Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold332
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: 2744988
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 17
Found at i:9071 original size:28 final size:28
Alignment explanation
Indices: 8990--9071 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
8980 TTTTGGAGAT
*
8990 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
9018 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
9046 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
9072 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:9215 original size:51 final size:51
Alignment explanation
Indices: 9054--9225 Score: 173
Period size: 53 Copynumber: 3.3 Consensus size: 51
9044 GAAATAACGA
* * * * *
9054 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAA-TCG-ATATTTTGAAAATAAAATCGG
** * * * * * * *
9107 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATCGATATTTTGAAAATAAAATCGG
*
9160 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAATCGG
9211 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
9226 TCAGAAATAA
Statistics
Matches: 95, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
51 39 0.41
53 49 0.52
54 2 0.02
55 5 0.05
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAATCGG
Found at i:9271 original size:27 final size:28
Alignment explanation
Indices: 9208--9283 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
9198 AAAATAAAGT
*
9208 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
9236 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
9263 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
9284 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:11773 original size:13 final size:13
Alignment explanation
Indices: 11755--11780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11745 ACAAAGATCC
11755 ATGTATCGATACA
1 ATGTATCGATACA
11768 ATGTATCGATACA
1 ATGTATCGATACA
11781 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:11776 original size:33 final size:33
Alignment explanation
Indices: 11734--11800 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
11724 AAAATTTCCA
***
11734 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
11767 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
11800 A
1 A
11801 TTTCCTTGGC
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:11844 original size:19 final size:18
Alignment explanation
Indices: 11820--11887 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
11810 CAGTAGCTAA
11820 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
11839 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
11854 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
11871 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
11888 TTGTTGAATT
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:11860 original size:13 final size:13
Alignment explanation
Indices: 11842--11866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11832 ACAATACTTA
11842 TGTATCGATACAT
1 TGTATCGATACAT
11855 TGTATCGATACA
1 TGTATCGATACA
11867 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:11864 original size:32 final size:32
Alignment explanation
Indices: 11823--11885 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
11813 TAGCTAATTA
*
11823 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
11855 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
11886 AATTGTTGAA
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:11967 original size:21 final size:21
Alignment explanation
Indices: 11943--11999 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
11933 CATTTGTAGG
11943 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
11964 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
11985 ATGTATCGATACATT
1 ATGTATCGATACATT
12000 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:12024 original size:16 final size:16
Alignment explanation
Indices: 12003--12033 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11993 ATACATTTAA
12003 ATTTTTTTTTTTTTTC
1 ATTTTTTTTTTTTTTC
12019 ATTTTTTTTTTTTTT
1 ATTTTTTTTTTTTTT
12034 TCAAACACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.90
Consensus pattern (16 bp):
ATTTTTTTTTTTTTTC
Found at i:12026 original size:17 final size:17
Alignment explanation
Indices: 12004--12036 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11994 TACATTTAAA
12004 TTTTTTTTTTTTTTCAT
1 TTTTTTTTTTTTTTCAT
12021 TTTTTTTTTTTTTTCA
1 TTTTTTTTTTTTTTCA
12037 AACACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTTTTCAT
Found at i:12524 original size:13 final size:13
Alignment explanation
Indices: 12506--12539 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
12496 TTTAAAAGAC
*
12506 TTAATTTAAATTT
1 TTAATTTAAAATT
12519 TTAATTTAAAATT
1 TTAATTTAAAATT
12532 TTAATTTA
1 TTAATTTA
12540 TGTTGCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTAATTTAAAATT
Found at i:12666 original size:31 final size:31
Alignment explanation
Indices: 12628--12687 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
12618 TAAAATTTTA
* *
12628 AAAATAATTAAATGATTGCAATCCTTAATTT
1 AAAATAATTAAATGATTACAATACTTAATTT
*
12659 AAAATAATTAGATGATTACAATACTTAAT
1 AAAATAATTAAATGATTACAATACTTAAT
12688 AATTAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (31 bp):
AAAATAATTAAATGATTACAATACTTAATTT
Found at i:12768 original size:14 final size:14
Alignment explanation
Indices: 12731--12772 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
12721 TCAGATGATT
*
12731 ACAAAGTAAATTAA
1 ACAAATTAAATTAA
**
12745 A-ATTTTAAATTAA
1 ACAAATTAAATTAA
12758 ACAAATTAAATTAA
1 ACAAATTAAATTAA
12772 A
1 A
12773 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (14 bp):
ACAAATTAAATTAA
Found at i:12780 original size:14 final size:13
Alignment explanation
Indices: 12737--12781 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
12727 GATTACAAAG
12737 TAAATTAAAATTT
1 TAAATTAAAATTT
**
12750 TAAATTAAACAAAT
1 TAAATTAAA-ATTT
12764 TAAATTAAATATTT
1 TAAATTAAA-ATTT
12778 TAAA
1 TAAA
12782 ATAATTACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATTAAAATTT
Found at i:12981 original size:3 final size:3
Alignment explanation
Indices: 12975--13007 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
12965 TTATTTAAAA
*
12975 AAT AAT AAT AAC AAT AAT AAT -AT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13008 TGAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13019 original size:14 final size:11
Alignment explanation
Indices: 12975--13008 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
12965 TTATTTAAAA
*
12975 AATAATAATAAC
1 AATAATAAT-AT
12987 AATAATAATAT
1 AATAATAATAT
12998 AATAATAATAT
1 AATAATAATAT
13009 GAAATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAATAATAT
Found at i:13238 original size:13 final size:13
Alignment explanation
Indices: 13186--13266 Score: 92
Period size: 13 Copynumber: 5.9 Consensus size: 13
13176 TATCTGTCAA
13186 AATAATTATATTTT
1 AATAATT-TATTTT
*
13200 AATAATTTATTCTA
1 AATAATTTATT-TT
13214 AATTAATATTATTTT
1 AA-TAAT-TTATTTT
13229 AATAATTTATTTT
1 AATAATTTATTTT
*
13242 AA-ATTATTATTTT
1 AATAAT-TTATTTT
13255 AATAATTTATTT
1 AATAATTTATTT
13267 AAAAATTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
12 2 0.03
13 28 0.48
14 16 0.28
15 7 0.12
16 5 0.09
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (13 bp):
AATAATTTATTTT
Found at i:13249 original size:26 final size:26
Alignment explanation
Indices: 13189--13266 Score: 113
Period size: 26 Copynumber: 2.9 Consensus size: 26
13179 CTGTCAAAAT
*
13189 AATTA-TATTTTAATAATTTATTCTA
1 AATTATTATTTTAATAATTTATTTTA
13214 AATTAATATTATTTTAATAATTTATTTTA
1 AA-T--TATTATTTTAATAATTTATTTTA
13243 AATTATTATTTTAATAATTTATTT
1 AATTATTATTTTAATAATTTATTT
13267 AAAAATTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
25 2 0.04
26 22 0.46
28 3 0.06
29 21 0.44
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (26 bp):
AATTATTATTTTAATAATTTATTTTA
Found at i:14267 original size:25 final size:25
Alignment explanation
Indices: 14233--14284 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
14223 ATTGTTCGCC
*
14233 TGCAAATTTAGACTTTAACAATTGT
1 TGCAAATTTAGACCTTAACAATTGT
* *
14258 TGCAAATTTAGGCCTTAACTATTGT
1 TGCAAATTTAGACCTTAACAATTGT
14283 TG
1 TG
14285 ATGATCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (25 bp):
TGCAAATTTAGACCTTAACAATTGT
Found at i:20150 original size:125 final size:126
Alignment explanation
Indices: 19902--20151 Score: 396
Period size: 125 Copynumber: 2.0 Consensus size: 126
19892 ATTCATCTGT
* * *
19902 GTAGAACAATGTTAGAGGCTAGATACTTAGACAACTTTGGTTTGTGACAACTGGGCTCGGTGTAC
1 GTAGAACAATGTTAAAGGCTAGATACTTAGACAACTTTGGTTTGTGACAACTGAGCTCGATGTAC
* * *
19967 AAGAATAAAGTAGAGATCATTTTTAATCTGTTAGAATAGCTTTCTATGGATTGAAGTATGC
66 AAGAACAAAGCAGAGATCATTTTTAACCTGTTAGAATAGCTTTCTATGGATTGAAGTATGC
* *
20028 GTAGAATAATGTTAAAGGCTAGATACTTAGACAATTTTGGTTTGTGACAACT-AGCTCGATGTAC
1 GTAGAACAATGTTAAAGGCTAGATACTTAGACAACTTTGGTTTGTGACAACTGAGCTCGATGTAC
*
20092 AAGAACAAAGCAGAGATCATTTTTTACCTGTTAGAATAGCTTTCTATGGATT-AGAGTATG
66 AAGAACAAAGCAGAGATCATTTTTAACCTGTTAGAATAGCTTTCTATGGATTGA-AGTATG
20152 ATTTTTCAGA
