Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4445546
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 18
Found at i:3969390 original size:44 final size:43
Alignment explanation
Indices: 3969288--3969391 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 43
3969278 AATATATATA
* *
3969288 TATATATATTCAAAAACTATAATATATATTATATTTTCAAAAAC
1 TATATAT-TTAAAAAACTATAATATATAATATATTTTCAAAAAC
* * * *
3969332 AATATGTTTAAAAAACTAT-ATATATTAAATATGTTTTCAAAAAT
1 TATATATTTAAAAAACTATAATATA-T-AATATATTTTCAAAAAC
3969376 TATATATTTTAAAAAA
1 TATATA-TTTAAAAAA
3969392 TATCTAATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
42 5 0.10
43 12 0.24
44 23 0.47
45 9 0.18
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (43 bp):
TATATATTTAAAAAACTATAATATATAATATATTTTCAAAAAC
Found at i:3969816 original size:23 final size:21
Alignment explanation
Indices: 3969764--3969832 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 21
3969754 ATAAAGAAAC
3969764 TTAAATAAAAACATTACAAACTAA
1 TTAAAT-AAAACATTA-AAAC-AA
*
3969788 AT-AATAAAATCAATTAAAACAA
1 TTAAATAAAA-C-ATTAAAACAA
3969810 TTAAATAGAAACATTAAATACAA
1 TTAAATA-AAACATTAAA-ACAA
3969833 GTGTTACAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
22 13 0.34
23 17 0.45
24 8 0.21
ACGTcount: A:0.64, C:0.10, G:0.01, T:0.25
Consensus pattern (21 bp):
TTAAATAAAACATTAAAACAA
Found at i:3986200 original size:20 final size:20
Alignment explanation
Indices: 3986171--3986209 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3986161 AGAGCTCATA
*
3986171 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
3986191 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
3986210 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:3990665 original size:13 final size:13
Alignment explanation
Indices: 3990647--3990672 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3990637 CCAACTCTAG
3990647 GACTTGCTTCTTT
1 GACTTGCTTCTTT
3990660 GACTTGCTTCTTT
1 GACTTGCTTCTTT
3990673 AAAACCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.15, T:0.54
Consensus pattern (13 bp):
GACTTGCTTCTTT
Found at i:3994001 original size:25 final size:25
Alignment explanation
Indices: 3993973--3994020 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3993963 ATTAAAGCTT
3993973 TTTCTT-TTAACTTTTCAAGTTTTTA
1 TTTCTTATTAA-TTTTCAAGTTTTTA
* *
3993998 TTTCTTATTTATTTTCATGTTTT
1 TTTCTTATTAATTTTCAAGTTTT
3994021 GTTTTTATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.17, C:0.10, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTCTTATTAATTTTCAAGTTTTTA
Found at i:4000704 original size:15 final size:15
Alignment explanation
Indices: 4000684--4000715 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4000674 ATTTCGAAAC
4000684 GTATATGGGTTATGG
1 GTATATGGGTTATGG
4000699 GTATATGGGTTATGG
1 GTATATGGGTTATGG
4000714 GT
1 GT
4000716 GTTACAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (15 bp):
GTATATGGGTTATGG
Found at i:4008329 original size:55 final size:56
Alignment explanation
Indices: 4008255--4008364 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 56
4008245 ATAGTCAAAT
* * *
4008255 ATTTCTTTTAACTCGAAACGACCATTTAAACCA-TTTAATTAATAAAAAATTCATC
1 ATTTCTTTTAACTCAAAACGACCATTTAAACCATTTTAATTAAGAAAAAAATCATC
* * **
4008310 ATTTCTTTTAAGTTAAAACGACCATTTAATTCATTTTAATTAAGAAAAAAATCAT
1 ATTTCTTTTAACTCAAAACGACCATTTAAACCATTTTAATTAAGAAAAAAATCAT
4008365 AAAAATAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 28 0.60
56 19 0.40
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.38
Consensus pattern (56 bp):
ATTTCTTTTAACTCAAAACGACCATTTAAACCATTTTAATTAAGAAAAAAATCATC
Found at i:4011896 original size:20 final size:21
Alignment explanation
Indices: 4011857--4011901 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
4011847 CAGAGATTTG
4011857 AACAATTTTGTAACTGGTGCA
1 AACAATTTTGTAACTGGTGCA
*
4011878 AACAATTTT-TAATTGGTGCA
1 AACAATTTTGTAACTGGTGCA
4011898 AACA
1 AACA
4011902 GTGAGTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (21 bp):
AACAATTTTGTAACTGGTGCA
Found at i:4013503 original size:45 final size:45
Alignment explanation
Indices: 4013439--4013879 Score: 640
Period size: 45 Copynumber: 10.1 Consensus size: 45
4013429 ACATATCCCA
* * *
4013439 TATTTTACCATTATACTTACCATTTATCCCATAAGCTTGTAAGCT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
*
4013484 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCATAAGCT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
*
4013529 TATTTTACC---AT--TTA-C------TCCATAAGCTCATAAGCT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
* *
4013562 TATTTTACCAATATACTTACCATTTACTCCATAAGCTCGTAAACT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
4013607 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
*
4013652 TATTTTACCAATATACTTATCATTTATTCCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
* * *
4013697 TATTTTACCAATATACTTATCATTTACTCCATAAGCTCATAAGCT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
*
4013742 TATTTTACCAATATACTTATCATTTATTCCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
* * *
4013787 TATTTTACCAATATGCTTATCATTTATTCCATAAGCTCGTAAACT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
*
4013832 TATTTTACCAATATACTTGCCA--TATTCCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
4013875 TATTT
1 TATTT
4013880 GCATGATTAC
Statistics
Matches: 365, Mismatches: 19, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
33 27 0.07
36 2 0.01
38 3 0.01
39 2 0.01
40 3 0.01
42 2 0.01
43 25 0.07
45 301 0.82
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (45 bp):
TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
Found at i:4013538 original size:33 final size:33
Alignment explanation
Indices: 4013500--4013571 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
4013490 ACCAATATAC
*
4013500 TTACCATTTATTCCATAAGCTCATAAGCTTATT
1 TTACCATTTACTCCATAAGCTCATAAGCTTATT
4013533 TTACCATTTACTCCATAAGCTCATAAGCTTATT
1 TTACCATTTACTCCATAAGCTCATAAGCTTATT
4013566 TTACCA
1 TTACCA
4013572 ATATACTTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.40
Consensus pattern (33 bp):
TTACCATTTACTCCATAAGCTCATAAGCTTATT
Found at i:4016077 original size:26 final size:25
Alignment explanation
Indices: 4016039--4016138 Score: 78
Period size: 24 Copynumber: 3.8 Consensus size: 25
4016029 TATATAAGAA
*
4016039 TATTACTAA-TAATGATTTAATAAT
1 TATTATTAATTAATGATTTAATAAT
4016063 TATTATTAATCTAATGATTTGATATTTAAT
1 TATTATTAAT-TAATGATTT-A-A--TAAT
* * *
4016093 TATTTAGTAATGATATGATTTAGTAAT
1 TA-TTATTAATTA-ATGATTTAATAAT
*
4016120 TATTATTAA-TAATTATTTA
1 TATTATTAATTAATGATTTA
4016139 TTATAAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
24 15 0.25
25 1 0.02
26 15 0.25
27 7 0.11
28 1 0.02
30 8 0.13
31 14 0.23
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (25 bp):
TATTATTAATTAATGATTTAATAAT
Found at i:4016393 original size:16 final size:15
Alignment explanation
Indices: 4016358--4016386 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4016348 AAACAACAAT
4016358 AAATATTTTTAAACA
1 AAATATTTTTAAACA
4016373 AAATATTTTTAAAC
1 AAATATTTTTAAAC
4016387 GGGAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATTTTTAAACA
Found at i:4016840 original size:46 final size:50
Alignment explanation
Indices: 4016787--4016893 Score: 152
Period size: 50 Copynumber: 2.2 Consensus size: 50
4016777 TAAACACACC
*
4016787 AACAAACTAATT-ACATAATTTTTT-TA-CATAT-A-ATATAACTTAAACT
1 AACAAACTAATTAAC-TAATTTTTTATATAATATAATATATAACTTAAACT
*
4016833 AAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAAACT
1 AACAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAAACT
4016883 AACAAACTAAT
1 AACAAACTAAT
4016894 ATAATATAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
46 20 0.38
47 4 0.08
48 4 0.08
49 1 0.02
50 24 0.45
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.37
Consensus pattern (50 bp):
AACAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAAACT
Found at i:4016900 original size:28 final size:30
Alignment explanation
Indices: 4016860--4016920 Score: 99
Period size: 28 Copynumber: 2.1 Consensus size: 30
4016850 ATTTTTTATA
*
4016860 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAAAAAAC
4016890 TAATAT-A-ATATAACTTAAACTAAAAAAC
1 TAATATAATATATAACTTAAACTAAAAAAC
4016918 TAA
1 TAA
4016921 AAATTTATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 23 0.77
29 1 0.03
30 6 0.20
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAAAAAAC
Found at i:4017079 original size:19 final size:19
Alignment explanation
Indices: 4017055--4017100 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
4017045 AACTTATCTC
4017055 CCTTTCTTCTTCAT-CCTTT
1 CCTTTCTTCTTC-TCCCTTT
4017074 CCTTTCTATCTTCTCCCTTT
1 CCTTTCT-TCTTCTCCCTTT
4017094 -CTTTCTT
1 CCTTTCTT
4017101 TCTTTCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 14 0.56
20 10 0.40
ACGTcount: A:0.04, C:0.37, G:0.00, T:0.59
Consensus pattern (19 bp):
CCTTTCTTCTTCTCCCTTT
Found at i:4017099 original size:4 final size:4
Alignment explanation
Indices: 4017090--4017116 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4017080 TATCTTCTCC
4017090 CTTT CTTT CTTT CTTT CTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTT
4017117 CTGCTCCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:4018819 original size:21 final size:21
Alignment explanation
Indices: 4018785--4018830 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4018775 CAGAGATTTG
4018785 AACAATTTTGTAACTGGCGCA
1 AACAATTTTGTAACTGGCGCA
*
4018806 AACAAGTTTT-TAACTGGTGCA
1 AACAA-TTTTGTAACTGGCGCA
4018827 AACA
1 AACA
4018831 GTGAGCTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
AACAATTTTGTAACTGGCGCA
Found at i:4019100 original size:12 final size:12
Alignment explanation
Indices: 4019080--4019116 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
4019070 ACTACGGCTA
4019080 GAAAGCTAAGTT
1 GAAAGCTAAGTT
*
4019092 GAAATCTAAGTT
1 GAAAGCTAAGTT
4019104 GAAAGCTAAGTT
1 GAAAGCTAAGTT
4019116 G
1 G
4019117 TTCCAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (12 bp):
GAAAGCTAAGTT
Found at i:4019313 original size:66 final size:61
Alignment explanation
Indices: 4019203--4019342 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 61
4019193 CTAAGTTGTT
* * *
4019203 ATTGTTGAATGAAACAATGTTTCCTTTATTTTAAGTAGTCGGATGTGATAGATCAGAAGTA
1 ATTGTTGAATGAAACAATGTTTCCTTTATTTTAAGAAGGCGGATGTGATAGATCAGAAATA
* * *
4019264 ATTGCTGAATGAAACAATGTTTGTGGCCCTTTATTTTAGGAAGGCGGATGTGATAGATCATAAAT
1 ATTGTTGAATGAAACAATG-TT-T---CCTTTATTTTAAGAAGGCGGATGTGATAGATCAGAAAT
4019329 A
61 A
4019330 ATTGTTGAATGAA
1 ATTGTTGAATGAA
4019343 GCCACATGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
61 18 0.27
62 2 0.03
63 1 0.01
66 46 0.69
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.36
Consensus pattern (61 bp):
ATTGTTGAATGAAACAATGTTTCCTTTATTTTAAGAAGGCGGATGTGATAGATCAGAAATA
Found at i:4019427 original size:16 final size:18
Alignment explanation
Indices: 4019405--4019447 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
4019395 TTCGACTATT
*
4019405 TATAAATAAT-AATAAGA
1 TATAAATAATAAATAAAA
4019422 TA-AAAT-ATAAATAAAA
1 TATAAATAATAAATAAAA
4019438 TATAAATAAT
1 TATAAATAAT
4019448 TCAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
17 6 0.27
18 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
TATAAATAATAAATAAAA
Found at i:4019435 original size:11 final size:11
Alignment explanation
Indices: 4019405--4019446 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
4019395 TTCGACTATT
4019405 TATAAATAATAA
1 TATAAATAA-AA
*
4019417 TA-AGATAAAA
1 TATAAATAAAA
4019427 TATAAATAAAA
1 TATAAATAAAA
4019438 TATAAATAA
1 TATAAATAA
4019447 TTCAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 4 0.15
