Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 340 of 362
Found at i:112993708 original size:12 final size:12
Alignment explanation
Indices: 112993693--112993717 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112993683 CAAAAAGGGA
112993693 AAAAAAAAAAAC
1 AAAAAAAAAAAC
112993705 AAAAAAAAAAAC
1 AAAAAAAAAAAC
112993717 A
1 A
112993718 CTGTGACCCC
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:112995701 original size:20 final size:20
Alignment explanation
Indices: 112995664--112995702 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
112995654 CTCACCAGCC
* *
112995664 AATTTATTTTTTACTAATTG
1 AATTGATTTTGTACTAATTG
*
112995684 AATTGATTTTGTATTAATT
1 AATTGATTTTGTACTAATT
112995703 ATTTGAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (20 bp):
AATTGATTTTGTACTAATTG
Found at i:112995833 original size:20 final size:21
Alignment explanation
Indices: 112995799--112995839 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
112995789 TATAATTTTG
112995799 AATTCTTTTATTTAAT-TTAT
1 AATTCTTTTATTTAATATTAT
112995819 AATTCTTTTCA-TTAATATTAT
1 AATTCTTTT-ATTTAATATTAT
112995840 GGGATGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTCTTTTATTTAATATTAT
Found at i:112998133 original size:13 final size:13
Alignment explanation
Indices: 112998115--112998139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112998105 ACATGTCTAT
112998115 TTTTAAAAATATA
1 TTTTAAAAATATA
112998128 TTTTAAAAATAT
1 TTTTAAAAATAT
112998140 TTTACTATGC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTAAAAATATA
Found at i:113004501 original size:21 final size:21
Alignment explanation
Indices: 113004462--113004501 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
113004452 AACTCACATA
*
113004462 AACATTTTAACTAATTTAATT
1 AACATTTTAACTAAGTTAATT
113004483 AACATTATTAAC-AAGTTAA
1 AACATT-TTAACTAAGTTAA
113004502 GCTAACTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (21 bp):
AACATTTTAACTAAGTTAATT
Found at i:113016106 original size:10 final size:10
Alignment explanation
Indices: 113016093--113016152 Score: 52
Period size: 10 Copynumber: 5.8 Consensus size: 10
113016083 CATTTAAATT
113016093 ATTTTATATA
1 ATTTTATATA
*
113016103 ATTTTCTATA
1 ATTTTATATA
113016113 A-TTTATA-A
1 ATTTTATATA
113016121 ATTTTTATATA
1 A-TTTTATATA
*
113016132 TATTTAATATTTA
1 -ATTT--TATATA
113016145 ATTTTATA
1 ATTTTATA
113016153 ATATTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
8 2 0.05
9 5 0.12
10 19 0.47
11 4 0.10
12 5 0.12
13 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTATATA
Found at i:113016106 original size:29 final size:30
Alignment explanation
Indices: 113016094--113016173 Score: 81
Period size: 36 Copynumber: 2.5 Consensus size: 30
113016084 ATTTAAATTA
113016094 TTTTATATA-ATTTTCTATAATTTATAAAT
1 TTTTATATATATTTTCTATAATTTATAAAT
* *
113016123 TTTTATATATATTTAATATTTAATTTTATAATATTT
1 TTTTATATATATTT--TCTATAA-TTTATAA-A--T
113016159 TTTTATATATATTTT
1 TTTTATATATATTTT
113016174 TAAAACTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 9 0.21
30 4 0.10
32 5 0.12
33 7 0.17
34 2 0.05
36 15 0.36
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTATATATATTTTCTATAATTTATAAAT
Found at i:113016129 original size:17 final size:19
Alignment explanation
Indices: 113016095--113016129 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
113016085 TTTAAATTAT
113016095 TTTATATAATTTTCTATAA
1 TTTATATAATTTTCTATAA
113016114 TTTATA-AATTTT-TATA
1 TTTATATAATTTTCTATA
113016130 TATATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATATAATTTTCTATAA
Found at i:113016131 original size:19 final size:20
Alignment explanation
Indices: 113016095--113016158 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 20
113016085 TTTAAATTAT
*
113016095 TTTATATAATTTTCTATA-A
1 TTTATATAATTTTATATATA
113016114 TTTATA-AATTTTTATATATA
1 TTTATATAA-TTTTATATATA
113016134 TTTAATATTTAATTTTATA-ATA
1 TTT-ATA--TAATTTTATATATA
113016156 TTT
1 TTT
113016159 TTTTATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
18 2 0.05
19 14 0.37
20 4 0.11
21 3 0.08
22 6 0.16
23 7 0.18
24 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATATAATTTTATATATA
Found at i:113016162 original size:13 final size:13
Alignment explanation
Indices: 113016136--113016174 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
113016126 TATATATATT
113016136 TAATATTTAATTTTA
1 TAATATTT--TTTTA
113016151 TAATATTTTTTTA
1 TAATATTTTTTTA
113016164 TATATATTTTT
1 TA-ATATTTTT
113016175 AAAACTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TAATATTTTTTTA
Found at i:113016233 original size:25 final size:23
Alignment explanation
Indices: 113016138--113016234 Score: 70
Period size: 25 Copynumber: 4.0 Consensus size: 23
113016128 TATATATTTA
*
113016138 ATATTTAATTTTATAATATTTTT
1 ATATTTAATTTTATAAAATTTTT
* * *
113016161 TTATATATATTTT-TAAAACTTTATG
1 ATATTTA-ATTTTATAAAA-TTT-TT
* *
113016186 ATATTTAATTCTTTTATAGATTTTT
1 ATATTTAATT-TTATA-AAATTTTT
113016211 ATATTTATATTTTAATAAAATTTT
1 ATATTTA-ATTTT-ATAAAATTTT
113016235 GGATAATTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
23 9 0.16
24 11 0.20
25 24 0.43
26 10 0.18
27 2 0.04
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
ATATTTAATTTTATAAAATTTTT
Found at i:113018736 original size:29 final size:29
Alignment explanation
Indices: 113018681--113018748 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
113018671 GTTAAACTTG
* *
113018681 AATTTTAACATCTAAAAAGTAGAAAAATTA
1 AATTTTAAAAT-TAAAAAGTAGAAAAACTA
*
113018711 AATTCTTAAAATTAAAAA-TATAAAAACTA
1 AATT-TTAAAATTAAAAAGTAGAAAAACTA
113018740 AATTTTAAA
1 AATTTTAAA
113018749 TTTACTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.15
29 13 0.38
30 10 0.29
31 6 0.18
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (29 bp):
AATTTTAAAATTAAAAAGTAGAAAAACTA
Found at i:113022917 original size:29 final size:28
Alignment explanation
Indices: 113022867--113022921 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
113022857 TCTTCACAAA
*
113022867 TTCAGAATTTAGTCTTTATACTTTTATT
1 TTCAGAATTTAGTCCTTATACTTTTATT
113022895 TTCACGAATTTAGTCCCTT-TACTTTTA
1 TTCA-GAATTTAGT-CCTTATACTTTTA
113022922 AGATTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 4 0.17
29 17 0.71
30 3 0.12
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (28 bp):
TTCAGAATTTAGTCCTTATACTTTTATT
Found at i:113025810 original size:26 final size:27
Alignment explanation
Indices: 113025770--113025820 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
113025760 AAGTTTCTTT
113025770 ATATATTCTTTAAAATTATTT-TAAAAA
1 ATATATTCTTTAAAATT-TTTATAAAAA
113025797 ATATATT-TTTAAAATTTTTATAAA
1 ATATATTCTTTAAAATTTTTATAAA
113025821 TATTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 3 0.13
26 13 0.57
27 7 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATATTCTTTAAAATTTTTATAAAAA
Found at i:113025811 original size:13 final size:13
Alignment explanation
Indices: 113025770--113025811 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
113025760 AAGTTTCTTT
113025770 ATATATTCTTTAAA
1 ATATATT-TTTAAA
*
113025784 AT-TATTTTAAAAA
1 ATATATTTT-TAAA
113025797 ATATATTTTTAAA
1 ATATATTTTTAAA
113025810 AT
1 AT
113025812 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 2 0.08
13 14 0.58
14 8 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATTTTTAAA
Found at i:113025843 original size:19 final size:20
Alignment explanation
Indices: 113025787--113025845 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 20
113025777 CTTTAAAATT
113025787 ATTTTAAAAAATATATTTTTAAA
1 ATTTT-AAAAAT-TA-TTTTAAA
*
113025810 ATTTTTATAAA-TATTTT-AA
1 A-TTTTAAAAATTATTTTAAA
113025829 ATTTTAAAAATTATTTT
1 ATTTTAAAAATTATTTT
113025846 GACCTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.25
19 9 0.28
20 4 0.12
21 2 0.06
23 5 0.16
24 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTAAAAATTATTTTAAA
Found at i:113026242 original size:9 final size:9
Alignment explanation
Indices: 113026230--113026262 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
113026220 GAATTATTCG
113026230 AATCGAGTT
1 AATCGAGTT
113026239 AATCGAGTT
1 AATCGAGTT
*
113026248 AATCGAATT
1 AATCGAGTT
113026257 AATCGA
1 AATCGA
113026263 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:113026263 original size:9 final size:9
Alignment explanation
Indices: 113026230--113026275 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
113026220 GAATTATTCG
*
113026230 AATCGAGTT
1 AATCGAATT
*
113026239 AATCGAGTT
1 AATCGAATT
113026248 AATCGAATT
1 AATCGAATT
*
113026257 AATCGAATC
1 AATCGAATT
113026266 AACTCGAATT