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
124 1 0.01
125 64 0.56
126 49 0.43
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (126 bp):
GTAGAACAATGTTAAAGGCTAGATACTTAGACAACTTTGGTTTGTGACAACTGAGCTCGATGTAC
AAGAACAAAGCAGAGATCATTTTTAACCTGTTAGAATAGCTTTCTATGGATTGAAGTATGC
Found at i:20462 original size:79 final size:78
Alignment explanation
Indices: 20317--21080 Score: 703
Period size: 79 Copynumber: 9.7 Consensus size: 78
20307 GAAAAGAAAT
* * * * *
20317 AGGGTTAGAGTGTTCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAGTCAATATT
1 AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAA-TCGATATT
20382 TTGAAAATAAAAAC
65 TTGAAAATAAAAAC
* *
20396 ACGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAATTTGATATT
1 AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAA-TCGATATT
* *
20461 TTGGAAATAGAAAC
65 TTGAAAATAAAAAC
* * * * * * * * * *
20475 GGGGTTGGAGTATTCCTTTGGAAATAATGGGATTGGACTATCCCTGATGGTGAAAATTGATATTT
1 AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAATCGATATTT
20540 T-AGAAATAAAAA-
66 TGA-AAATAAAAAC
* * * *** * * *
20552 TGAGGTTGGAGTATCACCT-TAGAAATAATAAGGTTGGTGTATCCTCAATGGTGAAAAATCGATA
1 AG-GGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATGGTG-AAAATCGATA
20616 TTTTTG-AAATAAAAAC
63 -TTTTGAAAATAAAAAC
** * * *
20632 AATGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATC-AGTAT
1 AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTG-AAAATCGA-TAT
*
20696 TTTGGAAATAAAAAC
64 TTTGAAAATAAAAAC
* * * ** * *
20711 AAGGTTGGAGTGTCCCATCGAAAATAATAGGGTTGGAGTAACCCTGAT-GTGAAAAATCGATATT
1 AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTG-AAAATCGATATT
* *
20775 TTGGAAATAAAAAT
65 TTGAAAATAAAAAC
* * * * * *
20789 AGGGTTAGAGTGTCCCCTCGAAAATAACGAGGTTGGAGTATCCCAGATGGTGAAAAGTTGCTATT
1 AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAA-TCGATATT
20854 TTGAAAATAAAAAC
65 TTGAAAATAAAAAC
* * ** * * * * *
20868 GGGGTCGGAGTATCCCCTAAAAAATAACGAGATTAGAGTATCCCTGATGGTAAAAATCGATATTT
1 AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAATCGATATTT
*
20933 TAAAAATAAAAAC
66 TGAAAATAAAAAC
* * * *
20946 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCTCGATGGTGGAAAATCAATATT
1 AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGT-GAAAATCGATATT
* *
21011 TTGGAAATAAAAAT
65 TTGAAAATAAAAAC
* * * * * * * ***
21025 GGGGTTAGAATGTCTCATCGAAAATAACGGGGTTAGAGTATTATCGATGGTGAAAA
1 AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAA
21081 GAAATCATAT
Statistics
Matches: 566, Mismatches: 105, Indels: 29
0.81 0.15 0.04
Matches are distributed among these distances:
77 1 0.00
78 197 0.35
79 363 0.64
80 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (78 bp):
AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAATCGATATTT
TGAAAATAAAAAC
Found at i:21029 original size:157 final size:157
Alignment explanation
Indices: 20317--21023 Score: 760
Period size: 157 Copynumber: 4.5 Consensus size: 157
20307 GAAAAGAAAT
* * **
20317 AGGGTTAGAGTGTTCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAGTCAATATT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAA-TCAATATT
* * * *
20382 TTGAAAATAAAAAC-ACGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGG
65 TTGGAAATAAAAACGA-GGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGATGG
* * *
20446 TGAAAATTTGATATTTTGGAAATAGAAAC
129 TGAAAAATCGATATTTTGGAAATAAAAAC
* * * * * * * * * **
20475 GGGGTTGGAGTATTCCTTTGGAAATAATGGGATTGGACTATCCCTGATGGTGAAAATTGATATTT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAATCAATATTT
* * * * * ** * *
20540 TAGAAATAAAAATGAGGTTGGAGTATCACCTTAGAAATAATAAGGTTGGTGTAT-CCTCAATGGT
66 TGGAAATAAAAACGAGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCT-GATGGT
*
20604 GAAAAATCGATATTTTTGAAATAAAAAC
130 GAAAAATCGATATTTTGGAAATAAAAAC
** * *
20632 AATGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCAGTATT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTG-AAAATCAATATT
* * * * * *
20697 TTGGAAATAAAAACAAGGTTGGAGTGTCCCATCGAAAATAA-TAGGGTTGGAGTAACCCTGAT-G
65 TTGGAAATAAAAACGAGGTTGGAGTATCCCCTCAAAAATAACGA-GGTTGGAGTATCCCTGATGG
*
20760 TGAAAAATCGATATTTTGGAAATAAAAAT
129 TGAAAAATCGATATTTTGGAAATAAAAAC
* * * ***
20789 AGGGTTAGAGTGTCCCCTCGAAAATAACGAGGTTGGAGTATCCCAGATGGTGAAAAGTTGCTATT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAA-TCAATATT
* * * * * *
20854 TTGAAAATAAAAACGGGGTCGGAGTATCCCCTAAAAAATAACGAGATTAGAGTATCCCTGATGGT
65 TTGGAAATAAAAACGAGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGATGGT
**
20919 -AAAAATCGATATTTTAAAAATAAAAAC
130 GAAAAATCGATATTTTGGAAATAAAAAC
* * *
20946 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT-TCTCGATGGTGGAAAATCAATAT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCT-GATGGT-GAAAATCAATAT
21010 TTTGGAAATAAAAA
64 TTTGGAAATAAAAA
21024 TGGGGTTAGA
Statistics
Matches: 445, Mismatches: 94, Indels: 21
0.79 0.17 0.04
Matches are distributed among these distances:
156 7 0.02
157 329 0.74
158 106 0.24
159 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (157 bp):
AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAATCAATATTT
TGGAAATAAAAACGAGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGATGGTG
AAAAATCGATATTTTGGAAATAAAAAC
Found at i:21049 original size:157 final size:157
Alignment explanation
Indices: 20317--21105 Score: 759
Period size: 157 Copynumber: 5.0 Consensus size: 157
20307 GAAAAGAAAT
* * **
20317 AGGGTTAGAGTGTTCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAGTCAATATT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAA-TCAATATT
* * * * *
20382 TTGAAAATAAAAAC-ACGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGG
65 TTGGAAATAAAAACGA-GGTTGGAGTGTCCCATCGAAAATAACGAGGTTGGAGTATCCCTGATGG
* * *
20446 TGAAAATTTGATATTTTGGAAATAGAAAC
129 TGAAAAATCGATATTTTGGAAATAAAAAC
* * * * * * * * * **
20475 GGGGTTGGAGTATTCCTTTGGAAATAATGGGATTGGACTATCCCTGATGGTGAAAATTGATATTT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAATCAATATTT
* * * * * ** * *
20540 TAGAAATAAAAATGAGGTTGGAGTATCACCTTAG-AAATAATAAGGTTGGTGTAT-CCTCAATGG
66 TGGAAATAAAAACGAGGTTGGAGTGTC-CCATCGAAAATAACGAGGTTGGAGTATCCCT-GATGG
*
20603 TGAAAAATCGATATTTTTGAAATAAAAAC
129 TGAAAAATCGATATTTTGGAAATAAAAAC
** * *
20632 AATGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCAGTATT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTG-AAAATCAATATT
* * *
20697 TTGGAAATAAAAACAAGGTTGGAGTGTCCCATCGAAAATAA-TAGGGTTGGAGTAACCCTGAT-G
65 TTGGAAATAAAAACGAGGTTGGAGTGTCCCATCGAAAATAACGA-GGTTGGAGTATCCCTGATGG
*
20760 TGAAAAATCGATATTTTGGAAATAAAAAT
129 TGAAAAATCGATATTTTGGAAATAAAAAC
* * * ***
20789 AGGGTTAGAGTGTCCCCTCGAAAATAACGAGGTTGGAGTATCCCAGATGGTGAAAAGTTGCTATT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAA-TCAATATT
* * * * * ** * *
20854 TTGAAAATAAAAACGGGGTCGGAGTATCCCCTAAAAAATAACGAGATTAGAGTATCCCTGATGGT
65 TTGGAAATAAAAACGAGGTTGGAGTGTCCCATCGAAAATAACGAGGTTGGAGTATCCCTGATGGT
**
20919 -AAAAATCGATATTTTAAAAATAAAAAC
130 GAAAAATCGATATTTTGGAAATAAAAAC
* * *
20946 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT-TCTCGATGGTGGAAAATCAATAT
1 AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCT-GATGGT-GAAAATCAATAT
* * * * * * * **
21010 TTTGGAAATAAAAATGGGGTTAGAATGTCTCATCGAAAATAACGGGGTTAGAGTAT-TATCGATG
64 TTTGGAAATAAAAACGAGGTTGGAGTGTCCCATCGAAAATAACGAGGTTGGAGTATCCCT-GATG
21074 GTGAAAAGAAATC-ATATTTTGGAAATGAAAAA
128 GTG--AA-AAATCGATATTTTGGAAAT-AAAAA
21106 AAAATTATTG
Statistics
Matches: 509, Mismatches: 104, Indels: 33
0.79 0.16 0.05
Matches are distributed among these distances:
156 8 0.02
157 367 0.72
158 108 0.21
159 3 0.01
160 13 0.03
161 10 0.02
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (157 bp):
AGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAATCAATATTT
TGGAAATAAAAACGAGGTTGGAGTGTCCCATCGAAAATAACGAGGTTGGAGTATCCCTGATGGTG
AAAAATCGATATTTTGGAAATAAAAAC
Found at i:21081 original size:236 final size:237
Alignment explanation
Indices: 20334--21065 Score: 852
Period size: 236 Copynumber: 3.1 Consensus size: 237
20324 GAGTGTTCCC
* * *
20334 TCGAAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAGTCAATATTTTGAAAATAAAAACACG
1 TCGAAAATAACGAGGTTGGAGTATCCCCAATGGTGAAAAGTCGATATTTTGAAAATAAAAACAAG
* * * *
20399 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAATTTGATATTTTG
66 GTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTG
* * * * * * *
20464 GAAATAGAAACGGGGTTGGAGTATTCCTTTGGAAATAATGGGATTGGACTATCCCTGATGGT-GA
131 GAAATAAAAACGGGGTTGGAGTATCCCATCGAAAATAATGGGGTTGGAGTATCCCTGATGGTGGA
* * * * *
20528 AAATTGATATTTTAGAAATAAAAATGAGGTT-GGA-GTATCA
196 AAATCGATATTTTGGAAATAAAAATGGGGTTAGAATGTCTCA
* * ** * * *
20568 CCTTAGAAATAATAAGGTTGGTGTATCCTCAATGGTGAAAAATCGATATTTTTG-AAATAAAAAC
1 TC-GA-AAATAACGAGGTTGGAGTATCCCCAATGGTGAAAAGTCGATA-TTTTGAAAATAAAAAC
* *
20632 AATGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATC-AGTAT
63 AAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCGA-TAT
** * * *
20696 TTTGGAAATAAAAACAAGGTTGGAGTGTCCCATCGAAAATAATAGGGTTGGAGTAACCCTGAT-G
127 TTTGGAAATAAAAACGGGGTTGGAGTATCCCATCGAAAATAATGGGGTTGGAGTATCCCTGATGG
* * * * *
20760 TGAAAAATCGATATTTTGGAAATAAAAATAGGGTTAGAGTGTCCCC
192 TGGAAAATCGATATTTTGGAAATAAAAATGGGGTTAGAATGTCTCA
* * **
