Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 330 of 362
Found at i:110168485 original size:9 final size:10
Alignment explanation
Indices: 110168472--110168517 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
110168462 GGGAAAGTCT
110168472 AATGCAAAT-
1 AATGCAAATG
110168481 AATGC-AATG
1 AATGCAAATG
110168490 CAATGCAAATG
1 -AATGCAAATG
*
110168501 CATG-AAATG
1 AATGCAAATG
110168510 AATGCAAA
1 AATGCAAA
110168518 AGGAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (10 bp):
AATGCAAATG
Found at i:110168496 original size:19 final size:19
Alignment explanation
Indices: 110168472--110168517 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
110168462 GGGAAAGTCT
*
110168472 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
110168490 CAATGCAAATGCATGAAATG
1 -AATGCAAATGAATGAAATG
110168510 AATGCAAA
1 AATGCAAA
110168518 AGGAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:110170802 original size:3 final size:3
Alignment explanation
Indices: 110170789--110170874 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
110170779 AAGGGTATAT
110170789 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
110170833 ATA ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
110170875 AAAAAATAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:110170819 original size:30 final size:29
Alignment explanation
Indices: 110170784--110170874 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 29
110170774 ATGGAAAGGG
110170784 TATATATAATA-TAATAATAATATAAATAA
1 TATATATAATAGTAATAATAATA-AAATAA
*
110170813 TAATATATACATGAGAAATAATAATAATAATAA
1 T-ATATATA-AT-AGTAATAATAATAA-AATAA
* *
110170846 TATAAATAATAGTAAAAATAATAAAATAA
1 TATATATAATAGTAATAATAATAAAATAA
110170875 AAAAAATAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
29 6 0.11
30 19 0.36
31 4 0.08
32 8 0.15
33 16 0.30
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
TATATATAATAGTAATAATAATAAAATAA
Found at i:110170871 original size:9 final size:9
Alignment explanation
Indices: 110170829--110170883 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
110170819 ATACATGAGA
*
110170829 AATAATAAT
1 AATAAAAAT
*
110170838 AATAATAAT
1 AATAAAAAT
110170847 -ATAAATAAT
1 AATAAA-AAT
*
110170856 AGTAAAAAT
1 AATAAAAAT
110170865 AAT-AAAAT
1 AATAAAAAT
*
110170873 AAAAAAAAT
1 AATAAAAAT
110170882 AA
1 AA
110170884 AACAAAGCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 11 0.28
9 24 0.62
10 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (9 bp):
AATAAAAAT
Found at i:110171417 original size:30 final size:30
Alignment explanation
Indices: 110171383--110171464 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
110171373 GATGGTGTAG
* *
110171383 GTGCAAGTGGGAGACAATGTGGTGGAGTAA
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAA
* *
110171413 GTGCAAGTAGGAGGCAAGGTGGTGGAGTAG
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAA
110171443 GTGCAAGTGGGAGGCAAGGTGG
1 GTGCAAGTGGGAGGCAAGGTGG
110171465 CTAGGGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.27, C:0.07, G:0.49, T:0.17
Consensus pattern (30 bp):
GTGCAAGTGGGAGGCAAGGTGGTGGAGTAA
Found at i:110172789 original size:21 final size:20
Alignment explanation
Indices: 110172756--110172794 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
110172746 ATTTTATCCT
110172756 TTAATATTATTATAATAATA
1 TTAATATTATTATAATAATA
*
110172776 TTAATTTTAATTATAATAA
1 TTAATATT-ATTATAATAA
110172795 CAATCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATATTATTATAATAATA
Found at i:110172803 original size:21 final size:21
Alignment explanation
Indices: 110172764--110172803 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
110172754 CTTTAATATT
* *
110172764 ATTATAATAATATTAATTTTA
1 ATTATAATAACAATAATTTTA
*
110172785 ATTATAATAACAATCATTT
1 ATTATAATAACAATAATTT
110172804 AAAACACGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTATAATAACAATAATTTTA
Found at i:110179420 original size:27 final size:27
Alignment explanation
Indices: 110179390--110179464 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
110179380 GACTTGCACT
* *
110179390 TGTAGTGCCCAGAGGAAAAG-TCTTAGC
1 TGTAGTGCCCA-AAGAAAAGCTCATAGC
* *
110179417 TGTAGTGCACAAAGAAAAGCTCATAGT
1 TGTAGTGCCCAAAGAAAAGCTCATAGC
**
110179444 TGTAGTGCCTGAAGAAAAGCT
1 TGTAGTGCCCAAAGAAAAGCT
110179465 TGGAGTTGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 7 0.17
27 33 0.82
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.23
Consensus pattern (27 bp):
TGTAGTGCCCAAAGAAAAGCTCATAGC
Found at i:110179471 original size:27 final size:27
Alignment explanation
Indices: 110179441--110179500 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
110179431 AAAAGCTCAT
*
110179441 AGTTGTAGTGCCTGAAGAAAAGCTTGG
1 AGTTGTAGTGCCTGAACAAAAGCTTGG
* * * *
110179468 AGTTGTAGTTCCTGGACTAAAGCTTGT
1 AGTTGTAGTGCCTGAACAAAAGCTTGG
110179495 AGTTGT
1 AGTTGT
110179501 GCTGATTGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (27 bp):
AGTTGTAGTGCCTGAACAAAAGCTTGG
Found at i:110186625 original size:32 final size:32
Alignment explanation
Indices: 110186589--110186654 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
110186579 ATGTTTTGGG
*
110186589 TTAGTTATTCGAAATGCTAAAGCGGAGGTTAT
1 TTAGTTATTCAAAATGCTAAAGCGGAGGTTAT
110186621 TTAGTTATTCAAAATGCTAAAGCGGAGGTTAT
1 TTAGTTATTCAAAATGCTAAAGCGGAGGTTAT
110186653 TT
1 TT
110186655 GCTCAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (32 bp):
TTAGTTATTCAAAATGCTAAAGCGGAGGTTAT
Found at i:110188091 original size:16 final size:17
Alignment explanation
Indices: 110188060--110188092 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
110188050 TTCATAAGTA
110188060 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
110188077 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
110188093 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:110188432 original size:46 final size:46
Alignment explanation
Indices: 110188380--110188652 Score: 352
Period size: 46 Copynumber: 5.9 Consensus size: 46
110188370 TTGACATGAA
* * * *
110188380 GCCATGGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTT
* * * * *
110188426 GCCATGGTATTTTTCAACCATGGTCTTATTCATTTCATGTCACGCT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTT
* * *
110188472 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-CATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTT
*
110188518 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTT
* *
110188564 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTT
* * *
110188610 GCCATGCTATCTTTCAACCATGGTCTTACACATATCATATCAG
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
110188653 AGAGCACACT
Statistics
Matches: 205, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 8 0.04
46 193 0.94
47 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTT
Found at i:110193927 original size:27 final size:25
Alignment explanation
Indices: 110193871--110193929 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
110193861 AAATGTGAAG
110193871 AATATTTGAGTAAATTGAAATTTAGGC
1 AATATTTGAGTAAATTGAAATTT--GC
110193898 AATATTTGAGTAAAAATTGAAATATT-C
1 AATATTTGAGT--AAATTGAAAT-TTGC
110193925 AATAT
1 AATAT
110193930 GAAATTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 17 0.59
29 10 0.34
30 2 0.07
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (25 bp):
AATATTTGAGTAAATTGAAATTTGC
Found at i:110199865 original size:34 final size:34
Alignment explanation
Indices: 110199827--110199917 Score: 80
Period size: 34 Copynumber: 2.6 Consensus size: 34
110199817 ATATATGCGT
110199827 AATATATATAAATACATATATAATATAATGTT-AA
1 AATATATATAAATACATATATAA-ATAATGTTGAA
*
110199861 AATATTCACATAATATACATA-AT-AATAATGTTGAA
1 AATA-T-ATATAA-ATACATATATAAATAATGTTGAA
* * * *
110199896 AACATCTATTAATAAATATATA
1 AATATATATAAATACATATATA
110199918 CTTATATGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
32 6 0.13
33 5 0.11
34 13 0.29
35 7 0.16
36 7 0.16
37 7 0.16
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (34 bp):
AATATATATAAATACATATATAAATAATGTTGAA
Found at i:110201831 original size:40 final size:40
Alignment explanation
Indices: 110201772--110201896 Score: 126
Period size: 43 Copynumber: 3.0 Consensus size: 40
110201762 GTTTCTTTTG
* * * *
110201772 TCTGCTCCGCTATTGCTTAGAGAGATGAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
* ** *
110201812 TCTGCTCCACTACTACTTAGGGAGATAAGATCGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TTGATGT-GA
*
110201855 TCTGCTTCACTACTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
110201895 TC
1 TC
110201897 CACTCTGCTG
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
39 1 0.01
40 31 0.46
41 1 0.01
42 1 0.01
43 32 0.48
44 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
Found at i:110201872 original size:83 final size:84
Alignment explanation
Indices: 110201728--110201896 Score: 223
Period size: 83 Copynumber: 2.0 Consensus size: 84
110201718 GTGGTTTTAG
* * * * * *
110201728 TCTGCTCCACTGCAACTTCAGAGAGATAGGATTAGTTTCTTTTGTCTGCTCCGCTATTGCTTAGA
1 TCTGCTCCACTACAACTTCAGAGAGATAAGATCAGTTTCTTTCGTCTGCTCCACTACTGCTTAGA
*
110201793 GAGATGAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
* * * * *
110201812 TCTGCTCCACTACTACTT-AGGGAGATAAGATCGGTTTCTTTCGTCTGCTTCACTACTGCTTAGG
1 TCTGCTCCACTACAACTTCAGAGAGATAAGATCAGTTTCTTTCGTCTGCTCCACTACTGCTTAGA
110201876 GAGATAAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
110201895 TC
1 TC
110201897 CACTCTGCTG
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
83 57 0.78
84 16 0.22
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (84 bp):
TCTGCTCCACTACAACTTCAGAGAGATAAGATCAGTTTCTTTCGTCTGCTCCACTACTGCTTAGA
GAGATAAGACTTGATGTGA
Found at i:110201965 original size:44 final size:44
Alignment explanation
Indices: 110201904--110202272 Score: 182