11 21 0.78
12 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
TATAAATAAAA
Found at i:4022777 original size:45 final size:50
Alignment explanation
Indices: 4022728--4022845 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 50
4022718 GTTTAAACGC
*
4022728 ACTAACAAACTAATTAAATAA-TATTT-TA-CATAT-A-ATATAACTTAA
1 ACTAACAAACTAATTAAATAATTATTTATATAATATAATATATAACTTAA
* * *
4022773 ACTAAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAATTAAATAATTATTTATATAATATAATATATAACTTAA
4022823 ACTAACAAACTAATATAATATAA
1 ACTAACAAACTAAT-TAA-ATAA
4022846 CTTAAACTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
45 19 0.32
46 4 0.07
47 2 0.03
48 4 0.07
49 1 0.02
50 24 0.40
51 3 0.05
52 3 0.05
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.36
Consensus pattern (50 bp):
ACTAACAAACTAATTAAATAATTATTTATATAATATAATATATAACTTAA
Found at i:4022843 original size:28 final size:30
Alignment explanation
Indices: 4022803--4022865 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
4022793 ATTTTTTATA
4022803 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
4022833 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
4022861 TAATA
1 TAATA
4022866 ATTTATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 26 0.79
29 1 0.03
30 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:4022872 original size:28 final size:28
Alignment explanation
Indices: 4022807--4022872 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
4022797 TTTATATAAT
4022807 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
4022835 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
4022863 ATAATTTATA
1 ATAATATATA
4022873 CTAACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:4022875 original size:21 final size:21
Alignment explanation
Indices: 4022842--4022906 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
4022832 CTAATATAAT
* *
4022842 ATAACTTAAACTAACAAACTA
1 ATAATTTATACTAACAAACTA
4022863 ATAATTTATACTAACAAACTA
1 ATAATTTATACTAACAAACTA
4022884 ATAATTTATACTAACAAACTA
1 ATAATTTATACTAACAAACTA
4022905 AT
1 AT
4022907 TAACTAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAATTTATACTAACAAACTA
Found at i:4023042 original size:19 final size:20
Alignment explanation
Indices: 4023014--4023079 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 20
4023004 AGTTATATGT
4023014 CTTTCT-TCTTCTTCATTTC
1 CTTTCTATCTTCTTCATTTC
* *
4023033 CTTT-TATCTTC-TCCTTTT
1 CTTTCTATCTTCTTCATTTC
* *
4023051 CTTTCTATCTTC-TCCTTTT
1 CTTTCTATCTTCTTCATTTC
4023070 CTTTCTATCT
1 CTTTCTATCT
4023080 CTGCTCCATG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.23
19 33 0.77
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTCTATCTTCTTCATTTC
Found at i:4023517 original size:21 final size:21
Alignment explanation
Indices: 4023491--4023534 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4023481 CACGAATTTT
4023491 GTGTAAGCGTCCGACCAAGAG
1 GTGTAAGCGTCCGACCAAGAG
4023512 GTGTAAGCGTCCGACCAAGAG
1 GTGTAAGCGTCCGACCAAGAG
4023533 GT
1 GT
4023535 TCAATACTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.23, G:0.34, T:0.16
Consensus pattern (21 bp):
GTGTAAGCGTCCGACCAAGAG
Found at i:4029597 original size:21 final size:21
Alignment explanation
Indices: 4029571--4029616 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
4029561 CAGAGATTTG
4029571 AACAATTTTGTAACTGGTGCA
1 AACAATTTTGTAACTGGTGCA
*
4029592 AACAATTTTTTAACTGGTGCA
1 AACAATTTTGTAACTGGTGCA
4029613 AACA
1 AACA
4029617 GTGAGCTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
AACAATTTTGTAACTGGTGCA
Found at i:4030945 original size:16 final size:15
Alignment explanation
Indices: 4030912--4030943 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4030902 CAATTTCTCT
4030912 AATTTTGAAAAATCA
1 AATTTTGAAAAATCA
4030927 AATTTTGAAAAATCA
1 AATTTTGAAAAATCA
4030942 AA
1 AA
4030944 ATCAGCCGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (15 bp):
AATTTTGAAAAATCA
Found at i:4032085 original size:6 final size:6
Alignment explanation
Indices: 4032074--4032131 Score: 80
Period size: 6 Copynumber: 9.7 Consensus size: 6
4032064 GACACGTATT
* * * *
4032074 ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCTCG ACCACA
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4032122 ACCACG ACCA
1 ACCACG ACCA
4032132 TGAGCCGAGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.31, C:0.50, G:0.14, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:4043942 original size:6 final size:6
Alignment explanation
Indices: 4043928--4043970 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
4043918 GACACGTATT
* *
4043928 ACCACG ACCATG ACCACG ACCTCG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
4043971 GTCGAGCCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.47, G:0.16, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:4044961 original size:6 final size:6
Alignment explanation
Indices: 4044950--4045148 Score: 263
Period size: 6 Copynumber: 33.2 Consensus size: 6
4044940 GACACGTTCT
4044950 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4044998 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
* * * * * * *
4045046 ACCACG ACCTCG ACCTCG ACCTCG ACCTCG ACCTCG ACCTCG ACCTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
* * * * * * * *
4045094 ACCTCG ACCTCG ACCTCG ACCTCG ACCTCG ACCTCG ACCTCG ACCTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4045142 ACCACG A
1 ACCACG A
4045149 GCCGAGCCGA
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 191 1.00
ACGTcount: A:0.26, C:0.50, G:0.17, T:0.08
Consensus pattern (6 bp):
ACCACG
Found at i:4045327 original size:17 final size:17
Alignment explanation
Indices: 4045305--4045341 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4045295 AACACCCCCA
4045305 ACTCCACCTCCATCAAT
1 ACTCCACCTCCATCAAT
4045322 ACTCCACCTCCATCAAT
1 ACTCCACCTCCATCAAT
4045339 ACT
1 ACT
4045342 GAGAACAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.46, G:0.00, T:0.24
Consensus pattern (17 bp):
ACTCCACCTCCATCAAT
Found at i:4053481 original size:22 final size:21
Alignment explanation
Indices: 4053456--4053499 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4053446 TATTTTCATA
*
4053456 TAATAACTTTATATCAATGCAT
1 TAAT-ACTTTATAACAATGCAT
* *
4053478 TAATAGTTTATAACCATGCAT
1 TAATACTTTATAACAATGCAT
4053499 T
1 T
4053500 TTAATGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (21 bp):
TAATACTTTATAACAATGCAT
Found at i:4057735 original size:29 final size:30
Alignment explanation
Indices: 4057703--4057768 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
4057693 ACTATTGAAC
*
4057703 AATTACACAA-TAATCCAC-AACTTTTCCAA
1 AATTACACAATTAATCCACTAACTTTT-AAA
*
4057732 AATTAC-CAATTTAATCCCCTAACTTTTAAA
1 AATTACACAA-TTAATCCACTAACTTTTAAA
4057762 AATTACA
1 AATTACA
4057769 AAATGGTCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 3 0.10
29 6 0.19
30 15 0.48
31 7 0.23
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (30 bp):
AATTACACAATTAATCCACTAACTTTTAAA
Found at i:4060786 original size:12 final size:13
Alignment explanation
Indices: 4060759--4060793 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
4060749 TTATAAAACC
4060759 ATTTGATTTCAAA
1 ATTTGATTTCAAA
4060772 ATTTGATTT-AAA
1 ATTTGATTTCAAA
*
4060784 ATTTAATTTC
1 ATTTGATTTC
4060794 TTAAAAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (13 bp):
ATTTGATTTCAAA
Found at i:4061444 original size:47 final size:47
Alignment explanation
Indices: 4061377--4061597 Score: 272
Period size: 48 Copynumber: 4.8 Consensus size: 47
4061367 TATATAATCT
* * *
4061377 CTTACCATT-TATCCCATAAGCTCGTAAGCTTATTTTA-CCAAAATA
1 CTTACCATTAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
*
4061422 CTTACCATCTAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATA
1 CTTACCAT-TAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
*
4061470 CTTACCATATAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATA
1 CTTACCAT-TAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
* * * * *
4061518 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTA-CCCATATA
1 CTTACCATTAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
* * *
4061564 CTTGCCATT--ATTCCAAAATCTCGTAAGCTTATTT
1 CTTACCATTAAATTCCATAAGCTCGTAAGCTTATTT
4061598 GTATGCTTAC
Statistics
Matches: 158, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.14
45 8 0.05
46 14 0.09
47 52 0.33
48 62 0.39
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.37
Consensus pattern (47 bp):
CTTACCATTAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
Found at i:4061746 original size:40 final size:40
Alignment explanation
Indices: 4061702--4061823 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
4061692 ACTGTAGTGC
4061702 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
4061742 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
4061782 TACACATAAGGTCGTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4061822 TA
1 TA
4061824 TAAACCTACA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:4077209 original size:25 final size:25
Alignment explanation
Indices: 4077170--4077217 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
4077160 TTTAGAGAAA
4077170 AAAAATATTTGTCATGACATGAAGG
1 AAAAATATTTGTCATGACATGAAGG
4077195 AAAAATAGTTT-TCATGACATGAA
1 AAAAATA-TTTGTCATGACATGAA
4077218 AGAATATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAAATATTTGTCATGACATGAAGG
Found at i:4090419 original size:59 final size:59
Alignment explanation
Indices: 4090327--4090694 Score: 538
Period size: 59 Copynumber: 6.2 Consensus size: 59
4090317 ACCAGATGGT
* *
4090327 ACTTTGTATGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTTCGTATAAGGC
1 ACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTTCGTATAGGGC
*
4090386 ACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTCCGTATAGGGC
1 ACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTTCGTATAGGGC
* * *
4090445 ACTTTGTGTGCTAACATGAGAAGAAATTTATACGAAGTGTATGAATTTTCGTATAGGGC
1 ACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTTCGTATAGGGC
* *
4090504 ACTTTGTGTACTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTTCTTATAGGGC
1 ACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTTCGTATAGGGC
* * * **
4090563 ACTTTGTATGCTAATATGAGAAGAAATTCATACTAAGTGTATAGATTTTCGTACGGGGC
1 ACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTTCGTATAGGGC
* * * * * * * *
4090622 ACTTCGTGTGCTAACATGATAAGAAATTAATACTAAGTGTGTGAATTTTTGTGTTGGGC
1 ACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTTCGTATAGGGC
*
4090681 ACCTTGTGTGCTAA
1 ACTTTGTGTGCTAA
4090695 AATTATGAAA
Statistics
Matches: 276, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 276 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (59 bp):
ACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTTCGTATAGGGC
Found at i:4097260 original size:59 final size:59
Alignment explanation
Indices: 4097187--4097509 Score: 461
Period size: 59 Copynumber: 5.5 Consensus size: 59
4097177 TATGCGTGGT
* *
4097187 GATTTCCGTATAGGGCACTTTCTGTGCTAATATGAGAAGAAATTCATACTAAGTGTATG
1 GATTTCCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATG
*
4097246 TATTTCCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATG
1 GATTTCCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATG
* *
4097305 GATTTCCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACCAAGTGTATA
1 GATTTCCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATG
* * * * *
4097364 GATTTCCATATAGGGCACTTTGT-T-TTAAAATTAGAAGAAATTCATACTAAGTCTATG
1 GATTTCCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATG
* ** * *
4097421 GATTTTCGTATAGACCACTTCGTGTGCTAACATGATAAGAAATTCATACTAAGTGTATG
