Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2061
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: 139112
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:29 original size:20 final size:21
Alignment explanation
Indices: 4--44 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
1 ATA
4 AAAAAAACATT-AATAAAAAT
1 AAAAAAACATTAAATAAAAAT
24 AAAAAAACATTAAATAAAAAT
1 AAAAAAACATTAAATAAAAAT
45 TTAATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAAAACATTAAATAAAAAT
Found at i:408 original size:18 final size:19
Alignment explanation
Indices: 385--421 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
375 TAAATTATTA
*
385 TATTTATT-AGATAAATAT
1 TATTTATTGAGAAAAATAT
403 TATTTATTGAGAAAAATAT
1 TATTTATTGAGAAAAATAT
422 AGAGTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
TATTTATTGAGAAAAATAT
Found at i:5829 original size:16 final size:16
Alignment explanation
Indices: 5790--5834 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
5780 GTAAATTTTT
5790 TAAAAAAT-TATATAA
1 TAAAAAATATATATAA
*
5805 AAATTAAAATATATATAA
1 TAA--AAAATATATATAA
5823 TAAAAAATATAT
1 TAAAAAATATAT
5835 TTATAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.08
16 9 0.36
17 5 0.20
18 9 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAAATATATATAA
Found at i:7000 original size:148 final size:149
Alignment explanation
Indices: 6823--7120 Score: 411
Period size: 148 Copynumber: 2.0 Consensus size: 149
6813 TTAATATGAC
* *
6823 CTTATATTTAAAAAAAATTAAGAAATCAATTATAATAATAACATGTAACATAATTAAAAATTATT
1 CTTATATTTAAAAAAAATTAAGAAATCAATTATAATAACAACATATAACATAATTAAAAATTATT
** * * * *
6888 TAAATAGCATCACATAATGTAACGTGAAAAAATAATAAAAATTTGACATAACAC-GAAAATATCA
66 TAAATAGCATCACATAACATAACATGAAAAAATAACAAAAATTTGACATAACACAAAAAATAACA
*
6952 TGACTTCGACATAAATACA
131 TAACTTCGACATAAATACA
* * *
6971 CTTATATTTTTAAAAAAATTAAG-AATCAATTATAATAACAACATATGACATAATTAAATATTAT
1 CTTATA-TTTAAAAAAAATTAAGAAATCAATTATAATAACAACATATAACATAATTAAAAATTAT
* * * *
7035 TTGAATAGCGTCATATAACATAATATGAAAAAATAACAAAAATTTGACATAACACAAAAAATAAC
65 TTAAATAGCATCACATAACATAACATGAAAAAATAACAAAAATTTGACATAACACAAAAAATAAC
* *
7100 ATAATTTCGATATAAATACA
130 ATAACTTCGACATAAATACA
7120 C
1 C
7121 AAATATATCA
Statistics
Matches: 130, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
148 90 0.69
149 40 0.31
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (149 bp):
CTTATATTTAAAAAAAATTAAGAAATCAATTATAATAACAACATATAACATAATTAAAAATTATT
TAAATAGCATCACATAACATAACATGAAAAAATAACAAAAATTTGACATAACACAAAAAATAACA
TAACTTCGACATAAATACA
Found at i:7701 original size:13 final size:14
Alignment explanation
Indices: 7670--7707 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
7660 ACTTTTTATT
*
7670 ATAAAAAATTAATA
1 ATAAATAATTAATA
*
7684 ATAAATTATTAA-A
1 ATAAATAATTAATA
7697 ATAAATAATTA
1 ATAAATAATTA
7708 TCATTCGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAAATAATTAATA
Found at i:8017 original size:52 final size:52
Alignment explanation
Indices: 7936--8043 Score: 123
Period size: 52 Copynumber: 2.1 Consensus size: 52
7926 ATAAAATATT
** * **
7936 AAAA-ATTATTTTTAATTATATTTATATATTTTTA-TAATTAAAATTTAAATA
1 AAAATATTATTTTTAATTATAAATAAATATTTAAATTAA-TAAAATTTAAATA
*
7987 AAAATATTA-TTTTAATTAATAAATAAATATTTAAATTAATCAAATTTAAATA
1 AAAATATTATTTTTAATT-ATAAATAAATATTTAAATTAATAAAATTTAAATA
8039 AAAAT
1 AAAAT
8044 TAAAATTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
51 12 0.25
52 33 0.69
53 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (52 bp):
AAAATATTATTTTTAATTATAAATAAATATTTAAATTAATAAAATTTAAATA
Found at i:8023 original size:20 final size:20
Alignment explanation
Indices: 7969--8031 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
7959 ATATATTTTT
*
7969 ATAATTAAA-ATTTAAA-TA
1 ATAAATAAATATTTAAATTA
* *
7987 A-AAAT-ATTATTTTAATTA
1 ATAAATAAATATTTAAATTA
8005 ATAAATAAATATTTAAATTA
1 ATAAATAAATATTTAAATTA
8025 ATCAAAT
1 AT-AAAT
8032 TTAAATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.03
17 9 0.26
18 4 0.11
19 4 0.11
20 13 0.37
21 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAATAAATATTTAAATTA
Found at i:8068 original size:19 final size:22
Alignment explanation
Indices: 8035--8076 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 22
8025 ATCAAATTTA
8035 AATAAAAATTAAAATTAATTTA
1 AATAAAAATTAAAATTAATTTA
*
8057 AA-AAAAA-T-AAATTTATTTA
1 AATAAAAATTAAAATTAATTTA
8076 A
1 A
8077 CTGTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 11 0.58
20 1 0.05
21 5 0.26
22 2 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAAAATTAAAATTAATTTA
Found at i:11269 original size:16 final size:16
Alignment explanation
Indices: 11245--11278 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11235 TTACTGTATG
*
11245 ATTTGTTTTTATATTT
1 ATTTGTTTTGATATTT
*
11261 ATTTTTTTTGATATTT
1 ATTTGTTTTGATATTT
11277 AT
1 AT
11279 ACCATCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (16 bp):
ATTTGTTTTGATATTT
Found at i:20752 original size:18 final size:18
Alignment explanation
Indices: 20729--20763 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20719 TCATTTAATT
20729 ATTAAAAA-AGAAAAAATA
1 ATTAAAAATA-AAAAAATA
20747 ATTAAAAATAAAAAAAT
1 ATTAAAAATAAAAAAAT
20764 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (18 bp):
ATTAAAAATAAAAAAATA
Found at i:22586 original size:13 final size:13
Alignment explanation
Indices: 22568--22608 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
22558 CTATTCACAA
22568 TGTATCGATACAG
1 TGTATCGATACAG
*
22581 TGTATCGATACAA
1 TGTATCGATACAG
*
22594 TGTATCGATATAG
1 TGTATCGATACAG
22607 TG
1 TG
22609 AACAATGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:23211 original size:39 final size:39
Alignment explanation
Indices: 23074--23212 Score: 127
Period size: 39 Copynumber: 3.6 Consensus size: 39
23064 GGGTTAACTG
* * *
23074 AAATTTAAAAGATATGACTAACACATAGATTTTTTATTA
1 AAATTTAAAAGATATGACTAATATATAAATTTTTTATTA
* * * * * * ** *
23113 GATTTTGAAAGATATTAGTAATGTATAAATTACTTATTG
1 AAATTTAAAAGATATGACTAATATATAAATTTTTTATTA
* * *
23152 GAATCTAAAAGATATAACTAATATATAAATTTTTTATTA
1 AAATTTAAAAGATATGACTAATATATAAATTTTTTATTA
23191 AAATTTAAAAGATGA-GACTAAT
1 AAATTTAAAAGAT-ATGACTAAT
23213 GCATATATTC
Statistics
Matches: 75, Mismatches: 24, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
39 74 0.99
40 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (39 bp):
AAATTTAAAAGATATGACTAATATATAAATTTTTTATTA
Found at i:23403 original size:167 final size:169
Alignment explanation
Indices: 23198--23652 Score: 512
Period size: 173 Copynumber: 2.7 Consensus size: 169
