATATAATATA
5811079 AAATATTATAATA-A
1 AAA-A-TATAATATA
*
5811093 TAAATA-AA-ATA
1 AAAATATAATATA
5811104 AAAATAATGACAT-TA
1 AAAAT-AT-A-ATATA
*
5811119 AAAATAT-AT-TT
1 AAAATATAATATA
5811130 AAAATATGAATTATA
1 AAAATAT-AA-TATA
5811145 TTAAAAT-TAATATA
1 --AAAATATAATATA
*
5811159 TAAATATAAATATA
1 AAAATAT-AATATA
*
5811173 TTAAA-A-AATA-A
1 -AAAATATAATATA
* *
5811184 AAAATAAAATATT
1 AAAATATAATATA
*
5811197 ATAATAATAA-ATA
1 AAAAT-ATAATATA
*
5811210 AAAATAAAATATA
1 AAAATATAATATA
5811223 TGACATTAAA
Statistics
Matches: 290, Mismatches: 32, Indels: 120
0.66 0.07 0.27
Matches are distributed among these distances:
10 6 0.02
11 51 0.18
12 58 0.20
13 51 0.18
14 47 0.16
15 45 0.16
16 8 0.03
17 19 0.07
18 5 0.02
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (13 bp):
AAAATATAATATA
Found at i:5810938 original size:15 final size:15
Alignment explanation
Indices: 5810920--5811096 Score: 78
Period size: 15 Copynumber: 12.1 Consensus size: 15
5810910 AAATTAAAAT
5810920 AAAATATATAATATA
1 AAAATATATAATATA
5810935 AAAATATAT--TA-A
1 AAAATATATAATATA
5810947 AGAAATA-A-AA-ATA
1 A-AAATATATAATATA
*
5810960 AAATATATAAAATTATA
1 AAA-ATATATAA-TATA
* * *
5810977 ATAATAAATAAAAT-
1 AAAATATATAATATA
5810991 AAAATATATGACAT-TA
1 AAAATATAT-A-ATATA
5811007 AAAATATAT--T-TA
1 AAAATATATAATATA
*
5811019 AAATATGATATTATATA
1 AAA-AT-ATATAATATA
5811036 AAAAT-TAATAATATA
1 AAAATAT-ATAATATA
* * * *
5811051 TATATAAATAATATT
1 AAAATATATAATATA
5811066 AAAATA-A-AATAT-
1 AAAATATATAATATA
5811078 AAAATATTATAATAATA
1 AAAATA-TATAAT-ATA
5811095 AA
1 AA
5811097 TAAAATAAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 46
0.67 0.08 0.25
Matches are distributed among these distances:
12 18 0.15
13 19 0.15
14 15 0.12
15 39 0.31
16 21 0.17
17 12 0.10
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAATATATAATATA
Found at i:5810968 original size:34 final size:32
Alignment explanation
Indices: 5810916--5810999 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 32
5810906 AAACAAATTA
* *
5810916 AAATAAAAT-ATATAATATAAAAATATATTAAAG
1 AAATAAAATAAAAT-ATATAAAAATATAAT-AAG
* *
5810949 AAATAAAAATAAAATATATAAAATTATAATAAT
1 AAAT-AAAATAAAATATATAAAAATATAATAAG
5810982 AAATAAAATAAAATATAT
1 AAATAAAATAAAATATAT
5811000 GACATTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
32 14 0.31
33 10 0.22
34 18 0.40
35 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (32 bp):
AAATAAAATAAAATATATAAAAATATAATAAG
Found at i:5811087 original size:112 final size:112
Alignment explanation
Indices: 5810952--5811300 Score: 568
Period size: 112 Copynumber: 3.1 Consensus size: 112
5810942 ATTAAAGAAA
5810952 TAAAAATAAAATATATAAA-ATTATAATAATAAATAAAATAAAATATATGACATTAAAAATATAT
1 TAAAAATAAAATATA-AAATATTATAATAATAAATAAAATAAAATATATGACATTAAAAATATAT
5811016 TTAAAATATGATATTATATAAAAATTAATAATATATATATAAATAATAT
65 TTAAAATATGATATTATATAAAAATTAATAATATATATATAAAT-ATAT
5811065 T-AAAATAAAATATAAAATATTATAATAATAAATAAAATAAAA-ATAATGACATTAAAAATATAT
1 TAAAAATAAAATATAAAATATTATAATAATAAATAAAATAAAATAT-ATGACATTAAAAATATAT
* *
5811128 TTAAAATATGA-ATTATATTAAAATTAAT-ATATAAATATAAATATAT
65 TTAAAATATGATATTATATAAAAATTAATAATATATATATAAATATAT
*
5811174 TAAAAAATAAAAAATAAAATATTATAATAATAAATAAAAATAAAATATATGACATT-AAAATATA
1 T-AAAAATAAAATATAAAATATTATAATAATAAAT-AAAATAAAATATATGACATTAAAAATATA
5811238 TTTAAAATATGATATTATATAAAAATTAATAATATA-ATATTAAATATAT
64 TTTAAAATATGATATTATATAAAAATTAATAATATATATA-TAAATATAT
5811287 TAAAAATAAAATAT
1 TAAAAATAAAATAT
5811301 TAGTGACATT
Statistics
Matches: 222, Mismatches: 5, Indels: 19
0.90 0.02 0.08
Matches are distributed among these distances:
109 5 0.02
110 13 0.06
111 72 0.32
112 114 0.51
113 18 0.08
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.35
Consensus pattern (112 bp):
TAAAAATAAAATATAAAATATTATAATAATAAATAAAATAAAATATATGACATTAAAAATATATT
TAAAATATGATATTATATAAAAATTAATAATATATATATAAATATAT
Found at i:5811104 original size:15 final size:15
Alignment explanation
Indices: 5810914--5811110 Score: 54
Period size: 15 Copynumber: 12.9 Consensus size: 15
5810904 TAAAACAAAT
*
5810914 TAAAATAA-AATATA
1 TAAAATAATAATAAA
* * *
5810928 TAATATAAAAATATAT
1 TAAAATAATAATA-AA
5810944 TAAAGA-AATAA-AAA
1 TAAA-ATAATAATAAA
5810958 TAAAAT-AT-ATAAA
1 TAAAATAATAATAAA
**
5810971 -ATTATAATAATAAA
1 TAAAATAATAATAAA