Period size: 44 Copynumber: 8.5 Consensus size: 44
110201894 ATCCACTCTG
* * * * *
110201904 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATCCTTTACTTTGATCTGCTCCA
* ** * * *
110201948 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCG
1 CTGTAACTTCAGGGAGATAAGATCCTTTACTTTGATCTGCTCCA
** **
110201991 CTGTAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCA
1 CTGTAACT-TCAGGGAGATAAGATCCT-TTACTTTGATCTGCTCCA
* * * **
110202035 CTGTAACCTCAGGGAGATAAGATCCGAAATT-CTTTGGTCTATTCCA
1 CTGTAACTTCAGGGAGATAAGATCC---TTTACTTTGATCTGCTCCA
* * * *
110202081 CTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TGTGATCTTCTCTA
1 CTGTAACT-TCAGGGAGATAAGATCCTTTACTTTGATCTGCTCCA
*
110202122 CTGTAACTTCAGGGAGATAAGATCCTTTA-----ATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATCCTTTACTTTGATCTGCTCCA
* * * * * *
110202161 TTGTAA-TCTCAAGGAGATAGGATTACTAT-CTTTGATCTGCTCCG
1 CTGTAACT-TCAGGGAGATAAGA-TCCTTTACTTTGATCTGCTCCA
* *
110202205 CTGTAA-TCTCAGGGAGATAAGAT-CTGAAATT-CTTTGGTCTGTTCCA
1 CTGTAACT-TCAGGGAGATAAGATCCT----TTACTTTGATCTGCTCCA
110202251 CTGTAA-TCTCAGGGAGATAAGA
1 CTGTAACT-TCAGGGAGATAAGA
110202273 CCTGTATAAT
Statistics
Matches: 251, Mismatches: 50, Indels: 46
0.72 0.14 0.13
Matches are distributed among these distances:
38 1 0.00
39 24 0.10
40 4 0.02
41 30 0.12
42 7 0.03
43 33 0.13
44 83 0.33
45 3 0.01
46 65 0.26
47 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGTAACTTCAGGGAGATAAGATCCTTTACTTTGATCTGCTCCA
Found at i:110202094 original size:46 final size:45
Alignment explanation
Indices: 110202031--110202272 Score: 149
Period size: 46 Copynumber: 5.6 Consensus size: 45
110202021 TTCAATCTGC
*
110202031 TCCACTGTAACCTCAGGGAGATAAGATCCGAAATTCTTTGGTCTAT
1 TCCACTGTAATCTCAGGGAGATAAGATCCGAAATTCTTTGGTCT-T
* *
110202077 TCCACTGTAATCTCAGGGAGATAAGA-CCTG--A---TGTGATCTT
1 TCCACTGTAATCTCAGGGAGATAAGATCC-GAAATTCTTTGGTCTT
* ** *
110202117 CTCTACTGTAA-CTTCAGGGAGATAAGATCCTTTAA-TC---CG-C--
1 -TCCACTGTAATC-TCAGGGAGATAAGATCC-GAAATTCTTTGGTCTT
* * * * * * *
110202157 TCCATTGTAATCTCAAGGAGATAGGAT---TACTATCTTTGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCGAAAT-TCTTTGGTCT-T
* *
110202201 TCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGATCCGAAATTCTTTGGTCT-T
110202247 TCCACTGTAATCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
110202273 CCTGTATAAT
Statistics
Matches: 152, Mismatches: 23, Indels: 42
0.70 0.11 0.19
Matches are distributed among these distances:
35 2 0.01
37 2 0.01
39 21 0.14
40 3 0.02
41 30 0.20
42 4 0.03
44 25 0.16
45 2 0.01
46 61 0.40
47 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (45 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCGAAATTCTTTGGTCTT
Found at i:110210541 original size:61 final size:55
Alignment explanation
Indices: 110210425--110210541 Score: 153
Period size: 61 Copynumber: 2.0 Consensus size: 55
110210415 ATTAAGCCCG
110210425 CTCCGGTTGAAATTCATTGATTGAAGCTCGCCTTGGAATGCTAAAGCCTAACCGA
1 CTCCGGTTGAAATTCATTGATTGAAGCTCGCCTTGGAATGCTAAAGCCTAACCGA
***
110210480 CTCCGGGTTGAAAATTCATTGGGATTGAAGCATCGCCTTGGAACTGCTGGGGCCTAACCGA
1 CTCC-GGTTG-AAATTCATT--GATTGAAGC-TCGCCTTGGAA-TGCTAAAGCCTAACCGA
110210541 C
1 C
110210542 ACAGAGGGTC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
55 4 0.08
56 5 0.09
57 9 0.17
59 9 0.17
60 11 0.21
61 15 0.28
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (55 bp):
CTCCGGTTGAAATTCATTGATTGAAGCTCGCCTTGGAATGCTAAAGCCTAACCGA
Found at i:110214971 original size:34 final size:34
Alignment explanation
Indices: 110214933--110215023 Score: 80
Period size: 34 Copynumber: 2.6 Consensus size: 34
110214923 ATATATGCGT
110214933 AATATATATAAATACATATATAATATAATGTT-AA
1 AATATATATAAATACATATATAA-ATAATGTTGAA
*
110214967 AATATTCACATAATATACATA-AT-AATAATGTTGAA
1 AATA-T-ATATAA-ATACATATATAAATAATGTTGAA
* * * *
110215002 AACATCTATTAATAAATATATA
1 AATATATATAAATACATATATA
110215024 CTTATATGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
32 6 0.13
33 5 0.11
34 13 0.29
35 7 0.16
36 7 0.16
37 7 0.16
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (34 bp):
AATATATATAAATACATATATAAATAATGTTGAA
Found at i:110218467 original size:12 final size:12
Alignment explanation
Indices: 110218450--110218474 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110218440 AAGATTAGAC
110218450 AATAAAGAAGAT
1 AATAAAGAAGAT
110218462 AATAAAGAAGAT
1 AATAAAGAAGAT
110218474 A
1 A
110218475 GACGGAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AATAAAGAAGAT
Found at i:110229447 original size:19 final size:19
Alignment explanation
Indices: 110229423--110229471 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
110229413 ATCATTTTCT
*
110229423 ATAAATTATTTCTAGAAAA
1 ATAAATTATTTATAGAAAA
110229442 ATAAATTATTTATAGAAAA
1 ATAAATTATTTATAGAAAA
* *
110229461 GTAAATCATTT
1 ATAAATTATTT
110229472 TTCAGAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (19 bp):
ATAAATTATTTATAGAAAA
Found at i:110233861 original size:25 final size:25
Alignment explanation
Indices: 110233831--110233884 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
110233821 ATACACTCTT
*
110233831 TTATTTTCTTTTATTATA-AATATTA
1 TTATTTTATTTTATT-TACAATATTA
* *
110233856 TTATTTTATTTTCTTTACATTATTA
1 TTATTTTATTTTATTTACAATATTA
110233881 TTAT
1 TTAT
110233885 ATTGTATCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
TTATTTTATTTTATTTACAATATTA
Found at i:110246970 original size:44 final size:44
Alignment explanation
Indices: 110246874--110247406 Score: 776
Period size: 44 Copynumber: 12.3 Consensus size: 44
110246864 TTCCTTGAAA
* * *
110246874 AAGATAACAGATTTGGCATCTCTGTAGCGGGCAGAGAGTAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCG
*
110246919 AAGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
110246963 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * * *
110247007 AAGATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGTAGATCA
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* *
110247051 AAGATAACAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
110247095 AAGATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
110247139 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* *
110247183 AAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAACAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* *
110247223 GAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * * *
110247267 AAGAT---A-ATTTGGCATCTCTGTAGCGGCAGAGAACAGATCA
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
110247307 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGGGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * *
110247351 AAGATAACAAATTTGGCGTCTCTGTAGCGGCAGAGAGCATATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* *
110247395 AAAATGACAGAT
1 AAGATAACAGAT
110247407 CGGTGTTCCT
Statistics
Matches: 439, Mismatches: 41, Indels: 17
0.88 0.08 0.03
Matches are distributed among these distances:
40 71 0.16
41 1 0.00
43 1 0.00
44 340 0.77
45 26 0.06
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
Found at i:110248445 original size:12 final size:12
Alignment explanation
Indices: 110248428--110248455 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
110248418 AACCCATGGT
110248428 CGACTCGCGACC
1 CGACTCGCGACC
110248440 CGACTCGCGACC
1 CGACTCGCGACC
110248452 CGAC
1 CGAC
110248456 CCGCTCCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.50, G:0.25, T:0.07
Consensus pattern (12 bp):
CGACTCGCGACC
Found at i:110248825 original size:25 final size:25
Alignment explanation
Indices: 110248795--110248848 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
110248785 ATACACTCTT
*
110248795 TTATTTTCTTTTATTATA-AATATTA
1 TTATTTTATTTTATT-TACAATATTA
* *
110248820 TTATTTTATTTTCTTTACATTATTA
1 TTATTTTATTTTATTTACAATATTA
110248845 TTAT
1 TTAT
110248849 ATTGTATCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
TTATTTTATTTTATTTACAATATTA
Found at i:110249182 original size:9 final size:9
Alignment explanation
Indices: 110249148--110249195 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
110249138 AATGTGTATG
110249148 TATTATATA
1 TATTATATA
110249157 TATTTTAATACTA
1 TA--TT-ATA-TA
*
110249170 TATTATGTA
1 TATTATATA
110249179 TATTATATA
1 TATTATATA
110249188 TATTATAT
1 TATTATAT
110249196 TTTTATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 20 0.61
10 2 0.06
11 4 0.12
12 3 0.09
13 4 0.12
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (9 bp):
TATTATATA
Found at i:110249392 original size:3 final size:3
Alignment explanation
Indices: 110249384--110249436 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
110249374 TAAATTCATA
* *
110249384 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
110249431 TAT TAT
1 TAT TAT
110249437 CATTGTCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 2 0.05
3 36 0.86
4 1 0.02
5 2 0.05
6 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:110251428 original size:26 final size:25
Alignment explanation
Indices: 110251394--110251443 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
110251384 TAGATTTTAG
*
110251394 AATTATTTTATTTTAATATTTATTTT
1 AATTATTTTATTTAAATA-TTATTTT
110251420 AATTATTTTATTTAAATATTATTT
1 AATTATTTTATTTAAATATTATTT
110251444 GTAAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
AATTATTTTATTTAAATATTATTTT
Found at i:110251434 original size:13 final size:14
Alignment explanation
Indices: 110251394--110251432 Score: 64
Period size: 12 Copynumber: 2.9 Consensus size: 14
110251384 TAGATTTTAG
110251394 AATTATTTTATTTT
1 AATTATTTTATTTT
110251408 AA-TA-TTTATTTT
1 AATTATTTTATTTT
110251420 AATTATTTTATTT
1 AATTATTTTATTT
110251433 AAATATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.43
13 4 0.17
14 9 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
