Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 144 of 211
Found at i:45476657 original size:10 final size:11
Alignment explanation
Indices: 45476641--45476673 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
45476631 TTTTGAATAA
45476641 AATATTTTTTT
1 AATATTTTTTT
45476652 -ATATTTTTTT
1 AATATTTTTTT
45476662 AATAATTTTTTT
1 AAT-ATTTTTTT
45476674 TAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 2 0.10
12 8 0.40
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:45476799 original size:19 final size:19
Alignment explanation
Indices: 45476775--45476905 Score: 72
Period size: 19 Copynumber: 6.6 Consensus size: 19
45476765 GGCGCCAATG
45476775 AATATTGTAATTTTGTATT
1 AATATTGTAATTTTGTATT
*
45476794 AATATTGTAATTAT-T-TT
1 AATATTGTAATTTTGTATT
* *
45476811 -ATAAT-TAAATTTGTATTT
1 AATATTGTAATTTTGTA-TT
* *
45476829 ATAGTTTTGGATTAGTATTTTGTATG
1 A-A-TATT-G--TA--ATTTTGTATT
*
45476855 AATATTGTAATTTTTTATAT
1 AATATTGTAATTTTGTAT-T
* *
45476875 GAATATTATAATTTTGTATG
1 -AATATTGTAATTTTGTATT
45476895 AATATTGTAAT
1 AATATTGTAAT
45476906 ATTATAATTT
Statistics
Matches: 83, Mismatches: 15, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
15 5 0.06
16 5 0.06
17 2 0.02
18 3 0.04
19 31 0.37
20 1 0.01
21 20 0.24
23 1 0.01
24 3 0.04
25 3 0.04
26 2 0.02
27 7 0.08
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (19 bp):
AATATTGTAATTTTGTATT
Found at i:45476907 original size:27 final size:27
Alignment explanation
Indices: 45476876--45476959 Score: 150
Period size: 27 Copynumber: 3.1 Consensus size: 27
45476866 TTTTTATATG
45476876 AATATTATAATTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGT
45476903 AATATTATAATTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGT
* *
45476930 AATTTTGTAATTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGT
45476957 AAT
1 AAT
45476960 GTCGGGATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (27 bp):
AATATTATAATTTTGTATGAATATTGT
Found at i:45476927 original size:19 final size:19
Alignment explanation
Indices: 45476845--45476959 Score: 89
Period size: 19 Copynumber: 6.1 Consensus size: 19
45476835 TTGGATTAGT
45476845 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
* *
45476864 ATTTTTTATATGAATATTATA
1 A--TTTTGTATGAATATTGTA
45476885 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
* *
45476904 A-TAT-TAT-AATTTTGTATGA
1 ATTTTGTATGAATATTG--T-A
* *
45476923 ATATTG--T-AATTTTGTA
1 ATTTTGTATGAATATTGTA
45476939 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
45476958 AT
1 AT
45476960 GTCGGGATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
16 12 0.16
17 4 0.05
18 4 0.05
19 38 0.50
20 1 0.01
21 17 0.22
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:45477081 original size:60 final size:60
Alignment explanation
Indices: 45477000--45477121 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
45476990 TGTATGAATA
* * * * *
45477000 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
45477060 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
45477120 TT
1 TT
45477122 AGTTTAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:45477199 original size:38 final size:38
Alignment explanation
Indices: 45477154--45477235 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
45477144 CATATAAAGT
45477154 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
*
45477192 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
45477230 TTATAA
1 TTATAA
45477236 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
Found at i:45477313 original size:15 final size:15
Alignment explanation
Indices: 45477272--45477313 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
45477262 GTTAACTAAT
*
45477272 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
45477287 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
45477303 TTAAATTTTAT
1 TTAAATTTTAT
45477314 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:45477411 original size:21 final size:21
Alignment explanation
Indices: 45477387--45477430 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
45477377 TTTTGATTAC
*
45477387 AAAATTACAATATTCATATAA
1 AAAATTACAATATTCATACAA
45477408 AAAATTACAATATTCATACAA
1 AAAATTACAATATTCATACAA
45477429 AA
1 AA
45477431 TACTAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATTACAATATTCATACAA
Found at i:45477483 original size:19 final size:19
Alignment explanation
Indices: 45477464--45477501 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
45477454 AAATTTAATT
45477464 ATAAAATAATTACAATATTA
1 ATAAAA-AATTACAATATTA
*
45477484 ATACAAAATTACAATATT
1 ATAAAAAATTACAATATT
45477502 CATTGGCGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAAAATTACAATATTA
Found at i:45477538 original size:27 final size:27
Alignment explanation
Indices: 45477500--45477566 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
45477490 AATTACAATA
45477500 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
*
45477527 TTCATTGGCGCCTCTCTGTGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
45477554 TTCATTGGCGCCT
1 TTCATTGGCGCCT
45477567 ACCTGATAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.12, C:0.33, G:0.24, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGGCACC
Found at i:45479799 original size:16 final size:16
Alignment explanation
Indices: 45479778--45479810 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45479768 TTCACTGTAT
45479778 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
45479794 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
45479810 T
1 T
45479811 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:45480170 original size:15 final size:14
Alignment explanation
Indices: 45480142--45480194 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
45480132 ATAAAATATA
45480142 AATTAACATAATTAT
1 AATTAA-ATAATTAT
*
45480157 TATTAAATATATTAT
1 AATTAAATA-ATTAT
*
45480172 AATTAAA-AAATAT
1 AATTAAATAATTAT
*
45480185 AATTTAATAA
1 AATTAAATAA
45480195 AATTCTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 10 0.31
14 6 0.19
15 16 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTAAATAATTAT
Found at i:45480304 original size:18 final size:17
Alignment explanation
Indices: 45480283--45480317 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45480273 TTATTATTAA
*
45480283 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
45480301 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
45480318 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:45480431 original size:14 final size:15
Alignment explanation
Indices: 45480382--45480433 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45480372 ATAAAATATA
45480382 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
45480397 TATTAAATATATTAT
1 AATTAAATATATTAT
45480412 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
45480425 AATTTAATA
1 AATTAAATA
45480434 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:45480689 original size:120 final size:120
Alignment explanation
Indices: 45480021--45480678 Score: 1147
Period size: 120 Copynumber: 5.5 Consensus size: 120
45480011 ATTTAATCAT
*
45480021 ATTTAAACATAATTATTATTAAATATATTATAATCAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
45480086 ATCAATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
45480142 AATTAACATAATTATTATTAAATATATTATAATTAAAAAATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
45480207 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
45480262 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
45480327 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
45480382 AATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
45480447 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
45480502 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATTTTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
45480567 TTAATATTCTTATATGAATTTAATCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
45480622 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
45480679 TAAAATAATT
Statistics
Matches: 515, Mismatches: 21, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
120 510 0.99
121 5 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:45480726 original size:101 final size:93
Alignment explanation
Indices: 45480619--45480901 Score: 324
Period size: 91 Copynumber: 3.0 Consensus size: 93
45480609 ACTATAAAAG
* * * *
45480619 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
45480683 ATAATTATAACTAATAAATTTTCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTTTCTTATATGAATTTAT
* *
45480720 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
45480783 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTTTCTTATATGAATTTAT
* * *
45480811 ACAATTTAAAATAATTAATATTAAATAAAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
45480874 AATAATAAAATGTTCTTATATGAATTTA
66 AATAAT-AAATTTTCTTATATGAATTTA
45480902 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
91 88 0.54
92 22 0.13
93 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTTTCTTATATGAATTTAT
Found at i:45480729 original size:47 final size:46
Alignment explanation
Indices: 45480660--45480901 Score: 148
Period size: 47 Copynumber: 5.3 Consensus size: 46
45480650 TTAATTAAAA
*
45480660 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * **
45480707 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATA-ATA-AATTTTCT
* * *
45480755 TA-AT-AA--TATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* * * **
45480798 TATATGAATTTATACAATTTAAAATAATTAATATTAAATAAAATTTAA
1 TATATGAATTTATATAATTTAAAATAATT-ATAAT-AATAAATTTTCT
* * *
45480846 TA-ATG-A--TATATAATTTCATAA-AATTCTTAATAATAAAATGTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAAT-AAATTTTCT
45480890 TATATGAATTTA
1 TATATGAATTTA
45480902 CTAAAATCAA
Statistics
Matches: 146, Mismatches: 30, Indels: 37
0.69 0.14 0.17
Matches are distributed among these distances:
42 2 0.01
43 11 0.08
44 41 0.28
45 11 0.08
46 7 0.05
47 45 0.31
48 27 0.18
49 2 0.01
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:45480749 original size:26 final size:28
Alignment explanation
Indices: 45480719--45480779 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
45480709 TATGAATTTG
*
45480719 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
45480745 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
45480773 TAAAATT
1 TATAATT
45480780 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:45480789 original size:91 final size:91
Alignment explanation
Indices: 45480694--45480901 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
45480684 TAATTATAAC
* * * * *
45480694 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATAAAATTTAATAAT
*
45480759 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
45480785 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATAAAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATAAAATTTAATAAT
*
45480850 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
45480876 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