*
5810985 TAAAATAA-AATATA
1 TAAAATAATAATAAA
* * * *
5810999 TGACATTAAAAATATATT
1 T-AAAATAATAATA-A-A
* *
5811017 TAAAATATGATATTATA
1 TAAAATA--ATAATAAA
5811034 TAAAAATTAATAATATATA
1 T-AAAA-TAATAATA-A-A
*
5811053 TATAAATAATATTAAAA
1 TA-AAATAATAAT-AAA
5811070 TAAAAT-AT-A-AAA
1 TAAAATAATAATAAA
**
5811082 TATTATAATAATAAA
1 TAAAATAATAATAAA
*
5811097 TAAAATAAAAATAA
1 TAAAATAATAATAA
5811111 TGACATTAAA
Statistics
Matches: 130, Mismatches: 30, Indels: 45
0.63 0.15 0.22
Matches are distributed among these distances:
12 11 0.08
13 10 0.08
14 24 0.18
15 31 0.24
16 15 0.12
17 14 0.11
18 13 0.10
19 12 0.09
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (15 bp):
TAAAATAATAATAAA
Found at i:5811194 original size:30 final size:29
Alignment explanation
Indices: 5811033--5811222 Score: 103
Period size: 29 Copynumber: 6.6 Consensus size: 29
5811023 ATGATATTAT
* *
5811033 ATAAAAATTAATAATAT-ATATA-TAAATA
1 ATAAAAAATAA-AATATAATATATTAAAAA
* * *
5811061 ATATTAAAATAAAATATAAAATATTATAATA
1 ATA-AAAAATAAAATATAATATATTA-AAAA
*
5811092 ATAAATAAAATAAAA-ATAATGACATT-AAAA
1 AT-AA-AAAATAAAATATAAT-ATATTAAAAA
* **
5811122 AT-ATATTTAAAATATGAATTATATT-AAAA
1 ATAAAAAATAAAATAT-AA-TATATTAAAAA
* * *
5811151 TTAATATAT-AAATATAAATATATTAAAAA
1 ATAAAAAATAAAATAT-AATATATTAAAAA
* *
5811180 ATAAAAAATAAAATAT--TATAATAATAA
1 ATAAAAAATAAAATATAATATATTAAAAA
5811207 AT-AAAAATAAAATATA
1 ATAAAAAATAAAATATA
5811223 TGACATTAAA
Statistics
Matches: 129, Mismatches: 19, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
26 13 0.10
27 17 0.13
28 17 0.13
29 39 0.30
30 19 0.15
31 10 0.08
32 14 0.11
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (29 bp):
ATAAAAAATAAAATATAATATATTAAAAA
Found at i:5811236 original size:79 final size:81
Alignment explanation
Indices: 5811153--5811385 Score: 218
Period size: 81 Copynumber: 2.9 Consensus size: 81
5811143 TATTAAAATT
* *
5811153 AATATATAAATATAAATATATTA-AAAAATAAAAAATAAAATATTATAATAATAAATAAAAATAA
1 AATATATAAATATAAATATATTATAAAAATTAATAATAAAATATTATAATAATAAATAAAAATAA
5811217 AATATA-TGACATTAA
66 AATATAGTGACATTAA
* * *
5811232 AATATATTTAAA-ATATGATAT-TATATAAAAATTAATAATATAATATTA-AAT-AT-ATTAAAA
1 AATATA--TAAATATA-AATATAT-TATAAAAATTAATAATAAAATATTATAATAATAAATAAAA
5811292 ATAAAATATTAGTGACATTAA
62 ATAAAATA-TAGTGACATTAA
* *
5811313 AATAT-T--TTAAAAATGATATTATATAAAATTAATAATAAAAATATTAATATATTAA-AAATAA
1 AATATATAAATATAAAT-ATATTATA-AAAATTAATAAT-AAAATATT-ATA-A-TAATAAATAA
5811374 AATATAAAATAT
60 AA-ATAAAATAT
5811386 TATAATAATA
Statistics
Matches: 125, Mismatches: 10, Indels: 33
0.74 0.06 0.20
Matches are distributed among these distances:
76 2 0.02
77 8 0.06
78 14 0.11
79 27 0.22
80 9 0.07
81 28 0.22
82 20 0.16
83 1 0.01
84 8 0.06
85 8 0.06
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (81 bp):
AATATATAAATATAAATATATTATAAAAATTAATAATAAAATATTATAATAATAAATAAAAATAA
AATATAGTGACATTAA
Found at i:5811367 original size:55 final size:55
Alignment explanation
Indices: 5811285--5811480 Score: 170
Period size: 56 Copynumber: 3.5 Consensus size: 55
5811275 TATTAAATAT
* *
5811285 ATTAAAAATAAAATATTAGTGACATTAAAATATTTTAAAAATGATATTATATAAA
1 ATTAAAAATAAAATATTAATGATATTAAAATATTTTAAAAATGATATTATATAAA
* *** *
5811340 ATTAATAATAAAAATATTAAT-ATATTAAAAATAAAATATAAA--ATATTATAATAATA
1 ATTAAAAAT-AAAATATTAATGATATT-AAAATATTTTAAAAATGATATTAT-ATAA-A
* * *
5811396 AATAAAAATAAAATA-T-ATGATATTAAAAAATATTTAAGAAATGATATTTTATAAA
1 ATTAAAAATAAAATATTAATGATATTAAAATAT-TTTAA-AAATGATATTATATAAA
* *
5811451 ATTAATAATAAAAAATATAAAT-ATATTAAA
1 ATTAA-AA-ATAAAATATTAATGATATTAAA
5811481 CTTATGTTTT
Statistics
Matches: 110, Mismatches: 18, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
53 7 0.06
54 15 0.14
55 30 0.27
56 35 0.32
57 13 0.12
58 8 0.07
59 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (55 bp):
ATTAAAAATAAAATATTAATGATATTAAAATATTTTAAAAATGATATTATATAAA
Found at i:5811391 original size:190 final size:191
Alignment explanation
Indices: 5811098--5811480 Score: 582
Period size: 190 Copynumber: 2.0 Consensus size: 191
5811088 AATAATAAAT
*
5811098 AAAATAAAAATAATGACATTAAAAATATATTTAAAATATGAATTATATTAAAATTAATATATAAA
1 AAAATAAAAATAATGACATTAAAAATATATTTAAAATATGAATTATATTAAAATTAATATAAAAA
5811163 TATAAATATATTAAAAAATAAAAAATAAAATATTATAATAATAAATAAAAATAAAATATATGACA