AATTATTTTATTTT
Found at i:110251439 original size:13 final size:13
Alignment explanation
Indices: 110251397--110251439 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
110251387 ATTTTAGAAT
*
110251397 TATTTTATTTTAA
1 TATTTTATTTAAA
*
110251410 TA-TTTATTTTAAT
1 TATTTTA-TTTAAA
110251423 TATTTTATTTAAA
1 TATTTTATTTAAA
110251436 TATT
1 TATT
110251440 ATTTGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 4 0.16
13 17 0.68
14 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTTTATTTAAA
Found at i:110254916 original size:3 final size:3
Alignment explanation
Indices: 110254908--110254947 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
110254898 TCGATTTTAC
110254908 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
110254948 CCTAATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:110255591 original size:3 final size:3
Alignment explanation
Indices: 110255583--110255638 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
110255573 CTATCATTGC
110255583 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
110255631 ATT TTT AT
1 ATT ATT AT
110255639 CATTGTTTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:110256161 original size:132 final size:133
Alignment explanation
Indices: 110255918--110256173 Score: 372
Period size: 132 Copynumber: 1.9 Consensus size: 133
110255908 TTATTCGTTT
* * * *
110255918 AAAAATTCTTTAAAACGGAGACGATGTTCGATGTTTAGCAATTCGGGGAATCGTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAGACAATGTTCGACGTTCAGCAATTCGGGGAATCGTGCCCTATCGTG
* * * * * *
110255983 CTGGGTTGCAATTTCTTGTTTGCCCAAAATAATCGGATGTCTCTTTAGAATTTCGTTCATGTTTT
66 CTGGGTTGCAATTTCTCGTTTGCCAAAAATAATCGAATATCCCTTTAGAATTTCATTCATGTTTT
110256048 CTA
131 CTA
*
110256051 AAAAATT-TTTAAAACGAAGGA-AATGTTCGACGTTCGGCAATTCGGGGAATCGTGCCCTATCGT
1 AAAAATTCTTTAAAACGAA-GACAATGTTCGACGTTCAGCAATTCGGGGAATCGTGCCCTATCGT
**
110256114 GCTGGGTTGCAATTTCTCGTTTGTGAAAAATAATCGAATATCCCTTTAGAATTTCATTCA
65 GCTGGGTTGCAATTTCTCGTTTGCCAAAAATAATCGAATATCCCTTTAGAATTTCATTCA
110256174 CGTTAGCGAG
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
132 100 0.92
133 9 0.08
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (133 bp):
AAAAATTCTTTAAAACGAAGACAATGTTCGACGTTCAGCAATTCGGGGAATCGTGCCCTATCGTG
CTGGGTTGCAATTTCTCGTTTGCCAAAAATAATCGAATATCCCTTTAGAATTTCATTCATGTTTT
CTA
Found at i:110259881 original size:30 final size:29
Alignment explanation
Indices: 110259799--110259906 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 29
110259789 TTGGACACGT
* * *
110259799 GGCCATGTAATCCACACGGGCTGGAAACAT
1 GGCCGTGTGATCCA-ACGGGCTGGAAACAA
* *
110259829 GGCCGTGTGAGCCAACGGGCTGGAAATAA
1 GGCCGTGTGATCCAACGGGCTGGAAACAA
* * *
110259858 GGCCGTGTGATCCATATGGGCTGGACACAC
1 GGCCGTGTGATCCA-ACGGGCTGGAAACAA
*
110259888 GGCCATGTGATCCAGACGG
1 GGCCGTGTGATCCA-ACGG
110259907 ATTAGACACA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 26 0.41
30 38 0.59
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.17
Consensus pattern (29 bp):
GGCCGTGTGATCCAACGGGCTGGAAACAA
Found at i:110262226 original size:42 final size:42
Alignment explanation
Indices: 110262169--110262258 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
110262159 CATTCATAAG
* *
110262169 GAAGAT-GGTACTCTAATTGTCACAAAACATTGTACTGGCCT
1 GAAGATCGGCACTCTAATTGTCACAAAACATTGTACTGACCT
110262210 GAAGATCGGCACTCTAATTGTCACAAAACATTGTACTGACCT
1 GAAGATCGGCACTCTAATTGTCACAAAACATTGTACTGACCT
110262252 GAAGATC
1 GAAGATC
110262259 CTTACTTGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 6 0.13
42 40 0.87
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (42 bp):
GAAGATCGGCACTCTAATTGTCACAAAACATTGTACTGACCT
Found at i:110277776 original size:16 final size:17
Alignment explanation
Indices: 110277744--110277776 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
110277734 AGCTTGCTAG
*
110277744 TAGCTATAAGGATTAAA
1 TAGCTATAAGAATTAAA
110277761 TAGCTAT-AGAATTAAA
1 TAGCTATAAGAATTAAA
110277777 AGTGACAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (17 bp):
TAGCTATAAGAATTAAA
Found at i:110278899 original size:33 final size:31
Alignment explanation
Indices: 110278862--110278985 Score: 90
Period size: 33 Copynumber: 3.8 Consensus size: 31
110278852 TACCCAAATG
*
110278862 GTACAACTTGAAAAGGTTATGTACACTCTGTGT
1 GTAC-ACTTGAAAAGGTAATGTACACT-TGTGT
* * *
110278895 GTACACTTGGAAAAGGTTAGGTATACTTAGTGT
1 GTACACTT-GAAAAGGTAATGTACACTT-GTGT
* * *
110278928 ATACTA-TATGAAAAGGAAATGTATACTTTGTGT
1 GTAC-ACT-TGAAAAGGTAATGTACAC-TTGTGT
*
110278961 GTACCACTTGGAAAGG-AATGTACAC
1 GTA-CACTTGAAAAGGTAATGTACAC
110278986 CTCAAGTTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
32 13 0.17
33 56 0.75
34 6 0.08
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (31 bp):
GTACACTTGAAAAGGTAATGTACACTTGTGT
Found at i:110279223 original size:17 final size:17
Alignment explanation
Indices: 110279201--110279235 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
110279191 AATTACTTGA
110279201 TGAACATAAATGGTAAG
1 TGAACATAAATGGTAAG
110279218 TGAACATAAATGGTAAG
1 TGAACATAAATGGTAAG
110279235 T
1 T
110279236 TTATTTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.26
Consensus pattern (17 bp):
TGAACATAAATGGTAAG
Found at i:110282833 original size:26 final size:26
Alignment explanation
Indices: 110282802--110282908 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
110282792 TGAAATGCCC
110282802 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
110282828 ATCATGGAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
110282853 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
110282879 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
110282905 ATCA
1 ATCA
110282909 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 24 0.32
26 52 0.68
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:110282878 original size:51 final size:52
Alignment explanation
Indices: 110282802--110282908 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
110282792 TGAAATGCCC
110282802 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
110282853 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
110282905 ATCA
1 ATCA
110282909 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 44 0.83
52 9 0.17
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:110293168 original size:16 final size:17
Alignment explanation
Indices: 110293136--110293168 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
110293126 TGAGTTCTAG
*
110293136 TAGCTATAAGGATTAAA
1 TAGCTATAAGAATTAAA
110293153 TAGCTAT-AGAATTAAA
1 TAGCTATAAGAATTAAA
110293169 AGTGACAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (17 bp):
TAGCTATAAGAATTAAA
Found at i:110300647 original size:39 final size:38
Alignment explanation
Indices: 110300577--110300713 Score: 132
Period size: 39 Copynumber: 3.5 Consensus size: 38
110300567 CACACCAGTA
* * *
110300577 TGACACCCAGTGCCTCATCGGATAATTCGAAGCAATAGT
1 TGACACCCAGTGTCTCATCGGACAATCCGAAG-AATAGT
* * *
110300616 TGACACCCAGTGTCTCATCGGCCAAGCCGAAGTA-AGT
1 TGACACCCAGTGTCTCATCGGACAATCCGAAGAATAGT
** * * *
110300653 TGGTACCCAGTATCTCATCGAATCTATCCGAAGTAATAGT
1 TGACACCCAGTGTCTCATCGGA-CAATCCGAAG-AATAGT
110300693 ATGACACCCAGTGTCTCATCG
1 -TGACACCCAGTGTCTCATCG
110300714 ACTCGAGGTC
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
37 20 0.26
38 9 0.12
39 28 0.36
40 3 0.04
41 17 0.22
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
TGACACCCAGTGTCTCATCGGACAATCCGAAGAATAGT
Found at i:110301855 original size:19 final size:18
Alignment explanation
Indices: 110301831--110301880 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
110301821 TTATATTAAT
110301831 ATAATATAATAATAATTTA
1 ATAATATAATAAT-ATTTA
*
110301850 ATAATAAAAATAATATTTA
1 ATAAT-ATAATAATATTTA
* *
110301869 CTTATATAATAA
1 ATAATATAATAA
110301881 GTAAATAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.23
19 13 0.50
20 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATATAATAATATTTA
Found at i:110302067 original size:20 final size:20
Alignment explanation
Indices: 110302040--110302091 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
110302030 TAATCCTTAT
110302040 ACCTAATTAACCTTAACTC-AA
1 ACCTAATTAACC-TAAC-CAAA
*
110302061 A-CTAATTCACCTAACCAAA
1 ACCTAATTAACCTAACCAAA
110302080 ACCTAATTAACC
1 ACCTAATTAACC
110302092 ACACAACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.04
19 7 0.26
20 18 0.67
21 1 0.04
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (20 bp):
ACCTAATTAACCTAACCAAA
Found at i:110304408 original size:25 final size:23
Alignment explanation
Indices: 110304380--110304428 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
110304370 AATATTACAA
*
110304380 TAAATAATAAAATAAAATAAAATTC
1 TAAATAAAAAAAT-AAA-AAAATTC
110304405 TAAATAAAAAAATAAAAAAATTC
1 TAAATAAAAAAATAAAAAAATTC
110304428 T
1 T
110304429 TATTACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.35
24 3 0.13
25 12 0.52
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAATAAAAAAATAAAAAAATTC
Found at i:110316437 original size:13 final size:13
Alignment explanation
Indices: 110316412--110316446 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
110316402 TTTTTATCTC
110316412 ATTTTATTTTAGTT
1 ATTTTA-TTTAGTT
110316426 ATTTTATTTAGTT
1 ATTTTATTTAGTT
110316439 A-TTTATTT
1 ATTTTATTT
110316447 TCATAACCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.33
13 8 0.38
14 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
ATTTTATTTAGTT
Found at i:110317953 original size:33 final size:31
Alignment explanation
Indices: 110317916--110317987 Score: 74
Period size: 33 Copynumber: 2.2 Consensus size: 31
110317906 TTTGAAGACT
**
110317916 TTTATTTATTATTT-CTACCTTTTTACTTTTAT
1 TTTATTTATT-TTTACTTACTTTTTA-TTTTAT
*
110317948 CTTTATTTGTTTTTAACTTACTTTTTATTTTAT