1 GATTTCCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATG
* * * *
4097480 AATTTCTGTATTGGGCACCTTGTGTGCTAA
1 GATTTCCGTATAGGGCACTTTGTGTGCTAA
4097510 AATTATGAAA
Statistics
Matches: 231, Mismatches: 31, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
57 45 0.19
58 2 0.01
59 184 0.80
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (59 bp):
GATTTCCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATG
Found at i:4097452 original size:116 final size:118
Alignment explanation
Indices: 4097187--4097512 Score: 453
Period size: 116 Copynumber: 2.8 Consensus size: 118
4097177 TATGCGTGGT
*
4097187 GATTTCCGTATAGGGCACTTTC-TGTGCTAATATGAGAAGAAATTCATACTAAGTGTATGTATTT
1 GATTTCCGTATAGGGCAC-TTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGTATTT
* * *
4097251 CCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATG
65 CCATATAGGGCACTTTGTGTGCTAAAATGAGAAGAAATTCATACTAAGTCTATG
* *
4097305 GATTTCCGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACCAAGTGTATAG-ATTT
1 GATTTCCGTATAGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTAT-GTATTT
* *
4097369 CCATATAGGGCACTTTGT-T-TTAAAATTAGAAGAAATTCATACTAAGTCTATG
65 CCATATAGGGCACTTTGTGTGCTAAAATGAGAAGAAATTCATACTAAGTCTATG
* ** * *
4097421 GATTTTCGTATAGACCACTTCGTGTGCTAACATGATAAGAAATTCATACTAAGTGTATGAATTTC
1 GATTTCCGTATAGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGTATTTC
** * *
4097486 TGTATTGGGCACCTTGTGTGCTAAAAT
66 CATATAGGGCACTTTGTGTGCTAAAAT
4097513 TATGAAAGAT
Statistics
Matches: 184, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
115 1 0.01
116 99 0.54
117 4 0.02
118 79 0.43
119 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (118 bp):
GATTTCCGTATAGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGTATTTC
CATATAGGGCACTTTGTGTGCTAAAATGAGAAGAAATTCATACTAAGTCTATG
Found at i:4097505 original size:175 final size:177
Alignment explanation
Indices: 4097187--4097509 Score: 488
Period size: 175 Copynumber: 1.8 Consensus size: 177
4097177 TATGCGTGGT
* * * *
4097187 GATTTCCGTATAGGGCACTTTCTGTGCTAATATGAGAAGAAATTCATACTAAGTGTATGTATTTC
1 GATTTCCATATAGGGCACTTTCTGTGCTAAAATGAGAAGAAATTCATACTAAGTCTATGGATTTC
** * *
4097252 CGTATAGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGGATTTCCGTATA
66 CGTATAGACCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCGTATA
*
4097317 GGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACCAAGTGTATA
131 GGGCACCTTGTGTGCTAACATGAGAAGAAATTCATACCAAGTGTATA
** * *
4097364 GATTTCCATATAGGGCAC-TT-TGTTTTAAAATTAGAAGAAATTCATACTAAGTCTATGGATTTT
1 GATTTCCATATAGGGCACTTTCTGTGCTAAAATGAGAAGAAATTCATACTAAGTCTATGGATTTC
* * *
4097427 CGTATAGACCACTTCGTGTGCTAACATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATT
66 CGTATAGACCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCGTATA
4097492 GGGCACCTTGTGTGCTAA
131 GGGCACCTTGTGTGCTAA
4097510 AATTATGAAA
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
175 111 0.85
176 2 0.02
177 17 0.13
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (177 bp):
GATTTCCATATAGGGCACTTTCTGTGCTAAAATGAGAAGAAATTCATACTAAGTCTATGGATTTC
CGTATAGACCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCGTATA
GGGCACCTTGTGTGCTAACATGAGAAGAAATTCATACCAAGTGTATA
Found at i:4098547 original size:12 final size:12
Alignment explanation
Indices: 4098530--4098554 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4098520 AGAATCCTAC
4098530 ACAACAAGCTCA
1 ACAACAAGCTCA
4098542 ACAACAAGCTCA
1 ACAACAAGCTCA
4098554 A
1 A
4098555 GTTCCAGATC
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:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (12 bp):
ACAACAAGCTCA
Found at i:4112749 original size:9 final size:9
Alignment explanation
Indices: 4112706--4112749 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
4112696 AATTGTGATT
4112706 ATGATAATG
1 ATGATAATG
* *
4112715 ATGTTAATA
1 ATGATAATG
*
4112724 ATGATAAGG
1 ATGATAATG
4112733 ATGATAATG
1 ATGATAATG
4112742 ATGATAAT
1 ATGATAAT
4112750 AAAGGTTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.34
Consensus pattern (9 bp):
ATGATAATG
Found at i:4121280 original size:13 final size:13
Alignment explanation
Indices: 4121264--4121302 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4121254 AGCACATGTG
*
4121264 AACAGTGTACAGT
1 AACAGTGAACAGT
* *
4121277 AACATTGCACAGT
1 AACAGTGAACAGT
4121290 AACAGTGAACAGT
1 AACAGTGAACAGT
4121303 GCTCGTGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (13 bp):
AACAGTGAACAGT
Found at i:4121890 original size:20 final size:20
Alignment explanation
Indices: 4121865--4121906 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4121855 CATTATTCCT
* *
4121865 TAACCATATACCATAGACAA
1 TAACCATAAACAATAGACAA
*
4121885 TAACCATAAACAATAGATAA
1 TAACCATAAACAATAGACAA
4121905 TA
1 TA
4121907 GTCCAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.19, G:0.05, T:0.21
Consensus pattern (20 bp):
TAACCATAAACAATAGACAA
Found at i:4138689 original size:20 final size:20
Alignment explanation
Indices: 4138664--4138718 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 20
4138654 CAAACCCCTT
4138664 TGAAAATACATGGTTTTTAA
1 TGAAAATACATGGTTTTTAA
*
4138684 TGAAAATACAT-G-ATTTAA
1 TGAAAATACATGGTTTTTAA
* *
4138702 TGAAGATACATGCTTTT
1 TGAAAATACATGGTTTT
4138719 GGCCGAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 15 0.52
19 1 0.03
20 13 0.45
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (20 bp):
TGAAAATACATGGTTTTTAA
Found at i:4140904 original size:35 final size:36
Alignment explanation
Indices: 4140861--4140931 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
4140851 TCAACTTCAA
*
4140861 AAGATTTTCTTCATTT-AATTTTCCTCTAAACGTTC
1 AAGATTTTCTTCATTTGAATTTTCCTCCAAACGTTC
*
4140896 AAGATTTTCTTCATTTGAATTTTCCTCCAAATGTTC
1 AAGATTTTCTTCATTTGAATTTTCCTCCAAACGTTC
4140932 TCCTCTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 16 0.48
36 17 0.52
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (36 bp):
AAGATTTTCTTCATTTGAATTTTCCTCCAAACGTTC
Found at i:4142033 original size:6 final size:6
Alignment explanation
Indices: 4142014--4142052 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
4142004 GTAGGAGTTC
*
4142014 TTTTC- TTTTCT TTTTGT TTTTCT TCTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTT
4142053 GTTACAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:4155056 original size:24 final size:24
Alignment explanation
Indices: 4155029--4155076 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4155019 AAGTGAAGAA
4155029 CAACATTTGAATTAAGTCTTGTAG
1 CAACATTTGAATTAAGTCTTGTAG
4155053 CAACATTTGAATTAAGTCTTGTAG
1 CAACATTTGAATTAAGTCTTGTAG
4155077 AATAACCCAA
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:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (24 bp):
CAACATTTGAATTAAGTCTTGTAG
Found at i:4155290 original size:21 final size:21
Alignment explanation
Indices: 4155259--4155312 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
4155249 AACAAATCTT
4155259 TTAAATTTAAAATTAATAAAAA
1 TTAAA-TTAAAATTAATAAAAA
*
4155281 -TAAATATAAAATTACTAAAAA
1 TTAAAT-TAAAATTAATAAAAA
4155302 TTAAATTAAAA
1 TTAAATTAAAA
4155313 AAAATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.03
21 23 0.79
22 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAATTAAAATTAATAAAAA
Found at i:4162654 original size:20 final size:20
Alignment explanation
Indices: 4162603--4162660 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
4162593 ATCGATAACA
4162603 AGCATCTGGTATCAATACCG
1 AGCATCTGGTATCAATACCG
* *
4162623 AGTATCTAGTATCAATACCG
1 AGCATCTGGTATCAATACCG
*
4162643 AGCAT-TGGGTATCGATAC
1 AGCATCT-GGTATCAATAC
4162661 TACAAATCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (20 bp):
AGCATCTGGTATCAATACCG
Found at i:4168641 original size:40 final size:40
Alignment explanation
Indices: 4168596--4168684 Score: 151
Period size: 40 Copynumber: 2.2 Consensus size: 40
4168586 CTCCTACAAC
* *
4168596 TTAGCATCCTTCAAAGGAATAAGTGAGATCGTCTCCTGAT
1 TTAGCATCCTTCAAAGGAATAAGTAAGATCGTCCCCTGAT
*
4168636 TTAGCATCCTTCAAAGGAATGAGTAAGATCGTCCCCTGAT
1 TTAGCATCCTTCAAAGGAATAAGTAAGATCGTCCCCTGAT
4168676 TTAGCATCC
1 TTAGCATCC
4168685 ATCAGAAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (40 bp):
TTAGCATCCTTCAAAGGAATAAGTAAGATCGTCCCCTGAT
Found at i:4169186 original size:32 final size:31
Alignment explanation
Indices: 4169126--4169234 Score: 116
Period size: 28 Copynumber: 3.4 Consensus size: 31
4169116 AATCTTATAG
4169126 TATATTATATA-ATA-TATAGTTTTT-AAAA
1 TATATTATATATATAGTATAGTTTTTAAAAA
4169154 TATATTATATATATATGTATAGTTTTTAAAAA
1 TATATTATATATATA-GTATAGTTTTTAAAAA
*
4169186 TATATATAGTATAATAGTAAGTATATTATTTTAAAATA
1 TATAT-TA-TAT-ATA-T-AGTATAGT-TTTTAAAA-A
4169224 TATATTATATA
1 TATATTATATA
4169235 GTAAAATATA
Statistics
Matches: 69, Mismatches: 1, Indels: 15
0.81 0.01 0.18
Matches are distributed among these distances:
28 11 0.16
29 3 0.04
31 10 0.14
32 9 0.13
33 2 0.03
34 3 0.04
35 4 0.06
36 10 0.14
37 11 0.16
38 6 0.09
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (31 bp):
TATATTATATATATAGTATAGTTTTTAAAAA
Found at i:4169210 original size:36 final size:32
Alignment explanation
Indices: 4169121--4169234 Score: 117
Period size: 36 Copynumber: 3.4 Consensus size: 32
4169111 GTTTTAATCT
*
4169121 TATAGTATAT-TATATAATATATAGTTTTTAAAA
1 TATA-TATATATATATAA-GTATAGTTTTTAAAA
*
4169154 TATAT-TATATATATATGTATAGTTTTTAAAAA
1 TATATATATATATATAAGTATAGTTTTT-AAAA
*
4169186 TATATATAGTATAATAGTAAGTATATTATTTTAAAA
1 TATATATA-TAT-ATA-TAAGTATAGT-TTTTAAAA
4169222 TATATAT-TATATA
1 TATATATATATATA
4169235 GTAAAATATA
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
31 13 0.19
32 16 0.23
33 9 0.13
34 6 0.09
35 3 0.04
36 19 0.27
37 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (32 bp):
TATATATATATATATAAGTATAGTTTTTAAAA
Found at i:4170767 original size:13 final size:13
Alignment explanation
Indices: 4170749--4170775 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4170739 TTTTGTAACA
4170749 TTTATTTTATTTT
1 TTTATTTTATTTT
4170762 TTTATTTTATTTT
1 TTTATTTTATTTT
4170775 T
1 T
4170776 ATGCTGATTT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:4173380 original size:20 final size:20
Alignment explanation
Indices: 4173355--4173399 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4173345 TTTTATTTCT
4173355 TTTAAAATAAAC-TATTATAA
1 TTTAAAATAAACATA-TATAA
* *
4173375 TTTAAACTAAGCATATATAA
1 TTTAAAATAAACATATATAA
4173395 TTTAA
1 TTTAA
4173400 TCAAAAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (20 bp):
TTTAAAATAAACATATATAA
Found at i:4177756 original size:59 final size:59
Alignment explanation
Indices: 4177476--4177903 Score: 302
Period size: 59 Copynumber: 7.3 Consensus size: 59
4177466 TTACCAAATG
* * * * *
4177476 GCACTATA-TGTGCTAAAATGATAAAGAAATCATACTGAGTGTATGAATTTCCATATGAA
1 GCACTA-AGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGGATTTCCAGATAAA
* * *
4177535 GCACTAAGTGTGCTAAAATGATAAGGAAATCCTACTAAGTGTATGGATTTCCATATGAA
1 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGGATTTCCAGATAAA
* * * * * **
4177594 GCACTGAGTGTGCTAAAATGATAAGGAAATCATATTGAA-TATATGAATTTCTAGATAGG
1 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACT-AAGTGTATGGATTTCCAGATAAA
** * * * *
4177653 GCGTTATA-TGTACTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAA
1 GCACTA-AGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGGATTTCCAGATAAA
* * * * * **
4177712 GCACTAAGGGTGCTACAAGGATAAGGAAATCATACTAA-TGGTATGGATTTTCACATAGG
1 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGT-GTATGGATTTCCAGATAAA
* * * ** * * **
4177771 GCATTTCA-TGTGCTAAAATGGTAACAAAATCCTACTAA-TGGTATGGATATTCGA-ATAGG
