Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 272 of 373
Found at i:92245714 original size:19 final size:19
Alignment explanation
Indices: 92245692--92245752 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
92245682 TTTCTATGTA
92245692 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTTACGAT
**
92245711 TTTTATAAAATTTTAC-AT
1 TTTTATAATTTTTTACGAT
* *
92245729 TTTT-T-ATTTTTTAAGAA
1 TTTTATAATTTTTTACGAT
92245746 TTTTATA
1 TTTTATA
92245753 TATATATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 6 0.18
17 6 0.18
18 7 0.21
19 14 0.42
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:92245773 original size:24 final size:23
Alignment explanation
Indices: 92245733--92245778 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
92245723 TTACATTTTT
92245733 TATTTTTTAAGAATTTTATATATA
1 TATTTTTTAAGAATTTTA-ATATA
*
92245757 TATTTTTTATA-ATTTTTAATAT
1 TATTTTTTA-AGAATTTTAATAT
92245779 TTTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 15 0.75
25 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTTTTTAAGAATTTTAATATA
Found at i:92245781 original size:50 final size:50
Alignment explanation
Indices: 92245710--92245807 Score: 112
Period size: 50 Copynumber: 2.0 Consensus size: 50
92245700 TTTTTTACGA
* *
92245710 TTTTTATAAAATTTTACATTTT-TTATTTT-TTAAGAATTTTATATATATAT
1 TTTTTATAAAATTTTACATTTTAATATTTTATTAA-AATTTAATA-ATATAT
* *
92245760 TTTTTAT-AATTTTTAATATTTTAATATTTTATTAAAATTTAATAATAT
1 TTTTTATAAAATTTT-ACATTTTAATATTTTATTAAAATTTAATAATAT
92245808 TTATAGCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
49 6 0.15
50 17 0.41
51 14 0.34
52 4 0.10
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (50 bp):
TTTTTATAAAATTTTACATTTTAATATTTTATTAAAATTTAATAATATAT
Found at i:92248577 original size:16 final size:15
Alignment explanation
Indices: 92248556--92248598 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
92248546 CTTAAAAGTT
92248556 TACTATTATAGCGAAA
1 TACTATTATAGC-AAA
*
92248572 TACTATTATAACAAA
1 TACTATTATAGCAAA
92248587 TGACTATTATAG
1 T-ACTATTATAG
92248599 AGAGAGCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (15 bp):
TACTATTATAGCAAA
Found at i:92249058 original size:21 final size:20
Alignment explanation
Indices: 92249025--92249063 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
92249015 AACAAAATTG
*
92249025 AGCAATTGAAATGGTATAGA
1 AGCAATTGAAATGCTATAGA
*
92249045 AGCATATTGTAATGCTATA
1 AGCA-ATTGAAATGCTATA
92249064 AATCTCTATC
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:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (20 bp):
AGCAATTGAAATGCTATAGA
Found at i:92254458 original size:35 final size:35
Alignment explanation
Indices: 92254411--92254486 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
92254401 CATACTTCTA
*
92254411 ATTTT-TCATTAGAACAATATTTTGATTTTTTAGT
1 ATTTTATCATTAGAACAATATTTTGATTTTTTAGG
* * *
92254445 ATTTTATCTTTAGAATAATTTTTTGATTTTTTAGG
1 ATTTTATCATTAGAACAATATTTTGATTTTTTAGG
92254480 ATTTTAT
1 ATTTTAT
92254487 TATTTTATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 5 0.14
35 32 0.86
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (35 bp):
ATTTTATCATTAGAACAATATTTTGATTTTTTAGG
Found at i:92257212 original size:21 final size:21
Alignment explanation
Indices: 92257186--92257228 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
92257176 GCAAGCTATC
92257186 CTTCGGCAAGGGAGATTGTGT
1 CTTCGGCAAGGGAGATTGTGT
92257207 CTTCGGCAAGGGAGATTGTGT
1 CTTCGGCAAGGGAGATTGTGT
92257228 C
1 C
92257229 AGACTCTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.16, G:0.37, T:0.28
Consensus pattern (21 bp):
CTTCGGCAAGGGAGATTGTGT
Found at i:92263317 original size:21 final size:21
Alignment explanation
Indices: 92263292--92263333 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
92263282 AACTTACCCC
92263292 TTCTTGTTTATCTGTACAAGT
1 TTCTTGTTTATCTGTACAAGT
92263313 TTCTTGTTTATCTGTACAAGT
1 TTCTTGTTTATCTGTACAAGT
92263334 AATCCCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.52
Consensus pattern (21 bp):
TTCTTGTTTATCTGTACAAGT
Found at i:92265986 original size:21 final size:22
Alignment explanation
Indices: 92265960--92266000 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
92265950 TGTATTTTTG
92265960 TGTTTAATGG-TAGA-AAATGCA
1 TGTTT-ATGGTTAGAGAAATGCA
92265981 TGTTTATGGTTAGAGAAATG
1 TGTTTATGGTTAGAGAAATG
92266001 ACTTTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (22 bp):
TGTTTATGGTTAGAGAAATGCA
Found at i:92266623 original size:48 final size:48
Alignment explanation
Indices: 92266567--92266709 Score: 223
Period size: 48 Copynumber: 3.0 Consensus size: 48
92266557 CATTAGGGTT
* * *
92266567 ATATGAGATCCCATGTAAGACCATGGCTGGGACATGACATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA
*
92266615 ATATGAGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA
* * *
92266663 ATATGACATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
92266710 TTACTATGTG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA
Found at i:92270139 original size:34 final size:34
Alignment explanation
Indices: 92270099--92270169 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
92270089 ACTTTTTATG
92270099 CTAGGCTCCCAATCTTTTACTCTTCATCTGAAAC
1 CTAGGCTCCCAATCTTTTACTCTTCATCTGAAAC
*
92270133 CTAGGCTCCCAATCTTTTACTCTTCATTTGAAAC
1 CTAGGCTCCCAATCTTTTACTCTTCATCTGAAAC
92270167 CTA
1 CTA
92270170 CAATATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.37
Consensus pattern (34 bp):
CTAGGCTCCCAATCTTTTACTCTTCATCTGAAAC
Found at i:92271099 original size:22 final size:22
Alignment explanation
Indices: 92271056--92271098 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
92271046 ATTAAAATTA
92271056 CAAAAAAATTTAAAATAATTTT
1 CAAAAAAATTTAAAATAATTTT
92271078 CAAAAAAA-TTAAAATAATTTT
1 CAAAAAAATTTAAAATAATTTT
92271099 TAGAGTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (22 bp):
CAAAAAAATTTAAAATAATTTT
Found at i:92280235 original size:34 final size:34
Alignment explanation
Indices: 92280192--92280263 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
92280182 CTTCCAAAGT
92280192 ATGTTTAGGGCCTCGAAGGCTTGAATTAGGGATA
1 ATGTTTAGGGCCTCGAAGGCTTGAATTAGGGATA
*
92280226 ATGTTTAGGGCCTCGAAGGCTTGTATTAGGGATA
1 ATGTTTAGGGCCTCGAAGGCTTGAATTAGGGATA
92280260 ATGT
1 ATGT
92280264 GATTGTCTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.32
Consensus pattern (34 bp):
ATGTTTAGGGCCTCGAAGGCTTGAATTAGGGATA
Found at i:92283824 original size:62 final size:62
Alignment explanation
Indices: 92283749--92283873 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
92283739 GTCTGAGGAT
92283749 CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
1 CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
92283811 CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
1 CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
92283873 C
1 C
92283874 TCATAGCGGG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (62 bp):
CATGTACATATTAATCACTATGAGTAATGTTGTGACAATTGCATAATAATCCAAGAAACATA
Found at i:92289249 original size:15 final size:16
Alignment explanation
Indices: 92289229--92289266 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
92289219 ATTAAGTACT
92289229 AATTTTTT-AGTCTTA
1 AATTTTTTAAGTCTTA
* *
92289244 AATTTTTTAAGTGTTC
1 AATTTTTTAAGTCTTA
92289260 AATTTTT
1 AATTTTT
92289267 ATTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (16 bp):
AATTTTTTAAGTCTTA
Found at i:92289955 original size:17 final size:18
Alignment explanation
Indices: 92289924--92289957 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
92289914 TTTATCTTTT
*
92289924 AATACTTTTACATAAAAA
1 AATACTTTTAAATAAAAA
92289942 AATA-TTTTAAATAAAA
1 AATACTTTTAAATAAAA
92289958 CAACTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
AATACTTTTAAATAAAAA
Found at i:92293533 original size:3 final size:3
Alignment explanation
Indices: 92293525--92293555 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
92293515 TTTTTAAAGC
92293525 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
92293556 GATATTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:92295251 original size:31 final size:27
Alignment explanation
Indices: 92295216--92295290 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 27
92295206 TTAATTTATA
92295216 TAAAAATTATAAAATAAAATAAAATTATTTT
1 TAAAAATTATAAAATAAAA-AAAA-TA--TT
* *
92295247 TAAAAATTAGAAAATTAAAAAAATATT
1 TAAAAATTATAAAATAAAAAAAATATT
*
92295274 TACAAATTAT-AAATAAA
1 TAAAAATTATAAAATAAA
92295291 TATTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.15
27 10 0.26
29 2 0.05
30 4 0.10
31 17 0.44
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (27 bp):
TAAAAATTATAAAATAAAAAAAATATT
Found at i:92295282 original size:19 final size:21
Alignment explanation
Indices: 92295258--92295309 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
92295248 AAAAATTAGA
92295258 AAATTA-AAA-AAATATTTAC
1 AAATTATAAATAAATATTTAC
92295277 AAATTATAAATAAATATTTA-
1 AAATTATAAATAAATATTTAC
*
92295297 ATATATATAAATA
1 AAAT-TATAAATA
92295310 CATAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 6 0.21
20 6 0.21
21 17 0.59
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTATAAATAAATATTTAC
Found at i:92296970 original size:14 final size:14