66 TATAAATATATTAAAAAATAAAAAATAAAATATTATAATAATAAATAAAAATAAAATATATGACA
* * *
5811228 TTAAAATATATTTAA-AATATGATATTATATAAAAATTAATAATATAATAT-TAAATATATTA
131 TTAAAAAATATTTAAGAA-ATGATATTATAT-AAAATTAATAATAAAAAATATAAATATATTA
*
5811289 AAAATAAAATATTAGTGACATT-AAAATAT-TTTAAAA-ATGATATTATA-TAAAATTAATAATA
1 AAAATAAAA-A-TAATGACATTAAAAATATATTTAAAATATGA-ATTATATTAAAATTAAT-ATA
* *
5811350 AAAATATTAATATATT-AAAAATAAAATATAAAATATTATAATAATAAATAAAAATAAAATATAT
62 AAAATATAAATATATTAAAAAATAAAAAATAAAATATTATAATAATAAATAAAAATAAAATATAT
* *
5811414 GATATTAAAAAATATTTAAGAAATGATATTTTATAAAATTAATAATAAAAAATATAAATATATTA
127 GACATTAAAAAATATTTAAGAAATGATATTATATAAAATTAATAATAAAAAATATAAATATATTA
5811479 AA
1 AA
5811481 CTTATGTTTT
Statistics
Matches: 177, Mismatches: 9, Indels: 13
0.89 0.05 0.07
Matches are distributed among these distances:
189 17 0.10
190 102 0.58
191 41 0.23
192 8 0.05
193 9 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (191 bp):
AAAATAAAAATAATGACATTAAAAATATATTTAAAATATGAATTATATTAAAATTAATATAAAAA
TATAAATATATTAAAAAATAAAAAATAAAATATTATAATAATAAATAAAAATAAAATATATGACA
TTAAAAAATATTTAAGAAATGATATTATATAAAATTAATAATAAAAAATATAAATATATTA
Found at i:5811648 original size:15 final size:15
Alignment explanation
Indices: 5811623--5811666 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5811613 TGTTATTTTT
*
5811623 CCTGTAATCACATTA
1 CCTGCAATCACATTA
**
5811638 GTTGCAATCACATTA
1 CCTGCAATCACATTA
*
5811653 CCTGTAATCACATT
1 CCTGCAATCACATT
5811667 GCATTGTAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (15 bp):
CCTGCAATCACATTA
Found at i:5815140 original size:5 final size:5
Alignment explanation
Indices: 5815118--5815264 Score: 65
Period size: 5 Copynumber: 29.4 Consensus size: 5
5815108 ATATTATAAT
* * * *
5815118 TAAAA TAAAA -ATAT TAAAA TAAAA TATATAA TATAA -AAAT TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA-A-AA TAAAA TAAAA TAAAA TAAAA
* ** * * *
5815168 TAAAA TATAAA -AAAT TAAAA T-TTA TATAA TATAAG TAAAA TAAAT TAAAA
1 TAAAA TA-AAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAAA TAAAA TAAAA
* * *
5815218 TAAAA T-ATA TAATA TAAAA -AATTA TAATAA T-AAA TGAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAA-AA TAAAA T-AAAA TAAAA
5815263 TA
1 TA
5815265 TATGACATTC
Statistics
Matches: 107, Mismatches: 22, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
4 16 0.15
5 71 0.66
6 16 0.15
7 4 0.04
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (5 bp):
TAAAA
Found at i:5815151 original size:40 final size:40
Alignment explanation
Indices: 5815104--5815267 Score: 140
Period size: 40 Copynumber: 4.1 Consensus size: 40
5815094 AAAAATATTT
* *
5815104 TATAATATTATAATTAAAATAAAAATATTAAAATAAAATA
1 TATAATATAAAAATTAAAATAAAAATATTAAAATAAAATA
*
5815144 TATAATATAAAAATTAAAAT-AAAATA--AAATATAAAAAA
1 TATAATATAAAAATTAAAATAAAAATATTAAA-ATAAAATA
* * * * *
5815182 TTAAAATTTATATAA-TATAAGTAAAATAAATTAAAATAAAATA
1 -TATAATATA-AAAATTA-AAATAAAA-ATATTAAAATAAAATA
* * *
5815225 TATAATATAAAAAATTATAATAATAA-ATGAAAATAAAATA
1 TATAATAT-AAAAATTAAAATAAAAATATTAAAATAAAATA
5815265 TAT
1 TAT
5815268 GACATTCAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
37 3 0.03
38 7 0.07
39 15 0.15
40 40 0.41
41 4 0.04
42 16 0.16
43 10 0.10
44 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (40 bp):
TATAATATAAAAATTAAAATAAAAATATTAAAATAAAATA
Found at i:5815170 original size:31 final size:31
Alignment explanation
Indices: 5815132--5815264 Score: 96
Period size: 31 Copynumber: 4.2 Consensus size: 31
5815122 ATAAAAATAT
*
5815132 TAAAATAAAATATATAATATAAAAATTAAAA
1 TAAAATAAAATATATAAAATAAAAATTAAAA
* *
5815163 TAAAATAAAATATAAAAAATTAAAATTTATATAA
1 TAAAATAAAATATATAAAA-TAAAAATTA-A-AA
* * *
5815197 TATAAGTAAAATAAATTAAAAT-AAAATATATAA
1 TA-AAATAAAATATA-TAAAATAAAAAT-TAAAA
* *
5815230 TATAA-AAAAT-TAT--AATAATAAATGAAAA
1 TAAAATAAAATATATAAAATAA-AAATTAAAA
5815258 TAAAATA
1 TAAAATA
5815265 TATGACATTC
Statistics
Matches: 79, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
27 3 0.04
28 8 0.10
29 6 0.08
30 1 0.01
31 22 0.28
32 9 0.11
33 5 0.06
34 8 0.10
35 13 0.16
36 4 0.05
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (31 bp):
TAAAATAAAATATATAAAATAAAAATTAAAA
Found at i:5815195 original size:50 final size:56
Alignment explanation
Indices: 5815118--5815241 Score: 145