1 -TTTATTTATTTTT-ACTTACTTTTTATTTTAT
110317981 TTTATTT
1 TTTATTT
110317988 CTCTTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 10 0.29
33 15 0.44
34 9 0.26
ACGTcount: A:0.18, C:0.10, G:0.01, T:0.71
Consensus pattern (31 bp):
TTTATTTATTTTTACTTACTTTTTATTTTAT
Found at i:110318006 original size:32 final size:33
Alignment explanation
Indices: 110317934--110318017 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 33
110317924 TTATTTCTAC
* *
110317934 CTTTTTACTTTTATCTTTATTTGTTTTTAACTTA
1 CTTTTTACTTTTATCTTTATTTCTCTTTAAC-TA
110317968 CTTTTTA-TTTTAT-TTTATTTCTCTTTAA-TA
1 CTTTTTACTTTTATCTTTATTTCTCTTTAACTA
*
110317998 CTAATTTTAC-TTCATCTTTA
1 CT--TTTTACTTTTATCTTTA
110318018 GGTTTTATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
30 4 0.09
32 22 0.51
33 10 0.23
34 7 0.16
ACGTcount: A:0.20, C:0.13, G:0.01, T:0.65
Consensus pattern (33 bp):
CTTTTTACTTTTATCTTTATTTCTCTTTAACTA
Found at i:110327017 original size:16 final size:15
Alignment explanation
Indices: 110326996--110327039 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
110326986 TAATCATATT
110326996 AATATTAAATTAATAA
1 AATATTAAATTAAT-A
*
110327012 AATATT-ATTTAGATA
1 AATATTAAATTA-ATA
110327027 AATATTAAATTAA
1 AATATTAAATTAA
110327040 ATTTAATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
AATATTAAATTAATA
Found at i:110327034 original size:31 final size:30
Alignment explanation
Indices: 110326996--110327096 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 30
110326986 TAATCATATT
110326996 AATATTAAATTAATAAAATATTATTTAGATA
1 AATATTAAATTAATAAAATA-TATTTAGATA
** * * * *
110327027 AATATTAAATTAAATTTAATAT-CTCATATT
1 AATATTAAATT-AATAAAATATATTTAGATA
* *
110327057 AATATTAAATTAATAAAATACCATCTAGATA
1 AATATTAAATTAATAAAATA-TATTTAGATA
110327088 AATATTAAA
1 AATATTAAA
110327097 ATAAATTTAA
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
29 7 0.13
30 15 0.28
31 24 0.45
32 7 0.13
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (30 bp):
AATATTAAATTAATAAAATATATTTAGATA
Found at i:110327063 original size:30 final size:30
Alignment explanation
Indices: 110327027--110327122 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
110327017 TATTTAGATA
110327027 AATATTAAATTAAATTTAATATCTCATATT
1 AATATTAAATTAAATTTAATATCTCATATT
** * * *
110327057 AATATTAAATT-AATAAAATACCATCTAGATA
1 AATATTAAATTAAATTTAATATC-TC-ATATT
*
110327088 AATATTAAAATAAATTTAATATCTCATATT
1 AATATTAAATTAAATTTAATATCTCATATT
110327118 AATAT
1 AATAT
110327123 CTAGATGAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
29 8 0.15
30 21 0.40
31 15 0.29
32 8 0.15
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (30 bp):
AATATTAAATTAAATTTAATATCTCATATT
Found at i:110327086 original size:61 final size:61
Alignment explanation
Indices: 110326989--110327122 Score: 232
Period size: 61 Copynumber: 2.2 Consensus size: 61
110326979 CTAGAATTAA
** * *
110326989 TCATATTAATATTAAATTAATAAAATATTATTTAGATAAATATTAAATTAAATTTAATATC
1 TCATATTAATATTAAATTAATAAAATACCATCTAGATAAATATTAAAATAAATTTAATATC
110327050 TCATATTAATATTAAATTAATAAAATACCATCTAGATAAATATTAAAATAAATTTAATATC
1 TCATATTAATATTAAATTAATAAAATACCATCTAGATAAATATTAAAATAAATTTAATATC
110327111 TCATATTAATAT
1 TCATATTAATAT
110327123 CTAGATGAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (61 bp):
TCATATTAATATTAAATTAATAAAATACCATCTAGATAAATATTAAAATAAATTTAATATC
Found at i:110330084 original size:8 final size:7
Alignment explanation
Indices: 110330066--110330122 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 7
110330056 GCTTTCTCCG
110330066 TTCTTTCT
1 TTCTTT-T
110330074 TTCTCTTT
1 TTCT-TTT
110330082 TTCTTTT
1 TTCTTTT
110330089 TTCATTTT
1 TTC-TTTT
110330097 GCTTCTTTGT
1 --TTCTTT-T
110330107 TTCTTTCT
1 TTCTTT-T
110330115 TTCTTTT
1 TTCTTTT
110330122 T
1 T
110330123 CTATTTCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
7 8 0.19
8 26 0.60
9 5 0.12
10 4 0.09
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (7 bp):
TTCTTTT
Found at i:110334410 original size:32 final size:32
Alignment explanation
Indices: 110334366--110334429 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
110334356 TGCATATGTG
*
110334366 AATTTGCTTGCTTATTTGGTTGTATGGAAGTT
1 AATTGGCTTGCTTATTTGGTTGTATGGAAGTT
110334398 AATTGGCTTGCTTATTTGGTTGTATGGAAGTT
1 AATTGGCTTGCTTATTTGGTTGTATGGAAGTT
110334430 GGTTGTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.06, G:0.27, T:0.48
Consensus pattern (32 bp):
AATTGGCTTGCTTATTTGGTTGTATGGAAGTT
Found at i:110340175 original size:26 final size:26
Alignment explanation
Indices: 110340136--110340243 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
110340126 TGAAATTCCC
*
110340136 ATCATGGAAGATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
110340162 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
110340188 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
110340214 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
110340240 ATCA
1 ATCA
110340244 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.03
26 71 0.97
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:110340193 original size:52 final size:52
Alignment explanation
Indices: 110340136--110340243 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
110340126 TGAAATTCCC
110340136 ATCATGGAAGATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
1 ATCATGGAAGATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
* * * *
110340188 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACTCATT
1 ATCATGGAAGATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
110340240 ATCA
1 ATCA
110340244 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAAGATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
Found at i:110340674 original size:18 final size:18
Alignment explanation
Indices: 110340651--110340709 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
110340641 AGATCAAAAT
110340651 ATTTATAAAAATTCTAAA
1 ATTTATAAAAATTCTAAA
** *
110340669 ATTTAT--ATCTTTTAAA
1 ATTTATAAAAATTCTAAA
*
110340685 AATTATAAAAATTCTAAA
1 ATTTATAAAAATTCTAAA
*
110340703 ATATATA
1 ATTTATA
110340710 TATAAAGAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
16 12 0.40
18 18 0.60
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTATAAAAATTCTAAA
Found at i:110341493 original size:5 final size:5
Alignment explanation
Indices: 110341483--110341515 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
110341473 CTATGTGTTC
110341483 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
110341516 TCACAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:110345420 original size:20 final size:20
Alignment explanation
Indices: 110345395--110345446 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
110345385 CTACTAGTGT
*
110345395 GAGTGTCAAAGACATCTTTG
1 GAGTGTCGAAGACATCTTTG
110345415 GAGTGTCGAAGACATCTTTG
1 GAGTGTCGAAGACATCTTTG
110345435 GAGTGTCGAAGA
1 GAGTGTCGAAGA
110345447 GGCCGAAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (20 bp):
GAGTGTCGAAGACATCTTTG
Found at i:110354929 original size:20 final size:19
Alignment explanation
Indices: 110354887--110354930 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
110354877 GGTCACCTAC
*
110354887 TAAAACATTTTGTTCCACT
1 TAAAACATTTTGTTCCACG
110354906 TAAAACAATTTTGGTT-CACG
1 TAAAAC-ATTTT-GTTCCACG
110354926 TAAAA
1 TAAAA
110354931 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 13 0.59
21 3 0.14
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
TAAAACATTTTGTTCCACG
Found at i:110363883 original size:13 final size:13
Alignment explanation
Indices: 110363865--110363899 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
110363855 TTCACAAATT
110363865 ATTATTATTTTAC
1 ATTATTATTTTAC
*
110363878 ATTATTATTTTAT
1 ATTATTATTTTAC
110363891 ATTATTATT
1 ATTATTATT
110363900 ATATCTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:110364090 original size:12 final size:11
Alignment explanation
Indices: 110364073--110364114 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
110364063 ATATATAACA
110364073 TATATTATCTAT
1 TATATTAT-TAT
110364085 TATATTA-T-T
1 TATATTATTAT
110364094 TATATTATTCAT
1 TATATTATT-AT
110364106 TATATTATT
1 TATATTATT
110364115 TAAAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.30
10 2 0.07
12 17 0.63
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTATTAT
Found at i:110364097 original size:21 final size:21
Alignment explanation
Indices: 110364073--110364116 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
110364063 ATATATAACA
110364073 TATATTA-TCTATTATATTATT
1 TATATTATTC-ATTATATTATT
110364094 TATATTATTCATTATATTATT
1 TATATTATTCATTATATTATT
110364115 TA
1 TA
110364117 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATTCATTATATTATT
Found at i:110364569 original size:32 final size:29
Alignment explanation
Indices: 110364506--110364562 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
110364496 GTAGTACTCT
*
110364506 TTTTTGTATGTCATGCATTATTTTATTAC
1 TTTTTGTATATCATGCATTATTTTATTAC
* *
110364535 TTTTTGTATATCTTGCATTATTTAATTA
1 TTTTTGTATATCATGCATTATTTTATTA
110364563 TTACTTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (29 bp):
TTTTTGTATATCATGCATTATTTTATTAC
Found at i:110368206 original size:15 final size:15
Alignment explanation
Indices: 110368170--110368219 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
110368160 GATATTCTTT
110368170 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
110368184 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
110368200 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
110368213 TTTGCAT
1 TTTGCAT
110368220 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:110376587 original size:210 final size:210
Alignment explanation
Indices: 110376218--110376869 Score: 1045
