Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 58 of 64
Found at i:11773409 original size:21 final size:21
Alignment explanation
Indices: 11773376--11773439 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
11773366 AACACATTGA
*
11773376 ATAT-TAAAAAATATTTAAAT
1 ATATGTAAACAATATTTAAAT
11773396 ATATGTAAACAATATTTAAAT
1 ATATGTAAACAATATTTAAAT
11773417 ATATGTAAACAATATTTAAAT
1 ATATGTAAACAATATTTAAAT
11773438 AT
1 AT
11773440 TAAGTAATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
20 4 0.10
21 38 0.90
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (21 bp):
ATATGTAAACAATATTTAAAT
Found at i:11773475 original size:9 final size:10
Alignment explanation
Indices: 11773375--11773436 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
11773365 AAACACATTG
*
11773375 AATATTAAAA
1 AATATTTAAA
11773385 AATATTTAAA
1 AATATTTAAA
* *
11773395 TATATGTAAA
1 AATATTTAAA
11773405 CAATATTTAAA
1 -AATATTTAAA
* *
11773416 TATATGTAAA
1 AATATTTAAA
11773426 CAATATTTAAA
1 -AATATTTAAA
11773437 TATTAAGTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
10 25 0.61
11 16 0.39
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (10 bp):
AATATTTAAA
Found at i:11776171 original size:143 final size:138
Alignment explanation
Indices: 11775893--11776175 Score: 478
Period size: 143 Copynumber: 2.0 Consensus size: 138
11775883 CAGCAACTTC
11775893 TTGCTTAGTTTTAGTTGAAGAACAGAGGAGAATTTGTGAGAAGTGTGTTGGAGAAATGAAAAAAC
1 TTGCTTAGTTTTAGTTGAAGAACAGAGGAGAATTTGTGAGAAGTGTGTTGGAGAAATGAAAAAAC
11775958 TGGGCCATCACCTAATGTTTACACCTATACGATTATGATGAACTTTTATTGCAAAGGATATCATG
66 TGGGCCATCACCTAATGTTTACACC-ATACGATTATGATGAACTTTTATTGCAAAGGATATCATG
11776023 GGAGGGGTG
130 GGAGGGGTG
*
11776032 TTGCTTAAGTGTTTAGTTGAAGAAAACAGAGGAGAATTTGTGAGAAGTTTGTTTGGAGAAATGAA
1 TTGCTT-AGT-TTTAGTTGAAG--AACAGAGGAGAATTTGTGAGAAGTGTG-TTGGAGAAATGAA
*
11776097 AAACTCTGGGCCATCACCTAATGTTTACACC-TACGATTATGATGAACTTTTATTGCAAAGGATA
61 AAA-ACTGGGCCATCACCTAATGTTTACACCATACGATTATGATGAACTTTTATTGCAAAGGATA
11776161 TCATGGGAGGGGTG
125 TCATGGGAGGGGTG
11776175 T
1 T
11776176 AGACATCGAA
Statistics
Matches: 136, Mismatches: 2, Indels: 8
0.93 0.01 0.05
Matches are distributed among these distances:
139 6 0.04
140 3 0.02
141 11 0.08
143 74 0.54
144 16 0.12
145 26 0.19
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (138 bp):
TTGCTTAGTTTTAGTTGAAGAACAGAGGAGAATTTGTGAGAAGTGTGTTGGAGAAATGAAAAAAC
TGGGCCATCACCTAATGTTTACACCATACGATTATGATGAACTTTTATTGCAAAGGATATCATGG
GAGGGGTG
Found at i:11781753 original size:33 final size:33
Alignment explanation
Indices: 11781711--11781778 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
11781701 TCTCTTTGAT
11781711 TCCTTCAAATATGGAAATAAAAATTTTAAAGTG
1 TCCTTCAAATATGGAAATAAAAATTTTAAAGTG
11781744 TCCTTCAAATATGGAAATAAAAATTTTAAAGTG
1 TCCTTCAAATATGGAAATAAAAATTTTAAAGTG
11781777 TC
1 TC
11781779 GTTCGGACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (33 bp):
TCCTTCAAATATGGAAATAAAAATTTTAAAGTG
Found at i:11787217 original size:9 final size:11
Alignment explanation
Indices: 11787191--11787215 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11787181 CAAGTTGGAA
11787191 AATATTTATAT
1 AATATTTATAT
11787202 AATATTTATAT
1 AATATTTATAT
11787213 AAT
1 AAT
11787216 TTCTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATATTTATAT
Found at i:11792914 original size:36 final size:38
Alignment explanation
Indices: 11792845--11792923 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
11792835 TGTCTTAAGC
11792845 GAGATGAAATTGGTTTTAAGAAAAAAAATATCTCAAGT
1 GAGATGAAATTGGTTTTAAGAAAAAAAATATCTCAAGT
* * *
11792883 GAGATGAAATT-TTCTTTAAG-AAAAACA-ATCTCAATT
1 GAGATGAAATTGGT-TTTAAGAAAAAAAATATCTCAAGT
11792919 GAGAT
1 GAGAT
11792924 AAAAATCTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 13 0.35
37 7 0.19
38 17 0.46
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (38 bp):
GAGATGAAATTGGTTTTAAGAAAAAAAATATCTCAAGT
Found at i:11794812 original size:23 final size:23
Alignment explanation
Indices: 11794785--11794833 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
11794775 TGGTGGTTGA
*
11794785 TTTAATGG-ATGTTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
11794808 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
11794831 TTT
1 TTT
11794834 GTTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:11801690 original size:20 final size:21
Alignment explanation
Indices: 11801653--11801703 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
11801643 AAACTTTTAA
* *
11801653 CTTTTTCTTTTCTCTTTC-TT
1 CTTTATCTTTTCTATTTCATT
*
11801673 CTTTATCTTTTTTATTTCATT
1 CTTTATCTTTTCTATTTCATT
*
11801694 -TTTAACTTTT
1 CTTTATCTTTT
11801704 ACTTTTTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.73
Consensus pattern (21 bp):
CTTTATCTTTTCTATTTCATT
Found at i:11806925 original size:51 final size:49
Alignment explanation
Indices: 11806870--11807001 Score: 125
Period size: 47 Copynumber: 2.7 Consensus size: 49
11806860 CCCCTTTCAG
11806870 TTTTTCTTTTATTTCTTTTTATCTATCTTTTCTTTTTCTTTTTCTTTCTTC
1 TTTTT-TTTTATTTCTTTTTAT-TATCTTTTCTTTTTCTTTTTCTTTCTTC
* * *
11806921 TTTTTTTCTT-TTTCTTTTT-TT-CCTTTTCTTTCGTCTTTTT-TCTCTTC
1 TTTTTTT-TTATTTCTTTTTATTATCTTTTCTTT-TTCTTTTTCTTTCTTC
*
11806968 TTTCTTTTTATTT-TTTTATATT-T-TTTCTCTTTTT
1 TTTTTTTTTATTTCTTTT-TATTATCTTT-TCTTTTT
11807002 TTGTCTTGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
46 6 0.09
47 29 0.42
48 15 0.22
49 1 0.01
50 11 0.16
51 7 0.10
ACGTcount: A:0.05, C:0.17, G:0.01, T:0.78
Consensus pattern (49 bp):
TTTTTTTTTATTTCTTTTTATTATCTTTTCTTTTTCTTTTTCTTTCTTC
Found at i:11806947 original size:42 final size:41
Alignment explanation
Indices: 11806873--11806984 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 41
11806863 CTTTCAGTTT
* *
11806873 TTCTTTTATTTCTTTTTATCTATCTTTTCTTTTTCTTT-TTCTTTC
1 TTCTTTT-TTTC-TTTT-TCT-TTTTTTC-TTTTCTTTCGTCTTTC
*
11806918 TTCTTTTTTTCTTTTTCTTTTTTTCCTTTTCTTTCGTCTTTT
1 TTCTTTTTTTCTTTTTCTTTTTTT-CTTTTCTTTCGTCTTTC
* *
11806960 TTCTCTTCTTTCTTTTTATTTTTTT
1 TTCT-TTTTTTCTTTTTCTTTTTTT
11806985 ATATTTTTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 13 0.22
42 13 0.22
43 22 0.37
44 4 0.07
45 7 0.12
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.78
Consensus pattern (41 bp):
TTCTTTTTTTCTTTTTCTTTTTTTCTTTTCTTTCGTCTTTC
Found at i:11806948 original size:35 final size:37
Alignment explanation
Indices: 11806885--11806976 Score: 118
Period size: 35 Copynumber: 2.5 Consensus size: 37
11806875 CTTTTATTTC
* * * *
11806885 TTTTTATCTATCTTT-TCTTTTTCTTTTTCTTTCTTCT
1 TTTTTCTCT-TCTTTCTTTTTTTCCTTTTCTTTCGTCT
11806922 TTTTT-TCTT-TTTCTTTTTTTCCTTTTCTTTCGTCT
1 TTTTTCTCTTCTTTCTTTTTTTCCTTTTCTTTCGTCT
11806957 TTTTTCTCTTCTTTCTTTTT
1 TTTTTCTCTTCTTTCTTTTT
11806977 ATTTTTTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
34 3 0.06
35 25 0.51
36 7 0.14
37 14 0.29
ACGTcount: A:0.02, C:0.20, G:0.01, T:0.77
Consensus pattern (37 bp):
TTTTTCTCTTCTTTCTTTTTTTCCTTTTCTTTCGTCT
Found at i:11807002 original size:42 final size:42
Alignment explanation
Indices: 11806870--11807008 Score: 106
Period size: 42 Copynumber: 3.2 Consensus size: 42
11806860 CCCCTTTCAG
* * * *
11806870 TTTTTCTTTTATTTCTTTTTATCTATCTTTTCTTTTTCTTTTTC-T
1 TTTTTCTCTTCTTTCTTTTTAT-T-T-TTTTCATTTT-TTTCTCTT
* * * *
11806915 TTCTTCT-TTTTTTCTTTTTCTTTTTTTCCTTTTCTTTCGTC-T
1 TTTTTCTCTTCTTTCTTTTTATTTTTTTCATTTT-TTTC-TCTT
11806957 TTTTTCTCTTCTTTCTTTTTATTTTTTT-ATATTTTTTCTCTT
1 TTTTTCTCTTCTTTCTTTTTATTTTTTTCAT-TTTTTTCTCTT
*
11806999 TTTTTGTCTT
1 TTTTTCTCTT
11807009 GATTTTCTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
41 15 0.19
42 25 0.31
43 22 0.28
44 12 0.15
45 6 0.08
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (42 bp):
TTTTTCTCTTCTTTCTTTTTATTTTTTTCATTTTTTTCTCTT
Found at i:11807008 original size:10 final size:9
Alignment explanation
Indices: 11806870--11807041 Score: 89
Period size: 9 Copynumber: 18.3 Consensus size: 9
11806860 CCCCTTTCAG
11806870 TTTTTCTTT
1 TTTTTCTTT
*
11806879 TATTTCTTT
1 TTTTTCTTT
11806888 TTATCTATCTTTT
1 TT-T-T-TC-TTT
11806901 CTTTTTCTTT
1 -TTTTTCTTT
*
11806911 TTCTTTCTTC
1 TT-TTTCTTT
*
11806921 TTTTT-TTC
1 TTTTTCTTT
11806929 TTTTTCTTT
1 TTTTTCTTT
*
11806938 TTTTCCTTT
1 TTTTTCTTT
* *
11806947 TCTTTCGTCT
1 TTTTTC-TTT
*
11806957 TTTTTCTCT
1 TTTTTCTTT
*
11806966 TCTTTC-TT
1 TTTTTCTTT
*
11806974 TTTAT-TTT
1 TTTTTCTTT
* *
11806982 TTTATATTT
1 TTTTTCTTT
*
11806991 TTTCTCTTT
1 TTTTTCTTT
*
11807000 TTTTGTCTTG
1 TTTT-TCTTT
*
11807010 ATTTTCTTTT
1 TTTTTC-TTT
*
11807020 TCTTTTCTCT
1 T-TTTTCTTT
*
11807030 TTTTTATTT
1 TTTTTCTTT
11807039 TTT
1 TTT
11807042 CGAGTGTAGT
Statistics
Matches: 127, Mismatches: 23, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
8 19 0.15
9 60 0.47
10 31 0.24
11 8 0.06
12 3 0.02
13 4 0.03
14 2 0.02
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:11807008 original size:51 final size:50
Alignment explanation
Indices: 11806895--11807042 Score: 150
Period size: 51 Copynumber: 3.0 Consensus size: 50
11806885 TTTTTATCTA
*
11806895 TCTTTTCTTTTTC-TTTTTCT-TTC-TTCTTTTTTTCTTTTTCT-TTTTTTC
1 TCTTTTCTTTGTCTTTTTTCTCTTCTTTCTTTTTTT-TTTTT-TATTTTTTC
11806943 -CTTTTCTTTCGTCTTTTTTCTCTTCTTTCTTTTTATTTTTTTATATTTTTTC
1 TCTTTTCTTT-GTCTTTTTTCTCTTCTTTCTTTTT-TTTTTTT-TATTTTTTC
* * *
11806995 TCTTTT-TTTGTCTTGATTT-TCTT-TTTCTTTTCTCTTTTTTATTTTTTC
1 TCTTTTCTTTGTCTT-TTTTCTCTTCTTTCTTTTTTTTTTTTTATTTTTTC
11807043 GAGTGTAGTA
Statistics
Matches: 87, Mismatches: 5, Indels: 16
0.81 0.05 0.15
Matches are distributed among these distances:
47 9 0.10
48 11 0.13
49 13 0.15
50 11 0.13
51 23 0.26
52 15 0.17
53 5 0.06
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (50 bp):