20806 TCGAAAATAACGAGGTTGGAGTAT-CCCAGATGGTGAAAAGTTGCTATTTTGAAAATAAAAACGG
1 TCGAAAATAACGAGGTTGGAGTATCCCCA-ATGGTGAAAAGTCGATATTTTGAAAATAAAAACAA
* * * * *
20870 GGTCGGAGTATCCCCTAAAAAATAACGAGATTAGAGTATCCCTGATGGT-AAAAATCGATATTTT
65 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTT
** * * *
20934 AAAAATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT-TCTCGATGGTG
130 GGAAATAAAAACGGGGTTGGAGTATCCCATCGAAAATAATGGGGTTGGAGTATCCCT-GATGGTG
*
20998 GAAAATCAATATTTTGGAAATAAAAATGGGGTTAGAATGTCTCA
194 GAAAATCGATATTTTGGAAATAAAAATGGGGTTAGAATGTCTCA
* *
21042 TCGAAAATAACGGGGTTAGAGTAT
1 TCGAAAATAACGAGGTTGGAGTAT
21066 TATCGATGGT
Statistics
Matches: 412, Mismatches: 74, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
234 3 0.01
235 72 0.17
236 326 0.79
237 7 0.02
238 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (237 bp):
TCGAAAATAACGAGGTTGGAGTATCCCCAATGGTGAAAAGTCGATATTTTGAAAATAAAAACAAG
GTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTG
GAAATAAAAACGGGGTTGGAGTATCCCATCGAAAATAATGGGGTTGGAGTATCCCTGATGGTGGA
AAATCGATATTTTGGAAATAAAAATGGGGTTAGAATGTCTCA
Found at i:21808 original size:22 final size:22
Alignment explanation
Indices: 21782--21825 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21772 ATTTTTAGGG
21782 AAAAT-ATTATAAAATTTGAAAA
1 AAAATCATT-TAAAATTTGAAAA
* *
21804 AAAATCATTTAATATTTTAAAA
1 AAAATCATTTAAAATTTGAAAA
21826 TAATTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATCATTTAAAATTTGAAAA
Found at i:23300 original size:21 final size:21
Alignment explanation
Indices: 23276--23330 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
23266 TTCTACAATT
23276 TGTATCAATACAAACAGTAAA
1 TGTATCAATACAAACAGTAAA
* ** *
23297 TGTATCGATAC-ATGAGTGAA
1 TGTATCAATACAAACAGTAAA
23317 TGTATCAATACAAA
1 TGTATCAATACAAA
23331 ACTACCCTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (21 bp):
TGTATCAATACAAACAGTAAA
Found at i:23375 original size:20 final size:20
Alignment explanation
Indices: 23350--23389 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23340 CATACTGCCA
23350 AGAAAATGTATCGATACATG
1 AGAAAATGTATCGATACATG
23370 AGAAAATGTATCGATACATG
1 AGAAAATGTATCGATACATG
23390 CTTACAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (20 bp):
AGAAAATGTATCGATACATG
Found at i:29520 original size:78 final size:79
Alignment explanation
Indices: 29411--29637 Score: 200
Period size: 78 Copynumber: 2.9 Consensus size: 79
29401 TTTTCTCGGA
* * * * * * *
29411 GATAATCCAACCCTATTATTTCCAAGGGGATACCCTAGCCACGTTTTTATTTTCAAAAATAT-TA
1 GATACTCCAACCCCATTA-TTCCAAGCGGATACCCTAACCACGTCTTTATTTCCAAAAATATCAA
*
29475 AA-TTT-ACCATTGGG
65 AATTTTCACCA-CGGG
* * *
29489 GATACTCCAACCCCATTATTCCTGAGCGGATACTCTAACCCCGTCTTTATTTCCAAAAATATCAA
1 GATACTCCAACCCCATTATTCC-AAGCGGATACCCTAACCACGTCTTTATTTCCAAAAATATCAA
29554 AATTTTCACCACGGG
65 AATTTTCACCACGGG
* * *
29569 GATACT-CAACCCCGTTATTTTCAAG-GGCATACTCC-AACCCCG-CTTTTATTTCC-AAAATAT
1 GATACTCCAACCCCATTA-TTCCAAGCGG-ATAC-CCTAACCACGTC-TTTATTTCCAAAAATAT
*
29629 TAAAATTTT
62 CAAAATTTT
29638 TATCTTAGGG
Statistics
Matches: 125, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
77 4 0.03
78 66 0.53
79 35 0.28
80 16 0.13
81 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (79 bp):
GATACTCCAACCCCATTATTCCAAGCGGATACCCTAACCACGTCTTTATTTCCAAAAATATCAAA
ATTTTCACCACGGG
Found at i:29601 original size:79 final size:78
Alignment explanation
Indices: 29411--29704 Score: 265
Period size: 79 Copynumber: 3.7 Consensus size: 78
29401 TTTTCTCGGA
* ** * * * * * *
29411 GATAATCCAACCCTATTATTTCCAAGGGGATACCCTAGCCACGTTTTTATTTTCAAAAATATTAA
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCTAACCCCGTCTTTATTTCCAAAAATATAAA
29476 A-TTTACCATTGGG
66 ATTTTACCA-TGGG
* * *
29489 GATACTCCAACCCCATTA-TTCCTGAGCGGATACTCTAACCCCGTCTTTATTTCCAAAAATATCA
1 GATACTCCAACCCCGTTATTTCC-AAGGGGATACTCTAACCCCGTCTTTATTTCCAAAAATAT-A
*
29553 AAATTTTCACCACGGG
64 AAATTTT-ACCATGGG
* * *
29569 GATACT-CAACCCCGTTATTTTCAAGGGCATACTCCAACCCCG-CTTTTATTTCC-AAAATATTA
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCTAACCCCGTC-TTTATTTCCAAAAATA-TA
* * *
29631 AAATTTTTATCTTAGG
64 AAA-TTTTACCATGGG
* *** * *
29647 GATACTCCAACTCCGTTATTTTTGAGGGGATACTCAAACCCCGTTTTTATTTCCAAAA
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCTAACCCCGTCTTTATTTCCAAAA
29705 TGTTTTCATC
Statistics
Matches: 178, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
77 4 0.02
78 69 0.39
79 83 0.47
80 18 0.10
81 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (78 bp):
GATACTCCAACCCCGTTATTTCCAAGGGGATACTCTAACCCCGTCTTTATTTCCAAAAATATAAA
ATTTTACCATGGG
Found at i:29705 original size:79 final size:79
Alignment explanation
Indices: 29452--29705 Score: 282
Period size: 79 Copynumber: 3.2 Consensus size: 79
29442 ACCCTAGCCA
* * **
29452 CGTTTTTATTTTCAAAAATATT-AAA--TTTACCATTGGGGATACTCCAACCCCATTATTCCTGA
1 CGTTTTTA-TTTCCAAAATATTAAAATTTTTACC-TTGGGGATACTCCAACCCCGTTATTTTTGA
* *
29514 GCGGATACTCTAACCC
64 GGGGATACTCAAACCC
* * * ** **
29530 CGTCTTTATTTCCAAAAATATCAAAATTTTCACCACGGGGATACT-CAACCCCGTTATTTTCAAG
1 CGTTTTTATTTCC-AAAATATTAAAATTTTTACCTTGGGGATACTCCAACCCCGTTATTTTTGAG
* *
29594 GGCATACTCCAACCC
65 GGGATACTCAAACCC
* * * *
29609 CGCTTTTATTTCCAAAATATTAAAATTTTTATCTTAGGGATACTCCAACTCCGTTATTTTTGAGG
1 CGTTTTTATTTCCAAAATATTAAAATTTTTACCTTGGGGATACTCCAACCCCGTTATTTTTGAGG
29674 GGATACTCAAACCC
66 GGATACTCAAACCC
29688 CGTTTTTATTTCCAAAAT
1 CGTTTTTATTTCCAAAAT
29706 GTTTTCATCT
Statistics
Matches: 143, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
77 4 0.03
78 39 0.27
79 86 0.60
80 9 0.06
81 5 0.03
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (79 bp):
CGTTTTTATTTCCAAAATATTAAAATTTTTACCTTGGGGATACTCCAACCCCGTTATTTTTGAGG
GGATACTCAAACCC
Found at i:31321 original size:20 final size:21
Alignment explanation
Indices: 31296--31349 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
31286 CATTTTAAGC
*
31296 ATGTATTGATACATTCACT-T
1 ATGTATCGATACATTCACTCT
*
31316 ATGTATCGATACATTTACTCT
1 ATGTATCGATACATTCACTCT
*
31337 TTGTATCGATACA
1 ATGTATCGATACA
31350 AATTATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTCT
Found at i:33315 original size:27 final size:26
Alignment explanation
Indices: 33277--33348 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
33267 TTATTCATAA
33277 AGATACTCCAACCCCA-TCTTTCCGAGG
1 AGATACTCCAACCCCATTCTTT-CGA-G
*
33304 AGATACTCCAACCCTATTCTTTCGAG
1 AGATACTCCAACCCCATTCTTTCGAG
*
33330 AGGATACTCCAACCTCATT
1 A-GATACTCCAACCCCATT
33349 TTTAAACTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.05
27 33 0.82
28 5 0.12
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.26
Consensus pattern (26 bp):
AGATACTCCAACCCCATTCTTTCGAG
Found at i:34484 original size:599 final size:599
Alignment explanation
Indices: 33345--34544 Score: 2048
Period size: 599 Copynumber: 2.0 Consensus size: 599
33335 ACTCCAACCT
* *
33345 CATTTTTAAACTTGTTATGATTTAAATCTTATTTTTGCCCTAATTATCATTATCAGGGATATTCC
1 CATTTTTAAACTTGTTATGATTTAAATCTTATTTTTGCCCTAATTATCATCATCAAGGATATTCC
* *
33410 AACCCTATTCCTCCGAGAGAATACTCTAGCACCCTTTTTTAACCAAAAATTAAAATTTTTCTCTC
66 AACCCTATTCCTCCGAGAGAATACTCTAGCAACCTATTTTAACCAAAAATTAAAATTTTTCTCTC
*
33475 TCCTAAAATTTGAGTAATATCCGTTTTCGAACTTCAATTAATCAATGGATCTAGACATATCCCCA
131 TCCTAAAATTTGAGTAATATCCGTTTTCGAAATTCAATTAATCAATGGATCTAGACATATCCCCA
* * *
33540 ACATTGTTAACTTGGTCATTTTTTGCATAACCGTCGACAATTATGAGATATATTCCGATCATCTT
196 ACATTGTTAACTTGGTCATTTTTTGCATAAACGTCGACAATTATGAGATATATTCCGATCATATC
*
33605 TCTTTTTATTTATTGTCGTTCTGTATGAATTATTTTATGCAACATTATTTCATCTGTTGTCCTAC
261 TCTTTTTATTTATTGTCGTTCTGTATGAATTATTTTATGCAACATTATTTCATATGTTGTCCTAC
33670 TAACATTTTTGTATTGACCAGTATTGCATTCATGTTTTTTTTAAAAATTTGTTTACAAAAATCGT
326 TAACATTTTTGTATTGACCAGTATTGCATTCATGTTTTTTTTAAAAATTTGTTTACAAAAATCGT
* *
33735 AAAGGCATTGTTCTGTATCAGTATCTCTCCAATGCTTGACACGAAAGATCTAGTTTTCAAAGTAA
391 AAAGGCAATATTCTGTATCAGTATCTCTCCAATGCTTGACACGAAAGATCTAGTTTTCAAAGTAA
* * *
33800 AATCTAAAGATCAATTCATATCTTTATGTTCTCCACTTCTCTGAGGCGCATATGAGATTAAAACT
456 AATCCAAAGATCAATTCATATCTTTATATTCTCCACTTCTCTGAGGCACATATGAGATTAAAACT
33865 TTTATCAAAACCTAGATTTATTTTTATATAAAATTCATGCATTCAAAGGGATTATACCGAAATAA
521 TTTATCAAAACCTAGATTTATTTTTATATAAAATTCATGCATTCAAAGGGATTATACCGAAATAA
*
33930 TGATAAATTAAAAC
586 TGATAAACTAAAAC
33944 CATTTTTAAACTTGTTATGATTTAAATCTTATTTTTG-CCTAAATTATCATCATCAAGGATATTC
1 CATTTTTAAACTTGTTATGATTTAAATCTTATTTTTGCCCT-AATTATCATCATCAAGGATATTC
* *
34008 CAACCTTATTCCTCCGAGAGAATACTCTAGCAACCTATTTTAACC-AAAATT-AAATTTTTTTCT
65 CAACCCTATTCCTCCGAGAGAATACTCTAGCAACCTATTTTAACCAAAAATTAAAATTTTTCTCT
* * * * *
34071 CTCCTGAATTTTGAGTAATATTCGTTTTTGAAATTCAATTAATCAATGGATCTAGACATGTCCCC
130 CTCCTAAAATTTGAGTAATATCCGTTTTCGAAATTCAATTAATCAATGGATCTAGACATATCCCC
* * *
34136 AACATTGTTAACTTGGTTATTTTTTGGATAAACGTCGACAATTATGAGATATATTTCGATCATAT
195 AACATTGTTAACTTGGTCATTTTTTGCATAAACGTCGACAATTATGAGATATATTCCGATCATAT
34201 CTCTTTTTATTTATTGTCGTTCTGTATGAATTATTTTATGCAACATTATTTCATATGTTGTCCTA
260 CTCTTTTTATTTATTGTCGTTCTGTATGAATTATTTTATGCAACATTATTTCATATGTTGTCCTA
**
34266 CTAACATTTTTGTATTGACCAGTATTGCATTCATGTTTTTTTTTTTTAAATTTGTTTACAAAAAT
325 CTAACATTTTTGTATTGACCAGTATTGCATTCATG--TTTTTTTTAAAAATTTGTTTACAAAAAT
* * *
34331 CGTAAAGGCAATATTCTGTGTCAGTATCTCTCCAATGCTTGACATGGAAGATCTAGTTTTCAAAG