23188 TTAAAATTTA
* * * *
23198 AAAGATGAGACTAATGCATATATTCTGTTTTTGAATAAATATGATAAATGTATAGATTCTTAATG
1 AAAGAGGAGACTAATGCATAGATTCTGTTTTGGAATAAATATGATAAATGTATAAATTCTTAATG
*
23263 GAAAATCAGATTCTTTCTT-ATATGAAAGAAGTTGATAAGACTAATGCATG-G-A-TTGTAAATG
66 G-AAATCAGATTCTTT-TTGATATGAAAAAAGTTGATAAGACTAATGCATGAGAATTTGTAAATG
* * * * *
23324 TTAGACTACAAATAA-AAGACTGATTCATGGATTGGAATTCG
129 TCAGACTACAAAGAATAA-ACTAATGCATGGATTGAAATTCG
* * * * *
23365 AAAGAAGGA-ACTAATGCATGGATTCTGTTTTGGAATAAATACGATAACTGCATAAATTCATAAT
1 AAAG-AGGAGACTAATGCATAGATTCTGTTTTGGAATAAATATGATAAATGTATAAATTCTTAAT
*
23429 GTG-AATCAGATTCTTTTTGATATAAAAAAAGTTGATAAGACTAATGCATGAATTGTAATTTGTA
65 G-GAAATCAGATTCTTTTTGATATGAAAAAAGTTGATAAGACTAATGCATG-A--G-AATTTGTA
** *
23493 AATGTCAGACTGTAAAGAATAAACTAATGCGTGGATTGAAATTCG
125 AATGTCAGACTACAAAGAATAAACTAATGCATGGATTGAAATTCG
* * * * * * * * *
23538 AAAGATGAGACTAATGTATAGATTTTATTTTGAAATAAATGTGATTAATGTATACATTGTTAAT-
1 AAAGAGGAGACTAATGCATAGATTCTGTTTTGGAATAAATATGATAAATGTATAAATTCTTAATG
23602 GAGAATCAGATTCTTTTTGATATGAAAAAAGTTGATAAGACTAATGCATGA
66 GA-AATCAGATTCTTTTTGATATGAAAAAAGTTGATAAGACTAATGCATGA
23653 TGTATAGATT
Statistics
Matches: 240, Mismatches: 34, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
165 2 0.01
166 42 0.17
167 52 0.22
168 4 0.02
170 1 0.00
171 1 0.00
172 5 0.02
173 131 0.55
174 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (169 bp):
AAAGAGGAGACTAATGCATAGATTCTGTTTTGGAATAAATATGATAAATGTATAAATTCTTAATG
GAAATCAGATTCTTTTTGATATGAAAAAAGTTGATAAGACTAATGCATGAGAATTTGTAAATGTC
AGACTACAAAGAATAAACTAATGCATGGATTGAAATTCG
Found at i:23864 original size:92 final size:92
Alignment explanation
Indices: 23719--23914 Score: 245
Period size: 92 Copynumber: 2.1 Consensus size: 92
23709 TTAATGCATG
* * *
23719 GATTGTAAATGTCAGATTTAAAAGATTAGAGTAATGCATAAATTGTATATGAGAATT-TGATTCC
1 GATTGTAAATGTCAGATGTAAAAGATTAGACTAATGCATAAATTATATATGAGAATTAT-ATTCC
23783 TTTTGATAGAAAAAAAAGAAAAGTTGATT
65 TTTTGATAG-AAAAAAAGAAAAGTTGATT
* * ** * *
23812 TATTGTAAATGT-AGACTGT-AAGGATTAGACTAATGCATGGATTATATTTGAGAATTATATTCT
1 GATTGTAAATGTCAGA-TGTAAAAGATTAGACTAATGCATAAATTATATATGAGAATTATATTCC
**
23875 TTTTGATAGAAAATGAGAAAAGTTGATT
65 TTTTGATAGAAAAAAAGAAAAGTTGATT
23903 GATTGTAAATGT
1 GATTGTAAATGT
23915 TACAGTTGAA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
91 28 0.31
92 47 0.53
93 14 0.16
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (92 bp):
GATTGTAAATGTCAGATGTAAAAGATTAGACTAATGCATAAATTATATATGAGAATTATATTCCT
TTTGATAGAAAAAAAGAAAAGTTGATT
Found at i:23939 original size:92 final size:92
Alignment explanation
Indices: 23768--23940 Score: 217
Period size: 92 Copynumber: 1.9 Consensus size: 92
23758 AAATTGTATA
* *
23768 TGAGAATTTGATTCCTTTTGATAGAAAAAAAAGAAAAGTTGATTTATTGTAAATGTAGACTGTAA
1 TGAGAATTTGATTCCTTTTGATAGAAAAAAAAGAAAAGTTGATTGATTGTAAATGTACACTGTAA
* *
23833 GGATTAGACTAATGCATGGATTATATT
66 GGATAAGACAAATGCATGGATTATATT
* ** *
23860 TGAGAATTAT-ATTCTTTTTGATAG-AAAATGAGAAAAGTTGATTGATTGTAAATGTTACAGT-T
1 TGAGAATT-TGATTCCTTTTGATAGAAAAAAAAGAAAAGTTGATTGATTGTAAATG-TACACTGT
*
23922 GAATGATAAGACAAATGCA
64 -AAGGATAAGACAAATGCA
23941 AATTTTTTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
91 28 0.41
92 40 0.58
93 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (92 bp):
TGAGAATTTGATTCCTTTTGATAGAAAAAAAAGAAAAGTTGATTGATTGTAAATGTACACTGTAA
GGATAAGACAAATGCATGGATTATATT
Found at i:26611 original size:271 final size:271
Alignment explanation
Indices: 26123--26636 Score: 884
Period size: 271 Copynumber: 1.9 Consensus size: 271
26113 TTTGATTATC
* * *
26123 GAGATACAGAATAGGTATAAATACATGACTTTTTATAAGAAGGCATGGATAGTTAAGCAAAAGGC
1 GAGATACAGAACAAGTATAAATACATGACTTTTTATAAGAAGGCATGGATAGTCAAGCAAAAGGC
* *
26188 AATTGCTTGAGTGTTTGGCGATTGGGTTAAATAATACAATGGTCTGCCAAAATGGTTAGTTGTAA
66 AATTGCTTGAGTGTTTGGCGATTGGGTTAAATAATACAATGGTCTGCCAAAATGGTTAGCTATAA
* * *
26253 TGCAACATTTTGTTCATGCTATAATTGTGGATTTGTAAACCATACCTACATATAATGGTCCTAAA
131 TGCAACATTTTGTTCATGCTACAATTGTGGATTTGCAAACCATACCTACATACAATGGTCCTAAA
26318 ATGATGCATGATAAGCGTTTTTTCCATCGAATTTTTTGGAGATTCAAGGCTTTTTTGGAGATATA
196 ATGATGCATGATAAGCGTTTTTTCCATCGAATTTTTTGGAGATTCAAGGCTTTTTTGGAGATATA
26383 AGTGTTTTTCT
261 AGTGTTTTTCT
*
26394 GAGATACAGAACAAGTATAAATATATGACTTTTTATAAGAAGGCATGGATAGTCAAGCAAAAGGC
1 GAGATACAGAACAAGTATAAATACATGACTTTTTATAAGAAGGCATGGATAGTCAAGCAAAAGGC
* *
26459 AATTGCTTGAGTGTTTGGCTATTGGGTTAAATATTACAATGGTCTGCCAAAATGGTTAGCTATAA
66 AATTGCTTGAGTGTTTGGCGATTGGGTTAAATAATACAATGGTCTGCCAAAATGGTTAGCTATAA
* * *
26524 TGCAACATTTTGTTCTTGGTACAATTGTGGATTTGCAAACCATACCTATATACAATGGTCCTAAA
131 TGCAACATTTTGTTCATGCTACAATTGTGGATTTGCAAACCATACCTACATACAATGGTCCTAAA
* *
26589 ATGATGCATGATAAGTGTTTTTTCCATCGACTTTTTTGGAGATTCAAG
196 ATGATGCATGATAAGCGTTTTTTCCATCGAATTTTTTGGAGATTCAAG
26637 TCTTGCATTG
Statistics
Matches: 227, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
271 227 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (271 bp):
GAGATACAGAACAAGTATAAATACATGACTTTTTATAAGAAGGCATGGATAGTCAAGCAAAAGGC
AATTGCTTGAGTGTTTGGCGATTGGGTTAAATAATACAATGGTCTGCCAAAATGGTTAGCTATAA
TGCAACATTTTGTTCATGCTACAATTGTGGATTTGCAAACCATACCTACATACAATGGTCCTAAA
ATGATGCATGATAAGCGTTTTTTCCATCGAATTTTTTGGAGATTCAAGGCTTTTTTGGAGATATA
AGTGTTTTTCT
Found at i:28577 original size:7 final size:7
Alignment explanation
Indices: 28559--28613 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
28549 TGTATTTTAA
*
28559 TTATTTT
1 TTATATT
28566 TTATATT
1 TTATATT
*
28573 GTATATT
1 TTATATT
*
28580 TTTTATT
1 TTATATT
28587 TTATATT
1 TTATATT
28594 TTA-ATT
1 TTATATT
28600 ATTAT-TT
1 -TTATATT
*
28607 TAATATT
1 TTATATT
28614 GATAATAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 6 0.15
7 33 0.85
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (7 bp):
TTATATT
Found at i:28581 original size:16 final size:14
Alignment explanation
Indices: 28560--28595 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
28550 GTATTTTAAT
28560 TATTTTTTATATTGTA
1 TATTTTTTAT-TT-TA
28576 TATTTTTTATTTTA
1 TATTTTTTATTTTA
28590 TATTTT
1 TATTTT
28596 AATTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
15 2 0.10
16 10 0.50
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (14 bp):
TATTTTTTATTTTA
Found at i:28613 original size:11 final size:12
Alignment explanation
Indices: 28551--28610 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
28541 CTAAATGCTG
28551 TATTTTAATTAT
1 TATTTTAATTAT
*
28563 T-TTTTATATTGT
1 TATTTTA-ATTAT
* *
28575 ATATTTTTTATTTT
1 -TA-TTTTAATTAT
28589 ATATTTTAATTAT
1 -TATTTTAATTAT
28602 TATTTTAAT