TCTTTTCTTTGTCTTTTTTCTCTTCTTTCTTTTTTTTTTTTTATTTTTTC
Found at i:11807032 original size:7 final size:6
Alignment explanation
Indices: 11806897--11807033 Score: 64
Period size: 6 Copynumber: 20.7 Consensus size: 6
11806887 TTTATCTATC
*
11806897 TTTTCT TTTTCT TTTTCT TTCTTCTTT TTTTCT TTTTCTTT TTTTCC TTTTCT
1 TTTTCT TTTTCT TTTTCT TT-TTC--T TTTTCT TTTTC--T TTTTCT TTTTCT
* *
11806950 TTCGTCTTT TTTCTCT TCTTTCT TTTTAT TTTT-T TATATT-T TTTCTCT
1 TT--T-TCT TTT-TCT T-TTTCT TTTTCT TTTTCT T-T-TTCT TTT-TCT
**
11806998 TTTT-T TGTCTTGA TTTTCT TTTTCT TTTCTCT TTTT
1 TTTTCT T-T-TTCT TTTTCT TTTTCT TTT-TCT TTTT
11807034 TATTTTTTCG
Statistics
Matches: 106, Mismatches: 8, Indels: 34
0.72 0.05 0.23
Matches are distributed among these distances:
5 5 0.05
6 52 0.49
7 29 0.27
8 13 0.12
9 7 0.07
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:11807042 original size:21 final size:20
Alignment explanation
Indices: 11806897--11807003 Score: 101
Period size: 21 Copynumber: 5.2 Consensus size: 20
11806887 TTTATCTATC
11806897 TTTTCTTTTTCTTTTTCTTT
1 TTTTCTTTTTCTTTTTCTTT
11806917 CTTCTT-TTTTTCTTTTTCTTT
1 -TT-TTCTTTTTCTTTTTCTTT
* *
11806938 TTTTCCTTTTCTTTCGTCTTT
1 TTTTCTTTTTCTTT-TTCTTT
*
11806959 TTTCTCTTCTTTCTTTTTATTT
1 TTT-TCTT-TTTCTTTTTCTTT
* * *
11806981 TTTTATATTT-TTTCTCTTT
1 TTTTCTTTTTCTTTTTCTTT
11807000 TTTT
1 TTTT
11807004 GTCTTGATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.18
20 13 0.18
21 27 0.38
22 12 0.17
23 7 0.10
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (20 bp):
TTTTCTTTTTCTTTTTCTTT
Found at i:11808210 original size:28 final size:28
Alignment explanation
Indices: 11808170--11808226 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
11808160 TCTTGAAGCA
11808170 ACTCTATCAGCTCTTGTTTTGTTTCATG
1 ACTCTATCAGCTCTTGTTTTGTTTCATG
11808198 ACTCTATCAGCTCTTGTTTTGTTTCATG
1 ACTCTATCAGCTCTTGTTTTGTTTCATG
11808226 A
1 A
11808227 GACAAAGTAT
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:0.16, C:0.21, G:0.14, T:0.49
Consensus pattern (28 bp):
ACTCTATCAGCTCTTGTTTTGTTTCATG
Found at i:11808669 original size:21 final size:21
Alignment explanation
Indices: 11808643--11808687 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
11808633 TCTTCAATTG
*
11808643 TAGAAAAATGTAAGATTAACA
1 TAGAAAAATGTAAGAATAACA
11808664 TAGAAAAATGTAAGAATAACA
1 TAGAAAAATGTAAGAATAACA
11808685 TAG
1 TAG
11808688 CAACCTTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.58, C:0.04, G:0.16, T:0.22
Consensus pattern (21 bp):
TAGAAAAATGTAAGAATAACA
Found at i:11811941 original size:2 final size:2
Alignment explanation
Indices: 11811934--11811986 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
11811924 TTGAAACTAA
11811934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11811976 AT AT AT AT AT A
1 AT AT AT AT AT A
11811987 ATTCTTATCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11813169 original size:24 final size:24
Alignment explanation
Indices: 11813133--11813179 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11813123 ATATAATAAA
* *
11813133 ATTTAATAAAATAATAAATTATTG
1 ATTTAATAAAATAAAAAAATATTG
* *
11813157 ATTTATTATAATAAAAAAATATT
1 ATTTAATAAAATAAAAAAATATT
11813180 TTACCTTCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATTTAATAAAATAAAAAAATATTG
Found at i:11814030 original size:11 final size:11
Alignment explanation
Indices: 11814014--11814038 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11814004 CCTTGAAATT
11814014 TTTGTTTTTGA
1 TTTGTTTTTGA
11814025 TTTGTTTTTGA
1 TTTGTTTTTGA
11814036 TTT
1 TTT
11814039 CCCTCTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (11 bp):
TTTGTTTTTGA
Found at i:11814525 original size:3 final size:3
Alignment explanation
Indices: 11814517--11814551 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
11814507 CGTCCGGACC
11814517 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11814552 TCTTACACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:11820782 original size:13 final size:13
Alignment explanation
Indices: 11820764--11820841 Score: 66
Period size: 13 Copynumber: 6.0 Consensus size: 13
11820754 GTCATAAATA
*
11820764 TATGACGTGGATT
1 TATGACGTGCATT
***
11820777 TATGACACACATT
1 TATGACGTGCATT
11820790 TATGACGTGCATT
1 TATGACGTGCATT
***
11820803 TATGACACACATT
1 TATGACGTGCATT
*
11820816 TATGACTTGCATT
1 TATGACGTGCATT
* *
11820829 AATGACGTTCATT
1 TATGACGTGCATT
11820842 GAGTGTCATT
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (13 bp):
TATGACGTGCATT
Found at i:11820795 original size:26 final size:26
Alignment explanation
Indices: 11820764--11820834 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
11820754 GTCATAAATA
*
11820764 TATGACGTGGATTTATGACACACATT
1 TATGACGTGCATTTATGACACACATT
11820790 TATGACGTGCATTTATGACACACATT
1 TATGACGTGCATTTATGACACACATT
* *
11820816 TATGACTTGCATTAATGAC
1 TATGACGTGCATTTATGAC
11820835 GTTCATTGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (26 bp):
TATGACGTGCATTTATGACACACATT
Found at i:11820935 original size:85 final size:85
Alignment explanation
Indices: 11820846--11821035 Score: 267
Period size: 85 Copynumber: 2.2 Consensus size: 85
11820836 TTCATTGAGT
*
11820846 GTCATTGAAGCCCCCGTCATAAAT-TAAG-ATGACACACATTTGTGCGTCATAAATTTATGACAC
1 GTCATTGAAGCCCCCATCATAAATCT--GCATGACACACATTTGTGCGTCATAAATTTATGACAC
*
11820909 GCATGTATGACTTACATTGTGC
64 GCATGTATGACTTACATTGCGC
* * * *
11820931 GTCATTGAAGCCCCCATCATAAATCTGCTTGACATACATTTGTGTGTCATAAATTTATGACACTC
1 GTCATTGAAGCCCCCATCATAAATCTGCATGACACACATTTGTGCGTCATAAATTTATGACACGC
*
11820996 ATGTATGACTTACATTGCGT
66 ATGTATGACTTACATTGCGC
* *
11821016 GTCATTGAAGCACACATCAT
1 GTCATTGAAGCCCCCATCAT
11821036 TAAAAAAGAT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
84 1 0.01
85 92 0.98
86 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (85 bp):
GTCATTGAAGCCCCCATCATAAATCTGCATGACACACATTTGTGCGTCATAAATTTATGACACGC
ATGTATGACTTACATTGCGC
Found at i:11821090 original size:2 final size:2
Alignment explanation
Indices: 11821083--11821110 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11821073 TTTCGTAAAT
11821083 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
11821111 GACATTGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11823450 original size:39 final size:38
Alignment explanation
Indices: 11823407--11823480 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
11823397 CCTCTTTTGT
11823407 GGTGT-TCCCTCATCCTTTTCTTTCTTTTTTTCCCTTTTC
1 GGTGTGTCCCTC-TCCTTTTC-TTCTTTTTTTCCCTTTTC
* *
11823446 GGTGTGTCCTTCTCCTTTTCTTCTTTTTTTTCCTT
1 GGTGTGTCCCTCTCCTTTTCTTCTTTTTTTCCCTT
11823481 GCAGTGTCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 14 0.44
39 13 0.41
40 5 0.16
ACGTcount: A:0.01, C:0.28, G:0.09, T:0.61
Consensus pattern (38 bp):
GGTGTGTCCCTCTCCTTTTCTTCTTTTTTTCCCTTTTC
Found at i:11823493 original size:36 final size:39
Alignment explanation
Indices: 11823419--11823499 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 39
11823409 TGTTCCCTCA
* * *
11823419 TCCTTTTCTTTCTTTTTTTCCCTTTTCGGTGTGTCCTTC
1 TCCTTTTCTTTCTTTTTTTCCCTTTGCAGTGTGCCCTTC
*
11823458 TCCTTTTC-TTCTTTTTTTTCC-TTGCAGTGT-CCCTTC
1 TCCTTTTCTTTCTTTTTTTCCCTTTGCAGTGTGCCCTTC
11823494 TCCTTT
1 TCCTTT
11823500 ACCCTCTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 11 0.29
37 7 0.18
38 12 0.32
39 8 0.21
ACGTcount: A:0.01, C:0.30, G:0.09, T:0.60
Consensus pattern (39 bp):
TCCTTTTCTTTCTTTTTTTCCCTTTGCAGTGTGCCCTTC
Found at i:11823551 original size:25 final size:25
Alignment explanation
Indices: 11823482--11823559 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 25
11823472 TTTTTCCTTG
11823482 CAGTGTCCCTTCTCCTTTACCCTCTT
1 CAGTGTCCCTTCTCCTTT-CCCTCTT
* * * * * *
11823508 C-CTTTTCTTTCTCATTTTCCGTCTT
1 CAGTGTCCCTTCTC-CTTTCCCTCTT
11823533 CAGTGTCCCTTCTCCTTTCTCCTCTT
1 CAGTGTCCCTTCTCCTTTC-CCTCTT
11823559 C
1 C
11823560 CTTTTCAACA
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
25 19 0.51
26 18 0.49
ACGTcount: A:0.05, C:0.40, G:0.06, T:0.49
Consensus pattern (25 bp):
CAGTGTCCCTTCTCCTTTCCCTCTT
Found at i:11829270 original size:23 final size:23
Alignment explanation
Indices: 11829244--11829293 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11829234 AATACCCAAG
*
11829244 ATAAA-CATAAATCTACCATTAAA
1 ATAAAGCATAAA-CAACCATTAAA
**
11829267 ATAAAGTTTAAACAACCATTAAA
1 ATAAAGCATAAACAACCATTAAA
11829290 ATAA
1 ATAA
11829294 CCCTACCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAAAGCATAAACAACCATTAAA
Found at i:11832545 original size:27 final size:26
Alignment explanation
Indices: 11832504--11832565 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 26
11832494 ATGAAGAAAT
11832504 AAGAGAGAAAAAAAAAGTTAAAAATGA
1 AAGAGA-AAAAAAAAAGTTAAAAATGA
11832531 AAGAGAAAAAGAAAAAGTTAAAAATGA
1 AAGAGAAAAA-AAAAAGTTAAAAATGA
*
11832558 GAGAGAAA
1 AAGAGAAA
11832566 TGGGTGATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (26 bp):
AAGAGAAAAAAAAAAGTTAAAAATGA
Found at i:11841103 original size:12 final size:11
Alignment explanation
Indices: 11841077--11841226 Score: 51
Period size: 9 Copynumber: 14.3 Consensus size: 11
11841067 CATAAAAAAT
11841077 AAAAGAGAAGA
1 AAAAGAGAAGA
11841088 AAAAGAAGAAGGA
1 AAAAG-AGAA-GA
* *
11841101 AAAA-AAAATA
1 AAAAGAGAAGA
*
11841111 GAAAA-A-TAGA
1 -AAAAGAGAAGA
*
11841121 AAAAGAAAAG-
1 AAAAGAGAAGA
11841131 AAAAGA-ATATGAA
1 AAAAGAGA-A-G-A
*
11841144 AAAAGAAAAAGA
1 AAAAG-AGAAGA
11841156 AAAA-AGAA-A
1 AAAAGAGAAGA
11841165 AAAA-AGAA-A
1 AAAAGAGAAGA
11841174 AAAAGA-AA-A
1 AAAAGAGAAGA
*
11841183 AAAAGAAAAAGA
1 AAAAG-AGAAGA
*
11841195 AAAA-AAAAG-
1 AAAAGAGAAGA
11841204 AAAA-A-AAGA
1 AAAAGAGAAGA
*
11841213 AAAAGAGAATA
1 AAAAGAGAAGA
11841224 AAA