Period size: 210 Copynumber: 3.1 Consensus size: 210
110376208 TAAGCTGTAG
*
110376218 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCGAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCGAAGATGACAGATCTTATCTCTC
* **
110376283 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAACA
66 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGTA
* * * * *
110376348 AATCTAAGATGATTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
* *
110376413 GATGGA-AGGCAGACA
196 AATAGAGA-GCAGACA
* *
110376428 CATAGCAGATTTCACCTTCAGATGTTTACGCTGAAGCAGATTGAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCGAAGATGACAGATCTTATCTCTC
* * * *
110376493 TGTATTTGGCGAGGAGTAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACAATGAAGTA
66 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGTA
*
110376558 AATCTAAGATGATTTTTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
131 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
110376623 AATAGAGAGCAGACA
196 AATAGAGAGCAGACA
* *
110376638 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGACCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCGAAGATGACAGATCTTATCTCTC
**
110376703 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCGTGTGTTTACGATGAAGTA
66 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGTA
* *
110376768 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGCCATCTCTACTTC
131 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
*
110376833 AATAGAGAGCAGATA
196 AATAGAGAGCAGACA
* *
110376848 CATAGCAGATTTGACCTTCAGA
1 CATAGCAGATCTCACCTTCAGA
110376870 CGATTAGACT
Statistics
Matches: 407, Mismatches: 34, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
210 406 1.00
211 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (210 bp):
CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCGAAGATGACAGATCTTATCTCTC
TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGTA
AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
AATAGAGAGCAGACA
Found at i:110381584 original size:13 final size:13
Alignment explanation
Indices: 110381566--110381600 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
110381556 TTGTTCACAA
110381566 ATTATTATTTTAC
1 ATTATTATTTTAC
*
110381579 ATTATTATTTTAT
1 ATTATTATTTTAC
110381592 ATTATTATT
1 ATTATTATT
110381601 GTATCTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:110386759 original size:16 final size:16
Alignment explanation
Indices: 110386738--110386768 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110386728 CCTATTAAAA
110386738 TTTTTTATTTTTTTTC
1 TTTTTTATTTTTTTTC
*
110386754 TTTTTTCTTTTTTTT
1 TTTTTTATTTTTTTT
110386769 TGTAATCCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTTATTTTTTTTC
Found at i:110389994 original size:24 final size:24
Alignment explanation
Indices: 110389965--110390012 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
110389955 TTTAAGTATG
110389965 AAAAAAAAATTACTTTGTTAAAAT
1 AAAAAAAAATTACTTTGTTAAAAT
110389989 AAAAAAAAATTACTTTGTTAAAAT
1 AAAAAAAAATTACTTTGTTAAAAT
110390013 GACGATGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAAAAAATTACTTTGTTAAAAT
Found at i:110391352 original size:27 final size:27
Alignment explanation
Indices: 110391301--110391352 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
110391291 GTTACTAAAA
* *
110391301 TTCTCTTTGAGTTTTCTTTTTAAGAAT
1 TTCTCTTTAAGTTTTCTTTTGAAGAAT
110391328 TTCTC-TTAAGTTTTCTTTTAGAAGA
1 TTCTCTTTAAGTTTTCTTTT-GAAGA
110391353 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (27 bp):
TTCTCTTTAAGTTTTCTTTTGAAGAAT
Found at i:110391546 original size:20 final size:19
Alignment explanation
Indices: 110391495--110391552 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
110391485 ACATATTACT
* * *
110391495 TTCTATTTTTTCATCTATC
1 TTCTATTTTTTCTTCTTTA
110391514 TTCT-TTATTTTCTTCTTTA
1 TTCTATT-TTTTCTTCTTTA
*
110391533 TTCTATTGTTTTCTTGTTTA
1 TTCTATT-TTTTCTTCTTTA
110391553 ATTGTTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.06
19 17 0.53
20 13 0.41
ACGTcount: A:0.12, C:0.16, G:0.03, T:0.69
Consensus pattern (19 bp):
TTCTATTTTTTCTTCTTTA
Found at i:110395761 original size:25 final size:24
Alignment explanation
Indices: 110395688--110395768 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
110395678 ACAAGGGCCA
*
110395688 CAGAATACGCCACAAGGGCAAC-TT
1 CAGAATACGCCACAA-GGCATCATT
* * **
110395712 ATAGAATACACCACAAAGGTGTCATT
1 -CAGAATACGCCAC-AAGGCATCATT
*
110395738 CAGAATACGCCACGAAGGCATCATA
1 CAGAATACGCCAC-AAGGCATCATT
110395763 CAGAAT
1 CAGAAT
110395769 CATGTATCTA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
25 39 0.91
26 4 0.09
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (24 bp):
CAGAATACGCCACAAGGCATCATT
Found at i:110404626 original size:19 final size:19
Alignment explanation
Indices: 110404604--110404671 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 19
110404594 AATGACATGA
110404604 AAATATAAAAAATAATAAG
1 AAATATAAAAAATAATAAG
*
110404623 AAATA-ATAAAAT-A-AAG
1 AAATATAAAAAATAATAAG
* *
110404639 AAA-ATAATAAATAATAAT
1 AAATATAAAAAATAATAAG
* *
110404657 AAAGATAATAAATAA
1 AAATATAAAAAATAA
110404672 AAAATTACGC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.02
16 11 0.27
17 2 0.05
18 11 0.27
19 16 0.39
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (19 bp):
AAATATAAAAAATAATAAG
Found at i:110404635 original size:27 final size:27
Alignment explanation
Indices: 110404603--110404676 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
110404593 AAATGACATG
110404603 AAAATATAAAAAATAATAAGA-AATAAT
1 AAAATATAAAAAATAATAA-ATAATAAT
110404630 AAAATA-AAGAAAATAATAAATAATAAT
1 AAAATATAA-AAAATAATAAATAATAAT
* * *
110404657 -AAAGATAATAAATAAAAAAT
1 AAAATATAAAAAATAATAAAT
110404677 TACGCAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 17 0.41
27 24 0.59
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (27 bp):
AAAATATAAAAAATAATAAATAATAAT
Found at i:110404771 original size:14 final size:15
Alignment explanation
Indices: 110404731--110404789 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 15
110404721 TAAAAAGAAG
110404731 TAATACATAAATATAAA
1 TAATA-ATAAATA-AAA
*
110404748 TAGGTAATAAA-AAAA
1 TA-ATAATAAATAAAA
110404763 TAATAATAAATAAAA
1 TAATAATAAATAAAA
*
110404778 -CA-AATAAATAAA
1 TAATAATAAATAAA
110404790 TGCTCGATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 10 0.27
14 8 0.22
15 9 0.24
16 1 0.03
17 7 0.19
18 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
TAATAATAAATAAAA
Found at i:110409120 original size:20 final size:20
Alignment explanation
Indices: 110409079--110409120 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
110409069 TTGCTCTTGA
*
110409079 AGTACAAAAATAGATATTAG
1 AGTACAAAAATAGATATGAG
*
110409099 AGTATAAAAATAAGATA-GAG
1 AGTACAAAAAT-AGATATGAG
110409119 AG
1 AG
110409121 AGAAGTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.57, C:0.02, G:0.19, T:0.21
Consensus pattern (20 bp):
AGTACAAAAATAGATATGAG
Found at i:110409318 original size:17 final size:16
Alignment explanation
Indices: 110409284--110409321 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
110409274 CTTTAAAACT
110409284 TAATAAAAGAAAAATA
1 TAATAAAAGAAAAATA
*
110409300 TAATAAGAGAAATAATA
1 TAATAAAAGAAA-AATA
110409317 TAATA
1 TAATA
110409322 TTTTTTAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (16 bp):
TAATAAAAGAAAAATA
Found at i:110420710 original size:10 final size:10
Alignment explanation
Indices: 110420687--110420756 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 10
110420677 ACATGACATG
110420687 AAAAT-ATAA
1 AAAATAATAA
110420696 AAAATAATAA
1 AAAATAATAA
*
110420706 GAAATAATAAA
1 AAAATAAT-AA
*
110420717 ATAACGAGAATAA
1 A-AA--ATAATAA
110420730 AAAATAATAA
1 AAAATAATAA
110420740 CAATAATAGATAA
1 -AA-AATA-ATAA
110420753 AAAA
1 AAAA
110420757 ATTACGCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
9 5 0.10
10 17 0.35
11 6 0.12
12 10 0.20
13 7 0.14
14 4 0.08
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.19
Consensus pattern (10 bp):
AAAATAATAA
Found at i:110420976 original size:14 final size:14
Alignment explanation
Indices: 110420957--110420988 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
110420947 GTAAATAAAT
110420957 AAAATAATACATAA
1 AAAATAATACATAA
*
110420971 AAAATAATATATAA
1 AAAATAATACATAA
110420985 AAAA
1 AAAA
110420989 ATCTATACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAATACATAA
Found at i:110421644 original size:27 final size:27
Alignment explanation
Indices: 110421599--110421657 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 27
110421589 GTCAAAAAAA
*
110421599 TTTTAAAAATATCATTTTT-CCTTTTGT
1 TTTTAAAAAAATCATTTTTACCTTTT-T
110421626 TTTTAAAAAAATC-TCTTTTACCCTTTTT
1 TTTTAAAAAAATCAT-TTTTA-CCTTTTT
110421654 TTTT
1 TTTT
110421658 CTCTAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 1 0.04
27 16 0.57
28 5 0.18
29 6 0.21
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTAAAAAAATCATTTTTACCTTTTT
Found at i:110422411 original size:30 final size:31
Alignment explanation
Indices: 110422375--110422434 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
110422365 GTGGCCTAGA
*
110422375 ACATGGCCGTGTGGCAAGCCCGTG-GGGATC
1 ACATGGCCATGTGGCAAGCCCGTGTGGGATC
* *
110422405 ACATGGCCATGTGGCCAGCTCGTGTGGGAT
1 ACATGGCCATGTGGCAAGCCCGTGTGGGAT
110422435 TCTGACTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.17, C:0.25, G:0.38, T:0.20
Consensus pattern (31 bp):
ACATGGCCATGTGGCAAGCCCGTGTGGGATC
Found at i:110423597 original size:54 final size:52
Alignment explanation
Indices: 110423467--110423623 Score: 190
Period size: 54 Copynumber: 2.9 Consensus size: 52
110423457 CCACTTCTCT
* * *
110423467 GATGCTATAGCCCAGCTATGGTCTTATATAGATCGCTTGTATCACTT-TAATCC
1 GATGCCATAGCCCAGCTATGGTCTTATACAGATCGC-T-TATCACTTGTTATCC
* * * *