1 AA-TCGAATT
113026276 TTTTTTCGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:113043283 original size:6 final size:6
Alignment explanation
Indices: 113043242--113043266 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
113043232 ATATAAATTT
113043242 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
113043267 TCCACAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:113045964 original size:84 final size:84
Alignment explanation
Indices: 113045823--113046033 Score: 287
Period size: 84 Copynumber: 2.5 Consensus size: 84
113045813 TAGCTTCGAC
* * * ** *
113045823 GAAACTATCATTAATGAAAGTAGCAATCAACATAATATAGTTGTTGCGGAAAAGGGCATCGAAAC
1 GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGCACAAAAGGGCACCGAAAC
113045888 GCCCATCATTAGCTATGAT
66 GCCCATCATTAGCTATGAT
* ** *
113045907 GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGTACAAGGGGGCACCGAAAT
1 GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGCACAAAAGGGCACCGAAAC
* **
113045972 GTCTGTCATTAGCTATGAT
66 GCCCATCATTAGCTATGAT
* *
113045991 GAAACCGTCGCTAATGAAAGAAGCAATCAACATAATATAGTTG
1 GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTG
113046034 ATGTGGATGA
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 112 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (84 bp):
GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGCACAAAAGGGCACCGAAAC
GCCCATCATTAGCTATGAT
Found at i:113052107 original size:13 final size:13
Alignment explanation
Indices: 113052089--113052151 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
113052079 AGTTCTTCAT
113052089 TACTTTTGAAAAG
1 TACTTTTGAAAAG
113052102 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* * *
113052115 TGCTGTAGAAAAG
1 TACTTTTGAAAAG
* *
113052128 TATTTTTGAGAAG
1 TACTTTTGAAAAG
*
113052141 TGC-TTTGAAAA
1 TACTTTTGAAAA
113052152 AATTTAAGTG
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
12 7 0.18
13 32 0.82
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:113055622 original size:26 final size:26
Alignment explanation
Indices: 113055583--113055632 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
113055573 TCAACTCAAC
* *
113055583 GAGCTCGGGTGTTCGTATCCATAAGT
1 GAGCTCGGGCGTTCGCATCCATAAGT
113055609 GAGCTCGGGCGTTCGCATCCATAA
1 GAGCTCGGGCGTTCGCATCCATAA
113055633 AACATCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (26 bp):
GAGCTCGGGCGTTCGCATCCATAAGT
Found at i:113063695 original size:27 final size:26
Alignment explanation
Indices: 113063660--113063720 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
113063650 CTAATTTAAC
*
113063660 ATATTATTTATTTGAAATTTGCTTTAT
1 ATATTATTTATTTCAAA-TTGCTTTAT
*
113063687 ATATTATTTTATTTCAAATTGTTTTAT
1 ATATTA-TTTATTTCAAATTGCTTTAT
*
113063714 ATTTTAT
1 ATATTAT
113063721 CCATGTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 19 0.63
28 10 0.33
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (26 bp):
ATATTATTTATTTCAAATTGCTTTAT
Found at i:113066192 original size:37 final size:37
Alignment explanation
Indices: 113066148--113066274 Score: 227
Period size: 37 Copynumber: 3.4 Consensus size: 37
113066138 CTTGTCCCTA
*
113066148 ATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTG
1 ATCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTG
113066185 ATCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTG
1 ATCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTG
**
113066222 ATCAGATAAGTGTAGCCACTTATCACTTTGTCACTTG
1 ATCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTG
113066259 ATCAGATAAGTGTAGC
1 ATCAGATAAGTGTAGC
113066275 TAAAGCTATC
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 87 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (37 bp):
ATCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTG
Found at i:113066292 original size:46 final size:46
Alignment explanation
Indices: 113066238--113066460 Score: 248
Period size: 52 Copynumber: 4.6 Consensus size: 46
113066228 TAAGTGTAGC
*
113066238 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* * * *
113066284 CAATTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* *
113066330 CACTTATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* *
113066382 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
*
113066434 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
113066461 AGTACTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
46 65 0.42
49 1 0.01
50 1 0.01
51 3 0.02
52 86 0.55
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
Found at i:113066339 original size:7 final size:7
Alignment explanation
Indices: 113066327--113066360 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
113066317 TAGCCGAAGC
113066327 TATCACT
1 TATCACT
113066334 TATCACT
1 TATCACT
*
113066341 TTTCACT
1 TATCACT
113066348 TATCACT
1 TATCACT
113066355 TGATCA
1 T-ATCA
113066361 GATAAGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (7 bp):
TATCACT
Found at i:113066426 original size:98 final size:98
Alignment explanation
Indices: 113066237--113066460 Score: 244
Period size: 98 Copynumber: 2.3 Consensus size: 98
113066227 ATAAGTGTAG
* * * *
113066237 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCAATTATCACTTTGTCTC
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCAAAGCTATCAATTATCACTTTGCCAC
*
113066302 TTGATCAGATAAGTATAGCCGAAGCTATCA-CTTA
66 TTGATCAGATAAGTATAGCCGAAGCTA-AAGC-TA
* * * *
113066336 TCACTTTTCAC-TTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT-CCAC
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCAAAGCTATCAATTATCACTTTGCCAC
* * *
113066399 TTG-TCACTTGATCAG-ATAAG-TGTAGCTAAAGCTA
66 TTGATCA---GATAAGTAT-AGCCGAAGCTAAAGCTA
113066433 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
113066461 AGTACTCAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
96 3 0.03
97 17 0.16
98 69 0.66
99 16 0.15
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCAAAGCTATCAATTATCACTTTGCCAC
TTGATCAGATAAGTATAGCCGAAGCTAAAGCTA
Found at i:113068872 original size:21 final size:23
Alignment explanation
Indices: 113068847--113068894 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
113068837 GAATATGCTG
*
113068847 TAAATTGAAAGTTTA-TGATAGA
1 TAAATTGAAAGGTTATTGATAGA
113068869 -AAA-TGAAAGGTTATTGATAGA
1 TAAATTGAAAGGTTATTGATAGA
113068890 TAAAT
1 TAAAT
113068895 CACATTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 9 0.41
21 10 0.45
22 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (23 bp):
TAAATTGAAAGGTTATTGATAGA
Found at i:113069723 original size:29 final size:29
Alignment explanation
Indices: 113069680--113069778 Score: 153
Period size: 29 Copynumber: 3.4 Consensus size: 29
113069670 TGTGTGTACC
* *
113069680 ATGTGAAAAAGGGATAGTTTTGGCTATCGA
1 ATGTG-AAAAGGGATAGCTTCGGCTATCGA
113069710 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
113069739 ATGCGAAAAGGGATAGCTTCGGCTATCAA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
113069768 ATGTGAAAAGG
1 ATGTGAAAAGG
113069779 AAAGGTATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
29 59 0.92
30 5 0.08
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.24
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:113069808 original size:33 final size:33
Alignment explanation
Indices: 113069771--113069907 Score: 124
Period size: 33 Copynumber: 4.3 Consensus size: 33
113069761 CTATCAAATG
*
113069771 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
** * *
113069804 TGAAAAGGCTATGTACACTTTGTGTATA-CACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* * * *
113069836 TG-AAACG--A--CATACTTTGTGTATATCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* * *
113069864 TGAAAAAGAAAGGTATACTTTGTGTGTACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
113069897 TGAAAAGGAAA
1 TGAAAAGGAAA
113069908 TGTACACAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
27 13 0.15
28 5 0.06
29 5 0.06
31 5 0.06
32 5 0.06
33 51 0.61
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACT
Found at i:113073538 original size:46 final size:46
Alignment explanation
Indices: 113073484--113073842 Score: 522
Period size: 46 Copynumber: 7.8 Consensus size: 46
113073474 CTATGATAGA
113073484 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
*
113073530 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
113073576 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
*
113073622 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* *
113073668 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* ***
113073714 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATG
** * * * *
113073761 AAATGAATAAGACCATGGTTGAATGCTACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* * * * *
113073806 AAAATGAGTAAGATCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
113073843 TCATGTCGAA
Statistics
Matches: 288, Mismatches: 23, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 249 0.86
47 38 0.13
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
Found at i:113078020 original size:69 final size:69
Alignment explanation
Indices: 113077909--113078050 Score: 284
Period size: 69 Copynumber: 2.1 Consensus size: 69
113077899 GCTTCGGATC
113077909 TATGCATCAACATCTCATTTCAATACGAGAGGCTCTCGGACTTTTACTATATTTGTGGTCGCCTA
1 TATGCATCAACATCTCATTTCAATACGAGAGGCTCTCGGACTTTTACTATATTTGTGGTCGCCTA
113077974 AAGA
66 AAGA
113077978 TATGCATCAACATCTCATTTCAATACGAGAGGCTCTCGGACTTTTACTATATTTGTGGTCGCCTA
1 TATGCATCAACATCTCATTTCAATACGAGAGGCTCTCGGACTTTTACTATATTTGTGGTCGCCTA
113078043 AAGA
66 AAGA
113078047 TATG
1 TATG
113078051 GTGAACGAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (69 bp):
TATGCATCAACATCTCATTTCAATACGAGAGGCTCTCGGACTTTTACTATATTTGTGGTCGCCTA
AAGA
Found at i:113082339 original size:7 final size:7
Alignment explanation
Indices: 113082327--113082359 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
113082317 TATATGGGAT
113082327 AGTGAAG
1 AGTGAAG
113082334 AGTGAAG
1 AGTGAAG
*
113082341 AGTGACG
1 AGTGAAG
113082348 AGTGAAG
1 AGTGAAG
113082355 AGTGA
1 AGTGA
113082360 TGGCGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.03, G:0.42, T:0.15
Consensus pattern (7 bp):
AGTGAAG
Found at i:113106104 original size:3 final size:3
Alignment explanation
Indices: 113106098--113106127 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
113106088 AGAAGTAGAA
*
113106098 GAG GAG GAA GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
113106128 AAGAAGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:113112362 original size:16 final size:17
Alignment explanation
Indices: 113112328--113112368 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
113112318 ATTATTTTAA
113112328 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA-CATAT
113112345 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAACATAT
113112361 A-TTTAATT
1 ATTTTAATT
113112369 TTAATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.30
16 5 0.22
17 5 0.22
18 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTAATTAAACATAT
Found at i:113112439 original size:66 final size:65
Alignment explanation
Indices: 113112369--113112680 Score: 176
Period size: 61 Copynumber: 5.1 Consensus size: 65
113112359 ATATTTAATT
113112369 TTAATTATTTAAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAAT
1 TTAATTATTTAAAATTAT-TTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAAT
113112434 A
65 A
* * * * **
113112435 TTAATTA-TTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TTAAT
1 TTAATTATTTAA-AATTATTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAAT
113112488 A
65 A
* * *
113112489 ATAATTATGTT-AATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAA
1 TTAATTAT-TTAAAATTAT-TTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAA
113112553 TA
64 TA
* * * * * * * * **
113112555 TTGATTA-TTAAGAATT-TTATTA-A--ATTATATATTTTAATTAT-AATATATTTA-ATAATTA
1 TTAATTATTTAA-AATTATTTTTATAGTATAATATATTATGATT-TGAGTAAATTCATATAAGAA
*
113112613 TG
64 TA
*
113112615 TT-A--ATTT---A-TA-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TTAATTATTTAAAATTATTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATA
*
113112672 TTGATTATT
1 TTAATTATT
113112681 AAGAATTTTA
Statistics
Matches: 181, Mismatches: 37, Indels: 62
0.65 0.13 0.22
Matches are distributed among these distances:
53 5 0.03
54 15 0.08
55 7 0.04
56 27 0.15
57 12 0.07
58 4 0.02
59 11 0.06
60 19 0.10
61 30 0.17
62 2 0.01
63 4 0.02
64 11 0.06
65 11 0.06
66 23 0.13
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (65 bp):
TTAATTATTTAAAATTATTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATA
Found at i:113112451 original size:120 final size:120
Alignment explanation
Indices: 113112327--113112736 Score: 702
Period size: 120 Copynumber: 3.4 Consensus size: 120
113112317 AATTATTTTA
* * * *
113112327 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATTTTAATTAT-TTAAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTT-AATTTATATTT
* *
113112391 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
113112447 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTTAATTTATATTTT
113112512 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
113112567 AATTTTATTAAATTATATATTTTAATTATAATATATTT-A--ATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTTAATTTATATTTT
113112629 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
113112684 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTT
113112737 TAAATATGAT
Statistics
Matches: 277, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
117 115 0.42
118 1 0.00
119 1 0.00
120 158 0.57
121 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:113112487 original size:15 final size:15
Alignment explanation
Indices: 113112452--113112503 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
113112442 TTAAGAATTT
*
113112452 TATTAAATTAT-ATA
1 TATTTAATTATAATA
113112466 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
113112480 TATTTAATAATAAT-
1 TATTTAATTATAATA
113112494 TATGTTAATT
1 TAT-TTAATT
113112504 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:113112713 original size:18 final size:18
Alignment explanation
Indices: 113112685--113112733 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
113112675 ATTATTAAGA
113112685 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
113112702 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
113112718 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
113112734 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:113112719 original size:16 final size:16
Alignment explanation
Indices: 113112685--113112739 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
113112675 ATTATTAAGA
113112685 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
113112702 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
113112718 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
113112732 ATGTTTAA
1 AT-TTTAA
113112740 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:113112949 original size:44 final size:45
Alignment explanation
Indices: 113112884--113112974 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
113112874 ACCTCTATTC
* * *
113112884 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
113112928 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
113112973 CA
1 CA
113112975 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:113112989 original size:17 final size:16
Alignment explanation
Indices: 113112955--113113040 Score: 154
Period size: 16 Copynumber: 5.2 Consensus size: 16
113112945 GATTAGCTAT
113112955 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
113112971 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
113112988 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
113113005 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
113113021 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
113113037 TACA
1 TACA
113113041 GCGAACCAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
16 36 0.52
17 33 0.48
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.24
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:113114620 original size:23 final size:22
Alignment explanation
Indices: 113114584--113114634 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
113114574 TTAATAAATC
113114584 AATTTTATAAATATATTTATTA-A
1 AATTTTATAAATATA--TATTAGA
**
113114607 AATTTTATTTATATATATTAGA
1 AATTTTATAAATATATATTAGA
113114629 AATTTT
1 AATTTT
113114635 TTCTTCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 7 0.28
23 13 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTTATAAATATATATTAGA
Found at i:113120842 original size:16 final size:17
Alignment explanation
Indices: 113120810--113120842 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
113120800 TAATAATAAT
*
113120810 AAATTAATATAATATTA
1 AAATTAATATAAAATTA
113120827 AAATTAA-ATAAAATTA
1 AAATTAATATAAAATTA
113120843 CTTTTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAATATAAAATTA
Found at i:113129231 original size:16 final size:16
Alignment explanation
Indices: 113129175--113129231 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 16
113129165 AAACATTAAA
113129175 TATTATTTTCTCAATT