1 AAA
11841227 TCAGTATTTC
Statistics
Matches: 114, Mismatches: 7, Indels: 36
0.73 0.04 0.23
Matches are distributed among these distances:
8 3 0.03
9 36 0.32
10 22 0.19
11 24 0.21
12 14 0.12
13 12 0.11
14 2 0.02
15 1 0.01
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (11 bp):
AAAAGAGAAGA
Found at i:11841106 original size:16 final size:15
Alignment explanation
Indices: 11841070--11841218 Score: 108
Period size: 16 Copynumber: 9.5 Consensus size: 15
11841060 ATAAATTCAT
*
11841070 AAAAAATAAAAGAGAA
1 AAAAAAGAAAA-AGAA
* * *
11841086 GAAAAAGAAGAAG-G
1 AAAAAAGAAAAAGAA
*
11841100 AAAAAA-AAATAG-A
1 AAAAAAGAAAAAGAA
*
11841113 AAAATAGAAAAAGAA
1 AAAAAAGAAAAAGAA
*
11841128 AAGAAAAGAATATGAAAAA
1 AA-AAAAGAA-A--AAGAA
11841147 AGAAAAAGAAAAAAGAA
1 A-AAAAAG-AAAAAGAA
11841164 AAAAAAGAAAAAAAGAA
1 AAAAAAG--AAAAAGAA
11841181 AAAAAAGAAAAAGAAA
1 AAAAAAGAAAAAG-AA
11841197 AAAAAAGAAAAA-AA
1 AAAAAAGAAAAAGAA
*
11841211 GAAAAAGA
1 AAAAAAGA
11841219 GAATAAAATC
Statistics
Matches: 109, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
13 9 0.08
14 19 0.17
15 11 0.10
16 34 0.31
17 22 0.20
19 11 0.10
20 3 0.03
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:11841115 original size:24 final size:21
Alignment explanation
Indices: 11841088--11841210 Score: 94
Period size: 20 Copynumber: 5.8 Consensus size: 21
11841078 AAAGAGAAGA
11841088 AAAAGAAGAAGGAAAAAAAAATAG
1 AAAAGAA-AA-GAAAAAAAAA-AG
* *
11841112 -AAA-AATAGAAAAAGAAAAG
1 AAAAGAAAAGAAAAAAAAAAG
*
11841131 AAAAGAATATGAAAAAAGAAAA-
1 AAAAGAA-AAGAAAAAA-AAAAG
* *
11841153 AGAA-AAAAGAAAAAAAAGAAA
1 AAAAGAAAAGAAAAAAAA-AAG
*
11841174 AAAAGAAAA-AAAAGAAAAAG
1 AAAAGAAAAGAAAAAAAAAAG
*
11841194 AAAAAAAAAGAAAAAAA
1 AAAAGAAAAGAAAAAAA
11841211 GAAAAAGAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.05
20 32 0.41
21 21 0.27
22 15 0.19
23 7 0.09
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAGAAAAAAAAAAG
Found at i:11841117 original size:8 final size:7
Alignment explanation
Indices: 11841087--11841226 Score: 80
Period size: 7 Copynumber: 19.7 Consensus size: 7
11841077 AAAAGAGAAG
11841087 AAAAAG-
1 AAAAAGA
* *
11841093 AAGAAGG
1 AAAAAGA
11841100 AAAAA-A
1 AAAAAGA
*
11841106 AAATAGA
1 AAAAAGA
11841113 AAAATAG-
1 AAAA-AGA
11841120 AAAAAGA
1 AAAAAGA
11841127 AAAGAA-A
1 AAA-AAGA
*
11841134 AGAATATGA
1 A-AA-AAGA
11841143 AAAAAG-
1 AAAAAGA
11841149 AAAAAGA
1 AAAAAGA
11841156 AAAAAGA
1 AAAAAGA
11841163 AAAAA-A
1 AAAAAGA
11841169 AGAAAA-A
1 A-AAAAGA
*
11841176 AAGAA-A
1 AAAAAGA
11841182 AAAAAGAA
1 AAAAAG-A
*
11841190 AAAGAAAA
1 AAA-AAGA
11841198 AAAAAGAA
1 AAAAAG-A
11841206 AAAAAGA
1 AAAAAGA
11841213 AAAAGAGA
1 AAAA-AGA
11841221 ATAAAA
1 A-AAAA
11841227 TCAGTATTTC
Statistics
Matches: 107, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
6 27 0.25
7 44 0.41
8 29 0.27
9 7 0.07
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (7 bp):
AAAAAGA
Found at i:11841146 original size:23 final size:22
Alignment explanation
Indices: 11841071--11841218 Score: 89
Period size: 20 Copynumber: 6.7 Consensus size: 22
11841061 TAAATTCATA
*
11841071 AAAAATAAAAGAGAAGAAAAAGAAG
1 AAAAA-AAAAGAAAAG-AAAA-AAG
*
11841096 AAGGAAAAAAA-AATAGAAAAATAG
1 AA--AAAAAAAGAAAAGAAAAA-AG
* *
11841120 AAAAAGAAAAGAAAAG-AATATG
1 AAAAA-AAAAGAAAAGAAAAAAG
*
11841142 -AAAAAAGA-AAAAGAAAAAAG
1 AAAAAAAAAGAAAAGAAAAAAG
*
11841162 -AAAAAAAAGAAAA-AAAGAAAA
1 AAAAAAAAAGAAAAGAAA-AAAG
11841183 AAAAGAAAAAG-AAA-AAAAAAG
1 AAAA-AAAAAGAAAAGAAAAAAG
*
11841204 AAAAAAAGA-AAAAGA
1 AAAAAAAAAGAAAAGA
11841219 GAATAAAATC
Statistics
Matches: 99, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
19 5 0.05
20 24 0.24
21 19 0.19
22 13 0.13
23 14 0.14
24 12 0.12
25 5 0.05
26 4 0.04
27 3 0.03
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (22 bp):
AAAAAAAAAGAAAAGAAAAAAG
Found at i:11841153 original size:1 final size:1
Alignment explanation
Indices: 11841142--11841216 Score: 69
Period size: 1 Copynumber: 75.0 Consensus size: 1
11841132 AAAGAATATG
* * * * * * * *
11841142 AAAAAAGAAAAAGAAAAAAGAAAAAAAAGAAAAAAAGAAAAAAAAGAAAAAGAAAAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
11841207 AAAAGAAAAA
1 AAAAAAAAAA
11841217 GAGAATAAAA
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:11841186 original size:62 final size:63
Alignment explanation
Indices: 11841070--11841218 Score: 162
Period size: 62 Copynumber: 2.3 Consensus size: 63
11841060 ATAAATTCAT
* * * * *
11841070 AAAAAATAAAAGAGAAGAAAAAGAAGAAGGAAAAAAAAATAGAAAAATAGAAAAAG-AAAAGAAA
1 AAAAAAGAAAA-A-AAGAAAAAGAAAAAAGAAAAAAAAATAGAAAAAAAAAAAAAGAAAAAGAAA
* *
11841134 AGAATATG-AAAAAAGAAAAAGAAAAAAGAAAAAAAAGA-A-AAAAAGAAAAAAAAGAAAAAGAA
1 A-AAAAAGAAAAAAAGAAAAAGAAAAAAGAAAAAAAA-ATAGAAAAA-AAAAAAAAGAAAAAGAA
11841196 A
63 A
11841197 AAAAAAGAAAAAAAGAAAAAGA
1 AAAAAAGAAAAAAAGAAAAAGA
11841219 GAATAAAATC
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
61 5 0.07
62 34 0.48
63 25 0.35
64 4 0.06
65 3 0.04
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (63 bp):
AAAAAAGAAAAAAAGAAAAAGAAAAAAGAAAAAAAAATAGAAAAAAAAAAAAAGAAAAAGAAA
Found at i:11841211 original size:24 final size:23
Alignment explanation
Indices: 11841101--11841218 Score: 114
Period size: 23 Copynumber: 5.0 Consensus size: 23
11841091 AGAAGAAGGA
*
11841101 AAAAAAAATAGAAAAATAGAAAAAG
1 AAAAAAAA-AGAAAAA-AAAAAAAG
* * **
11841126 AAAAGAAAAGAATATGAAAAAAG
1 AAAAAAAAAGAAAAAAAAAAAAG
* *
11841149 AAAAAGAAA-AAAGAAAAAAAAG
1 AAAAAAAAAGAAAAAAAAAAAAG
*
11841171 AAAAAAAGAA-AAAAAAGAAAAAG
1 AAAAAAA-AAGAAAAAAAAAAAAG
11841194 AAAAAAAAAGAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAAA-AAAAAG
11841218 A
1 A
11841219 GAATAAAATC
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
22 17 0.23
23 39 0.52
24 12 0.16
25 7 0.09
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (23 bp):
AAAAAAAAAGAAAAAAAAAAAAG
Found at i:11841216 original size:39 final size:39
Alignment explanation
Indices: 11841077--11841218 Score: 96
Period size: 42 Copynumber: 3.6 Consensus size: 39
11841067 CATAAAAAAT
* * * * *
11841077 AAAAGAGAAGAAAAAGAAGAAGGAAAAAAAAATAGAAAAATA
1 AAAAAAGAAAAAAAAGAA-AAAGAAAAAAGAA-A-AAAAAGA
* * *
11841119 GAAAAAGAAAAGAAAAGAATATGAAAAAAG---AAAAAG-
1 AAAAAAGAAAA-AAAAGAAAAAGAAAAAAGAAAAAAAAGA
*
11841155 AAAAAAGAAAAAAAAGAAAAAAAGAAAAAA-AAGAAAAAGA
1 AAAAAAGAAAAAAAAG--AAAAAGAAAAAAGAAAAAAAAGA
*
11841195 AAAAAAAAGAAAAAAAGAAAAAGA
1 AAAAAAGA-AAAAAAAGAAAAAGA
11841219 GAATAAAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
35 5 0.06
36 10 0.12
37 15 0.19
39 13 0.16
40 7 0.09
41 8 0.10
42 16 0.20
43 7 0.09
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (39 bp):
AAAAAAGAAAAAAAAGAAAAAGAAAAAAGAAAAAAAAGA
Found at i:11841226 original size:24 final size:23
Alignment explanation
Indices: 11841084--11841218 Score: 118
Period size: 24 Copynumber: 5.8 Consensus size: 23
11841074 AATAAAAGAG
11841084 AAGAAAAAGAAGAAGGAAA-AAAAAA
1 AAGAAAAA-AAGAA--AAAGAAAAAA
* *
11841109 TAGAAAAATAGAAAAAGAAAAGAA
1 AAGAAAAAAAGAAAAAGAAAA-AA
* **
11841133 AAGAATATGA-AAAAAGAAAAAGA
1 AAGAAAAAAAGAAAAAGAAAAA-A
*
11841156 AA-AAAGAAA-AAAAAG-AAAAA
1 AAGAAAAAAAGAAAAAGAAAAAA
11841176 AAGAAAAAAAAGAAAAAGAAAAAAA
1 AAG-AAAAAAAGAAAAAG-AAAAAA
11841201 AAGAAAAAAAGAAAAAGA
1 AAGAAAAAAAGAAAAAGA
11841219 GAATAAAATC
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.03
21 4 0.04
22 19 0.21
23 24 0.26
24 26 0.29
25 15 0.16
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (23 bp):
AAGAAAAAAAGAAAAAGAAAAAA
Found at i:11842302 original size:42 final size:43
Alignment explanation
Indices: 11842207--11842416 Score: 219
Period size: 44 Copynumber: 4.9 Consensus size: 43
11842197 ATCATGCTGG
* * * * * * *
11842207 AGCAAGAACTGATGAATGTTGGGGCACTTTTAAAGGCTCGTATC
1 AGCAAGAAATAATAAATGTTGGGACATTTTTGAAGGC-CATATC
* * *
11842251 ATCCAGAAATAATAAATGTTAGGG-CA-TTTTGAAGACCATATC
1 AGCAAGAAATAATAAATGTT-GGGACATTTTTGAAGGCCATATC
*
11842293 AGCAAGAAATAATAAATGTTGGGACATTTTTGAAGGCTCGTATC
1 AGCAAGAAATAATAAATGTTGGGACATTTTTGAAGGC-CATATC
* * * *
11842337 ATCTAGAAATAATAAATGTTGGG-GATTTTTGAAGGCCCTATC
1 AGCAAGAAATAATAAATGTTGGGACATTTTTGAAGGCCATATC
*
11842379 AGCAAGAACTAATAAATGTTGGGACATTTTTTGAAGGC
1 AGCAAGAAATAATAAATGTTGGGACA-TTTTTGAAGGC
11842417 TTATATCATC
Statistics
Matches: 140, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.02
42 50 0.36
43 30 0.21
44 54 0.39
45 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (43 bp):
AGCAAGAAATAATAAATGTTGGGACATTTTTGAAGGCCATATC
Found at i:11842352 original size:44 final size:43
Alignment explanation
Indices: 11842221--11842426 Score: 229
Period size: 42 Copynumber: 4.7 Consensus size: 43
11842211 AGAACTGATG
* * * *
11842221 AATGTTGGGGCACTTTTAAAGGCTCGTATCATCCAGAAATAATA
1 AATGTT-GGGCATTTTTGAAGGCTCATATCATCAAGAAATAATA
* *
11842265 AATGTTAGGGCA-TTTTGAAGAC-CATATCAGCAAGAAATAATA
1 AATGTT-GGGCATTTTTGAAGGCTCATATCATCAAGAAATAATA
* *
11842307 AATGTTGGGACATTTTTGAAGGCTCGTATCATCTAGAAATAATA
1 AATGTTGGG-CATTTTTGAAGGCTCATATCATCAAGAAATAATA
* * * *
11842351 AATGTTGGGGATTTTTGAAGGC-CCTATCAGCAAGAACTAATA
1 AATGTTGGGCATTTTTGAAGGCTCATATCATCAAGAAATAATA
*
11842393 AATGTTGGGACATTTTTTGAAGGCTTATATCATC
1 AATGTTGGG-CA-TTTTTGAAGGCTCATATCATC
11842427 CACGAATACA
Statistics
Matches: 137, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.02
42 50 0.36
43 30 0.22
44 48 0.35
45 6 0.04
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (43 bp):
AATGTTGGGCATTTTTGAAGGCTCATATCATCAAGAAATAATA
Found at i:11842352 original size:86 final size:86
Alignment explanation
Indices: 11842207--11842428 Score: 311
Period size: 86 Copynumber: 2.6 Consensus size: 86
11842197 ATCATGCTGG
* * * * *
11842207 AGCAAGAACTGATGAATGTTGGGGCACTTTTAAAGGCTCGTATCATCCAGAAATAATAAATGTTA