1 TATTTTAAT
28611 ATTGATAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
11 5 0.13
12 14 0.36
13 9 0.23
14 7 0.18
15 4 0.10
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:30781 original size:22 final size:22
Alignment explanation
Indices: 30741--30782 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30731 ACACAACAGT
*
30741 AGCAACAACAACAGCAGCAAGC
1 AGCAACAACAACAGAAGCAAGC
**
30763 AGCAACAACAATTGAAGCAA
1 AGCAACAACAACAGAAGCAA
30783 CAAACACCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (22 bp):
AGCAACAACAACAGAAGCAAGC
Found at i:30997 original size:23 final size:23
Alignment explanation
Indices: 30967--31012 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30957 TCTCCATTTT
*
30967 GAGTTGCATGAGGAATGGATTAA
1 GAGTTGCATGAGGAATAGATTAA
*
30990 GAGTTGCATGATGAATAGATTAA
1 GAGTTGCATGAGGAATAGATTAA
31013 TGGAGAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.28
Consensus pattern (23 bp):
GAGTTGCATGAGGAATAGATTAA
Found at i:33063 original size:13 final size:13
Alignment explanation
Indices: 33045--33070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33035 CAATTTTTTG
33045 TGTATCGATACAT
1 TGTATCGATACAT
33058 TGTATCGATACAT
1 TGTATCGATACAT
33071 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:33082 original size:32 final size:33
Alignment explanation
Indices: 33025--33088 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
33015 TGCAAGCCAA
**
33025 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
33058 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
33089 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:33864 original size:20 final size:20
Alignment explanation
Indices: 33832--33880 Score: 89
Period size: 20 Copynumber: 2.4 Consensus size: 20
33822 GTAATTTACA
33832 CACATATCAAAAATTTATTTG
1 CACATA-CAAAAATTTATTTG
33853 CACATACAAAAATTTATTTG
1 CACATACAAAAATTTATTTG
33873 CACATACA
1 CACATACA
33881 TCTATTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (20 bp):
CACATACAAAAATTTATTTG
Found at i:35668 original size:13 final size:13
Alignment explanation
Indices: 35650--35688 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
35640 ATAATCCCCC
*
35650 TGTATCGATACAG
1 TGTATCGATACAA
35663 TGTATCGATACAA
1 TGTATCGATACAA
*
35676 TGTATCGAAACAA
1 TGTATCGATACAA
35689 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:41250 original size:20 final size:20
Alignment explanation
Indices: 41208--41246 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41198 CGTGTTAATG
* *
41208 TATCGATACAATTTTTGATA
1 TATCGATACAATATTTGAAA
41228 TATCGATAC-ATATTTGAAA
1 TATCGATACAATATTTGAAA
41247 ATATAGCCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACAATATTTGAAA
Found at i:41334 original size:32 final size:33
Alignment explanation
Indices: 41279--41340 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
41269 CAAGCCAATG
**
41279 TATCGATACAATTTTTTGTGTATCGATACATTA
1 TATCGATACAATACTTTGTGTATCGATACATTA
41312 TATCGATAC-ATACTTTGTGTATCGATACA
1 TATCGATACAATACTTTGTGTATCGATACA
41341 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (33 bp):
TATCGATACAATACTTTGTGTATCGATACATTA
Found at i:43430 original size:158 final size:158
Alignment explanation
Indices: 43257--43543 Score: 441
Period size: 158 Copynumber: 1.8 Consensus size: 158
43247 ATATTAAATA
* * *
43257 TAAAAAATTAATAATATCAGAAATCTCAAATAACATTAAGAAGCATCTAAATGAGCATTTCATAT
1 TAAAAAATTAATAATATCAGAAATCTCAAACAACATCAAGAAGCATCTAAACGAGCATTTCATAT
* * * *
43322 TAACTAAAAAATATAA-CCTAAAACCATGTTAAACTAAATCTTTTTATTTTTGATATCTTAAACA
66 TAACTAAAAAATATAATCC-AAAACCACGTTAAACTAAATCTTTTAATTTTTGACATATTAAACA
43386 TATTTTGACATAATAAACAAGCATGCCAT
130 TATTTTGACATAATAAACAAGCATGCCAT
* * * *
43415 TAAAAAATTAATAATATCAGAAATTTCAAACAACATCAAGAGGTATTTAAACGAGCATTTCATAT
1 TAAAAAATTAATAATATCAGAAATCTCAAACAACATCAAGAAGCATCTAAACGAGCATTTCATAT
* *
43480 TAATTAAAAAATATAATCCAAAACCACGTTAAACTAAGTCTTTTAATTTTTGACATATTAAACA
66 TAACTAAAAAATATAATCCAAAACCACGTTAAACTAAATCTTTTAATTTTTGACATATTAAACA
43544 AGCATGGCAT
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
158 113 0.98
159 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (158 bp):
TAAAAAATTAATAATATCAGAAATCTCAAACAACATCAAGAAGCATCTAAACGAGCATTTCATAT
TAACTAAAAAATATAATCCAAAACCACGTTAAACTAAATCTTTTAATTTTTGACATATTAAACAT
ATTTTGACATAATAAACAAGCATGCCAT
Found at i:43662 original size:138 final size:138
Alignment explanation
Indices: 43388--43667 Score: 424
Period size: 138 Copynumber: 2.0 Consensus size: 138
43378 CTTAAACATA
43388 TTTTGACATAATAAACAAGCATGCCATTAAAAAATTAATAATATCAGAAATTTCAAACAACATCA
1 TTTTGACATAATAAACAAGCATGCCATTAAAAAATTAATAATATCAGAAATTTCAAACAACATCA
* * *
43453 AGAGGTATTTAAACGAGCATTTCATATTAATTAAAAAATATAATCCAAAACCACGTTAAACTAAG
66 AGAGGTATCTAAACGAACATTTCATATTAATTAAAAAATATAAACCAAAACCACGTTAAACTAAG
43518 TCTTTTAAT
131 TCTTTT-AT
* * * *
43527 TTTTGACATATTAAACAAGCATGGCA-TAAAAAATTAATAATATCAGAAATCTT-AAATAATATC
1 TTTTGACATAATAAACAAGCATGCCATTAAAAAATTAATAATATCAGAAAT-TTCAAACAACATC
*
43590 AAGAGGTATCTAAACGAATATTTCATATTAATTAAAAAAT-TACAACACAAAACCACGTTAAACT
65 AAGAGGTATCTAAACGAACATTTCATATTAATTAAAAAATATA-AAC-CAAAACCACGTTAAACT
43654 AAGT-TTTTAT
128 AAGTCTTTTAT
43664 TTTT
1 TTTT
43668 ATTTTTGATC
Statistics
Matches: 130, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
137 8 0.06
138 75 0.58
139 47 0.36
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (138 bp):
TTTTGACATAATAAACAAGCATGCCATTAAAAAATTAATAATATCAGAAATTTCAAACAACATCA
AGAGGTATCTAAACGAACATTTCATATTAATTAAAAAATATAAACCAAAACCACGTTAAACTAAG
TCTTTTAT
Found at i:44004 original size:157 final size:155
Alignment explanation
Indices: 43714--44117 Score: 530
Period size: 157 Copynumber: 2.6 Consensus size: 155
43704 TAAGCATATG
*
43714 TCAAACAATATCAAGAGGCATCTAAACGAGCA-TTCATATTAATTAAAAAATATAACCTAAAACA
1 TCAAACAATATCAAGAGGCATCTAAACGATCATTTCATATTAATTAAAAAA-ATAACCTAAAACA
* * * * * *
43778 TATTAAACTAAGTCTTTTTATTTTTGATATGTTAAACATATTTTGACATATTAAACAAGTATGCT
65 CATTAAACTAAGTCTTTTTATTTTTTACATATTAAACATATTTTGACATATTAAACAAGCATGCC
*
43843 ATAAAAAAATTAATAATAT-TGAAATC
130 AT-AAAAAATTAATAATATCAGAAATC
*
43869 TCAAACAATATCAAGAGGCATCTAAACGATCATTTCATAATAATTAAAAAAAGTAACCTAAAATC
1 TCAAACAATATCAAGAGGCATCTAAACGATCATTTCATATTAATTAAAAAAA-TAACCTAAAA-C
* *
43934 ACATTAAACTAAGTCTTTTTATTTTTTACATATTAAATATATTTTGACATATTAAATAAGCATGC
64 ACATTAAACTAAGTCTTTTTATTTTTTACATATTAAACATATTTTGACATATTAAACAAGCATGC
*
43999 CATAAAAAATTAATAGTATCAGAAATC
129 CATAAAAAATTAATAATATCAGAAATC
* * * * *
44026 TCAAATAACATCAAGAGGTATCTAAA-GTAGT-AGTTT-ATATTAATTACAAAATATAACCCAAA