388 CGTAAAGGCAATATTCTGTATCAGTATCTCTCCAATGCTTGACACGAAAGATCTAGTTTTCAAAG
*
34396 TAAAATCCAAAGAT-TATTGCATATCTTTATATTCTCCACTTCTCTGAGGCACATATGAGATTAA
453 TAAAATCCAAAGATCAATT-CATATCTTTATATTCTCCACTTCTCTGAGGCACATATGAGATTAA
*
34460 AACTTTTATCAAAACCTGGATTTATTTTTATATAAAATTCATGCATTCAAAGGGATTATACCGAA
517 AACTTTTATCAAAACCTAGATTTATTTTTATATAAAATTCATGCATTCAAAGGGATTATACCGAA
34525 ATAATGATAAACTAAAAC
582 ATAATGATAAACTAAAAC
34543 CA
1 CA
34545 AAAAAACTAA
Statistics
Matches: 565, Mismatches: 32, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
597 228 0.40
598 12 0.02
599 325 0.58
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (599 bp):
CATTTTTAAACTTGTTATGATTTAAATCTTATTTTTGCCCTAATTATCATCATCAAGGATATTCC
AACCCTATTCCTCCGAGAGAATACTCTAGCAACCTATTTTAACCAAAAATTAAAATTTTTCTCTC
TCCTAAAATTTGAGTAATATCCGTTTTCGAAATTCAATTAATCAATGGATCTAGACATATCCCCA
ACATTGTTAACTTGGTCATTTTTTGCATAAACGTCGACAATTATGAGATATATTCCGATCATATC
TCTTTTTATTTATTGTCGTTCTGTATGAATTATTTTATGCAACATTATTTCATATGTTGTCCTAC
TAACATTTTTGTATTGACCAGTATTGCATTCATGTTTTTTTTAAAAATTTGTTTACAAAAATCGT
AAAGGCAATATTCTGTATCAGTATCTCTCCAATGCTTGACACGAAAGATCTAGTTTTCAAAGTAA
AATCCAAAGATCAATTCATATCTTTATATTCTCCACTTCTCTGAGGCACATATGAGATTAAAACT
TTTATCAAAACCTAGATTTATTTTTATATAAAATTCATGCATTCAAAGGGATTATACCGAAATAA
TGATAAACTAAAAC
Found at i:43552 original size:20 final size:21
Alignment explanation
Indices: 43493--43552 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
43483 AATTACTATA
*
43493 TAATTGAAATATAAATAAAAT
1 TAATTAAAATATAAATAAAAT
**
43514 TAATTAAAATATCTA-AAAAT
1 TAATTAAAATATAAATAAAAT
*
43534 TAA-TAAAATCTAAATAAAA
1 TAATTAAAATATAAATAAAA
43553 ACTTTTAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 8 0.25
20 12 0.38
21 12 0.38
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (21 bp):
TAATTAAAATATAAATAAAAT
Found at i:45726 original size:25 final size:23
Alignment explanation
Indices: 45698--45766 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 23
45688 AAAATGAAAC
45698 ATTTAAAAATATTTTAATAATGTAT
1 ATTTAAAAATATTTTAA-AAT-TAT
*
45723 ATTTAAAAATAATAATTAAAATTAT
1 ATTTAAAAAT-AT-TTTAAAATTAT
*
45748 ATTGAAAAAATATTTTAAA
1 ATT-TAAAAATATTTTAAA
45767 TAAATAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.13
25 18 0.47
26 11 0.29
27 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (23 bp):
ATTTAAAAATATTTTAAAATTAT
Found at i:45783 original size:51 final size:50
Alignment explanation
Indices: 45702--45800 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 50
45692 TGAAACATTT
*
45702 AAAAATATTTTAATAATGTATATTTAAAAATAATAATTA-AAATTATATTGA
1 AAAAATATTTTAATAATATATATTTAAAAATAA-AATTATAAA-TATATTGA
45753 AAAAATATTTTAAATAA-ATA-ATTTATAAAATAAAATTATAAATATATT
1 AAAAATATTTT-AATAATATATATTTA-AAAATAAAATTATAAATATATT
45801 TTACATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
50 16 0.36
51 23 0.52
52 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (50 bp):
AAAAATATTTTAATAATATATATTTAAAAATAAAATTATAAATATATTGA
Found at i:45926 original size:52 final size:50
Alignment explanation
Indices: 45829--45936 Score: 123
Period size: 53 Copynumber: 2.1 Consensus size: 50
45819 ATTAAAGAAT
*
45829 AATATTTAAAAAATATAATATATTTTTATATTTTTAAAATTTATAAATAA-
1 AATA-TTAAAAAATATAATATATTTTTATATTTTTAAAATCTATAAATAAC
*
45879 AATATTAAAAACATATTAA-ATTATTTTTAATATTTTTTACAA-CTATAAATAAC
1 AATATTAAAAA-ATA-TAATA-TATTTTT-ATA-TTTTTAAAATCTATAAATAAC
45932 AATAT
1 AATAT
45937 ATTCTCTCTC
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
49 7 0.14
50 8 0.16
51 10 0.20
52 12 0.24
53 13 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (50 bp):
AATATTAAAAAATATAATATATTTTTATATTTTTAAAATCTATAAATAAC
Found at i:46386 original size:11 final size:12
Alignment explanation
Indices: 46370--46398 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
46360 TTTGGAAAAA
46370 TATTTTTATT-T
1 TATTTTTATTGT
46381 TATTTTTATTGT
1 TATTTTTATTGT
46393 TATTTT
1 TATTTT
46399 AAAAAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TATTTTTATTGT
Found at i:47718 original size:47 final size:47
Alignment explanation
Indices: 47595--47729 Score: 177
Period size: 47 Copynumber: 2.9 Consensus size: 47
47585 CAAGCAGCGA
* * *
47595 AGTCTGTAACAGCTTATGCATG-TTTGCTAGCACAACAGCCAAACTG
1 AGTCTGTAACTGCTTATGCATGCTATGCTAGCACAACAGCCAAACCG
* *
47641 AGTC--TAACTGCTTATGGATGCTATGCTAGCACAATAGCCAAACCG
1 AGTCTGTAACTGCTTATGCATGCTATGCTAGCACAACAGCCAAACCG
* * *
47686 AGTCTGTAACTGCCTATGCATGCTATGATAGCAAAACAGCCAAA
1 AGTCTGTAACTGCTTATGCATGCTATGCTAGCACAACAGCCAAA
47730 GAGCTTCTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
44 14 0.18
45 25 0.33
46 4 0.05
47 33 0.43
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (47 bp):
AGTCTGTAACTGCTTATGCATGCTATGCTAGCACAACAGCCAAACCG
Found at i:48431 original size:26 final size:26
Alignment explanation
Indices: 48402--48469 Score: 61
Period size: 26 Copynumber: 2.6 Consensus size: 26
48392 AATAAAACCT
48402 TAAACATAATTATAAA-TATACAAATA
1 TAAACATAATTATAAACTATAC-AATA
* * *
48428 TAAA-A-AATATATTAAACTTTACACTT
1 TAAACATAAT-TA-TAAACTATACAATA
48454 TAAACATAATTATAAA
1 TAAACATAATTATAAA
48470 ATAAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
24 3 0.09
25 3 0.09
26 18 0.53
27 7 0.21
28 3 0.09
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (26 bp):
TAAACATAATTATAAACTATACAATA
Found at i:49624 original size:2 final size:2
Alignment explanation
Indices: 49617--49648 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
49607 AAGATTACTA
49617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49649 TTGTCAGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54928 original size:13 final size:13
Alignment explanation
Indices: 54910--54937 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
54900 ATACAAAGAT
54910 CAATGTATCGATA
1 CAATGTATCGATA
54923 CAATGTATCGATA
1 CAATGTATCGATA
54936 CA
1 CA
54938 TTTGAGTAAT
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:55005 original size:20 final size:20
Alignment explanation
Indices: 54976--55033 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
54966 GCAGTAGCTT
54976 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
54995 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
55015 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
55034 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:59437 original size:27 final size:27
Alignment explanation
Indices: 59384--59440 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
59374 ACCATATTTC
* **
59384 CCTACTCAATCTCCATACCCGTCATAT
1 CCTACTCAACCTCCATACCAATCATAT
59411 CCTACTCAACCTCCATACCTAAT-ATAT
1 CCTACTCAACCTCCATACC-AATCATAT
59438 CCT
1 CCT
59441 GCCACGACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.28, C:0.40, G:0.02, T:0.30
Consensus pattern (27 bp):
CCTACTCAACCTCCATACCAATCATAT
Found at i:59789 original size:75 final size:75
Alignment explanation
Indices: 59701--59851 Score: 203
Period size: 75 Copynumber: 2.0 Consensus size: 75
59691 TGACGTACAA
* ** * *
59701 AGTTGTTGATAGTAGCAATGTGAAATATGCAAAAATATTTGTTGATTGTAGTTATCGTGCAGATT
1 AGTTGTTGATAGTAGCAATGTGAAATATGCAAAAACATTTGTTGATTGTAAATATCATGCAAATT
59766 ATCTCGAATT
66 ATCTCGAATT
* * ***
59776 AGTTGTTGATAGTAGTACTGTGAAATATGTTGAAACATTTGTTGATTGTAAATATCATGCAAATT
1 AGTTGTTGATAGTAGCAATGTGAAATATGCAAAAACATTTGTTGATTGTAAATATCATGCAAATT
*
59841 ATCTCGGATT
66 ATCTCGAATT
59851 A
1 A
59852 TCGTTTCATC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (75 bp):
AGTTGTTGATAGTAGCAATGTGAAATATGCAAAAACATTTGTTGATTGTAAATATCATGCAAATT
ATCTCGAATT
Found at i:60649 original size:15 final size:16
Alignment explanation
Indices: 60611--60648 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
60601 TATTTAGATA
60611 ATTTTAAGTTTGAA-TT
1 ATTTTAAGTTT-AAGTT
*
60627 ATTTTTAGTTTAAGTT
1 ATTTTAAGTTTAAGTT
60643 ATTTTA
1 ATTTTA
60649 GATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (16 bp):
ATTTTAAGTTTAAGTT
Found at i:61250 original size:19 final size:17
Alignment explanation
Indices: 61228--61276 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
61218 AAATATATTT
61228 TTTAAAATTATTTACTACA
1 TTTAAAATTATTTA--ACA
*
61247 TTTAATATTTATTTAACA
1 TTTAA-AATTATTTAACA
61265 -TTAAAATTATTT
1 TTTAAAATTATTT
61277 TATGAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.26
17 4 0.15
18 3 0.11
19 5 0.19
20 8 0.30
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAAATTATTTAACA
Found at i:61859 original size:23 final size:24
Alignment explanation
Indices: 61806--61861 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
61796 AATTTTTGGA
61806 GCTTATATTTTATAGAAATTGAAAT
1 GCTTATATTTTATAGAAATTG-AAT
**
61831 GCTTATATTTTATAGTCATTG-AT
1 GCTTATATTTTATAGAAATTGAAT
61854 GCTTATAT
1 GCTTATAT
61862 GTAAGAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 10 0.34
25 19 0.66
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.48
Consensus pattern (24 bp):
GCTTATATTTTATAGAAATTGAAT
Found at i:77090 original size:38 final size:39
Alignment explanation
Indices: 77048--77128 Score: 92
Period size: 41 Copynumber: 2.1 Consensus size: 39
77038 AATGAGTTTA
*
77048 AAGGGTTCA-AAATGAAACCATACCAGTCAATGAATGAG
1 AAGGGTTCAGAAATGAAACCATACCAGTCAACGAATGAG