1 AGCAAGAACTAATAAATGTTGGGACATTTTTGAAGGCTCGTATCATCCAGAAATAATAAATGTT-
11842272 GGGCA-TTTTGAAGACCATATC
65 GGGCATTTTTGAAGACCATATC
* *
11842293 AGCAAGAAATAATAAATGTTGGGACATTTTTGAAGGCTCGTATCATCTAGAAATAATAAATGTTG
1 AGCAAGAACTAATAAATGTTGGGACATTTTTGAAGGCTCGTATCATCCAGAAATAATAAATGTTG
* * *
11842358 GGGATTTTTGAAGGCCCTATC
66 GGCATTTTTGAAGACCATATC
**
11842379 AGCAAGAACTAATAAATGTTGGGACATTTTTTGAAGGCTTATATCATCCA
1 AGCAAGAACTAATAAATGTTGGGACA-TTTTTGAAGGCTCGTATCATCCA
11842429 CGAATACAAT
Statistics
Matches: 120, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
85 4 0.03
86 96 0.80
87 20 0.17
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (86 bp):
AGCAAGAACTAATAAATGTTGGGACATTTTTGAAGGCTCGTATCATCCAGAAATAATAAATGTTG
GGCATTTTTGAAGACCATATC
Found at i:11843686 original size:102 final size:103
Alignment explanation
Indices: 11843552--11843757 Score: 380
Period size: 102 Copynumber: 2.0 Consensus size: 103
11843542 ACAAAAAGTG
*
11843552 AAGACAACTTAATCAAAGGGGAAAGAAGATCACTCTTACAGTTATTCTTACCACAGATCAAG-AA
1 AAGACAACTTAATCAAAAGGGAAAGAAGATCACTCTTACAGTTATTCTTACCACAGATCAAGAAA
11843616 ACATGCATTTATACATGGA-TGTGTCATTGCATCATAC
66 ACATGCATTTATACATGGATTGTGTCATTGCATCATAC
11843653 AAGACAACTTAATCAGAAAGGGAAAGAAGATCACTCTTACAGTTATTCTTACCACAGATCAAGAA
1 AAGACAACTTAATCA-AAAGGGAAAGAAGATCACTCTTACAGTTATTCTTACCACAGATCAAGAA
11843718 AACATGCATTTATACATGGATTGTGTCATTGCATCATAC
65 AACATGCATTTATACATGGATTGTGTCATTGCATCATAC
11843757 A
1 A
11843758 TCATTCCATA
Statistics
Matches: 101, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
101 15 0.15
102 46 0.46
103 21 0.21
104 19 0.19
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (103 bp):
AAGACAACTTAATCAAAAGGGAAAGAAGATCACTCTTACAGTTATTCTTACCACAGATCAAGAAA
ACATGCATTTATACATGGATTGTGTCATTGCATCATAC
Found at i:11844793 original size:134 final size:132
Alignment explanation
Indices: 11844494--11844911 Score: 413
Period size: 134 Copynumber: 3.1 Consensus size: 132
11844484 GCAAATCAAA
* * ** * * *
11844494 CTCGATTCAATATTCCCTA-AGTAACAGTGAAAAAAATCAACGTCCCCAAATCTGATTTTCCCTT
1 CTCGATTCAATCTTCCCTAGAGTAACAGTGGAATGAATCAA-AT-CCTAAATCTGATTTTCCCTC
* * * * * * * * ** *
11844558 AGGATA-AAGTGAAATAGATCTATCTCTTT-CAGTTTTCATATTCCCTAAGTAACAGCAGAACAA
64 AGGA-AGAAGCGGAATAGATC-CTCTCTTTCCAGATTTGATATTCTCTGAGTAAAAGTGGAAAAA
11844621 GTCTAC
127 GTCTAC
* *
11844627 CTCGATTCAATCTTCCCT-GAGTAAAAAG-GGAATGAATCAATATCTCTATATCTGATTTTCCCT
1 CTCGATTCAATCTTCCCTAGAGT-AACAGTGGAATGAATCAA-ATC-CTAAATCTGATTTTCCCT
11844690 CAGGAAGAAGCGGAATAGATCCCTCTCTTTCCAGATTTGATATTCTCTGAGTAAAAGTGGAAAAA
63 CAGGAAGAAGCGGAATAGAT-CCTCTCTTTCCAGATTTGATATTCTCTGAGTAAAAGTGGAAAAA
11844755 GTCTAC
127 GTCTAC
* * *
11844761 CTCGATTCAATTTTCCCTAGAG-AACAGTGGAATGAATCAAAGTCCTCAGATCTGACTTTCCCTC
1 CTCGATTCAATCTTCCCTAGAGTAACAGTGGAATGAATCAAA-TCCT-AAATCTGATTTTCCCTC
* * * *
11844825 AAGAAGAAGCGGAATATAT-CTCTCTTTCAAGATTTGATATTCAT-TGAGTGAAAGTGGAACAAA
64 AGGAAGAAGCGGAATAGATCCTCTCTTTCCAGATTTGATATTC-TCTGAGTAAAAGTGGAA-AAA
11844888 -TCTAC
127 GTCTAC
*
11844893 CTTGATTCAATCTTCCCTA
1 CTCGATTCAATCTTCCCTA
11844912 AAGAATAGTG
Statistics
Matches: 242, Mismatches: 31, Indels: 25
0.81 0.10 0.08
Matches are distributed among these distances:
132 60 0.25
133 79 0.33
134 100 0.41
135 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (132 bp):
CTCGATTCAATCTTCCCTAGAGTAACAGTGGAATGAATCAAATCCTAAATCTGATTTTCCCTCAG
GAAGAAGCGGAATAGATCCTCTCTTTCCAGATTTGATATTCTCTGAGTAAAAGTGGAAAAAGTCT
AC
Found at i:11846551 original size:273 final size:269
Alignment explanation
Indices: 11846100--11846642 Score: 1009
Period size: 273 Copynumber: 2.0 Consensus size: 269
11846090 TTCGAAATTA
11846100 GTCACTGATGTTTACATTATTTTCATTTTGGCCATTGTTTGGGTTCTATTTATTTATTATGATTT
1 GTCACTGA-GTTTACATTATTTTCATTTTGGCCATTGTTTGGGTTCTATTTATTTATTATGATTT
11846165 GGATATGATATATTCAATTTATGCATTTTATGCATTTAGTCACCGATTGTGTAATACCCAAACAT
65 GGATATGATATATTCAATTTATGCATTTTATGCATTTAGTCACCGATTGTGTAATACCCAAACAT
11846230 CGAGTCAGTAATTGAAATATAATGATTTAAAAGTTAATGGTTATATTTTGATAAATTTAAAAGTT
130 CGAGTCAGTAATTGAAATATAATGATTTAAAAGTTAATGGTTATATTTTGATAAATTTAAAAGTT
11846295 CAATGACTAATTTTGGAAAATGTTGTTTAGGACATATTATTAAGGATTGAAGGATTG-AGGGCAA
195 CAATGACTAATTTTGGAAAATGTTGTTTAGGACATATTATTAAGGATTGAAGGATTGAAGGGCAA
11846359 AGTGGTCTTT
260 AGTGGTCTTT
11846369 GTCACTGA-TTTACATTATTTTCATTTTGGCCATTGTTTGGGTTCTATTTATTATTTTATTATGA
1 GTCACTGAGTTTACATTATTTTCATTTTGGCCATTGTTTGGGTTCTA--T-TTA-TTTATTATGA
11846433 TTTGGATATGATATATTCAATTTATGCATTTTATGCATTTTAGTCACCGATTGTGTAATACCCCA
62 TTTGGATATGATATATTCAATTTATGCATTTTATGCA-TTTAGTCACCGATTGTGTAATA-CCCA
11846498 AACATCGAGTCAGTAATTGAAATATAATGATTTAAAAGTTAATGGTTATATTTTGATAAATTTAA
125 AACATCGAGTCAGTAATTGAAATATAATGATTTAAAAGTTAATGGTTATATTTTGATAAATTTAA
11846563 AAGTTCAATGACTAATTTTGGAAAATGTTGTTTAGGACATATTATTAAGGATTGAAGGATTGAAG
190 AAGTTCAATGACTAATTTTGGAAAATGTTGTTTAGGACATATTATTAAGGATTGAAGGATTGAAG
11846628 GGCAAAGTGGTCTTT
255 GGCAAAGTGGTCTTT
11846643 TAACAAGGAC
Statistics
Matches: 267, Mismatches: 0, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
267 38 0.14
269 9 0.03
270 3 0.01
271 47 0.18
272 22 0.08
273 131 0.49
274 17 0.06
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (269 bp):
GTCACTGAGTTTACATTATTTTCATTTTGGCCATTGTTTGGGTTCTATTTATTTATTATGATTTG
GATATGATATATTCAATTTATGCATTTTATGCATTTAGTCACCGATTGTGTAATACCCAAACATC
GAGTCAGTAATTGAAATATAATGATTTAAAAGTTAATGGTTATATTTTGATAAATTTAAAAGTTC
AATGACTAATTTTGGAAAATGTTGTTTAGGACATATTATTAAGGATTGAAGGATTGAAGGGCAAA
GTGGTCTTT
Found at i:11848251 original size:23 final size:23
Alignment explanation
Indices: 11848221--11848269 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
11848211 AGTCGAGGGT
11848221 TCTATGTGGTCCTTCGGGACAAA
1 TCTATGTGGTCCTTCGGGACAAA
11848244 TCTATGTGGTCCTTCGGGACAAA
1 TCTATGTGGTCCTTCGGGACAAA
11848267 TCT
1 TCT
11848270 GTGGCAGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (23 bp):
TCTATGTGGTCCTTCGGGACAAA
Found at i:11849573 original size:7 final size:7
Alignment explanation
Indices: 11849563--11849589 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11849553 TATATAATAT
11849563 ATTTAAA
1 ATTTAAA
11849570 ATTTAAA
1 ATTTAAA
11849577 ATTTAAA
1 ATTTAAA
11849584 ATTTAA
1 ATTTAA
11849590 TTTCGGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTAAA
Found at i:11852276 original size:22 final size:21
Alignment explanation
Indices: 11852242--11852292 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 21
11852232 ATAATTGTTT
11852242 AAAAAATTAAATAAAAATATCAA
1 AAAAAATTAAATAAAAA-AT-AA
11852265 AAAAAATT-AATAAAAAATAA
1 AAAAAATTAAATAAAAAATAA
11852285 AAAAAATT
1 AAAAAATT
11852293 TAGGTTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.36
21 2 0.07
22 8 0.29
23 8 0.29
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAAATTAAATAAAAAATAA
Found at i:11852279 original size:10 final size:11
Alignment explanation
Indices: 11852242--11852290 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
11852232 ATAATTGTTT
11852242 AAAAAATTAAA
1 AAAAAATTAAA
* *
11852253 TAAAAATATCAA
1 AAAAAAT-TAAA
*
11852265 AAAAAATTAAT
1 AAAAAATTAAA
11852276 AAAAAA-TAAA
1 AAAAAATTAAA
11852286 AAAAA
1 AAAAA
11852291 TTTAGGTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
10 8 0.26
11 14 0.45
12 9 0.29
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:11853704 original size:22 final size:24
Alignment explanation
Indices: 11853679--11853736 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
11853669 AATTTTGATC
11853679 ATAATTATTTTA-AATAT-TTTAA
1 ATAATTATTTTATAATATATTTAA
11853701 ATAATTAAATTTTATAATATAATTTAA
1 ATAATT--ATTTTATAATAT-ATTTAA
11853728 A-AATTATTT
1 ATAATTATTT
11853737 AGAATGAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 6 0.19
24 10 0.32
25 5 0.16
26 4 0.13
27 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATAATTATTTTATAATATATTTAA
Found at i:11859379 original size:22 final size:20
Alignment explanation
Indices: 11859345--11859386 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
11859335 ATCGTAGATC
11859345 AATTTTTTATCTTTTAAAATTA
1 AATTTTTTATC--TTAAAATTA
11859367 AATTATTTT-TCTTAAAATTA
1 AATT-TTTTATCTTAAAATTA
11859387 TTTTAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.47
22 6 0.32
23 4 0.21
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTTTTATCTTAAAATTA
Found at i:11860071 original size:15 final size:16
Alignment explanation
Indices: 11860045--11860086 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
11860035 ATTTAGTCAC
11860045 TAAATTTATTTAATAAA
1 TAAA-TTATTTAATAAA
* *
11860062 TAAA-TATTTATTACA
1 TAAATTATTTAATAAA
11860077 TAAATTATTT
1 TAAATTATTT
11860087 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 13 0.59
16 5 0.23
17 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATTATTTAATAAA
Found at i:11861368 original size:12 final size:12
Alignment explanation
Indices: 11861351--11861375 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11861341 CAAACAGAAG
11861351 GGGAGAGAGAGA
1 GGGAGAGAGAGA
11861363 GGGAGAGAGAGA
1 GGGAGAGAGAGA
11861375 G
1 G
11861376 AATTCAAGAC
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:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (12 bp):
GGGAGAGAGAGA
Found at i:11876835 original size:7 final size:7
Alignment explanation
Indices: 11876823--11876848 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11876813 TAAAAAATCT
11876823 AAATTTA
1 AAATTTA
11876830 AAATTTA
1 AAATTTA
11876837 AAATTTA
1 AAATTTA
11876844 AAATT
1 AAATT
11876849 ATATATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:11887835 original size:22 final size:22
Alignment explanation
Indices: 11887810--11887856 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