1 GCA-CTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGT-GTATGGAT-TTCCAGATAAA
** * * *
4177830 GCACTTTGTGTGCT-AAATGA-AATGGGAAGT-ATACTAAGTGTAT-GATCTTCCTGATAGA
1 GCACTAAGTGTGCTAAAATGATAA--GGAAATCATACTAAGTGTATGGAT-TTCCAGATAAA
*
4177888 GCACTAAGAGTGCTAA
1 GCACTAAGTGTGCTAA
4177904 TATTAAAAAG
Statistics
Matches: 289, Mismatches: 66, Indels: 28
0.75 0.17 0.07
Matches are distributed among these distances:
57 8 0.03
58 35 0.12
59 238 0.82
60 8 0.03
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (59 bp):
GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGGATTTCCAGATAAA
Found at i:4177831 original size:177 final size:177
Alignment explanation
Indices: 4177480--4177831 Score: 410
Period size: 177 Copynumber: 2.0 Consensus size: 177
4177470 CAAATGGCAC
* * * *
4177480 TATATGTGCTAAAATGATAAAGAAATCATACTGAGTGTATGAATTTCCATATGAAGCACTAAGTG
1 TATATGTACTAAAATGATAAAGAAATCATACTGAGTGTATGAATTTCCAGATAAAGCACTAAGGG
* * *
4177545 TGCTAAAATGATAAGGAAATCCTACTAAGTGTATGGATTTCCATATGAAGCACTGAGTGTGCTAA
66 TGCTAAAAGGATAAGGAAATCATACTAAGTGTATGGATTTCCATATGAAGCACTCAGTGTGCTAA
** * *
4177610 AATGATAAGGAAATCATATTGAATATATGAATTTCTAGATAGGGCGT
131 AATGATAACAAAATCATACTGAATATATGAATTTCGAGATAGGGCGT
* * * *
4177657 TATATGTACTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTAAGGG
1 TATATGTACTAAAATGATAAAGAAATCATACTGAGTGTATGAATTTCCAGATAAAGCACTAAGGG
* * *
4177722 TGCTACAAGGATAAGGAAATCATACTAA-TGGTATGGATTTTCACATA-G-GGCATTTCA-TGTG
66 TGCTAAAAGGATAAGGAAATCATACTAAGT-GTATGGA-TTTC-CATATGAAGCA-CTCAGTGTG
* * * *
4177783 CTAAAATGGTAACAAAATCCTACT-AATGGTATGGATATTCGA-ATAGGGC
127 CTAAAATGATAACAAAATCATACTGAAT-ATATGAAT-TTCGAGATAGGGC
4177832 ACTTTGTGTG
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
176 4 0.03
177 128 0.87
178 11 0.07
179 4 0.03
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.30
Consensus pattern (177 bp):
TATATGTACTAAAATGATAAAGAAATCATACTGAGTGTATGAATTTCCAGATAAAGCACTAAGGG
TGCTAAAAGGATAAGGAAATCATACTAAGTGTATGGATTTCCATATGAAGCACTCAGTGTGCTAA
AATGATAACAAAATCATACTGAATATATGAATTTCGAGATAGGGCGT
Found at i:4178655 original size:10 final size:10
Alignment explanation
Indices: 4178640--4178678 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
4178630 CATCGGTACG
4178640 CTGTTCATCA
1 CTGTTCATCA
*
4178650 CTGTTCATGGTA
1 CTGTTCAT--CA
4178662 CTGTTCATCA
1 CTGTTCATCA
4178672 CTGTTCA
1 CTGTTCA
4178679 CGACACTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 16 0.64
12 9 0.36
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (10 bp):
CTGTTCATCA
Found at i:4178686 original size:22 final size:22
Alignment explanation
Indices: 4178640--4178691 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
4178630 CATCGGTACG
* **
4178640 CTGTTCATCACTGTTCATGGTA
1 CTGTTCATCACTGTTCACGACA
4178662 CTGTTCATCACTGTTCACGACA
1 CTGTTCATCACTGTTCACGACA
4178684 CTGTTCAT
1 CTGTTCAT
4178692 ATCATATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.38
Consensus pattern (22 bp):
CTGTTCATCACTGTTCACGACA
Found at i:4179903 original size:28 final size:28
Alignment explanation
Indices: 4179871--4179927 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4179861 ATTATTCTGC
4179871 AGCTCATAGAGAAAAACCTTTTTGTCAG
1 AGCTCATAGAGAAAAACCTTTTTGTCAG
4179899 AGCTCATAGAGAAAAACCTTTTTGTCAG
1 AGCTCATAGAGAAAAACCTTTTTGTCAG
4179927 A
1 A
4179928 CGTGTGGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (28 bp):
AGCTCATAGAGAAAAACCTTTTTGTCAG
Found at i:4183088 original size:490 final size:489
Alignment explanation
Indices: 4182169--4183635 Score: 2657
Period size: 490 Copynumber: 3.0 Consensus size: 489
4182159 GAAGCTAGTC
*
4182169 GAAAATGAAGAAATTAAAAATTTTGAAATAAGGGATAATGGATGTTTATATTATCGAGGAAGACT
1 GAAAATGAAGAAATTAAAGATTTTGAAATAAGGGATAATGGATGTTTATATTATCGAGGAAGACT
4182234 TTGTATTCTTGAGGATGAGGAAAGAATTTTTTGCGAGGCGCATTACAGTCCGTTGACGATGCATC
66 TTGTATTCTTGAGGATGAGGAAAGAATTTTTTGCGAGGCGCATTACAGTCCGTTGACGATGCATC
*
4182299 CCGGTGGAAATAAGATGTATCAAGACTTAAAGAGTCGTTATTGGTGGCCGGGTATGAAAAGAGAT
131 CCGGTGGAAATAAGATGTATCAAGACTTAAAGAGTCGTTATTGGTGGCCGGGTATGAAAAGAGTT
*
4182364 GTAACAGAGTTTGTTGCCAAATGTTTGACATGTCAGCAAGTGAAAGTTGAACATCAAGTACCTTC
196 GTAACAGAGTTTGTTGCAAAATGTTTGACATGTCAGCAAGTGAAAGTTGAACATCAAGTACCTTC
4182429 TGGACTACTACAAACAATGTCTATTCCTGAATGGAAGTGGGAGCGAGTTACAATGGATTTTGTTT
261 TGGACTACTACAAACAATGTCTATTCCTGAATGGAAGTGGGAGCGAGTTACAATGGATTTTGTTT
*
4182494 CGGGGCTACCTTTGTCACCAGGTAAAAAGGACTCGATATGGGTAATTATAGATCGATTGATCAAA
326 CGGGGCTACCTTTGTCACCAGGTAAAAAGGACTCGATATGGGTAATTATAGATCGATTGACCAAA
*
4182559 ACAGCTTATTTTATTCCAGTTAGAGTAGATTACCCGATGGATAAGTATACTGAGATATTTATAAA
391 ACAGCTTATTTTATTCCAGTTAGAGTAGATTACCCGATGGATAAGTATGCTGAGATATTTATAAA
4182624 AGAAATAGTTAGATTGCATGGAGTGTCGATATCT
456 AGAAATAGTTAGATTGCATGGAGTGTCGATATCT
*
4182658 GAAAATGAAGAAATTAAAGATTTTGAAATAAGGGATAATGGATATTTATATTATCGAGGAAGACT
1 GAAAATGAAGAAATTAAAGATTTTGAAATAAGGGATAATGGATGTTTATATTATCGAGGAAGACT
*
4182723 TTGTATTCTTGAGGATGAGTAAAGAATTTTTTTGCGAGGCGCATTACAGTCCGTTGACGATGCAT
66 TTGTATTCTTGAGGATGAGGAAAGAA-TTTTTTGCGAGGCGCATTACAGTCCGTTGACGATGCAT
*
4182788 CCCGGTGGAAATAAGATGTATCAAGACTTAAAGAGTCGTTATAGGTGGCCGGGTATGAAAAGAGT
130 CCCGGTGGAAATAAGATGTATCAAGACTTAAAGAGTCGTTATTGGTGGCCGGGTATGAAAAGAGT
* * *
4182853 TATAATAGAGTTTATTGCAAAATGTTTGACATGTCAGCAAGTGAAAGTTGAACATCAAGTACCTT
195 TGTAACAGAGTTTGTTGCAAAATGTTTGACATGTCAGCAAGTGAAAGTTGAACATCAAGTACCTT
*
4182918 CTGGACTACTACAAACAATGTTTATTCCTGAATGGAAGTGGGAGCGAGTTACAATGGATTTTGTT
260 CTGGACTACTACAAACAATGTCTATTCCTGAATGGAAGTGGGAGCGAGTTACAATGGATTTTGTT
4182983 TCGGGGCTACCTTTGTCACCAGGTAAAAAGGACTCGATATGGGTAATTATAGATCGATTGACCAA
325 TCGGGGCTACCTTTGTCACCAGGTAAAAAGGACTCGATATGGGTAATTATAGATCGATTGACCAA
*
4183048 AACAGCTCATTTTATTCCAGTTAGAGTAGATTACCCGATGGATAAGTATGCTGAGATATTTATAA
390 AACAGCTTATTTTATTCCAGTTAGAGTAGATTACCCGATGGATAAGTATGCTGAGATATTTATAA
*
4183113 AAGAAATAGTTAGATTGCATGGAGTGCCGATATCT
455 AAGAAATAGTTAGATTGCATGGAGTGTCGATATCT
*
4183148 GAAAATGAAGAAATTAAAGATTTTGAAATAAGGGATAATTGATGTTTATATTATCGAGGAAGACT
1 GAAAATGAAGAAATTAAAGATTTTGAAATAAGGGATAATGGATGTTTATATTATCGAGGAAGACT
* * *
4183213 TTGTATTCTTGAGGATGAGGAAAGAAATTTTTTACGAGGCGTATTACAGTCTGTTGACGATGCAT
66 TTGTATTCTTGAGGATGAGGAAAG-AATTTTTTGCGAGGCGCATTACAGTCCGTTGACGATGCAT
* * *
4183278 CCCGGTGGAAATAAGATGTATCAAGGCTTAAAGAGTCGTTATTGGTGGTCGAGTATGAAAAGAGT
130 CCCGGTGGAAATAAGATGTATCAAGACTTAAAGAGTCGTTATTGGTGGCCGGGTATGAAAAGAGT
4183343 TGTAACAGAGTTTGTTGCAAAATGTTTGACATGTCAGCAAGTGAAAGTTGAACATCAAGTACCTT
195 TGTAACAGAGTTTGTTGCAAAATGTTTGACATGTCAGCAAGTGAAAGTTGAACATCAAGTACCTT
* *
4183408 TTGGACTACTACAAACAATGTCTATTCCTGAATGGAAGTGGGAGCGAGTTATAATGGATTTTGTT
260 CTGGACTACTACAAACAATGTCTATTCCTGAATGGAAGTGGGAGCGAGTTACAATGGATTTTGTT
* *
4183473 TCGAGGCTACCTTTGTCACTAGGTAAAAAGGACTCGATATGGGTAATTATAGATCGATTGACCAA
325 TCGGGGCTACCTTTGTCACCAGGTAAAAAGGACTCGATATGGGTAATTATAGATCGATTGACCAA
* *
4183538 AACAACTTATTTTATTCCAGTTAGAGTAGATTACCCAATGGAT-AGTATGCTGAGATATTTATAA
390 AACAGCTTATTTTATTCCAGTTAGAGTAGATTACCCGATGGATAAGTATGCTGAGATATTTATAA
*
4183602 AAGAAATAGTTAGATTGCAAGGAGTGTCGATATC
455 AAGAAATAGTTAGATTGCATGGAGTGTCGATATC
4183636 GATAGTGTCT
Statistics
Matches: 939, Mismatches: 37, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
489 141 0.15
490 796 0.85
491 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (489 bp):
GAAAATGAAGAAATTAAAGATTTTGAAATAAGGGATAATGGATGTTTATATTATCGAGGAAGACT
TTGTATTCTTGAGGATGAGGAAAGAATTTTTTGCGAGGCGCATTACAGTCCGTTGACGATGCATC
CCGGTGGAAATAAGATGTATCAAGACTTAAAGAGTCGTTATTGGTGGCCGGGTATGAAAAGAGTT
GTAACAGAGTTTGTTGCAAAATGTTTGACATGTCAGCAAGTGAAAGTTGAACATCAAGTACCTTC
TGGACTACTACAAACAATGTCTATTCCTGAATGGAAGTGGGAGCGAGTTACAATGGATTTTGTTT
CGGGGCTACCTTTGTCACCAGGTAAAAAGGACTCGATATGGGTAATTATAGATCGATTGACCAAA
ACAGCTTATTTTATTCCAGTTAGAGTAGATTACCCGATGGATAAGTATGCTGAGATATTTATAAA
AGAAATAGTTAGATTGCATGGAGTGTCGATATCT
Found at i:4185812 original size:59 final size:59
Alignment explanation
Indices: 4185740--4186010 Score: 289
Period size: 59 Copynumber: 4.6 Consensus size: 59
4185730 TTACCTAATG
*
4185740 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCATG-TGAA
1 GCACTAAATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCA-GATGAA
* * * *
4185799 GCACTAAATGTGCTAAAATGATAAGGAAATCCTACTAAGTGTATGGATTTCCATATGAA
1 GCACTAAATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAGATGAA
* * * * * * *
4185858 GTACTGAGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGAATTT-CAGAT-AGG
1 GCACTAAATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAGATGA-A
* * * * *
4185916 GCATTATATGTGCTAAAATGGTAAGGGAAA-CATACTGAGTGTATGGATTTCCAGATAAA
1 GCACTAAATGTGCTAAAATGATAA-GGAAATCATACTGAGTGTATGAATTTCCAGATGAA
* * * * *
4185975 GCACTAAAGGTGCTACAAGGACAAAGAAATCATACT
1 GCACTAAATGTGCTAAAATGATAAGGAAATCATACT
4186011 AATGGTATGG
Statistics
Matches: 171, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
57 1 0.01
58 42 0.25
59 127 0.74
60 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (59 bp):
GCACTAAATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAGATGAA
Found at i:4185891 original size:118 final size:117
Alignment explanation
Indices: 4185748--4185968 Score: 304
Period size: 117 Copynumber: 1.9 Consensus size: 117
4185738 TGGCACTATA
* *
4185748 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCATG-T-GAAGCACTAAATGTG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATATATGAATTT-CA-GATAG-AGCACTAAATGTG
*
4185811 CTAAAATGATAA-GGAAATCCTACTAAGTGTATGGATTTCCATATGAAGTACTGAG
63 CTAAAATGATAAGGGAAA-CATACTAAGTGTATGGATTTCCATATGAAGTACTGAG
* * * *
4185866 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGAATTTCAGATAGGGCATTATATGTGCTA
1 TGTGCTAAAATGATAAGGAAATCATACTGAATATATGAATTTCAGATAGAGCACTAAATGTGCTA
* *
4185931 AAATGGTAAGGGAAACATACTGAGTGTATGGATTTCCA
66 AAATGATAAGGGAAACATACTAAGTGTATGGATTTCCA
4185969 GATAAAGCAC
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
116 1 0.01
117 45 0.49
118 45 0.49
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (117 bp):
TGTGCTAAAATGATAAGGAAATCATACTGAATATATGAATTTCAGATAGAGCACTAAATGTGCTA
AAATGATAAGGGAAACATACTAAGTGTATGGATTTCCATATGAAGTACTGAG
Found at i:4186004 original size:117 final size:118
Alignment explanation
Indices: 4185806--4186081 Score: 303
Period size: 117 Copynumber: 2.3 Consensus size: 118
4185796 GAAGCACTAA
* * * * * *
4185806 ATGTGCTAAAATGATAAGGAAATCCTACTAAGTGTATGGATTTCCATATGAAGTACTGAGTGTGC
1 ATGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGGATTTCCAGATAAAGCACTAAGTGTGC
* * * * *
4185871 TAAAATGATAAGGAAATCATATTGAAT-ATAT-GAATTTCAGATAGGGCATTAT-
66 TAAAAGGACAAAGAAATCATACT-AATGATATGGAATTTCACATAGGGCATT-TC
*
4185923 ATGTGCTAAAATGGTAAGGGAAA-CATACTGAGTGTATGGATTTCCAGATAAAGCACTAAAG-GT
1 ATGTGCTAAAATGGTAA-GGAAATCATACTAAGTGTATGGATTTCCAGATAAAGCACT-AAGTGT
* * *
4185986 GCTACAAGGACAAAGAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTC
64 GCTAAAAGGACAAAGAAATCATACTAATGATATGGAATTTCACATAGGGCATTTC
** *
4186041 ATGTGCTAAAATGGTAACAAAATCCTACTAA-TGGTATGGAT
1 ATGTGCTAAAATGGTAAGGAAATCATACTAAGT-GTATGGAT
4186082 ATTCGAATAG
Statistics
Matches: 133, Mismatches: 19, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
116 3 0.02
117 75 0.56
118 55 0.41
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (118 bp):
ATGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGGATTTCCAGATAAAGCACTAAGTGTGC
TAAAAGGACAAAGAAATCATACTAATGATATGGAATTTCACATAGGGCATTTC
Found at i:4186047 original size:59 final size:59
Alignment explanation
Indices: 4186001--4186112 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
4185991 AAGGACAAAG
* *
4186001 AAATCATACTAATGGTATGGATTTTC-ACATAGGGCATTTCATGTGCTAAAATGGTAACA
1 AAATCATACTAATGGTATGGATATTCGA-ATAGGGCATTTCATGTGCTAAAATGGTAAAA
* *
4186060 AAATCCTACTAATGGTATGGATATTCGAATAGGGCACTTT-GTGTGCTAAAATG
1 AAATCATACTAATGGTATGGATATTCGAATAGGGCA-TTTCATGTGCTAAAATG