1 TATTATTTTCTCAATT
113129191 TATTAAATATTT-TGCAATT
1 TATT--AT-TTTCT-CAATT
*
113129210 ACATTATTTTCTCAATT
1 -TATTATTTTCTCAATT
113129227 TATTA
1 TATTA
113129232 ATGATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 8 0.24
17 8 0.24
18 6 0.18
19 8 0.24
20 3 0.09
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.56
Consensus pattern (16 bp):
TATTATTTTCTCAATT
Found at i:113132264 original size:21 final size:22
Alignment explanation
Indices: 113132211--113132264 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
113132201 AAAATGGAAC
*
113132211 TGTTTGTTTTGCTTCCATTGTG
1 TGTTTCTTTTGCTTCCATTGTG
*
113132233 TGTTTTGTTTTGCTTCCATTGTG
1 TG-TTTCTTTTGCTTCCATTGTG
113132256 TG-TTCTTTT
1 TGTTTCTTTT
113132265 TTTCATGACA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 6 0.20
22 2 0.07
23 22 0.73
ACGTcount: A:0.04, C:0.13, G:0.20, T:0.63
Consensus pattern (22 bp):
TGTTTCTTTTGCTTCCATTGTG
Found at i:113132266 original size:23 final size:23
Alignment explanation
Indices: 113132213--113132259 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
113132203 AATGGAACTG
113132213 TTTGTTTTGCTTCCATTGTGTGT
1 TTTGTTTTGCTTCCATTGTGTGT
113132236 TTTGTTTTGCTTCCATTGTGTGT
1 TTTGTTTTGCTTCCATTGTGTGT
113132259 T
1 T
113132260 CTTTTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.04, C:0.13, G:0.21, T:0.62
Consensus pattern (23 bp):
TTTGTTTTGCTTCCATTGTGTGT
Found at i:113147894 original size:4 final size:4
Alignment explanation
Indices: 113147885--113147913 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
113147875 CCCTTTTCTA
113147885 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
113147914 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:113150106 original size:5 final size:5
Alignment explanation
Indices: 113150096--113150128 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
113150086 TTGTGTGTTC
113150096 TTTAT TTTAT TTT-T TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
113150129 TCACATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTAT
Found at i:113150115 original size:14 final size:14
Alignment explanation
Indices: 113150096--113150123 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
113150086 TTGTGTGTTC
113150096 TTTATTTTATTTTT
1 TTTATTTTATTTTT
113150110 TTTATTTTATTTTT
1 TTTATTTTATTTTT
113150124 ATTTTTCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTATTTTATTTTT
Found at i:113158093 original size:20 final size:21
Alignment explanation
Indices: 113158065--113158114 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
113158055 ATTATGTTTA
113158065 TTTTCTTTAAATT-AAGAGTTG
1 TTTT-TTTAAATTCAAGAGTTG
* *
113158086 TTTTTTTAACTTCATGAGTTG
1 TTTTTTTAAATTCAAGAGTTG
*
113158107 TTTATTTA
1 TTTTTTTA
113158115 TTTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.58
Consensus pattern (21 bp):
TTTTTTTAAATTCAAGAGTTG
Found at i:113158351 original size:3 final size:3
Alignment explanation
Indices: 113158343--113158367 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
113158333 TAATTAAGCT
113158343 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
113158368 TAGTAATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:113160707 original size:9 final size:9
Alignment explanation
Indices: 113160695--113160729 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
113160685 AAAATATAAA
113160695 AATATTTTT
1 AATATTTTT
113160704 AATATTTTT
1 AATATTTTT
*
113160713 AATATTATT
1 AATATTTTT
*
113160722 AAAATTTT
1 AATATTTT
113160730 AAAAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
AATATTTTT
Found at i:113161403 original size:30 final size:30
Alignment explanation
Indices: 113161369--113161431 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
113161359 ACTTATTTTA
113161369 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
113161399 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
113161429 TTG
1 TTG
113161432 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:113162234 original size:9 final size:9
Alignment explanation
Indices: 113162222--113162281 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
113162212 TTTAAATTTT
113162222 TAAAAAATA
1 TAAAAAATA
*
113162231 TAAAAATTCA
1 TAAAAAAT-A
113162241 -AAAAAATA
1 TAAAAAATA
113162249 -AATAAAATA
1 TAA-AAAATA
*
113162258 TAAAAACTA
1 TAAAAAATA
113162267 TCAAAAAAT-
1 T-AAAAAATA
113162276 TAAAAA
1 TAAAAA
113162282 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 8 0.19
9 26 0.60
10 9 0.21
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAAAATA
Found at i:113162260 original size:27 final size:29
Alignment explanation
Indices: 113162225--113162279 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
113162215 AAATTTTTAA
113162225 AAAATATAAAAA-T-TCAAAAAAATAAAT
1 AAAATATAAAAACTATCAAAAAAATAAAT
*
113162252 AAAATATAAAAACTATCAAAAAATTAAA
1 AAAATATAAAAACTATCAAAAAAATAAA
113162280 AATTATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.48
28 1 0.04
29 12 0.48
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (29 bp):
AAAATATAAAAACTATCAAAAAAATAAAT
Found at i:113162290 original size:29 final size:28
Alignment explanation
Indices: 113162258--113162318 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
113162248 AAATAAAATA
*
113162258 TAAAAACTATCAAAAAATTAAAAATTATT
1 TAAAAACAAT-AAAAAATTAAAAATTATT
* *
113162287 TAAAAAACAATAAATATTTAAAAATTATT
1 T-AAAAACAATAAAAAATTAAAAATTATT
113162316 TAA
1 TAA
113162319 TAATGAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 18 0.64
30 8 0.29
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (28 bp):
TAAAAACAATAAAAAATTAAAAATTATT
Found at i:113162291 original size:18 final size:18
Alignment explanation
Indices: 113162270--113162313 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
113162260 AAAACTATCA
113162270 AAAAATTAA-AAATTATTT
1 AAAAATTAATAAA-TATTT
**
113162288 AAAAAACAATAAATATTT
1 AAAAATTAATAAATATTT
113162306 AAAAATTA
1 AAAAATTA
113162314 TTTAATAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATTAATAAATATTT
Found at i:113167128 original size:20 final size:20
Alignment explanation
Indices: 113167092--113167130 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
113167082 ATATTTTTAT
*
113167092 TTAATTTAATTTTTAATATA
1 TTAATTTAATTTATAATATA
113167112 TTAATTT-ATTCTATAATAT
1 TTAATTTAATT-TATAATAT
113167131 TTCTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTTAATTTATAATATA
Found at i:113174473 original size:17 final size:18
Alignment explanation
Indices: 113174451--113174485 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
113174441 TTTGTAATGT
*
113174451 AAAA-TTATGTAAGAAAA
1 AAAATTTATGAAAGAAAA
113174468 AAAATTTATGAAAGAAAA
1 AAAATTTATGAAAGAAAA
113174486 CTATTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (18 bp):
AAAATTTATGAAAGAAAA
Found at i:113185462 original size:12 final size:12
Alignment explanation
Indices: 113185442--113185507 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 12
113185432 TCATCGTCGT
* *
113185442 CTTCTTCTTCAA
1 CTTCCTCTTCTA
113185454 CTTCCTCTTCTA
1 CTTCCTCTTCTA
** *
113185466 CTTCAACTTCTT
1 CTTCCTCTTCTA
*
113185478 CTTCCACTTCTA
1 CTTCCTCTTCTA
*
113185490 CTTCCTCTTCCA
1 CTTCCTCTTCTA
113185502 CTTCCT
1 CTTCCT
113185508 GTAGTTGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.12, C:0.41, G:0.00, T:0.47
Consensus pattern (12 bp):
CTTCCTCTTCTA
Found at i:113185464 original size:18 final size:18
Alignment explanation
Indices: 113185441--113185505 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
113185431 GTCATCGTCG
*
113185441 TCTTCTTCTTCAACTTCC
1 TCTTCTACTTCAACTTCC
*
113185459 TCTTCTACTTCAACTTCT
1 TCTTCTACTTCAACTTCC
* *
113185477 TCTTCCACTTCTACTTCC
1 TCTTCTACTTCAACTTCC
*
113185495 TCTTCCACTTC
1 TCTTCTACTTC
113185506 CTGTAGTTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (18 bp):
TCTTCTACTTCAACTTCC
Found at i:113185944 original size:17 final size:18
Alignment explanation
Indices: 113185918--113185959 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
113185908 ATCATATTTA
*
113185918 AATTTATTT-TAATTATT
1 AATTTTTTTCTAATTATT
*
113185935 AATTTTTTTTCTAATTTTT
1 AA-TTTTTTTCTAATTATT
113185954 AATTTT
1 AATTTT
113185960 AAAATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 10 0.48
19 9 0.43
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
AATTTTTTTCTAATTATT
Found at i:113191932 original size:29 final size:29
Alignment explanation
Indices: 113191899--113191956 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
113191889 TTATAAACCC
113191899 GAAAATTTTATAATAATGCACTAACATTA