Period size: 55 Copynumber: 2.3 Consensus size: 56
5815108 ATATTATAAT
* *
5815118 TAAAATA-AAAATATTAAAA-T-AAAAT-ATATAA-TATAA-AAATTAAAATAAAA
1 TAAAATATAAAAAATTAAAATTAAAAATAATATAAGTAAAATAAATTAAAATAAAA
* *
5815168 TAAAATATAAAAAATTAAAATT-TATATAATATAAGTAAAATAAATTAAAATAAAA
1 TAAAATATAAAAAATTAAAATTAAAAATAATATAAGTAAAATAAATTAAAATAAAA
5815223 TATATAATATAAAAAATTA
1 TA-A-AATATAAAAAATTA
5815242 TAATAATAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
50 7 0.11
51 11 0.17
52 4 0.06
53 6 0.10
54 4 0.06
55 16 0.25
56 1 0.02
57 14 0.22
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.31
Consensus pattern (56 bp):
TAAAATATAAAAAATTAAAATTAAAAATAATATAAGTAAAATAAATTAAAATAAAA
Found at i:5815209 original size:35 final size:32
Alignment explanation
Indices: 5815113--5815234 Score: 87
Period size: 35 Copynumber: 3.8 Consensus size: 32
5815103 TTATAATATT
* *
5815113 ATAATTAAAATAAAA-ATAT--TA-AAATAAA
1 ATAAATAAAATAAAATATATAATATAAGTAAA
* * * *
5815141 ATATATAATATAAAA-AT-TAAAATAAAATAAA
1 ATAAATAAAATAAAATATATAATAT-AAGTAAA
5815172 ATATAA-AAAATTAAAATTTATATAATATAAGTAAA
1 ATA-AATAAAA-TAAAA--TATATAATATAAGTAAA
5815207 ATAAATTAAAATAAAATATATAATATAA
1 ATAAA-TAAAATAAAATATATAATATAA
5815235 AAAATTATAA
Statistics
Matches: 74, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
27 1 0.01
28 14 0.19
29 1 0.01
31 13 0.18
32 6 0.08
33 12 0.16
34 2 0.03
35 16 0.22
36 9 0.12
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (32 bp):
ATAAATAAAATAAAATATATAATATAAGTAAA
Found at i:5815243 original size:50 final size:49
Alignment explanation
Indices: 5815115--5815261 Score: 153
Period size: 50 Copynumber: 3.0 Consensus size: 49
5815105 ATAATATTAT
* *
5815115 AATTAAAATAAAA-ATAT--TA-AAATAAAATATATAATATAA-AAATTA
1 AATTAAAATAAAATATATAATATAAA-AAATTATATAATATAATAAAATA
* * * * *
5815160 AAATAAAATAAAATATAAAAAATTAAAATTTATATAATATAAGTAAAATA
1 AATTAAAATAAAATATATAATATAAAAAATTATATAATATAA-TAAAATA
5815210 AATTAAAATAAAATATATAATATAAAAAATTATAATAATA-AATGAAAATA
1 AATTAAAATAAAATATATAATATAAAAAATTAT-ATAATATAAT-AAAATA
5815260 AA
1 AA
5815262 ATATATGACA
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
45 12 0.15
46 3 0.04
48 15 0.18
49 3 0.04
50 43 0.52
51 6 0.07
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (49 bp):
AATTAAAATAAAATATATAATATAAAAAATTATATAATATAATAAAATA
Found at i:5815510 original size:15 final size:15
Alignment explanation
Indices: 5815490--5815541 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
5815480 CCCTGTAATG
* *
5815490 ATATTACTTGCAATT
1 ATATTACCTGCAATC
5815505 ATATTACCTGCAATC
1 ATATTACCTGCAATC
* *
5815520 ATATTATCTGTAATC
1 ATATTACCTGCAATC
*
5815535 ACATTAC
1 ATATTAC
5815542 ATTGTAAAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (15 bp):
ATATTACCTGCAATC
Found at i:5816555 original size:2 final size:2
Alignment explanation
Indices: 5816548--5816579 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5816538 AAAAGGATCG
5816548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5816580 TCTTGTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5830134 original size:30 final size:30
Alignment explanation
Indices: 5830083--5830159 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 30
5830073 AGAGAAAATA
*
5830083 TAATTGAATACATAATC-TCTCTGTAATCTTT
1 TAATTCAATA-ATAA-CATCTCTGTAATCTTT
* *
5830114 TCATTCAATAATAACATCTCTGTAGTCTTT
1 TAATTCAATAATAACATCTCTGTAATCTTT
5830144 TAATTCAATAATAACA
1 TAATTCAATAATAACA
5830160 CTTATGAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 1 0.02
30 32 0.78
31 8 0.20
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (30 bp):
TAATTCAATAATAACATCTCTGTAATCTTT
Found at i:5852640 original size:28 final size:28
Alignment explanation
Indices: 5852609--5852662 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
5852599 TGATCTTATT
5852609 AAAATCATG-GCTTTGAGGTGAGCTCAGC
1 AAAATCATGTG-TTTGAGGTGAGCTCAGC
*
5852637 AAAATCATGTGTTTGTGGTGAGCTCA
1 AAAATCATGTGTTTGAGGTGAGCTCA
5852663 AAAAAACCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
AAAATCATGTGTTTGAGGTGAGCTCAGC
Found at i:5852668 original size:28 final size:27
Alignment explanation
Indices: 5852590--5852674 Score: 80
Period size: 28 Copynumber: 3.1 Consensus size: 27
5852580 ACATTGTATG
* * **
5852590 GGTTTGTGGTGATCTTATTAAAATCAT