110423520 GAAGCCATAGCCCAGCTATGGTCTTGTACGAGAGTCACTTATCACTTGTTTTCC
1 GATGCCATAGCCCAGCTATGGTCTTATAC-AGA-TCGCTTATCACTTGTTATCC
110423574 GATGCCATAGCCCAGCTATGGTCTTATACAGAAATCGCTTATCACTTGTT
1 GATGCCATAGCCCAGCTATGGTCTTATACAG--ATCGCTTATCACTTGTT
110423624 GCCATGGTCC
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
53 35 0.39
54 50 0.56
55 4 0.04
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACAGATCGCTTATCACTTGTTATCC
Found at i:110429646 original size:27 final size:27
Alignment explanation
Indices: 110429608--110429662 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
110429598 ATCAGACCCG
110429608 GGTTAGTTTTGATTTGGCAGTGTACAA
1 GGTTAGTTTTGATTTGGCAGTGTACAA
110429635 GGTTAGTTTTGATTTGGCAGTGTACAA
1 GGTTAGTTTTGATTTGGCAGTGTACAA
110429662 G
1 G
110429663 TCGAAGGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.07, G:0.31, T:0.40
Consensus pattern (27 bp):
GGTTAGTTTTGATTTGGCAGTGTACAA
Found at i:110435624 original size:22 final size:23
Alignment explanation
Indices: 110435599--110435643 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
110435589 TTTAGCTTGT
*
110435599 TTTAATGTAATGTTTA-TTAAAG
1 TTTAATGTAATATTTATTTAAAG
* *
110435621 TTTATTGTACTATTTATTTAAAG
1 TTTAATGTAATATTTATTTAAAG
110435644 CTTTTACGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.53
Consensus pattern (23 bp):
TTTAATGTAATATTTATTTAAAG
Found at i:110437923 original size:37 final size:37
Alignment explanation
Indices: 110437873--110437947 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
110437863 CGTCTTTGCC
110437873 TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
1 TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
110437910 TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
1 TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
110437947 T
1 T
110437948 AAGGCATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.49
Consensus pattern (37 bp):
TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
Found at i:110440737 original size:20 final size:21
Alignment explanation
Indices: 110440714--110440791 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 21
110440704 TATGTAAAAA
*
110440714 TTATTATAT-ATTATA-TCTTT
1 TTATTAT-TCATTATATTATTT
110440734 TTATTATTCATTATATTATTT
1 TTATTATTCATTATATTATTT
* * *
110440755 TTATT-TT-ACTATGTCA-TT
1 TTATTATTCATTATATTATTT
*
110440773 TTATTATTAATTAT-TTATT
1 TTATTATTCATTATATTATT
110440792 ATGTATAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
18 7 0.15
19 11 0.23
20 20 0.43
21 9 0.19
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.65
Consensus pattern (21 bp):
TTATTATTCATTATATTATTT
Found at i:110440789 original size:27 final size:27
Alignment explanation
Indices: 110440720--110440795 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
110440710 AAAATTATTA
110440720 TATATTA-TATCT-TTTTATTAT-TCAT
1 TATATTATTAT-TATTTTATTATGTCAT
* *
110440745 TATATTATTTTTATTTTACTATGTCAT
1 TATATTATTATTATTTTATTATGTCAT
*
110440772 TTTATTATTAATTA-TTTATTATGT
1 TATATTATT-ATTATTTTATTATGT
110440796 ATAATTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 8 0.19
26 10 0.24
27 21 0.50
28 3 0.07
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (27 bp):
TATATTATTATTATTTTATTATGTCAT
Found at i:110456446 original size:45 final size:45
Alignment explanation
Indices: 110456397--110456724 Score: 221
Period size: 45 Copynumber: 7.3 Consensus size: 45
110456387 GTAGATCACT
*
110456397 GATAGCAGATTTGGCGTCTCTGTATTAGA-CGGGGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGATC-GGGAGCAGATCGAA
* * * * **
110456442 GATAGCAGATCTGACAT-TCATGTGTTTAAATC-AAAG-AGATCGAA
1 GATAGCAGATTTGGCATCTC-TGT-ATTAGATCGGGAGCAGATCGAA
*
110456486 GAT-GACAAATTTGGCATCTCTGTATTAGA-CAGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGATC-GGGAGCAGATCGAA
* * * * *
110456531 GATAGCAGATCTGACAT-TCGTGTGTTTACATC-GAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTC-TGT-ATTAGATCGGGAGCAGATCGAA
* **
110456576 GAT-GACAGATTTGGCATCTCTGTATTAGATGGGGGATTAGATCGAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGAT-CGGGAGCAGATCGAA
* * ** * * * *
110456622 GATAGAAGATCTAACATTCGCGTGT-TTACATC-GAAGCAGATCAAA
1 GATAGCAGATTTGGCA-TCTC-TGTATTAGATCGGGAGCAGATCGAA
* *
110456667 GATAACAGATTTGGCGTCTCTGTATTAGA-CAGGGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGATC-GGGAGCAGATCGAA
*
110456712 GATAGTAGATTTG
1 GATAGCAGATTTG
110456725 ACATTCGAAG
Statistics
Matches: 210, Mismatches: 51, Indels: 44
0.69 0.17 0.14
Matches are distributed among these distances:
42 1 0.00
43 9 0.04
44 42 0.20
45 113 0.54
46 31 0.15
47 11 0.05
48 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
GATAGCAGATTTGGCATCTCTGTATTAGATCGGGAGCAGATCGAA
Found at i:110456652 original size:91 final size:90
Alignment explanation
Indices: 110456402--110456731 Score: 482
Period size: 91 Copynumber: 3.7 Consensus size: 90
110456392 TCACTGATAG
* * *
110456402 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCATGTGT
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
* *
110456467 TTAAATCAAAG-AGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
*
110456491 CAAATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
110456556 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
** ** * * *
110456581 CAGATTTGGCATCTCTGTATTAGATGGGGGATTAGATCGAAGATAGAAGATCTAACATTCGCGTG
1 CAGATTTGGCATCTCTGTATTAGA-CAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTG
* *
110456646 TTTACATCGAAGCAGATCAAAGATAA
65 TTTACATCGAAGCAGATCGAAGATGA
* * *
110456672 CAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGTAGATTTGACATTCG
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
110456732 AAGTAGATCA
Statistics
Matches: 215, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
89 70 0.33
90 65 0.30
91 80 0.37
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (90 bp):
CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
TTACATCGAAGCAGATCGAAGATGA
Found at i:110456733 original size:77 final size:77
Alignment explanation
Indices: 110456652--110456808 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 77
110456642 CGTGTTTACA
110456652 TCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
1 TCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
* * *
110456717 TAGATTTGACAT
66 CAGATCTAACAT
* *
110456729 TCGAAGTAGATCAAAGATAACAGATTTGGCGTCTTTGTATTAGACAGGGAGCAGATCGAAGATAG
1 TCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
110456794 CAGATCTAACAT
66 CAGATCTAACAT
110456806 TCG
1 TCG
110456809 TATGTTTACA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (77 bp):
TCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAG
CAGATCTAACAT
Found at i:110456791 original size:45 final size:45
Alignment explanation
Indices: 110456736--110456978 Score: 161
Period size: 45 Copynumber: 5.4 Consensus size: 45
110456726 CATTCGAAGT
* *
110456736 AGATCAAAGATAACAGATTTGGCGTCTTTGTATTAGACAGGGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGC
* * ** * ** * * *
110456781 AGATCGAAGATAGCAGATCTAACAT-TC-GTATGTTTACATCGAAGT
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTAT-TAGACA-GGGAGC
* * **
110456826 AGATCGAAGATGACAGATTTGGCGTCTCTGTAATAGATGGGGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGC
* * * * * * * * * *
110456871 AGATCAAAGAAAACAGATCTGACAT-TCGTGTGTT-TACATCGAAGT
1 AGATCGAAGATAACAGATTTGGCGTCTC-TGTATTAGACA-GGGAGC
* *
110456916 AGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGC
*
110456961 AGATCGAGGATAACAGAT
1 AGATCGAAGATAACAGAT
110456979 CTGTAACACC
Statistics
Matches: 136, Mismatches: 54, Indels: 16
0.66 0.26 0.08
Matches are distributed among these distances:
43 4 0.03
44 8 0.06
45 113 0.83
46 8 0.06
47 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (45 bp):
AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGC
Found at i:110456792 original size:167 final size:168
Alignment explanation
Indices: 110456561--110456898 Score: 462
Period size: 167 Copynumber: 2.0 Consensus size: 168
110456551 TGTGTTTACA
* * ** **
110456561 TCGAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGATGGGGGATTAGATCGAAGATA
1 TCGAAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGATCAGGGAGCAGATCGAAGATA
*
110456626 GAAGATCTAACATTCGCGTGTTTACATCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
66 GAAGATCTAACATTCGCATGTTTACATCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
* * * ** *
110456691 TTAGACAGGGAGCAGATCGAAGATAGTAGATTTGACAT
131 ATAGACAGGGAGCAGATCAAAGAAAACAGATCTGACAT
* * *
110456729 TCGAAGTAGATCAAAGATAACAGATTTGGCGTCTTTGTATTAGA-CAGGGAGCAGATCGAAGATA
1 TCGAAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGATCAGGGAGCAGATCGAAGATA
* * * * *
110456793 GCAGATCTAACATTCGTATGTTTACATCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTA
66 GAAGATCTAACATTCGCATGTTTACATCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
**
110456858 ATAGATGGGGAGCAGATCAAAGAAAACAGATCTGACAT
131 ATAGACAGGGAGCAGATCAAAGAAAACAGATCTGACAT
110456896 TCG
1 TCG
110456899 TGTGTTTACA
Statistics
Matches: 147, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
167 108 0.73
168 39 0.27
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (168 bp):
TCGAAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGATCAGGGAGCAGATCGAAGATA
GAAGATCTAACATTCGCATGTTTACATCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
ATAGACAGGGAGCAGATCAAAGAAAACAGATCTGACAT
Found at i:110456981 original size:90 final size:90
Alignment explanation
Indices: 110456729--110456981 Score: 398
Period size: 90 Copynumber: 2.8 Consensus size: 90
110456719 GATTTGACAT
* * * * *
110456729 TCGAAGTAGATCAAAGATAACAGATTTGGCGTCTTTGTATTAGACAGGGAGCAGATCGAAGATAG
1 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAA
*
110456794 CAGATCTAACATTCGTATGTTTACA
66 CAGATCTGACATTCGTATGTTTACA