* ** *
77086 AAGGGTTGATGGGGATGAAACCATACGAGTCAACGAATGAG
1 AAGGGTTCA--GAAATGAAACCATACCAGTCAACGAATGAG
77127 AA
1 AA
77129 TGATTGATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 8 0.23
41 27 0.77
ACGTcount: A:0.42, C:0.14, G:0.27, T:0.17
Consensus pattern (39 bp):
AAGGGTTCAGAAATGAAACCATACCAGTCAACGAATGAG
Found at i:77117 original size:41 final size:41
Alignment explanation
Indices: 77059--77242 Score: 167
Period size: 41 Copynumber: 4.5 Consensus size: 41
77049 AGGGTTCAAA
* * * **
77059 ATGAAACCATACCAGTCAATGAATGAGAAGGGTTGATGGGG
1 ATGAAACCATACGAGTCAACGAATGAGAAGGATTGATTAGG
*
77100 ATGAAACCATACGAGTCAACGAATGAGAATGATTGATTAGG
1 ATGAAACCATACGAGTCAACGAATGAGAAGGATTGATTAGG
* * * * *
77141 AT-AATACCATACAAGTTAACAAACTTA-AAGGGGTTGATTAGG
1 ATGAA-ACCATACGAGTCAACGAA-TGAGAA-GGATTGATTAGG
* * * **
77183 -TGAAACCATATGAGTCAACGAATAAGAAAGATTGATCGGG
1 ATGAAACCATACGAGTCAACGAATGAGAAGGATTGATTAGG
*
77223 ATGAAACCATATGAGTCAAC
1 ATGAAACCATACGAGTCAAC
77243 AAGCTTAAAG
Statistics
Matches: 116, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
40 12 0.10
41 90 0.78
42 14 0.12
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (41 bp):
ATGAAACCATACGAGTCAACGAATGAGAAGGATTGATTAGG
Found at i:77187 original size:82 final size:81
Alignment explanation
Indices: 77059--77258 Score: 215
Period size: 82 Copynumber: 2.4 Consensus size: 81
77049 AGGGTTCAAA
* ** * **
77059 ATGAAACCATACCAGTCAATGAA-TGAGAAGGGTTGATGGGGATGAAACCATACGAGTCAACGAA
1 ATGAAACCATACAAGTCAACAAACTTA-AAGGGTTGATTAGG-TGAAACCATACGAGTCAACGAA
* * *
77123 TGAGAATGATTGATTAGG
64 TAAGAAAGATTGATCAGG
* *
77141 AT-AATACCATACAAGTTAACAAACTTAAAGGGGTTGATTAGGTGAAACCATATGAGTCAACGAA
1 ATGAA-ACCATACAAGTCAACAAACTTAAA-GGGTTGATTAGGTGAAACCATACGAGTCAACGAA
*
77205 TAAGAAAGATTGATCGGG
64 TAAGAAAGATTGATCAGG
** *
77223 ATGAAACCATATGAGTCAACAAGCTTAAAGGGTTGA
1 ATGAAACCATACAAGTCAACAAACTTAAAGGGTTGA
77259 CTGGGATGAA
Statistics
Matches: 98, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
81 9 0.09
82 75 0.77
83 14 0.14
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.22
Consensus pattern (81 bp):
ATGAAACCATACAAGTCAACAAACTTAAAGGGTTGATTAGGTGAAACCATACGAGTCAACGAATA
AGAAAGATTGATCAGG
Found at i:77265 original size:41 final size:39
Alignment explanation
Indices: 77086--77270 Score: 117
Period size: 41 Copynumber: 4.5 Consensus size: 39
77076 AATGAATGAG
* *
77086 AAGGGTTGATGGGGATGAAACCATACGAGTCAACGAA-TGA
1 AAGGGTTGAT-GGGATGAAACCATATGAGTCAAC-AACTTA
* * * ** *
77126 GAATGATTGATTAGGAT-AATACCATACAAGTTAACAAACTTA
1 -AAGGGTTGA-TGGGATGAA-ACCATATGAGTCAAC-AACTTA
* *
77168 AAGGGGTTGATTAGG-TGAAACCATATGAGTCAACGAA-TAA
1 AA-GGGTTGA-TGGGATGAAACCATATGAGTCAAC-AACTTA
* *
77208 GAAAGATTGATCGGGATGAAACCATATGAGTCAACAAGCTTA
1 -AAGGGTTGAT-GGGATGAAACCATATGAGTCAACAA-CTTA
77250 AAGGGTTGACTGGGATGAAAC
1 AAGGGTTGA-TGGGATGAAAC
77271 TATACAAGTT
Statistics
Matches: 113, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
39 1 0.01
40 13 0.12
41 81 0.72
42 18 0.16
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (39 bp):
AAGGGTTGATGGGATGAAACCATATGAGTCAACAACTTA
Found at i:77269 original size:82 final size:81
Alignment explanation
Indices: 77086--77275 Score: 222
Period size: 82 Copynumber: 2.3 Consensus size: 81
77076 AATGAATGAG
* * *
77086 AAGGGTTGATGGGGATGAAACCATACGAGTCAACGAATGAGAATGATTGATTAGGATAATACCAT
1 AAGGGTTGAT-GGGATGAAACCATACGAGTCAACGAATAAGAAAGATTGATCAGGATAATACCAT
*
77151 ACAAGTTAACAAACTTA
65 ACAAGTCAACAAACTTA
* * *
77168 AAGGGGTTGATTAGG-TGAAACCATATGAGTCAACGAATAAGAAAGATTGATCGGGATGAA-ACC
1 AA-GGGTTGA-TGGGATGAAACCATACGAGTCAACGAATAAGAAAGATTGATCAGGAT-AATACC
** *
77231 ATATGAGTCAACAAGCTTA
63 ATACAAGTCAACAAACTTA
*
77250 AAGGGTTGACTGGGATGAAACTATAC
1 AAGGGTTGA-TGGGATGAAACCATAC
77276 AAGTTAACAA
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
81 10 0.11
82 68 0.76
83 11 0.12
84 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (81 bp):
AAGGGTTGATGGGATGAAACCATACGAGTCAACGAATAAGAAAGATTGATCAGGATAATACCATA
CAAGTCAACAAACTTA
Found at i:77279 original size:123 final size:123
Alignment explanation
Indices: 77060--77285 Score: 278
Period size: 123 Copynumber: 1.8 Consensus size: 123
77050 GGGTTCAAAA
* * * * *
77060 TGAAACCATACCAGTCAATGAATGAGAAGGGTTGATGGGGATGAAACCATACGAGTCAACGAATG
1 TGAAACCATACCAGTCAACGAATAAGAAAGATTGATCGGGATGAAACCATACGAGTCAACGAATG
* *
77125 AGAATGATTGATTAGGATAATACCATACAAGTTAACAAACTTAAAGGGGTTGATTAGG
66 AGAAGGATTGACTAGGATAATACCATACAAGTTAACAAACTTAAAGGGGTTGATTAGG
** *
77183 TGAAACCATATGAGTCAACGAATAAGAAAGATTGATCGGGATGAAACCATATGAGTCAAC-AAGC
1 TGAAACCATACCAGTCAACGAATAAGAAAGATTGATCGGGATGAAACCATACGAGTCAACGAA--
* * * *
77247 TTA-AAGGGTTGACTGGGATGAA-ACTATACAAGTTAACAA
64 TGAGAAGGATTGACTAGGAT-AATACCATACAAGTTAACAA
77286 GTTTAAGGGG
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
122 2 0.02
123 80 0.93
124 4 0.05
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (123 bp):
TGAAACCATACCAGTCAACGAATAAGAAAGATTGATCGGGATGAAACCATACGAGTCAACGAATG
AGAAGGATTGACTAGGATAATACCATACAAGTTAACAAACTTAAAGGGGTTGATTAGG
Found at i:82993 original size:19 final size:20
Alignment explanation
Indices: 82965--83004 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
82955 GGAGACATTG
* *
82965 CTTCT-TTTTTTTATGAAAA
1 CTTCTATTTTATTATAAAAA
82984 CTTCTATTTTATTATAAAAA
1 CTTCTATTTTATTATAAAAA
83004 C
1 C
83005 ATAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.53
Consensus pattern (20 bp):
CTTCTATTTTATTATAAAAA
Found at i:83024 original size:3 final size:3
Alignment explanation
Indices: 83011--83089 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
83001 AAACATAAAA
*
83011 AAT AA- AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
83058 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
83090 AAGAAACTAT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 71 0.97
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:87705 original size:67 final size:67
Alignment explanation
Indices: 87587--87917 Score: 327
Period size: 67 Copynumber: 5.0 Consensus size: 67
87577 CTACGATAAG
* * * ** ** * *
87587 ACCTAAATCAAAAAGGG-GTTAACCTAGGTGAAATTAATAAAGTCAACTAAAAGAGACCAAGGTG
1 ACCTAAGTCAAAAAGGGTGTTGACCAAGGCAAAACCAATAAAGTCAACTAAAAGAGACTAAGGCG
*
87651 CA
66 AA
* * *
87653 ACCTAAGTCGAAAAAGGGTGTTGGCCAAGGCAAAACCCATAAAGTCAA-TAAAAAAAAGACTAA-
1 ACCTAAGTC-AAAAAGGGTGTTGACCAAGGCAAAACCAATAAAGTCAACT--AAAAGAGACTAAG
*
87716 GCAAA
63 GCGAA
* * * * *
87721 ACCTAAGTCAAAAAGAGTGTTGACCAAGGCAAAATCGATAAAGTCAACTGAAAGAGACTAGGGCG
1 ACCTAAGTCAAAAAGGGTGTTGACCAAGGCAAAACCAATAAAGTCAACTAAAAGAGACTAAGGCG
87786 AA
66 AA
* *
87788 ACCTAAGTCAAAAAGGGTGTTGACCAAGGCAAAACAAATAAA-TCAATTGAAAA-AGACTAAGGT
1 ACCTAAGTCAAAAAGGGTGTTGACCAAGGCAAAACCAATAAAGTCAACT-AAAAGAGACTAAGG-
87851 C-AA
64 CGAA
** *
87854 ACCTAAGTCGAAAAA-GGTGTTGA-TTAGAGCAAAACTAATAAAGTCAACTAAAAGAGACTAAGG
1 ACCTAAGTC-AAAAAGGGTGTTGACCAAG-GCAAAACCAATAAAGTCAACTAAAAGAGACTAAGG
87917 C
64 C
87918 AAAATGCATA
Statistics
Matches: 220, Mismatches: 33, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
65 2 0.01
66 67 0.30
67 108 0.49
68 33 0.15
69 10 0.05
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (67 bp):
ACCTAAGTCAAAAAGGGTGTTGACCAAGGCAAAACCAATAAAGTCAACTAAAAGAGACTAAGGCG
AA
Found at i:87897 original size:133 final size:134
Alignment explanation
Indices: 87621--87917 Score: 381
Period size: 133 Copynumber: 2.2 Consensus size: 134
87611 TAGGTGAAAT
* * * *
87621 TAATAAAGTCAACTAAAAGAGACCAAGGTGCAACCTAAGTCGAAAAAGGGTGTTGGCCAAGGCAA
1 TAATAAAGTCAACTAAAAGAGACTAAGGCGAAACCTAAGTCGAAAAAGGGTGTTGACCAAGGCAA
**
87686 AACCCATAAAGTCAATAAAAAAAAGACTAAGCAAAACCTAAGTCAAAAAGAGTGTTGACCAAGGC
66 AACAAATAAAGTCAATAAAAAAAAGACTAAGCAAAACCTAAGTCAAAAAGAGTGTTGACCAAGGC
87751 AAAA
131 AAAA
* * *
87755 TCGATAAAGTCAACTGAAAGAGACTAGGGCGAAACCTAAGTC-AAAAAGGGTGTTGACCAAGGCA
1 T-AATAAAGTCAACTAAAAGAGACTAAGGCGAAACCTAAGTCGAAAAAGGGTGTTGACCAAGGCA
** **
87819 AAACAAATAAA-TCAAT-TGAAAAAGACTAAGGTC-AAACCTAAGTCGAAAAAG-GTGTTGA-TT
65 AAACAAATAAAGTCAATAAAAAAAAGACTAA-G-CAAAACCTAAGTC-AAAAAGAGTGTTGACCA
87879 AGAGCAAAA
127 AG-GCAAAA
87888 CTAATAAAGTCAACTAAAAGAGACTAAGGC
1 -TAATAAAGTCAACTAAAAGAGACTAAGGC
87918 AAAATGCATA
Statistics
Matches: 141, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
132 13 0.09
133 55 0.39
134 39 0.28
135 34 0.24
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (134 bp):
TAATAAAGTCAACTAAAAGAGACTAAGGCGAAACCTAAGTCGAAAAAGGGTGTTGACCAAGGCAA
AACAAATAAAGTCAATAAAAAAAAGACTAAGCAAAACCTAAGTCAAAAAGAGTGTTGACCAAGGC
AAAA
Found at i:87920 original size:34 final size:34
Alignment explanation
Indices: 87882--87951 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
87872 GTTGATTAGA
*
87882 GCAAAACT-AATAAAGTCAACT-AAAAGAGACTAAG
1 GCAAAA-TGAATAAAGTCAACTGAAAA-AGACCAAG
*
87916 GCAAAATGCATAAAGTCAACTGAAAAAGACCAAG
1 GCAAAATGAATAAAGTCAACTGAAAAAGACCAAG
87950 GC
1 GC
87952 GGAACCTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 1 0.03
34 27 0.84
35 4 0.12
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.13
Consensus pattern (34 bp):
GCAAAATGAATAAAGTCAACTGAAAAAGACCAAG
Found at i:88013 original size:67 final size:67
Alignment explanation
Indices: 87925--88210 Score: 237
Period size: 67 Copynumber: 4.3 Consensus size: 67