1 TCAAACAATATCAAGAGGCATCTAAACG-A-TCA-TTTCATATTAATTA-AAAAAATAACCTAAA
*
44088 ACCACATTAAACTAAGTTTTTTTATTTTTT
62 A-CACATTAAACTAAGTCTTTTTATTTTTT
44118 TAGCTTAATT
Statistics
Matches: 221, Mismatches: 20, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
155 32 0.14
156 43 0.19
157 137 0.62
158 9 0.04
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (155 bp):
TCAAACAATATCAAGAGGCATCTAAACGATCATTTCATATTAATTAAAAAAATAACCTAAAACAC
ATTAAACTAAGTCTTTTTATTTTTTACATATTAAACATATTTTGACATATTAAACAAGCATGCCA
TAAAAAATTAATAATATCAGAAATC
Found at i:44269 original size:4 final size:4
Alignment explanation
Indices: 44251--44343 Score: 52
Period size: 4 Copynumber: 22.5 Consensus size: 4
44241 AGGCACCTAC
*
44251 CTTT -TTT CTTT -TTT CTTT CTTT CTTATT CTTT -TCTT C-TT CTTT CCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT C-T-TT CTTT CT-TT CTTT CTTT CTTT
* *
44298 CTTT CTTT -TTT TTTT CCTTT CTCCCT CTTT CTTTT CTTTT CTTT CT
1 CTTT CTTT CTTT CTTT -CTTT CT--TT CTTT C-TTT C-TTT CTTT CT
44344 AGTTCAACGT
Statistics
Matches: 72, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
3 13 0.18
4 39 0.54
5 14 0.19
6 6 0.08
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:44271 original size:11 final size:11
Alignment explanation
Indices: 44255--44313 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
44245 ACCTACCTTT
44255 TTTCTTTTTTC
1 TTTCTTTTTTC
*
44266 TTTCTTTCTT-
1 TTTCTTTTTTC
*
44276 ATTCTTTTCTTC
1 TTTCTTTT-TTC
*
44288 -TTCTTTCCTTC
1 TTTCTTT-TTTC
*
44299 TTTCTTTTTTT
1 TTTCTTTTTTC
44310 TTTC
1 TTTC
44314 CTTTCTCCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
10 6 0.16
11 26 0.68
12 6 0.16
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:44309 original size:26 final size:26
Alignment explanation
Indices: 44252--44340 Score: 67
Period size: 26 Copynumber: 3.5 Consensus size: 26
44242 GGCACCTACC
* * *
44252 TTTTTTCTTTTTTCTTTCTTTC-TTAT
1 TTTTTTC-TTCTTCTTTCCTTCTTTCT
*
44278 TCTTTTCTTCTTCTTTCCTTCTTTCT
1 TTTTTTCTTCTTCTTTCCTTCTTTCT
* * *
44304 TTTTTTTTTCCTT-TCTCCCTCTTTCT
1 TTTTTTCTT-CTTCTTTCCTTCTTTCT
*
44330 TTTCTT-TTCTT
1 TTTTTTCTTCTT
44341 TCTAGTTCAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
24 3 0.06
25 14 0.27
26 32 0.62
27 3 0.06
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTTCTTCTTCTTTCCTTCTTTCT
Found at i:46151 original size:21 final size:20
Alignment explanation
Indices: 46123--46163 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
46113 GACAAAAATA
46123 CCTAATGTATCAATACATTT
1 CCTAATGTATCAATACATTT
*
46143 CCTATATGTATCGATACATTT
1 CCTA-ATGTATCAATACATTT
46164 GGGCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (20 bp):
CCTAATGTATCAATACATTT
Found at i:46474 original size:28 final size:29
Alignment explanation
Indices: 46433--46498 Score: 107
Period size: 28 Copynumber: 2.3 Consensus size: 29
46423 GAGATTGATT
46433 TTTCTTCATCTACAGATTCCATAAAAC-A
1 TTTCTTCATCTACAGATTCCATAAAACAA
*
46461 TTTCTTCATTTACAGATTCCATAAAACAA
1 TTTCTTCATCTACAGATTCCATAAAACAA
46490 TTTGCTTCA
1 TTT-CTTCA
46499 CTTTGTCTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 26 0.74
29 4 0.11
30 5 0.14
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (29 bp):
TTTCTTCATCTACAGATTCCATAAAACAA
Found at i:47931 original size:28 final size:28
Alignment explanation
Indices: 47852--47931 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
47842 TAAAAGTCTT
*
47852 TAGATCATGGAAAATGACCT-AAATGACA
1 TAGATCAT-GAAAATGACCTAAAATCACA
*
47880 TCAGAATGCAT-AAAATGACATAAAATCAC-
1 T-AG-AT-CATGAAAATGACCTAAAATCACA
47909 TAGATCATAGAAAATGACCTAAA
1 TAGATCAT-GAAAATGACCTAAA
47932 TGGCATCTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
26 3 0.07
27 2 0.05
28 15 0.35
29 12 0.28
30 8 0.19
31 3 0.07
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.21
Consensus pattern (28 bp):
TAGATCATGAAAATGACCTAAAATCACA
Found at i:54667 original size:13 final size:13
Alignment explanation
Indices: 54627--54681 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
54617 CTGTTACAAG
54627 CAATGTATCGATA
1 CAATGTATCGATA
54640 CAA--T-TC-AT-
1 CAATGTATCGATA
54648 C-ATGTATCGATA
1 CAATGTATCGATA
*
54660 CAATGTATAGATA
1 CAATGTATCGATA
54673 CAATGTATC
1 CAATGTATC
54682 ATGTATTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 21 0.62
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:54667 original size:33 final size:33
Alignment explanation
Indices: 54627--54695 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
54617 CTGTTACAAG
*
54627 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATAGATACAATGT-ATCATGTATCGATA
*
54660 CAATGTATAGATACAATGTATCATGTATTGATA
1 CAATGTATAGATACAATGTATCATGTATCGATA
54693 CAA
1 CAA
54696 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATAGATACAATGTATCATGTATCGATA
Found at i:54768 original size:19 final size:19
Alignment explanation
Indices: 54723--54778 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
54713 ACTGTCAGTT
**
54723 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATAA
54742 TCCATGTATCGATACAATAA
1 T-CATGTATCGATACAATAA
54762 TCATGTATCGATACAAT
1 TCATGTATCGATACAAT
54779 GTATCGATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATAA
Found at i:54782 original size:13 final size:13
Alignment explanation
Indices: 54764--54790 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54754 TACAATAATC
54764 ATGTATCGATACA
1 ATGTATCGATACA
54777 ATGTATCGATACA
1 ATGTATCGATACA
54790 A
1 A
54791 AGCATAATGT
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:63370 original size:52 final size:52
Alignment explanation
Indices: 63292--63419 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
63282 TGAAATATGA
*
63292 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
63344 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
63396 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
63420 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:63446 original size:13 final size:13
Alignment explanation
Indices: 63428--63452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63418 CAAAGATCAG
63428 TGTATCGATACAA
1 TGTATCGATACAA
63441 TGTATCGATACA
1 TGTATCGATACA
63453 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:63530 original size:33 final size:33
Alignment explanation
Indices: 63493--63559 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
63483 AGTAGCTTAA
63493 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
63526 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
63559 A
1 A
63560 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:63533 original size:13 final size:13