Alignment explanation
Indices: 92296951--92296986 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
92296941 TTGTTTAATT
92296951 GAAAATGATTTCCG
1 GAAAATGATTTCCG
* *
92296965 GAAAATAATTTCTG
1 GAAAATGATTTCCG
92296979 GAAAATGA
1 GAAAATGA
92296987 CTTACTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.28
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:92298959 original size:5 final size:5
Alignment explanation
Indices: 92298949--92298986 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
92298939 AATTTGTGTG
*
92298949 TTATT TTATT TTTTAT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
92298987 TTTCACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:92303417 original size:5 final size:5
Alignment explanation
Indices: 92303407--92303443 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
92303397 AATTTGTGTG
92303407 TTATT TTATT TT-TCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
92303444 TTTCACACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:92306159 original size:12 final size:13
Alignment explanation
Indices: 92306132--92306158 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92306122 TTAGTTTAGT
92306132 AATGTTTTTTAAA
1 AATGTTTTTTAAA
92306145 AATGTTTTTTAAA
1 AATGTTTTTTAAA
92306158 A
1 A
92306159 TTACTGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
AATGTTTTTTAAA
Found at i:92308001 original size:20 final size:19
Alignment explanation
Indices: 92307978--92308022 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
92307968 ATGAACTAAA
92307978 ATGAAAATTTGTAAAATTTG
1 ATGAAAATTT-TAAAATTTG
* *
92307998 ATGAAAAATTTTGAAATTTT
1 ATG-AAAATTTTAAAATTTG
92308018 ATGAA
1 ATGAA
92308023 TACATGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 13 0.59
21 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGAAAATTTTAAAATTTG
Found at i:92309508 original size:19 final size:18
Alignment explanation
Indices: 92309469--92309511 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
92309459 CTTTATTATG
*
92309469 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
92309487 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
92309506 TTTTTG
1 TTTTTG
92309512 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:92309715 original size:68 final size:64
Alignment explanation
Indices: 92309605--92309755 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 64
92309595 ATACAGATGG
* * * *
92309605 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAG-ACAAGAGAGCTACG-G-CA
92309669 TTA
63 -TA
* * *
92309672 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGATGATACTGA-GTGCACACCATGTAGACAAGAGAGCTACGGCAT
92309736 A
64 A
*
92309737 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCACATG
92309756 CGTGGTTCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 17 0.23
65 3 0.04
66 1 0.01
67 3 0.04
68 48 0.66
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAGACAAGAGAGCTACGGCATA
Found at i:92319668 original size:50 final size:50
Alignment explanation
Indices: 92319609--92319712 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
92319599 ATACGTGTAT
** * * * *
92319609 GCTCATACGAGCT-ATGAATCGGTATGCTCTCATAAGTTGTAAATCGGTAA
1 GCTCATACGAGCTGA-GAATCAATAAGCTCTCACAAGCTGCAAATCGGTAA
*
92319659 GCTCATACGAGCTGAGAATCAATAAGCTCTCACGAGCTGCAAATCGGTAA
1 GCTCATACGAGCTGAGAATCAATAAGCTCTCACAAGCTGCAAATCGGTAA
92319709 GCTC
1 GCTC
92319713 TCACAAGCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTGAGAATCAATAAGCTCTCACAAGCTGCAAATCGGTAA
Found at i:92319678 original size:25 final size:25
Alignment explanation
Indices: 92319609--92319758 Score: 91
Period size: 25 Copynumber: 6.0 Consensus size: 25
92319599 ATACGTGTAT
*
92319609 GCTCATACGAGCT-ATGAATCGGTAT
1 GCTCATACGAGCTGA-GAATCGGTAA
*
92319634 GCTCTCATA--AGTTGTA-AATCGGTAA
1 G--CTCATACGAGCTG-AGAATCGGTAA
**
92319659 GCTCATACGAGCTGAGAATCAATAA
1 GCTCATACGAGCTGAGAATCGGTAA
92319684 GCTC-TCACGAGCTGCA-AATCGGTAA
1 GCTCAT-ACGAGCTG-AGAATCGGTAA
* * *
92319709 GCTC-TCACAAGCT-ACAAATTGGTAA
1 GCTCAT-ACGAGCTGA-GAATCGGTAA
* *
92319734 GCTCATACGAACTGAGAATTGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
92319759 CCCTAATAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
23 7 0.07
24 2 0.02
25 81 0.81
26 3 0.03
27 7 0.07
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:92326288 original size:22 final size:22
Alignment explanation
Indices: 92326261--92326337 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
92326251 CATGCATATG
92326261 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
92326283 TGTGATGAATG-TGAACAT-GCACATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
92326308 TGTGATAAGGCCGAATGACCAA
1 TGTGATAAGGCCGAATGGCCAA
92326330 TGTGATAA
1 TGTGATAA
92326338 ATGTGAACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 16 0.37
23 10 0.23
24 9 0.21
25 8 0.19
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:92326303 original size:47 final size:47
Alignment explanation
Indices: 92326234--92326425 Score: 278
Period size: 47 Copynumber: 4.1 Consensus size: 47
92326224 AGCCAAGGCA
*
92326234 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
92326281 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGACC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
92326328 AATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * *
92326375 AATGTGATGAACGTGGAA-GTGTATATATGTGATAAAGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCC
92326422 AATG
1 AATG
92326426 CGAAATGTGT
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 127 0.98
48 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:92326382 original size:22 final size:22
Alignment explanation
Indices: 92326261--92326382 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
92326251 CATGCATATG
*
92326261 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
92326283 TGTGATGAATGTG-A-ACAT-GCACATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
* *
92326308 TGTGATAAGGCCGAATGACCAA
1 TGTGATAAGGCAGAATGGCCAA
*
92326330 TGTGATAAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
92326355 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
92326377 TGTGAT
1 TGTGAT
92326383 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 36
0.64 0.06 0.31
Matches are distributed among these distances:
22 22 0.29
23 19 0.25
24 18 0.24
25 16 0.21
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:92326457 original size:46 final size:46
Alignment explanation
Indices: 92326399--92326489 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
92326389 GGAAGTGTAT
* *
92326399 ATATGTGATAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGATAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
92326445 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGATAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
92326490 AGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (46 bp):
ATATGTGATAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:92328256 original size:40 final size:40
Alignment explanation
Indices: 92328196--92328607 Score: 761
Period size: 40 Copynumber: 10.3 Consensus size: 40
92328186 ATTCGAATGA
92328196 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
**
92328236 TATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
92328276 TATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
92328316 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
92328356 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
92328396 CATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
92328436 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
92328476 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
92328516 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
92328556 TATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
92328596 TATCCGGGCTAA
1 TATCCGGGCTAA
92328608 ACCTTGAAGG
Statistics
Matches: 362, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 362 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:92328429 original size:23 final size:23
Alignment explanation
Indices: 92328323--92328429 Score: 67
Period size: 23 Copynumber: 5.2 Consensus size: 23
92328313 ATGTATCCGG
92328323 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
* * * *
92328346 GCT-AGT---G-A-TGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGT
92328363 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
* * *
92328386 GCT-AGT---G-A-TGCATCCGG
1 GCTAAGTCCCGAAGAGCATTCGT
92328403 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
92328426 GCTA
1 GCTA
92328430 GTGATGTATC
Statistics
Matches: 58, Mismatches: 14, Indels: 24
0.60 0.15 0.25
Matches are distributed among these distances:
17 17 0.29
18 8 0.14
19 2 0.03
21 2 0.03
22 8 0.14
23 21 0.36
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCGT
Found at i:92328744 original size:57 final size:57
Alignment explanation
Indices: 92328635--92328745 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
92328625 GCTGGAATCA
* *
92328635 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTAGT
* * * **
92328692 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCACTATGTGTGTGAAATCAGT
1 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGT
92328746 CAGTGGGCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTAGT
Found at i:92336675 original size:47 final size:47
Alignment explanation
Indices: 92336610--92336806 Score: 286
Period size: 47 Copynumber: 4.2 Consensus size: 47
92336600 CATGGAAACA
* * ** *
92336610 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGCCTATGGCATCGG
1 TGTGATATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATCAG
*
92336658 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCGTCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* *
92336705 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGAATCAA
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* **
92336752 TGTGATATGTGCTTCTGTGTAAGACCATATCCAGGATATGGCATCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
92336799 TGTGATAT
1 TGTGATAT
92336807 ATGATCCATG
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 124 0.92
48 11 0.08
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (47 bp):
TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
Found at i:92341703 original size:47 final size:47
Alignment explanation
Indices: 92341638--92341834 Score: 295
Period size: 47 Copynumber: 4.2 Consensus size: 47
92341628 CATGGAAACA
* * ** *
92341638 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGCCTATGGCATCGG
1 TGTGATATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATCAG
*
92341686 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCGTCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* *
92341733 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGAATCAA
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* *
92341780 TGTGATATGTGCTTCTGTGTAAGACCATATCTAGGATATGGCATCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
92341827 TGTGATAT
1 TGTGATAT
92341835 ATGATCCATG
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
47 125 0.92
48 11 0.08
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (47 bp):
TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
Found at i:92361847 original size:17 final size:16
Alignment explanation
Indices: 92361825--92361865 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
92361815 TTTTCTATCA
92361825 TAACATACAAGGCACAT
1 TAACATACAA-GCACAT
*
92361842 TAACATA-AATCACAT
1 TAACATACAAGCACAT
92361857 T-ACATACAA
1 TAACATACAA
92361866 TACAACATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 5 0.23
15 8 0.36
16 2 0.09
17 7 0.32
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (16 bp):
TAACATACAAGCACAT
Found at i:92362995 original size:38 final size:38
Alignment explanation
Indices: 92362938--92363116 Score: 205
Period size: 38 Copynumber: 4.7 Consensus size: 38
92362928 GGATGTTACA
* *
92362938 TTGTGCCTAGCAGGCTTTGTACTGGTGATATTCAGGCT
1 TTGTGCCTAGCAGGCTTTGTGCCGGTGATATTCAGGCT
* ** ** * *
92362976 TTGTGCCTAGTAGATTTTGTGCCAATGGTATTCGGGCT
1 TTGTGCCTAGCAGGCTTTGTGCCGGTGATATTCAGGCT
* *
92363014 TTGTGCCTAGCAGGCTTTGTGTCGTTGATATTCAGGCT
1 TTGTGCCTAGCAGGCTTTGTGCCGGTGATATTCAGGCT
* **
92363052 TTATGCCTAGCAGGCTTTGTGCCGGTGATATTTGGGCT
1 TTGTGCCTAGCAGGCTTTGTGCCGGTGATATTCAGGCT
* * *
92363090 ATGTGCCTAGTAGGCTTTGTGCTGGTG
1 TTGTGCCTAGCAGGCTTTGTGCCGGTG
92363117 TAATTGTATC
Statistics
Matches: 115, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 115 1.00
ACGTcount: A:0.14, C:0.17, G:0.31, T:0.38
Consensus pattern (38 bp):
TTGTGCCTAGCAGGCTTTGTGCCGGTGATATTCAGGCT
Found at i:92363071 original size:76 final size:77
Alignment explanation
Indices: 92362938--92363116 Score: 229
Period size: 76 Copynumber: 2.4 Consensus size: 77
92362928 GGATGTTACA
* * *
92362938 TTGTGCCTAGCAGGCTTTGT-ACTGGTGATATTCAGGCTTTGTGCCTAGTAGATTTTGTGCCAAT
1 TTGTGCCTAGCAGGCTTTGTGACTGGTGATATTCAGGCTTTATGCCTAGCAGACTTTGTGCCAAT
*
92363002 GGTATTCGGGCT
66 GATATTCGGGCT
* * * **
92363014 TTGTGCCTAGCAGGCTTTGTGTC-GTTGATATTCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGT
1 TTGTGCCTAGCAGGCTTTGTGACTGGTGATATTCAGGCTTTATGCCTAGCAGACTTTGTGCCAAT
*
92363078 GATATTTGGGCT
66 GATATTCGGGCT
* *
92363090 ATGTGCCTAGTAGGCTTTGTG-CTGGTG
1 TTGTGCCTAGCAGGCTTTGTGACTGGTG
92363117 TAATTGTATC
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
75 1 0.01
76 86 0.98
77 1 0.01
ACGTcount: A:0.14, C:0.17, G:0.31, T:0.38
Consensus pattern (77 bp):
TTGTGCCTAGCAGGCTTTGTGACTGGTGATATTCAGGCTTTATGCCTAGCAGACTTTGTGCCAAT
GATATTCGGGCT
Found at i:92372118 original size:26 final size:26
Alignment explanation
Indices: 92372089--92372148 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
92372079 TATATATTTT
92372089 AAATTAGAGGTCGAGGATGTTTAATG
1 AAATTAGAGGTCGAGGATGTTTAATG
92372115 AAATTAGAGGTCGAGGATGTTTAATG
1 AAATTAGAGGTCGAGGATGTTTAATG
92372141 AAATTAGA
1 AAATTAGA
92372149 CCGAAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.30
Consensus pattern (26 bp):
AAATTAGAGGTCGAGGATGTTTAATG
Found at i:92375420 original size:13 final size:13
Alignment explanation
Indices: 92375402--92375426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92375392 TGCAACCAGA
92375402 AACATGTTTCATG
1 AACATGTTTCATG
92375415 AACATGTTTCAT
1 AACATGTTTCAT
92375427 TCAAGCTAAT
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:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
AACATGTTTCATG
Found at i:92376857 original size:18 final size:19
Alignment explanation
Indices: 92376836--92376873 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
92376826 TCGAATTGAG
*
92376836 TTATTTAAGT-TATTCAAA
1 TTATTTAAGTCTACTCAAA
*
92376854 TTATTTGAGTCTACTCAAA
1 TTATTTAAGTCTACTCAAA
92376873 T
1 T
92376874 AACTCGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
TTATTTAAGTCTACTCAAA
Found at i:92377067 original size:23 final size:25
Alignment explanation
Indices: 92377037--92377082 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
92377027 AAAAATTCAA
*
92377037 TATATTTATAAAA-A-ATAAAAATT
1 TATATTTAAAAAATATATAAAAATT
92377060 TATATTTAAAAAATATATAAAAA
1 TATATTTAAAAAATATATAAAAA
92377083 AATTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 1 0.05
25 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TATATTTAAAAAATATATAAAAATT
Found at i:92377108 original size:21 final size:21
Alignment explanation
Indices: 92377035--92377120 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
92377025 TCAAAAATTC
* *
92377035 AATATATTTATAAAAAATA-AA
1 AATATATAT-TAAAAATTATAA
*
92377056 AATTTATATTTAAAAAATATATAA
1 AATATATA-TT-AAAAAT-TATAA
92377080 AA-A-A-ATTAAAAATTATAA
1 AATATATATTAAAAATTATAA
*
92377098 AATATATATTAAAAAGT-TAA
1 AATATATATTAAAAATTATAA
92377118 AAT
1 AAT
92377121 TTTAAAAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
18 7 0.13
19 7 0.13
20 9 0.17
21 17 0.32
22 7 0.13
23 2 0.04
24 4 0.08
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (21 bp):
AATATATATTAAAAATTATAA
Found at i:92377129 original size:29 final size:28
Alignment explanation
Indices: 92377053--92377129 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
92377043 TATAAAAAAT
* *
92377053 AAAAATTTATATTTAAAAA-ATATATAA
1 AAAAATTAAAATTTAAAAATATATATAA
* *
92377080 AAAAATTAAAAATTATAAAATATATATTA
1 AAAAATTAAAATTTA-AAAATATATATAA
*
92377109 AAAAGTTAAAATTTTAAAAAT
1 AAAAATTAAAA-TTTAAAAAT
92377130 TTTCTAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 12 0.29
28 4 0.10
29 22 0.54
30 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAAATTAAAATTTAAAAATATATATAA
Found at i:92377617 original size:17 final size:17
Alignment explanation
Indices: 92377597--92377677 Score: 53
Period size: 17 Copynumber: 4.8 Consensus size: 17
92377587 AGAAATTTAT
92377597 AAAAATTATTAAAAATG
1 AAAAATTATTAAAAATG
* * *
92377614 AAAAA--AGTTATATATTCT
1 AAAAATTA-TTA-AAAAT-G
*
92377632 AAAAATAATTAAAAATG
1 AAAAATTATTAAAAATG
*
92377649 AAAATTTATT-AAAAT-
1 AAAAATTATTAAAAATG
92377664 AAAAATTATATAAA
1 AAAAATTAT-TAAA
92377678 TTATATATGA
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
15 9 0.19
16 9 0.19
17 18 0.38
18 8 0.17
19 3 0.06
20 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (17 bp):
AAAAATTATTAAAAATG
Found at i:92377772 original size:29 final size:29
Alignment explanation
Indices: 92377736--92377799 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
92377726 TAATTATGAT
*
92377736 TTTAT-AAAATATTGAAAATTATTAAAAAA
1 TTTATAAAAAT-TTGAAAAATATTAAAAAA
* *
92377765 TTTATAAAAATTTTAAAAATATTATAAAA
1 TTTATAAAAATTTGAAAAATATTAAAAAA
92377794 TGTTAT
1 T-TTAT
92377800 TAGACGCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTATAAAAATTTGAAAAATATTAAAAAA
Found at i:92377773 original size:9 final size:11
Alignment explanation
Indices: 92377737--92377793 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 11
92377727 AATTATGATT
92377737 TTAT-AAAATA
1 TTATAAAAATA
* *
92377747 TT-GAAAATTA
1 TTATAAAAATA
92377757 TTA-AAAAAT-
1 TTATAAAAATA
92377766 TTATAAAAAT-
1 TTATAAAAATA
92377776 TT-TAAAAATA
1 TTATAAAAATA
92377786 TTATAAAA
1 TTATAAAA
92377794 TGTTATTAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 10 0.26
10 24 0.62
11 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TTATAAAAATA
Found at i:92377773 original size:20 final size:20
Alignment explanation
Indices: 92377750--92377793 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
92377740 TAAAATATTG