87915 GGCAAAATGC
** *
87925 ATAAAGTCAACTGAAAA-AGACCAAGGCGGAACCTAATTTGGAAAGGGTGTTGACCAAGGTGAAA
1 ATAAAGTCAACT-AAAAGAGACCAAGGCAAAACCTAAGTTGGAAAGGGTGTTGACCAAGGTGAAA
87989 TTG
65 TTG
* * * ** * * * **
87992 ATAAAGTTAACTAAAAGAGACC-AGCGCAGAACCTATGTCAGAAAGAGTGTTGACTAGGGCAAAA
1 ATAAAGTCAACTAAAAGAGACCAAG-GCAAAACCTAAGTTGGAAAGGGTGTTGACCAAGGTGAAA
*
88056 CTG
65 TTG
* *
88059 ---AAGTCAACTAAAAGAGACTAAGGGCAAAACCTAAGTTGGATAA--GTGTTTACCAAGGTGAA
1 ATAAAGTCAACTAAAAGAGACCAA-GGCAAAACCTAAGTTGGA-AAGGGTGTTGACCAAGGTGAA
**
88119 ATCA
64 ATTG
** * * * *
88123 ATAAAGTCAACTAAAAGAGACCAAGGTGAAACGTAAGTTGAAAAAGGTGTTGACCAAGGT-AAAA
1 ATAAAGTCAACTAAAAGAGACCAAGGCAAAACCTAAGTTGGAAAGGGTGTTGACCAAGGTGAAAT
88187 TG
66 TG
* *
88189 AAAAAAGTCAACTAAAAAAGAC
1 -ATAAAGTCAACTAAAAGAGAC
88211 TAGTGTGGAA
Statistics
Matches: 171, Mismatches: 37, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
64 30 0.18
65 16 0.09
66 26 0.15
67 99 0.58
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (67 bp):
ATAAAGTCAACTAAAAGAGACCAAGGCAAAACCTAAGTTGGAAAGGGTGTTGACCAAGGTGAAAT
TG
Found at i:88227 original size:67 final size:66
Alignment explanation
Indices: 88059--88245 Score: 182
Period size: 67 Copynumber: 2.8 Consensus size: 66
88049 GGCAAAACTG
* * * * * *
88059 AAGTCAACTAAAAGAGACTAAGG-GCAAAACCTAAGTTGGATAA-GTGTTTACCAAGGTGAAATC
1 AAGTCAACTAAAAAAGACCAAGGTG--AAA-CTAAGTTGAAAAAGGTGTTGACCAAGGTAAAATC
*
88122 AATA
63 AAAA
* *
88126 AAGTCAACTAAAAGAGACCAAGGTGAAACGTAAGTTGAAAAAGGTGTTGACCAAGGTAAAATGAA
1 AAGTCAACTAAAAAAGACCAAGGTGAAAC-TAAGTTGAAAAAGGTGTTGACCAAGGTAAAATCAA
88191 AA
65 AA
* * **
88193 AAGTCAACTAAAAAAGA-CTAGTGTGGAATCTAAGTCAAAAAAGGTGTTGACCA
1 AAGTCAACTAAAAAAGACCAAG-GT-GAAACTAAGTTGAAAAAGGTGTTGACCA
88246 GGCGAAACCA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
65 1 0.01
66 16 0.16
67 81 0.79
68 5 0.05
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (66 bp):
AAGTCAACTAAAAAAGACCAAGGTGAAACTAAGTTGAAAAAGGTGTTGACCAAGGTAAAATCAAA
A
Found at i:88304 original size:40 final size:41
Alignment explanation
Indices: 88249--88342 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 41
88239 TTGACCAGGC
*
88249 GAAACCAATAAAGCCAACTA-AATAGAGG-GTTGGCCAAG-AT
1 GAAACCAATAAAGCCAAC-AGAATAGAGGAGTTGACC-AGTAT
* *
88289 GAAACCGATAAAGCCAACAGATTAGAGGAGTTGACCAGTAT
1 GAAACCAATAAAGCCAACAGAATAGAGGAGTTGACCAGTAT
88330 GAAACCAATAAAG
1 GAAACCAATAAAG
88343 TCAATAGGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 1 0.02
40 26 0.55
41 20 0.43
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (41 bp):
GAAACCAATAAAGCCAACAGAATAGAGGAGTTGACCAGTAT
Found at i:88363 original size:41 final size:40
Alignment explanation
Indices: 88238--88428 Score: 136
Period size: 41 Copynumber: 4.7 Consensus size: 40
88228 CAAAAAAGGT
* * *
88238 GTTGACCAGG-CGAAACCAATAAAGCCAACTAAAT-AGAGG
1 GTTGACCAGGATGAAACCAATAAAGTCAA-TAGATAAGAGG
* * * * * *
88277 GTTGGCCAAGATGAAACCGATAAAGCCAACAGATTAGAGG
1 GTTGACCAGGATGAAACCAATAAAGTCAATAGATAAGAGG
* *
88317 AGTTGACCAGTATGAAACCAATAAAGTCAATAGGTAAGAAGG
1 -GTTGACCAGGATGAAACCAATAAAGTCAATAGATAAG-AGG
* * ** * *
88359 GTTGATCGGGGCGAAACCGATAAAGTCAATAAGTTAA-AGGG
1 GTTGACCAGGATGAAACCAATAAAGTCAAT-AGATAAGA-GG
* * *
88400 GTTGACTAGGGTGAAATCAATAAAGTCAA
1 GTTGACCAGGATGAAACCAATAAAGTCAA
88429 CGAGTTAGAG
Statistics
Matches: 119, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
39 11 0.09
40 22 0.18
41 78 0.66
42 8 0.07
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (40 bp):
GTTGACCAGGATGAAACCAATAAAGTCAATAGATAAGAGG
Found at i:88443 original size:82 final size:82
Alignment explanation
Indices: 88289--88445 Score: 183
Period size: 82 Copynumber: 1.9 Consensus size: 82
88279 TGGCCAAGAT
* * * *
88289 GAAACCGATAAAGCCAACAGATTAGAGGAGTTGACCAGTATGAAACCAATAAAGTCAATAGGTAA
1 GAAACCGATAAAGCCAAAAGATTAAAGGAGTTGACCAGGATGAAACCAATAAAGTCAAGAGGTAA
88354 GAAGGGTTGATCGGGGC
66 GAAGGGTTGATCGGGGC
* * * * *
88371 GAAACCGATAAAGTCAATAAG-TTAAAGGGGTTGACTAGGGTGAAATCAATAAAGTCAACGA-GT
1 GAAACCGATAAAGCCAA-AAGATTAAAGGAGTTGACCAGGATGAAACCAATAAAGTCAA-GAGGT
* *
88434 TAGAGGGGTTGA
64 AAGAAGGGTTGA
88446 CCAAGGCAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
82 59 0.95
83 3 0.05
ACGTcount: A:0.40, C:0.12, G:0.29, T:0.19
Consensus pattern (82 bp):
GAAACCGATAAAGCCAAAAGATTAAAGGAGTTGACCAGGATGAAACCAATAAAGTCAAGAGGTAA
GAAGGGTTGATCGGGGC
Found at i:88463 original size:41 final size:39
Alignment explanation
Indices: 88378--88510 Score: 122
Period size: 41 Copynumber: 3.3 Consensus size: 39
88368 GGCGAAACCG
* * * * **
88378 ATAAAGTCAATAAGTTAAAGGGGTTGACTAGGGTGAAATCA
1 ATAAAGTCAA-CAGTTAGAGGGGTTGACAAAGGCAAAAT-A
*
88419 ATAAAGTCAACGAGTTAGAGGGGTTGACCAAGGCAAAACTA
1 ATAAAGTCAAC-AGTTAGAGGGGTTGACAAAGGCAAAA-TA
* * *
88460 ATAAAATCAACAGGTTAGAGGGGTTGACAAAGGTGAAAATG
1 ATAAAGTCAACA-GTTAGAGGGGTTGACAAAGG-CAAAATA
88501 ATAAAGTCAA
1 ATAAAGTCAA
88511 TGGACTTGAG
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
40 1 0.01
41 71 0.92
42 5 0.06
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.20
Consensus pattern (39 bp):
ATAAAGTCAACAGTTAGAGGGGTTGACAAAGGCAAAATA
Found at i:89214 original size:77 final size:76
Alignment explanation
Indices: 89122--89309 Score: 189
Period size: 76 Copynumber: 2.5 Consensus size: 76
89112 AGAAAATGAT
* * * * * ** * *
89122 TGAGAAATATGTGGTTTCCATAATTTTCCATCAATAGTGGAAACAAATTGATGACAAGTTAAAGA
1 TGAGGAATATATGGTTTCTA-AATTTTCCATCAACAGTCGAAACAAAAAGATAACAAGCTAAAGA
*
89187 AGAAGAACACAA
65 ACAAGAACACAA
* * * * *
89199 TGGGGAATATATGGTTTATAAAATTTT-TATCAACAGTCGAAACAAAAAGATAACAAGCTGAAGG
1 TGAGGAATATATGGTTTCT-AAATTTTCCATCAACAGTCGAAACAAAAAGATAACAAGCTAAAGA
**
89263 ACAAGAACATGA
65 ACAAGAACACAA
*
89275 TGAGGAATATATGGTTTCTAAAATTTCCATCAACA
1 TGAGGAATATATGGTTTCTAAATTTTCCATCAACA
89310 ACCAAAACAA
Statistics
Matches: 88, Mismatches: 21, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
75 6 0.07
76 61 0.69
77 20 0.23
78 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.27
Consensus pattern (76 bp):
TGAGGAATATATGGTTTCTAAATTTTCCATCAACAGTCGAAACAAAAAGATAACAAGCTAAAGAA
CAAGAACACAA
Found at i:89255 original size:76 final size:76
Alignment explanation
Indices: 89162--89639 Score: 363
Period size: 76 Copynumber: 6.2 Consensus size: 76
89152 TCAATAGTGG
* ** *
89162 AAACAAATTGATGACAAGTTAAAGAAGAAGAACACAATGGGGAATATATGGTTTATAAAATTTTT
1 AAACAAATTGATAACAAGTTAAAGAAGAAGAACATGATGGGGAATATATGGTTTCTAAAATTTTT
*
89227 ATCAACAGTCG
66 ATCAACAGTCA
** * * * * * **
89238 AAACAAAAAGATAACAAGCTGAAGGACAAGAACATGATGAGGAATATATGGTTTCTAAAATTTCC
1 AAACAAATTGATAACAAGTTAAAGAAGAAGAACATGATGGGGAATATATGGTTTCTAAAATTTTT
**
89303 ATCAACAACCA
66 ATCAACAGTCA
* * * * * * *
89314 AAACAAACTGATAAC-GGCCTAAAAAAGAAGGAACATGATGTGGAATATATTGCTTCTAAAATTT
1 AAACAAATTGATAACAAG-TTAAAGAAGAA-GAACATGATGGGGAATATATGGTTTCTAAAATTT
* *
89378 TTATCAATAGCCA
64 TTATCAACAGTCA
* * * * * * *
89391 AAACAAATTGATAATTAA-TTGAAGGAA-AAAAACATGATAGGGAATATGTTGCTTCTAAAATTT
1 AAACAAATTGATAA-CAAGTT-AAAGAAGAAGAACATGATGGGGAATATATGGTTTCTAAAATTT
89454 TTATCAACAGTCA
64 TTATCAACAGTCA
* *** * * * *
89467 AAACAAACTGATAATTGGCTGAAAGAA-AGGAACATGATGGGAAATATATGGTTTTCAAAAATTT
1 AAACAAATTGATAACAAG-TTAAAGAAGAAGAACATGATGGGGAATATATGG-TTTCTAAAATTT
*
89531 TTATCAACAATC-
64 TTATCAACAGTCA
* ** * * * **
89543 AAACAAATTGATAACAACTTGGAGAAGAAAGAACATGATAGAGAATATGTTATTTCTAAAATTTC
1 AAACAAATTGATAACAAGTTAAAGAAG-AAGAACATGATGGGGAATATATGGTTTCTAAAATTT-
* * *
89608 TCATCATCAGCCA
64 TTATCAACAGTCA
**
89621 AAACAAGCTGATAACAAGT
1 AAACAAATTGATAACAAGT
89640 GATGATATTT
Statistics
Matches: 311, Mismatches: 79, Indels: 22
0.75 0.19 0.05
Matches are distributed among these distances:
75 7 0.02
76 181 0.58
77 103 0.33
78 20 0.06
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (76 bp):
AAACAAATTGATAACAAGTTAAAGAAGAAGAACATGATGGGGAATATATGGTTTCTAAAATTTTT
ATCAACAGTCA
Found at i:89414 original size:153 final size:147
Alignment explanation
Indices: 89201--89635 Score: 469
Period size: 153 Copynumber: 2.9 Consensus size: 147
89191 GAACACAATG
* **
89201 GGGAATATATGGTTTATAAAATTTTTATCAACAGTCGAAACAAAAAGATAACAAGC-TGAAGGAC
1 GGGAATATATGGTTTCTAAAATTTTTATCAACAGTC-AAACAAATTGATAACAA-CTTGAAGGA-
* * *
89265 AAGAACATGATGAGGAATATATGGTTTCTAAAATTTCCATCAACAACCAAAACAAACTGATAACG
63 AAGAACATGAT-AGGAATATGTTGTTTCTAAAATTTCCATCAACAGCCAAAACAAACTGATAACG
89330 GCCTAAAAAAGAAGGAACATGAT
127 G-CTAAAAAA-AAGGAACATGAT
* * * * *
89353 GTGGAATATATTGCTTCTAAAATTTTTATCAATAGCCAAAACAAATTGATAATTAA-TTGAAGGA
1 G-GGAATATATGGTTTCTAAAATTTTTATCAACAGTC-AAACAAATTGATAA-CAACTTGAAGG-
* * ** *
89417 AAAAAACATGATAGGGAATATGTTGCTTCTAAAATTTTTATCAACAGTCAAAACAAACTGATAAT
62 AAAGAACATGATA-GGAATATGTTGTTTCTAAAATTTCCATCAACAGCCAAAACAAACTGATAA-
* * *
89482 TGGCTGAAAGAAAGGAACATGAT
125 CGGCTAAAAAAAAGGAACATGAT
* * *
89505 GGGAAATATATGGTTTTCAAAAATTTTTATCAACAATCAAACAAATTGATAACAACTTGGAGAAG
1 GGG-AATATATGG-TTTCTAAAATTTTTATCAACAGTCAAACAAATTGATAACAACTT-GA-AGG
* * *
89570 AAAGAACATGATAGAGAATATGTTATTTCTAAAATTTCTCATCATCAGCCAAAACAAGCTGATAA
62 AAAGAACATGATAG-GAATATGTTGTTTCTAAAATTTC-CATCAACAGCCAAAACAAACTGATAA
89635 C
125 C
89636 AAGTGATGAT
Statistics
Matches: 233, Mismatches: 37, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
151 4 0.02
152 40 0.17