4186113 AAAGGGGAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
59 44 0.92
60 4 0.08
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (59 bp):
AAATCATACTAATGGTATGGATATTCGAATAGGGCATTTCATGTGCTAAAATGGTAAAA
Found at i:4186048 original size:176 final size:176
Alignment explanation
Indices: 4185739--4186155 Score: 408
Period size: 176 Copynumber: 2.4 Consensus size: 176
4185729 ATTACCTAAT
* * *
4185739 GGCACTATATGTGCTAAAATGATAA-GGAAATCATACTGAGTGTATGAATTTCCATG-TGAAGCA
1 GGCATTATATGTGCTAAAATGGTAAGGGAAA-CATACTGAGTGTATGGATTTCCA-GAT-AAGCA
* * * * * * *
4185802 CTAAATGTGCTAAAATGATAAGGAAATCCTACTAAGTGTATGGATTTCCATATGAAGTACTGAGT
63 CTAAAGGTGCTAAAAGGACAAAGAAATCATACTAAGTGTATGGATTTCCATAGGAAGTACTCAGT
** *
4185867 GTGCTAAAATGATAAGGAAATCATATTGAAT-ATATGAAT-TTC-AGATAG
128 GTGCTAAAATGATAACAAAATCATACT-AATGATATGAATATTCGA-ATAG
4185915 GGCATTATATGTGCTAAAATGGTAAGGGAAACATACTGAGTGTATGGATTTCCAGATAAAGCACT
1 GGCATTATATGTGCTAAAATGGTAAGGGAAACATACTGAGTGTATGGATTTCCAGAT-AAGCACT
* * *
4185980 AAAGGTGCTACAAGGACAAAGAAATCATACTAA-TGGTATGGATTTTCACATAGG--GCATTTCA
65 AAAGGTGCTAAAAGGACAAAGAAATCATACTAAGT-GTATGGA-TTTC-CATAGGAAGTA-CTCA
* * * *
4186042 -TGTGCTAAAATGGTAACAAAATCCTACTAATGGTATGGATATTCGAATAG
126 GTGTGCTAAAATGATAACAAAATCATACTAATGATATGAATATTCGAATAG
* * ** *
4186092 GGCACTT-TGTGTGCTAAAAT-GAAAGGGGAAGTATACTAAGTGTAT-GATCTTCCAGATAAGCA
1 GGCA-TTATATGTGCTAAAATGGTAA-GGGAAACATACTGAGTGTATGGAT-TTCCAGATAAGCA
4186154 CT
63 CT
4186156 GAGAGTGCTA
Statistics
Matches: 203, Mismatches: 26, Indels: 24
0.80 0.10 0.09
Matches are distributed among these distances:
175 5 0.02
176 131 0.65
177 59 0.29
178 8 0.04
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (176 bp):
GGCATTATATGTGCTAAAATGGTAAGGGAAACATACTGAGTGTATGGATTTCCAGATAAGCACTA
AAGGTGCTAAAAGGACAAAGAAATCATACTAAGTGTATGGATTTCCATAGGAAGTACTCAGTGTG
CTAAAATGATAACAAAATCATACTAATGATATGAATATTCGAATAG
Found at i:4186734 original size:22 final size:22
Alignment explanation
Indices: 4186708--4186760 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
4186698 GTTCATGGAC
4186708 CTGTTCATAAATATTCACGGTA
1 CTGTTCATAAATATTCACGGTA
* * * *
4186730 TTGTTCATCACTTTTCACGGTA
1 CTGTTCATAAATATTCACGGTA
4186752 CTGTTCATA
1 CTGTTCATA
4186761 TCGTATAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (22 bp):
CTGTTCATAAATATTCACGGTA
Found at i:4187128 original size:11 final size:11
Alignment explanation
Indices: 4187104--4187137 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4187094 TTAGTGCTGG
4187104 AAACAAGATAA
1 AAACAAGATAA
* *
4187115 AAATAAGATTA
1 AAACAAGATAA
4187126 AAACAAGATAA
1 AAACAAGATAA
4187137 A
1 A
4187138 GGAATTGCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.15
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:4197801 original size:84 final size:84
Alignment explanation
Indices: 4197657--4197812 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 84
4197647 TTTAGATAGG
* * * * * *
4197657 CTAGAGAGGTGTGTGAGCTTCGAGATGTAGCCCCTCAATCATACCATGATGCTTGCCCTTGT-TC
1 CTAGAGAGGTGTATGAGCTTCGAGATATAGCCCCTCAACCACACCATGATGCCTACCCTTGTCT-
4197721 GTGTGTTTGATATAGGTAGA
65 GTGTGTTTGATATAGGTAGA
* *
4197741 CTAGAGGGGTGTATGAGCTTCGAGATATAGCCCCTCAACCACACCATGATGCCTATCCTTGTCTG
1 CTAGAGAGGTGTATGAGCTTCGAGATATAGCCCCTCAACCACACCATGATGCCTACCCTTGTCTG
4197806 TGTGTTT
66 TGTGTTT
4197813 TATGTTTTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 62 0.98
85 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (84 bp):
CTAGAGAGGTGTATGAGCTTCGAGATATAGCCCCTCAACCACACCATGATGCCTACCCTTGTCTG
TGTGTTTGATATAGGTAGA
Found at i:4202252 original size:8 final size:8
Alignment explanation
Indices: 4202212--4202236 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4202202 AATTTTTTGT
4202212 ATTTTAAA
1 ATTTTAAA
4202220 ATTTTAAA
1 ATTTTAAA
4202228 ATTTTAAA
1 ATTTTAAA
4202236 A
1 A
4202237 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:4205310 original size:2 final size:2
Alignment explanation
Indices: 4205305--4205331 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4205295 TTAAGTATTA
4205305 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4205332 ATAAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4208647 original size:38 final size:38
Alignment explanation
Indices: 4208596--4208671 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
4208586 AGCCATCTGA
*
4208596 AACTGTCAAATTGAGACACGGTACCAAAAAACTTCAAG
1 AACTGTCAAATTGAGACACGGTACCAAAAAACCTCAAG
* *
4208634 AACTGTCAAATTGAGACATGGTACCAAACAACCTCAAG
1 AACTGTCAAATTGAGACACGGTACCAAAAAACCTCAAG
4208672 CACTAGCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.18
Consensus pattern (38 bp):
AACTGTCAAATTGAGACACGGTACCAAAAAACCTCAAG
Found at i:4210148 original size:2 final size:2
Alignment explanation
Indices: 4210116--4210275 Score: 97
Period size: 2 Copynumber: 87.5 Consensus size: 2
4210106 TACGGGATAC
*
4210116 TA TA -A TA TA -A TA TA -A TA TA T- TA TA GTG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
4210155 TA TA TA TA TA TA GTA TA -A TA T- TA TA T- TA TA TA T- TA TA T-
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4210193 TA TA TA T- TA TA TA T- TA T- TT TA GTA T- TA TA TA TT TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
4210231 TA T- TA TA T- TA TC TA TA TA T- TA GTA TC TA TT TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
4210270 T- TA TA T
1 TA TA TA T
4210276 TATTATTAAT
Statistics
Matches: 124, Mismatches: 11, Indels: 46
0.69 0.06 0.25
Matches are distributed among these distances:
1 19 0.15
2 98 0.79
3 7 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4210224 original size:32 final size:33
Alignment explanation
Indices: 4210153--4210282 Score: 131
Period size: 32 Copynumber: 3.8 Consensus size: 33
4210143 TATATATATA
* * *
4210153 TATATATATATATAGTATAATATTATATTA-TA-
1 TATATAT-TATATATTATATTATTATTTTAGTAT
4210185 TATTATATTATATATTATA-TATTATTTTAGTAT
1 TA-TATATTATATATTATATTATTATTTTAGTAT
4210218 TATATATTTATTATATTATATTATCTATATATTAGTAT
1 TATATA-TTA-TATATTATATTAT-TAT-T-TTAGTAT
*
4210256 CTATTTATTATATATTATATTATTATT
1 -TATATATTATATATTATATTATTATT
4210283 AATATTATTT
Statistics
Matches: 85, Mismatches: 3, Indels: 17
0.81 0.03 0.16
Matches are distributed among these distances:
31 9 0.11
32 18 0.21
33 10 0.12
34 9 0.11
35 4 0.05
36 6 0.07
37 14 0.16
38 10 0.12
39 5 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (33 bp):
TATATATTATATATTATATTATTATTTTAGTAT
Found at i:4210234 original size:53 final size:53
Alignment explanation
Indices: 4210142--4210290 Score: 144
Period size: 53 Copynumber: 2.7 Consensus size: 53
4210132 ATATTATAGT
* *
4210142 GTATATATATATATATATATATATAGTATAATATTATATTATA-TAT-TATATTATATA
1 GTATATATTTAT-TATATAT-TATA-T-TATTATTATATTATATTATCTATA-TAT-TA
* *
4210199 TTATATA-TTATTTTAGTATTATA-TATTTATTATATTATATTATCTATATATTA
1 GTATATATTTATTATA-TATTATATTA-TTATTATATTATATTATCTATATATTA
*
4210252 GTATCTATTTATTATATATTATATTATTATTAATATTAT
1 GTATATATTTATTATATATTATATTATTATT-ATATTAT
4210291 TTTTCGGTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
52 2 0.03
53 31 0.40
54 22 0.28
55 11 0.14
56 6 0.08
57 6 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (53 bp):
GTATATATTTATTATATATTATATTATTATTATATTATATTATCTATATATTA
Found at i:4210236 original size:5 final size:5
Alignment explanation
Indices: 4210116--4210290 Score: 99
Period size: 5 Copynumber: 32.6 Consensus size: 5
4210106 TACGGGATAC
* * *
4210116 TATAA TATAA TATAA TATAT TATAGT GTATA- TATAT ATATAT ATATAT
1 TATAT TATAT TATAT TATAT TATA-T -TATAT TATAT -TATAT -TATAT
* *
4210164 ATAGTAT AATAT TATATT ATATAT TATAT TATA- TAT-T ATATAT TATTT
1 -TA-TAT TATAT TATA-T -TATAT TATAT TATAT TATAT -TATAT TATAT
* *
4210212 TAGTAT TATAT ATTTAT TATAT TATAT TATCT ATATAT TAGTAT CTAT-T
1 TA-TAT TATAT -TATAT TATAT TATAT TATAT -TATAT TA-TAT -TATAT
4210261 TAT-T ATATAT TATAT TATTAT TAATAT TAT
1 TATAT -TATAT TATAT TA-TAT T-ATAT TAT
4210291 TTTTCGGTTT
Statistics
Matches: 142, Mismatches: 9, Indels: 38
0.75 0.05 0.20
Matches are distributed among these distances:
4 11 0.08
5 73 0.51
6 44 0.31
7 14 0.10
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:4210988 original size:18 final size:18
Alignment explanation
Indices: 4210956--4211108 Score: 128
Period size: 18 Copynumber: 8.8 Consensus size: 18
4210946 GGGTACTATA
4210956 ATATA-ATATATTATAGT
1 ATATATATATATTATAGT
*
4210973 ATATATATATAATATAGT
1 ATATATATATATTATAGT
*
4210991 ATA-ATATTATAGTATAGT
1 ATATATA-TATATTATAGT
* *
4211009 ATATTTATATATTATATT
1 ATATATATATATTATAGT
4211027 ATATAT-TATTATTATAGT
1 ATATATATA-TATTATAGT
*
4211045 AT-TATATATATT-TATT
1 ATATATATATATTATAGT
4211061 ATAT-TATATTATCTATA-T
1 ATATATATA-TAT-TATAGT
* *
4211079 AT-TAGTATCTATT-TATT
1 ATATA-TATATATTATAGT
4211096 ATATAT-TATATTA
1 ATATATATATATTA
4211109 AATTATTATT
Statistics
Matches: 112, Mismatches: 10, Indels: 28
0.75 0.07 0.19
Matches are distributed among these distances:
16 16 0.14
17 27 0.24
18 62 0.55
19 7 0.06
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (18 bp):
ATATATATATATTATAGT
Found at i:4211024 original size:5 final size:5
Alignment explanation
Indices: 4210952--4211126 Score: 107
Period size: 5 Copynumber: 34.6 Consensus size: 5
4210942 GTACGGGTAC
* * * * * *
4210952 TATAA TATAA TATAT TATAG TATAT ATATAT AATA- TAGTAT AATAT TATAG
1 TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TA-TAT TATAT TATAT
*
4211003 TATAG TATAT T-TA- TATAT TATAT TATA- TATTAT TAT-T ATAGTAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT -TA-TAT
*
4211047 TATA- TATAT T-TAT TATAT TATAT TATCT ATATAT TAGTAT CTAT-T
1 TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TA-TAT -TATAT
*
4211092 TAT-T ATATAT TATAT TAAAT TATTAT TAATAT TAT
1 TATAT -TATAT TATAT TATAT TA-TAT T-ATAT TAT
4211127 TTTTTGGTTT
Statistics
Matches: 138, Mismatches: 13, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
3 1 0.01
4 20 0.14
5 86 0.62
6 27 0.20
7 4 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:4211117 original size:23 final size:23
Alignment explanation
Indices: 4210956--4211126 Score: 124
Period size: 23 Copynumber: 7.4 Consensus size: 23
4210946 GGGTACTATA
* *
4210956 ATATAATATATTATAGTA-TATAT
1 ATATATTATATTATATTATTAT-T
* * *
4210979 ATATAATATAGTATAATATTA-T
1 ATATATTATATTATATTATTATT
*
4211001 AGTATAGTATATT-TATATATTATATT
1 A-TATATTATATTATAT-TA-T-TATT
*
4211027 ATATATTATTATTATAGTATTA-T
1 ATATATTA-TATTATATTATTATT
4211050 ATATATT-TATTATATTA-TATT
1 ATATATTATATTATATTATTATT
*
4211071 ATCTA-TATATTAGTATCTATTTATT
1 ATATATTATATTA-TAT-TA-TTATT
*
4211096 ATATATTATATTAAATTATTATT
1 ATATATTATATTATATTATTATT
4211119 A-ATATTAT
1 ATATATTAT
4211127 TTTTTGGTTT
Statistics
Matches: 122, Mismatches: 11, Indels: 31
0.74 0.07 0.19
Matches are distributed among these distances:
20 3 0.02
21 19 0.16
22 14 0.11
23 43 0.35
24 7 0.06
25 19 0.16
26 15 0.12
27 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (23 bp):
ATATATTATATTATATTATTATT
Found at i:4211490 original size:836 final size:818
Alignment explanation
Indices: 4209841--4212608 Score: 3646
Period size: 836 Copynumber: 3.4 Consensus size: 818
4209831 TATATTAATA
*
4209841 AAAAATCTGATAAAATTAGACTTTTAAATTTAAATAACCTTTAACCCAATAACCCAACTAGCCTA
1 AAAAATCTGATAAAATTAGACTTTTAAATTTAAATAACCTCTAACCCAATAACCCAACTAGCCTA
* *
4209906 CCCTAGCTTAAAATGCCTTAACCATTAGTTTGACTTTCGAATAATTCATGGCTAATATTTTCGTT
66 CCCTAGCTTAAAATGCCTTAACCATTAGATTGACTTTCGGATAATTCATGGCTAATATTTTCGTT
*
4209971 TTTTAAG--TA-T----A---TTA-C-AAACTTTAACATGGA-CTAAGATTTGAATACACAATCC
131 TTTGAAGTATATTACAGATCTTTATCAAAACTTTAACAT-GACCTAAGATTTGAATACACAATCC
* * *
4210023 AAAAATAAG-ATAAGGTAACCAAAGAATGAATTAACGAGATGCATCAACCATCCTTTCATTATTT