92377750 AAAATTATTAAAAA-ATTTATA
1 AAAATT-TTAAAAATA-TTATA
92377771 AAAATTTTAAAAATATTATA
1 AAAATTTTAAAAATATTATA
92377791 AAA
1 AAA
92377794 TGTTATTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATTTTAAAAATATTATA
Found at i:92378142 original size:21 final size:20
Alignment explanation
Indices: 92378118--92378324 Score: 64
Period size: 20 Copynumber: 10.7 Consensus size: 20
92378108 ACTTTATTTT
92378118 TAATTTTATATTATTTTTGAA
1 TAATTTTATA-TATTTTTGAA
92378139 TAATTTGTAATAATATTTTT-AA
1 TAATTT-T-AT-ATATTTTTGAA
*
92378161 -AATTTTCTATATTTTTG--
1 TAATTTTATATATTTTTGAA
* * *
92378178 -CACTTTCTATATTTTT-AA
1 TAATTTTATATATTTTTGAA
* *
92378196 TAATTTT-TTTATATTTTAAA
1 TAATTTTATATAT-TTTTGAA
** * *
92378216 TTTTTTTCATA-AATTTTGCA
1 TAATTTT-ATATATTTTTGAA
* * *
92378236 -AATTTT-TTTATTTTTTAT
1 TAATTTTATATATTTTTGAA
* *
92378254 TAATTTTATGAAATTTCGTG-A
1 TAATTTTAT-ATATTT-TTGAA
* *
92378275 TTA-TTTAT-TA-TTTTAAA
1 TAATTTTATATATTTTTGAA
* *
92378292 TAATTTTATATTTTTTTAAA
1 TAATTTTATATATTTTTGAA
*
92378312 TAATTTTAAATAT
1 TAATTTTATATAT
92378325 AAAATACCCG
Statistics
Matches: 134, Mismatches: 32, Indels: 41
0.65 0.15 0.20
Matches are distributed among these distances:
16 1 0.01
17 20 0.15
18 23 0.17
19 20 0.15
20 37 0.28
21 18 0.13
22 5 0.04
23 9 0.07
24 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TAATTTTATATATTTTTGAA
Found at i:92378210 original size:20 final size:19
Alignment explanation
Indices: 92378151--92378252 Score: 63
Period size: 17 Copynumber: 5.5 Consensus size: 19
92378141 ATTTGTAATA
*
92378151 ATATTTTTAAAA-TTTTCT
1 ATATTTTTAAAATTTTTTT
** * *
92378169 ATATTTTT-GCA-CTTTCT
1 ATATTTTTAAAATTTTTTT
92378186 ATATTTTTAATAATTTTTTT
1 ATATTTTTAA-AATTTTTTT
92378206 ATA-TTTT-AAATTTTTTT
1 ATATTTTTAAAATTTTTTT
**
92378223 CATAAATTTTGCAAATTTTTTT
1 -AT--ATTTTTAAAATTTTTTT
92378245 AT-TTTTTA
1 ATATTTTTA
92378253 TTAATTTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
17 23 0.35
18 15 0.23
19 5 0.08
20 8 0.12
21 5 0.08
22 10 0.15
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (19 bp):
ATATTTTTAAAATTTTTTT
Found at i:92378299 original size:10 final size:10
Alignment explanation
Indices: 92378284--92378323 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
92378274 ATTATTTATT
92378284 ATTTTAAATA
1 ATTTTAAATA
* *
92378294 ATTTTATATT
1 ATTTTAAATA
*
92378304 TTTTTAAATA
1 ATTTTAAATA
92378314 ATTTTAAATA
1 ATTTTAAATA
92378324 TAAAATACCC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:92378308 original size:20 final size:20
Alignment explanation
Indices: 92378280--92378319 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
92378270 CGTGATTATT
92378280 TATTATTTTAAATAATTTTA
1 TATTATTTTAAATAATTTTA
*
92378300 TATTTTTTTAAATAATTTTA
1 TATTATTTTAAATAATTTTA
92378320 AATATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTATTTTAAATAATTTTA
Found at i:92384611 original size:22 final size:23
Alignment explanation
Indices: 92384586--92384631 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
92384576 CAACCAAATT
92384586 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
92384608 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
92384631 A
1 A
92384632 GGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:92384637 original size:23 final size:23
Alignment explanation
Indices: 92384593--92384637 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
92384583 ATTAATTCAA
*
92384593 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
92384616 CATATTTAT-AAGATAAGGTCAT
1 CATATTT-TCAAGATAAAGTCAT
92384638 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:92401567 original size:19 final size:19
Alignment explanation
Indices: 92401543--92401583 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
92401533 TCATATTGGA
92401543 AGAATGAATTTACCCGAAG
1 AGAATGAATTTACCCGAAG
92401562 AGAATGAATTTACCCGAAG
1 AGAATGAATTTACCCGAAG
92401581 AGA
1 AGA
92401584 TTAAGGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (19 bp):
AGAATGAATTTACCCGAAG
Found at i:92404983 original size:142 final size:138
Alignment explanation
Indices: 92404717--92404985 Score: 316
Period size: 142 Copynumber: 1.9 Consensus size: 138
92404707 TTAGGTGATA
* * * * *
92404717 TGTGTTCTAGTGTAAGACATGTCTGAGACATGCATCGGCCATATTATGGGAGCCAGTGTAAGACA
1 TGTGTTCTAGTGTAAGACATGCCTGAGACATGCATCGACCATATGATGAGAGCCAGTGCAAGACA
92404782 TGTCTGGGAGATGCATCGACCTCGAGATATACAAGCTAGTGTAAAACCTGTCTGAGACATGGCGT
66 TGTCTGGGAGATGCATCGACCTCGAGATATACAAGCTAGTGTAAAACCTGTCTGAGACATGGCGT
92404847 TAGCTTGT
131 TAGCTTGT
*
92404855 TGTGTGTC-AGTGTAAGACCTGCCTGAGACATGGCATCGACACCGATA-GATGAGAGCCAGTGCA
1 TGTGT-TCTAGTGTAAGACATGCCTGAGACAT-GCATCG--ACC-ATATGATGAGAGCCAGTGCA
* * * *
92404918 AGACCTGTCTGGGATATGACATC-AGCCTCGATATATGA-AAG-TCAGTGTAAGACCTGTCT-AG
61 AGACATGTCTGGGAGATG-CATCGA-CCTCGAGATAT-ACAAGCT-AGTGTAAAACCTGTCTGA-
92404979 GACATGG
121 GACATGG
92404986 AATCGATTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
138 26 0.23
139 8 0.07
141 34 0.31
142 42 0.38
143 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (138 bp):
TGTGTTCTAGTGTAAGACATGCCTGAGACATGCATCGACCATATGATGAGAGCCAGTGCAAGACA
TGTCTGGGAGATGCATCGACCTCGAGATATACAAGCTAGTGTAAAACCTGTCTGAGACATGGCGT
TAGCTTGT
Found at i:92406794 original size:22 final size:22
Alignment explanation
Indices: 92406769--92406812 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
92406759 TTATGGGCAA
92406769 GATGAAGGCTTGGAAAATAGCC
1 GATGAAGGCTTGGAAAATAGCC
92406791 GATGAAGGCTTGGAAAATAGCC
1 GATGAAGGCTTGGAAAATAGCC
92406813 TAAGTGTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (22 bp):
GATGAAGGCTTGGAAAATAGCC
Found at i:92408119 original size:14 final size:14
Alignment explanation
Indices: 92408076--92408111 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
92408066 CCCTACTCCC
*
92408076 TTAATAAAAAGATA
1 TTAATGAAAAGATA
92408090 TTAATGAAAAGATA
1 TTAATGAAAAGATA
92408104 TTAATGAA
1 TTAATGAA
92408112 TGAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (14 bp):
TTAATGAAAAGATA
Found at i:92410654 original size:46 final size:44
Alignment explanation
Indices: 92410551--92410658 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 44
92410541 TATCTTTGAC
** * *
92410551 ATGGACTTACATGAATTATTCCTGTCTCCAATACCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATACCATATATAAT
*
92410595 ATGGACTTACATGGCTCAATCCTGTCTCCAA-AGCCATATTTGTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATA-CCATA--TATAAT
92410641 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
92410659 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 32 0.57
46 23 0.41
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAATACCATATATAAT
Found at i:92420573 original size:29 final size:29
Alignment explanation
Indices: 92420531--92420588 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
92420521 AGCCATACGG
92420531 AATGTACCTCTTATTTATTCAAAATCCTT
1 AATGTACCTCTTATTTATTCAAAATCCTT
92420560 AATGTACCTCTTATTTATTCAAAATCCTT
1 AATGTACCTCTTATTTATTCAAAATCCTT
92420589 TCTAGGACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (29 bp):
AATGTACCTCTTATTTATTCAAAATCCTT
Found at i:92421464 original size:25 final size:25
Alignment explanation
Indices: 92421436--92421485 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
92421426 TGAGATAATT
* *
92421436 CACCACAA-AGGCTTTTCAAATGATA
1 CACCACAAGA-GCTTTCCAAAGGATA
92421461 CACCACAAGAGCTTTCCAAAGGATA
1 CACCACAAGAGCTTTCCAAAGGATA
92421486 TTCCATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (25 bp):
CACCACAAGAGCTTTCCAAAGGATA
Found at i:92421498 original size:25 final size:24
Alignment explanation
Indices: 92421470--92421535 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
92421460 ACACCACAAG
* *
92421470 AGCTTTCCAAAGGATATT-CCATAA
1 AGCTTCCCAAAGAAT-TTGCCATAA
92421494 TAGCTTCCCAAAGAATTTGCCATAA
1 -AGCTTCCCAAAGAATTTGCCATAA
92421519 AGGCTTCCCAAAGAATT
1 A-GCTTCCCAAAGAATT
92421536 CACCACAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 3 0.08
25 34 0.92
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (24 bp):
AGCTTCCCAAAGAATTTGCCATAA
Found at i:92453567 original size:13 final size:13
Alignment explanation
Indices: 92453549--92453576 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92453539 GTTATTCATA
92453549 ATTAATATGAATT
1 ATTAATATGAATT
92453562 ATTAATATGAATT
1 ATTAATATGAATT
92453575 AT
1 AT
92453577 AGACTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:92453847 original size:17 final size:17
Alignment explanation
Indices: 92453825--92453863 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
92453815 CTGACTCCAT
*
92453825 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
92453842 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
92453859 TTTTA
1 TTTTA
92453864 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:92454055 original size:15 final size:17
Alignment explanation
Indices: 92454035--92454066 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92454025 TCATTTCATT
92454035 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
92454050 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
92454067 AGATTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:92459458 original size:43 final size:42
Alignment explanation