* * * *
110456819 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTAATAGATGGGGAGCAGATCAAAGAAAA
1 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAA
*
110456884 CAGATCTGACATTCGTGTGTTTACA
66 CAGATCTGACATTCGTATGTTTACA
*
110456909 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAGGATAA
1 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAA
110456974 CAGATCTG
66 CAGATCTG
110456982 TAACACCCCA
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 147 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.26
Consensus pattern (90 bp):
TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAA
CAGATCTGACATTCGTATGTTTACA
Found at i:110461550 original size:21 final size:21
Alignment explanation
Indices: 110461505--110461583 Score: 60
Period size: 21 Copynumber: 4.0 Consensus size: 21
110461495 TATGTAAAAA
* *
110461505 TTATTATATATTATATCT-TTA
1 TTATTATAAATTATAT-TATTT
110461526 TTATTATAAATTATATTATTT
1 TTATTATAAATTATATTATTT
* * *
110461547 TTATT-T-TACTATATCA-TT
1 TTATTATAAATTATATTATTT
*
110461565 TTATTATTAATTAT-TTATT
1 TTATTATAAATTATATTATT
110461584 ATGTATAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
18 7 0.15
19 10 0.22
20 7 0.15
21 22 0.48
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTATAAATTATATTATTT
Found at i:110461738 original size:23 final size:25
Alignment explanation
Indices: 110461697--110461753 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
110461687 TGTTCCTATT
*
110461697 TAATATATTAATATTTTATA-AATA
1 TAATATATTAATATATTATATAATA
*
110461721 T-ATATATTAAGT-TATTATATCATA
1 TAATATATTAA-TATATTATATAATA
110461745 TAATATATT
1 TAATATATT
110461754 TTTATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 15 0.54
24 6 0.21
25 7 0.25
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TAATATATTAATATATTATATAATA
Found at i:110462909 original size:19 final size:19
Alignment explanation
Indices: 110462885--110462929 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
110462875 CGACACCTTT
* *
110462885 TGCATT-TATTTCATGCATC
1 TGCATTATATTACAT-CATA
110462904 TGCATTATATTACATCATA
1 TGCATTATATTACATCATA
110462923 TGCATTA
1 TGCATTA
110462930 AAGTCTATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (19 bp):
TGCATTATATTACATCATA
Found at i:110464713 original size:357 final size:354
Alignment explanation
Indices: 110463955--110464632 Score: 1023
Period size: 357 Copynumber: 1.9 Consensus size: 354
110463945 TCAGCCACCA
* *
110463955 CTTTTAGAAAAAGAAACCACGATGCTCTTTATCAATACTTTAAAGGCCCCGTTCATTACTCACAT
1 CTTTTAGAAAAA-AAACCACGATGCCCTTTAT--ATACTTTAAAGGCCCCATTCATTACTCACAT
* * *
110464020 GCTAGGAAGTGCCACAAAAAGCTTCTCAAACGTGGTAATGATTGGAGAAATTATTGAGAATGCAA
63 GCTAGGAAGCGCCACAAAAAGCTTCCCAAACATGGTAATGATTGGAGAAATTATTGAGAATGCAA
* *
110464085 TAAGAAGCGGACGGATAGAGGCAGGAGAAAATTTCAAAAAATTGGCCCCGCGAAAAAAAGAAAAC
128 TAAGAAGCGAAAGGATAGAGGCAGGAGAAAATTTCAAAAAATTGGCCCCGCGAAAAAAAGAAAAC
110464150 GAGGTGAACAATACAAACATGGGGTACTCAAAATCAGTTACTGTAAGCCAACCAAGAGGGTGGCT
193 GAGGTGAACAATACAAACATGGGGTACTCAAAATCAGTTACTGTAAGCCAACCAAGAGGGTGGCT
* *
110464215 GCTGGTTAGGGCTCATCAAGAGAAGAATCTAGTGTGAAGTAAATGTTGAGAAACTCCAAGAGATG
258 GCTGGTTAGGGCTCATCAAGACAAGAATCTAGTGTGAAGTAAATGTTGAGAAACTCCAAGAGACG
* ** * * ** * **
110464280 GAGAGAAGGAGGCCATCCAGGTTCAGCCACCG
323 CAGAGAACAAGGACATACAGGAGCAGCAAAAG
*
110464312 CTTTTAGAAAAAAAAACCACGATGCTCTTTATCAATACTTTAAAGGCCCCATTCATTACTCACAT
1 CTTTTAG-AAAAAAAACCACGATGCCCTTTAT--ATACTTTAAAGGCCCCATTCATTACTCACAT
* * * *
110464377 GCTGGGAAGCGCCACAAGAAGCTTCCCAAACATGGTAATGTTTGGCGAAATTATTGAGAATGCAA
63 GCTAGGAAGCGCCACAAAAAGCTTCCCAAACATGGTAATGATTGGAGAAATTATTGAGAATGCAA
* * *
110464442 TAAGAAGCGAAAGGATAGAGGCAGGGGAAAATTTCAAAAAGTTGGCCCCGCGAAAAAAGGAAAAC
128 TAAGAAGCGAAAGGATAGAGGCAGGAGAAAATTTCAAAAAATTGGCCCCGCGAAAAAAAGAAAAC
110464507 GAGGTGAACAATACAAACATGGGGTACTCAAAATCAGTTACTGTAAGCCAACCAAGAGCGGTGGC
193 GAGGTGAACAATACAAACATGGGGTACTCAAAATCAGTTACTGTAAGCCAACCAAGAG-GGTGGC
* *
110464572 TGCTGGTTAGGGCTCATCAAGACAAGAATCTGGTGTGAAGTAAAATGTTGAGAAGCTCCAA
257 TGCTGGTTAGGGCTCATCAAGACAAGAATCTAGTGTGAAGT-AAATGTTGAGAAACTCCAA
110464633 TTTACGCCAA
Statistics
Matches: 302, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
357 234 0.77
358 50 0.17
359 18 0.06
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (354 bp):
CTTTTAGAAAAAAAACCACGATGCCCTTTATATACTTTAAAGGCCCCATTCATTACTCACATGCT
AGGAAGCGCCACAAAAAGCTTCCCAAACATGGTAATGATTGGAGAAATTATTGAGAATGCAATAA
GAAGCGAAAGGATAGAGGCAGGAGAAAATTTCAAAAAATTGGCCCCGCGAAAAAAAGAAAACGAG
GTGAACAATACAAACATGGGGTACTCAAAATCAGTTACTGTAAGCCAACCAAGAGGGTGGCTGCT
GGTTAGGGCTCATCAAGACAAGAATCTAGTGTGAAGTAAATGTTGAGAAACTCCAAGAGACGCAG
AGAACAAGGACATACAGGAGCAGCAAAAG
Found at i:110466340 original size:16 final size:16
Alignment explanation
Indices: 110466319--110466349 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110466309 GCAAGATTCC
*
110466319 GGTGCCGAAATTATCA
1 GGTGCCAAAATTATCA
110466335 GGTGCCAAAATTATC
1 GGTGCCAAAATTATC
110466350 CAAAGCTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (16 bp):
GGTGCCAAAATTATCA
Found at i:110472031 original size:44 final size:45
Alignment explanation
Indices: 110471983--110472084 Score: 143
Period size: 44 Copynumber: 2.3 Consensus size: 45
110471973 AGCCACTAGC
* *
110471983 CTTATCTCCCTGAGGTAGCAAGCGAGCAGGCTAATGATTGTAG-T
1 CTTATCTCCCTGAGGTAGCAAGCGAGCAGACTAAAGATTGTAGAT
* *
110472027 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGAT
1 CTTATCTCCCTGAGGTAGCAAGCGAGCAGACTAAAGATTGTAGAT
* *
110472072 CTTGTTTCCCTGA
1 CTTATCTCCCTGA
110472085 AATAGCAGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 39 0.78
45 11 0.22
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAGGTAGCAAGCGAGCAGACTAAAGATTGTAGAT
Found at i:110472205 original size:44 final size:44
Alignment explanation
Indices: 110472157--110472296 Score: 140
Period size: 50 Copynumber: 3.1 Consensus size: 44
110472147 TTTTAGCCAC
* *
110472157 TAGCCTTATC-TCTCTGAGGTAGCAAGGGAGTAGGCTAATGATTG
1 TAGCCTTATCTTCT-TGAGGTAGCAAGGGAGCAGACTAATGATTG
110472201 TAGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGACTAATGATTCAGATTG
1 TAGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGACT-A--A-T--GATTG
* * * * *
110472251 TAGTCTCATCTTCCTGAGGTAGCAAGGGAACAGACTGATGA-TG
1 TAGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGACTAATGATTG
110472294 TAG
1 TAG
110472297 ATCTTGTCTC
Statistics
Matches: 82, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
43 5 0.06
44 32 0.39
45 4 0.05
46 1 0.01
47 2 0.02
48 1 0.01
50 37 0.45
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (44 bp):
TAGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGACTAATGATTG
Found at i:110472271 original size:50 final size:50
Alignment explanation
Indices: 110472196--110472292 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
110472186 GTAGGCTAAT
* * *
110472196 GATTGTAGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGACTAATGATTCA
1 GATTGTAGCCTCATCTTCCTGAGGTAGCAAGGGAACAGACTAATGATTCA
* *
110472246 GATTGTAGTCTCATCTTCCTGAGGTAGCAAGGGAACAGACTGATGAT
1 GATTGTAGCCTCATCTTCCTGAGGTAGCAAGGGAACAGACTAATGAT
110472293 GTAGATCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (50 bp):
GATTGTAGCCTCATCTTCCTGAGGTAGCAAGGGAACAGACTAATGATTCA
Found at i:110472374 original size:89 final size:89
Alignment explanation
Indices: 110472258--110472461 Score: 221
Period size: 89 Copynumber: 2.3 Consensus size: 89
110472248 TTGTAGTCTC
* * * ** * * *
110472258 ATCTTCCTGAGGTAGCAAGGGAACAGACTGATGA-TGTAGATCTTGTCTCCTTAAGATAGCAGTG
1 ATCTTCCTAAGGTAGTAAGGGAGCAGACTGAACATTGTAGATCTTATCTCCCTAAG-CAGCAGTG
* * *
110472322 GGGCAGATCGAAAATGGAGAGCCTT
65 GAGCAGAACGAAAATGGAGAACCTT
* * *
110472347 ATCTTCTTAAGGTAGTAAAGGAGCAGACTGAACATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 ATCTTCCTAAGGTAGTAAGGGAGCAGACTGAACATTGTAGATCTTATCTCCCTAAGCAGCAGTGG
* * *
110472412 AGCAGAACGAAGATGGCGAATCTT
66 AGCAGAACGAAAATGGAGAACCTT
* *
110472436 ATCTTCCCAAGGTAGTAGGGGAGCAG
1 ATCTTCCTAAGGTAGTAAGGGAGCAG
110472462 GTTGAAGCCA
Statistics
Matches: 93, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
89 74 0.80
90 19 0.20
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (89 bp):
ATCTTCCTAAGGTAGTAAGGGAGCAGACTGAACATTGTAGATCTTATCTCCCTAAGCAGCAGTGG
AGCAGAACGAAAATGGAGAACCTT
Found at i:110474075 original size:27 final size:27
Alignment explanation
Indices: 110474045--110474101 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
110474035 TATACCATTC
* *
110474045 ATTTTAAATTATTTTTATATATTATTT
1 ATTTTAAATTATTTTAATATAATATTT
** *
110474072 ATTTTAGCTTGTTTTAATATAATATTT
1 ATTTTAAATTATTTTAATATAATATTT
110474099 ATT
1 ATT
110474102 AAAGTTTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTTTAAATTATTTTAATATAATATTT
Found at i:110474110 original size:27 final size:27
Alignment explanation
Indices: 110474056--110474113 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
110474046 TTTTAAATTA
* * **
110474056 TTTTTATATATTATTTATTTTAGCTTG
1 TTTTAATATAATATTTATTAAAGCTTG
*
110474083 TTTTAATATAATATTTATTAAAGTTTG
1 TTTTAATATAATATTTATTAAAGCTTG
110474110 TTTT
1 TTTT
110474114 CCTATTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (27 bp):
TTTTAATATAATATTTATTAAAGCTTG
Found at i:110476029 original size:24 final size:24
Alignment explanation
Indices: 110476001--110476046 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
110475991 CTATTAAAAT
110476001 GTGATTGATAATTAATCATTAACG
1 GTGATTGATAATTAATCATTAACG
* *
110476025 GTGATTGGTTATTAATCATTAA
1 GTGATTGATAATTAATCATTAA
110476047 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (24 bp):
GTGATTGATAATTAATCATTAACG
Found at i:110482091 original size:13 final size:14
Alignment explanation
Indices: 110482065--110482093 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
110482055 CCTAACGATG
110482065 AATTAAACCATTAT