Alignment explanation
Indices: 63515--63539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63505 CAAAAAAATA
63515 TGTATCGATACAT
1 TGTATCGATACAT
63528 TGTATCGATACA
1 TGTATCGATACA
63540 ACATTTTATG
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:64701 original size:20 final size:20
Alignment explanation
Indices: 64676--64730 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
64666 GTTGGGCTCA
*
64676 ATGTATCGATACATTTCACC
1 ATGTATCGATACAATTCACC
**
64696 ATGTATCGATACAATTCATT
1 ATGTATCGATACAATTCACC
64716 ATGTATCGATACAAT
1 ATGTATCGATACAAT
64731 GTATCAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:65408 original size:31 final size:32
Alignment explanation
Indices: 65357--65418 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
65347 CAAGCAAAGG
65357 TAAACTTATCCCTTCATGTGTCTTAATTTCGA
1 TAAACTTATCCCTTCATGTGTCTTAATTTCGA
*
65389 TAAACTTTTCCC-TCATGTGTCTTAATTTCG
1 TAAACTTATCCCTTCATGTGTCTTAATTTCG
65419 GGGACAGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 18 0.62
32 11 0.38
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (32 bp):
TAAACTTATCCCTTCATGTGTCTTAATTTCGA
Found at i:65896 original size:22 final size:21
Alignment explanation
Indices: 65871--65915 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
65861 GCATGACATA
65871 AAAAAGAATTAAATAACAATTG
1 AAAAAGAATTAAATAA-AATTG
* *
65893 AAAATGAATTAATTAAAATTG
1 AAAAAGAATTAAATAAAATTG
65914 AA
1 AA
65916 TTAACATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAAAGAATTAAATAAAATTG
Found at i:69935 original size:33 final size:33
Alignment explanation
Indices: 69897--69963 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
69887 AAAATTTCCA
***
69897 AATGTATCAATACAAAGATCCATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
* *
69930 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
69963 A
1 A
69964 TTTCCATGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCAATACAAAGAAAAATGTATCGATAC
Found at i:69936 original size:13 final size:13
Alignment explanation
Indices: 69918--69943 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69908 ACAAAGATCC
69918 ATGTATCGATACA
1 ATGTATCGATACA
69931 ATGTATCGATACA
1 ATGTATCGATACA
69944 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:70007 original size:19 final size:18
Alignment explanation
Indices: 69983--70050 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
69973 CAGTAGCTAA
69983 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
70002 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
70017 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
70034 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
70051 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:70023 original size:13 final size:13
Alignment explanation
Indices: 70005--70029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69995 ACAATACTTA
70005 TGTATCGATACAT
1 TGTATCGATACAT
70018 TGTATCGATACA
1 TGTATCGATACA
70030 AAACTTATGT
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70027 original size:32 final size:32
Alignment explanation
Indices: 69986--70048 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
69976 TAGCTAATTA
*
69986 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
70018 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
70049 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:70795 original size:55 final size:55
Alignment explanation
Indices: 70711--71449 Score: 1065
Period size: 55 Copynumber: 13.3 Consensus size: 55
70701 ATAAACTGTA
* * * * * *
70711 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
70766 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * * **
70821 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---AAG---AGGTG
* ** * *
70882 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
70937 TCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
70992 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
71047 TCCTGCTCTTCGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
71102 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
71157 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
71212 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
71267 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
71322 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
71377 TCCTGCTCTTTGGGGACTGAAAGGTGCCACGAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
71432 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
71450 AAAAAGCGGA
Statistics
Matches: 620, Mismatches: 52, Indels: 24
0.89 0.07 0.03
Matches are distributed among these distances:
54 10 0.02
55 553 0.89
56 10 0.02
57 2 0.00
58 2 0.00
61 43 0.07
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:70871 original size:29 final size:29
Alignment explanation
Indices: 70783--70871 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 29
70773 CTTTGAGGAC
70783 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** * **
70812 TGAAAGGTGTCCTGC-TCTT-TG-GGG-AA
1 TGAAAGGTG-CCACCAACTTGTGTGGGCTT
70838 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
70867 TGAAA
1 TGAAA
70872 AGAAAAAGCA
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
25 3 0.07
26 12 0.27
27 5 0.11
28 5 0.11
29 17 0.38
30 3 0.07
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:72423 original size:15 final size:14
Alignment explanation
Indices: 72405--72450 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
72395 CTTTTCTCTC
72405 TTTTTCTTTGTTTT
1 TTTTTCTTTGTTTT
*
72419 GTTTTTTTTTGTTTT
1 -TTTTTCTTTGTTTT
72434 TTTTTCCTTT-TTTT
1 TTTTT-CTTTGTTTT
72448 TTT
1 TTT
72451 GCCCTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (14 bp):
TTTTTCTTTGTTTT
Found at i:72447 original size:14 final size:14
Alignment explanation
Indices: 72430--72463 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
72420 TTTTTTTTTG
72430 TTTTTTTTT--CCT
1 TTTTTTTTTGCCCT
72442 TTTTTTTTTGCCCT
1 TTTTTTTTTGCCCT
72456 TTTTTTTT
1 TTTTTTTT
72464 GAAGAGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
14 11 0.55
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTGCCCT
Found at i:72464 original size:13 final size:13
Alignment explanation
Indices: 72430--72464 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
72420 TTTTTTTTTG
*
72430 TTTTTTTTT-CCT
1 TTTTTTTTTGCCC
72442 TTTTTTTTTGCCC
1 TTTTTTTTTGCCC
72455 TTTTTTTTTG
1 TTTTTTTTTG
72465 AAGAGAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTGCCC
Found at i:85356 original size:13 final size:13
Alignment explanation
Indices: 85338--85363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85328 ACAAAGATCC
85338 ATGTATCGATACA
1 ATGTATCGATACA
85351 ATGTATCGATACA
1 ATGTATCGATACA
85364 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:85359 original size:33 final size:33
Alignment explanation
Indices: 85317--85383 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
85307 AAAATTTCCA
***
85317 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
85350 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
85383 A
1 A
85384 TTTCCATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:85427 original size:19 final size:18
Alignment explanation
Indices: 85403--85470 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
85393 CTGTAGCTAA
85403 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
85422 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
85437 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
85454 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
85471 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:85443 original size:13 final size:13
Alignment explanation
Indices: 85425--85449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85415 ACAATACTTA
85425 TGTATCGATACAT
1 TGTATCGATACAT
85438 TGTATCGATACA
1 TGTATCGATACA
85450 AAACTTATGT
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:85447 original size:32 final size:32
Alignment explanation
Indices: 85406--85468 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
85396 TAGCTAATTA
*
85406 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
85438 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
85469 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:86166 original size:22 final size:23
Alignment explanation
Indices: 86141--86191 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
86131 ATAACTAAAA
*
86141 TTTTATTATTAATATTTATTT-T
1 TTTTATTATTAATATATATTTAT
* *
86163 TTTTATTTTTTATATATATTTAT
1 TTTTATTATTAATATATATTTAT
86186 TTTTAT
1 TTTTAT
86192 GTCGAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTATTATTAATATATATTTAT
Found at i:89108 original size:21 final size:21
Alignment explanation
Indices: 89079--89141 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
89069 TATGCGTAAA
*
89079 TTAATTATTTTGATAATTGAT
1 TTAAATATTTTGATAATTGAT
*
89100 TTAAATA-TTTGAATAATCTTAT
1 TTAAATATTTTG-ATAAT-TGAT
*
89122 TTAAATATTTATGAGAATTG
1 TTAAATATTT-TGATAATTG
89142 TTATGGATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 4 0.12
21 11 0.32
22 11 0.32
23 6 0.18
24 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.51
Consensus pattern (21 bp):
TTAAATATTTTGATAATTGAT
Found at i:97483 original size:30 final size:30
Alignment explanation
Indices: 97447--97560 Score: 122
Period size: 30 Copynumber: 3.8 Consensus size: 30
97437 GGTATTCGTC
* * * *
97447 TCAAAGTCTATGACTCAGTGGCATTTTTTT
1 TCAAAGTCCACGACTCAATGGCATCTTTTT
* *
97477 TCAAAGTCCACGACT-AATGGCATCCTTTC
1 TCAAAGTCCACGACTCAATGGCATCTTTTT
* * *
97506 TCAAAGTCAATGACTCAATGGCATCTCTTT
1 TCAAAGTCCACGACTCAATGGCATCTTTTT
* *
97536 TCAAAGTCCACAACTCAGTGGCATC
1 TCAAAGTCCACGACTCAATGGCATC
97561 CCTTTTTTTA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
29 23 0.34
30 45 0.66
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (30 bp):
TCAAAGTCCACGACTCAATGGCATCTTTTT
Found at i:97512 original size:59 final size:60
Alignment explanation
Indices: 97445--97561 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 60
97435 GTGGTATTCG
* * * * *
97445 TCTCAAAGTCTATGACTCAGTGGCATTTTTTTTCAAAGTCCACGACT-AATGGCATCCTT
1 TCTCAAAGTCAATGACTCAATGGCATCTCTTTTCAAAGTCCACAACTCAATGGCATCCTT
*
97504 TCTCAAAGTCAATGACTCAATGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCC
1 TCTCAAAGTCAATGACTCAATGGCATCTCTTTTCAAAGTCCACAACTCAATGGCATCC
97562 CTTTTTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
59 42 0.82
60 9 0.18
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (60 bp):
TCTCAAAGTCAATGACTCAATGGCATCTCTTTTCAAAGTCCACAACTCAATGGCATCCTT
Found at i:97738 original size:33 final size:31
Alignment explanation
Indices: 97590--98221 Score: 435
Period size: 31 Copynumber: 19.8 Consensus size: 31
97580 CACAACTCTA
* * *
97590 TGGC-ACCCTTCTAAAGCCCGCACAAGTCGG
1 TGGCAACCTTTCTAAAGCCCACACAAGTCAG
* * * * * *
97620 TGGAAACCCTTATAAAGTCCATACAAGTCGG
1 TGGCAACCTTTCTAAAGCCCACACAAGTCAG
*** * *
97651 TGATGACCCTTCTAAAGCCCACACAAATCAG
1 TGGCAACCTTTCTAAAGCCCACACAAGTCAG
* * **
97682 TGGTGACCCTTT-TAAAGCCCACACAAGTTGG
1 TGG-CAACCTTTCTAAAGCCCACACAAGTCAG
* * **
97713 TGACAATCCTTTTCTAAAGCTCACACAAGTTGG
1 TGGCAA-CC-TTTCTAAAGCCCACACAAGTCAG
* * **
97746 TGTCAACCCTTCTAAAGCCCACACAAGTTGG
1 TGGCAACCTTTCTAAAGCCCACACAAGTCAG
* * * *
97777 TGGTAACCCTTCTAAAGCCTACACAAGTCGG
1 TGGCAACCTTTCTAAAGCCCACACAAGTCAG
* *
97808 TGGCAACCCTTATCTAAAGTCCACACAAGTCGG
1 TGGCAA-CCTT-TCTAAAGCCCACACAAGTCAG
** *
97841 TGATAGCCCTTCTCTAAAGCCCACACAAGTCAG
1 TGGCA-ACCTT-TCTAAAGCCCACACAAGTCAG
* *
97874 T--CATAGCCCTTCTAAAGCCCACACAAGTCAT
1 TGGCA-A-CCTTTCTAAAGCCCACACAAGTCAG
*** * *
97905 TCATAACATTTCTCTAAAGCCCACACAAGTCAA
1 TGGCAAC-CTT-TCTAAAGCCCACACAAGTCAG
* * **
97938 TGGCAACATTTCTCTAAAGCCCACGCAAGTTGG
1 TGGCAAC-CTT-TCTAAAGCCCACACAAGTCAG
* * *
97971 TGGCAACCCTTCTAAAGCCCACATAGGTCAG
1 TGGCAACCTTTCTAAAGCCCACACAAGTCAG
* * *
98002 TGGCAACCCTTCTCTAAAGGCTACACAAGTTAG
1 TGGCAA-CCTT-TCTAAAGCCCACACAAGTCAG
* * * *
98035 TGACAACCTTTCTAAAGCACATACAAGTCAT
1 TGGCAACCTTTCTAAAGCCCACACAAGTCAG
* * *
98066 TGGCAACCCTTCTAAAGGCCACACAAGTTAG
1 TGGCAACCTTTCTAAAGCCCACACAAGTCAG
* *
98097 TGGCAACCCTTCTAAAGCCCACACAAGTTAG
1 TGGCAACCTTTCTAAAGCCCACACAAGTCAG
* * * *
98128 TGACAACCCTTTTCAAAAACCCACACAAGTCAA
1 TGGCAA-CC-TTTCTAAAGCCCACACAAGTCAG
* *
98161 TGGCAACCCTTCTCGAAAGTCCACACAAGTCAG
1 TGGCAA-CCTT-TCTAAAGCCCACACAAGTCAG
*
98194 TGGCAACCTTTCTTCAAAGCCCATACAA
1 TGGCAACCTTTC-T-AAAGCCCACACAA
98222 ACTAGTGGCA
Statistics
Matches: 482, Mismatches: 100, Indels: 37
0.78 0.16 0.06
Matches are distributed among these distances:
30 4 0.01
31 241 0.50
32 33 0.07
33 204 0.42
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (31 bp):
TGGCAACCTTTCTAAAGCCCACACAAGTCAG
Found at i:97755 original size:64 final size:62
Alignment explanation
Indices: 97598--98221 Score: 478
Period size: 64 Copynumber: 9.8 Consensus size: 62
97588 TATGGCACCC
* * * * * * * ** *
97598 TTCTAAAGCCCGCACAAGTCGGTGGAAACCCTTATAAAGTCCATACAAGTCGGTGATGACCC
1 TTCTAAAGCCCACACAAGTCAGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTGACAACCT
* **