Indices: 92459401--92459502 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 42
92459391 TCCAGTTTTG
*
92459401 ACACGGCCTGGACACACGGGCGTGTCTACTGGTCATGTGTGAC
1 ACACGGCCT-GACACACGAGCGTGTCTACTGGTCATGTGTGAC
*
92459444 ACACGGCCTAGACACACGAGCGTGTCTACTGGTCGTGTGTGAC
1 ACACGGCCT-GACACACGAGCGTGTCTACTGGTCATGTGTGAC
*
92459487 ACACGGGCTGACACAC
1 ACACGGCCTGACACAC
92459503 AGGCCTCCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
42 7 0.13
43 48 0.87
ACGTcount: A:0.22, C:0.29, G:0.30, T:0.19
Consensus pattern (42 bp):
ACACGGCCTGACACACGAGCGTGTCTACTGGTCATGTGTGAC
Found at i:92473206 original size:46 final size:46
Alignment explanation
Indices: 92473153--92473328 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
92473143 TGGTTGAGCA
92473153 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
92473199 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
92473244 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
92473292 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCATTGAGTTGAGTCCGAGTTCACTTATGG
92473329 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 56 0.53
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:92473309 original size:93 final size:93
Alignment explanation
Indices: 92473150--92473321 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
92473140 GGATGGTTGA
* * ** *
92473150 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
92473215 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
92473243 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGAG
92473307 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
92473322 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:92476101 original size:47 final size:45
Alignment explanation
Indices: 92475997--92476121 Score: 139
Period size: 45 Copynumber: 2.7 Consensus size: 45
92475987 TGCACCGATT
* **
92475997 CCATGTCCCAGACATAGTCTTACACTGACACATCTCG-TAGCGGAT-
1 CCATGTCCCAGACATAGTCTTACACTGACTC-TCTCGAT-GTTGATG
*
92476042 TCATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCGATGTTGATG
1 CCATGTCCCAGACATAGTCTTACACT-G-ACTC-TCTCGATGTTGATG
*
92476089 CCATGTCCCAGACATGGTCTTACACTGACTCTC
1 CCATGTCCCAGACATAGTCTTACACTGACTCTC
92476122 ATAATGTGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
44 10 0.14
45 17 0.25
46 16 0.23
47 16 0.23
48 10 0.14
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (45 bp):
CCATGTCCCAGACATAGTCTTACACTGACTCTCTCGATGTTGATG
Found at i:92487181 original size:13 final size:13
Alignment explanation
Indices: 92487163--92487189 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92487153 CTCAGATCGA
92487163 ACAGCCGTATCAG
1 ACAGCCGTATCAG
92487176 ACAGCCGTATCAG
1 ACAGCCGTATCAG
92487189 A
1 A
92487190 AGTCCCTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (13 bp):
ACAGCCGTATCAG
Found at i:92494630 original size:46 final size:44
Alignment explanation
Indices: 92494543--92494764 Score: 200
Period size: 46 Copynumber: 4.8 Consensus size: 44
92494533 TATATCTATA
* *
92494543 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCT-GTAGG
*
92494589 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-T-CATCT-GTAGG
* * *
92494635 CCGATGCATGTCCCAAACATGTCTTACACTAGGGCTCGTCT-TAATG
1 CCGATGCATGTCCCAGACATGTCTTACACT--GGCTCATCTGT-AGG
* *
92494681 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGT-GG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGG--CTCAT-CTGTAGG
* *
92494729 TCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCA
92494765 CACAAGTGGC
Statistics
Matches: 148, Mismatches: 15, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
44 16 0.11
45 15 0.10
46 66 0.45
47 26 0.18
48 23 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCATCTGTAGG
Found at i:92494707 original size:94 final size:92
Alignment explanation
Indices: 92494590--92494760 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 92
92494580 ATCTCGTAGT
*
92494590 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAAAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAAAC
92494653 ATGTCTTACACTAGGGCTCGTCTTAATGC
64 ATGTCTTACACTAGGGCTCGTCTTAATGC
* * * *
92494682 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCATGTCCCAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAAC
92494747 ATGTCTTACACTAG
64 ATGTCTTACACTAG
92494761 CTCACACAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 50 0.71
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAACAT
GTCTTACACTAGGGCTCGTCTTAATGC
Found at i:92500759 original size:89 final size:89
Alignment explanation
Indices: 92500608--92500788 Score: 317
Period size: 89 Copynumber: 2.0 Consensus size: 89
92500598 ACATAGAAAG
*
92500608 AAGGCATCGATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
1 AAGGCATCAATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
92500673 TCCATTACCATTGCTCTCGATTAC
66 TCCATTACCATTGCTCTCGATTAC
* * *
92500697 AAGGCATCAATTATAATAAGACCTTTTCTCCAGTAGCCATGCTCAATTTTATCTGTGTACTATTA
1 AAGGCATCAATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
*
92500762 TCCATTACCATTGCTCTTGATTAC
66 TCCATTACCATTGCTCTCGATTAC
92500786 AAG
1 AAG
92500789 ATTTGGCAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (89 bp):
AAGGCATCAATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
TCCATTACCATTGCTCTCGATTAC
Found at i:92505059 original size:20 final size:20
Alignment explanation
Indices: 92505020--92505060 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
92505010 CCCCTGCAAT
*
92505020 CTAAAATTTTCAAATTTTTC
1 CTAAAATTTTCAAATGTTTC
92505040 CTAAAA-TTTCATAATGTTTC
1 CTAAAATTTTCA-AATGTTTC
92505060 C
1 C
92505061 GATTTAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.46
Consensus pattern (20 bp):
CTAAAATTTTCAAATGTTTC
Found at i:92507622 original size:25 final size:25
Alignment explanation
Indices: 92507593--92507675 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
92507583 GAATAAAAAC
*
92507593 TCACCACAACAGCTTTCCAAATAAT
1 TCACCACAAAAGCTTTCCAAATAAT
** *
92507618 TCACCGTAAAAGCTTTCCAAATGAT
1 TCACCACAAAAGCTTTCCAAATAAT
* ** *
92507643 ACACCACAAGGGC-TTCCAAAAGAAT
1 TCACCACAAAAGCTTTCC-AAATAAT
92507668 TCACCACA
1 TCACCACA
92507676 TAGGGTTTCT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
24 4 0.09
25 41 0.91
ACGTcount: A:0.40, C:0.30, G:0.10, T:0.20
Consensus pattern (25 bp):
TCACCACAAAAGCTTTCCAAATAAT
Found at i:92507689 original size:25 final size:25
Alignment explanation
Indices: 92507644--92507694 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
92507634 CCAAATGATA
92507644 CACCACAAGGGCTTCCAAAAGAATT
1 CACCACAAGGGCTTCCAAAAGAATT
* *
92507669 CACCACATAGGG-TTTCTAAAGAATT
1 CACCACA-AGGGCTTCCAAAAGAATT
92507694 C
1 C
92507695 TTGATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (25 bp):
CACCACAAGGGCTTCCAAAAGAATT
Found at i:92515032 original size:16 final size:18
Alignment explanation
Indices: 92514992--92515032 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
92514982 TTATCTCGAT
*
92514992 AATCAATTCAAATATGTC
1 AATCAACTCAAATATGTC
92515010 AATCAACTCAAATA-GTC
1 AATCAACTCAAATATGTC
92515027 -ATCAAC
1 AATCAAC
92515033 AACTTACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 13 0.59
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (18 bp):
AATCAACTCAAATATGTC
Found at i:92516940 original size:8 final size:8
Alignment explanation
Indices: 92516916--92516945 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
92516906 CGGTGTAGTT
92516916 ATATATAC
1 ATATATAC
92516924 ATATA-AC
1 ATATATAC
92516931 ATATATAC
1 ATATATAC
92516939 ATATATA
1 ATATATA
92516946 TGAGTAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATATAC
Found at i:92549475 original size:14 final size:13
Alignment explanation
Indices: 92549457--92549481 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92549447 GATTTTGAAA
92549457 AAAAAATAGGCTC
1 AAAAAATAGGCTC
92549470 AAAAAATAGGCT
1 AAAAAATAGGCT
92549482 TGGACAAGAA
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:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAAATAGGCTC
Found at i:92549957 original size:6 final size:6
Alignment explanation
Indices: 92549946--92549972 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
92549936 TGATGTATTA
92549946 TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TAT
92549973 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:92550529 original size:23 final size:24
Alignment explanation
Indices: 92550470--92550536 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
92550460 GCGCAAATGA
92550470 TTATTTTATATT--AAT-TTTTTTG
1 TTATTTT-TATTAAAATATTTTTTG
* *
92550492 TTTTTTTTAAATAAAATATTTTTT-
1 TTATTTTT-ATTAAAATATTTTTTG
92550516 TTATTTTTATTAAAAATATTT
1 TTATTTTTATT-AAAATATTT
92550537 AAATATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 1 0.03
22 8 0.22
23 2 0.06
24 19 0.53
25 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (24 bp):
TTATTTTTATTAAAATATTTTTTG
Found at i:92550825 original size:121 final size:121
Alignment explanation
Indices: 92550611--92550851 Score: 482
Period size: 121 Copynumber: 2.0 Consensus size: 121
92550601 TGTTGGATAA
92550611 TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
1 TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