45480902 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 88 0.81
92 20 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATAAAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:45480861 original size:44 final size:44
Alignment explanation
Indices: 45480719--45480861 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 44
45480709 TATGAATTTG
* * * *
45480719 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATAAAATTTAATAATGATA
* * * * **
45480763 TATAATTTCATAA-AATT-CT-TGATAATAAATTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTAATATTA-AATAAAATTTAATA-ATG-A--TA
*
45480810 TACAATTTAAAATAATTAATATTAAATAAAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATAAAATTTAATAATGATA
45480854 TATAATTT
1 TATAATTT
45480862 CATAAAATTC
Statistics
Matches: 73, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
42 2 0.03
43 10 0.14
44 23 0.32
45 4 0.05
46 4 0.05
47 16 0.22
48 12 0.16
49 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (44 bp):
TATAATTTAAAATAATTAATATTAAATAAAATTTAATAATGATA
Found at i:45485419 original size:5 final size:5
Alignment explanation
Indices: 45485411--45485435 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45485401 CAACAGAACA
45485411 AAACC AAACC AAACC AAACC AAACC
1 AAACC AAACC AAACC AAACC AAACC
45485436 TAGCTTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:45487963 original size:125 final size:126
Alignment explanation
Indices: 45487740--45488308 Score: 806
Period size: 126 Copynumber: 4.5 Consensus size: 126
45487730 ATAAAATCAG
* * * * * * * * *
45487740 AGCAGGATGCT-TTATCAAAAGGATTTCTGAAGTCGCACCCGCGTGTACGCGCTTTTGCTATAGT
1 AGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
45487804 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTAT-AAAAAATGCTTCA
65 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCA
* *
45487865 AGCAGGATGCT-TTATGAGAAGAAATTGTGAAATCGC-TCCTCGTGGACGCGCTTTTGCTACAGT
1 AGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* ** * *
45487928 AGGTCTTGGAAGAAATAATTTCGAGTTGATATTTCTAAGCAAATAGTTTAAAAAAACACTTCA
65 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCA
*
45487991 AGCAGGATGCTATTTGAGAAGAATCTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
*
45488056 GGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTTT-AAAAAACGCTTCA
66 GGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCA
*
45488117 AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
* * *
45488182 GGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATGGTTTAAAAAAATGCTTCT
66 GGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCA
* * * *
45488243 AGTAGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCTTCATGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
45488308 G
66 G
45488309 CATGTTTGAG
Statistics
Matches: 401, Mismatches: 38, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
124 33 0.08
125 97 0.24
126 199 0.50
127 72 0.18
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (126 bp):
AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
GGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCA
Found at i:45491385 original size:37 final size:38
Alignment explanation
Indices: 45491338--45491503 Score: 110
Period size: 37 Copynumber: 4.4 Consensus size: 38
45491328 TTTATAATTG
45491338 TATTAATTGTTAGTAAAATTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
* * * * * *
45491375 TATTAATTGTTAGTACCAGTCA-AAACATTTTTTCAAATC
1 TATTAATTGTTAGTA-AAATTATCAA-ATTATATCAAATC
** * * * * * *
45491414 TAACATTATGTGAATGTAAAATTAT-TAATT-GAT-AATTG
1 TATTAAT-TGT-TA-GTAAAATTATCAAATTATATCAAATC
*
45491452 TATTAATGGTTAGTAAAATTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
45491489 TATTAATTGTTAGTA
1 TATTAATTGTTAGTA
45491504 CCAGTCAAAA
Statistics
Matches: 92, Mismatches: 27, Indels: 20
0.66 0.19 0.14
Matches are distributed among these distances:
35 10 0.11
36 5 0.05
37 35 0.38
38 23 0.25
39 5 0.05
40 6 0.07
41 5 0.05
42 3 0.03
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (38 bp):
TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
Found at i:45491519 original size:114 final size:114
Alignment explanation
Indices: 45491319--45491597 Score: 531
Period size: 114 Copynumber: 2.4 Consensus size: 114
45491309 TATTTTTTTC
* *
45491319 AATTATTAATTTATAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
45491384 TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
66 TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
45491433 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
45491498 TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
66 TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
*
45491547 AATTATTAATTGATAATTGTATTAATGGTTAGTAAATTTATCAAATTATAT
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATAT
45491598 TTGAGTTAAA
Statistics
Matches: 162, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 162 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (114 bp):
AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
TTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
Found at i:45491692 original size:22 final size:22
Alignment explanation
Indices: 45491601--45492330 Score: 788
Period size: 22 Copynumber: 33.9 Consensus size: 22
45491591 ATTATATTTG
*
45491601 AGTTAAAGG-TTAGGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
45491622 AGTTAAGGG-TTAGGG-TTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
45491642 AGTTAAGGGTTTAGGG-TTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45491663 GGTTAAGGGTTTAGGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
* * *
45491685 AGTCAAGGG-TTATGGTTTTAA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45491706 AGTTAAGGGTTTATGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45491728 AGTTAAGGG-TTAGGGTTTTAA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45491749 AGTTAAGGGTTAAGGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
45491771 AGTTAAGGG-TTAGGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
* *
45491792 AGTTAAAGGTTTAAGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45491814 AGTTAAGGGTTTAGGG-TTTAA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45491835 AGGTTTAA-GGTTTAGGGATTTTA
1 A-G-TTAAGGGTTTAGGGTTTTTA
45491858 AGTTAAGGG-TTAGGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
** *
45491879 AGTTAAGGGTTTAAAGTTTTAA
1 AGTTAAGGGTTTAGGGTTTTTA
* *
45491901 AGTTAA-AGTTTAGGGTTTTAA
1 AGTTAAGGGTTTAGGGTTTTTA
* *
45491922 AATTAAAGG-TTAGGAGTTTTTA
1 AGTTAAGGGTTTAGG-GTTTTTA
45491944 AGTTAAGGG-TTAGGG-TTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
* *
45491964 AGTTAAGGGTTTATGGTTTTAA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45491986 AGTTAAGAG-TTAGGG-TTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
* *
45492006 AGTTAAAGGTTTGGGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45492028 AGTTAAGGG-TTAGTGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
* * *
45492049 AATTAAGGATTTAGGGTTTTAA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45492071 AGTTAAGGG-TTAGGATTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
45492092 AG-TAAGGGTTTAGGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
* *
45492113 AGTTAAGAGTTTATGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
45492135 AGTTAAGGGTTTAGGG-TTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
* * *
45492156 CAATCAAAGG-TTAGGGTTTTTA
1 -AGTTAAGGGTTTAGGGTTTTTA
* *
45492178 AGTTAAGGGTTCATGGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
* *
45492200 AGTTAAGGGTTTAAGGTTTTAA
1 AGTTAAGGGTTTAGGGTTTTTA
* * * *
45492222 AGTCAA-AGATTAGGATTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45492243 TGTTAAGGGTTTAGGG-TTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
* *
45492264 AGTTAAAGG-TTAGAGTTTTTA
1 AGTTAAGGGTTTAGGGTTTTTA
*
45492285 AGTTAAAGGTTAGGGTTAGGGTTTTTA
1 AGTT-AA-G---GGTTTAGGGTTTTTA
*
45492312 AGTTTAGGGTTTAGGGTTT
1 AGTTAAGGGTTTAGGGTTT
45492331 GTCAATTAAA
Statistics
Matches: 595, Mismatches: 84, Indels: 59
0.81 0.11 0.08
Matches are distributed among these distances:
20 50 0.08
21 257 0.43
22 260 0.44
23 9 0.02
25 1 0.00
26 3 0.01
27 15 0.03
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.43
Consensus pattern (22 bp):
AGTTAAGGGTTTAGGGTTTTTA
Found at i:45491711 original size:43 final size:43
Alignment explanation
Indices: 45491601--45492301 Score: 791
Period size: 43 Copynumber: 16.4 Consensus size: 43
45491591 ATTATATTTG
* *
45491601 AGTTAAAGGTTAGGGTTTTTAAGTTAAGGG-TTAGGG-TTTTA
1 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
*
45491642 AGTTAAGGGTTTAGGGTTTT-AGGTTAAGGGTTTAGGGTTTTTA
1 AGTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* * *
45491685 AGTCAAGGGTTATGGTTTTAAAGTTAAGGGTTTATGGTTTTTA
1 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
*
45491728 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTAAGGGTTTTTA
1 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* * *
45491771 AGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTTAAGGTTTTTA
1 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
*
45491814 AGTTAAGGGTTTAGGG-TTTAAAGGTTTAA-GGTTTAGGGATTTTA
1 AGTTAAGGG-TTAGGGTTTTAAA-G-TTAAGGGTTTAGGGTTTTTA
* ** *
45491858 AGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAAGTTTTAA
1 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* * * *
45491901 AGTTAAAGTTTAGGGTTTTAAAATTAAAGG-TTAGGAGTTTTTA
1 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGG-GTTTTTA
* *
45491944 AGTTAAGGGTTAGGGTTTT-AAGTTAAGGGTTTATGGTTTTAA
1 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* * *
45491986 AGTTAAGAGTTAGGGTTTT-AAGTTAAAGGTTTGGGGTTTTTA
1 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* * *
45492028 AGTTAAGGGTTAGTGTTTTTAAA-TTAAGGATTTAGGGTTTTAA
1 AGTTAAGGGTTAG-GGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* *
45492071 AGTTAAGGGTTAGGATTTTTAAG-TAAGGGTTTAGGGTTTTTA
1 AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* * *
45492113 AGTTAAGAGTTTATGGTTTTTAAGTTAAGGGTTTAGGG-TTTTA
1 AGTTAAG-GGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* * * * * *
45492156 CAATCAAAGGTTAGGGTTTTTAAGTTAAGGGTTCATGGTTTTTA
1 -AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* * * * *
45492200 AGTTAAGGGTTTAAGGTTTTAAAGTCAA-AGATTAGGATTTTTA
1 AGTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
* * *
45492243 TGTTAAGGGTTTAGGGTTTT-AAGTTAAAGG-TTAGAGTTTTTA
1 AGTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
*
45492285 AGTTAAAGGTTAGGGTT
1 AGTTAAGGGTTAGGGTT
45492302 AGGGTTTTTA
Statistics
Matches: 560, Mismatches: 80, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
41 25 0.04
42 149 0.27
43 309 0.55
44 73 0.13
45 4 0.01
ACGTcount: A:0.28, C:0.01, G:0.29, T:0.43
Consensus pattern (43 bp):
AGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTA
Found at i:45492301 original size:27 final size:28
Alignment explanation
Indices: 45492271--45492329 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
45492261 TTAAGTTAAA
45492271 GGTTAGAGTTTTTAAGTTAAAGG-TTAG
1 GGTTAGAGTTTTTAAGTTAAAGGTTTAG
* * *