153 160 0.69
154 29 0.12
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.27
Consensus pattern (147 bp):
GGGAATATATGGTTTCTAAAATTTTTATCAACAGTCAAACAAATTGATAACAACTTGAAGGAAAG
AACATGATAGGAATATGTTGTTTCTAAAATTTCCATCAACAGCCAAAACAAACTGATAACGGCTA
AAAAAAAGGAACATGAT
Found at i:90242 original size:60 final size:60
Alignment explanation
Indices: 89826--90442 Score: 323
Period size: 60 Copynumber: 10.3 Consensus size: 60
89816 TCTAACATTG
* * * * *
89826 ACTTGGGGCAAAACCAAAAATCAATAAAATGACCT-GA-ACGAAACTAGAAACCTAAATAATG
1 ACTT-GGGTAAAACCAAGATTCAACAAAATGACCTAGATA--AAACTAGAAACCTAAATAATA
** * * * * *
89887 ACTTAAGCAAAACCAAAACTCAACAAAATGACCTAGATGAAACTAGAAACCTAAACAATA
1 ACTTGGGTAAAACCAAGATTCAACAAAATGACCTAGATAAAACTAGAAACCTAAATAATA
* ** * * **
89947 ACTTGGGCAAAACCAAGATTCAATGAAATGATCTAGATAAAATTAGAAACCTAAGCAA-A
1 ACTTGGGTAAAACCAAGATTCAACAAAATGACCTAGATAAAACTAGAAACCTAAATAATA
* * * * * *
90006 GA-TTCGAGTGAAACCAAGATTTAACAAAAT-AGCCTAGATAAAACTAGAACCCTAAAAAATG
1 -ACTT-GGGTAAAACCAAGATTCAACAAAATGA-CCTAGATAAAACTAGAAACCTAAATAATA
** ** * * * *
90067 ACTTAAGTAAAATAAAGAGTAAAAAAAAT--CGCTAGATAAGAA-TAGAAACCTAAATAATG
1 ACTTGGGTAAAACCAAGATTCAACAAAATGAC-CTAGATAA-AACTAGAAACCTAAATAATA
* *
90126 ACTTGGGTAAAACCAAGACTCAA-ATAAAT-AGCCT-GCATGAAACTA-AAACCCTAAATAATA
1 ACTTGGGTAAAACCAAGATTCAACA-AAATGA-CCTAG-ATAAAACTAGAAA-CCTAAATAATA
* * * * *
90186 ATTTGGGTGAAACCAAGATTCAACGAAATGATCTAGATAAAA-TCAGAAACCAAAATAA-A
1 ACTTGGGTAAAACCAAGATTCAACAAAATGACCTAGATAAAACT-AGAAACCTAAATAATA
* * * * * * * *
90245 GATTTGGGTGAAATCAAGATTCAACAAAATGGCCTGGATAAGACTAGAACCCTAAACAATA
1 -ACTTGGGTAAAACCAAGATTCAACAAAATGACCTAGATAAAACTAGAAACCTAAATAATA
** * * * ** * * ** *
90306 ACTTGGAAAAAATCAAGACTCAA-AGAAAT-AGCCTAGACAAGGCCAGAAAACTAAACGATG
1 ACTTGGGTAAAACCAAGATTCAACA-AAATGA-CCTAGATAAAACTAGAAACCTAAATAATA
* * * * * * * * * * *
90366 ACTTTGGTGAAACTAAGACTCAA-AAAATGACCCAGGTGAAACCAAAAATCTAAATAATG
1 ACTTGGGTAAAACCAAGATTCAACAAAATGACCTAGATAAAACTAGAAACCTAAATAATA
*
90425 ATTTGGGTAAAACCAAGA
1 ACTTGGGTAAAACCAAGA
90443 CTTGAAAAAA
Statistics
Matches: 434, Mismatches: 96, Indels: 54
0.74 0.16 0.09
Matches are distributed among these distances:
58 2 0.00
59 94 0.22
60 322 0.74
61 16 0.04
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (60 bp):
ACTTGGGTAAAACCAAGATTCAACAAAATGACCTAGATAAAACTAGAAACCTAAATAATA
Found at i:90354 original size:120 final size:120
Alignment explanation
Indices: 89896--90334 Score: 410
Period size: 120 Copynumber: 3.7 Consensus size: 120
89886 GACTTAAGCA
* * * **
89896 AAACCAAAACTCAACAAAAT-GACCTAGATGAAACTAGAAACCTAAACAATAACTTGGGCAAAAC
1 AAACCAAGATTCAACAAAATAG-CCTAGATGAAACTAGAACCCTAAACAATAACTTGGAAAAAAC
* * ** * *
89960 CAAGATTCAATGAAATGATCTAGATAAAATTAGAAACCTAAGCAAAGATTCGAGTG
65 CAAGATTCAAAGAAATGATCTAGATAAAATCAGAAACCTAAATAAAGATTTGGGTG
* * * *
90016 AAACCAAGATTTAACAAAATAGCCTAGATAAAACTAGAACCCTAAAAAATGACTT--AAGTAAAA
1 AAACCAAGATTCAACAAAATAGCCTAGATGAAACTAGAACCCTAAACAATAACTTGGAA--AAAA
** * * * * * *
90079 TAAAGAGTAAAAAAAATCG--CTAGATAAGAAT-AGAAACCTAAATAATGACTTGGGTA
64 CCAAGATTCAAAGAAAT-GATCTAGATAA-AATCAGAAACCTAAATAAAGATTTGGGTG
* * * * ***
90135 AAACCAAGACTCAA-ATAAATAGCCT-GCATGAAACTAAAACCCTAAATAATAATTTGGGTGAAA
1 AAACCAAGATTCAACA-AAATAGCCTAG-ATGAAACTAGAACCCTAAACAATAACTTGGAAAAAA
* *
90198 CCAAGATTCAACGAAATGATCTAGATAAAATCAGAAACCAAAATAAAGATTTGGGTG
64 CCAAGATTCAAAGAAATGATCTAGATAAAATCAGAAACCTAAATAAAGATTTGGGTG
* * * *
90255 AAATCAAGATTCAACAAAATGGCCTGGAT-AAGACTAGAACCCTAAACAATAACTTGGAAAAAAT
1 AAACCAAGATTCAACAAAATAGCCTAGATGAA-ACTAGAACCCTAAACAATAACTTGGAAAAAAC
*
90319 CAAGACTCAAAGAAAT
65 CAAGATTCAAAGAAAT
90335 AGCCTAGACA
Statistics
Matches: 250, Mismatches: 54, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
118 3 0.01
119 89 0.36
120 154 0.62
121 4 0.02
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (120 bp):
AAACCAAGATTCAACAAAATAGCCTAGATGAAACTAGAACCCTAAACAATAACTTGGAAAAAACC
AAGATTCAAAGAAATGATCTAGATAAAATCAGAAACCTAAATAAAGATTTGGGTG
Found at i:90421 original size:239 final size:237
Alignment explanation
Indices: 89871--90442 Score: 635
Period size: 239 Copynumber: 2.4 Consensus size: 237
89861 GAACGAAACT
* * ** * * * *
89871 AGAAACCTAAATAATGACTTAAGCAAAACCAAAACTCAACAAAATGACCTAGATGAAACTAGAAA
1 AGAAAACTAAACAATGACTTGGGTAAAACCAAGACTCAA-AAAATGACCCAGATGAAACTAAAAA
* * * * * *
89936 CCTAAACAATAACTTGGGCAAAACCAAGATTCAATGAAATGATCTAGATAAAATTAGAAACCTAA
65 CCTAAATAATAATTTGGGTAAAACCAAGATTCAACGAAATGATCTAGATAAAATCAGAAACCAAA
* *
90001 GCAAAGATTCGAGTGAAACCAAGATTTAACAAAATAGCCTAGATAAAACTAGAACCCTAAAAAAT
130 ACAAAGATTCGAGTGAAACCAAGATTCAACAAAATAGCCTAGATAAAACTAGAACCCTAAAAAAT
* * * * *
90066 GACTTAAGTAAAATAAAGAGTAAAAAAAATCGCTAGATAAGAAT
195 AACTTAAG-AAAATAAAGACTAAAAAAAATAGCTAGACAAGAAC
* * * *
90110 AGAAACCTAAATAATGACTTGGGTAAAACCAAGACTCAAATAAAT-AGCCTGCATGAAACTAAAA
1 AGAAAACTAAACAATGACTTGGGTAAAACCAAGACTCAAA-AAATGACCCAG-ATGAAACTAAAA
* *
90174 CCCTAAATAATAATTTGGGTGAAACCAAGATTCAACGAAATGATCTAGATAAAATCAGAAACCAA
64 ACCTAAATAATAATTTGGGTAAAACCAAGATTCAACGAAATGATCTAGATAAAATCAGAAACCAA
* * * * * * * *
90239 AATAAAGATTTGGGTGAAATCAAGATTCAACAAAATGGCCTGGATAAGACTAGAACCCTAAACAA
129 AACAAAGATTCGAGTGAAACCAAGATTCAACAAAATAGCCTAGATAAAACTAGAACCCTAAAAAA
* * * **
90304 TAACTTGGAA-AAAATCAAGACTCAAAGAAATAGCCTAGACAAGGCC
194 TAACTT--AAGAAAATAAAGACTAAAAAAAATAG-CTAGACAAGAAC
* * * * * * *
90350 AGAAAACTAAACGATGACTTTGGTGAAACTAAGACTCAAAAAATGACCCAGGTGAAACCAAAAAT
1 AGAAAACTAAACAATGACTTGGGTAAAACCAAGACTCAAAAAATGACCCAGATGAAACTAAAAAC
*
90415 CTAAATAATGATTTGGGTAAAACCAAGA
66 CTAAATAATAATTTGGGTAAAACCAAGA
90443 CTTGAAAAAA
Statistics
Matches: 277, Mismatches: 50, Indels: 12
0.82 0.15 0.04
Matches are distributed among these distances:
238 4 0.01
239 225 0.81
240 46 0.17
241 2 0.01
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (237 bp):
AGAAAACTAAACAATGACTTGGGTAAAACCAAGACTCAAAAAATGACCCAGATGAAACTAAAAAC
CTAAATAATAATTTGGGTAAAACCAAGATTCAACGAAATGATCTAGATAAAATCAGAAACCAAAA
CAAAGATTCGAGTGAAACCAAGATTCAACAAAATAGCCTAGATAAAACTAGAACCCTAAAAAATA
ACTTAAGAAAATAAAGACTAAAAAAAATAGCTAGACAAGAAC
Found at i:90993 original size:88 final size:85
Alignment explanation
Indices: 90896--91178 Score: 271
Period size: 88 Copynumber: 3.2 Consensus size: 85
90886 GGAACAAGGT
*
90896 AAATGCCAATGTCATCTAATGATGCAGATGCAATTGAAATGATGTAAATGCAAGATCAATAAAGT
1 AAATACCAATGTCATCTAA-GATG-AGATGCAA-TGAAATGATGTAAATGCAAGATCAATAAAGT
*
90961 GACAAATGCATATGAAATGTTGC
63 GGCAAATGCATATGAAATGTTGC
* * * * * * * * * **
90984 AAATACCAATTTTATTTAAAATATAGGTACACATGAAACGATGCAAATGCAAGCGCTAATAAAGT
1 AAATACCAATGTCATCTAAGAT-GAGATGCA-ATGAAATGATGTAAATGCAAGATC-AATAAAGT
91049 GGCAAATGCATATGAAATGTTGC
63 GGCAAATGCATATGAAATGTTGC
* * * * **
91072 AAATACTAATGTCATCTAAAGTATAGATATGC-ATGAAATAATATAGCTGCAAGCATCAATAAAG
1 AAATACCAATGTCATCT-AAG-AT-GAGATGCAATGAAATGATGTAAATGCAAG-ATCAATAAAG
* *
91136 TGGCAGATGCATATGAAATGATGC
62 TGGCAAATGCATATGAAATGTTGC
*
91160 AAATACTAATGTCATCTAA
1 AAATACCAATGTCATCTAA
91179 AGTATAGATA
Statistics
Matches: 157, Mismatches: 32, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
87 28 0.18
88 120 0.76
89 3 0.02
90 6 0.04
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (85 bp):
AAATACCAATGTCATCTAAGATGAGATGCAATGAAATGATGTAAATGCAAGATCAATAAAGTGGC
AAATGCATATGAAATGTTGC
Found at i:91179 original size:88 final size:88
Alignment explanation
Indices: 90944--91232 Score: 366
Period size: 88 Copynumber: 3.3 Consensus size: 88
90934 ATGATGTAAA
* * * * * *
90944 TGCAAG-ATCAATAAAGTGACAAATGCATATGAAATGTTGCAAATACCAATTTTATTTAAAATAT
1 TGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGTTGCAAATACTAATGTCATCTAAAGTAT
* ** ** * **
91008 AGGTACACATGAAACGATGCAAA
66 AGATATGCATGAAATAATACAGC
*
91031 TGCAAGC-GCTAATAAAGTGGCAAATGCATATGAAATGTTGCAAATACTAATGTCATCTAAAGTA
1 TGCAAGCATC-AATAAAGTGGCAAATGCATATGAAATGTTGCAAATACTAATGTCATCTAAAGTA
*
91095 TAGATATGCATGAAATAATATAGC
65 TAGATATGCATGAAATAATACAGC
* *
91119 TGCAAGCATCAATAAAGTGGCAGATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTAT
1 TGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGTTGCAAATACTAATGTCATCTAAAGTAT
*
91184 AGATATGCGTGAAATAATACAGC
66 AGATATGCATGAAATAATACAGC
* *
91207 TACAAGCATCAATAAAGTGGTAAATG
1 TGCAAGCATCAATAAAGTGGCAAATG
91233 TATTGTTAGG
Statistics
Matches: 175, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
87 7 0.04
88 167 0.95
89 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (88 bp):
TGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGTTGCAAATACTAATGTCATCTAAAGTAT
AGATATGCATGAAATAATACAGC
Found at i:91529 original size:20 final size:20
Alignment explanation
Indices: 91506--91560 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
91496 ACAATTCAAA
*
91506 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGTT-AAGAT
*
91526 GTATCGATACATGAATAAGAT
1 GTATCGATACATG-TTAAGAT
91547 GTATCGATACATGT
1 GTATCGATACATGT
91561 CATTGGGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTAAGAT
Found at i:91626 original size:13 final size:13
Alignment explanation
Indices: 91608--91633 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91598 TACACAAAGT
91608 ATGTATCGATACA
1 ATGTATCGATACA
91621 ATGTATCGATACA
1 ATGTATCGATACA
91634 CAAAAACATT