92550676 CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGACT
66 CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGACT
92550732 TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
1 TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
92550797 CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGAC
66 CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGAC
92550852 CAGCAGTTGT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.20, C:0.38, G:0.24, T:0.18
Consensus pattern (121 bp):
TCGCGCCTGGTAGATAGGCACAAATGGGCAGCCCGAACAGTGCACCTCCAGCTGCTGCATGATGC
CCGAGCAGTCCCTCCCTGCAGCTGTATGCATGCCCCCCTTCCCAGCTCCACAGACT
Found at i:92550992 original size:23 final size:23
Alignment explanation
Indices: 92550958--92551021 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
92550948 TCTATACCGA
* *
92550958 AAGAGAGAAAAAAAAATAGAGAA-
1 AAGAAAGAAAAAAAAAGA-AGAAG
*
92550981 AGGAGAAGAAAAAAAGAAGAAGAAG
1 AAGA-AAGAAAAAAA-AAGAAGAAG
92551006 AAGAAAGAAAAAAAAA
1 AAGAAAGAAAAAAAAA
92551022 AGGTAATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.15
24 23 0.68
25 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (23 bp):
AAGAAAGAAAAAAAAAGAAGAAG
Found at i:92551263 original size:60 final size:61
Alignment explanation
Indices: 92551171--92551304 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 61
92551161 TGAATGTAAT
* * * *
92551171 TTTTTTGTTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTTG-TGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
*
92551232 TTTTTTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
1 TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
*
92551293 -TTGTTGTGTTTA
1 TTTTTTGTGTTTA
92551305 GTTTAGTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
60 55 0.85
61 10 0.15
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (61 bp):
TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
Found at i:92554573 original size:33 final size:33
Alignment explanation
Indices: 92554508--92554602 Score: 84
Period size: 33 Copynumber: 2.9 Consensus size: 33
92554498 CATCCTGACT
* * * * **
92554508 CGTATCCACCTCAGCACTCCGCTCCTTTCGGCC
1 CGTATCCACCACCGTACTCCACTCCTCCCGGCC
92554541 CGTATCCACCACCGTACTCCACTCCTCCCGGCC
1 CGTATCCACCACCGTACTCCACTCCTCCCGGCC
* * * *
92554574 CATAT-CATTCGCCGTACTCCACTTCTCCC
1 CGTATCCA-CCACCGTACTCCACTCCTCCC
92554603 AGCTCAAGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 2 0.04
33 49 0.96
ACGTcount: A:0.15, C:0.49, G:0.12, T:0.24
Consensus pattern (33 bp):
CGTATCCACCACCGTACTCCACTCCTCCCGGCC
Found at i:92559873 original size:20 final size:21
Alignment explanation
Indices: 92559827--92559873 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
92559817 AACGATATAT
*
92559827 AAATATATACGTATATGTATTA
1 AAATATATACGTATA-GTAATA
92559849 AAATATATACGTA-A-TAATA
1 AAATATATACGTATAGTAATA
92559868 AGAATA
1 A-AATA
92559874 AAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 1 0.04
22 13 0.57
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (21 bp):
AAATATATACGTATAGTAATA
Found at i:92559900 original size:27 final size:26
Alignment explanation
Indices: 92559848--92559900 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
92559838 TATATGTATT
* *
92559848 AAAATATATACGTAATAATAAGAATA
1 AAAATATATACATAATAATAAAAATA
* *
92559874 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
92559901 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:92559901 original size:47 final size:49
Alignment explanation
Indices: 92559809--92559951 Score: 131
Period size: 47 Copynumber: 3.0 Consensus size: 49
92559799 ATAACTAATA
*
92559809 ATAATAATAACGATATATAAATATATACGTATATGTATTAAAATATATAC
1 ATAATAATAACGATATAAAAATATATACG-ATATGTATTAAAATATATAC
* *
92559859 GTAATAATAA-GA-ATAAAAAGTATATAC-ATA-GTATTAAAAATATGTAC
1 ATAATAATAACGATATAAAAA-TATATACGATATGTATT-AAAATATATAC
* * *
92559906 ATAAT-ATAATG-T-TAAAAATACATAC-ATAATATAGTTAAAATATATA
1 ATAATAATAACGATATAAAAATATATACGAT-ATGTA-TTAAAATATATA
92559952 TATATACATA
Statistics
Matches: 79, Mismatches: 7, Indels: 17
0.77 0.07 0.17
Matches are distributed among these distances:
45 8 0.10
46 16 0.20
47 29 0.37
48 8 0.10
49 9 0.11
50 9 0.11
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (49 bp):
ATAATAATAACGATATAAAAATATATACGATATGTATTAAAATATATAC
Found at i:92559920 original size:25 final size:23
Alignment explanation
Indices: 92559827--92560296 Score: 154
Period size: 23 Copynumber: 19.7 Consensus size: 23
92559817 AACGATATAT
* *
92559827 AAATATATACGT-ATAT-GTATTA
1 AAATATATACATAATATAGT-TAA
* *
92559849 AAATATATACGTAATAATAAGAATAA
1 AAATATATACATAAT-AT-AG-TTAA
*
92559875 AAAGTATATACAT-A-GTA-TTAA
1 AAA-TATATACATAATATAGTTAA
*
92559896 AAATATGTACATAATATAATGTTAA
1 AAATATATACATAATAT-A-GTTAA
*
92559921 AAATACATACATAATATAGTTAA
1 AAATATATACATAATATAGTTAA
* *
92559944 AATATATATATATACATA-AGAT-A
1 AA-ATATATACATA-ATATAGTTAA
* * * * *
92559967 ATATGTA-AGAAAAAATA-TATAA
1 AAATATATACATAATATAGT-TAA
* * *
92559989 ATAATATAGTA-TTAAAATATTTACA
1 A-AATATA-TACATAATATAGTTA-A
* * * **
92560014 TAATATATACATATTAGAAATAA
1 AAATATATACATAATATAGTTAA
*
92560037 AAA-A-ATGACTATTAATAATA-CTACA
1 AAATATAT-AC-A-TAAT-ATAGTTA-A
*
92560062 TAAATATATGCATATATATA-TTAA
1 -AAATATATACATA-ATATAGTTAA
* *
92560086 AGATAAATACATAATAATA-TTAA
1 AAATATATACATAAT-ATAGTTAA
* *
92560109 AAGTATGTACATAATATAGTGTTAA
1 AAATATATACATAATATA--GTTAA
*
92560134 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATAG---TT-AA
* *
92560161 AAATATATACATAAGATAATATAA
1 AAATATATACATAATATAGT-TAA
92560185 AAATATATACATGAA-ATAGTATAAA
1 AAATATATACAT-AATATAGT-T-AA
92560210 AAATATATA-ACTAATAATA-TTAA
1 AAATATATACA-TAAT-ATAGTTAA
92560233 AAATATATACATAATATA-TATAA
1 AAATATATACATAATATAGT-TAA
* * *
92560256 AAACATATACGATATATATATATTAG
1 AAATATATAC-ATA-ATATA-GTTAA
92560282 AAATA-ATA-ATAATAT
1 AAATATATACATAATAT
92560297 GAAAAAAACT
Statistics
Matches: 345, Mismatches: 52, Indels: 102
0.69 0.10 0.20
Matches are distributed among these distances:
20 10 0.03
21 14 0.04
22 35 0.10
23 82 0.24
24 71 0.21
25 78 0.23
26 24 0.07
27 29 0.08
28 2 0.01
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (23 bp):
AAATATATACATAATATAGTTAA
Found at i:92560124 original size:23 final size:23
Alignment explanation
Indices: 92559827--92559962 Score: 59
Period size: 25 Copynumber: 5.7 Consensus size: 23
92559817 AACGATATAT
* *
92559827 AAATATATACGT-ATATGTATT-A
1 AAATATATACATAATA-ATATTAA
* *
92559849 AAATATATACGTAATAATAAGAATAA
1 AAATATATAC---ATAATAATATTAA
*
92559875 AAAGTATATAC---ATAGTATTAA
1 AAA-TATATACATAATAATATTAA
* *
92559896 AAATATGTACATAATATAATGTTAA
1 AAATATATACAT-A-ATAATATTAA
*
92559921 AAATACATACATAAT-ATAGTTAA
1 AAATATATACATAATAATA-TTAA
*
92559944 AATATATATATATACATAA
1 AA-ATATATACATA-ATAA
92559963 GATAATATGT
Statistics
Matches: 84, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
20 6 0.07
21 10 0.12
22 12 0.14
23 8 0.10
24 10 0.12
25 23 0.27
26 8 0.10
27 7 0.08
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (23 bp):
AAATATATACATAATAATATTAA
Found at i:92560272 original size:23 final size:23
Alignment explanation
Indices: 92560092--92560278 Score: 112
Period size: 24 Copynumber: 7.7 Consensus size: 23
92560082 TTAAAGATAA
**
92560092 ATACATAATA-ATATTAAAAGTAT
1 ATACATAATATATA-TAAAAACAT
* * * *
92560115 GTACATAATATAGTGTTAAAAATAC
1 ATACATAATATA-T-ATAAAAACAT
*
92560140 ATACATAATATAGTTATTAAAAAATAT
1 ATACATAATATA--TA-T-AAAAACAT
* *
92560167 ATACATAAGATAATATAAAAATAT
1 ATACATAATAT-ATATAAAAACAT
92560191 ATACATGAA-ATAGTATAAAAA-AT
1 ATACAT-AATATA-TATAAAAACAT
* *
92560214 ATATAACTAATA-ATATTAAAAATAT
1 ATA-CA-TAATATATA-TAAAAACAT
92560239 ATACATAATATATATAAAAACAT
1 ATACATAATATATATAAAAACAT
92560262 ATACGATATATATATAT
1 ATAC-ATA-ATATATAT
92560279 TAGAAATAAT
Statistics
Matches: 135, Mismatches: 12, Indels: 32
0.75 0.07 0.18
Matches are distributed among these distances:
23 34 0.25
24 42 0.31
25 37 0.27
26 4 0.03
27 17 0.13
28 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (23 bp):
ATACATAATATATATAAAAACAT
Found at i:92560486 original size:26 final size:26
Alignment explanation
Indices: 92560457--92560514 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
92560447 ACATTTAAAA
92560457 AATATAACTAAAT-ATAAT-ATAACAAT
1 AATATAA--AAATAATAATGATAACAAT
*
92560483 AATATAAAAATAATAGTGATAACAAT
1 AATATAAAAATAATAATGATAACAAT
92560509 AATATA
1 AATATA
92560515 TATAACATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 4 0.14
26 21 0.72
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (26 bp):
AATATAAAAATAATAATGATAACAAT
Found at i:92560519 original size:15 final size:15
Alignment explanation
Indices: 92560458--92560521 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
92560448 CATTTAAAAA
*
92560458 ATATAACTA-AATAT
1 ATATAACAATAATAT
92560472 AATATAACAAT-A-AT
1 -ATATAACAATAATAT
92560486 ATA-AA-AATAATAGT
1 ATATAACAATAATA-T
*
92560500 -GATAACAATAATAT
1 ATATAACAATAATAT
92560514 ATATAACA
1 ATATAACA
92560522 TGAATAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 3 0.08
12 3 0.08
13 5 0.13
14 6 0.15
15 22 0.56
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (15 bp):
ATATAACAATAATAT
Found at i:92562268 original size:44 final size:46
Alignment explanation