1 GAAAATTTTATAATAATGCACTAACATTA
**
113191928 GAAAATTTTATAATTGTGCACTAACATTA
1 GAAAATTTTATAATAATGCACTAACATTA
113191957 TACTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (29 bp):
GAAAATTTTATAATAATGCACTAACATTA
Found at i:113194121 original size:115 final size:115
Alignment explanation
Indices: 113194001--113194336 Score: 471
Period size: 115 Copynumber: 2.9 Consensus size: 115
113193991 TTTTATAGTT
*
113194001 GATTAGGTTATATAAATTGTTAGTGTTTAGTCGTTTAGTGTATTAGAGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGAGTATTGTGATTTTTTTAG
113194066 TAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * *
113194116 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGCGTATTAGCGTATTGTAATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGAGTATTGTGATTTTTTTAG
* * *
113194181 TAATATATTTTTTAAAAAATATTTTTAGAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * *
113194231 GATTAGATTATAT--ATTGTCAGTGTTTAGTGGTTTAGTGTGTATTAGTGTATTGTGATTTATTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTGTATTAGAGTATTGTG----A-TT
* * *
113194294 TTTTTAGTAATGTA-TTTAAAAAAAATAATTTTATAGTTATTTT
59 TTTTTAGTAATATATTTTTAAAAAAATAATTTTATAGCTATTTT
113194337 GTGTTAGTAT
Statistics
Matches: 196, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
113 21 0.11
115 135 0.69
119 25 0.13
120 15 0.08
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (115 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGAGTATTGTGATTTTTTTAG
TAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:113194367 original size:113 final size:115
Alignment explanation
Indices: 113194011--113194381 Score: 388
Period size: 115 Copynumber: 3.3 Consensus size: 115
113194001 GATTAGGTTA
* * *
113194011 TATAAATTGTTAGTGTTTAGTCGTTTA--GTGTATTAGAGTATTGTGATTTTTTTAGTAATATAT
1 TATAAATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAGCGTATTGTAATTTTTTTAGTAATATAT
* * * * *
113194074 TTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTT
66 TTTAAAAAAAATAATTTTAGAGCTATTTTAGTAGTAATGTAAGATTA-GAT
*
113194125 ATATAAATTGTTAGTGTTTAGTGGTTTA--GCGTATTAGCGTATTGTAATTTTTTTAGTAATATA
1 -TATAAATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAGCGTATTGTAATTTTTTTAGTAATATA
** * * *
113194188 TTTTTTAAAAAATATTTTTAGAGCTATTTTATTAGTAATTTAAGATTAGAT
65 TTTTAAAAAAAATAATTTTAGAGCTATTTTAGTAGTAATGTAAGATTAGAT
* * *
113194239 TATATATTGTCAGTGTTTAGTGGTTTAGTGTGTATTAGTGTATTGTGATTTATTTTTTTTAGTAA
1 TATAAATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAGCGTATTGT-A---A-TTTTTTTAGTAA
* * * * *
113194304 TGTA-TTTAAAAAAAATAATTTTATAGTTATTTT-GT-GTTA-GT-ATA-T-GAT
61 TATATTTTAAAAAAAATAATTTTAGAGCTATTTTAGTAGTAATGTAAGATTAGAT
*
113194352 TATAAATTGTTAGTGTTTA-TAGTTTAGTGT
1 TATAAATTGTTAGTGTTTAGTGGTTTAGTGT
113194382 TTTGTGATTT
Statistics
Matches: 224, Mismatches: 25, Indels: 17
0.84 0.09 0.06
Matches are distributed among these distances:
112 10 0.04
113 45 0.20
114 3 0.01
115 120 0.54
116 2 0.01
117 3 0.01
118 1 0.00
119 25 0.11
120 15 0.07
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (115 bp):
TATAAATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAGCGTATTGTAATTTTTTTAGTAATATAT
TTTAAAAAAAATAATTTTAGAGCTATTTTAGTAGTAATGTAAGATTAGAT
Found at i:113196202 original size:33 final size:33
Alignment explanation
Indices: 113196165--113196249 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 33
113196155 ATTTATCTCA
* * * *
113196165 GTACTCTACTCTTTCTGGCCCGTATCCACCGCC
1 GTACTCTACTCCTCCCGGCCCATATCCACCGCC
113196198 GTACTCTACTCCTCCCGGCCCATATCCACCGCC
1 GTACTCTACTCCTCCCGGCCCATATCCACCGCC
* * * *
113196231 ATATTCTAGTCCTCTCGGC
1 GTACTCTACTCCTCCCGGC
113196250 TCAAGTTCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.14, C:0.44, G:0.14, T:0.28
Consensus pattern (33 bp):
GTACTCTACTCCTCCCGGCCCATATCCACCGCC
Found at i:113197359 original size:180 final size:181
Alignment explanation
Indices: 113197052--113197414 Score: 611
Period size: 180 Copynumber: 2.0 Consensus size: 181
113197042 AATGCATACT
* *
113197052 TTATCCGGATGAAGTATGTATTAGCAAATTTACTAATATGATTATATATATAGATATTTACGCAT
1 TTATCCGGATAAAGTATGTATTAGCAAATTCACTAATATGATTATATATATAGA-ATTTACGCAT
* *
113197117 GTATCACATTACAAAAACAAAAATTTAAATACTTATGCATAATAAAACATGTATCTCATTACAAT
65 GTATCACATTACAAAAACAAAAATTTAAATACTTATACATAATAAAACATGTATCGCATTACAAT
* * *
113197182 AATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAA
130 AATAATCATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAA
* *
113197234 TTATCCGGATAAAGTATGTATTAGTAGATTCACTAATATGATTATATATATAG-ATTTACGCATG
1 TTATCCGGATAAAGTATGTATTAGCAAATTCACTAATATGATTATATATATAGAATTTACGCATG
* *
113197298 TATCACATTATAAAAACAAAAATTTAAATATTTATACATAATAAAACATGTATCGCATTACAATA
66 TATCACATTACAAAAACAAAAATTTAAATACTTATACATAATAAAACATGTATCGCATTACAATA
113197363 ATAATCATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAA
131 ATAATCATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAA
113197414 T
1 T
113197415 ATTTTAGTTT
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
180 121 0.71
182 49 0.29
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (181 bp):
TTATCCGGATAAAGTATGTATTAGCAAATTCACTAATATGATTATATATATAGAATTTACGCATG
TATCACATTACAAAAACAAAAATTTAAATACTTATACATAATAAAACATGTATCGCATTACAATA
ATAATCATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAA
Found at i:113197585 original size:210 final size:210
Alignment explanation
Indices: 113197233--113197812 Score: 1025
Period size: 210 Copynumber: 2.8 Consensus size: 210
113197223 TTCTTATTTA
113197233 ATTATCCGGATAAAGTATGTATTAGTAGATTCACTAATATGATTATATATATAGATTTACGCATG
1 ATTATCCGGATAAAGTATGTATTAGTAGATTCACTAATATGATTATATATATAGATTTACGCATG
* * *
113197298 TATCACATTATAAAAACAAAAATTTAAATATTTATACATAATAAAACATGTATCGCATTACAATA
66 TATCACATTATAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATA
* * *
113197363 ATAATCATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAGTTTAAT
131 ATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAAT
113197428 TTTAATAATGCATAC
196 TTTAATAATGCATAC
*
113197443 ATTATCCAGATAAAGTATGTATTAGTAGATTCACTAATATGATTATATATATAGATTTACGCATG
1 ATTATCCGGATAAAGTATGTATTAGTAGATTCACTAATATGATTATATATATAGATTTACGCATG
113197508 TATCACATTATAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATA
66 TATCACATTATAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATA
113197573 ATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAAT
131 ATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAAT
113197638 TTTAATAATGCATAC
196 TTTAATAATGCATAC
* * * * *
113197653 TTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTCTATATATATATTTACGCATG
1 ATTATCCGGATAAAGTATGTATTAGTAGATTCACTAATATGATTATATATATAGATTTACGCATG
* *
113197718 TATCACATTACAAAAATAAAAATTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATA
66 TATCACATTATAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATA
*
113197783 ATAGTTATTTTCCAAATAACATATTATTTT
131 ATAGTTATTTTCCAAATAACATATTGTTTT
113197813 CCAAAAATAA
Statistics
Matches: 354, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
210 354 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (210 bp):
ATTATCCGGATAAAGTATGTATTAGTAGATTCACTAATATGATTATATATATAGATTTACGCATG
TATCACATTATAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATA
ATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAAT
TTTAATAATGCATAC
Found at i:113205297 original size:43 final size:43
Alignment explanation
Indices: 113205249--113205336 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
113205239 CAGGGCTGGT
* *
113205249 TGTTGTCAACTGAAAACTTTCACCTATAGTTCAGTCAGTCGGC
1 TGTTGTCAACTGAAAACTATCACCTAGAGTTCAGTCAGTCGGC
* *
113205292 TGTTGTCAACTGACAACTATCACCTAGGGTTCAGTCAGTCGGC
1 TGTTGTCAACTGAAAACTATCACCTAGAGTTCAGTCAGTCGGC
113205335 TG
1 TG
113205337 AAGTTTTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (43 bp):
TGTTGTCAACTGAAAACTATCACCTAGAGTTCAGTCAGTCGGC
Found at i:113205713 original size:11 final size:11
Alignment explanation
Indices: 113205697--113205730 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
113205687 GACTTGATTC
113205697 AAAAAAATTGA
1 AAAAAAATTGA
113205708 AAAAAAATT-A
1 AAAAAAATTGA
113205718 TAAAAAAATTGA
1 -AAAAAAATTGA
113205730 A
1 A
113205731 TTTCTAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.05
11 19 0.90
12 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:113205906 original size:26 final size:26
Alignment explanation
Indices: 113205877--113205926 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
113205867 AATTATAAAA
*
113205877 AAAATTAAAATATTTATAAAAATTTC
1 AAAATTAAAATATTTAAAAAAATTTC
* * *
113205903 AAAATTTATATTTTTAAAAAAATT
1 AAAATTAAAATATTTAAAAAAATT