11887800 TATATTATTT
*
11887810 AAATTATTTACATTTATGTGTA
1 AAATTATTTACATCTATGTGTA
*
11887832 AAATTATTTACGTCTATGTGTA
1 AAATTATTTACATCTATGTGTA
11887854 AAA
1 AAA
11887857 AATTTATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (22 bp):
AAATTATTTACATCTATGTGTA
Found at i:11888176 original size:25 final size:25
Alignment explanation
Indices: 11888142--11888192 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11888132 TTGTCGCTGC
11888142 AGTACAGATTTCCAACATCATTGTT
1 AGTACAGATTTCCAACATCATTGTT
11888167 AGTACAGATTTCCAACATCATTGTT
1 AGTACAGATTTCCAACATCATTGTT
11888192 A
1 A
11888193 CCATTAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (25 bp):
AGTACAGATTTCCAACATCATTGTT
Found at i:11891067 original size:35 final size:37
Alignment explanation
Indices: 11891019--11891097 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 37
11891009 AATTTTAAAT
* *
11891019 ATAACAAACTTACAATAA-G-TATTAAATGGTAAAAA
1 ATAAAAAAATTACAATAACGTTATTAAATGGTAAAAA
*
11891054 ATAAAAAAATTACAATAACTGTTATTAAATGGTAATAA
1 ATAAAAAAATTACAATAAC-GTTATTAAATGGTAAAAA
*
11891092 ACAAAA
1 ATAAAA
11891098 TTAACAAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 16 0.43
37 1 0.03
38 20 0.54
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (37 bp):
ATAAAAAAATTACAATAACGTTATTAAATGGTAAAAA
Found at i:11893637 original size:51 final size:51
Alignment explanation
Indices: 11893560--11893691 Score: 135
Period size: 51 Copynumber: 2.6 Consensus size: 51
11893550 CCCCTACATG
* * * * * *
11893560 GCATAAGGCGCGGCCCAT-GTACCGCGCCTTAGC-CAGCGTGTCTCCATGTCA
1 GCATAAGGCGCGGTCCATGGGA-CGCGCCTTACCTCA-CGTGACGCCAGGTCA
*
11893611 GCATAAGGCGCGGTTCATGGGACGCGCCTTACCTCACGTGACGCCAGGTCA
1 GCATAAGGCGCGGTCCATGGGACGCGCCTTACCTCACGTGACGCCAGGTCA
* *
11893662 GCGTAAGGCGCGGTGCATAGGG-CGCGCCTT
1 GCATAAGGCGCGGTCCAT-GGGACGCGCCTT
11893692 CCTACAAAGG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
51 62 0.90
52 7 0.10
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (51 bp):
GCATAAGGCGCGGTCCATGGGACGCGCCTTACCTCACGTGACGCCAGGTCA
Found at i:11893889 original size:18 final size:18
Alignment explanation
Indices: 11893866--11893918 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
11893856 TTATATCATA
* * *
11893866 TCTTATCATTCTTGTTAG
1 TCTTATCAATCTTATCAG
11893884 TCTTATCAATCTTATCAG
1 TCTTATCAATCTTATCAG
* *
11893902 TCTTATTAATTTTATCA
1 TCTTATCAATCTTATCA
11893919 ATCATATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.53
Consensus pattern (18 bp):
TCTTATCAATCTTATCAG
Found at i:11893896 original size:9 final size:9
Alignment explanation
Indices: 11893859--11893921 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
11893849 AGAACAATTA
11893859 TATCATATCT
1 TATCA-ATCT
*
11893869 TATCATTCT
1 TATCAATCT
* * *
11893878 TGTTAGTCT
1 TATCAATCT
11893887 TATCAATCT
1 TATCAATCT
*
11893896 TATCAGTCT
1 TATCAATCT
* *
11893905 TATTAATTT
1 TATCAATCT
11893914 TATCAATC
1 TATCAATC
11893922 ATATATTAAA
Statistics
Matches: 40, Mismatches: 13, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
9 35 0.88
10 5 0.12
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (9 bp):
TATCAATCT
Found at i:11893898 original size:27 final size:27
Alignment explanation
Indices: 11893859--11893921 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
11893849 AGAACAATTA
* * *
11893859 TATCATATCTTATCATTCTTGTTAGTCT
1 TATCA-ATCTTATCAGTCTTATTAATCT
*
11893887 TATCAATCTTATCAGTCTTATTAATTT
1 TATCAATCTTATCAGTCTTATTAATCT
11893914 TATCAATC
1 TATCAATC
11893922 ATATATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (27 bp):
TATCAATCTTATCAGTCTTATTAATCT
Found at i:11894343 original size:55 final size:53
Alignment explanation
Indices: 11894248--11894382 Score: 195
Period size: 55 Copynumber: 2.6 Consensus size: 53
11894238 ATAAAAAATA
11894248 AAAAAATTCTAATAAATAAA-T-AATT-TTTTTATAATTATTTTTAAATGATT
1 AAAAAATTCTAATAAATAAATTAAATTATTTTTATAATTATTTTTAAATGATT
*
11894298 AAAAAATTCTAATAATTAAATTAAATTATTTTTATACAATTATTTTTAAATGATT
1 AAAAAATTCTAATAAATAAATTAAATTATTTTTAT--AATTATTTTTAAATGATT
* * *
11894353 CAGAAATTTTAATAAATAAATTAAATTATT
1 AAAAAATTCTAATAAATAAATTAAATTATT
11894383 ATTTTTTATT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
50 19 0.25
51 1 0.01
52 4 0.05
53 7 0.09
55 44 0.59
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (53 bp):
AAAAAATTCTAATAAATAAATTAAATTATTTTTATAATTATTTTTAAATGATT
Found at i:11895365 original size:19 final size:19
Alignment explanation
Indices: 11895341--11895380 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11895331 ATATTGGAAT
*
11895341 ATGCATTATTAACGTGTGC
1 ATGCATTATTAACGTGGGC
*
11895360 ATGCATTGTTAACGTGGGC
1 ATGCATTATTAACGTGGGC
11895379 AT
1 AT
11895381 TGAGTGAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (19 bp):
ATGCATTATTAACGTGGGC
Found at i:11896666 original size:36 final size:36
Alignment explanation
Indices: 11896626--11896696 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
11896616 ACAAACTTTT
* *
11896626 TTATTGTATCGTTTATCGACTCGTTTATAAGCTCGC
1 TTATTGGATCATTTATCGACTCGTTTATAAGCTCGC
* * *
11896662 TTATTGGCTTATTTATTGACTCGTTTATAAGCTCG
1 TTATTGGATCATTTATCGACTCGTTTATAAGCTCG
11896697 TTTACTCAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (36 bp):
TTATTGGATCATTTATCGACTCGTTTATAAGCTCGC
Found at i:11896928 original size:23 final size:23
Alignment explanation
Indices: 11896892--11896954 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
11896882 TTGCCGAATA
*
11896892 TTAAACAAATATGTTCATGAACG
1 TTAAACAAACATGTTCATGAACG
* *
11896915 TTAAATAAACATGTTCATGAATG
1 TTAAACAAACATGTTCATGAACG
* *
11896938 TTAGACGAACATGTTCA
1 TTAAACAAACATGTTCA
11896955 AAAACATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (23 bp):
TTAAACAAACATGTTCATGAACG
Found at i:11897590 original size:127 final size:124
Alignment explanation
Indices: 11897426--11897677 Score: 414
Period size: 127 Copynumber: 2.0 Consensus size: 124
11897416 AGTTCAAGCA
*
11897426 TCAATTTAGACAAAAAAAAAAGTATAAATATCAATTTGAGCTATTAGAAAAGCTATTTTAGGATA
1 TCAATTTAGAAAAAAAAAAAAGTATAAATATCAATTTGAGCTATTAGAAAAGCTATTTTAGGATA
* *
11897491 TGAAATTGAATTTTGTCCATATTTTGATATTGAAGTAAAGTTCATATCCTAAAGTGTAT
66 TGAAATTGAATTTTGTCCATATGTTGATATTGAAGTAAAGTTCATATCCTAAAATGTAT
* * *
11897550 TCAATTTAGAAAAAAAAAAGAAAGGTATAAATATCGATTTGAGCTATTAGGAAAGTTATTTTAGG
1 TCAATTTAG-AAAAAAAAA-AAA-GTATAAATATCAATTTGAGCTATTAGAAAAGCTATTTTAGG
*
11897615 ATATGAAATTGAATTTTGTCCATATGTTGATATTGAAGTCAAGTTCATATCCTAAAATGTAT
63 ATATGAAATTGAATTTTGTCCATATGTTGATATTGAAGTAAAGTTCATATCCTAAAATGTAT
11897677 T
1 T
11897678 AACCTAACAA
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
124 9 0.08
125 8 0.07
126 3 0.03
127 98 0.83
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (124 bp):
TCAATTTAGAAAAAAAAAAAAGTATAAATATCAATTTGAGCTATTAGAAAAGCTATTTTAGGATA
TGAAATTGAATTTTGTCCATATGTTGATATTGAAGTAAAGTTCATATCCTAAAATGTAT
Found at i:11899216 original size:13 final size:13
Alignment explanation
Indices: 11899198--11899223 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11899188 ACAGAAGCGC
11899198 ATATGAAGACTGT
1 ATATGAAGACTGT
11899211 ATATGAAGACTGT
1 ATATGAAGACTGT
11899224 TCAAATATGT
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:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
ATATGAAGACTGT
Found at i:11900464 original size:13 final size:13
Alignment explanation
Indices: 11900446--11900470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11900436 ATAAAGAAAA
11900446 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
11900459 TTTTTGTTTTTT
1 TTTTTGTTTTTT
11900471 TTGGTTGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:11902709 original size:14 final size:14
Alignment explanation
Indices: 11902692--11902723 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11902682 GTATTGCACA
11902692 GCAGCAGGTGCATG
1 GCAGCAGGTGCATG
*
11902706 GCAGTAGGTGCATG
1 GCAGCAGGTGCATG
11902720 GCAG
1 GCAG
11902724 GCAGCAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.44, T:0.16
Consensus pattern (14 bp):
GCAGCAGGTGCATG
Found at i:11902973 original size:2 final size:2
Alignment explanation
Indices: 11902966--11903047 Score: 157
Period size: 2 Copynumber: 41.5 Consensus size: 2
11902956 AATACATCAG
11902966 TA TA TA TA TA TA 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 TA TA TA TA TA TA
11903008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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 T
11903048 GCATAATACT
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 78 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11903301 original size:20 final size:20
Alignment explanation
Indices: 11903273--11903382 Score: 139
Period size: 20 Copynumber: 5.5 Consensus size: 20
11903263 CTTAATTCGT
*
11903273 AATGCGAATACGTAAATTGC
1 AATGCGAATACGTAAATCGC
* ** *
11903293 AACGCGAATTTGGAAAATCGC
1 AATGCGAA-TACGTAAATCGC
*
11903314 AATGCGATTACGTAAATCGC
1 AATGCGAATACGTAAATCGC
11903334 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
11903354 AATGCGAATATGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
11903374 AACGCGAAT
1 AATGCGAAT
11903383 CTGACTATCG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 62 0.82
21 14 0.18
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (20 bp):
AATGCGAATACGTAAATCGC
Found at i:11903369 original size:40 final size:40
Alignment explanation
Indices: 11903273--11903400 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
11903263 CTTAATTCGT
* **
11903273 AATGCGAATACGTAAATTGCAACGCGAATTTGGAAAATCGC
1 AATGCGAATACGTAAATCGCAACGCGAA-TACGAAAATCGC
* * *
11903314 AATGCGATTACGTAAATCGCAATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGCAACGCGAATACGAAAATCGC
* **
11903354 AATGCGAATATGTAAATCGCAACGCGAAT-CTGACTATCGC
1 AATGCGAATACGTAAATCGCAACGCGAATAC-GAAAATCGC
11903394 AATGCGA
1 AATGCGA
11903401 TTTACATAGC
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 48 0.65
41 25 0.34
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (40 bp):
AATGCGAATACGTAAATCGCAACGCGAATACGAAAATCGC
Found at i:11903604 original size:22 final size:22
Alignment explanation
Indices: 11903579--11903644 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
11903569 GGCGACATCC
11903579 GTCCTCATCTCCGACGAAATCA
1 GTCCTCATCTCCGACGAAATCA
* *
11903601 GTCCCCATCTCCGACGATATCA
1 GTCCTCATCTCCGACGAAATCA
*
11903623 GT-CTCCATCTCCGGCGAAATCA
1 GTCCT-CATCTCCGACGAAATCA
11903645 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCTCATCTCCGACGAAATCA
Found at i:11904030 original size:15 final size:15
Alignment explanation
Indices: 11904010--11904039 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11904000 ATTGCGATTC
11904010 TTGCGTTGCGATAGT
1 TTGCGTTGCGATAGT
*
11904025 TTGCGTTGGGATAGT
1 TTGCGTTGCGATAGT
11904040 CATTTTCGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.37, T:0.40
Consensus pattern (15 bp):
TTGCGTTGCGATAGT
Found at i:11904062 original size:20 final size:20
Alignment explanation
Indices: 11904039--11904076 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
11904029 GTTGGGATAG
11904039 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
11904059 TCATTTTCGTGTTGCGAT
1 TCATTTTCGTGTTGCGAT
11904077 ATAAAGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.16, G:0.21, T:0.53
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:11904086 original size:20 final size:20
Alignment explanation
Indices: 11904043--11904086 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
11904033 GGATAGTCAT
* ** *
11904043 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATATAAAG
11904063 TTTCGTGTTGCGATATAAAG
1 TTTCGTGTTGCGATATAAAG
11904083 TTTC
1 TTTC
11904087 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCGATATAAAG
Found at i:11905993 original size:20 final size:20
Alignment explanation
Indices: 11905968--11906110 Score: 156
Period size: 20 Copynumber: 7.5 Consensus size: 20
11905958 AGAATAGTTT
11905968 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
11905988 ACTATCACAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
11906008 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
11906024 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** * *
11906041 AAAATTGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
11906061 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
11906081 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
11906101 ACTATCGCAA
1 ACTATCGCAA
11906111 CGAAAGAATC
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
14 7 0.07
16 6 0.06
17 4 0.04
18 2 0.02
19 9 0.09
20 76 0.73
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:11906127 original size:93 final size:93
Alignment explanation
Indices: 11905968--11906138 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
11905958 AGAATAGTTT
*
11905968 ACTATCGCAATGCGAAAATGACTATCACAACGCGAAAATGACTATCGCAACGAGAGAATCGCAAT
1 ACTATCGCAATGCGAAAATGACTATCACAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
11906033 GCGAAATGAAAATTGCAACGCGAAAATG
66 GCGAAATGAAAATTGCAACGCGAAAATG
* * **
11906061 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAAT
1 ACTATCGCAATGCGAAAATGACTATCACAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
11906126 GCGAAATGAAAAT
66 GCGAAATGAAAAT
11906139 CGCATTGCGA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (93 bp):
ACTATCGCAATGCGAAAATGACTATCACAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
GCGAAATGAAAATTGCAACGCGAAAATG
Found at i:11906180 original size:20 final size:20
Alignment explanation
Indices: 11906155--11906203 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
11906145 GCGATTCTCT
11906155 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
**
11906175 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCAAATTCG
*
11906195 CGTTGCGAT
1 CATTGCGAT
11906204 TTTAAGTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CATTGCGATAGTCAAATTCG
Found at i:11906727 original size:18 final size:19
Alignment explanation
Indices: 11906688--11906729 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
11906678 CTCACCTATC
11906688 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
11906709 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
11906727 ATC
1 ATC
11906730 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:11906741 original size:42 final size:42
Alignment explanation
Indices: 11906682--11906765 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
11906672 GCCCGACTCA
** * *
11906682 CCTATCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCC-CCTCCCACCGTTCAAGAGGCC
*
11906724 CCTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
11906766 ACTTTCATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.21, C:0.40, G:0.17, T:0.21
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
Found at i:11908371 original size:34 final size:33
Alignment explanation
Indices: 11908283--11908378 Score: 147
Period size: 33 Copynumber: 2.8 Consensus size: 33
11908273 AAAACAGACT
**
11908283 ATCGCAATGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
11908317 ATCCCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
11908350 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
11908379 CGAAACTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:11908418 original size:20 final size:19
Alignment explanation
Indices: 11908389--11908455 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
11908379 CGAAACTAAA
*
11908389 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
11908409 TTCGCATTGCGA--TTCA-
1 TTCGCATTGCGATTTTCAT
*
11908425 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
11908442 TTCGCATTGCGATT
1 TTCGCATTGCGATT
11908456 CTCTCGTTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
14 6 0.15
16 7 0.18
17 3 0.08
18 4 0.10
19 8 0.21
20 11 0.28
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:11908436 original size:34 final size:34
Alignment explanation
Indices: 11908393--11908488 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
11908383 ACTAAATTCG
11908393 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
11908427 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
11908460 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
11908489 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:11908485 original size:20 final size:20
Alignment explanation
Indices: 11908460--11908548 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
11908450 GCGATTCTCT
11908460 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
11908480 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
11908500 CGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCCG
* *
11908520 TGTTGTGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
11908540 CGTTGCGAT
1 CGTTGCGAT
11908549 TTCCGCGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:11911006 original size:24 final size:24
Alignment explanation
Indices: 11910979--11911032 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
11910969 TTGAAAAATC
11910979 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
11911003 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
11911027 ATCAAA
1 ATCAAA
11911033 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:11911897 original size:20 final size:20
Alignment explanation
Indices: 11911872--11911918 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
11911862 AAATTCAGTA
*
11911872 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
11911892 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
11911912 TTGCGAT
1 TTGCGAT
11911919 TTACATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:11911928 original size:20 final size:20
Alignment explanation
Indices: 11911905--11912038 Score: 169
Period size: 20 Copynumber: 6.7 Consensus size: 20
11911895 CGATAGTCAG
* *
11911905 ATTCGCGTTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
*
11911925 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
11911945 ATTCGTATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
11911965 ATTCGCATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
* * **
11911985 ATTCGCATTGCAATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
11912006 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
11912026 ATTCGCATTGCGA
1 ATTCGCATTGCGA
11912039 ATTAGGAAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
20 80 0.84
21 15 0.16
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:11912031 original size:61 final size:60
Alignment explanation
Indices: 11911905--11912038 Score: 169
Period size: 61 Copynumber: 2.2 Consensus size: 60
11911895 CGATAGTCAG
* * ** *
11911905 ATTCGCGTTGCGATTTACATATTCACATTGCGATTTACGTATTCGTATTACGATTTACGT
1 ATTCGCATTGCGATTTACATATTCACATTGCAATTTACAAATTCGCATTACGATTTACGT
** * * *
11911965 ATTCGCATTGCGATTTATGTATTCGCATTGCAATTTTCCAAATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACATATTCACATTGCAA-TTTACAAATTCGCATTACGATTTACGT
11912026 ATTCGCATTGCGA
1 ATTCGCATTGCGA
11912039 ATTAGGAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 28 0.44
61 35 0.56
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (60 bp):
ATTCGCATTGCGATTTACATATTCACATTGCAATTTACAAATTCGCATTACGATTTACGT
Found at i:11912053 original size:41 final size:41
Alignment explanation
Indices: 11911905--11912053 Score: 151
Period size: 40 Copynumber: 3.7 Consensus size: 41