1 GGTTTGTGGTGAGCTCAAAAAAATCAT
* **
5852617 GGCTTTGAGGTGAGCTCAGCAAAATCAT
1 GG-TTTGTGGTGAGCTCAAAAAAATCAT
*
5852645 GTGTTTGTGGTGAGCTCAAAAAAACCAT
1 G-GTTTGTGGTGAGCTCAAAAAAATCAT
5852673 GG
1 GG
5852675 GTTATCACTT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.06
28 43 0.91
29 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (27 bp):
GGTTTGTGGTGAGCTCAAAAAAATCAT
Found at i:5859359 original size:35 final size:35
Alignment explanation
Indices: 5859199--5859413 Score: 181
Period size: 35 Copynumber: 6.1 Consensus size: 35
5859189 TTAATTGTTT
* * * *
5859199 AATTTAATTAATTAAGTCC-AATAACTTAATTAAAT
1 AATTTAATTAA-TCAGGCCTAATGACTTAATTAAAC
* * ** * *
5859234 AATTTAATTAATTAAGCCTAACAATTTGATTAAAC
1 AATTTAATTAATCAGGCCTAATGACTTAATTAAAC
* *
5859269 AATTTTAATCAATCAGGCCCCAATGACTTAATTAAAC
1 AA-TTTAATTAATCAGG-CCTAATGACTTAATTAAAC
*
5859306 AATTTTAATCAA-CTAGGCCTAATGACTTAATTAAAC
1 AA-TTTAATTAATC-AGGCCTAATGACTTAATTAAAC
*
5859342 AATTTAATTAGTCAGGCCTAATGACTTAATT-AAC
1 AATTTAATTAATCAGGCCTAATGACTTAATTAAAC
* * *
5859376 AAATTTAATTAATTATG-C--ATAACTTAATTAAAC
1 -AATTTAATTAATCAGGCCTAATGACTTAATTAAAC
5859409 AATTT
1 AATTT
5859414 TAATCAAGTA
Statistics
Matches: 151, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
32 15 0.10
33 3 0.02
34 8 0.05
35 63 0.42
36 33 0.22
37 29 0.19
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (35 bp):
AATTTAATTAATCAGGCCTAATGACTTAATTAAAC
Found at i:5860866 original size:135 final size:134
Alignment explanation
Indices: 5860625--5860880 Score: 361
Period size: 135 Copynumber: 1.9 Consensus size: 134
5860615 ATTATTTTTC
* * *
5860625 AATTTAATTGGTTAATAACTCTGAAATTCAATTTTCTCTAAATTTAGTAATTTTCCTTTTTGGTT
1 AATTTAATCGGCTAATAACTCTGAAATTCAATTTTCTCCAAATTTAGTAATTTTCCTTTTTGGTT
**
5860690 TAGATTAGAGAATTTGGAGCTAAGACTCATGCAATCTAGCTTCTACGGTATGGGTTTAGCTCATT
66 TAGATTAGAGAATTTGGAGCTAAGACTCATGCAATCTAGCTTCTAAAGTATGGGTTTAGCTCATT
5860755 AATG
131 AATG
* * ** *
5860759 AATTTAATCGGCTATTAACTTTGAAATAT-AATTTTCTCCAGCTTTGGTAATTTTCCTTCTTTGG
1 AATTTAATCGGCTAATAACTCTGAAAT-TCAATTTTCTCCAAATTTAGTAATTTTCCTT-TTTGG
* * **
5860823 TTTGGATTGGAGAATTTGGAGCTAAGACTTGTGCAATCTAGCTTCTAAAGTATGGGTT
64 TTTAGATTAGAGAATTTGGAGCTAAGACTCATGCAATCTAGCTTCTAAAGTATGGGTT
5860881 AACCTTGTTA
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
134 48 0.45
135 58 0.55
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (134 bp):
AATTTAATCGGCTAATAACTCTGAAATTCAATTTTCTCCAAATTTAGTAATTTTCCTTTTTGGTT
TAGATTAGAGAATTTGGAGCTAAGACTCATGCAATCTAGCTTCTAAAGTATGGGTTTAGCTCATT
AATG
Found at i:5864689 original size:19 final size:20
Alignment explanation
Indices: 5864657--5864696 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
5864647 GGCTAGAGGA
5864657 AATTTTTAGAATAAAATAAT
1 AATTTTTAGAATAAAATAAT
5864677 AATTTTTAG-ATAAAATAAT
1 AATTTTTAGAATAAAATAAT
5864696 A
1 A
5864697 TTAAGCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
AATTTTTAGAATAAAATAAT
Found at i:5864952 original size:28 final size:30
Alignment explanation
Indices: 5864913--5864995 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 30
5864903 GTAAATAATA
* *
5864913 AAAAGTTAAAGGATGAAGTT-TAA-TTATC
1 AAAAGTTGAAGGATCAAGTTATAATTTATC
* * *
5864941 AAAAGTTGAAGGTTCAATTTATAATTTATG
1 AAAAGTTGAAGGATCAAGTTATAATTTATC
* *
5864971 AAAAGTTTGAAGGACCAAATTATAA
1 AAAAG-TTGAAGGATCAAGTTATAA
5864996 AAGATGAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
28 16 0.36
29 3 0.07
30 9 0.20
31 16 0.36
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.33
Consensus pattern (30 bp):
AAAAGTTGAAGGATCAAGTTATAATTTATC
Found at i:5864983 original size:31 final size:31
Alignment explanation
Indices: 5864934--5865021 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
5864924 GATGAAGTTT
* * *
5864934 AATTATCAAAAG-TTGAAGGTTCAATTTATA
1 AATTATGAAAAGTTTGAAGGTCCAAATTATA
* *
5864964 ATTTATGAAAAGTTTGAAGGACCAAATTATA
1 AATTATGAAAAGTTTGAAGGTCCAAATTATA
**
5864995 AAAGATGAAAAGTTTGGAAGGT-CAAAT
1 AATTATGAAAAGTTT-GAAGGTCCAAAT
5865022 GGTAAATAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 10 0.21
31 32 0.68
32 5 0.11
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (31 bp):
AATTATGAAAAGTTTGAAGGTCCAAATTATA
Found at i:5865430 original size:26 final size:26
Alignment explanation