113205927 CTAAAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
AAAATTAAAATATTTAAAAAAATTTC
Found at i:113205909 original size:18 final size:18
Alignment explanation
Indices: 113205864--113205912 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
113205854 CTCTCTCAAC
*
113205864 AAAAATTATAAAAAAAATT
1 AAAAATT-TATAAAAAATT
*
113205883 AAAATATTTATAAAAATTT
1 AAAA-ATTTATAAAAAATT
*
113205902 CAAAATTTATA
1 AAAAATTTATA
113205913 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 7 0.27
19 16 0.62
20 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATTTATAAAAAATT
Found at i:113209785 original size:29 final size:28
Alignment explanation
Indices: 113209715--113209788 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
113209705 ATACTTTTCG
* *
113209715 TAAATTTAAAATTTAATTTTTTTATTTT
1 TAAATTTAAAATTTAATCTCTTTATTTT
**
113209743 TATTTTTAAGAATTTAATCTCTTTATTTTT
1 TAAATTTAA-AATTTAATCTCTTTA-TTTT
*
113209773 TAAATTTCAAATTTAA
1 TAAATTTAAAATTTAA
113209789 ATCTAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 7 0.19
29 20 0.54
30 10 0.27
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (28 bp):
TAAATTTAAAATTTAATCTCTTTATTTT
Found at i:113212840 original size:20 final size:20
Alignment explanation
Indices: 113212815--113212852 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
113212805 ATCAAAAAAG
113212815 AATTTTCTTTATAAAATAAT
1 AATTTTCTTTATAAAATAAT
* *
113212835 AATTTTTTTTATACAATA
1 AATTTTCTTTATAAAATA
113212853 TTGAAGGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTTCTTTATAAAATAAT
Found at i:113218104 original size:30 final size:29
Alignment explanation
Indices: 113218040--113218104 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
113218030 ATTTAAAGTA
*
113218040 CAATTGTATACATGAAATTTGATTTTTGTG
1 CAATTGTATACATGAAATTTGA-TTTTGTC
*
113218070 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTGTATACATGAAA-TTTGATTTTG-TC
113218100 CAATT
1 CAATT
113218105 CTTGTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 4 0.13
30 22 0.71
31 5 0.16
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (29 bp):
CAATTGTATACATGAAATTTGATTTTGTC
Found at i:113218317 original size:29 final size:31
Alignment explanation
Indices: 113218240--113218327 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
113218230 TTTAAATCAA
* * * * *
113218240 AATTAAAATTTCAAGTATACATTTGAACCAC
1 AATTAAAGTTTCACGTATATAATTGCACCAC
* *
113218271 AATTAGAGTTTCACGTATATGATTGCACCA-
1 AATTAAAGTTTCACGTATATAATTGCACCAC
*
113218301 AATTAAAG-TTCATGTATATAATTGCAC
1 AATTAAAGTTTCACGTATATAATTGCAC
113218328 GTTAAATCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 17 0.36
30 7 0.15
31 23 0.49
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (31 bp):
AATTAAAGTTTCACGTATATAATTGCACCAC
Found at i:113219479 original size:49 final size:49
Alignment explanation
Indices: 113219399--113219502 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
113219389 GCATGAAACA
* *
113219399 TGAACCCGTGACCACATAACCATTAGTAATTGGGGGCCCGAGTTATAGT
1 TGAACCCGTGAACACATAACCATTAGTAATTGGGGCCCCGAGTTATAGT
* * *
113219448 TGAACCCGTGAACGCATAACCA-TCGTCAATTGGGGCCCCTAGTTATAGT
1 TGAACCCGTGAACACATAACCATTAGT-AATTGGGGCCCCGAGTTATAGT
*
113219497 TAAACC
1 TGAACC
113219503 TATGGTCGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
48 3 0.06
49 45 0.94
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (49 bp):
TGAACCCGTGAACACATAACCATTAGTAATTGGGGCCCCGAGTTATAGT
Found at i:113219513 original size:49 final size:49
Alignment explanation
Indices: 113219413--113219518 Score: 124
Period size: 49 Copynumber: 2.2 Consensus size: 49
113219403 CCCGTGACCA
* * *
113219413 CATAACCATTAGTAATTGGGGGCCCGAGTTATAGTTGAACCCGTGAACG
1 CATAACCATTAGTAATTGGGGCCCCGAGTTATAGTTAAACCCATGAACG
* * * **
113219462 CATAACCA-TCGTCAATTGGGGCCCCTAGTTATAGTTAAACCTATGGTCG
1 CATAACCATTAGT-AATTGGGGCCCCGAGTTATAGTTAAACCCATGAACG
113219511 CATAACCA
1 CATAACCA
113219519 CCCTCAACTG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 3 0.06
49 45 0.94
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (49 bp):
CATAACCATTAGTAATTGGGGCCCCGAGTTATAGTTAAACCCATGAACG
Found at i:113220470 original size:30 final size:30
Alignment explanation
Indices: 113220436--113220493 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
113220426 AAATGAATAA
*
113220436 TGAAAATAA-AAAGGAATCGACAAAAAAAAT
1 TGAAAATAACAAAGGAACCGA-AAAAAAAAT
113220466 TGAAAATAACAAAGGAACCGAAAAAAAA
1 TGAAAATAACAAAGGAACCGAAAAAAAA
113220494 GACCAGGCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.67, C:0.09, G:0.14, T:0.10
Consensus pattern (30 bp):
TGAAAATAACAAAGGAACCGAAAAAAAAAT
Found at i:113220492 original size:31 final size:30
Alignment explanation
Indices: 113220436--113220493 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
113220426 AAATGAATAA
* *
113220436 TGAAAATAAAAAGGAATCGACAAAAAAAAT
1 TGAAAATAAAAAGGAACCGAAAAAAAAAAT
113220466 TGAAAATAACAAAGGAACCGAAAAAAAA
1 TGAAAATAA-AAAGGAACCGAAAAAAAA
113220494 GACCAGGCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.14, T:0.10
Consensus pattern (30 bp):
TGAAAATAAAAAGGAACCGAAAAAAAAAAT
Found at i:113221847 original size:18 final size:17
Alignment explanation
Indices: 113221809--113221847 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
113221799 TCATCCACTT
*
113221809 TTAAGTGTGAACATTTC
1 TTAAGTGTGAACATCTC
*
113221826 TTAAGTGTGAATATGCTC
1 TTAAGTGTGAACAT-CTC
113221844 TTAA
1 TTAA
113221848 TACAATAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (17 bp):
TTAAGTGTGAACATCTC
Found at i:113234015 original size:21 final size:20
Alignment explanation
Indices: 113233991--113234029 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
113233981 TCAATTTATG
113233991 TTAAAAATTAAATTATAGAAA
1 TTAAAAATTAAATT-TAGAAA
**
113234012 TTAAATCTTAAATTTAGA
1 TTAAAAATTAAATTTAGA
113234030 CATTTTAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAAAATTAAATTTAGAAA
Found at i:113236360 original size:31 final size:29
Alignment explanation
Indices: 113236312--113236383 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
113236302 ATACCAAAGC
*
113236312 TATACATGAATTATGATTTAATGTGTAATTG
1 TATACACGAATTATGATTT--TGTGTAATTG
* *
113236343 TATACACGAAATT-TGATTTTGTGTACTTT
1 TATACACG-AATTATGATTTTGTGTAATTG
*
113236372 TATACATGAATT
1 TATACACGAATT
113236384 TTTTATTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.11
29 15 0.42
31 13 0.36
32 4 0.11
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (29 bp):
TATACACGAATTATGATTTTGTGTAATTG
Found at i:113237604 original size:20 final size:20
Alignment explanation
Indices: 113237567--113237608 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
113237557 TGATTTATGT
113237567 TTAAAATTAAATTATAGAAA
1 TTAAAATTAAATTATAGAAA
113237587 TTAAATATTAAATT-TAGAAA
1 TTAAA-ATTAAATTATAGAAA
113237607 TT
1 TT
113237609 TTAGAGGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
TTAAAATTAAATTATAGAAA
Found at i:113245751 original size:20 final size:20
Alignment explanation
Indices: 113245714--113245751 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
113245704 CAATTTACGT
113245714 TTAAAATTAAATTATAGACA
1 TTAAAATTAAATTATAGACA
113245734 TTAAATATTAAATT-TAGA
1 TTAAA-ATTAAATTATAGA
113245752 AATTTTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (20 bp):
TTAAAATTAAATTATAGACA
Found at i:113248213 original size:31 final size:31
Alignment explanation
Indices: 113248167--113248226 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
113248157 AATGTGTATG
*
113248167 ATTTAAATCAAAATTAAAGTTTCAAGTGTTC
1 ATTTAAACCAAAATTAAAGTTTCAAGTGTTC
* * *
113248198 ATTTAAACCACAATTAGAGTTTCACGTGT
1 ATTTAAACCAAAATTAAAGTTTCAAGTGT
113248227 ATAATTGCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (31 bp):
ATTTAAACCAAAATTAAAGTTTCAAGTGTTC
Found at i:113248917 original size:19 final size:17
Alignment explanation
Indices: 113248889--113248927 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
113248879 TTTTGGGCAA
*
113248889 TTTAATTTTTTTATGTTCT
1 TTTAACTTTTTT-T-TTCT
113248908 TTTAACTTTTTTTTTCT
1 TTTAACTTTTTTTTTCT
113248925 TTT
1 TTT
113248928 TTTTCATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTAACTTTTTTTTTCT
Found at i:113250953 original size:18 final size:19
Alignment explanation
Indices: 113250930--113250965 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
113250920 TTATTGCAAT
113250930 CTAATTTTAT-TTTTATTA
1 CTAATTTTATCTTTTATTA
*
113250948 CTAATTTTTTCTTTTATT
1 CTAATTTTATCTTTTATT
113250966 TACTTCTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (19 bp):
CTAATTTTATCTTTTATTA