45492298 GGTTAGGGTTTTTAAGTTTAGGGTTTAG
1 GGTTAGAGTTTTTAAGTTAAAGGTTTAG
45492326 GGTT
1 GGTT
45492330 TGTCAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (28 bp):
GGTTAGAGTTTTTAAGTTAAAGGTTTAG
Found at i:45492322 original size:21 final size:21
Alignment explanation
Indices: 45491601--45492301 Score: 752
Period size: 21 Copynumber: 32.8 Consensus size: 21
45491591 ATTATATTTG
*
45491601 AGTTAAAGGTTAGGGTTTTTA
1 AGTTAAGGGTTAGGGTTTTTA
45491622 AGTTAAGGGTTAGGG-TTTTA
1 AGTTAAGGGTTAGGGTTTTTA
45491642 AGTTAAGGGTTTAGGG-TTTTA
1 AGTTAAGGG-TTAGGGTTTTTA
*
45491663 GGTTAAGGGTTTAGGGTTTTTA
1 AGTTAAGGG-TTAGGGTTTTTA
* * *
45491685 AGTCAAGGGTTATGGTTTTAA
1 AGTTAAGGGTTAGGGTTTTTA
*
45491706 AGTTAAGGGTTTATGGTTTTTA
1 AGTTAAGGG-TTAGGGTTTTTA
*
45491728 AGTTAAGGGTTAGGGTTTTAA
1 AGTTAAGGGTTAGGGTTTTTA
45491749 AGTTAAGGGTTAAGGGTTTTTA
1 AGTTAAGGGTT-AGGGTTTTTA
45491771 AGTTAAGGGTTAGGGTTTTTA
1 AGTTAAGGGTTAGGGTTTTTA
* *
45491792 AGTTAAAGGTTTAAGGTTTTTA
1 AGTT-AAGGGTTAGGGTTTTTA
*
45491814 AGTTAAGGGTTTAGGG-TTTAA
1 AGTTAAGGG-TTAGGGTTTTTA
* *
45491835 AGGTTTAAGGTTTAGGGATTTTA
1 A-G-TTAAGGGTTAGGGTTTTTA
45491858 AGTTAAGGGTTAGGGTTTTTA
1 AGTTAAGGGTTAGGGTTTTTA
** *
45491879 AGTTAAGGGTTTAAAGTTTTAA
1 AGTTAAGGG-TTAGGGTTTTTA
* * *
45491901 AGTTAAAGTTTAGGGTTTTAA
1 AGTTAAGGGTTAGGGTTTTTA
* *
45491922 AATTAAAGGTTAGGAGTTTTTA
1 AGTTAAGGGTTAGG-GTTTTTA
45491944 AGTTAAGGGTTAGGG-TTTTA
1 AGTTAAGGGTTAGGGTTTTTA
* *
45491964 AGTTAAGGGTTTATGGTTTTAA
1 AGTTAAGGG-TTAGGGTTTTTA
*
45491986 AGTTAAGAGTTAGGG-TTTTA
1 AGTTAAGGGTTAGGGTTTTTA
* *
45492006 AGTTAAAGGTTTGGGGTTTTTA
1 AGTT-AAGGGTTAGGGTTTTTA
*
45492028 AGTTAAGGGTTAGTGTTTTTA
1 AGTTAAGGGTTAGGGTTTTTA
* * *
45492049 AATTAAGGATTTAGGGTTTTAA
1 AGTTAAGG-GTTAGGGTTTTTA
*
45492071 AGTTAAGGGTTAGGATTTTTA
1 AGTTAAGGGTTAGGGTTTTTA
45492092 AG-TAAGGGTTTAGGGTTTTTA
1 AGTTAAGGG-TTAGGGTTTTTA
* *
45492113 AGTTAAGAGTTTATGGTTTTTA
1 AGTTAAG-GGTTAGGGTTTTTA
45492135 AGTTAAGGGTTTAGGG-TTTTA
1 AGTTAAGGG-TTAGGGTTTTTA
* * *
45492156 CAATCAAAGGTTAGGGTTTTTA
1 -AGTTAAGGGTTAGGGTTTTTA
*
45492178 AGTTAAGGGTTCATGGTTTTTA
1 AGTTAAGGGTT-AGGGTTTTTA
* *
45492200 AGTTAAGGGTTTAAGGTTTTAA
1 AGTTAAGGG-TTAGGGTTTTTA
* * * *
45492222 AGTCAAAGATTAGGATTTTTA
1 AGTTAAGGGTTAGGGTTTTTA
*
45492243 TGTTAAGGGTTTAGGG-TTTTA
1 AGTTAAGGG-TTAGGGTTTTTA
* *
45492264 AGTTAAAGGTTAGAGTTTTTA
1 AGTTAAGGGTTAGGGTTTTTA
*
45492285 AGTTAAAGGTTAGGGTT
1 AGTTAAGGGTTAGGGTT
45492302 AGGGTTTTTA
Statistics
Matches: 574, Mismatches: 80, Indels: 52
0.81 0.11 0.07
Matches are distributed among these distances:
20 47 0.08
21 282 0.49
22 231 0.40
23 14 0.02
ACGTcount: A:0.28, C:0.01, G:0.29, T:0.43
Consensus pattern (21 bp):
AGTTAAGGGTTAGGGTTTTTA
Found at i:45492876 original size:18 final size:18
Alignment explanation
Indices: 45492850--45492892 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
45492840 GACTCGAAAA
* *
45492850 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGAT
*
45492868 AGGATACATAAAAGGGAT
1 AGGAAACATAAAAGGGAT
45492886 AGGAAAC
1 AGGAAAC
45492893 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGAT
Found at i:45493550 original size:7 final size:7
Alignment explanation
Indices: 45493540--45493565 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45493530 TTATATACAT
45493540 AATACTA
1 AATACTA
45493547 AATACTA
1 AATACTA
45493554 AATACTA
1 AATACTA
45493561 AATAC
1 AATAC
45493566 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:45493771 original size:20 final size:20
Alignment explanation
Indices: 45493734--45493771 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45493724 TTTATTTTTA
*
45493734 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
45493754 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
45493772 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:45494819 original size:12 final size:12
Alignment explanation
Indices: 45494777--45494822 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
45494767 GGATTTCAGA
45494777 GAAATTTG-GAAG
1 GAAATTTGAG-AG
45494789 G-AATTTGAGAG
1 GAAATTTGAGAG
*
45494800 CAAA-TTGAGAG
1 GAAATTTGAGAG
45494811 GAAATTTGAGAG
1 GAAATTTGAGAG
45494823 AAGATTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.41, C:0.02, G:0.33, T:0.24
Consensus pattern (12 bp):
GAAATTTGAGAG
Found at i:45497181 original size:23 final size:23
Alignment explanation
Indices: 45497155--45497200 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
45497145 ATTCTCCTCA
45497155 TCATGTGAATATATGACTAAAAT
1 TCATGTGAATATATGACTAAAAT
45497178 TCATGTGAATATATGACTAAAAT
1 TCATGTGAATATATGACTAAAAT
45497201 AACCTTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (23 bp):
TCATGTGAATATATGACTAAAAT
Found at i:45497304 original size:159 final size:159
Alignment explanation
Indices: 45497015--45497318 Score: 608
Period size: 159 Copynumber: 1.9 Consensus size: 159
45497005 TTATAGGTTG
45497015 AAATTCATGTGAATATATGACTAAAATAACCTTGAAGTAATCAGAGTCCAACTGGGAGAAAAAGT
1 AAATTCATGTGAATATATGACTAAAATAACCTTGAAGTAATCAGAGTCCAACTGGGAGAAAAAGT
45497080 CATGTTGACCTGTACAAAACATGGCTGCATAACATCAGGAATCGTCGTGATGTCGTGACGTGCTG
66 CATGTTGACCTGTACAAAACATGGCTGCATAACATCAGGAATCGTCGTGATGTCGTGACGTGCTG
45497145 ATTCTCCTCATCATGTGAATATATGACTA
131 ATTCTCCTCATCATGTGAATATATGACTA
45497174 AAATTCATGTGAATATATGACTAAAATAACCTTGAAGTAATCAGAGTCCAACTGGGAGAAAAAGT
1 AAATTCATGTGAATATATGACTAAAATAACCTTGAAGTAATCAGAGTCCAACTGGGAGAAAAAGT
45497239 CATGTTGACCTGTACAAAACATGGCTGCATAACATCAGGAATCGTCGTGATGTCGTGACGTGCTG
66 CATGTTGACCTGTACAAAACATGGCTGCATAACATCAGGAATCGTCGTGATGTCGTGACGTGCTG
45497304 ATTCTCCTCATCATG
131 ATTCTCCTCATCATG
45497319 ATGTCGCCGC
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 145 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (159 bp):
AAATTCATGTGAATATATGACTAAAATAACCTTGAAGTAATCAGAGTCCAACTGGGAGAAAAAGT
CATGTTGACCTGTACAAAACATGGCTGCATAACATCAGGAATCGTCGTGATGTCGTGACGTGCTG
ATTCTCCTCATCATGTGAATATATGACTA
Found at i:45499689 original size:19 final size:19
Alignment explanation
Indices: 45499648--45499690 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
45499638 TGATATTTTT
* *
45499648 TTATTATTGATGTAATTAT
1 TTATTATTGATGTAAATAA
* *
45499667 TTATTATTTATTTAAATAA
1 TTATTATTGATGTAAATAA
45499686 TTATT
1 TTATT
45499691 TGCTTTAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTATTGATGTAAATAA
Found at i:45500778 original size:13 final size:12
Alignment explanation
Indices: 45500749--45500778 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
45500739 AATATTTATA
45500749 TTTTAAAAATAT
1 TTTTAAAAATAT
45500761 TTTTAAAAATAT
1 TTTTAAAAATAT
45500773 TGTTTA
1 T-TTTA
45500779 CTAAATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
TTTTAAAAATAT
Found at i:45506528 original size:87 final size:87
Alignment explanation
Indices: 45506426--45506601 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
45506416 CCAAGGAGTT
45506426 TTACTATTCCTTGCTTAATTGGAAATCATTGTGTAGGCAACACATTATGTGATTTAGGGGTAAGT
1 TTACTATTCCTTGCTTAATTGGAAATCATTGTGTAGGCAACACATTATGTGATTTAGGGGTAAGT
45506491 ATAAAATTAATGCCTATGCCTG
66 ATAAAATTAATGCCTATGCCTG
45506513 TTACTATTCCTTGCTTAATTGGAAATCATTGTGTAGGCAACACATTATGTGATTTAGGGGTAAGT
1 TTACTATTCCTTGCTTAATTGGAAATCATTGTGTAGGCAACACATTATGTGATTTAGGGGTAAGT
45506578 ATAAAATTAATGCCTATGCCTG
66 ATAAAATTAATGCCTATGCCTG
45506600 TT
1 TT
45506602 TTCAGGAAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (87 bp):
TTACTATTCCTTGCTTAATTGGAAATCATTGTGTAGGCAACACATTATGTGATTTAGGGGTAAGT
ATAAAATTAATGCCTATGCCTG
Found at i:45508196 original size:62 final size:62
Alignment explanation
Indices: 45508121--45508246 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
45508111 GGCCATGTCG
* * * * *
45508121 GATTTTATTGATGATTTATTAAGGATTTTTCAAATATATCCAGACCCTTGTGTGTATTGTTA
1 GATTTTATCGATGATTTATTAAGAATTTTTCAAATATATCCAAACCCCTGTGTATATTGTTA
45508183 GATTTTATCGATGATTTATTAAGAATTTTTCAAATATATCCAAACCCCTGTGTATATTGTTA
1 GATTTTATCGATGATTTATTAAGAATTTTTCAAATATATCCAAACCCCTGTGTATATTGTTA
45508245 GA
1 GA
45508247 ACATAACAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.44
Consensus pattern (62 bp):
GATTTTATCGATGATTTATTAAGAATTTTTCAAATATATCCAAACCCCTGTGTATATTGTTA
Found at i:45510403 original size:33 final size:33
Alignment explanation
Indices: 45510356--45510420 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
45510346 TCTTTCTCCA
45510356 AGTTATTTTCAGTTTCTTCTTTAAACCATTTTT
1 AGTTATTTTCAGTTTCTTCTTTAAACCATTTTT
*
45510389 AGTTATTTTTAGTTTCTTCTTTAAACCATTTT
1 AGTTATTTTCAGTTTCTTCTTTAAACCATTTT
45510421 CAATTTTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (33 bp):
AGTTATTTTCAGTTTCTTCTTTAAACCATTTTT
Found at i:45513711 original size:12 final size:12
Alignment explanation
Indices: 45513691--45513726 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
45513681 AAATCTATGT
*
45513691 CAATGCTTAAAA
1 CAATACTTAAAA
*
45513703 CAATTCTTAAAA
1 CAATACTTAAAA
45513715 CAATACTTAAAA
1 CAATACTTAAAA
45513727 AACTTTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (12 bp):
CAATACTTAAAA
Found at i:45516644 original size:39 final size:39
Alignment explanation
Indices: 45516582--45516702 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
45516572 TGTTAAGTAG
45516582 TATCCGCTGAGTTTCGTTCTGGAAATCATATCCAAATAC
1 TATCCGCTGAGTTTCGTTCTGGAAATCATATCCAAATAC
* * *
45516621 TATCTGCTGAGTTTCATTTTGGAAATCATATCCAAATAC
1 TATCCGCTGAGTTTCGTTCTGGAAATCATATCCAAATAC
*
45516660 TATCCGCTGAGTTTCGTTCTAGAAATCATATCCAAATAC
1 TATCCGCTGAGTTTCGTTCTGGAAATCATATCCAAATAC
45516699 TATC
1 TATC
45516703 TGCAAAGAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (39 bp):
TATCCGCTGAGTTTCGTTCTGGAAATCATATCCAAATAC
Found at i:45516980 original size:13 final size:13
Alignment explanation
Indices: 45516962--45516991 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
45516952 AGCCTAAACT
45516962 CAATTACCCAACC
1 CAATTACCCAACC
45516975 CAATTACCCAACC
1 CAATTACCCAACC
45516988 CAAT
1 CAAT
45516992 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:45517138 original size:9 final size:9
Alignment explanation
Indices: 45517126--45517193 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
45517116 AATAAAAAAA
45517126 AATTCGGGT
1 AATTCGGGT
*
45517135 AATTTGGGT
1 AATTCGGGT
*
45517144 ATTTTTC-GGT
1 A--ATTCGGGT
* *
45517154 AATTCAGTT
1 AATTCGGGT
45517163 AATTCGGGT
1 AATTCGGGT
45517172 AATTCGGGT
1 AATTCGGGT
45517181 AATTCGGGT
1 AATTCGGGT
45517190 AATT
1 AATT
45517194 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
8 3 0.06
9 40 0.82
10 4 0.08
11 2 0.04
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:45521568 original size:21 final size:21
Alignment explanation
Indices: 45521544--45521584 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45521534 CAGATCTCTC
* * *
45521544 AAAATAGAAATCTAACCTAAG
1 AAAAGAGAAAACTAAACTAAG
45521565 AAAAGAGAAAACTAAACTAA
1 AAAAGAGAAAACTAAACTAA
45521585 AATTAAAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAAGAGAAAACTAAACTAAG
Found at i:45525561 original size:15 final size:16
Alignment explanation
Indices: 45525537--45525570 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
45525527 TAATTGTGAG
*
45525537 TAAAGTTTAATTAA-T