Indices: 5865375--5865430 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
5865365 AAAAGAAATG
* ***
5865375 AAAATGAAATGCATAGAAATACATGT
1 AAAATGAAATGCAAAGAAATACAACC
5865401 AAAATGAAATGCAAATGAAATA-AACC
1 AAAATGAAATGCAAA-GAAATACAACC
5865427 AAAA
1 AAAA
5865431 AAAAAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (26 bp):
AAAATGAAATGCAAAGAAATACAACC
Found at i:5867320 original size:2 final size:2
Alignment explanation
Indices: 5867313--5867340 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5867303 ATAGTTTGTG
5867313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5867341 GTGTGGCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5869710 original size:31 final size:31
Alignment explanation
Indices: 5869648--5869711 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
5869638 AATTTTGAAC
* *
5869648 TTTTGTTTTGTTATATTTGATGTTATTATTA
1 TTTTGTTTTGTTATAATTGATGTTATAATTA
*
5869679 TTTTGTTTTGTTATAATT-ATTTTTATAATTA
1 TTTTGTTTTGTTATAATTGA-TGTTATAATTA
5869710 TT
1 TT
5869712 GATTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (31 bp):
TTTTGTTTTGTTATAATTGATGTTATAATTA
Found at i:5882460 original size:40 final size:41
Alignment explanation
Indices: 5882416--5882514 Score: 146
Period size: 40 Copynumber: 2.4 Consensus size: 41
5882406 AAAGATCTTA
* *
5882416 AATATAAACTTAAATAACTATACACAAATATCCAAAT-AAC
1 AATATAAACTTAAATAACTAAACACAAAGATCCAAATAAAC
* *
5882456 AATATAAACTTAAAAAACTAAACACAAAGATCCATATAAAC
1 AATATAAACTTAAATAACTAAACACAAAGATCCAAATAAAC
*
5882497 AACATAAACTTAAATAAC
1 AATATAAACTTAAATAAC
5882515 CAAATATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 33 0.63
41 19 0.37
ACGTcount: A:0.60, C:0.17, G:0.01, T:0.22
Consensus pattern (41 bp):
AATATAAACTTAAATAACTAAACACAAAGATCCAAATAAAC
Found at i:5883159 original size:15 final size:17
Alignment explanation
Indices: 5883141--5883173 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5883131 ATTATAATCA
5883141 ATAA-TTTTATAA-GTT
1 ATAATTTTTATAATGTT
5883156 ATAATTTTTATAATGTT
1 ATAATTTTTATAATGTT
5883173 A
1 A
5883174 ACACAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATAATTTTTATAATGTT
Found at i:5883514 original size:480 final size:476
Alignment explanation
Indices: 5882527--5883904 Score: 1754
Period size: 480 Copynumber: 2.9 Consensus size: 476
5882517 AATATTATTT
* * * * *
5882527 TATTATTTAATAATTATTAACTTATATGATAGTAATTATATTGTTTATAAATGAATATAA-ATAT
1 TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTTTATAAATGAACATAATATAT
* *
5882591 AATATAAAGTGTATGTGTTAAAAGACATTACAAG--GTATACTATAAAGTGTGTATATATATATA
66 AATATAAAGTGTATGTGTTAAAAGACATTACAAGTTATATACTATAAAGTGTATATATATATATA
* * *
5882654 TTATAATTAATAATTTTATAAGTTATGATTTTTATAATATTAACACAAAATAAAAAGTCAATATG
131 TTATAATTAATAATTTTATAAGTTATAATTTTTATAATATTAACACAAAATAAAAAGTAAATATA
* * * *
5882719 TTTATATTTAAAGTATATATATTAAAAGTATTTCAGTGTATATAT-ATAAT-AGTA-ATTCCTTT
196 TTTATATTTAAAGTATATATATTAAAAGTATTTTA-TGTATATATAATAGTAATTATATTCCTTA
*
5882781 TAAATGAACCCAATATATATAAAGTATAGATATTAAAAGTCATTACAAGTTAATTAATAATCATA
260 TAAATGAACCCAATATATATAAAGTATAGATATTAAAAGACATTACAAGTTAATTAATAATCATA
** * *
5882846 ATTTTATTAATTAATTTAATTAAGCATATAGATTTATCCTTAATTACATGAAATTAAAAACAAAT
325 A-TTTATTAATTAATTT-ATTAATTATATGGATTTATCCTTAATTACAGGAAATTAAAAACAAAT
* * * * * * * *
5882911 AGCTAAGTTTCGAAGCTATTTTAATCTCACAGCTTCTTTTTAGATAATTAAATTTATATAGTATA
388 AACTAAATTTCAAAACTATTCTAATCTCACAACTTCCTTTTAGATAATTAAATTTATATACTATA
*
5882976 AGTTTATATAAACAAAGATACATA
453 AGTTTATATAAACAAAGATAAATA
* *
5883000 TATTATTTAGTAATTATAAATTAATATAATAGTAATTATATTCTTTATAAATGAACATAATATAT
1 TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTTTATAAATGAACATAATATAT
* * *
5883065 AATATAAAGTGTATATGTTAAAAGACATTACAAGTTATATATTATAAAATGCATATATATATATA
66 AATATAAAGTGTATGTGTTAAAAGACATTACAAGTTATATACTATAAAGTG--TATATATATATA
* * *
5883130 TATTATAATCAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAAAAAATAAATA
129 TATTATAATTAATAATTTTATAAGTTATAATTTTTATAATATTAACACAAAATAAAAAGTAAATA
*
5883195 TATTTATATTTAAAGTATATATATTAAAGGTATTTTACTGTATATATAATAGTAATTATATTCCT
194 TATTTATATTTAAAGTATATATATTAAAAGTATTTTA-TGTATATATAATAGTAATTATATTCCT
*
5883260 TATAAATGAACCCAATATATATAAAGTATAGATATAAAAAGACATTACAAGTTAATTAATAATCA
258 TATAAATGAACCCAATATATATAAAGTATAGATATTAAAAGACATTACAAGTTAATTAATAATCA
*