11911895 CGATAGTCAG
* * * *
11911905 ATTCGCGTTGCGATTTAC-ATATTCACATTGCGATTTACGT
1 ATTCGCATTGCGAATTACGAAATTCGCATTGCGATTTACGT
* * * * *
11911945 ATTCGTATTACGATTTACG-TATTCGCATTGCGATTTATGT
1 ATTCGCATTGCGAATTACGAAATTCGCATTGCGATTTACGT
* *
11911985 ATTCGCATTGC-AATTTTCCAAATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGAA-TTACGAAATTCGCATTGCGATTTACGT
* *
11912026 ATTCGCATTGCGAATTAGGAAAATCGCA
1 ATTCGCATTGCGAATTACGAAATTCGCA
11912054 ACGCGAATTT
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 46 0.52
41 40 0.45
42 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (41 bp):
ATTCGCATTGCGAATTACGAAATTCGCATTGCGATTTACGT
Found at i:11912059 original size:21 final size:21
Alignment explanation
Indices: 11912035--11912080 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
11912025 TATTCGCATT
*
11912035 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCACAAC
* *
11912056 GCGAATTTGGAAAATCACAAT
1 GCGAATTAGGAAAATCACAAC
11912077 GCGA
1 GCGA
11912081 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCACAAC
Found at i:11913546 original size:17 final size:17
Alignment explanation
Indices: 11913524--11913564 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
11913514 ACGGTCGATT
*
11913524 GTTGACCGTTGACATGC
1 GTTGACCGTTGACAGGC
*
11913541 GTTGACCGTTGACCGGC
1 GTTGACCGTTGACAGGC
11913558 GTTGACC
1 GTTGACC
11913565 ACTGTTAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.27, G:0.32, T:0.27
Consensus pattern (17 bp):
GTTGACCGTTGACAGGC
Found at i:11913613 original size:32 final size:32
Alignment explanation
Indices: 11913549--11913619 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
11913539 GCGTTGACCG
*
11913549 TTGACCGGCGTTGACCACTGTTAACCAGAACT
1 TTGACCGGCGTTGACCACTGTTAAACAGAACT
*
11913581 TTGACCGGCGTTGACCGGGC-GTTAAACA-AACT
1 TTGACCGGCGTTGACC--ACTGTTAAACAGAACT
11913613 TTGACCG
1 TTGACCG
11913620 AGTATACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 27 0.77
33 7 0.20
34 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (32 bp):
TTGACCGGCGTTGACCACTGTTAAACAGAACT
Found at i:11915798 original size:24 final size:24
Alignment explanation
Indices: 11915771--11915828 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
11915761 TATCTGATTT
* *
11915771 CTGATTTGAATTCTGTTATGATAC
1 CTGATATGAATTCTGATATGATAC
* *
11915795 CTGACATGGATTCTGATATGATAC
1 CTGATATGAATTCTGATATGATAC
* *
11915819 TTGATCTGAA
1 CTGATATGAA
11915829 CTATATTTTG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (24 bp):
CTGATATGAATTCTGATATGATAC
Found at i:11915965 original size:57 final size:57
Alignment explanation
Indices: 11915897--11916068 Score: 254
Period size: 57 Copynumber: 3.0 Consensus size: 57
11915887 GTTGGAGGAA
* * *
11915897 GAATACTTGCAGGTTCCTCGGCTTTGTACTGAGAGCCTTATTGTTCGTGACAGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
* *
11915954 GAATACTTGCAGGTTCCTCGGCTTTGTGTTGAGAGCCTTACTATTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
* * * * *
11916011 GAATACTTGCAGGTTCATTGGCTTTGTGCTCAGGGCCTTACTGTTTGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
11916068 G
1 G
11916069 GATGGTTATG
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 103 1.00
ACGTcount: A:0.16, C:0.19, G:0.30, T:0.35
Consensus pattern (57 bp):
GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
Found at i:11917123 original size:69 final size:70
Alignment explanation
Indices: 11916990--11917128 Score: 226
Period size: 69 Copynumber: 2.0 Consensus size: 70
11916980 CGTTAATGCA
*
11916990 TTGATGAACAATGAATTCGTGCCAAGTGACTTATATTTTTCTACATAATATAATCATCGAACTTG
1 TTGATCAACAATGAATTCGTGCCAAGTGACTTATATTTTTCTACATAATATAATCATCGAACTTG
11917055 AAAAG
66 AAAAG
** * *
11917060 TTGATCAACAATGAATTCGTGTTAAGTGACTT-TATTTTTGTGCATAATATAATCATCGAACTTG
1 TTGATCAACAATGAATTCGTGCCAAGTGACTTATATTTTTCTACATAATATAATCATCGAACTTG
11917124 AAAAG
66 AAAAG
11917129 ATAATTATCA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
69 35 0.55
70 29 0.45
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (70 bp):
TTGATCAACAATGAATTCGTGCCAAGTGACTTATATTTTTCTACATAATATAATCATCGAACTTG
AAAAG
Found at i:11922242 original size:19 final size:19
Alignment explanation
Indices: 11922218--11922273 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
11922208 AAATAATTTT
*
11922218 ATTTTTGTTTATATTATTG
1 ATTTTTATTTATATTATTG
* *
11922237 ATTTTTTTTTATATTTATAG
1 ATTTTTATTTATA-TTATTG
*
11922257 AGTTTTATTTAT-TTATT
1 ATTTTTATTTATATTATT
11922274 TTAAATTTCG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 4 0.13
19 12 0.39
20 15 0.48
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
ATTTTTATTTATATTATTG
Found at i:11926221 original size:16 final size:16
Alignment explanation
Indices: 11926195--11926240 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
11926185 TATCACCGAC
*
11926195 CAAATTTTACTATTCA
1 CAAAATTTACTATTCA
*
11926211 CGAAATTTACTATTCA
1 CAAAATTTACTATTCA
11926227 CAAAATTTACTATT
1 CAAAATTTACTATT
11926241 TATGTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (16 bp):
CAAAATTTACTATTCA
Found at i:11929678 original size:20 final size:20
Alignment explanation
Indices: 11929655--11929742 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
11929645 GTTTCCAAAT
*
11929655 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATTTGTAAA
** * *
11929675 TCGCATTGCGATTTTCTAAA
1 TCGCAACGCGAATTTGTAAA
* *
11929695 TTCACAACGCGAATCTGTAAA
1 -TCGCAACGCGAATTTGTAAA
11929716 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
11929736 TCGCAAC
1 TCGCAAC
11929743 ACATAAGTCA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 40 0.74
21 14 0.26
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGAATTTGTAAA
Found at i:11929736 original size:41 final size:41
Alignment explanation
Indices: 11929646--11929736 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
11929636 CGCAACCCAG
* * ** *
11929646 TTTCCAAATTCGCAACGCGAATATGTAAATCGCATTGCGAT
1 TTTCTAAATTCACAACGCGAATATGTAAATCGCAACGCGAA
*
11929687 TTTCTAAATTCACAACGCGAATCTGTAAATCGCAACGCGAA
1 TTTCTAAATTCACAACGCGAATATGTAAATCGCAACGCGAA
*
11929728 TTTGTAAAT
1 TTTCTAAAT
11929737 CGCAACACAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (41 bp):
TTTCTAAATTCACAACGCGAATATGTAAATCGCAACGCGAA
Found at i:11929759 original size:20 final size:20
Alignment explanation
Indices: 11929736--11929939 Score: 163
Period size: 20 Copynumber: 10.1 Consensus size: 20
11929726 AATTTGTAAA
11929736 TCGCAACACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
* **
11929756 TCGCAATACGGAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
11929776 TCGCAACAC-TGAAGACAAAT
1 TCGCAACACAT-AAGTCAAAT
11929796 TCGCAACAC-TGAAGTCAAAT
1 TCGCAACACAT-AAGTCAAAT
**
11929816 TCGCAACACGAATCTGT-AAA-
1 TCGCAACAC--ATAAGTCAAAT
11929836 TCGCAACAC-TGAAGTCAAAT
1 TCGCAACACAT-AAGTCAAAT
*
11929856 TCGCAACAC-TGAATTTCAAAT
1 TCGCAACACAT-AA-GTCAAAT
* *
11929877 TCGCAACATAAAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
11929897 TCGCAACGCGA-ATAGTCAAAT
1 TCGCAACAC-ATA-AGTCAAAT
*
11929918 TCGCAACGCGA-AAGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
11929938 TC
1 TC
11929940 ACAAAGCGTG
Statistics
Matches: 156, Mismatches: 17, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.01
18 2 0.01
19 3 0.02
20 107 0.69
21 40 0.26
22 2 0.01
23 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (20 bp):
TCGCAACACATAAGTCAAAT
Found at i:11929800 original size:60 final size:59
Alignment explanation
Indices: 11929736--11929939 Score: 220
Period size: 60 Copynumber: 3.4 Consensus size: 59
11929726 AATTTGTAAA
* *
11929736 TCGCAACACAT-AAGTCAAATTCGCAATACGGAAGTCAAATTCGCAACACTGAAGACAAAT
1 TCGCAACAC-TGAAGTCAAATTCGCAACAC-GAAGTCAAATTCGCAACACTGAAGTCAAAT
11929796 TCGCAACACTGAAGTCAAATTCGCAACACGAA-TCTGTAAA-TCGCAACACTGAAGTCAAAT
1 TCGCAACACTGAAGTCAAATTCGCAACACGAAGTC---AAATTCGCAACACTGAAGTCAAAT
* ** *
11929856 TCGCAACACTGAATTTCAAATTCGCAACATAAAAGTCAAATTCGCAACGC-GAATAGTCAAAT
1 TCGCAACACTGAA-GTCAAATTCGCAACA-CGAAGTCAAATTCGCAACACTG-A-AGTCAAAT
*
11929918 TCGCAACGC-GAAAGTCAAATTC
1 TCGCAACACTG-AAGTCAAATTC
11929940 ACAAAGCGTG
Statistics
Matches: 125, Mismatches: 8, Indels: 21
0.81 0.05 0.14
Matches are distributed among these distances:
58 2 0.02
59 4 0.03
60 62 0.50
61 35 0.28
62 20 0.16
63 2 0.02
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (59 bp):
TCGCAACACTGAAGTCAAATTCGCAACACGAAGTCAAATTCGCAACACTGAAGTCAAAT
Found at i:11929893 original size:41 final size:41
Alignment explanation
Indices: 11929736--11929939 Score: 208
Period size: 40 Copynumber: 5.0 Consensus size: 41
11929726 AATTTGTAAA
* **
11929736 TCGCAACAC--ATAAGTCAAATTCGCAATACGGAAGTCAAAT
1 TCGCAACACGAAT-AGTCAAATTCGCAACACTAAAGTCAAAT
* *
11929776 TCGCAACACTG-A-AGACAAATTCGCAACACTGAAGTCAAAT
1 TCGCAACAC-GAATAGTCAAATTCGCAACACTAAAGTCAAAT
* *
11929816 TCGCAACACGAATCTGT-AAA-TCGCAACACTGAAGTCAAAT
1 TCGCAACACGAAT-AGTCAAATTCGCAACACTAAAGTCAAAT
*
11929856 TCGCAACACTGAAT-TTCAAATTCGCAACA-TAAAAGTCAAAT
1 TCGCAACAC-GAATAGTCAAATTCGCAACACT-AAAGTCAAAT
* * *
11929897 TCGCAACGCGAATAGTCAAATTCGCAACGCGAAAGTCAAAT
1 TCGCAACACGAATAGTCAAATTCGCAACACTAAAGTCAAAT
11929938 TC
1 TC
11929940 ACAAAGCGTG
Statistics
Matches: 142, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
39 2 0.01
40 81 0.57
41 57 0.40
42 2 0.01
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (41 bp):
TCGCAACACGAATAGTCAAATTCGCAACACTAAAGTCAAAT
Found at i:11933045 original size:3 final size:3
Alignment explanation
Indices: 11933039--11933080 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
11933029 TATTATTTTT
*
11933039 TAA TAA TAA TATA TAA TAA T-A TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11933081 AATGGGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:11933064 original size:18 final size:20