Found at i:113254611 original size:27 final size:27
Alignment explanation
Indices: 113254549--113254622 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
113254539 ACCTATCCCC
113254549 TATT-TTTATTATTTATTTATTTCTCCA
1 TATTATTTATTATTTATTTATTTCT-CA
* *
113254576 TATTA-TTATTGTTTATTTATTTCT-T
1 TATTATTTATTATTTATTTATTTCTCA
*
113254601 TATCTATTTATTTATTTTTTTA
1 TAT-TATTTA-TTATTTATTTA
113254623 GTTAGTCTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 3 0.08
26 2 0.05
27 25 0.64
28 9 0.23
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.70
Consensus pattern (27 bp):
TATTATTTATTATTTATTTATTTCTCA
Found at i:113255676 original size:95 final size:95
Alignment explanation
Indices: 113255513--113255701 Score: 306
Period size: 95 Copynumber: 2.0 Consensus size: 95
113255503 GCGACATCTC
* *
113255513 TTTCTCCGGCTCTACGATACATCCACGCTTTATTAGCTCACACGTTGACTGGCAGGAGAGATAGC
1 TTTCTCCGACTCTACGATACATCCACGCCTTATTAGCTCACACGTTGACTGGCAGGAGAGATAGC
*
113255578 ACAGGAGTTGTAAACACTACTGATGCATAT
66 ACAGGAGTTGTAAACACTACTGACGCATAT
* * * *
113255608 TTTCTCTGACTCTACGATACATCCATGCCTTATTAGCTTACACGTTGACTGGCATGAGAGATAGC
1 TTTCTCCGACTCTACGATACATCCACGCCTTATTAGCTCACACGTTGACTGGCAGGAGAGATAGC
*
113255673 ACAGGAGTTGTAAGCACTACTGACGCATA
66 ACAGGAGTTGTAAACACTACTGACGCATA
113255702 CTATCTTTGG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 86 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (95 bp):
TTTCTCCGACTCTACGATACATCCACGCCTTATTAGCTCACACGTTGACTGGCAGGAGAGATAGC
ACAGGAGTTGTAAACACTACTGACGCATAT
Found at i:113257294 original size:6 final size:6
Alignment explanation
Indices: 113257283--113257335 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
113257273 AAAAAAATAG
* * * *
113257283 TATATT TATATT CATATT TATATT CATATT ATAAATAG TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT -TATAT-T TATATT TATATT
113257333 TAT
1 TAT
113257336 CATGAGATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 30 0.81
7 7 0.19
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (6 bp):
TATATT
Found at i:113257301 original size:12 final size:12
Alignment explanation
Indices: 113257284--113257312 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
113257274 AAAAAATAGT
113257284 ATATTTATATTC
1 ATATTTATATTC
113257296 ATATTTATATTC
1 ATATTTATATTC
113257308 ATATT
1 ATATT
113257313 ATAAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
ATATTTATATTC
Found at i:113260153 original size:34 final size:34
Alignment explanation
Indices: 113260110--113260179 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
113260100 CAAATGAGAT
113260110 TTGAATCTCAACAATTGTAGCTTCTTATTTTATC
1 TTGAATCTCAACAATTGTAGCTTCTTATTTTATC
113260144 TTGAATCTCAACAATTGTAGCTTCTTATTTTATC
1 TTGAATCTCAACAATTGTAGCTTCTTATTTTATC
113260178 TT
1 TT
113260180 AAGATCGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (34 bp):
TTGAATCTCAACAATTGTAGCTTCTTATTTTATC
Found at i:113260947 original size:29 final size:30
Alignment explanation
Indices: 113260907--113260973 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
113260897 TTAGAGTTTT
* *
113260907 ATGTGTATAATTG-CATCAAATTAAAGTTC
1 ATGTATATAATTGACATCAAATCAAAGTTC
* *
113260936 GTGTATATAATTGCACATTAAATCAAAGTTC
1 ATGTATATAATTG-ACATCAAATCAAAGTTC
113260967 ATGTATA
1 ATGTATA
113260974 ATTTTTAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 11 0.35
31 20 0.65
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (30 bp):
ATGTATATAATTGACATCAAATCAAAGTTC
Found at i:113272624 original size:33 final size:33
Alignment explanation
Indices: 113272587--113272766 Score: 324
Period size: 33 Copynumber: 5.5 Consensus size: 33
113272577 ATTAAATGGT
113272587 GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGG
1 GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGG
113272620 GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGG
1 GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGG
*
113272653 GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGA
1 GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGG
*
113272686 GCTGGCGCGGGCGAGTGTATACCGGGTGAAGGG
1 GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGG
113272719 GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGG
1 GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGG
* *
113272752 GCTGGGGCTGGCGAG
1 GCTGGCGCGGGCGAG
113272767 GGCTGGGGCA
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 141 1.00
ACGTcount: A:0.13, C:0.18, G:0.54, T:0.15
Consensus pattern (33 bp):
GCTGGCGCGGGCGAGTGTGTACCGGGTGAAGGG
Found at i:113273561 original size:14 final size:15
Alignment explanation
Indices: 113273542--113273570 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
113273532 TCAGCCAAAA
113273542 TAAAAAAA-AAATTT
1 TAAAAAAATAAATTT
113273556 TAAAAAAATAAATTT
1 TAAAAAAATAAATTT
113273571 ATTAAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAAAATAAATTT
Found at i:113273653 original size:53 final size:53
Alignment explanation
Indices: 113273593--113273701 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
113273583 TTATATATTT
113273593 AAAATAAATTATATTATTATGATATTAGTTTTGTCTTTTTCTTATTTTTTAAA
1 AAAATAAATTATATTATTATGATATTAGTTTTGTCTTTTTCTTATTTTTTAAA
113273646 AAAATAAATTATATTATTATGATATTAGTTTTGTCTTTTTCTTATTTTTTAAA
1 AAAATAAATTATATTATTATGATATTAGTTTTGTCTTTTTCTTATTTTTTAAA
113273699 AAA
1 AAA
113273702 CTAATAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.55
Consensus pattern (53 bp):
AAAATAAATTATATTATTATGATATTAGTTTTGTCTTTTTCTTATTTTTTAAA
Found at i:113275436 original size:39 final size:39
Alignment explanation
Indices: 113275393--113275610 Score: 330
Period size: 39 Copynumber: 5.6 Consensus size: 39
113275383 ATCGTGATCT
* *
113275393 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
* * *
113275432 GAAGCCCGAAGGCTAACTAAAGCACACAGGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
*
113275471 GAAGCCCGAAGGCTAACTGAATCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
* * *
113275510 GAAGCCCGAAGGCTAACTAAAGCACACAGGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
*
113275549 GAAGCCCGAAGGCTAACTGAATCACATAAGTGCTAAAC-
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
113275587 GAAAGCCCGAAGGCTAACTGAAGC
1 G-AAGCCCGAAGGCTAACTGAAGC
113275611 TCATCAGAGC
Statistics
Matches: 160, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 1 0.01
39 159 0.99
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
Found at i:113275522 original size:78 final size:78
Alignment explanation
Indices: 113275393--113275610 Score: 384
Period size: 78 Copynumber: 2.8 Consensus size: 78
113275383 ATCGTGATCT
* * *
113275393 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTAAAGCACA
1 GAAGCCCGAAGGCTAACTGAATCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTAAAGCACA
113275458 CAGGTGCTAAACA
66 CAGGTGCTAAACA
113275471 GAAGCCCGAAGGCTAACTGAATCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTAAAGCACA
1 GAAGCCCGAAGGCTAACTGAATCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTAAAGCACA
113275536 CAGGTGCTAAACA
66 CAGGTGCTAAACA
*
113275549 GAAGCCCGAAGGCTAACTGAATCACATAAGTGCTAAAC-GAAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAATCACATAAGTGCTAAACAG-AAGCCCGAAGGCTAACTAAAGC
113275611 TCATCAGAGC
Statistics
Matches: 135, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
77 1 0.01
78 134 0.99
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (78 bp):
GAAGCCCGAAGGCTAACTGAATCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTAAAGCACA
CAGGTGCTAAACA
Found at i:113275697 original size:20 final size:21
Alignment explanation
Indices: 113275623--113275694 Score: 126
Period size: 21 Copynumber: 3.4 Consensus size: 21
113275613 ATCAGAGCTG
113275623 AACTGAAACCCCAAAAAGGTT
1 AACTGAAACCCCAAAAAGGTT
113275644 AACTGAAACCCCAAAAAGGTT
1 AACTGAAACCCCAAAAAGGTT
* *
113275665 AACTGAAACCTCAAAAGGGTT
1 AACTGAAACCCCAAAAAGGTT
113275686 AACTGAAAC
1 AACTGAAAC
113275695 TCATATGAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.47, C:0.22, G:0.15, T:0.15
Consensus pattern (21 bp):
AACTGAAACCCCAAAAAGGTT
Found at i:113275706 original size:20 final size:21
Alignment explanation
Indices: 113275623--113275708 Score: 88
Period size: 21 Copynumber: 4.1 Consensus size: 21
113275613 ATCAGAGCTG
*
113275623 AACTGAAACCCCAAAA-AGGTT
1 AACTGAAACCTCAAAAGA-GTT
*
113275644 AACTGAAACCCCAAAA-AGGTT
1 AACTGAAACCTCAAAAGA-GTT
*
113275665 AACTGAAACCTCAAAAGGGTT
1 AACTGAAACCTCAAAAGAGTT
* *
113275686 AACTGAAA-CTCATATGAGTT
1 AACTGAAACCTCAAAAGAGTT
113275706 AAC
1 AAC
113275709 GGAAGCTCGT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