5883325 TAATGTTATTAATTAATTTAGTTAATTATATGGATTTATCCTTAATTAC-GGAAAATTTAAAA-A
323 TAAT-TTATTAATTAATTTA-TTAATTATATGGATTTATCCTTAATTACAGG-AAATTAAAAACA
* *
5883388 AGTAACTAAATTTCAAAACTATTCTAATCTCTCAACTTCCTTTTAGATAATTAAATTTATATACT
385 AATAACTAAATTTCAAAACTATTCTAATCTCACAACTTCCTTTTAGATAATTAAATTTATATACT
*
5883453 ATAAGTTTATATAAACAAAGGTAAATA
450 ATAAGTTTATATAAACAAAGATAAATA
*
5883480 TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTCTATAAATGAACATAATATAT
1 TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTTTATAAATGAACATAATATAT
* * * * *
5883545 AATATAAAGTGTATGTGTTAAAAGACATTACAAGTTATATACTATAAAGTGTGCATGTGTGTGTG
66 AATATAAAGTGTATGTGTTAAAAGACATTACAAGTTATATACTATAAAGTGT--ATATATATATA
* * * * * * *
5883610 TATTATAATTAATAAGTTTACAAATTATAATTTTTTTAATTTTAACATAAAATAGAAAGTAAATA
129 TATTATAATTAATAATTTTATAAGTTATAATTTTTATAATATTAACACAAAATAAAAAGTAAATA
* *
5883675 TATTTATATTTTAAGTATATATATACTAAAAGTATTAGTATATATATGTATATAATATAGTAATT
194 TATTTATATTTAAAGTATATATAT--TAAAAGTATT--T-TATGTA--TATAT-A-ATAGTAATT
* ** * * * * * * *
5883740 ATATTTCTTATAAAT-AACTTAATGTATATAATGTATATATATTTTAAA-ATATTTCAAGGTAAT
250 ATATTCCTTATAAATGAACCCAATATATATAAAGTATAGATA-TTAAAAGACATTACAAGTTAAT
* ** * * * *
5883803 TAATAATCATAGTTTCAGGAATTAATTTAATAATTATATGGGTTTATCTTTAATTACATGAAA-T
314 TAATAATCATAATTT-ATTAATTAATTTATTAATTATATGGATTTATCCTTAATTACAGGAAATT
* * ** * *
5883867 GAAAA-GAATAGTTAGATTCCAAAACTATTCTAATCTCA
378 AAAAACAAATAACTAAATTTCAAAACTATTCTAATCTCA
5883905 AAGACTCTCT
Statistics
Matches: 788, Mismatches: 92, Indels: 38
0.86 0.10 0.04
Matches are distributed among these distances:
473 53 0.07
474 37 0.05
476 12 0.02
478 115 0.15
479 4 0.01
480 282 0.36
481 119 0.15
482 9 0.01
484 4 0.01
485 33 0.04
486 35 0.04
487 58 0.07
488 27 0.03
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (476 bp):
TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTTTATAAATGAACATAATATAT
AATATAAAGTGTATGTGTTAAAAGACATTACAAGTTATATACTATAAAGTGTATATATATATATA
TTATAATTAATAATTTTATAAGTTATAATTTTTATAATATTAACACAAAATAAAAAGTAAATATA
TTTATATTTAAAGTATATATATTAAAAGTATTTTATGTATATATAATAGTAATTATATTCCTTAT
AAATGAACCCAATATATATAAAGTATAGATATTAAAAGACATTACAAGTTAATTAATAATCATAA
TTTATTAATTAATTTATTAATTATATGGATTTATCCTTAATTACAGGAAATTAAAAACAAATAAC
TAAATTTCAAAACTATTCTAATCTCACAACTTCCTTTTAGATAATTAAATTTATATACTATAAGT
TTATATAAACAAAGATAAATA
Found at i:5884135 original size:12 final size:12
Alignment explanation
Indices: 5884115--5884163 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
5884105 ATAATTTGAC
5884115 TAATCATATTTTT
1 TAAT-ATATTTTT
5884128 TAATATA---TT
1 TAATATATTTTT
*
5884137 TATTA-ATTTTT
1 TAATATATTTTT
5884148 TAATATATTTTT
1 TAATATATTTTT
5884160 TAAT
1 TAAT
5884164 TTAGAGTCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
8 1 0.03
9 6 0.20
11 6 0.20
12 13 0.43
13 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TAATATATTTTT
Found at i:5884147 original size:20 final size:20
Alignment explanation
Indices: 5884122--5884165 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
5884112 GACTAATCAT
5884122 ATTTTTTAATATATTTATTA
1 ATTTTTTAATATATTTATTA
*
5884142 ATTTTTTAATATATTTTTTA
1 ATTTTTTAATATATTTATTA
5884162 ATTT
1 ATTT
5884166 AGAGTCCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTTTTAATATATTTATTA
Found at i:5887382 original size:30 final size:33
Alignment explanation
Indices: 5887318--5887382 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 33
5887308 CAATCGAGTT
* *
5887318 TACTTGTTATTATTACGTTCAATCAAAATTTTA
1 TACTTGTTATTATTAAGTTAAATCAAAATTTTA
*
5887351 TACTT-TTATT-TTAAGTTAAAT-AAATTTTTA
1 TACTTGTTATTATTAAGTTAAATCAAAATTTTA
5887381 TA
1 TA
5887383 ATTAATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 10 0.34
31 9 0.31
32 5 0.17
33 5 0.17
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (33 bp):
TACTTGTTATTATTAAGTTAAATCAAAATTTTA
Found at i:5889685 original size:19 final size:20
Alignment explanation
Indices: 5889649--5889719 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 20
5889639 TTAATAACTC
5889649 TTATCAAGATAATCTTAATT
1 TTATCAAGATAATCTTAATT
*
5889669 TTATCAA-ATAATGTTAATAT
1 TTATCAAGATAATCTTAAT-T
* **
5889689 TAATCTTGATAAT-TTCAA-T
1 TTATCAAGATAATCTT-AATT
5889708 TTATCAAGATAA
1 TTATCAAGATAA
5889720 AAGGGTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
19 20 0.49
20 14 0.34