195 AAACATAAGTTTAAGGTAACCAAAGAATGAATTAATGAGATGCATCAA-C--CCTTTCATTATTT
* *
4210087 CTATAGACACCCATTTTCGTACGGGATACTATAATATAATATAATATAT-TATAGTGTATATATA
257 CTGTAGACACCCATTTTCGTACGGGATACTATAATATAATATAATATATATATA-TATATA-ATA
4210151 TA-TATATATATATATAGTATAATATTATATTATATATTATATTATATATTATATATTATTTTAG
320 TAGTATA-ATAT-TATAGTAT-ATA-TAT-TTATATATTATATTATATATTAT-TATTA--TTA-
4210215 TATTATATATTTATTATATTATATTATCTATATATTAGTATCTATTTATTATATATTA-TATTAT
376 TA-TATATATTTATTATATTATATTATCTATATATTAGTATCTATTTATTATATATTATTATTAT
*
4210279 TATTAATATTATTTTTCGGTTTTATCTTTAGGTCCAAGGAGTCAAAAAATTCAAATTTCAGGTCC
440 TATTAATATTATTTTTCGGTTTTATCTTTAGGTCCAAGGAGTCAAAAAATTCAAAGTTCAGGTCC
* * * *
4210344 AACAATGAAGCCCAACCGAGCCTGTAAGTCTGACCCAGCAAGCAAACCTGGTGGGAGCCCAGCAA
505 AACATTGAAGCCCAACCAAGCCTGCAAGTCTGACCCAGCAAGCAAACCTGGT-GGAGCCCAGTAA
* * * * * *
4210409 AGGAAACCCAATAGCATGACCTAGCATATTAGGGTTCTAATGTTTTAGCAAGGGCGTCGTATCAA
569 AGG-AAGCCAATAGCCTGACCCAGTAGATTAGGGTTCTAATGTTTTAGCAAGGGCGTCGCATCAA
* * * *
4210474 CCAGGATCGTTGGATC-AGACATTTCGATCCAACAACCGAAAGCACATCAGGTCACTATTTTAAC
633 CCAGGATCGTTGGATCAAG-CATTTCGATCCAACGACCGAAAACAAATCAGGTCACCATTTTAAC
* * *
4210538 GGCGCGTGGATGCCAAGCGCCAGCAAGGCCACCAACCGGCCAGGATTTCCGGAGCGAAACAGAAG
697 GGCGCGTGGATGCCACGCGCCAGCAAGGTCACCAACCGGCCAGGATTTCCGGAGCGAAACAGAAT
** *
4210603 CAAAAGGGGAAATATTCCCACGCTTTTTCGGTCAACATGGAGACGAAGTACAAACGTGC
762 CAAAAGGGGAAATATTCCC-CATTTTTTCGGTCAACAT-GAGACAAAGTACAAACGTGC
*
4210662 AAAAATCTGATAAAATTAGACTTTTAAATTTAAATAACCTTTAACCCAATAACCCGTTAACCCAA
1 AAAAATCTGATAAAATTAGACTTTTAAATTTAAATAACCTCTAACCC---AA-----TAACCCAA
* *
4210727 CTGGCCTACCCTAGCTTAAAATACCTTAACCATT-GATTGACTTTCGGATAATTCATGGCTAATA
58 CTAGCCTACCCTAGCTTAAAATGCCTTAACCATTAGATTGACTTTCGGATAATTCATGGCTAATA
* *
4210791 TTTTCATTTTTGAAGTATATTACAGA-CTTTATCAAAACGTTAACATGACCTAAGATTTGAATAC
123 TTTTCGTTTTTGAAGTATATTACAGATCTTTATCAAAACTTTAACATGACCTAAGATTTGAATAC
4210855 ACAATCCAAACATAAGTTTAAGGTAACCAAAGAATGAATTAATGAGATGCATCAACCCTTTCATT
188 ACAATCCAAACATAAGTTTAAGGTAACCAAAGAATGAATTAATGAGATGCATCAACCCTTTCATT
*
4210920 ATTTCTGTAGACACCCATTTTCGTACGGG-TACTATAATATAATATATTATAGTATATATATATA
253 ATTTCTGTAGACACCCATTTTCGTACGGGATACTATAATATAATATAATATA-TATATATATATA
4210984 ATATAGTATAATATTATAGTATAGTATATTTATATATTATATTATATATTATTATTATAGTATTA
317 ATATAGTATAATATTATAGTATA-TATATTTATATATTATATTATATATTATTATTAT--TA-TA
4211049 TATATATTTATTATATTATATTATCTATATATTAGTATCTATTTATTATATATTATATTAAATTA
378 TATATATTTATTATATTATATTATCTATATATTAGTATCTATTTATTATATA-T-TATT--ATTA
* *
4211114 TTATTAATATTATTTTTTGGTTTTATCTTTAGGTCCAATGAGTCAAAAAATTCAAAGTTCAGGTC
439 TTATTAATATTATTTTTCGGTTTTATCTTTAGGTCCAAGGAGTCAAAAAATTCAAAGTTCAGGTC
* * *
4211179 CAACATTGAAACCCAACCAAGCCTGCAAGTCTGACCCAGCAAGCAAACTTGGTAGGAGCCTAGTA
504 CAACATTGAAGCCCAACCAAGCCTGCAAGTCTGACCCAGCAAGCAAACCTGGT-GGAGCCCAGTA
* *
4211244 AAAGAAGCACAATAGCCTGACCCAGTAGATTAGGGTTCTAATGTTTTAGCAAGGGCGTTGCATCA
568 AAGGAAGC-CAATAGCCTGACCCAGTAGATTAGGGTTCTAATGTTTTAGCAAGGGCGTCGCATCA
* * *
4211309 ACCAGGATCGTTGGATCAAGTATTTCGATCCAATGACCGAAAACATATCAGGTCACCATTTTAAC
632 ACCAGGATCGTTGGATCAAGCATTTCGATCCAACGACCGAAAACAAATCAGGTCACCATTTTAAC
* * * * * *
4211374 GGCGCGTGGATGCCACGCGCCAGTAAGGTTACCAACCGGTCAGGATTTCCAGAGTGAAACATAAT
697 GGCGCGTGGATGCCACGCGCCAGCAAGGTCACCAACCGGCCAGGATTTCCGGAGCGAAACAGAAT
* *
4211439 CAAAAGGGGAAATATTCCCTTATTTTTTCGGTCAACATGATGACAAAGTACAAACGTCC
762 CAAAAGGGGAAATATTCCC-CATTTTTTCGGTCAACATGA-GACAAAGTACAAACGTGC
**
4211498 AAAAATCTGATAAAATTAGACTTTTAAATTTAAATAACCTCTAACCCAATAACCCAACGGGCCTA
1 AAAAATCTGATAAAATTAGACTTTTAAATTTAAATAACCTCTAACCCAATAACCCAACTAGCCTA
*
4211563 CCCTAGCTTAAAATGCCTTAACCATTAGATTGACTTTTGGATAATTCATGTG-TAATATTTTCGT
66 CCCTAGCTTAAAATGCCTTAACCATTAGATTGACTTTCGGATAATTCATG-GCTAATATTTTCGT
*
4211627 TTTTTAAGTATATTACAGAATTCTTTATCAAAACTTTAACATGACCTAAGATTTGAATACACAAT
130 TTTTGAAGTATATTACAG-A-TCTTTATCAAAACTTTAACATGACCTAAGATTTGAATACACAAT
*
4211692 CCAAACATAAGTTTAAGGTAACCAAAGAATGAATTAATGAGATGCATCAACCATCCTTCATTA-T
193 CCAAACATAAGTTTAAGGTAACCAAAGAATGAATTAATGAGATGCATCAACC--CTTTCATTATT
4211756 TCT-TAGACACCCA-TTTCGTACGAGG-TAC-ATAATATAATATAATATATAT-TATATATATAT
256 TCTGTAGACACCCATTTTCGTACG-GGATACTATAATATAATATAATATATATATATATATA-AT
4211816 ATAGTATAATATTATAGTAT-TATA--T-TATA-T-TATTAT-TA-TATTATTATTAT-TATATA
319 ATAGTATAATATTATAGTATATATATTTATATATTATATTATATATTATTATTATTATATATATA
*
4211872 --TATTATATTCTATTAT-TATAT-TTA-TA--TA--TA-TAT-TATTATTA--A-TA-T--TAT
384 TTTATTATATTATATTATCTATATATTAGTATCTATTTATTATATATTATTATTATTATTAATAT
* * * *
4211920 T-TTTTTCAGTTTTATCTTTAGGTCCAAGGAGTCAAAAAAATTCAAAGTTTATGTCCAACATCGA
449 TATTTTTCGGTTTTATCTTTAGGTCCAAGGAGTC-AAAAAATTCAAAGTTCAGGTCCAACATTGA
*
4211984 AGCCCAACCAAGCCTGCAAGTCTGACCCAGCAAGCAAACCCGGTGGAAGCCCA-TCAAAGGAAGC
513 AGCCCAACCAAGCCTGCAAGTCTGACCCAGCAAGCAAACCTGGTGG-AGCCCAGT-AAAGGAAGC
* *
4212048 CTAAGAGCCTGACCCAGTAGATTAGGGTTCTAATGTTTTAGCAAGGGCGTCGCATCAACCAAGAT
576 C-AATAGCCTGACCCAGTAGATTAGGGTTCTAATGTTTTAGCAAGGGCGTCGCATCAACCAGGAT
* *
4212113 CG-TGGATCAAACATTTCGATCCAACGACCGAAAACAAATCAGGTCACCATTTTAA-GGTGCGTG
640 CGTTGGATCAAGCATTTCGATCCAACGACCGAAAACAAATCAGGTCACCATTTTAACGGCGCGTG
*
4212176 GATGCCACGCGCCAGCAAGGTCACCAACCGGCCAGGATTTCCGGAGCGAAACAGATTCAAAA-GG
705 GATGCCACGCGCCAGCAAGGTCACCAACCGGCCAGGATTTCCGGAGCGAAACAGAATCAAAAGGG
* * * * *
4212240 GAAATATTCCCCAGTTTTTTCGATCAACATGACAACAATGTAAAAACGTGT
770 GAAATATTCCCCA-TTTTTTCGGTCAACATGA-GACAAAGTACAAACGTGC
*
4212291 AAAAA--TGATAAAATTATACTTTTAAATTTAAATAACCTCTAACCCAATAACCCATTAACCCAA
1 AAAAATCTGATAAAATTAGACTTTTAAATTTAAATAACCTCTAACCC----A---A-TAACCCAA
* * *
4212354 CTAGACTACCCTAGCTTAAAATGCCTTAACCATTATATTGACTTTCAGATAATTCATGGCTAATA
58 CTAGCCTACCCTAGCTTAAAATGCCTTAACCATTAGATTGACTTTCGGATAATTCATGGCTAATA
*
4212419 TTTTCGTTTTTGAAGTATATTACAGACTTCTTTATCAAAACTTGAACATGACCTAAGATTTG-A-
123 TTTTCGTTTTTGAAGTATATTACAGA--TCTTTATCAAAACTTTAACATGACCTAAGATTTGAAT
* *
4212482 ACACAATCCAAACTTAAGTTTAAGGTAACCAAAGAATGAATTAAT--GA-GC--C-ATCCTTTCA
186 ACACAATCCAAACATAAGTTTAAGGTAACCAAAGAATGAATTAATGAGATGCATCAACCCTTTCA
** * * * * *
4212541 TGGTTTCTGTAGAAACCTATTTTCGTATGGGATAGTATAGTAT-ATAT-ATATATATATAT-TAT
251 TTATTTCTGTAGACACCCATTTTCGTACGGGATACTATAATATAATATAATATATATATATATAT
4212603 AATATA
316 AATATA
4212609 ATTGTAATAC
Statistics
Matches: 1765, Mismatches: 117, Indels: 161
0.86 0.06 0.08
Matches are distributed among these distances:
789 6 0.00
790 9 0.01
791 63 0.04
792 19 0.01
793 54 0.03
794 64 0.04
795 85 0.05
796 147 0.08
797 44 0.02
798 5 0.00
799 125 0.07
800 1 0.00
802 1 0.00
804 4 0.00
805 1 0.00
806 2 0.00
807 3 0.00
808 2 0.00
810 2 0.00
812 2 0.00
813 3 0.00
814 5 0.00
815 15 0.01
817 6 0.00
818 1 0.00
819 2 0.00
821 56 0.03
822 2 0.00
823 6 0.00
824 3 0.00
825 4 0.00
826 1 0.00
828 85 0.05
829 98 0.06
830 30 0.02
831 79 0.04
832 119 0.07
833 31 0.02
834 13 0.01
835 16 0.01
836 414 0.23
837 52 0.03
838 7 0.00
839 42 0.02
840 36 0.02
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (818 bp):
AAAAATCTGATAAAATTAGACTTTTAAATTTAAATAACCTCTAACCCAATAACCCAACTAGCCTA
CCCTAGCTTAAAATGCCTTAACCATTAGATTGACTTTCGGATAATTCATGGCTAATATTTTCGTT
TTTGAAGTATATTACAGATCTTTATCAAAACTTTAACATGACCTAAGATTTGAATACACAATCCA
AACATAAGTTTAAGGTAACCAAAGAATGAATTAATGAGATGCATCAACCCTTTCATTATTTCTGT
AGACACCCATTTTCGTACGGGATACTATAATATAATATAATATATATATATATATAATATAGTAT
AATATTATAGTATATATATTTATATATTATATTATATATTATTATTATTATATATATATTTATTA
TATTATATTATCTATATATTAGTATCTATTTATTATATATTATTATTATTATTAATATTATTTTT
CGGTTTTATCTTTAGGTCCAAGGAGTCAAAAAATTCAAAGTTCAGGTCCAACATTGAAGCCCAAC
CAAGCCTGCAAGTCTGACCCAGCAAGCAAACCTGGTGGAGCCCAGTAAAGGAAGCCAATAGCCTG
ACCCAGTAGATTAGGGTTCTAATGTTTTAGCAAGGGCGTCGCATCAACCAGGATCGTTGGATCAA
GCATTTCGATCCAACGACCGAAAACAAATCAGGTCACCATTTTAACGGCGCGTGGATGCCACGCG
CCAGCAAGGTCACCAACCGGCCAGGATTTCCGGAGCGAAACAGAATCAAAAGGGGAAATATTCCC
CATTTTTTCGGTCAACATGAGACAAAGTACAAACGTGC
Found at i:4211804 original size:2 final size:2
Alignment explanation
Indices: 4211787--4211904 Score: 74
Period size: 2 Copynumber: 67.0 Consensus size: 2
4211777 GAGGTACATA
4211787 AT AT A- AT AT A- AT AT AT AT -T AT AT AT AT AT AT AGT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
4211826 AT -T AT AGT AT -T AT AT -T AT AT -T AT -T AT -T AT AT -T AT -T
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
4211861 AT -T AT -T AT AT AT AT -T AT AT -T CT AT -T AT -T AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4211897 AT AT AT AT
1 AT AT AT AT
4211905 TATTATTAAT
Statistics
Matches: 93, Mismatches: 3, Indels: 40
0.68 0.02 0.29
Matches are distributed among these distances:
1 18 0.19
2 71 0.76
3 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (2 bp):
AT
Found at i:4211818 original size:8 final size:8
Alignment explanation
Indices: 4211787--4211904 Score: 74
Period size: 7 Copynumber: 16.8 Consensus size: 8
4211777 GAGGTACATA
4211787 ATATA-AT
1 ATATATAT
4211794 ATA-ATAT
1 ATATATAT
4211801 ATAT-TAT
1 ATATATAT
4211808 ATATATAT
1 ATATATAT
4211816 ATAGTATA-
1 ATA-TATAT
4211824 ATAT-TAT
1 ATATATAT
4211831 AGTAT-TAT
1 A-TATATAT
4211839 AT-TATAT
1 ATATATAT
4211846 -TAT-TAT
1 ATATATAT
4211852 -TATAT-T
1 ATATATAT
4211858 AT-TAT-T
1 ATATATAT
4211864 AT-TATAT
1 ATATATAT
4211871 ATAT-TAT
1 ATATATAT
*
4211878 AT-TCTAT
1 ATATATAT
4211885 -TAT-TAT
1 ATATATAT
*
4211891 ATTTATAT
1 ATATATAT
4211899 ATATAT
1 ATATAT
4211905 TATTATTAAT
Statistics
Matches: 93, Mismatches: 2, Indels: 31
0.74 0.02 0.25
Matches are distributed among these distances:
6 26 0.28
7 38 0.41
8 25 0.27
9 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (8 bp):
ATATATAT
Found at i:4211841 original size:5 final size:5
Alignment explanation
Indices: 4211787--4211919 Score: 87
Period size: 5 Copynumber: 25.4 Consensus size: 5
4211777 GAGGTACATA
* * *
4211787 ATATA ATATA ATA-T ATATT ATATAT ATATAT AGTATA ATATT ATA--
1 ATATT ATATT ATATT ATATT ATAT-T ATAT-T A-TATT ATATT ATATT
*
4211832 GTATT ATATT ATATT ATTATT ATATT ATTATT ATTATAT ATATT ATATT
1 ATATT ATATT ATATT A-TATT ATATT A-TATT A-TAT-T ATATT ATATT
*
4211881 CTA-T -TATT ATATTT ATATAT ATATT ATTATT AATATT AT
1 ATATT ATATT ATA-TT ATAT-T ATATT A-TATT -ATATT AT
4211920 TTTTTTCAGT
Statistics
Matches: 108, Mismatches: 6, Indels: 28
0.76 0.04 0.20
Matches are distributed among these distances:
3 4 0.04
4 5 0.05
5 49 0.45
6 44 0.41
7 6 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:4211851 original size:3 final size:3
Alignment explanation
Indices: 4211833--4211920 Score: 73
Period size: 3 Copynumber: 30.3 Consensus size: 3
4211823 AATATTATAG
4211833 TAT TA- TAT TA- TAT TAT TAT TA- TAT TAT TAT TAT TA- TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
4211875 TA- TAT T-C TAT TAT TA- TATT TAT ATAT ATAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT -TAT -TAT TAT TAT TAT TAT TAT
4211920 T
1 T
4211921 TTTTTCAGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
2 13 0.18
3 46 0.65
4 12 0.17
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4211920 original size:57 final size:59
Alignment explanation
Indices: 4211795--4211920 Score: 163
Period size: 60 Copynumber: 2.2 Consensus size: 59
4211785 TAATATAATA
4211795 TAATA-TA-TATTATATATATATATAGTATAATATTATAGTATTATATTATATTATTAT
1 TAATATTATTATTATATATATATATAGTATAATATTATAGTATTATATTATATTATTAT
* * *
4211852 T-ATATTATTATTATTATATATATTATATTCTATTATTATA-T-TTATATATATATTATTAT
1 TAATATTATTATTA-TATATATA-TATAGTATAATATTATAGTATTATAT-TATATTATTAT
4211911 TAATATTATT
1 TAATATTATT
4211921 TTTTTCAGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
56 3 0.05
57 3 0.05
58 11 0.18
59 21 0.35
60 22 0.37
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (59 bp):
TAATATTATTATTATATATATATATAGTATAATATTATAGTATTATATTATATTATTAT
Found at i:4213440 original size:20 final size:20