1 TAAAGATTAATTAAGT
45525552 TAAAGATTAATTAAGT
1 TAAAGATTAATTAAGT
45525568 TAA
1 TAA
45525571 TTAAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (16 bp):
TAAAGATTAATTAAGT
Found at i:45527627 original size:16 final size:16
Alignment explanation
Indices: 45527606--45527641 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45527596 GACATAGTGT
* *
45527606 ATGTATTAACTCGTGA
1 ATGTATTAACACATGA
45527622 ATGTATTAACACATGA
1 ATGTATTAACACATGA
45527638 ATGT
1 ATGT
45527642 GCTTACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (16 bp):
ATGTATTAACACATGA
Found at i:45529613 original size:31 final size:32
Alignment explanation
Indices: 45529573--45529632 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
45529563 ACAAAGGTTA
*
45529573 ATTTAAGGGGATA-AGGGTTGTTGTCAGGCAGC
1 ATTTAAGGGG-TAGAGGGTTGGTGTCAGGCAGC
*
45529605 ATTT-AGGGGTAGAGGGTTGGTGTTAGGC
1 ATTTAAGGGGTAGAGGGTTGGTGTCAGGC
45529633 GGCACCAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 19 0.76
32 4 0.16
ACGTcount: A:0.22, C:0.07, G:0.42, T:0.30
Consensus pattern (32 bp):
ATTTAAGGGGTAGAGGGTTGGTGTCAGGCAGC
Found at i:45539215 original size:19 final size:19
Alignment explanation
Indices: 45539191--45539322 Score: 201
Period size: 19 Copynumber: 6.8 Consensus size: 19
45539181 AATTTTTGAG
*
45539191 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
45539210 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
45539229 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45539248 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
45539269 GATATGCAGTCTTAGATAT
1 GATATGCAATCTTAGATAT
**
45539288 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45539307 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
45539323 ATATATGATT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 83 0.81
21 19 0.19
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:45539261 original size:59 final size:57
Alignment explanation
Indices: 45539191--45539329 Score: 201
Period size: 59 Copynumber: 2.4 Consensus size: 57
45539181 AATTTTTGAG
* *
45539191 GATATGTAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
* * *
45539248 GATATATGCAATCTTAGATATGATATGCAGTCTTAGATATGATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
45539307 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
45539330 ATTTTGTAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 16 0.21
59 52 0.69
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
Found at i:45539859 original size:18 final size:17
Alignment explanation
Indices: 45539816--45539859 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
45539806 TTGCAATTCA
*
45539816 ATTTAGTTTTTCTTTTC
1 ATTTATTTTTTCTTTTC
* *
45539833 TTTTTTTTTGTTCTTTTC
1 ATTTATTTT-TTCTTTTC
45539851 ATTTATTTT
1 ATTTATTTT
45539860 ATTAATTAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (17 bp):
ATTTATTTTTTCTTTTC
Found at i:45540113 original size:24 final size:25
Alignment explanation
Indices: 45540071--45540119 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
45540061 TACATGTATA
45540071 TATATTTTTTAAAACGAATATTTTCC
1 TATATTTTTT-AAACGAATATTTTCC
*
45540097 TATATTTTTT-AATGAATATTTTC
1 TATATTTTTTAAACGAATATTTTC
45540120 ATATTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
26 10 0.45
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATTTTTTAAACGAATATTTTCC
Found at i:45540897 original size:98 final size:98
Alignment explanation
Indices: 45540787--45540983 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
45540777 TTAAAAATCA
*
45540787 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
45540852 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
45540885 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
45540950 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
45540983 T
1 T
45540984 TTTATTGTAT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:45545464 original size:9 final size:9
Alignment explanation
Indices: 45545450--45545483 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
45545440 TTCAGATTAA
45545450 AAAAAAAAC
1 AAAAAAAAC
45545459 AAAAAAAAC
1 AAAAAAAAC
45545468 AAAAACAAA-
1 AAAAA-AAAC
45545477 AAAAAAA
1 AAAAAAA
45545484 GTGAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 2 0.08
9 19 0.79
10 3 0.12
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:45545471 original size:15 final size:14
Alignment explanation
Indices: 45545448--45545483 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
45545438 AGTTCAGATT
45545448 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
45545462 AAAAACAAAAACAAA
1 AAAAA-AAAAACAAA
45545477 AAAAAAA
1 AAAAAAA
45545484 GTGAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:45546919 original size:127 final size:128
Alignment explanation
Indices: 45546764--45547001 Score: 406
Period size: 127 Copynumber: 1.9 Consensus size: 128
45546754 GATGAATCTT
* * *
45546764 ATCTTTCCAAGATATTGGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTCAGCAACAGTGGA
1 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAGCAACAGCGGA
*
45546829 GAAGGTTGAAGATTGTAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGACGGCGG
66 GAAGGTTGAAGATTGTAGATCATATCTCCCTGAAGCAGTAGTGGAGCAGATCGAAGACGGCGG
*
45546891 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAGCAGCAGCGGA
1 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAGCAACAGCGGA
**
45546956 GAAGGTTGAAGATTGTAGATCATATCTCCCTGAAGTTGTAGTGGAG
66 GAAGGTTGAAGATTGTAGATCATATCTCCCTGAAGCAGTAGTGGAG
45547002 TGGATTAAAA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
127 91 0.88
128 12 0.12
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (128 bp):
ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAGCAACAGCGGA
GAAGGTTGAAGATTGTAGATCATATCTCCCTGAAGCAGTAGTGGAGCAGATCGAAGACGGCGG
Found at i:45547108 original size:44 final size:43
Alignment explanation
Indices: 45547057--45547340 Score: 222
Period size: 44 Copynumber: 6.5 Consensus size: 43
45547047 GATCGCATCT
45547057 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
45547101 AGTCTTAT-TCTCCTGAAGTTACAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCA
* * * * *
45547146 AGTCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTAA-AACCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * *
45547189 TAATCCTATCTCCTTGAAATTGCAGTGGAGCAGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * *
45547233 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
45547274 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCA
45547318 AGTCTTATCGT-CCTGAAGTTGCA
1 AGTCTTATC-TCCCTGAAGTTGCA
45547341 ATGAGGTAGA
Statistics
Matches: 190, Mismatches: 37, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
40 21 0.11
41 9 0.05
42 5 0.03
43 12 0.06
44 108 0.57
45 34 0.18
46 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:45547215 original size:89 final size:88
Alignment explanation
Indices: 45547057--45547222 Score: 192
Period size: 89 Copynumber: 1.9 Consensus size: 88
45547047 GATCGCATCT
* * * *
45547057 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATTCTCCTGAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AACCAAATCCTATTCTCCTGAAATTA
*
45547122 CAGTGGGGCAGACTGAAGATGGCA
65 CAGTGGAGCAGACTGAAGATGGCA
* * * *
45547146 AGTCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTAA-AACCGATAATCCTA-TCTCCTTGAAAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAACC-A-AATCCTATTCTCC-TGAAAT
*
45547209 TGCAGTGGAGCAGA
63 TACAGTGGAGCAGA
45547223 TTAAAACCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
87 3 0.05
88 6 0.09
89 55 0.86
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (88 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAACCAAATCCTATTCTCCTGAAATTAC
AGTGGAGCAGACTGAAGATGGCA
Found at i:45547552 original size:19 final size:19
Alignment explanation
Indices: 45547528--45547659 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
45547518 AATTTTTGAG
45547528 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
45547547 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
45547566 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45547585 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
45547606 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
45547625 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45547644 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
45547660 ATATATGATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:45547595 original size:59 final size:57
Alignment explanation
Indices: 45547528--45547666 Score: 219
Period size: 59 Copynumber: 2.4 Consensus size: 57
45547518 AATTTTTGAG
*
45547528 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
* *
45547585 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
45547644 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
45547667 ATTTTGTAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
55 5 0.06
56 2 0.03
57 16 0.21
59 54 0.70
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
Found at i:45548438 original size:24 final size:25
Alignment explanation
Indices: 45548396--45548444 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
45548386 TACATGTATA
45548396 TATATTTTTTAAAACGAATATTTTCC
1 TATATTTTTT-AAACGAATATTTTCC
*
45548422 TATATTTTTT-AATGAATATTTTC
1 TATATTTTTTAAACGAATATTTTC
45548445 ATATTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
26 10 0.45
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATTTTTTAAACGAATATTTTCC
Found at i:45549191 original size:98 final size:98
Alignment explanation
Indices: 45549076--45549270 Score: 318
Period size: 98 Copynumber: 2.0 Consensus size: 98
45549066 AAAAATCATG
* *
45549076 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTAATTTTTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTAATTTCTT
*
45549141 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGAATGTTCTTTTAAAGTA
* * * *
45549174 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGTCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTAATTTCTT
*
45549239 AAATCTTGGATGAGTGAATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGAATGTTCTTTTAAAGT
45549271 TTTATTGTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTAATTTCTT
AAATCTTGGATAAGTGAATGTTCTTTTAAAGTA
Found at i:45555492 original size:23 final size:23
Alignment explanation
Indices: 45555448--45555497 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
45555438 TGATTTTTAA
* *
45555448 ATTTTAAATTATTTAGGGATAAT
1 ATTTTAAATTATTTAAGAATAAT
* *
45555471 ATTTTGAATTATTTAATAATAAT
1 ATTTTAAATTATTTAAGAATAAT
45555494 ATTT
1 ATTT
45555498 AGGGAAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (23 bp):
ATTTTAAATTATTTAAGAATAAT
Found at i:45556374 original size:18 final size:18
Alignment explanation
Indices: 45556351--45556385 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
45556341 TTTGAATATT
45556351 TTTATTTTATTTT-TTATA
1 TTTA-TTTATTTTATTATA
45556369 TTTATTTATTTTATTAT
1 TTTATTTATTTTATTAT
45556386 CTTAATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTTATTTTATTATA
Found at i:45561578 original size:15 final size:15
Alignment explanation
Indices: 45561556--45561596 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
45561546 AAAATAGAAA
45561556 ACAA-AATAATATAC
1 ACAATAATAATATAC
*
45561570 ACAATAATAATATAT
1 ACAATAATAATATAC
45561585 A-AATAAT-ATATA
1 ACAATAATAATATA
45561597 ATAATATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 10 0.40
15 10 0.40
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (15 bp):
ACAATAATAATATAC
Found at i:45561599 original size:10 final size:10
Alignment explanation
Indices: 45561573--45561605 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
45561563 AATATACACA
45561573 ATAATAATAT
1 ATAATAATAT
45561583 ATAAATAATAT
1 AT-AATAATAT
45561594 ATAATAATAT
1 ATAATAATAT
45561604 AT
1 AT
45561606 GTAAAAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAATAATAT
Found at i:45561651 original size:16 final size:16
Alignment explanation
Indices: 45561632--45561669 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
45561622 GTAAAAATAA
45561632 AATAAAGTACTA-AAAT
1 AATAAAGTA-TATAAAT
*
45561648 AATAAAGTATATATAT
1 AATAAAGTATATAAAT
45561664 AATAAA
1 AATAAA
45561670 AAATAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (16 bp):
AATAAAGTATATAAAT
Found at i:45561886 original size:25 final size:26
Alignment explanation
Indices: 45561858--45561915 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
45561848 AAATGAAATG
45561858 ATAATATATGGAA-AACTTAAAATAA
1 ATAATATATGGAACAACTTAAAATAA
* * *
45561883 ATAAT-TATTGAACAATTTAAAATGA
1 ATAATATATGGAACAACTTAAAATAA
45561908 ATAATATA
1 ATAATATA
45561916 AAGTTCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 20 0.71
26 2 0.07
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (26 bp):
ATAATATATGGAACAACTTAAAATAA
Found at i:45563928 original size:201 final size:199
Alignment explanation
Indices: 45563504--45564039 Score: 693
Period size: 201 Copynumber: 2.7 Consensus size: 199
45563494 TGCAATGCTA
* * **
45563504 GGGAAGTAAGATTCACTGTTGTTGCTTTAATCTGTTCCACTGTAACACTGGAGAAGTAAGATTCG
1 GGGAAGTAAGATTCACTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGAGAAGTAAGATTCG
* * * * ** * * * *
45563569 TTCTTGTAGCTTTAATCTATTTCACTGTAGCGCCGGGGAAGTAAGATTTGTTGTTGTAGCTTT-A
66 CTATTGTAGC-TTAATCTATTTAACTGCAATGTCGGGGAAGTAAGATTCGCTGTCGTAGCTTTAA
* * *
45563633 TCTGTTTCGCCGCAACGCCGAGGAAGTAAGATTTGCTATTGTAGCTTCAATTTGTTTAACTGCAA
130 TCTGTTTCGCCGCAACGCCGAGGAAGTAAGATTCGCTATTGTAGCTTCAATCTATTTAACTGCAA
*
45563698 TGTTG
195 TGTCG
* * * *
45563703 AGGAAGTAAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGCACCACCAGAGAAATAAGATTCG
1 GGGAAGTAAGATTCACTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGAGAAGTAAGATTCG
* * *
45563768 CTATTGTAGCTGTAATTTGTTTAACTGCAATGTCGGGGAAGTAAGATTCGCCGTCGTAGCTTTAA
66 CTATTGTAGCT-TAATCTATTTAACTGCAATGTCGGGGAAGTAAGATTCGCTGTCGTAGCTTTAA
*
45563833 TCTGTTT-GCACTG-AACTGCC-AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACT
130 TCTGTTTCGC-C-GCAAC-GCCGA-GGAAGTAAGATTCGCTATTGTAGCTTCAATCTATTTAACT
45563895 GCAATGTCG
191 GCAATGTCG
** * * *
45563904 GGGAAGTAAGATTCGTTGTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAGTAAGATTCA
1 GGGAAGTAAGATTCACTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGAGAAGTAAGATTCG
*
45563969 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGTAAGATTCGCTGTCGTAGCTTTAA
66 CTATTGTAGCTT-AATCTATTTAACTGCAATGTCGGGGAAGTAAGATTCGCTGTCGTAGCTTTAA
45564034 TCTGTT
130 TCTGTT
45564040 CCACTACACC
Statistics
Matches: 291, Mismatches: 39, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
198 1 0.00
199 107 0.37
200 14 0.05
201 169 0.58
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (199 bp):
GGGAAGTAAGATTCACTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGAGAAGTAAGATTCG
CTATTGTAGCTTAATCTATTTAACTGCAATGTCGGGGAAGTAAGATTCGCTGTCGTAGCTTTAAT
CTGTTTCGCCGCAACGCCGAGGAAGTAAGATTCGCTATTGTAGCTTCAATCTATTTAACTGCAAT
GTCG
Found at i:45564066 original size:50 final size:50
Alignment explanation
Indices: 45563483--45564044 Score: 461
Period size: 50 Copynumber: 11.2 Consensus size: 50
45563473 GGTGGCTTCG
* * * *
45563483 ATCTGCTCCACTGCAATGCTAGGGAAGTAAGATTCACTGTTGTTGCTTTA
1 ATCTGTTCCACTGCAATGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTA
* * * *
45563533 ATCTGTTCCACTGTAA--CACTGGAGAAGTAAGATTCGTTCTTGTAGCTTTA
1 ATCTGTTCCACTGCAATGC-CAGG-GAAGTAAGATTCGCTGTTGTAGCTTTA
* * * ** * * *
45563583 ATCTATTTCACTGTAGCGCCGGGGAAGTAAGATTTGTTGTTGTAGCTTT-
1 ATCTGTTCCACTGCAATGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTA
* * * * * * *
45563632 ATCTGTTTCGCCGCAACGCC-GAGGAAGTAAGATTTGCTATTGTAGCTTCA
1 ATCTGTTCCACTGCAATGCCAG-GGAAGTAAGATTCGCTGTTGTAGCTTTA
* ** ** * *
45563682 ATTTGTTTAACTGCAATG-TTGAGGAAGTAAGATTCACCGTTGTAGCTTTA
1 ATCTGTTCCACTGCAATGCCAG-GGAAGTAAGATTCGCTGTTGTAGCTTTA
*** * * * *
45563732 ATCTGTTCCACTGCACCACCAGAGAAATAAGATTCGCTATTGTAGCTGTA
1 ATCTGTTCCACTGCAATGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTA
* ** * * * *
45563782 ATTTGTTTAACTGCAATGTCGGGGAAGTAAGATTCGCCGTCGTAGCTTTA
1 ATCTGTTCCACTGCAATGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTA
* *
45563832 ATCTGTTTGCACTG-AACTGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCA
1 ATCTG-TTCCACTGCAA-TGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTA
* ** * * *
45563883 ATCTATTTAACTGCAATGTCGGGGAAGTAAGATTCGTTGTTGTAGCTTTA
1 ATCTGTTCCACTGCAATGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTA
* ** * *
45563933 ATCTATTCCACTGCAACACCAGGGAAGTAAGATTCACTGTTGTAGCTTCA
1 ATCTGTTCCACTGCAATGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTA
* ** * * *
45563983 ATCTATTTAACTGCAATGTCGGGGAAGTAAGATTCGCTGTCGTAGCTTTA
1 ATCTGTTCCACTGCAATGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTA
45564033 ATCTGTTCCACT
1 ATCTGTTCCACT
45564045 ACACCACCAG
Statistics
Matches: 404, Mismatches: 97, Indels: 22
0.77 0.19 0.04
Matches are distributed among these distances:
48 2 0.00
49 41 0.10
50 315 0.78
51 45 0.11
52 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (50 bp):
ATCTGTTCCACTGCAATGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTA
Found at i:45564072 original size:100 final size:100
Alignment explanation
Indices: 45563504--45564088 Score: 660
Period size: 100 Copynumber: 5.8 Consensus size: 100
45563494 TGCAATGCTA
* * * *
45563504 GGGAAGTAAGATTCACTGTTGTTGCTTTAATCTGTTCCACTGTAACA-CTGGAGAAGTAAGATTC
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGG-GAAGTAAGATTC
* * * * * ** *
45563568 GTTCTTGTAGCTTTAATCTATTTCACTGTAGCGCCG
65 GCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * * * *
45563604 GGGAAGTAAGATTTGTTGTTGTAGCTTT-ATCTGTTTCGCCGCAACGCC-GAGGAAGTAAGATTT
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAG-GGAAGTAAGATTC
* * * *
45563667 GCTATTGTAGCTTCAATTTGTTTAACTGCAATGTTG
65 GCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * * *
45563703 AGGAAGTAAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGCACCACCAGAGAAATAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCG
* * *
45563768 CTATTGTAGCTGT-AATTTGTTTAACTGCAATGTCG
66 CTGTTGTAGCT-TCAATCTATTTAACTGCAATGTCG
* * * *
45563803 GGGAAGTAAGATTCGCCGTCGTAGCTTTAATCTGTTTGCACTG-AACTGCCAGGGAAGTAAGATT
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTG-TTCCACTGCAAC-ACCAGGGAAGTAAGATT
45563867 CGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
64 CGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * *
45563904 GGGAAGTAAGATTCGTTGTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAGTAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCG
45563969 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * **
45564004 GGGAAGTAAGATTCGCTGTCGTAGCTTTAATCTGTTCCACTACACCACCAGGGAAATAAGATTTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCG
*
45564069 CTG-TGATAACTTCAATCTAT
66 CTGTTG-TAGCTTCAATCTAT
45564089 CCCACTACAA
Statistics
Matches: 414, Mismatches: 61, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
99 75 0.18
100 251 0.61
101 88 0.21
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (100 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCG
CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
Found at i:45567984 original size:34 final size:34
Alignment explanation
Indices: 45567941--45568010 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
45567931 GGTGGGTACC
*
45567941 AAAGAATATACAAAGAATATATGAATTTATGAAT
1 AAAGAATATACAAAGAATATATGAATTTATAAAT
45567975 AAAGAATATACAAAGAATATATGAATTTATAAAT
1 AAAGAATATACAAAGAATATATGAATTTATAAAT
45568009 AA
1 AA
45568011 CTATTTGTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.29
Consensus pattern (34 bp):
AAAGAATATACAAAGAATATATGAATTTATAAAT
Found at i:45570030 original size:19 final size:20
Alignment explanation
Indices: 45570006--45570052 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
45569996 TAGTAGACTT
* *
45570006 TAATGCAAAT-GATGTAATG
1 TAATGCAAATACATGAAATG
45570025 TAATGCAAATACATGAAATG
1 TAATGCAAATACATGAAATG
45570045 -AATGCAAA
1 TAATGCAAA
45570053 AATGTGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (20 bp):
TAATGCAAATACATGAAATG
Found at i:45570539 original size:16 final size:16
Alignment explanation
Indices: 45570514--45570548 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45570504 TTCTATGATG
*
45570514 AAATGACATGCAGTCA
1 AAATGACATGCAGCCA
*
45570530 AAATGTCATGCAGCCA
1 AAATGACATGCAGCCA
45570546 AAA
1 AAA
45570549 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGACATGCAGCCA
Found at i:45572302 original size:26 final size:25
Alignment explanation
Indices: 45572273--45572326 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
45572263 ATAGAAAACA
45572273 AAATAATATACACAATAATAATATAT
1 AAATAATATACACAATAAT-ATATAT
* * *
45572299 AAATAATATATATAATAATATATGT
1 AAATAATATACACAATAATATATAT
45572324 AAA
1 AAA
45572327 AGTTGAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATAATATACACAATAATATATAT
Found at i:45572305 original size:11 final size:12
Alignment explanation
Indices: 45572287--45572321 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
45572277 AATATACACA
45572287 ATAATAATATAT
1 ATAATAATATAT
45572299 A-AATAATATAT
1 ATAATAATATAT
45572310 ATAATAATATAT
1 ATAATAATATAT
45572322 GTAAAAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:45572318 original size:15 final size:14
Alignment explanation
Indices: 45572274--45572318 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
45572264 TAGAAAACAA
*
45572274 AATAATATACACAAT
1 AATAATATATA-AAT
45572289 AATAATATATAAAT
1 AATAATATATAAAT
45572303 AAT-ATATAT-AAT
1 AATAATATATAAAT
45572315 AATA
1 AATA
45572319 TATGTAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 6 0.21
13 6 0.21
14 6 0.21
15 10 0.36
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATATATAAAT
Found at i:45572601 original size:25 final size:26
Alignment explanation
Indices: 45572573--45572630 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
45572563 AAATGAAATG
45572573 ATAATATATGGAA-AACTTAAAATAA
1 ATAATATATGGAACAACTTAAAATAA
* * *
45572598 ATAAT-TATTGAACAATTTAAAATGA
1 ATAATATATGGAACAACTTAAAATAA