Alignment explanation
Indices: 11933039--11933079 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11933029 TATTATTTTT
11933039 TAATAATAATATATAATAATA
1 TAATAATAAT-TATAATAATA
11933060 TAATAATAATTATAATAATA
1 TAATAATAATTATAATAATA
11933080 AAATGGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATAATAATTATAATAATA
Found at i:11933439 original size:113 final size:113
Alignment explanation
Indices: 11933305--11934364 Score: 1385
Period size: 113 Copynumber: 9.3 Consensus size: 113
11933295 TAGAGTCATT
* * * * *
11933305 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
***** ** * *
11933370 TTATGAACTTTCTTTGGAAAAACTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTAAG
* *
11933418 CAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
* * * * * * *
11933483 TCATTATGAACTCTACCTGGCAATGTTAATCCATCAAAT-ATGAATTTAAA
63 TCATTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTAAG
* * *
11933533 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * ** * * *
11933598 TTATGAACTTC--TCTTGAAAAACTGATCCATCAAATGATGAATTCAAT
66 TTATGAAC-TCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTAAG
11933645 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
11933710 TTATGAACTCGAACTGGTAACGCTGATCCATTGAA-TGATGAATTCAAT
66 TTATGAACTCGAACTGGAAATGCTGATCCA-TCAAGTGATGAATTTAAG
* *
11933758 CAAAAATTTGAACAACTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * * *
11933823 ATATGAACTCGAACTGGTAACGCTGATCTATTGAA-TGATGAATTCAAT
66 TTATGAACTCGAACTGGAAATGCTGATCCA-TCAAGTGATGAATTTAAG
11933871 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * *
11933936 ATATGAACTCGAACTGGTAACGCTGATCCATTGAA-TCATGAATTCAAG
66 TTATGAACTCGAACTGGAAATGCTGATCCA-TCAAGTGATGAATTTAAG
**
11933984 CAAAAAGTTGAGTAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
11934049 TTATGAACTCGAACTGGAAATGTTGATCCACCGAGTGATGAATTTAAG
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTAAG
*
11934097 CAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
11934162 TTATGAACTCGAACTGGAAATGTTGATCCACCGAGTGATGAATTTAAG
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTAAG
11934210 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
* * * * *
11934275 TCATTATGAACTCAAATTGGAAATGTTGATCCACCGAGTGATGAATTTAAG
63 TCATTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTAAG
11934326 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
11934365 AGATGATGAG
Statistics
Matches: 868, Mismatches: 67, Indels: 21
0.91 0.07 0.02
Matches are distributed among these distances:
111 19 0.02
112 103 0.12
113 546 0.63
114 3 0.00
115 56 0.06
116 141 0.16
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTAAG
Found at i:11935355 original size:94 final size:94
Alignment explanation
Indices: 11935187--11935746 Score: 888
Period size: 94 Copynumber: 6.0 Consensus size: 94
11935177 CTTATTTCTA
* *
11935187 CTATGAGCACATTCATCTTTCAAATCCAATGATTGG-TTTTTGAGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
11935251 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
11935280 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
11935345 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
* * *
11935374 CTATGATCACATTCATCTTACAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
11935439 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
* * *
11935468 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTAGA-GTTCATATCAAACCAAATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
11935532 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
* *
11935561 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTAG-GGTTCATATCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
* *
11935625 GATAACTCAAAAAAACACTTCTAGAAGATG
66 GATAACTC-AAAGAACACTTCCAGAAGATG
* *
11935655 CTATGAGCACATTCATCTTCTAAATTCAATGATT-G-TTTTT-AGGGT--T--CAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
* *
11935713 GATAACTCAAAAAAACACTTCTAGAAGATG
66 GATAACTC-AAAGAACACTTCCAGAAGATG
11935743 CTAT
1 CTAT
11935747 TAGGTCTACG
Statistics
Matches: 446, Mismatches: 17, Indels: 13
0.94 0.04 0.03
Matches are distributed among these distances:
88 46 0.10
90 1 0.00
92 7 0.02
93 152 0.34
94 240 0.54
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (94 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
GATAACTCAAAGAACACTTCCAGAAGATG
Found at i:11936759 original size:7 final size:7
Alignment explanation
Indices: 11936747--11936790 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
11936737 ATCTTGACCC
11936747 CTTTTTT
1 CTTTTTT
11936754 CTTTTTT
1 CTTTTTT
11936761 CTCTTTTT
1 CT-TTTTT
*
11936769 TTTTCTTT
1 CTTT-TTT
11936777 CTTTTTT
1 CTTTTTT
11936784 CTTTTTT
1 CTTTTTT
11936791 TCTCTTCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 21 0.64
8 12 0.36
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
CTTTTTT
Found at i:11936770 original size:10 final size:10
Alignment explanation
Indices: 11936755--11936796 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
11936745 CCCTTTTTTC
11936755 TTTTTTCTCT
1 TTTTTTCTCT
*
11936765 TTTTTTTTCT
1 TTTTTTCTCT
*
11936775 TTCTTTTTTCT
1 TT-TTTTCTCT
11936786 TTTTTTCTCT
1 TTTTTTCTCT
11936796 T
1 T
11936797 CAAGCATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:11948082 original size:22 final size:21
Alignment explanation
Indices: 11948057--11948115 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
11948047 TTCTTCGATA
11948057 TTAATAATATTAATATAATAAT
1 TTAATAATATTAATATAAT-AT
*
11948079 TTAAATAA-ATTAAATTATAATTT
1 TT-AATAATATT-AA-TATAATAT
*
11948102 TTTATAATATTAAT
1 TTAATAATATTAAT
11948116 TTTAAAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 1 0.03
22 11 0.35
23 13 0.42
24 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATAATATTAATATAATAT
Found at i:11948116 original size:22 final size:22
Alignment explanation
Indices: 11948060--11948116 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 22
11948050 TTCGATATTA
11948060 ATAATATTAA-TATAATAATTT
1 ATAATATTAATTATAATAATTT
**
11948081 A-AATAAATTAAATTATAATTTTTT
1 ATAAT--ATT-AATTATAATAATTT
11948105 ATAATATTAATT
1 ATAATATTAATT
11948117 TTAAAATACC
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 3 0.10
21 1 0.03
22 7 0.24
23 5 0.17
24 10 0.34
25 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAATATTAATTATAATAATTT
Found at i:11949444 original size:3 final size:3
Alignment explanation
Indices: 11949438--11949483 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
11949428 TATTATTTTT
*
11949438 TAA TAA TAA -AA TATA TAA TAA TTAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
11949484 ATAAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:11949462 original size:22 final size:23
Alignment explanation
Indices: 11949437--11949493 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
11949427 TTATTATTTT
11949437 TTAATAATAAAATAT-ATAATAA
1 TTAATAATAAAATATAATAATAA
*
11949459 TTAATAAT-AATTATAATAATAA
1 TTAATAATAAAATATAATAATAA
* *
11949481 TAAATAAAAAAAT
1 TTAATAATAAAAT
11949494 TTAGTATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 5 0.17
22 21 0.72
23 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TTAATAATAAAATATAATAATAA
Found at i:11949487 original size:19 final size:19
Alignment explanation
Indices: 11949438--11949483 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
11949428 TATTATTTTT
11949438 TAATAATAA-AATATATAA
1 TAATAATAATAATATATAA
11949456 TAATTAATAATAAT-TATAA
1 TAA-TAATAATAATATATAA
11949475 TAATAATAA
1 TAATAATAA
11949484 ATAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.35
19 14 0.54
20 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATAATAATAATATATAA
Found at i:11949918 original size:3 final size:3
Alignment explanation
Indices: 11949910--11949960 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
11949900 ATTTTAAAAT
*
11949910 TTA TTA TTA TTA -TA TTA TTA TTA TTA TT- TTA ATA TATA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA
*
11949955 ATA TTA
1 TTA TTA
11949961 CAAAACCCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 4 0.10
5 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:11949929 original size:14 final size:14
Alignment explanation
Indices: 11949914--11949960 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
11949904 TAAAATTTAT
*
11949914 TATTATTATATTAT
1 TATTATTATATTAA
*
11949928 TATTATTATTTTAA
1 TATTATTATATTAA
11949942 TATATATT-TATTAA
1 TAT-TATTATATTAA
11949956 TATTA
1 TATTA
11949961 CAAAACCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 23 0.79
15 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATTATATTAA
Found at i:11951026 original size:15 final size:14
Alignment explanation
Indices: 11951003--11951066 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
11950993 AATATGATCC
11951003 ATTAGTTTTAATATT
1 ATTA-TTTTAATATT
11951018 ATTACTTTTAAT-TT
1 ATTA-TTTTAATATT
*
11951032 TTTAATTTTAATTATT
1 ATT-ATTTTAA-TATT
* *
11951048 GTTATTTT-ATTTT
1 ATTATTTTAATATT
11951061 ATTATT
1 ATTATT
11951067 ACGTTGATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 8 0.20
14 11 0.27
15 18 0.44
16 4 0.10
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (14 bp):
ATTATTTTAATATT
Found at i:11951126 original size:21 final size:21
Alignment explanation
Indices: 11951100--11951140 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11951090 TATCTTCATG
*
11951100 ATAATTTTAT-TATTATTATTA
1 ATAATTTAATATATT-TTATTA
11951121 ATAATTTAATATATTTTATT
1 ATAATTTAATATATTTTATT
11951141 TATTTATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATAATTTAATATATTTTATTA
Done.