Indices: 92562164--92562273 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 46
92562154 TCGTTGTGAT
* * * *
92562164 CTGCTCTTCTGCAACTTCA-GAGAGATGAGATCTGGTATCTTCAAT
1 CTGCTCTGCTGCAACTTCAGGAGAGATGAGAACTGGTAACTTCAAC
* * *
92562209 CTACTCTGCTACAACTTCAGGA-AGATGA-AACTTGTAACTTCAAC
1 CTGCTCTGCTGCAACTTCAGGAGAGATGAGAACTGGTAACTTCAAC
92562253 CTGCTCTGCTGCAACTTCAGG
1 CTGCTCTGCTGCAACTTCAGG
92562274 CAGGCAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
44 31 0.56
45 22 0.40
46 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (46 bp):
CTGCTCTGCTGCAACTTCAGGAGAGATGAGAACTGGTAACTTCAAC
Found at i:92562309 original size:44 final size:45
Alignment explanation
Indices: 92562261--92562349 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
92562251 ACCTGCTCTG
* *
92562261 CTGCAACTTCAGGCAGGCAAAATCT-GTATCTTCGATCAGCTCCA
1 CTGCAACTTCAGGAAGGAAAAATCTGGTATCTTCGATCAGCTCCA
* *
92562305 CTGCAACTTCAGGAAGGAAAAATTTGGTGTCTTCGATCAGCTCCA
1 CTGCAACTTCAGGAAGGAAAAATCTGGTATCTTCGATCAGCTCCA
92562350 ACCTTTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 22 0.55
45 18 0.45
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (45 bp):
CTGCAACTTCAGGAAGGAAAAATCTGGTATCTTCGATCAGCTCCA
Found at i:92562597 original size:29 final size:29
Alignment explanation
Indices: 92562545--92562600 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
92562535 AATAGAAAAT
* *
92562545 ACCTCAGCGTGTGATCCGAGGCTCAACTC
1 ACCTCAGCGTATGATCCGAAGCTCAACTC
92562574 ACCTCAGCGTATGA-CCTGAAGCTCAAC
1 ACCTCAGCGTATGATCC-GAAGCTCAAC
92562601 ACATCTCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.20
Consensus pattern (29 bp):
ACCTCAGCGTATGATCCGAAGCTCAACTC
Found at i:92562725 original size:89 final size:89
Alignment explanation
Indices: 92562574--92562736 Score: 200
Period size: 89 Copynumber: 1.8 Consensus size: 89
92562564 GGCTCAACTC
* * * * *** *
92562574 ACCTCAGCGTATGACCTGAAGCTCAACACATCTCTCGTAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCGTATGACCTGAAGCTCAACACACCTCTCGCAATACGAGTTGACTTTTAAAAAACAGA
92562639 AATTGAAAAATAGAAATTGAAAAT
66 AATTGAAAAATAGAAATTGAAAAT
* * * * * *
92562663 ACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGACTTTTAAAAAACAGG
1 ACCTCAGCGTATGACCTGAAGCTCAACACACCTCTCGCAATACGAGTTGACTTTTAAAAAACAGA
92562728 AATTGAAAA
66 AATTGAAAA
92562737 TACCTAGCGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (89 bp):
ACCTCAGCGTATGACCTGAAGCTCAACACACCTCTCGCAATACGAGTTGACTTTTAAAAAACAGA
AATTGAAAAATAGAAATTGAAAAT
Found at i:92562771 original size:74 final size:75
Alignment explanation
Indices: 92562644--92562810 Score: 228
Period size: 74 Copynumber: 2.2 Consensus size: 75
92562634 ACATAAATTG
* * *
92562644 AAAAATAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
92562709 TTGACTTTTA
66 TTGACTTTTA
* * *
92562719 AAAAACAGGAATTGAAAATACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
* *
92562783 TTGATTTTTT
66 TTGACTTTTA
** *
92562793 TGAAACATAAATTGAAAA
1 AAAAACAGAAATTGAAAA
92562811 ACGGAAATTG
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
74 59 0.74
75 21 0.26
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTA
Found at i:92562822 original size:88 final size:89
Alignment explanation
Indices: 92562719--92562880 Score: 220
Period size: 89 Copynumber: 1.8 Consensus size: 89
92562709 TTGACTTTTA
* * * * * *
92562719 AAAAACAGGAATTGAAAATACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAG
1 AAAAACAGGAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGAG
*
92562783 TTGATTTTTTTGAAACATAAATTG
66 TTGACTTTTTTGAAACATAAATTG
* *
92562807 AAAAAC-GGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCGCCTCTTGCAATACGA
1 AAAAACAGG-AATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
92562871 GTTGACTTTT
65 GTTGACTTTT
92562881 AAAAAACGAG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 2 0.03
88 20 0.32
89 41 0.65
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (89 bp):
AAAAACAGGAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTTTGAAACATAAATTG
Found at i:92562970 original size:75 final size:76
Alignment explanation
Indices: 92562807--92562974 Score: 216
Period size: 75 Copynumber: 2.2 Consensus size: 76
92562797 ACATAAATTG
* *
92562807 AAAAACG-GAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCGCCTCTTGCAATACGA
1 AAAAACGAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
*
92562871 GTTGACTTTTA
66 GTTAACTTTTA
* * * *
92562882 AAAAACGAG-AATTGAAAATACCTCAGCATGTAACCTGTGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACGAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
* *
92562946 GTTAATTTTTT
66 GTTAACTTTTA
**
92562957 TGAAA-GAGAAATTGAAAA
1 AAAAACGAGAAATTGAAAA
92562975 ACAGAAATTA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
74 3 0.04
75 76 0.95
76 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (76 bp):
AAAAACGAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
GTTAACTTTTA
Found at i:92563246 original size:75 final size:76
Alignment explanation
Indices: 92562968--92563283 Score: 476
Period size: 77 Copynumber: 4.2 Consensus size: 76
92562958 GAAAGAGAAA
* * * * * * *
92562968 TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGTTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
92563033 GAGTTGATTTTT
66 GAGTTGA-TTTT
* * * *
92563045 TTGAAAAATAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTTACCTCCCGCAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
92563110 GAGTTGATTTT
66 GAGTTGATTTT
*
92563121 TCTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 T-TGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATA
92563186 TGAGTTGA-TTT
65 TGAGTTGATTTT
*
92563197 TTGAAAAACAGAATTTGAAAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
92563262 GAGTTGA--TT
66 GAGTTGATTTT
92563271 TTGAAAAACAGAA
1 TTGAAAAACAGAA
92563284 ATTAAAACAT
Statistics
Matches: 222, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
74 15 0.07
75 69 0.31
76 9 0.04
77 129 0.58
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (76 bp):
TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
GAGTTGATTTT
Found at i:92563252 original size:152 final size:150
Alignment explanation
Indices: 92562968--92563290 Score: 486
Period size: 152 Copynumber: 2.1 Consensus size: 150
92562958 GAAAGAGAAA
*
92562968 TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGTTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGCTCAACTCACCTCTCACAATAT
* *
92563033 GAGTTGATTTTTTTGAAAAATAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTTAC
66 GAGTTGA-TTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCAC
*
92563098 CTCCCGCAATATGAGTTGATTTT
130 CTCCCACAATATGAGTTGA--TT
* * * * * * *
92563121 TCTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 T-TGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGCTCAACTCACCTCTCACAATA
*
92563186 TGAGTTGA-TTTTTGAAAAACAGAATTTGAAAATATCTCGGCATGTGACCCGAGGCTCAACTCAC
65 TGAGTTGATTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCAC
*
92563250 CTCTCACAATATGAGTTGATT
130 CTCCCACAATATGAGTTGATT
92563271 TTGAAAAACAGAAATTAAAA
1 TTGAAAAACAGAAATTAAAA
92563291 CATCAAAGTA
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
149 17 0.11
150 3 0.02
152 70 0.45
153 1 0.01
154 63 0.41
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (150 bp):
TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGCTCAACTCACCTCTCACAATAT
GAGTTGATTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACC
TCCCACAATATGAGTTGATT
Found at i:92575480 original size:20 final size:21
Alignment explanation
Indices: 92575434--92575480 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
92575424 AACGATATAT
*
92575434 AAATATATACGTATATCTATTA
1 AAATATATACGTATA-CTAATA
92575456 AAATATATACGTA-A-TAATA
1 AAATATATACGTATACTAATA
92575475 AGAATA
1 A-AATA
92575481 AAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 1 0.04
22 13 0.57
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (21 bp):
AAATATATACGTATACTAATA
Found at i:92575507 original size:27 final size:26
Alignment explanation
Indices: 92575455--92575507 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
92575445 TATATCTATT
* *
92575455 AAAATATATACGTAATAATAAGAATA
1 AAAATATATACATAATAATAAAAATA
* *
92575481 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
92575508 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:92575521 original size:25 final size:24
Alignment explanation
Indices: 92575493--92575560 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
92575483 AAGTATATAC
*
92575493 ATAGTATTAAAAATATGTACATAAT
1 ATAGT-TTAAAAATATATACATAAT
* *
92575518 ATAGCGTTAAAAATACATACATAAT
1 ATAG-TTTAAAAATATATACATAAT
*
92575543 ATAGTTAAAAAATATATA
1 ATAGTTTAAAAATATATA
92575561 TATACGTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 11 0.31
25 25 0.69
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.32
Consensus pattern (24 bp):
ATAGTTTAAAAATATATACATAAT
Found at i:92575667 original size:14 final size:14
Alignment explanation
Indices: 92575648--92575677 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
92575638 AGAAATAAAA
92575648 AAACGACTATTAAT
1 AAACGACTATTAAT
92575662 AAACGACTATTAAT
1 AAACGACTATTAAT
92575676 AA
1 AA
92575678 TACTACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (14 bp):