45572623 ATAATATA
1 ATAATATA
45572631 AAGTTCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 20 0.71
26 2 0.07
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (26 bp):
ATAATATATGGAACAACTTAAAATAA
Found at i:45577298 original size:23 final size:24
Alignment explanation
Indices: 45577272--45577321 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
45577262 TGATTTTTAA
*
45577272 ATTTTAA-ATTATTTAGTGATAAT
1 ATTTTAAGATTATTTAGTAATAAT
45577295 A-TTTAAGATTATTTAGTAATAAT
1 ATTTTAAGATTATTTAGTAATAAT
45577318 ATTT
1 ATTT
45577322 CGGGAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 17 0.71
24 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTTAAGATTATTTAGTAATAAT
Found at i:45578149 original size:17 final size:17
Alignment explanation
Indices: 45578127--45578175 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
45578117 GCTTATAAAG
45578127 TATTTTATTTTTTCATT
1 TATTTTATTTTTTCATT
45578144 TATTTTA--TTTTC-TT
1 TATTTTATTTTTTCATT
* *
45578158 TAATTTATTTTTGCATT
1 TATTTTATTTTTTCATT
45578175 T
1 T
45578176 TCGAATCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 8 0.30
15 5 0.19
16 4 0.15
17 10 0.37
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (17 bp):
TATTTTATTTTTTCATT
Found at i:45578164 original size:14 final size:15
Alignment explanation
Indices: 45578136--45578168 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
45578126 GTATTTTATT
*
45578136 TTTTCATTTATTTTA
1 TTTTCATTTAATTTA
45578151 TTTTC-TTTAATTTA
1 TTTTCATTTAATTTA
45578165 TTTT
1 TTTT
45578169 TGCATTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCATTTAATTTA
Found at i:45578165 original size:19 final size:17
Alignment explanation
Indices: 45578127--45578168 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
45578117 GCTTATAAAG
*
45578127 TATTTTATTTTTTCATT
1 TATTTTATTTTTTAATT
45578144 TATTTTATTTTCTTTAATT
1 TATTTTA-TTT-TTTAATT
45578163 TATTTT
1 TATTTT
45578169 TGCATTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 3 0.14
19 12 0.55
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTATTTTTTAATT
Found at i:45578251 original size:6 final size:6
Alignment explanation
Indices: 45578242--45578271 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
45578232 TTAAACCCCC
45578242 TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT
45578272 CAGCATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:45592852 original size:13 final size:13
Alignment explanation
Indices: 45592836--45592862 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45592826 TAAGCCTATA
45592836 TTATAAGTGATCT
1 TTATAAGTGATCT
45592849 TTATAAGTGATCT
1 TTATAAGTGATCT
45592862 T
1 T
45592863 ACAGTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTATAAGTGATCT
Found at i:45606598 original size:15 final size:15
Alignment explanation
Indices: 45606578--45606610 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
45606568 GTGTCCTATA
45606578 AATTAGGTTGTTGTC
1 AATTAGGTTGTTGTC
45606593 AATTAGGTTGTTGTC
1 AATTAGGTTGTTGTC
45606608 AAT
1 AAT
45606611 ATTCAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (15 bp):
AATTAGGTTGTTGTC
Found at i:45622241 original size:21 final size:21
Alignment explanation
Indices: 45622215--45622259 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
45622205 TTTAAGGGTA
* *
45622215 TGTCGTGACACCCTCAGTCTG
1 TGTCGTGAAACCCTCAATCTG
45622236 TGTCGTGAAACCCTCAATCTG
1 TGTCGTGAAACCCTCAATCTG
45622257 TGT
1 TGT
45622260 TGCAACATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (21 bp):
TGTCGTGAAACCCTCAATCTG
Found at i:45626009 original size:30 final size:28
Alignment explanation
Indices: 45625962--45626022 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
45625952 AAAAAATCAT
* *
45625962 AATATTAATTTTATTTTAATTTAATAATAA
1 AATATAAATTTTATTTTAAATTAA-AA-AA
45625992 AATATAAA-TTTATTTTTAAATTAAAAAA
1 AATATAAATTTTA-TTTTAAATTAAAAAA
45626020 AAT
1 AAT
45626023 GGGTCGGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.18
29 6 0.21
30 17 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AATATAAATTTTATTTTAAATTAAAAAA
Found at i:45629021 original size:3 final size:3
Alignment explanation
Indices: 45629004--45629081 Score: 83
Period size: 3 Copynumber: 27.3 Consensus size: 3
45628994 GGTTTTCTTT
* *
45629004 TTA TT- TTA ATA TTA TTA TT- TTA TTA TTA -TA TTA TTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
45629049 TTA TTA TTA TAA TTT TTA TT- TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
45629082 AACCATGTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
2 8 0.13
3 53 0.87
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:45629023 original size:14 final size:12
Alignment explanation
Indices: 45629013--45629081 Score: 79
Period size: 11 Copynumber: 5.5 Consensus size: 12
45629003 TTTATTTTAA
45629013 TATTATTA-TTT
1 TATTATTATTTT
45629024 TATTATTATATTAT
1 TATTATTAT-TT-T
45629038 TATTATTATTTT
1 TATTATTATTTT
45629050 TATTATTATAATTTT
1 TATTA-T-T-ATTTT
45629065 TATT-TTATTTT
1 TATTATTATTTT
45629076 TATTAT
1 TATTAT
45629082 AACCATGTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
11 17 0.33
12 8 0.16
13 6 0.12
14 11 0.22
15 9 0.18
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTATTATTTT
Found at i:45629026 original size:8 final size:8
Alignment explanation
Indices: 45629015--45629056 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
45629005 TATTTTAATA
45629015 TTATTATT
1 TTATTATT
45629023 TTATTATT
1 TTATTATT
*
45629031 ATATTATT
1 TTATTATT
45629039 ATTATTATTT
1 -TTATTA-TT
45629049 TTATTATT
1 TTATTATT
45629057 ATAATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 17 0.57
9 11 0.37
10 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTATTATT
Found at i:45630725 original size:34 final size:34
Alignment explanation
Indices: 45630682--45630753 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
45630672 ATACACCATA
*
45630682 CTTAAAAGAAAAATAATGCATCACATTTAAAATG
1 CTTAAAAGAAAAATAATGCATCAAATTTAAAATG
45630716 CTTAAAAGAAAAATAATGCATCAAATTTAAAATG
1 CTTAAAAGAAAAATAATGCATCAAATTTAAAATG
45630750 CTTA
1 CTTA
45630754 TGATAATTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (34 bp):
CTTAAAAGAAAAATAATGCATCAAATTTAAAATG
Found at i:45630830 original size:3 final size:3
Alignment explanation
Indices: 45630824--45630854 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
45630814 AATGATGATG
45630824 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45630855 ATTGATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:45632236 original size:17 final size:17
Alignment explanation
Indices: 45632214--45632258 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
45632204 ATAATTTACT
45632214 TATATAT-CATACTTTTA
1 TATATATACATA-TTTTA
45632231 TATATATACATATTTTA
1 TATATATACATATTTTA
45632248 TA-A-ATACATAT
1 TATATATACATAT
45632259 ACACGCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.30
16 1 0.04
17 14 0.52
18 4 0.15
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATATACATATTTTA
Found at i:45637754 original size:15 final size:16
Alignment explanation
Indices: 45637727--45637756 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45637717 CATGCTAAAA
45637727 ATAATTAAAATAATAT
1 ATAATTAAAATAATAT
45637743 ATAATT-AAATAATA
1 ATAATTAAAATAATA
45637757 AAAACTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATTAAAATAATAT
Found at i:45637781 original size:16 final size:15
Alignment explanation
Indices: 45637722--45637781 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 15
45637712 GTTAACATGC
*
45637722 TAAAAATAATTAAAA
1 TAAAAATAATAAAAA
*
45637737 TAATATATAATTAAATAA
1 TAA-AAATAA-TAAA-AA
45637755 TAAAAACTAATAAAAA
1 TAAAAA-TAATAAAAA
45637771 TATAAAATAAT
1 TA-AAAATAAT
45637782 TAAATTTCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 3 0.08
16 13 0.35
17 13 0.35
18 8 0.22
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAAATAATAAAAA
Found at i:45637781 original size:34 final size:33
Alignment explanation
Indices: 45637722--45637786 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
45637712 GTTAACATGC
* *
45637722 TAAAAATAATTAAAATAATATATAATTAAATAA
1 TAAAAATAATAAAAATAATAAATAATTAAATAA
45637755 TAAAAACTAATAAAAAT-ATAAAATAATTAAAT
1 TAAAAA-TAATAAAAATAAT-AAATAATTAAAT
45637787 TTCCCATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 8 0.29
34 20 0.71
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (33 bp):
TAAAAATAATAAAAATAATAAATAATTAAATAA
Found at i:45641373 original size:8 final size:9
Alignment explanation
Indices: 45641352--45641433 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
45641342 AAATTTTCTT
*
45641352 TAAAAATAA
1 TAAAAATTA
*
45641361 AAAAAATT-
1 TAAAAATTA
45641369 TAAAATATTA
1 TAAAA-ATTA
*
45641379 TAAAAAATA
1 TAAAAATTA
*
45641388 TTATAAAAGTA
1 -TA-AAAATTA
*
45641399 TTAAAATTGA
1 TAAAAATT-A
*
45641409 TATAAATTTA
1 TA-AAAATTA
45641419 TAAAAATTA
1 TAAAAATTA
45641428 TAAAAA
1 TAAAAA
45641434 AAAATCTTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
8 4 0.07
9 29 0.51
10 13 0.23
11 11 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:45641385 original size:20 final size:23
Alignment explanation
Indices: 45641357--45641401 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
45641347 TTCTTTAAAA
*
45641357 ATAAAAAAAATT-TAAAA-TATT
1 ATAAAAAATATTATAAAAGTATT
45641378 ATAAAAAATATTATAAAAGTATT
1 ATAAAAAATATTATAAAAGTATT
45641401 A
1 A
45641402 AAATTGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 5 0.24
23 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAAAAAATATTATAAAAGTATT
Found at i:45641387 original size:12 final size:12
Alignment explanation
Indices: 45641370--45641395 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45641360 AAAAAAATTT
45641370 AAAATATTATAA
1 AAAATATTATAA
45641382 AAAATATTATAA
1 AAAATATTATAA
45641394 AA
1 AA
45641396 GTATTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATATTATAA
Found at i:45647569 original size:16 final size:16
Alignment explanation
Indices: 45647530--45647570 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
45647520 TAGGCCCATC
45647530 ATCCCATGATCTCATG
1 ATCCCATGATCTCATG
** *
45647546 ATTTCATGATCTTATG
1 ATCCCATGATCTCATG
45647562 ATCCCATGA
1 ATCCCATGA
45647571 ATTTTTCCTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (16 bp):
ATCCCATGATCTCATG
Found at i:45654990 original size:93 final size:93
Alignment explanation
Indices: 45654845--45655031 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
45654835 TGAAATTTTT
45654845 TCAATACTCATACATGCTAATTTTAAAGATAATTTTTTGAGGAATGTCTAAATTGATTTTTGGGT
1 TCAATACTCATACATGCTAATTTTAAAGATAATTTTTTGAGGAATGTCTAAATTGATTTTTGGGT
45654910 TGGTTCTAATATTGAATTTCAAGTTTAA
66 TGGTTCTAATATTGAATTTCAAGTTTAA
45654938 TCAATACTCATACATGCTAATTTTAAAGATAATTTTTTGAGGAATGTCTAAATTGATTTTTGGGT
1 TCAATACTCATACATGCTAATTTTAAAGATAATTTTTTGAGGAATGTCTAAATTGATTTTTGGGT
45655003 TGGTTCTAATATTGAATTTCAAGTTTAA
66 TGGTTCTAATATTGAATTTCAAGTTTAA
45655031 T
1 T
45655032 TGTTGTCATT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (93 bp):