1 AATTAAACCATTAT
110482079 AATTAAA-CATTAT
1 AATTAAACCATTAT
110482092 AA
1 AA
110482094 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:110487340 original size:43 final size:43
Alignment explanation
Indices: 110487293--110487423 Score: 253
Period size: 43 Copynumber: 3.0 Consensus size: 43
110487283 TTATATAAGG
110487293 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
*
110487336 TATGTATTATGTAAGTTTTGTAAGTTATTATATGACATATATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
110487379 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
110487422 TA
1 TA
110487424 ACATTAAGAT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.53
Consensus pattern (43 bp):
TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
Found at i:110488036 original size:28 final size:29
Alignment explanation
Indices: 110488005--110488083 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 29
110487995 TTATTTATTT
*
110488005 TAAAAATTTTAA-TT-TCTAGTAAAGAAAG
1 TAAAAATTTCAAGTTAT-TAGTAAAGAAAG
*
110488033 T-AAAATTTCAAGTTATTATTAAAGAAAG
1 TAAAAATTTCAAGTTATTAGTAAAGAAAG
*
110488061 T-AAAATTTCAAGTTATTATTAAA
1 TAAAAATTTCAAGTTATTAGTAAA
110488084 AATAATAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
27 9 0.19
28 37 0.79
29 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (29 bp):
TAAAAATTTCAAGTTATTAGTAAAGAAAG
Found at i:110488037 original size:27 final size:28
Alignment explanation
Indices: 110488021--110488083 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
110488011 TTTTAATTTC
110488021 TAGTAAAGAAAGTAAAATTTCAAGTTAT
1 TAGTAAAGAAAGTAAAATTTCAAGTTAT
*
110488049 TATTAAAGAAAGTAAAATTTCAAGTTAT
1 TAGTAAAGAAAGTAAAATTTCAAGTTAT
*
110488077 TATTAAA
1 TAGTAAA
110488084 AATAATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (28 bp):
TAGTAAAGAAAGTAAAATTTCAAGTTAT
Found at i:110488092 original size:28 final size:28
Alignment explanation
Indices: 110488024--110488092 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
110488014 TAATTTCTAG
*
110488024 TAAAGAAAGTAAAATTTCAAGTTATTAT
1 TAAAGAAAATAAAATTTCAAGTTATTAT
*
110488052 TAAAGAAAGTAAAATTTCAAGTTATTAT
1 TAAAGAAAATAAAATTTCAAGTTATTAT
110488080 TAAA-AATAATAAA
1 TAAAGAA-AATAAA
110488093 TAATAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (28 bp):
TAAAGAAAATAAAATTTCAAGTTATTAT
Found at i:110490658 original size:16 final size:17
Alignment explanation
Indices: 110490637--110490671 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
110490627 ACTATTTAAT
110490637 ATATAAATT-AAAAACA
1 ATATAAATTAAAAAACA
110490653 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
110490670 AT
1 AT
110490672 CACTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:110490835 original size:17 final size:17
Alignment explanation
Indices: 110490784--110490841 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
110490774 ATTACATAAA
*
110490784 ATTTGAAATCTTGAAATTT
1 ATTTAAAAT-TTGAAA-TT
* *
110490803 TTTTAAAATTT-TAATT
1 ATTTAAAATTTGAAATT
*
110490819 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAATT
110490836 ATTTAA
1 ATTTAA
110490842 TATATAGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 12 0.38
17 11 0.34
18 2 0.06
19 7 0.22
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:110490959 original size:7 final size:7
Alignment explanation
Indices: 110490944--110491080 Score: 53
Period size: 7 Copynumber: 18.9 Consensus size: 7
110490934 ACACTAATTA
110490944 CCCTAAAC
1 CCCT-AAC
110490952 CCCTAAC
1 CCCTAAC
*
110490959 CCTTAAC
1 CCCTAAC
*
110490966 CCTTAAC
1 CCCTAAC
110490973 CCCTAA-
1 CCCTAAC
110490979 CCCTAAAC
1 CCCT-AAC
* **
110490987 CCATGTC
1 CCCTAAC
*
110490994 CCTTAA-
1 CCCTAAC
110491000 CCCTAAAAC
1 CCCT--AAC
110491009 CCCTAAC
1 CCCTAAC
* * *
110491016 ACATAAA
1 CCCTAAC
* *
110491023 TCCTAAA
1 CCCTAAC
110491030 CCCTAAAC
1 CCCT-AAC
110491038 CCCATAAC
1 CCC-TAAC
*
110491046 CCATAAAC
1 CCCT-AAC
*
110491054 CCATAAC
1 CCCTAAC
* *
110491061 TCTTAAC
1 CCCTAAC
*
110491068 CCCTAAA
1 CCCTAAC
110491075 CCCTAA
1 CCCTAA
110491081 GCCATAAAAT
Statistics
Matches: 99, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
6 7 0.07
7 61 0.62
8 26 0.26
9 5 0.05
ACGTcount: A:0.37, C:0.43, G:0.01, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:110490966 original size:14 final size:14
Alignment explanation
Indices: 110490943--110491078 Score: 67
Period size: 14 Copynumber: 9.4 Consensus size: 14
110490933 CACACTAATT
*
110490943 ACCCTAAACCCCTA
1 ACCCTTAACCCCTA
*
110490957 ACCCTTAACCCTTA
1 ACCCTTAACCCCTA
*
110490971 ACCCCTAA-CCCTAA
1 ACCCTTAACCCCT-A
* ** *
110490985 ACCCATGTCCCTTA
1 ACCCTTAACCCCTA
*
110490999 ACCCTAAAACCCCTA
1 ACCCT-TAACCCCTA
* * **
110491014 ACACATAAATCCTAA
1 ACCCTTAACCCCT-A
*
110491029 ACCCTAAACCCCATA
1 ACCCTTAACCCC-TA
* *
110491044 ACCCATAAACCCATA
1 ACCC-TTAACCCCTA
*
110491059 ACTCTTAACCCCTAA
1 ACCCTTAACCCCT-A
110491074 ACCCT
1 ACCCT
110491079 AAGCCATAAA
Statistics
Matches: 87, Mismatches: 28, Indels: 13
0.68 0.22 0.10
Matches are distributed among these distances:
13 3 0.03
14 42 0.48
15 34 0.39
16 8 0.09
ACGTcount: A:0.37, C:0.43, G:0.01, T:0.19
Consensus pattern (14 bp):
ACCCTTAACCCCTA
Found at i:110490973 original size:21 final size:21
Alignment explanation
Indices: 110490943--110491080 Score: 93
Period size: 21 Copynumber: 6.3 Consensus size: 21
110490933 CACACTAATT
*
110490943 ACCCTAAACCCCTAACCCTTA
1 ACCCTAAACCCCTAACCCTAA
*
110490964 ACCCTTAACCCCTAACCCTAA
1 ACCCTAAACCCCTAACCCTAA
** *
110490985 ACCC-ATGTCCCTTAACCCTAAA
1 ACCCTA-AACCCCTAACCCT-AA
* * *
110491007 ACCCCT-AACACATAAATCCTAA
1 A-CCCTAAACCCCT-AACCCTAA
110491029 ACCCTAAACCCCATAACCCATAA
1 ACCCTAAACCCC-TAACCC-TAA
* *
110491052 ACCC-ATAACTCTTAACCCCTAA
1 ACCCTA-AACCCCTAA-CCCTAA
110491074 ACCCTAA
1 ACCCTAA
110491081 GCCATAAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 21
0.71 0.13 0.17
Matches are distributed among these distances:
21 37 0.41
22 29 0.32
23 24 0.27
ACGTcount: A:0.38, C:0.43, G:0.01, T:0.19
Consensus pattern (21 bp):
ACCCTAAACCCCTAACCCTAA
Found at i:110491767 original size:40 final size:40
Alignment explanation
Indices: 110491696--110491985 Score: 303
Period size: 40 Copynumber: 7.2 Consensus size: 40
110491686 CTGTAAAACA
* * *
110491696 CCGCCAATGCTCTGTTTTTTAGCGGCATTTTATCAAAAGCG
1 CCGCTAATGCTCTG-TTTTTAGCGGCGTTTTACCAAAAGCG
**
110491737 CCTATAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
1 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
* * *
110491777 TCGCTAATGCTCTATTTTTTAGC-GCGTTTTACCAAAAGTG
1 CCGCTAATGCTCT-GTTTTTAGCGGCGTTTTACCAAAAGCG
* * * *
110491817 CCGCTGATGCTCTATTTTTTAGCGGCATTTTACCAAAAGCA
1 CCGCTAATGCTCT-GTTTTTAGCGGCGTTTTACCAAAAGCG
* * * * *
110491858 CCGCTAGTGCTCTGTTTTTAACAGCATTTTACTAAAAGCG
1 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
* * * *
110491898 CCGTTAATGCTCTGTTTTTAGCGACGTTTTATCAAAAAACG
1 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTA-CCAAAAGCG
* * * *
110491939 CCGCTATTGCTCAGTTTTTAGCGGTGTTTTACCAAAAACG
1 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
*
110491979 CTGCTAA
1 CCGCTAA
110491986 AGCCCTATTT
Statistics
Matches: 208, Mismatches: 38, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
40 131 0.63
41 77 0.37
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (40 bp):
CCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
Found at i:110491841 original size:81 final size:81
Alignment explanation
Indices: 110491696--110491975 Score: 298
Period size: 81 Copynumber: 3.5 Consensus size: 81
110491686 CTGTAAAACA
* * *
110491696 CCGCCAATGCTCT-GTTTTTTAGCGGCATTTTATCAAAAGCGCCTATAATGCTCTGTTTTTAGCG
1 CCGCTAATGCTCTAG-TTTTTAGCGGCATTTTACCAAAAGCGCCGATAATGCTCTGTTTTTAGCG
110491760 GCGTTTTACCAAAAGCG
65 GCGTTTTACCAAAAGCG
* * * * * * *
110491777 TCGCTAATGCTCTATTTTTTAGC-GCGTTTTACCAAAAGTGCCGCTGATGCTCTATTTTTTAGCG
1 CCGCTAATGCTCTAGTTTTTAGCGGCATTTTACCAAAAGCGCCGATAATGCTCT-GTTTTTAGCG
* *
110491841 GCATTTTACCAAAAGCA
65 GCGTTTTACCAAAAGCG
* * * * * *
110491858 CCGCTAGTGCTCT-GTTTTTAACAGCATTTTACTAAAAGCGCCGTTAATGCTCTGTTTTTAGCGA
1 CCGCTAATGCTCTAGTTTTTAGCGGCATTTTACCAAAAGCGCCGATAATGCTCTGTTTTTAGCGG
* *
110491922 CGTTTTATCAAAAAACG
66 CGTTTTA-CCAAAAGCG
* **
110491939 CCGCTATTGCTC-AGTTTTTAGCGGTGTTTTACCAAAA
1 CCGCTAATGCTCTAGTTTTTAGCGGCATTTTACCAAAA
110491976 ACGCTGCTAA
Statistics
Matches: 161, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
80 46 0.29
81 115 0.71
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (81 bp):
CCGCTAATGCTCTAGTTTTTAGCGGCATTTTACCAAAAGCGCCGATAATGCTCTGTTTTTAGCGG
CGTTTTACCAAAAGCG
Found at i:110491916 original size:121 final size:121
Alignment explanation
Indices: 110491702--110491975 Score: 329
Period size: 121 Copynumber: 2.3 Consensus size: 121
110491692 AACACCGCCA
* * * * * * *
110491702 ATGCTCTGTTTTTTAGCGGCATTTTATCAAAAGCGCCTATAATGCTCTGTTTTTAGCGGCGTTTT
1 ATGCTCTATTTTTTAGCGGCATTTTACCAAAAGCACCGATAATGCTCTGTTTTTAACAGCATTTT
* * **
110491767 ACCAAAAGCGTCGCTAATGCTCTATTTTTTAGCG-CGTTTTA-CCAAAAGTGCCGCT
66 ACCAAAAGCGCCGCTAATGCTCTA-TTTTTAGCGACGTTTTATCAAAAAACGCCGCT
* *
110491822 GATGCTCTATTTTTTAGCGGCATTTTACCAAAAGCACCGCTAGTGCTCTGTTTTTAACAGCATTT
1 -ATGCTCTATTTTTTAGCGGCATTTTACCAAAAGCACCGATAATGCTCTGTTTTTAACAGCATTT
* * *
110491887 TACTAAAAGCGCCGTTAATGCTCTGTTTTTAGCGACGTTTTATCAAAAAACGCCGCT
65 TACCAAAAGCGCCGCTAATGCTCTATTTTTAGCGACGTTTTATCAAAAAACGCCGCT
* **
110491944 ATTGCTC-AGTTTTTAGCGGTGTTTTACCAAAA
1 A-TGCTCTATTTTTTAGCGGCATTTTACCAAAA
110491976 ACGCTGCTAA
Statistics
Matches: 131, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
120 9 0.07
121 106 0.81
122 16 0.12
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (121 bp):
ATGCTCTATTTTTTAGCGGCATTTTACCAAAAGCACCGATAATGCTCTGTTTTTAACAGCATTTT
ACCAAAAGCGCCGCTAATGCTCTATTTTTAGCGACGTTTTATCAAAAAACGCCGCT
Done.