AAACGACTATTAAT
Found at i:92575767 original size:25 final size:25
Alignment explanation
Indices: 92575698--92575907 Score: 174
Period size: 23 Copynumber: 8.6 Consensus size: 25
92575688 ATATATGTAT
* *
92575698 ATATA-TATTAAAGATAAATACATA
1 ATATAGTATTAAAAATATATACATA
* *
92575722 ATA-A-TATTAAAAGTATGTACATA
1 ATATAGTATTAAAAATATATACATA
* *
92575745 ATATAGTGTTAAAAATACATACATA
1 ATATAGTATTAAAAATATATACATA
92575770 ATATAGTTATTAAAAATATATATACATA
1 ATATAG-TATT-AAAA-ATATATACATA
* *
92575798 AGATAATA-TAAAAATATATACATGA
1 ATATAGTATTAAAAATATATACAT-A
*
92575823 A-ATAGTATAAAAAATATATA-ACTA
1 ATATAGTATTAAAAATATATACA-TA
92575847 ATA-A-TATTAAAAATATATACATA
1 ATATAGTATTAAAAATATATACATA
* *
92575870 ACATA-TA-TAAAAACATATACGAT-
1 ATATAGTATTAAAAATATATAC-ATA
*
92575893 ATATA-TATTAGAAAT
1 ATATAGTATTAAAAAT
92575908 GATAATAATA
Statistics
Matches: 153, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
23 55 0.36
24 34 0.22
25 40 0.26
26 4 0.03
27 6 0.04
28 14 0.09
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (25 bp):
ATATAGTATTAAAAATATATACATA
Found at i:92575816 original size:28 final size:28
Alignment explanation
Indices: 92575755--92575888 Score: 84
Period size: 24 Copynumber: 5.3 Consensus size: 28
92575745 ATATAGTGTT
* * * *
92575755 AAAA-ATACATACATAATATAGTTATTA
1 AAAATATATATACATAAGATAGATATAA
92575782 AAAATATATATACATAAGATA-ATAT--
1 AAAATATATATACATAAGATAGATATAA
92575807 AAAA-ATATATACATGAA-ATAG-TATAA
1 AAAATATATATACAT-AAGATAGATATAA
*
92575833 AAAATATATA-AC-T-A-ATA-ATAT-T
1 AAAATATATATACATAAGATAGATATAA
*
92575855 AAAA-ATATATACATAACAT--ATATAA
1 AAAATATATATACATAAGATAGATATAA
92575880 AAACATATA
1 AAA-ATATA
92575889 CGATATATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 28
0.73 0.04 0.23
Matches are distributed among these distances:
21 5 0.06
22 6 0.07
23 8 0.09
24 21 0.24
25 12 0.14
26 7 0.08
27 15 0.17
28 14 0.16
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAATATATATACATAAGATAGATATAA
Found at i:92575819 original size:52 final size:47
Alignment explanation
Indices: 92575753--92575888 Score: 159
Period size: 48 Copynumber: 2.7 Consensus size: 47
92575743 TAATATAGTG
* *
92575753 TTAAAAATACATACATAATATAGTTATTAAAAATATATATACATAAGATAATA
1 TTAAAAATATATACATAA-ATAG-TATAAAAAATATATA-AC-T-A-ATAATA
92575806 -TAAAAATATATACATGAAATAGTATAAAAAATATATAACTAATAATA
1 TTAAAAATATATACAT-AAATAGTATAAAAAATATATAACTAATAATA
92575853 TTAAAAATATATACATAACATA-TATAAAAACATATA
1 TTAAAAATATATACATAA-ATAGTATAAAAA-ATATA
92575889 CGATATATAT
Statistics
Matches: 77, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
47 16 0.21
48 24 0.31
49 1 0.01
50 2 0.03
51 14 0.18
52 18 0.23
53 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.32
Consensus pattern (47 bp):
TTAAAAATATATACATAAATAGTATAAAAAATATATAACTAATAATA
Found at i:92576028 original size:15 final size:15
Alignment explanation
Indices: 92576008--92576037 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92575998 CTAATAATAT
*
92576008 TAATAATAGATATAA
1 TAATAATAAATATAA
92576023 TAATAATAAATATAA
1 TAATAATAAATATAA
92576038 ATGCATATAA
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:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TAATAATAAATATAA
Found at i:92579400 original size:10 final size:10
Alignment explanation
Indices: 92579364--92579420 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
92579354 TAAAAAAATT
*
92579364 AATTTTTTTA
1 AATTTTTTAA
*
92579374 ACTTTATTTACA
1 AATTT-TTTA-A
*
92579386 CATTTTTTAA
1 AATTTTTTAA
92579396 AATTTTTTAA
1 AATTTTTTAA
* *
92579406 AATTATTTAG
1 AATTTTTTAA
92579416 AATTT
1 AATTT
92579421 GTTGTAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 26 0.70
11 7 0.19
12 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:92584859 original size:25 final size:25
Alignment explanation
Indices: 92584819--92584946 Score: 111
Period size: 25 Copynumber: 5.1 Consensus size: 25
92584809 CATTATTTAT
* *
92584819 CTCTTATGAGCATCCC-ACTATATGG
1 CTCTCATGAGCTTCCCGA-TATATGG
** *
92584844 CTCTCACAAGCTTCCCGATATTTGG
1 CTCTCATGAGCTTCCCGATATATGG
*
92584869 CACTCATGAGCTTCCCGAT-TAATGG
1 CTCTCATGAGCTTCCCGATAT-ATGG
92584894 CTCTCATGAGCTTCCCGATA-ATTGG
1 CTCTCATGAGCTTCCCGATATA-TGG
* * *
92584919 CT-TGCAAGAGCTTCCCGTTACATGG
1 CTCT-CATGAGCTTCCCGATATATGG
92584944 CTC
1 CTC
92584947 GGAAGAGCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
24 3 0.04
25 79 0.94
26 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATATGG
Found at i:92584894 original size:50 final size:50
Alignment explanation
Indices: 92584840--92584946 Score: 137
Period size: 50 Copynumber: 2.1 Consensus size: 50
92584830 ATCCCACTAT
* *
92584840 ATGGCTCTCACAAGCTTCCCGATATTTGGCACT-CATGAGCTTCCCGATTA-
1 ATGGCTCTCACAAGCTTCCCGATAATTGGC-CTGCAAGAGCTTCCCG-TTAC
** *
92584890 ATGGCTCTCATGAGCTTCCCGATAATTGGCTTGCAAGAGCTTCCCGTTAC
1 ATGGCTCTCACAAGCTTCCCGATAATTGGCCTGCAAGAGCTTCCCGTTAC
92584940 ATGGCTC
1 ATGGCTC
92584947 GGAAGAGCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 4 0.08
50 46 0.92
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.30
Consensus pattern (50 bp):
ATGGCTCTCACAAGCTTCCCGATAATTGGCCTGCAAGAGCTTCCCGTTAC
Found at i:92584952 original size:25 final size:25
Alignment explanation
Indices: 92584876--92584964 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
92584866 TGGCACTCAT
* *
92584876 GAGCTTCCCGATTAATGGCTCTCAT
1 GAGCTTCCCGATTAATGGCTCGCAA
*
92584901 GAGCTTCCCGA-TAATTGGCTTGCAA
1 GAGCTTCCCGATTAA-TGGCTCGCAA
*
92584926 GAGCTTCCCG-TTACATGGCTCGGAA
1 GAGCTTCCCGATTA-ATGGCTCGCAA
*
92584951 GAGCTTCCTGATTA
1 GAGCTTCCCGATTA
92584965 CATGCTCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
24 3 0.06
25 47 0.87
26 4 0.07
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCGCAA
Found at i:92584955 original size:50 final size:50
Alignment explanation
Indices: 92584852--92584958 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
92584842 GGCTCTCACA
* * * *
92584852 AGCTTCCCGATATTTGGCACTCATGAGCTTCCCGATTAATGGCTCTCATG
1 AGCTTCCCGATAATTGGCACTCAAGAGCTTCCCGATTAATGGCTCGCAAG
* *
92584902 AGCTTCCCGATAATTGGC-TTGCAAGAGCTTCCCG-TTACATGGCTCGGAAG
1 AGCTTCCCGATAATTGGCACT-CAAGAGCTTCCCGATTA-ATGGCTCGCAAG
92584952 AGCTTCC
1 AGCTTCC
92584959 TGATTACATG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
49 4 0.08
50 45 0.92
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (50 bp):
AGCTTCCCGATAATTGGCACTCAAGAGCTTCCCGATTAATGGCTCGCAAG
Found at i:92587568 original size:48 final size:48
Alignment explanation
Indices: 92587465--92587649 Score: 229
Period size: 46 Copynumber: 3.9 Consensus size: 48
92587455 TGTGTGCTAA
* * * *
92587465 TGTAAGACATGTCTGGGACATGCATTGGCCAT-A-TTATGA-GAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATAT-ACAAGCCAG
* *
92587511 TGTAAGACATGTTTGGGATATGCATCGGCCTTGAGATATACAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCCAG
* * *
92587559 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGAT-GA-AAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCCAG
92587605 TGTAAGACATGTCTGGGACATGCATCGGCCTCT-AGATATACAAGC
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATATACAAGC
92587650 TAATGAAAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
46 68 0.57
47 5 0.04
48 47 0.39
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCCAG
Found at i:92587568 original size:94 final size:93
Alignment explanation
Indices: 92587465--92587649 Score: 266
Period size: 94 Copynumber: 2.0 Consensus size: 93
92587455 TGTGTGCTAA
* * * *
92587465 TGTAAGACATGTCTGGGACATGCATTGGCCA-TATTATGAGAGCCAGTGTAAGACATGTTTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGG-CATTA-GATGAAAGCCAGTGTAAGACATGTCTGGGA
*
92587529 TATGCATCGGCCT-TGAGATATACAAGCCAG
64 CATGCATCGGCCTCT-AGATATACAAGCCAG
*
92587559 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGAAAGCTAGTGTAAGACATGTCTGGGAC
1 TGTAAGACATGTCTGGGACATGCATCGGCATT-AGATGAAAGCCAGTGTAAGACATGTCTGGGAC
92587624 ATGCATCGGCCTCTAGATATACAAGC
65 ATGCATCGGCCTCTAGATATACAAGC
92587650 TAATGAAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
93 2 0.02
94 78 0.95
95 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (93 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATTAGATGAAAGCCAGTGTAAGACATGTCTGGGACA
TGCATCGGCCTCTAGATATACAAGCCAG
Found at i:92587670 original size:94 final size:94
Alignment explanation
Indices: 92587471--92587674 Score: 252
Period size: 94 Copynumber: 2.2 Consensus size: 94
92587461 CTAATGTAAG
* * * * *
92587471 ACATGTCTGGGACATGCATTGGCCA-T-ATTATGAGAGCCAGTGTAAGACATGTTTGGGATATGC
1 ACATGTCTGGGACATGCATCGG-CATTGA-GATGAAAGCCAGTGTAAGACATGTCTGGGACATGC
* * *
92587534 ATCGGCCTTGAGATATACAAGCCAGTGTAAG
64 ATCGGCCTTGAGATATACAAGCCAATGAAAA
*
92587565 ACATGTCTGGGACATGCATCGGCATTGAGATGAAAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 ACATGTCTGGGACATGCATCGGCATTGAGATGAAAGCCAGTGTAAGACATGTCTGGGACATGCAT
*
92587630 CGGCCTCT-AGATATACAAGCTAATGAAAA
66 CGGCCT-TGAGATATACAAGCCAATGAAAA
* *
92587659 ACCTGTTTGGGACATG
1 ACATGTCTGGGACATG
92587675 GCGTCATCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 2 0.02
94 91 0.96
95 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (94 bp):
ACATGTCTGGGACATGCATCGGCATTGAGATGAAAGCCAGTGTAAGACATGTCTGGGACATGCAT
CGGCCTTGAGATATACAAGCCAATGAAAA
Done.