TCAATACTCATACATGCTAATTTTAAAGATAATTTTTTGAGGAATGTCTAAATTGATTTTTGGGT
TGGTTCTAATATTGAATTTCAAGTTTAA
Found at i:45658581 original size:50 final size:50
Alignment explanation
Indices: 45658464--45658704 Score: 288
Period size: 50 Copynumber: 4.8 Consensus size: 50
45658454 GATAATAACA
* ** * *
45658464 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** *
45658513 TGCCAATGCCATATCCCAGATATGATCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
45658563 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
45658613 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCGTCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
45658663 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
45658705 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 27, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 123 0.75
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:45674274 original size:27 final size:27
Alignment explanation
Indices: 45674190--45674281 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
45674180 CGCCAATGGG
* * *
45674190 ATTGGCGGCCCCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
45674217 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
45674244 ATTGGCGGCACCAATGGTGCC-ATACTA
1 ATTGGCGGCACCAATGGTGCCAATAC-C
45674271 ATTGGCGGCAC
1 ATTGGCGGCAC
45674282 TACTCGTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.05
27 55 0.95
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:45674371 original size:11 final size:11
Alignment explanation
Indices: 45674355--45674394 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
45674345 GTTGCTGCGG
45674355 AAAAGAAGAGA
1 AAAAGAAGAGA
45674366 AAAAG-AGAGA
1 AAAAGAAGAGA
* *
45674376 AAAAGAGGAAA
1 AAAAGAAGAGA
45674387 AAAAGAAG
1 AAAAGAAG
45674395 GTATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:45674389 original size:10 final size:10
Alignment explanation
Indices: 45674355--45674388 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
45674345 GTTGCTGCGG
45674355 AAAAGAAGAGA
1 AAAAG-AGAGA
45674366 AAAAGAGAGA
1 AAAAGAGAGA
45674376 AAAAGAG-GA
1 AAAAGAGAGA
45674385 AAAA
1 AAAA
45674389 AAGAAGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 12 0.52
11 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (10 bp):
AAAAGAGAGA
Found at i:45674457 original size:19 final size:21
Alignment explanation
Indices: 45674419--45674457 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
45674409 AATAATTGAT
*
45674419 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
45674440 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
45674458 TAGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:45674539 original size:3 final size:3
Alignment explanation
Indices: 45674533--45674579 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
45674523 ATTATTATTA
45674533 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
45674580 AGTATTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:45674787 original size:36 final size:34
Alignment explanation
Indices: 45674747--45674845 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 34
45674737 TTATTTTTAG
45674747 TAAAATTAATAATTTTAGTGTGTATTGTTTTGAGTA
1 TAAAATTAATAATTTTAG-GTGTATT-TTTTGAGTA
*
45674783 TAAAATTATTAA---TA--T-TA--TTTTGAGTA
1 TAAAATTAATAATTTTAGGTGTATTTTTTGAGTA
*
45674809 TAAAATTAATAATTTTAGCGTGTATTATTTTGTGTA
1 TAAAATTAATAATTTTAG-GTGTATT-TTTTGAGTA
45674845 T
1 T
45674846 TAATTTGAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 20
0.68 0.04 0.27
Matches are distributed among these distances:
26 20 0.40
29 4 0.08
30 1 0.02
32 1 0.02
33 4 0.08
36 20 0.40
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (34 bp):
TAAAATTAATAATTTTAGGTGTATTTTTTGAGTA
Found at i:45675452 original size:18 final size:18
Alignment explanation
Indices: 45675409--45675453 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
45675399 TTGACATGGT
*
45675409 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
45675427 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
45675445 TGGTGGCGA
1 TGGTGGCGA
45675454 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:45680365 original size:159 final size:157
Alignment explanation
Indices: 45679929--45680368 Score: 379
Period size: 159 Copynumber: 2.8 Consensus size: 157
45679919 AAAAATTAGT
* *
45679929 AAAAA-AA-TCTTACTTCAGCCATTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAA
1 AAAAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAA
45679992 TATCATAATATCTA--ATTTTATAATTTTATATTATTTCAGTGCATAATGTTTGAAATTTATTAC
66 TATCATAA-ATCTAGTATTTTATAATTTTATATTATTTCAGTGCATAATGTTTGAAA--TATTAC
* * *
45680055 TCTAGTGTGTTATTTAAATTAATTTGGTGTAA
128 TCTAGTGTATTATTT-AATAAATTT-GTATAA
* * * *
45680087 AAAAATAAC-CTTAAC-CCATGCCCTTTGCTCGTATTATTTTCT-CG-ATTTTTATTACTTTAAA
1 AAAAATAACTCTT-ACTTC-TGCCATTTGTTCGTATTTTTTTCTCCGCA-TTTTATTACTTT--A
* * * ** ** ** *
45680148 TAAAAATAT-ATTATTCTCGTATTTTATTGTTTTATATTATTTCAGTATATTTTCTTTGAAATAT
61 -AAAAATATCATAAATCTAGTATTTTATAATTTTATATTATTTCAGTGCATAATGTTTGAAATAT
* * *
45680212 T-TTGTA-T-TAATTATTT-CTAAATTT-TATAA
125 TACTCTAGTGT-ATTATTTAATAAATTTGTATAA
45680241 AAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT
1 AA---A--AATA-ACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT
* * *
45680306 AAAAAATATCATAAA-CTTAGTCTTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAAT
60 AAAAAATATCATAAATC-TAGTATTTTATAATTTTATATTATTTCAGTGCATAATGTTTGAAAT
45680369 TTATTAATTT
Statistics
Matches: 221, Mismatches: 38, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
154 6 0.03
156 6 0.03
157 2 0.01
158 22 0.10
159 67 0.30
160 53 0.24
161 22 0.10
162 43 0.19
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.49
Consensus pattern (157 bp):
AAAAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAA
TATCATAAATCTAGTATTTTATAATTTTATATTATTTCAGTGCATAATGTTTGAAATATTACTCT
AGTGTATTATTTAATAAATTTGTATAA
Found at i:45681246 original size:24 final size:24
Alignment explanation
Indices: 45681219--45681290 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
45681209 TTCCCTCTTC
45681219 TTCTTTTTCTCTTCTCCTTTCCTT
1 TTCTTTTTCTCTTCTCCTTTCCTT
45681243 TTC--TTTC-C-T-T-CTTT-CTT
1 TTCTTTTTCTCTTCTCCTTTCCTT
* *
45681260 TCTTTTTTTCTTTTCTCCTTTCCTT
1 T-TCTTTTTCTCTTCTCCTTTCCTT
45681285 TTCTTT
1 TTCTTT
45681291 CCTTCCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 16
0.66 0.05 0.29
Matches are distributed among these distances:
17 4 0.11
18 5 0.14
19 1 0.03
20 5 0.14
21 1 0.03
22 5 0.14
23 1 0.03
24 11 0.30
25 4 0.11
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (24 bp):
TTCTTTTTCTCTTCTCCTTTCCTT
Found at i:45681258 original size:4 final size:4
Alignment explanation
Indices: 45681242--45681339 Score: 81
Period size: 4 Copynumber: 23.0 Consensus size: 4
45681232 CTCCTTTCCT
* * *
45681242 TTTC TTTC CTTC TTTC TTTC TTTT TTTC TTT- TCTCC TTTCC TTTTC TTTCC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTT-C -TTTC TTT-C
* *
45681293 TTCC TTTTC TTTC TTTCC TCTC ATTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC -TTTC TTTC TTT-C TTTC -TTTC TTTC TTTC TTTC TTTC TTTC
45681340 CCTCTCCTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
3 1 0.01
4 57 0.75
5 15 0.20
6 3 0.04
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:45681268 original size:42 final size:42
Alignment explanation
Indices: 45681199--45681339 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
45681189 TTTTCTTTTT
* *
45681199 TTTTCCTTCCTTCCCTC-TTCTTCTTTTTCTCTTCTCCTTTCC
1 TTTTCTTTCCTTCTCTCTTTCTT-TTTTTCTCTTCTCCTTTCC
* *
45681241 TTTTCTTTCCTTCTTTCTTTCTTTTTTTCTTTTCTCCTTTCC
1 TTTTCTTTCCTTCTCTCTTTCTTTTTTTCTCTTCTCCTTTCC
* *
45681283 TTTTCTTTCCTTC-CT-TTTCTTTCTTTC-C-TCTCATTT-C
1 TTTTCTTTCCTTCTCTCTTTCTTTTTTTCTCTTCTCCTTTCC
* *
45681320 -TTTCTTTCTTTCTTTCTTTC
1 TTTTCTTTCCTTCTCTCTTTC
45681340 CCTCTCCTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
36 11 0.13
37 2 0.02
38 11 0.13
40 11 0.13
41 1 0.01
42 45 0.52
43 5 0.06
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.67
Consensus pattern (42 bp):
TTTTCTTTCCTTCTCTCTTTCTTTTTTTCTCTTCTCCTTTCC
Found at i:45681412 original size:27 final size:27
Alignment explanation
Indices: 45681382--45681448 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
45681372 TATTATTAAC
*
45681382 TGGTGTCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
45681409 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
45681436 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
45681449 CCCATTGGCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.30
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:45681456 original size:27 final size:27
Alignment explanation
Indices: 45681398--45681457 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
45681388 CGCCAATGGT
***
45681398 ATTGGCACCATTGGTGCCGCCAATGGT
1 ATTGGCACCATTGGTGCCGCCAATCCC
* *
45681425 TTTGGCACCTTTGGTGCCGCCAATCCC
1 ATTGGCACCATTGGTGCCGCCAATCCC
45681452 ATTGGC
1 ATTGGC
45681458 GTGACCAGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.30, G:0.27, T:0.28
Consensus pattern (27 bp):
ATTGGCACCATTGGTGCCGCCAATCCC
Found at i:45681931 original size:24 final size:25
Alignment explanation
Indices: 45681904--45681959 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
45681894 AGACTTAATT
* *
45681904 CTAATCAAA-GCTAAATTTATTATG
1 CTAATCAAATGCTAAATATATTATA
45681928 CTAAT-AAATGCTAAATATATTATA
1 CTAATCAAATGCTAAATATATTATA
*
45681952 CTCATCAA
1 CTAATCAA
45681960 TACAAAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (25 bp):
CTAATCAAATGCTAAATATATTATA
Found at i:45690597 original size:7 final size:7
Alignment explanation
Indices: 45690580--45690635 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
45690570 TTTGAGTAAA
45690580 AAAATATG
1 AAAA-ATG
45690588 AAAAATG
1 AAAAATG
45690595 AAAAAGTG
1 AAAAA-TG
45690603 -AAAATG
1 AAAAATG
45690609 -AAAATG
1 AAAAATG
45690615 AAAAATG
1 AAAAATG
45690622 AAAAA-G
1 AAAAATG
45690628 TAAAAATG
1 -AAAAATG
45690636 GAGAGGCTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
6 9 0.20
7 28 0.64
8 7 0.16
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:45692068 original size:45 final size:45
Alignment explanation
Indices: 45691958--45693091 Score: 457
Period size: 44 Copynumber: 26.0 Consensus size: 45
45691948 TCGCATCAGG
* * * **
45691958 TCTTATCTCCCCGAGGTTGCAGTGGAGCAGA-CTG-AG-TAAGCAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATC-GAAGATGA-TAAA
* * *
45692002 TCTTATCCCCCTTAGGTTGCAGTGGGGCAGATCGAAGATGATAAA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
*
45692047 TGTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGAT-AA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * * ** ** * *
45692091 TCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAG-TAATAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * * * ** * *
45692135 TTTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAGCA-G----G
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAG-ATGATAAA
* **
45692176 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-CTG-AGTAAGA-AGG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATC-GAAG-ATGATAAA