Alignment explanation
Indices: 4213415--4213467 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
4213405 TGATTCAATC
**
4213415 GGTATCGATACCAAAGGGGT
1 GGTATCGATACCAAAGGAAT
*
4213435 GGTATCGATACCGAAGGAAT
1 GGTATCGATACCAAAGGAAT
4213455 GGTATCGATACCA
1 GGTATCGATACCA
4213468 TTTCAAAGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (20 bp):
GGTATCGATACCAAAGGAAT
Found at i:4214111 original size:165 final size:166
Alignment explanation
Indices: 4213839--4214170 Score: 648
Period size: 165 Copynumber: 2.0 Consensus size: 166
4213829 TTGAGATGAA
4213839 GAAGATTTATACTGAATTAAATTAGAATGTTTAAATTAATATATGTTCTATATTATTGACTACAT
1 GAAGATTTATACTGAATTAAATTAGAATGTTTAAATTAATATATGTTCTATATTATTGACTACAT
4213904 TATTTATTATATGTATGCAAAGAGTATTATGAATGAGTTTTAGAGTATGAACTACTCTAGAACGA
66 TATTTATTATATGTATGCAAAGAGTATTATGAATGAGTTTTAGAGTATGAACTACTCTAGAACGA
4213969 AGAAATAAAAG-ATAATGCATATGAGTGCATTTTTG
131 AGAAATAAAAGAATAATGCATATGAGTGCATTTTTG
*
4214004 GAAGATTTATACTGAATTAAATTAGAATGTTTAAATTAATATATTTTCTATATTATTGACTACAT
1 GAAGATTTATACTGAATTAAATTAGAATGTTTAAATTAATATATGTTCTATATTATTGACTACAT
4214069 TATTTATTATATGTATGCAAAGAGTATTATGAATGAGTTTTAGAGTATGAACTACTCTAGAACGA
66 TATTTATTATATGTATGCAAAGAGTATTATGAATGAGTTTTAGAGTATGAACTACTCTAGAACGA
4214134 AGAAATAAAAGAATAATGCATATGAGTGCATTTTTG
131 AGAAATAAAAGAATAATGCATATGAGTGCATTTTTG
4214170 G
1 G
4214171 CATGAAAAGA
Statistics
Matches: 165, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
165 140 0.85
166 25 0.15
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (166 bp):
GAAGATTTATACTGAATTAAATTAGAATGTTTAAATTAATATATGTTCTATATTATTGACTACAT
TATTTATTATATGTATGCAAAGAGTATTATGAATGAGTTTTAGAGTATGAACTACTCTAGAACGA
AGAAATAAAAGAATAATGCATATGAGTGCATTTTTG
Found at i:4214216 original size:45 final size:45
Alignment explanation
Indices: 4214148--4214270 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 45
4214138 ATAAAAGAAT
* *
4214148 AATGCATATGAGTGCATTTTTGGCATGAAAAGATGACATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAAGATGACATAGCTGA
* * *
4214193 AATGCATATGGGTGCATTGTTGGCACGAAAAGGATGTCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAA-GATGACATAGCTGA
* *
4214239 AATGTATATGGGTGCATTATCGGCAT-AAAAGA
1 AATGCATATGGGTGCATTATTGGCATGAAAAGA
4214271 ATAATGCATA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 2 0.03
45 32 0.46
46 35 0.51
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTGGCATGAAAAGATGACATAGCTGA
Found at i:4214287 original size:34 final size:34
Alignment explanation
Indices: 4214239--4214303 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
4214229 TCATAGCTGA
*
4214239 AATGTATATGGGTGCATTATCGGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
* *
4214273 AATGCATATGGGTGCATTATTGGCATGAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAG
4214304 GATGCCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGGCATAAAAGAAT
Found at i:4219896 original size:31 final size:31
Alignment explanation
Indices: 4219824--4219899 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
4219814 TGGGGCCTAC
* * * *
4219824 GAGCCTACCCAAGAAAATTCTTAAGGCCACG
1 GAGCCTACCTAAGAAAAATCTCAAGGCCACA
* *
4219855 GAGGCCTACCTAAGAAAAATCTCAGGGTCACA
1 GA-GCCTACCTAAGAAAAATCTCAAGGCCACA
4219887 GAGCCTACCTAAG
1 GAGCCTACCTAAG
4219900 GGTCGCCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 13 0.34
32 25 0.66
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (31 bp):
GAGCCTACCTAAGAAAAATCTCAAGGCCACA
Found at i:4220077 original size:24 final size:23
Alignment explanation
Indices: 4220041--4220111 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
4220031 AACAGAATTA
*
4220041 AGAAATCAGAACAGAACTCAGATC
1 AGAAATCATAACAGAA-TCAGATC
* * * *
4220065 AGATATTATAACAGAATCAAGCTT
1 AGAAATCATAACAGAATC-AGATC
4220089 AGAAATCATAACAGAAATCAGAT
1 AGAAATCATAACAG-AATCAGAT
4220112 AAAATATTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 2 0.05
24 31 0.84
25 4 0.11
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (23 bp):
AGAAATCATAACAGAATCAGATC
Found at i:4221625 original size:13 final size:13
Alignment explanation
Indices: 4221593--4221626 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4221583 CGGCTTGGCT
*
4221593 CGACTCAGTTCAG
1 CGACTCGGTTCAG
4221606 CGACTCGGTTCAG
1 CGACTCGGTTCAG
*
4221619 CGGCTCGG
1 CGACTCGG
4221627 ACCGGTCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.32, G:0.32, T:0.21
Consensus pattern (13 bp):
CGACTCGGTTCAG
Found at i:4223683 original size:31 final size:32
Alignment explanation
Indices: 4223619--4223686 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
4223609 GTGAGCTTAT
* *
4223619 CCAAGAAAATTCTCAGGGCCACGGAGGCCTAC
1 CCAAGAAAAATCTCAGGGCCACAGAGGCCTAC
4223651 CCAAGAAAAATCTCAGGGCCACAGA-GCCTAC
1 CCAAGAAAAATCTCAGGGCCACAGAGGCCTAC
4223682 CCAAG
1 CCAAG
4223687 GGACGCCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 11 0.32
32 23 0.68
ACGTcount: A:0.35, C:0.32, G:0.22, T:0.10
Consensus pattern (32 bp):
CCAAGAAAAATCTCAGGGCCACAGAGGCCTAC
Found at i:4223859 original size:24 final size:24
Alignment explanation
Indices: 4223825--4223886 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
4223815 CAATAAACAG
* *
4223825 AAATCATAACAAAATTCAGATCAT
1 AAATCAGAACAAAATCCAGATCAT
* *
4223849 ATATCAGAACAAAATCCAGCTCAT
1 AAATCAGAACAAAATCCAGATCAT
4223873 AAATCAGAACAAAA
1 AAATCAGAACAAAA
4223887 AATAGATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (24 bp):
AAATCAGAACAAAATCCAGATCAT
Found at i:4238391 original size:2 final size:2
Alignment explanation
Indices: 4238384--4238413 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4238374 TTGATTAATT
4238384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4238414 ATAATAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4239672 original size:12 final size:12
Alignment explanation
Indices: 4239655--4239680 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4239645 TGCCTTAAAA
4239655 TTAATAAACAAG
1 TTAATAAACAAG
4239667 TTAATAAACAAG
1 TTAATAAACAAG
4239679 TT
1 TT
4239681 GGTTATTTAT
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:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (12 bp):
TTAATAAACAAG
Found at i:4242827 original size:14 final size:14
Alignment explanation
Indices: 4242810--4242845 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4242800 AAAAAATAGA
4242810 AAATTAAAGTAA-TG
1 AAATTAAAG-AACTG
4242824 AAATTAAAGAACTG
1 AAATTAAAGAACTG
4242838 AAATTAAA
1 AAATTAAA
4242846 TAAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.25
Consensus pattern (14 bp):
AAATTAAAGAACTG
Found at i:4242886 original size:26 final size:25
Alignment explanation
Indices: 4242843--4242904 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
4242833 AACTGAAATT
* *
4242843 AAAT-AAATAAAATATAAATGACATA
1 AAATAAAATATAATATAAAGGA-ATA
* * *
4242868 AATTAAAATATAATGTAAAGGATTA
1 AAATAAAATATAATATAAAGGAATA
4242893 AAATAAAATATA
1 AAATAAAATATA
4242905 TCAGAATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 16 0.53
26 14 0.47
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (25 bp):
AAATAAAATATAATATAAAGGAATA
Found at i:4243629 original size:5 final size:5
Alignment explanation
Indices: 4243619--4243644 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4243609 TTTTATTTCG
4243619 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
4243645 CAAAGCTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:4248931 original size:135 final size:136
Alignment explanation
Indices: 4248576--4248980 Score: 587
Period size: 136 Copynumber: 3.0 Consensus size: 136
4248566 TTGAACAATT
* * *
4248576 TCTTCTCATTATGAACTTTTTCTCCTTCTGTCAGATTAGTTCTTCTCATTATGAACTCTCCACTG
1 TCTTCTCATTATGAACTTCTTCTCCTTCTATCAGATGAGTTCTTCTCATTATGAACTCTCCACTG
* *
4248641 TAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTTGTGAATCTTGTGATAGGTCGA
66 GAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTTGTGAATCTAGTGATAGGTCGA
*
4248706 ACAAGC
131 ACAAAC
* * * *
4248712 TCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTCTTCTCATTATGAACTCTTCATTT
1 TCTTCTCATTATGAACTTCTTCTCCTTCTATCAGATGAGTTCTTCTCATTATGAACTCTCCACTG
* * * * * *
4248777 GAAATGTTAATACCTCAAGCGAGGCGTCACTAATTCAAAATGTTGTCAATCGAGTGATAGGTCGA
66 GAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTTGTGAATCTAGTGATAGGTCGA
4248842 ACAAAC
131 ACAAAC
* * * * * * * *
4248848 TC-TCTCATTATGAACTTCTTCACTTTCTTTCGGATGAGTTATTCTTATTATAAACTATCCACTG
1 TCTTCTCATTATGAACTTCTTCTCCTTCTATCAGATGAGTTCTTCTCATTATGAACTCTCCACTG
4248912 GAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTTGTGAATCTAGTGATAGGTCGA
66 GAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTTGTGAATCTAGTGATAGGTCGA
4248977 ACAA
131 ACAA
4248981 GATGTAATAC
Statistics
Matches: 235, Mismatches: 34, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
135 113 0.48
136 122 0.52
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (136 bp):
TCTTCTCATTATGAACTTCTTCTCCTTCTATCAGATGAGTTCTTCTCATTATGAACTCTCCACTG
GAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTTGTGAATCTAGTGATAGGTCGA
ACAAAC
Found at i:4250725 original size:40 final size:40
Alignment explanation
Indices: 4250670--4250870 Score: 368
Period size: 40 Copynumber: 5.0 Consensus size: 40
4250660 TGCAGGTTTA
4250670 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4250710 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4250750 TAATACACTTCGGTGTATCTGGT-GGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4250789 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4250829 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4250869 TA
1 TA
4250871 GCACTACGGT
Statistics
Matches: 157, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 37 0.24
40 120 0.76
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:4250804 original size:79 final size:80
Alignment explanation
Indices: 4250670--4250870 Score: 368
Period size: 79 Copynumber: 2.5 Consensus size: 80
4250660 TGCAGGTTTA
4250670 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
4250735 GCACGACCTTATGTG
66 GCACGACCTTATGTG
* *
4250750 TAATACACTTCGGTGTATCTGGT-GGCACGACCTTATGTGTAATACACTTTGGTGTATATGGTGG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
4250814 GCACGACCTTATGTG
66 GCACGACCTTATGTG
*
4250829 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTGTA
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTA
4250871 GCACTACGGT
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
79 76 0.66
80 40 0.34
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (80 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
GCACGACCTTATGTG
Found at i:4251425 original size:30 final size:30
Alignment explanation
Indices: 4251391--4251451 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4251381 TGTTGAAATT
*
4251391 ACTGTAGCTGTTACTATAGCATATCGATGC
1 ACTGTAGCAGTTACTATAGCATATCGATGC
* *
4251421 ACTGTAGCAGTTACTGTAGCGTATCGATGC
1 ACTGTAGCAGTTACTATAGCATATCGATGC
4251451 A
1 A
4251452 TAATATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (30 bp):
ACTGTAGCAGTTACTATAGCATATCGATGC
Found at i:4251574 original size:22 final size:23
Alignment explanation
Indices: 4251526--4251574 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
4251516 TTGTTAACTG
* * *
4251526 TTCACAGGTACTGTTTATCATTG
1 TTCACAGGTACTGTTCATCACTA
*
4251549 TTCAC-GGTACTGTTCATCGCTA
1 TTCACAGGTACTGTTCATCACTA
4251571 TTCA
1 TTCA
4251575 TAAAAAAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.41
Consensus pattern (23 bp):
TTCACAGGTACTGTTCATCACTA
Found at i:4252428 original size:36 final size:36
Alignment explanation
Indices: 4252380--4252683 Score: 237
Period size: 36 Copynumber: 8.7 Consensus size: 36
4252370 AAAATTTATA
* *