97660 TTCTAAAGCCCACACAAATCAGTGGTGACCCTTTTAAAGCCCACACAAGTTGGTGACAATCCTT
1 TTCTAAAGCCCACACAAGTCAGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTGACAA-CC-T
* ** * * ** *
97724 TTCTAAAGCTCACACAAGTTGGTGTCAACCCTTCTAAAGCCCACACAAGTTGGTGGTAACCC
1 TTCTAAAGCCCACACAAGTCAGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTGACAACCT
* * * * * *
97786 TTCTAAAGCCTACACAAGTCGGTGGCAACCCTTATCTAAAGTCCACACAAGTCGGTGATAGCCCT
1 TTCTAAAGCCCACACAAGTCAGTGGCAACCCTT-T-TAAAGCCCACACAAGTTGGTGACA-ACCT
* *** * * *
97851 TCTCTAAAGCCCACACAAGTCAGT--CATAGCCCTTCTAAAGCCCACACAAGTCATTCATAACAT
1 T-TCTAAAGCCCACACAAGTCAGTGGCA-A-CCCTTTTAAAGCCCACACAAGTTGGTGACAAC-C
97914 T
62 T
* ** * * *
97915 TCTCTAAAGCCCACACAAGTCAATGGCAACATTTCTCTAAAGCCCACGCAAGTTGGTGGCAACCC
1 T-TCTAAAGCCCACACAAGTCAGTGGCAACCCTT-T-TAAAGCCCACACAAGTTGGTGACAACCT
* * * * *
97980 TTCTAAAGCCCACATAGGTCAGTGGCAACCCTTCTCTAAAGGCTACACAAGTTAGTGACAACCT
1 TTCTAAAGCCCACACAAGTCAGTGGCAACCCTT-T-TAAAGCCCACACAAGTTGGTGACAACCT
* * * * * * * *
98044 TTCTAAAGCACATACAAGTCATTGGCAACCCTTCTAAAGGCCACACAAGTTAGTGGCAACCC
1 TTCTAAAGCCCACACAAGTCAGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTGACAACCT
* * * *** *
98106 TTCTAAAGCCCACACAAGTTAGTGACAACCCTTTTCAAAAACCCACACAAGTCAATGGCAACCCT
1 TTCTAAAGCCCACACAAGTCAGTGGCAACCCTTTT--AAAGCCCACACAAGTTGGTGACAA-CCT
* * * *
98171 TCTCGAAAGTCCACACAAGTCAGTGGCAACCTTTCTTCAAAGCCCATACAA
1 T-TCTAAAGCCCACACAAGTCAGTGGCAACCCTT-TT-AAAGCCCACACAA
98222 ACTAGTGGCA
Statistics
Matches: 450, Mismatches: 94, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
62 131 0.29
63 5 0.01
64 219 0.49
65 9 0.02
66 84 0.19
67 2 0.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (62 bp):
TTCTAAAGCCCACACAAGTCAGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTGACAACCT
Found at i:101275 original size:15 final size:15
Alignment explanation
Indices: 101233--101279 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
101223 TCTAACCCCG
101233 TTTTTCTTCAAACTCAGA
1 TTTTTCTTCAAA---AGA
101251 TTTCTTCTTCAAAAGA
1 TTT-TTCTTCAAAAGA
101267 TTTTTCTTCAAAA
1 TTTTTCTTCAAAA
101280 CAATAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 10 0.36
16 6 0.21
18 3 0.11
19 9 0.32
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (15 bp):
TTTTTCTTCAAAAGA
Found at i:108991 original size:20 final size:21
Alignment explanation
Indices: 108942--108995 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
108932 ATAATGAATA
108942 ATGTATCGATACATTACAAGC
1 ATGTATCGATACATTACAAGC
* ***
108963 ATATATCGATACATT-CACTT
1 ATGTATCGATACATTACAAGC
108983 ATGTATCGATACA
1 ATGTATCGATACA
108996 ATTTTTCTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTACAAGC
Found at i:109064 original size:20 final size:20
Alignment explanation
Indices: 109036--109094 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
109026 CATGGTCCAA
*
109036 TATTAATACATTCACTTATG
1 TATTAATACATTAACTTATG
* *
109056 TATTGATACATTTACTTATG
1 TATTAATACATTAACTTATG
*
109076 TATCAATACATTAACTTAT
1 TATTAATACATTAACTTAT
109095 TATATCAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.46
Consensus pattern (20 bp):
TATTAATACATTAACTTATG
Found at i:109972 original size:13 final size:13
Alignment explanation
Indices: 109954--109978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109944 ATATTGCTTA
109954 GTATCGATACATT
1 GTATCGATACATT
109967 GTATCGATACAT
1 GTATCGATACAT
109979 ATTCATAGTA
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:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:109975 original size:33 final size:32
Alignment explanation
Indices: 109933--109996 Score: 110
Period size: 33 Copynumber: 2.0 Consensus size: 32
109923 CACACCCAGA
*
109933 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATT-CATAGTATCGATACAT
109966 TGTATCGATACATATTCATAGTATCGATACA
1 TGTATCGATACATATTCATAGTATCGATACA
109997 CCTTGAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATATTCATAGTATCGATACAT
Found at i:109991 original size:19 final size:18
Alignment explanation
Indices: 109934--109996 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
109924 ACACCCAGAT
109934 GTATCGATACATATTGCTTA
1 GTATCGATACATATT-C-TA
109954 GTATCGATAC--A-T-T-
1 GTATCGATACATATTCTA
109967 GTATCGATACATATTCATA
1 GTATCGATACATATTC-TA
109986 GTATCGATACA
1 GTATCGATACA
109997 CCTTGAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 2 0.05
19 11 0.30
20 10 0.27
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (18 bp):
GTATCGATACATATTCTA
Found at i:115736 original size:27 final size:28
Alignment explanation
Indices: 115704--115767 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
115694 ACAACGGGGC
*
115704 TGGAGTATCCCTCA-GAAATAACAGGGT
1 TGGAGTATCCCTCATGAAATAACAGAGT
*
115731 TGGAGTATCCCTGATGAAATAACAGAGT
1 TGGAGTATCCCTCATGAAATAACAGAGT
115759 TGGAGTATC
1 TGGAGTATC
115768 TCCGATTGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 13 0.38
28 21 0.62
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.25
Consensus pattern (28 bp):
TGGAGTATCCCTCATGAAATAACAGAGT
Found at i:115870 original size:51 final size:51
Alignment explanation
Indices: 115756--115872 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
115746 GAAATAACAG
* * *
115756 AGTTGGAGTATCTCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGA
1 AGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGAAAATAAAATCGA
* * * *
115807 AGTTAGAATATCCCCGATTATGGAAAATTAATGTTTT-AGAAATAAAATCGG
1 AGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGA-AAATAAAATCGA
*
115858 GGTTGGAGTATCCCC
1 AGTTGGAGTATCCCC
115873 TTGGAAATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.02
51 54 0.98
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (51 bp):
AGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGAAAATAAAATCGA
Found at i:115941 original size:79 final size:79
Alignment explanation
Indices: 115808--116055 Score: 291
Period size: 79 Copynumber: 3.1 Consensus size: 79
115798 TAAAATCGAA
* *
115808 GTTAGAATATCCCCGATTATGGAAAATTAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
*
115873 TTGGAAATAACGGG
66 TTGAAAATAACGGG
** * * *
115887 GTTAGAGTATCCCTAATTATAGAAAATTGGTGTTTT-GAAAATAAAATCGAGGTTGGAGTATCCC
1 GTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAG-AAATAAAATCGGGGTTGGAGTATCCC
** *
115951 CTCAAAAATAACGGT
65 CTTGAAAATAACGGG
* * ** *** *
115966 GTTGGAGTATCCCCGATTGTGGAAAATTGATACTTTAGAAATAAGGCCGGGGTTAGAGTATCCCC
1 GTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
* *
116031 GTGAAAATAACGAG
66 TTGAAAATAACGGG
116045 GTTAGAGTATC
1 GTTAGAGTATC
116056 TCTGATGAAA