* *
45692220 TCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
** *
45692265 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTTAAGACGAT-AA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * * * * ** * *
45692309 TCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAG-TAATAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
** * * ** * * *
45692353 TCTTATCTCTTTGAAGTTGCAGTAGAGTGGATTGCAGCA-G----G
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAG-ATGATAAA
* * * **
45692394 TCTGATCTCCCTGAGGTTGCAGTGGAGCAGA-CTG-AG-TAAGCAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATC-GAAGATGA-TAAA
*
45692438 TCTTATC-CTCCTGAGGTTGCAGTAGG-GCATATCGAAGATGATAAA
1 TCTTATCTC-CCTGAGGTTGCAGT-GGAGCAGATCGAAGATGATAAA
* * * * ** *
45692483 TCTTATCTCCCTGAGGCTGTAGTAGAGAAGATTTAAGACGAT-AA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * * * * * ** * *
45692527 TCCTATCTCCCTAAAGTAGTAGTGGAGCGGATTAAAG-TAATAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * * ** * *
45692571 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAGCA-G----G
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAG-ATGATAAA
* * * * **
45692612 TCTTATCTCCCAGAGGTTGCAGTGGAGTAGA-CTG-AG-TAAGCAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATC-GAAGATGA-TAAA
*
45692656 TCTTATC-CCCTTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAA
1 TCTTATCTCCC-TGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
*
45692701 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGACGAT-AA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * * * * ** * *
45692745 TCCTATCTTCCTGAAGTTGTAGTGGAGCGGATTAAAG-TAATAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * * * * * *
45692789 TCTTATCTCTCTGAAGTTGAAGT--AG-AG-TGGAACAT-AGCAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGA-TAAA
*
45692830 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGACGAT-AA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * ** * ** * *
45692874 TCCTATCTCCCTGAAGTTTTAGTGGA-CTGGATTAAAG-TAATAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGC-AGATCGAAGATGATAAA
** * * ** * **
45692918 TCTTATCTCTTTGAAGTTGCAGTAGAGTGGATCG--CA-G-TAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * * * * * **
45692959 TCTTATCTCTCTGAGGTTGAAGGGGAGCACA-CTG-AG-TAAGCAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATC-GAAGATGA-TAAA
* * * * * *
45693003 TCTTATCCCCCAGAGGTTGCAGTGGGGAAAATCAAAGATGATAAA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
* * *
45693048 TCTTATCTCCCTGAGGTTGCAGTGAAGCAGATTGAAGACGATAA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAA
45693092 TCCTATAGAG
Statistics
Matches: 811, Mismatches: 213, Indels: 131
0.70 0.18 0.11
Matches are distributed among these distances:
40 14 0.02
41 131 0.16
42 2 0.00
43 18 0.02
44 430 0.53
45 203 0.25
46 13 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGATGATAAA
Found at i:45692249 original size:218 final size:218
Alignment explanation
Indices: 45691871--45692860 Score: 1656
Period size: 218 Copynumber: 4.5 Consensus size: 218
45691861 GAATATTACA
*
45691871 AATCCTATCTCCCTAAAGTTGTAGTGAAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* * *
45691936 GAGTAGAGTGGATCGCATCAGGTCTTATCTCCCCGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
66 CAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
* *
45692001 GTCTTATCCCCCTTAGGTTGCAGTGGGGCAGATCGAAGATGATAAATGTTATCTCCCTGAGGTTG
131 GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTCCCTGAGGTTG
*
45692066 CAGTGGAGCAGATCGAAGATGAT
196 CAGTGGAGCAGATCGAAGACGAT
* * *
45692089 AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAGTAATAGATTTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
*
45692154 CAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGAAG
66 CAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
45692219 GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTCCCTGAGGTTG
131 GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTCCCTGAGGTTG
**
45692284 CAGTGGAGCAGATTTAAGACGAT
196 CAGTGGAGCAGATCGAAGACGAT
*
45692307 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTTTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* *
45692372 CAGTAGAGTGGATTGCAGCAGGTCTGATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
66 CAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
* * * *
45692437 GTCTTATCCTCCTGAGGTTGCAGTAGGGCATATCGAAGATGATAAATCTTATCTCCCTGAGGCTG
131 GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTCCCTGAGGTTG
* * * **
45692502 TAGTAGAGAAGATTTAAGACGAT
196 CAGTGGAGCAGATCGAAGACGAT
*
45692525 AATCCTATCTCCCTAAAGTAGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* *
45692590 CAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCAGAGGTTGCAGTGGAGTAGACTGAGTAAGCAG
66 CAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
*
45692655 GTCTTATCCCCTTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTCCCTGAGGTTG
131 GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTCCCTGAGGTTG
45692720 CAGTGGAGCAGATCGAAGACGAT
196 CAGTGGAGCAGATCGAAGACGAT
* *
45692743 AATCCTATCTTCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* * ** *
45692808 AAGTAGAGTGGAACATAGCAGATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
66 CAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
45692861 TCGAAGACGA
Statistics
Matches: 719, Mismatches: 53, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
218 719 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (218 bp):
AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
CAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTCCCTGAGGTTG
CAGTGGAGCAGATCGAAGACGAT
Found at i:45693054 original size:436 final size:435
Alignment explanation
Indices: 45691871--45693078 Score: 1218
Period size: 436 Copynumber: 2.8 Consensus size: 435
45691861 GAATATTACA
*
45691871 AATCCTATCTCCCTAAAGTTGTAGTGAAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* * * * * * * *
45691936 GAGTAGAGTGGATCGCATCAGGTCTTATCTCCCCGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
66 AAGTAGAGTGGAACACAGCAGATCTGATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAA
* * * * * * * * * * * * *
45692001 GTCTTATCCCCCTTAGGTTGCAGTGGGGCAGATCGAAGATGATAAATGTTATCTCCCTGAGGTTG
131 ATCCTATCCTCCTGAAGTTGCAGTAGGACATATCAAAGATAATAAATCTTATCTCCCTGAAGCTG
* * * * * * * * *** *
45692066 CAGTGGAGCAGATCGAAGATGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAGTAA
196 CAGTAGAGAAGAT-TAAGACGATAATCCTATCTCCCTAAAGTAGAAGGGGAGCACACTAAAGTAA
* * * * * *** **
45692131 TAGATTTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCTGAGGTTGC
260 CAGATCTTATCCCCCAGAAGTTGCAGTAGAGAAAATCGCAGCAAATCTTATCTCCCTGAGGTTGC
45692196 AGTGGAGCAGACTGAGTAAGAAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGA
325 AGTGGAGCAGACTGAGTAAGAAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGA
**
45692261 TAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTTAAGACGAT
390 TAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGACGAT
*
45692307 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTTTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* *** * *
45692372 CAGTAGAGTGGATTGCAGCAGGTCTGATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
66 AAGTAGAGTGGAACACAGCAGATCTGATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAA
* * * * * * *
45692437 GTCTTATCCTCCTGAGGTTGCAGTAGGGCATATCGAAGATGATAAATCTTATCTCCCTGAGGCTG
131 ATCCTATCCTCCTGAAGTTGCAGTAGGACATATCAAAGATAATAAATCTTATCTCCCTGAAGCTG
* * * ** *
45692502 TAGTAGAGAAGATTTAAGACGATAATCCTATCTCCCTAAAGTAGTAGTGGAGCGGATTAAAGTAA
196 CAGTAGAGAAGA-TTAAGACGATAATCCTATCTCCCTAAAGTAGAAGGGGAGCACACTAAAGTAA
* * * * *** ** *
45692567 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAGCAGGTCTTATCTCCCAGAGGTTGC
260 CAGATCTTATCCCCCAGAAGTTGCAGTAGAGAAAATCGCAGCAAATCTTATCTCCCTGAGGTTGC
* * *
45692632 AGTGGAGTAGACTGAGTAAGCAGGTCTTATCCCCTTGAGGTTGCAGTGGGGCAGATCGAAGATGA
325 AGTGGAGCAGACTGAGTAAGAAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGA
45692697 TAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGACGAT
390 TAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGACGAT
* *
45692743 AATCCTATCTTCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* * *
45692808 AAGTAGAGTGGAACATAGCAGATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-T-CG-AAGACG
66 AAGTAGAGTGGAACACAGCAGATCTGATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAG-C-
** * * **
45692870 ATAATCCTAT-CTCCCTGAAGTTTTAGT-GGAC-TGGATTAAAG-TAATAGATCTTATCTCTTTG
129 A-AATCCTATCCT-CCTGAAGTTGCAGTAGGACAT--ATCAAAGATAATAAATCTTATCTCCCTG
* ** * * * * * * *
45692931 AAGTTGCAGTAGAGTGGA-T-CG-C-AGTAGGTCTTATCTCTCTGAGGTTGAAGGGGAGCACACT
190 AAGCTGCAGTAGAGAAGATTAAGACGA-TA-ATCCTATCTCCCTAAAGTAGAAGGGGAGCACACT
* * * * * *
45692992 -GAGTAAGCAGGTCTTATCCCCCAGAGGTTGCAGTGGGGAAAATCAAAG-ATGATAAATCTTATC
253 AAAGTAA-CAGATCTTATCCCCCAGAAGTTGCAGTAGAGAAAATC---GCA-G-CAAATCTTATC
*
45693055 TCCCTGAGGTTGCAGTGAAGCAGA
312 TCCCTGAGGTTGCAGTGGAGCAGA
45693079 TTGAAGACGA
Statistics
Matches: 670, Mismatches: 87, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
430 1 0.00
431 8 0.01
432 50 0.07
433 4 0.01
434 4 0.01
435 38 0.06
436 564 0.84
437 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (435 bp):
AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
AAGTAGAGTGGAACACAGCAGATCTGATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAA
ATCCTATCCTCCTGAAGTTGCAGTAGGACATATCAAAGATAATAAATCTTATCTCCCTGAAGCTG
CAGTAGAGAAGATTAAGACGATAATCCTATCTCCCTAAAGTAGAAGGGGAGCACACTAAAGTAAC
AGATCTTATCCCCCAGAAGTTGCAGTAGAGAAAATCGCAGCAAATCTTATCTCCCTGAGGTTGCA
GTGGAGCAGACTGAGTAAGAAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGAT
AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGACGAT
Found at i:45693226 original size:157 final size:157
Alignment explanation
Indices: 45692940--45693254 Score: 495
Period size: 157 Copynumber: 2.0 Consensus size: 157
45692930 GAAGTTGCAG
*
45692940 TAGAGTGGATCGCAGTAGGTCTTATCTCTCTGAGGTTGAAGGGGAGCACACTGAGTAAGCAGGTC
1 TAGAGTGGATCGCAGTAGGTCTTATCTCCCTGAGGTTGAAGGGGAGCACACTGAGTAAGCAGGTC
* *
45693005 TTATCCCCCAGAGGTTGCAGTGGGGAAAATCAAAGATGATAAATCTTATCTCCCTGAGGTTGCAG
66 TTATCCCCCAGAGATTGCAGGGGGGAAAATCAAAGATGATAAATCTTATCTCCCTGAGGTTGCAG
45693070 TGAAGCAGATTGAAGACGATAATCCTA
131 TGAAGCAGATTGAAGACGATAATCCTA
* * * * *
45693097 TAGAGTGGATCGCATTAGTTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAGGTC
1 TAGAGTGGATCGCAGTAGGTCTTATCTCCCTGAGGTTGAAGGGGAGCACACTGAGTAAGCAGGTC
* * * *
45693162 TTATCCCCCTGAGATTGCAGGGGGGCAGATCGAAGATGATAAATCTTATCTCCCTGAGGTTGCAG
66 TTATCCCCCAGAGATTGCAGGGGGGAAAATCAAAGATGATAAATCTTATCTCCCTGAGGTTGCAG
* * *
45693227 TGGAGTAGATTGAAGCCGATAATCCTA
131 TGAAGCAGATTGAAGACGATAATCCTA
45693254 T
1 T
45693255 CTCCCTAAAG
Statistics
Matches: 143, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (157 bp):
TAGAGTGGATCGCAGTAGGTCTTATCTCCCTGAGGTTGAAGGGGAGCACACTGAGTAAGCAGGTC
TTATCCCCCAGAGATTGCAGGGGGGAAAATCAAAGATGATAAATCTTATCTCCCTGAGGTTGCAG
TGAAGCAGATTGAAGACGATAATCCTA
Done.