21 7 0.17
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (20 bp):
TTATCAAGATAATCTTAATT
Found at i:5891328 original size:30 final size:30
Alignment explanation
Indices: 5891294--5891352 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
5891284 TGTAATCAGC
*
5891294 AATTCCCTTAAGATTTATTGAGCAAAAAAG
1 AATTCCCTTAAGATTTATTAAGCAAAAAAG
5891324 AATTCCCTTAAGATTTATTAAGCAAAAAA
1 AATTCCCTTAAGATTTATTAAGCAAAAAA
5891353 AAAAAAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.31
Consensus pattern (30 bp):
AATTCCCTTAAGATTTATTAAGCAAAAAAG
Found at i:5894284 original size:40 final size:40
Alignment explanation
Indices: 5894226--5894301 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
5894216 CCTTAATGTG
* *
5894226 AATTTGCTATCATGTAGTATATATTATATGTTGTCCAATC
1 AATTTGCTATCATATAGTATATATCATATGTTGTCCAATC
* * *
5894266 AATTTGCTATTATATAGTATGTATCATATTTTGTCC
1 AATTTGCTATCATATAGTATATATCATATGTTGTCC
5894302 CTCGATTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (40 bp):
AATTTGCTATCATATAGTATATATCATATGTTGTCCAATC
Found at i:5898178 original size:21 final size:22
Alignment explanation
Indices: 5898148--5898195 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
5898138 NNNNNACCAA
* * *
5898148 CTATCGATAGATTTTCTT-TAT
1 CTATCAATAGATGTGCTTATAT
5898169 CTATCAATAGATGTGCTTATAT
1 CTATCAATAGATGTGCTTATAT
5898191 CTATC
1 CTATC
5898196 GATAAGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (22 bp):
CTATCAATAGATGTGCTTATAT
Found at i:5900277 original size:33 final size:33
Alignment explanation
Indices: 5900240--5900302 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
5900230 TTAACTTGTC
5900240 ACATTATCATC-AGTTATGATATGTTAGCATATT
1 ACATTATCATCAAG-TATGATATGTTAGCATATT
5900273 ACATTATCATCAAGTATGATATGTTAGCAT
1 ACATTATCATCAAGTATGATATGTTAGCAT
5900303 GCTACGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (33 bp):
ACATTATCATCAAGTATGATATGTTAGCATATT
Found at i:5900431 original size:30 final size:30
Alignment explanation
Indices: 5900365--5900432 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
5900355 AATAATTAGT
* * *
5900365 TATAAAAACTTATTTGACTTAAAATAAAAG
1 TATAAAGACTTATTTGACTCAAAATAAAAA
5900395 TATAAAGACTTATTT-AGCTCAAAATAAAAA
1 TATAAAGACTTATTTGA-CTCAAAATAAAAA
5900425 TATAAAGA
1 TATAAAGA
5900433 TTTGATTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.31
Consensus pattern (30 bp):
TATAAAGACTTATTTGACTCAAAATAAAAA
Found at i:5900900 original size:27 final size:28
Alignment explanation
Indices: 5900854--5900915 Score: 101
Period size: 27 Copynumber: 2.2 Consensus size: 28
5900844 TAATATGATT
5900854 ATTTAT-TTTAATTTACAAAATATTAATA
1 ATTTATATTTAATTTA-AAAATATTAATA
5900882 ATTTATATTTAATTT-AAAATATTAATA
1 ATTTATATTTAATTTAAAAATATTAATA
5900909 ATTTATA
1 ATTTATA
5900916 ATTGTAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 19 0.58
28 6 0.18
29 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTATATTTAATTTAAAAATATTAATA
Found at i:5900991 original size:14 final size:16
Alignment explanation
Indices: 5900959--5900991 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5900949 CTTTATTTTT
*
5900959 AAAATTTAAAATATAA
1 AAAATTTATAATATAA
5900975 AAAATTTATAAT-TAA
1 AAAATTTATAATATAA
5900990 AA
1 AA
5900992 TTTTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTTATAATATAA
Found at i:5901374 original size:26 final size:27
Alignment explanation
Indices: 5901328--5901382 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
5901318 ATTTATAATT
* *
5901328 AAAATTTTAATTTAATTTTTA-AGTTA
1 AAAATATTAATTTAATATTTACAGTTA
5901354 AAAATATTAATTT-ATAATTTACAGTTA
1 AAAATATTAATTTAAT-ATTTACAGTTA
5901381 AA
1 AA
5901383 CTTAAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 16 0.64
27 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (27 bp):
AAAATATTAATTTAATATTTACAGTTA
Found at i:5907712 original size:26 final size:26
Alignment explanation
Indices: 5907680--5907733 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
5907670 ACAATATTGA
*
5907680 TTAAGAGATATGCTTTTATGTTTATT
1 TTAAGAGATATGATTTTATGTTTATT
* * *
5907706 TTAAGAGTTATGATTTTATTTTTCTT
1 TTAAGAGATATGATTTTATGTTTATT
5907732 TT
1 TT
5907734 CTAAATTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.59
Consensus pattern (26 bp):
TTAAGAGATATGATTTTATGTTTATT
Done.