Statistics
Matches: 137, Mismatches: 30, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
78 1 0.01
79 135 0.99
80 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (79 bp):
GTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
TTGAAAATAACGGG
Found at i:116075 original size:28 final size:28
Alignment explanation
Indices: 116013--116085 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
116003 GAAATAAGGC
116013 CGGGGTTAGAGTATCCCCGTGAAAATAA
1 CGGGGTTAGAGTATCCCCGTGAAAATAA
* * *
116041 CGAGGTTAGAGTATCTCTGATG-AAATAA
1 CGGGGTTAGAGTATCCCCG-TGAAAATAA
* *
116069 TGGGGTTGGAGTATCCC
1 CGGGGTTAGAGTATCCC
116086 TAATTGTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (28 bp):
CGGGGTTAGAGTATCCCCGTGAAAATAA
Found at i:116216 original size:51 final size:51
Alignment explanation
Indices: 116095--116216 Score: 131
Period size: 51 Copynumber: 2.4 Consensus size: 51
116085 CTAATTGTGA
* * * **
116095 AAAATTGGTGTTTTGGAATTAAAATTGGAGTTGTAGTATCCCCGATTGCGG
1 AAAATTGATGTTTTGGAAATAAAATCGGAGTTGTAGTATCCCCGATTGAAG
* * * *
116146 TAAATCGATGCTTTAGAAATAAAATCGGAGTTAG-AGTATCCCCGATT-AAG
1 AAAATTGATGTTTTGGAAATAAAATCGGAGTT-GTAGTATCCCCGATTGAAG
116196 AAAATTTGATGTTTTGGAAAT
1 AAAA-TTGATGTTTTGGAAAT
116217 GGAACCGGGA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
50 4 0.07
51 51 0.91
52 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.34
Consensus pattern (51 bp):
AAAATTGATGTTTTGGAAATAAAATCGGAGTTGTAGTATCCCCGATTGAAG
Found at i:118605 original size:40 final size:40
Alignment explanation
Indices: 118543--118637 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
118533 AAACTACCTG
* *
118543 AATGTATCGATACATTGTAAAATGTATCGATACAATAAGC
1 AATGTATCGATACAATGCAAAATGTATCGATACAATAAGC
*
118583 AATGTATCGATATAATGCAAAATGTATCGATACAATGAA-C
1 AATGTATCGATACAATGCAAAATGTATCGATACAAT-AAGC
* *
118623 AGTGTATTGATACAA
1 AATGTATCGATACAA
118638 ATTGTGAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (40 bp):
AATGTATCGATACAATGCAAAATGTATCGATACAATAAGC
Found at i:118619 original size:20 final size:20
Alignment explanation
Indices: 118543--118637 Score: 106
Period size: 20 Copynumber: 4.8 Consensus size: 20
118533 AAACTACCTG
*
118543 AATGTATCGATACATTGTAA-
1 AATGTATCGATACAATG-AAC
118563 AATGTATCGATACAAT-AAGC
1 AATGTATCGATACAATGAA-C
*
118583 AATGTATCGATATAATGCAA-
1 AATGTATCGATACAATG-AAC
118603 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
* *
118623 AGTGTATTGATACAA
1 AATGTATCGATACAA
118638 ATTGTGAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 59 0.91
22 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:120382 original size:13 final size:13
Alignment explanation
Indices: 120364--120388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120354 AAAGTTTTTA
120364 GTATCGATACATT
1 GTATCGATACATT
120377 GTATCGATACAT
1 GTATCGATACAT
120389 GAGTACTATT
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:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:121040 original size:13 final size:13
Alignment explanation
Indices: 121022--121078 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
121012 TTCAACGATT
121022 TGTATCGATACAA
1 TGTATCGATACAA
121035 TGTATCGATACATAA
1 TGTATCGATAC--AA
121050 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
121067 TGTATCGATACA
1 TGTATCGATACA
121079 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:121059 original size:19 final size:18
Alignment explanation
Indices: 121035--121097 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
121025 ATCGATACAA
121035 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
121054 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
121067 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
121086 TGTATCGATACA
1 TGTATCGATACA
121098 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:121062 original size:32 final size:32
Alignment explanation
Indices: 121021--121105 Score: 161
Period size: 32 Copynumber: 2.7 Consensus size: 32
121011 TTTCAACGAT
121021 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
121053 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
121085 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
121106 CTACGAAGCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:121168 original size:13 final size:13
Alignment explanation
Indices: 121150--121174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121140 ATTACTCAAA
121150 TGTATCGATACAT
1 TGTATCGATACAT
121163 TGTATCGATACA
1 TGTATCGATACA
121175 CTGATCTTTG
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:121227 original size:52 final size:52
Alignment explanation
Indices: 121183--121311 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
121173 CACTGATCTT
*
121183 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
121235 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
121287 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
121312 TCATATTTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:129783 original size:52 final size:52
Alignment explanation
Indices: 129705--129854 Score: 232
Period size: 52 Copynumber: 2.9 Consensus size: 52
129695 CAAAATATGA
129705 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
129757 AAATTTACCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
129809 AAATTTGCCTGCATGTATCGATACA--AAGATCAGTGTATCGATACAT
1 AAATTTACCTGCATGTATCGATACATTTA-AT-AGTGTATCGATACAT
129855 TTGAGTAATG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:129921 original size:20 final size:21
Alignment explanation
Indices: 129896--129949 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
129886 TAGCTTAAAT
129896 TGTATCGATACAAAAAC-ATA
1 TGTATCGATACAAAAACTATA
* *
129916 TGTATCGATAC-AACACTTTA
1 TGTATCGATACAAAAACTATA
129936 TGTATCGATACAAA
1 TGTATCGATACAAA
129950 TCGTTGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 24 0.80
21 2 0.07
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAAAAACTATA
Found at i:135885 original size:32 final size:31
Alignment explanation
Indices: 135839--135923 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 31
135829 TTATTAATTG
135839 ATCGATAA-ATAAGTGAATGTATTTGAATTTA
1 ATCGA-AACATAAGTGAATGTATTTGAATTTA
*
135870 TTCGAAACATAAAGTGAATGTA-TTGAATTTA
1 ATCGAAACAT-AAGTGAATGTATTTGAATTTA
*
135901 ATCGATACATAAGTGGAATGTAT
1 ATCGAAACATAAGT-GAATGTAT
135924 CGGATACAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
30 6 0.13
31 30 0.64
32 11 0.23
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (31 bp):
ATCGAAACATAAGTGAATGTATTTGAATTTA
Done.