4252380 TTTCAAGGGAAACTTTCTCAGGAGAGACAAAATTTG
1 TTTCAAGAGAAACTTTCTCAAGAGAGACAAAATTTG
* * *
4252416 TTTCAAGAGAAACTGTCAC-A-AGAGAC-AACTTTG
1 TTTCAAGAGAAACTTTCTCAAGAGAGACAAAATTTG
* * *
4252449 TTTCCAGAGAAACTGTCTCAAGGGAGACAAAATTTG
1 TTTCAAGAGAAACTTTCTCAAGAGAGACAAAATTTG
* ** *
4252485 TTTCAAGGGAAACAGAT-TC-A-A-AG----ATTTTG
1 TTTCAAGAGAAAC-TTTCTCAAGAGAGACAAAATTTG
* *
4252514 TCTTTCAAGAGAAA-TTGTCTCAAGAGA-ACGAAATTGG
1 --TTTCAAGAGAAACTT-TCTCAAGAGAGACAAAATTTG
* *
4252551 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAGAAACTTTCTCAAGAGAGACAAAA-TTTG
* *
4252588 TTTCAAGGGAAAC-TGCATCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTTTC-TCAAGAGAGACAAAATTTG
*
4252624 TTTCAATAGAAA-TTGTCTCAAGAGAGA-AAAATTTG
1 TTTCAAGAGAAACTT-TCTCAAGAGAGACAAAATTTG
*
4252659 TTTCAAGAGAAAATGTT-TCAAGAGA
1 TTTCAAGAGAAACT-TTCTCAAGAGA
4252684 AACTATCTCA
Statistics
Matches: 215, Mismatches: 30, Indels: 47
0.74 0.10 0.16
Matches are distributed among these distances:
29 5 0.02
30 1 0.00
31 13 0.06
32 1 0.00
33 26 0.12
34 8 0.04
35 54 0.25
36 69 0.32
37 38 0.18
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
TTTCAAGAGAAACTTTCTCAAGAGAGACAAAATTTG
Found at i:4252572 original size:102 final size:101
Alignment explanation
Indices: 4252416--4252600 Score: 282
Period size: 102 Copynumber: 1.8 Consensus size: 101
4252406 ACAAAATTTG
* * * *
4252416 TTTCAAGAGAAACTGTCACAAGAGACAACTTTGTTTCCAGAGAAACTGTCTCAAGGGAGACAAAA
1 TTTCAAGAGAAACTGTCACAAGAGACAAATTGGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
4252481 -TTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTC
66 CTTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTC
* * *
4252516 TTTCAAGAGAAATTGTCTCAAGAGAACGAAATTGGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTTCAAGAGAAACTGTCACAAGAG-AC-AAATTGGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
4252581 AACTTTGTTTCAAGGGAAAC
64 AACTTTGTTTCAAGGGAAAC
4252601 TGCATCAAGA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 22 0.29
101 2 0.03
102 34 0.45
103 17 0.23
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (101 bp):
TTTCAAGAGAAACTGTCACAAGAGACAAATTGGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
CTTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTC
Found at i:4252591 original size:37 final size:36
Alignment explanation
Indices: 4252516--4252683 Score: 216
Period size: 35 Copynumber: 4.7 Consensus size: 36
4252506 AGATTTTGTC
* * *
4252516 TTTCAAGAGAAATTGTCTCAAGAGA-ACGAAATTGG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
*
4252551 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTG
*
4252588 TTTCAAGGGAAACTG-CATCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTC-TCAAGAGAGACAAAATTTG
* *
4252624 TTTCAATAGAAATTGTCTCAAGAGAGA-AAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* *
4252659 TTTCAAGAGAAAATGTTTCAAGAGA
1 TTTCAAGAGAAACTGTCTCAAGAGA
4252684 AACTATCTCA
Statistics
Matches: 119, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
35 53 0.45
36 32 0.27
37 34 0.29
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
Found at i:4252676 original size:50 final size:52
Alignment explanation
Indices: 4252622--4252718 Score: 135
Period size: 50 Copynumber: 1.9 Consensus size: 52
4252612 AGACAAAATT
* * *
4252622 TGTTTCAATAGAAATTGTCTCAAGAGAGA-AAA-ATTTGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGATAAATATTTGTTTCAAGAGAAAA
* *
4252672 TGTTTCAAGAGAAACTATCTCAATAGAGATAAATCTTTGTTTCAAGA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGATAAATATTTGTTTCAAGA
4252719 AAACTATCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 25 0.62
51 3 0.08
52 12 0.30
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGATAAATATTTGTTTCAAGAGAAAA
Found at i:4252677 original size:15 final size:15
Alignment explanation
Indices: 4252657--4252685 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4252647 GAGAAAAATT
4252657 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
4252672 TGTTTCAAGAGAAA
1 TGTTTCAAGAGAAA
4252686 CTATCTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:4252686 original size:86 final size:87
Alignment explanation
Indices: 4252586--4252751 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 87
4252576 GACAAAACTT
* * * *
4252586 TGTTTCAAGGGAAACT-GCATCAAGAGAGACAAA-ATTTGTTTCAATAGAAATTGTCTCAAGAGA
1 TGTTTCAAGAGAAACTAGC-TCAAGAGAGACAAATATTTGTTTCAAGA-AAACTATCTCAAGAGA
*
4252649 GA-AAAATTTGTTTCAAGAGAAAA
64 GACAAAATTTATTTCAAGAGAAAA
* * * * *
4252672 TGTTTCAAGAGAAACTATCTCAATAGAGATAAATCTTTGTTTCAAGAAAACTATCTCAAGGGAGA
1 TGTTTCAAGAGAAACTAGCTCAAGAGAGACAAATATTTGTTTCAAGAAAACTATCTCAAGAGAGA
4252737 CAAAATTTATTTCAA
66 CAAAATTTATTTCAA
4252752 AAGAGACAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
86 42 0.63
87 25 0.37
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (87 bp):
TGTTTCAAGAGAAACTAGCTCAAGAGAGACAAATATTTGTTTCAAGAAAACTATCTCAAGAGAGA
CAAAATTTATTTCAAGAGAAAA
Found at i:4252750 original size:35 final size:37
Alignment explanation
Indices: 4252674--4252751 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 37
4252664 AGAGAAAATG
* * * *
4252674 TTTCAAGAGAAACTATCTCAATAGAGATAAATCTTTG
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAATATTTA
*
4252711 TTTCAAGA-AAACTATCTCAAGGGAGACAAA-ATTTA
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAATATTTA
4252746 TTTCAA
1 TTTCAA
4252752 AAGAGACAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 9 0.25
36 19 0.53
37 8 0.22
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (37 bp):
TTTCAAGAGAAACTATCTCAAGAGAGACAAATATTTA
Found at i:4253000 original size:86 final size:86
Alignment explanation
Indices: 4252887--4253365 Score: 687
Period size: 86 Copynumber: 5.6 Consensus size: 86
4252877 CAAGTAAAGA
* * * * **
4252887 AAATGTTG-AAATATCCTTCCCGAAGGTCTTATGGATGGCCCGAATGACTTAAGCTGATTCAAAG
1 AAATGTTGAAAACATCCTGCTCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTTGAAG
4252951 TGTTGTGAATCGAGCAATAGG
66 TGTTGTGAATCGAGCAATAGG
*
4252972 AAATGTTGAAAACATCCTGCTCGAAGGTCTAATGGATGGCCCGAAGGACTTAAGCTGATTTGAAG
1 AAATGTTGAAAACATCCTGCTCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTTGAAG
*
4253037 TGTTGTGAATCGAGCAATATG
66 TGTTGTGAATCGAGCAATAGG
* * *
4253058 AAATATTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTAAACTGATTTGAAG
1 AAATGTTGAAAACATCCTGCTCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTTGAAG
4253123 TGTTGTGAATCGAGCAATAGG
66 TGTTGTGAATCGAGCAATAGG
* * *
4253144 AAATGTTAAAAACATTCTGCTCAAAGGTCTTA-GGATGGCCCGAAGGACTTAAGCTGATTTGAAG
1 AAATGTTGAAAACATCCTGCTCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTTGAAG
4253208 TGTTGTGAATCGAGCAATAGG
66 TGTTGTGAATCGAGCAATAGG
* * * * * * * *
4253229 AAATATTAAAAATATCTTGCTCGAACGTCTTATGGATGGCCCGAAGAACTTAAGCTGATTCGATG
1 AAATGTTGAAAACATCCTGCTCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTTGAAG
4253294 TGTTGTGAATCGAGCAA-AGG
66 TGTTGTGAATCGAGCAATAGG
* * * *
4253314 AAATGTTGAAAACATCATTC-CAGAAGGTCTTATAGATGGCCCAAAGGACTTA
1 AAATGTTGAAAACATCCTGCTC-GAAGGTCTTATGGATGGCCCGAAGGACTTA
4253366 TCATCTTGCT
Statistics
Matches: 354, Mismatches: 37, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
84 1 0.00
85 130 0.37
86 223 0.63
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (86 bp):
AAATGTTGAAAACATCCTGCTCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTTGAAG
TGTTGTGAATCGAGCAATAGG
Found at i:4253273 original size:171 final size:172
Alignment explanation
Indices: 4252899--4253365 Score: 708
Period size: 171 Copynumber: 2.7 Consensus size: 172
4252889 ATGTTGAAAT
* * *
4252899 ATCCTTCCCGAAGGTCTTATGGATGGCCCGAATGACTTAAGCTGATTCAAAGTGTTGTGAATCGA
1 ATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTCGAAGTGTTGTGAATCGA
* * *
4252964 GCAATAGGAAATGTTGAAAACATCCTGCTCGAAGGTCTAATGGATGGCCCGAAGGACTTAAGCTG
66 GCAATAGGAAATGTTGAAAACATTCTGCTCAAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTG
* *
4253029 ATTTGAAGTGTTGTGAATCGAGCAATATGAAATATTGAAAAC
131 ATTTGAAGTGTTGTGAATCGAGCAATAGGAAATATTAAAAAC
* *
4253071 ATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTAAACTGATTTGAAGTGTTGTGAATCGA
1 ATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTCGAAGTGTTGTGAATCGA
*
4253136 GCAATAGGAAATGTTAAAAACATTCTGCTCAAAGGTCTTA-GGATGGCCCGAAGGACTTAAGCTG
66 GCAATAGGAAATGTTGAAAACATTCTGCTCAAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTG
*
4253200 ATTTGAAGTGTTGTGAATCGAGCAATAGGAAATATTAAAAAT
131 ATTTGAAGTGTTGTGAATCGAGCAATAGGAAATATTAAAAAC
* * * * *
4253242 ATCTTGCTCGAACGTCTTATGGATGGCCCGAAGAACTTAAGCTGATTCGATGTGTTGTGAATCGA
1 ATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTCGAAGTGTTGTGAATCGA
* * *
4253307 GCAA-AGGAAATGTTGAAAACA-TCATTC-CAGAAGGTCTTATAGATGGCCCAAAGGACTTA
66 GCAATAGGAAATGTTGAAAACATTC-TGCTCA-AAGGTCTTATGGATGGCCCGAAGGACTTA
4253366 TCATCTTGCT
Statistics
Matches: 269, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
169 4 0.01
170 27 0.10
171 142 0.53
172 96 0.36
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (172 bp):
ATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTGATTCGAAGTGTTGTGAATCGA
GCAATAGGAAATGTTGAAAACATTCTGCTCAAAGGTCTTATGGATGGCCCGAAGGACTTAAGCTG
ATTTGAAGTGTTGTGAATCGAGCAATAGGAAATATTAAAAAC
Found at i:4253455 original size:42 final size:41
Alignment explanation
Indices: 4253346--4253455 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 41
4253336 GAAGGTCTTA
* * *
4253346 TAGATGGCCCAAAGGACTTATCATCTTGCTCGAATGACTTC
1 TAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTC
* * * *
4253387 TAGATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTAC
1 TAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTT-C
*
4253430 T-GATGGCTCGAAGGACTTACTCATCA
1 TAGATGGCCCGAAGGACTTA-TCATCA
4253456 AGAAACCCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
41 17 0.31
42 36 0.65
43 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
TAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTC
Found at i:4253718 original size:54 final size:53
Alignment explanation
Indices: 4253659--4253800 Score: 178
Period size: 55 Copynumber: 2.6 Consensus size: 53
4253649 TTGAGAAAAA
* * *
4253659 TCAAGAAACTTTAAAAAATCAGACTTAGTTTCTTTAAAATTCATTTGAAAATC-
1 TCAAGAAACTTT-AAAAATCAGACTTAGTTTCTTAAAAACTAATTTGAAAATCG
* *
4253712 TCCAAGAAACTTCTGAAAATCAGACTTAGTTACCTTAAAAACTAATTTGAAAATCG
1 T-CAAGAAACTT-TAAAAATCAGACTTAGTT-TCTTAAAAACTAATTTGAAAATCG
*
4253768 TCAAGAAACTTTCAAAAATCGGACTTAGTTTCT
1 TCAAGAAACTTT-AAAAATCAGACTTAGTTTCT
4253801 AACAAAACAC
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
53 1 0.01
54 29 0.38
55 45 0.59
56 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (53 bp):
TCAAGAAACTTTAAAAATCAGACTTAGTTTCTTAAAAACTAATTTGAAAATCG
Found at i:4255116 original size:28 final size:28
Alignment explanation
Indices: 4255048--4255129 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
4255038 TTAGGATGTC
* *
4255048 TTGGGAAGGTAATGTGTTTTATGTTAAT
1 TTGGGAAGGTAATGTGTTTCAGGTTAAT
* **
4255076 TTGAGAAAATAATGTGTTTCAGGTTAAT
1 TTGGGAAGGTAATGTGTTTCAGGTTAAT
*
4255104 TTGGGGAGGTAATGTGTTTCAGGTTA
1 TTGGGAAGGTAATGTGTTTCAGGTTA
4255130 GCTTTTTGCG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.41
Consensus pattern (28 bp):
TTGGGAAGGTAATGTGTTTCAGGTTAAT
Found at i:4255863 original size:20 final size:21
Alignment explanation
Indices: 4255825--4255875 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
4255815 TATAGATGCT
*
4255825 AATGCAAAGATGCAAAAATGGG
1 AATGCAAA-ATGCAAAAATGGA
*
4255847 AATGCAAAATG-AAAAATGTA
1 AATGCAAAATGCAAAAATGGA
4255867 AATGCAAAA
1 AATGCAAAA
4255876 AAAAAATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 16 0.59
21 3 0.11
22 8 0.30
ACGTcount: A:0.57, C:0.08, G:0.20, T:0.16
Consensus pattern (21 bp):
AATGCAAAATGCAAAAATGGA
Done.