20 12 0.20
21 47 0.80
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (21 bp):
AACTGAAACCTCAAAAGAGTT
Found at i:113284523 original size:31 final size:29
Alignment explanation
Indices: 113284449--113284528 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
113284439 GAATTGGATC
* *
113284449 AAATCAAAATTTCATATATAAAATTGCACA
1 AAATC-AAATTTCATGTATAAAATTACACA
*
113284479 AAATCAAATTTCATGTATACAATTACACA
1 AAATCAAATTTCATGTATAAAATTACACA
113284508 TTAAATCATAA-TTCATGTATA
1 --AAATCA-AATTTCATGTATA
113284529 GTTTTGGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 21 0.48
30 5 0.11
31 16 0.36
32 2 0.05
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.34
Consensus pattern (29 bp):
AAATCAAATTTCATGTATAAAATTACACA
Found at i:113288744 original size:16 final size:17
Alignment explanation
Indices: 113288711--113288748 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
113288701 CTAAATTTTC
* *
113288711 CTTTTCCTTTTCTGTTT
1 CTTTCCCTTTTCTCTTT
113288728 CTTTCCCTTTT-TCTTT
1 CTTTCCCTTTTCTCTTT
113288744 CTTTC
1 CTTTC
113288749 TTTCCATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (17 bp):
CTTTCCCTTTTCTCTTT
Found at i:113288783 original size:13 final size:13
Alignment explanation
Indices: 113288773--113288813 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
113288763 TTCGTTTTCA
113288773 TTCATTCTTTTAT
1 TTCATTCTTTTAT
*
113288786 TTCTTTCTTTTAT
1 TTCATTCTTTTAT
* *
113288799 TTTATTTTTTTAT
1 TTCATTCTTTTAT
113288812 TT
1 TT
113288814 AATTACTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCATTCTTTTAT
Found at i:113291977 original size:50 final size:50
Alignment explanation
Indices: 113291877--113291979 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 50
113291867 GAGGGGTTTA
* * * *
113291877 TTTTCTTTCTACCGGAAGGACATGAGGTAGGTTGGGGATTGTTACGGGGT
1 TTTTCTTTCTACCGGAAGGACATGAAGTAGGCTGGAGATTGTTACAGGGT
* * **
113291927 TTTTCTTTCTATCGGAAGGATATGAAGTAGGCTGGAGATTGTTGTAGGGT
1 TTTTCTTTCTACCGGAAGGACATGAAGTAGGCTGGAGATTGTTACAGGGT
113291977 TTT
1 TTT
113291980 GTTGGTTAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.19, C:0.10, G:0.33, T:0.38
Consensus pattern (50 bp):
TTTTCTTTCTACCGGAAGGACATGAAGTAGGCTGGAGATTGTTACAGGGT
Found at i:113293099 original size:22 final size:22
Alignment explanation
Indices: 113293034--113293099 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 22
113293024 CTTACCACAC
113293034 CAATTGTTGATACAAAGTATAA
1 CAATTGTTGATACAAAGTATAA
* ** *
113293056 CAA-TG--GAGGAGTAAGCAT--
1 CAATTGTTGA-TACAAAGTATAA
113293074 CAATTGTTGATACAAAGTATAA
1 CAATTGTTGATACAAAGTATAA
113293096 CAAT
1 CAAT
113293100 GGAGAAAGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
18 3 0.10
19 4 0.13
20 12 0.40
21 4 0.13
22 7 0.23
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (22 bp):
CAATTGTTGATACAAAGTATAA
Found at i:113305316 original size:14 final size:13
Alignment explanation
Indices: 113305297--113305334 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
113305287 ATTTAATGTT
113305297 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
113305311 TAATTATTAAGGA
1 TAATTATTTAGGA
113305324 TAATTATTTAG
1 TAATTATTTAG
113305335 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:113305363 original size:10 final size:10
Alignment explanation
Indices: 113305348--113305407 Score: 77
Period size: 10 Copynumber: 6.0 Consensus size: 10
113305338 TAAATTTAGG
*
113305348 ATTTATTTTT
1 ATTTATCTTT
113305358 ATTTATCTTT
1 ATTTATCTTT
*
113305368 AATTATCTTT
1 ATTTATCTTT
*
113305378 AATTATCTTT
1 ATTTATCTTT
113305388 ATTTAT-TTGT
1 ATTTATCTT-T
113305398 ATTTATCTTT
1 ATTTATCTTT
113305408 TAGAATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:113308582 original size:18 final size:17
Alignment explanation
Indices: 113308556--113308595 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
113308546 TGTCATTTAA
113308556 ATATATAAAAAAATATTT
1 ATATAT-AAAAAATATTT
*
113308574 ATATTTAAAAAATATTT
1 ATATATAAAAAATATTT
*
113308591 TTATA
1 ATATA
113308596 AGAATTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATAAAAAATATTT
Found at i:113316207 original size:15 final size:15
Alignment explanation
Indices: 113316187--113316216 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113316177 AAATAGTCAC
113316187 TTTAGTTTGTCTCAG
1 TTTAGTTTGTCTCAG
*
113316202 TTTAGTTTTTCTCAG
1 TTTAGTTTGTCTCAG
113316217 GTTATATTTT
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:0.13, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTAGTTTGTCTCAG
Found at i:113321802 original size:2 final size:2
Alignment explanation
Indices: 113321795--113321819 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
113321785 ACTACGGTAA
113321795 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
113321820 ACACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:113324587 original size:23 final size:27
Alignment explanation
Indices: 113324541--113324597 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
113324531 TGACCCCGGC
113324541 AATTAAAGAGCAATATAATAAATAAAT
1 AATTAAAGAGCAATATAATAAATAAAT
*
113324568 AATTAAAGAGCAATATAATAAATACAT
1 AATTAAAGAGCAATATAATAAATAAAT
113324595 AAT
1 AAT
113324598 ATCCCATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.26
Consensus pattern (27 bp):
AATTAAAGAGCAATATAATAAATAAAT
Found at i:113329491 original size:8 final size:9
Alignment explanation
Indices: 113329457--113329503 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
113329447 ATTAAAAATA
*
113329457 TTTATAGTT
1 TTTATAATT
113329466 TTTATAATT
1 TTTATAATT
*
113329475 TTAATAATT
1 TTTATAATT
113329484 TTTA-AATT
1 TTTATAATT
*
113329492 TTT-TAAAT
1 TTTATAATT
113329500 TTTA
1 TTTA
113329504 AAAATTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 13 0.41
9 19 0.59
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:113332954 original size:33 final size:33
Alignment explanation
Indices: 113332903--113332991 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 33
113332893 ATTAAAATTA
* * *
113332903 ATAATAAAAAAATAACAACAAAATAGCAACAGT
1 ATAATAACAAAATGACAACAAAATAGCAACAAT
* *
113332936 ATAA-AAGCAAAATGACAACAAAATAGTAGCAAT
1 ATAATAA-CAAAATGACAACAAAATAGCAACAAT
*
113332969 ATAATAACAAAATGACAATAAAA
1 ATAATAACAAAATGACAACAAAA
113332992 CAACTTATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
32 2 0.04
33 44 0.92
34 2 0.04
ACGTcount: A:0.65, C:0.11, G:0.08, T:0.16
Consensus pattern (33 bp):
ATAATAACAAAATGACAACAAAATAGCAACAAT
Found at i:113333244 original size:21 final size:21
Alignment explanation
Indices: 113333220--113333263 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
113333210 TGAATAAAGC
*
113333220 TAAATCTT-AATTTATTAATAA
1 TAAATCTTGAAATT-TTAATAA
*
113333241 TAAATTTTGAAATTTTAATAA
1 TAAATCTTGAAATTTTAATAA
113333262 TA
1 TA
113333264 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAATCTTGAAATTTTAATAA
Found at i:113333261 original size:18 final size:19
Alignment explanation
Indices: 113333232--113333277 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
113333222 AATCTTAATT
*
113333232 TATTAATAATAAATTTTGAAA
1 TATTAATAAT--ATTTTAAAA
*
113333253 TTTTAATAATATTTTAAAA
1 TATTAATAATATTTTAAAA
113333272 TATTAA
1 TATTAA
113333278 ATATTAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATTAATAATATTTTAAAA
Found at i:113334965 original size:22 final size:21
Alignment explanation
Indices: 113334924--113334965 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
113334914 GGCTGTGTGA
*
113334924 GCCACACGGCCTAAGACATGG
1 GCCACACGGCCAAAGACATGG
*
113334945 GCCACACGGTCAAGAGACATG
1 GCCACACGGCCAA-AGACATG
113334966 CCTGTGTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.31, C:0.31, G:0.29, T:0.10
Consensus pattern (21 bp):
GCCACACGGCCAAAGACATGG
Found at i:113336200 original size:5 final size:5
Alignment explanation
Indices: 113336174--113336231 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
113336164 ATGTGTTAAA
* *
113336174 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
113336223 ATATT ATAT
1 ATATT ATAT
113336232 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:113336210 original size:10 final size:9
Alignment explanation
Indices: 113336175--113336232 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
113336165 TGTGTTAAAA
113336175 TATATATAT
1 TATATATAT
*
113336184 TAAAT-TAT
1 TATATATAT
113336192 TAT-TATAT
1 TATATATAT
113336200 TATAGTATAT
1 TATA-TATAT
113336210 TATAT-TA-
1 TATATATAT
113336217 TATATTATAT
1 TATA-TATAT
113336227 TATATA
1 TATATA
113336233 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Done.