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:91652 original size:34 final size:32
Alignment explanation
Indices: 91590--91654 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
91580 TAGCCAAACT
**
91590 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAACATGTATCGATACAA
91622 TGTATCGATACACAAAAACATTGTATCGATACA
1 TGTATCGATACAC-AAAACA-TGTATCGATACA
91655 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAACATGTATCGATACAA
Found at i:95721 original size:15 final size:15
Alignment explanation
Indices: 95701--95739 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
95691 TAAAAATGTC
*
95701 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
95716 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
95731 CCAAATGAA
1 CAAAATGAA
95740 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:100305 original size:20 final size:20
Alignment explanation
Indices: 100282--100347 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
100272 ACAATTCAAA
100282 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
100302 GTATC-ATTACATGAAAAAGAT
1 GTATCGA-TACATGTTGCA-AT
100323 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
100343 GTATC
1 GTATC
100348 ATTACATGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 1 0.03
20 19 0.54
21 14 0.40
22 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:100326 original size:21 final size:21
Alignment explanation
Indices: 100300--100376 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
100290 ACATGTTGCA
100300 ATGTATC-ATTACATGAAAAAG
1 ATGTATCGA-TACATGAAAAAG
****
100321 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
100341 ATGTATC-ATTACATGAAAAAG
1 ATGTATCGA-TACATGAAAAAG
100362 ATGTATCGATACATG
1 ATGTATCGATACATG
100377 TCATTGGGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
19 1 0.02
20 14 0.32
21 27 0.61
22 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:100327 original size:41 final size:41
Alignment explanation
Indices: 100282--100377 Score: 192
Period size: 41 Copynumber: 2.3 Consensus size: 41
100272 ACAATTCAAA
100282 GTATCGATACATGTTGCAATGTATCATTACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCATTACATGAAAAAGAT
100323 GTATCGATACATGTTGCAATGTATCATTACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCATTACATGAAAAAGAT
100364 GTATCGATACATGT
1 GTATCGATACATGT
100378 CATTGGGATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCATTACATGAAAAAGAT
Found at i:100353 original size:20 final size:20
Alignment explanation
Indices: 100289--100355 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
100279 AAAGTATCGA
100289 TACATGTTGCAATGTATCAT
1 TACATGTTGCAATGTATCAT
****
100309 TACATGAAAAAGATGTATCGA-
1 TACATGTTGCA-ATGTATC-AT
100330 TACATGTTGCAATGTATCAT
1 TACATGTTGCAATGTATCAT
100350 TACATG
1 TACATG
100356 AAAAAGATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 1 0.03
20 20 0.56
21 14 0.39
22 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (20 bp):
TACATGTTGCAATGTATCAT
Found at i:100443 original size:13 final size:13
Alignment explanation
Indices: 100425--100450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100415 TACACAAAGT
100425 ATGTATCGATACA
1 ATGTATCGATACA
100438 ATGTATCGATACA
1 ATGTATCGATACA
100451 CAAAAACATT
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:100469 original size:34 final size:32
Alignment explanation
Indices: 100407--100471 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
100397 TAGCCGAACT
**
100407 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAACATGTATCGATACAA
100439 TGTATCGATACACAAAAACATTGTATCGATACA
1 TGTATCGATACAC-AAAACA-TGTATCGATACA
100472 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAACATGTATCGATACAA
Found at i:102179 original size:106 final size:105
Alignment explanation
Indices: 101932--102204 Score: 254
Period size: 106 Copynumber: 2.5 Consensus size: 105
101922 CCTAGGTATA
* * *
101932 AATGGATC-AGATCATA-TAAAATCTAAGTTTCTTTGAAAATCAAACAAATTTGATGCTTTTGGT
1 AATGGATCAAG-TCATACAAAAAT-TGAGTTTCTTTGAAAAT-AGACAAATTTGATG-TTTTGGT
* *
101995 TTAGATTTCAAAACTGATAGGATACAAGCCCCATTTTCCTTGGAACG
62 TAAAATTTCAAAAC--ATA-GATACAAGCCCCATTTTCCTTGGAACG
** * *
102042 AATGGATCTGGTCATATAAAAATTGAATTTCTTTGAAAATAGACAAATTTGATGTTGTTGGCTTA
1 AATGGATCAAGTCATACAAAAATTGAGTTTCTTTGAAAATAGACAAATTTGATGTT-TTGG-TTA
* *
102107 AAATTTTCAAAAC-T-GATACAA-TCCCATTTT-CTTAGGCACG
64 AAA-TTTCAAAACATAGATACAAGCCCCATTTTCCTT-GGAACG
* *
102147 AAGTGGATCAAGTCATACAAAACA-TGAGTTTCTTTGAAAATTGAACAAATTTAATGTT
1 AA-TGGATCAAGTCATACAAAA-ATTGAGTTTCTTTGAAAATAG-ACAAATTTGATGTT
102205 CTTTCAAGTC
Statistics
Matches: 139, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
104 3 0.02
105 15 0.11
106 40 0.29
107 14 0.10
108 3 0.02
109 17 0.12
110 32 0.23
111 15 0.11
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (105 bp):
AATGGATCAAGTCATACAAAAATTGAGTTTCTTTGAAAATAGACAAATTTGATGTTTTGGTTAAA
ATTTCAAAACATAGATACAAGCCCCATTTTCCTTGGAACG
Found at i:102484 original size:8 final size:8
Alignment explanation
Indices: 102473--102503 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
102463 ATTTTTCCTA
102473 TTTTTTCT
1 TTTTTTCT
102481 TTTTTTCT
1 TTTTTTCT
102489 TTCTTTTCT
1 TT-TTTTCT
102498 TTTTTT
1 TTTTTT
102504 GTTGCTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTCT
Found at i:104860 original size:718 final size:716
Alignment explanation
Indices: 103714--105147 Score: 2417
Period size: 718 Copynumber: 2.0 Consensus size: 716
103704 AGCTCATTTT
*
103714 CAACATTGATCATTAATATTTTTAAGACTCCTCATCGTCATGTTTAAAAAAATTTCACTTTTTGG
1 CAACATTGATCATTAATATTTTTAAGACTCCTCATCATCATGTTTAAAAAAATTTCACTTTTTGG
* *
103779 AAAGCATTTAATCTTATCAAAACATTAAAAATTCAAAATATACATATTTCAAAAAATTGATATCA
66 AAAGCATTTAATCTTATCAAAACATTAAAAATTCAAAATATACATATTTCAAAAAAATGACATCA
*
103844 ATCATGAGACAAAGGCTTTCAAAAAATGTATGTTGTGAATAAACGCATGTATGTATTCATATGTA
131 ATCAGGAGACAAAGGCTTTCAAAAAATGTATGTTGTGAATAAACGCATGTATGTATTCATATGTA
*
103909 CAAATAAGTGCAAAGATGAAATTAATGTAATGTGAAAGAAAAGTTATAACAAATAATACAAATAA
196 CAAATAAGTGCAAAGATGAAATTAATGTAATATGAAAGAAAAGTTATAACAAATAATACAAATAA
* * *
103974 ATATACACAAAAGCTTTACAAACAAAAGGTCTAGAGATAAGTGCCTCTAAAATGCATGTCTTGAA
261 ATACACACAAAAGCTCTACAAACAAAAGGCCTAGAGATAAGTGCCTCTAAAATGCATGTCTTGAA
104039 TGAATGCATATATATATATATATTCATGTATGCAAATGAATGAAAGAATGAAATTAATGCAATAT
326 TGAATGCATATATATATATATATTCATGTATGCAAATGAATGAAAGAATGAAATTAATGCAATAT
* *
104104 CAAAGAAAAGTTATAACAAGACAAATATATACAAAAGGGTTTATCATCAACGGATTGCCTAAAAA
391 CAAAGAAAAGTTATAACAAAACAAATATATAAAAAAGGGTTTATCATCAACGGATTGCCTAAAAA
* * *
104169 TGAAAATTAAAGCATTATGTTGCCTTAACGAAAAAAAATCAATTTTTATTATGTG-TAGCACGAT
456 TGAAAATTAAAGCATTACGGTGCCTTAAAGAAAAAAAATCAATTTTTATTATG-GCTAGCACGAT
*
104233 ATTCGTTCACTGTTGATGTATTTCATTGTGGTATAATAATATACAAAGAAAAGAAAAAATGAATT
520 ATTCGTTCACTGTTGATGTATTTCATTATGGTATAATAATATACAAAGAAAAGAAAAAATGAATT
104298 AGCACAGTAATACAATTAATATAGAAAAATAATGTTTGCCCTAGGAGAATCTTATAAGTCATTAC
585 AGCACAGTAATACAATTAATATAGAAAAATAATGTTTGCCCTAGGAGAATCTTATAAGTCATTAC
* * *
104363 GATGCCTATGGGGGCAAATAAATAGCTTTATTGTTGACGATGATGCTCGTTCATTTCATTTGATA
650 GATGCCTATAGGGGCAAATAAATAGCTTCATTGTTGACGATGATGCTCATTCATTTCATTTGATA
104428 CC
715 CC
* * *
104430 CAACATTGATCATTAATATTTTTAAGACTTCTCCTCATTATGTTTAAAAAAATTTCACTTTTTGG
1 CAACATTGATCATTAATATTTTTAAGACTCCTCATCATCATGTTTAAAAAAATTTCACTTTTTGG
* *
104495 AAAGCATTTAATCTTATCAAAACATTAAAAATTCAAAATATACATATTTCAAAAAAAATGACGTT
66 AAAGCATTTAATCTTATCAAAACATTAAAAATTCAAAATATACATATTTC-AAAAAAATGACATC
* *
104560 AATTC-GGAGACAAAGGCTTTCAAAAAATGTATGTTGTGAATAAATGCATGTATGTATTTATATG
130 AA-TCAGGAGACAAAGGCTTTCAAAAAATGTATGTTGTGAATAAACGCATGTATGTATTCATATG
*
104624 TACAAATAAGTGCAAAGTTGAAATTAATGTAATATGAAAGAAAAGTTATAACAAAATAATACAAA
194 TACAAATAAGTGCAAAGATGAAATTAATGTAATATGAAAGAAAAGTTATAAC-AAATAATACAAA
* * *
104689 TAAATACACACAAAAGGTCTATAAACAAAAGGCCTAGAGATAAGTGCCTCTAAAGTGCATGT-TA
258 TAAATACACACAAAAGCTCTACAAACAAAAGGCCTAGAGATAAGTGCCTCTAAAATGCATGTCT-
* *
104753 TGAATGAATGCATATATATATATATATTCATGTATGCAAATGAGTGAAAGAATGAAATTAATGTA
322 TGAATGAATGCATATATATATATATATTCATGTATGCAAATGAATGAAAGAATGAAATTAATGCA
* *
104818 CTA-CTAAAGAAAAGTTATAACAAAACAAATATATAAAAAAGGGTTTATCATCTACGGATTGCCT
387 ATATC-AAAGAAAAGTTATAACAAAACAAATATATAAAAAAGGGTTTATCATCAACGGATTGCCT
*
104882 AAAAATGAAAATTAAAGCATTACGGTGCCTTAAAGAAAAAAAATCAATTTTTATTATGGCTATCA
451 AAAAATGAAAATTAAAGCATTACGGTGCCTTAAAGAAAAAAAATCAATTTTTATTATGGCTAGCA
* *
104947 TGATATTCGTTCACTGTTGATGTATTTCATTATGGTATAATAATATACAAAGAAAAGGAAAAATG
516 CGATATTCGTTCACTGTTGATGTATTTCATTATGGTATAATAATATACAAAGAAAAGAAAAAATG
* * *
105012 AATTAGCACAGTAATATAATTAATATAGAAAAATAATGTTTGCCTTAGGAGAATCTTTTAAGTCA
581 AATTAGCACAGTAATACAATTAATATAGAAAAATAATGTTTGCCCTAGGAGAATCTTATAAGTCA
* * *
105077 TTACGATGCTTATAGGGGTAAATAAATAGCTTCATTGTTGACGATGATGTTCATTCATTTCATTT
646 TTACGATGCCTATAGGGGCAAATAAATAGCTTCATTGTTGACGATGATGCTCATTCATTTCATTT
105142 GATACC
711 GATACC
105148 TAAAAAAGAT
Statistics
Matches: 671, Mismatches: 41, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
716 111 0.17
717 121 0.18
718 439 0.65
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (716 bp):
CAACATTGATCATTAATATTTTTAAGACTCCTCATCATCATGTTTAAAAAAATTTCACTTTTTGG
AAAGCATTTAATCTTATCAAAACATTAAAAATTCAAAATATACATATTTCAAAAAAATGACATCA
ATCAGGAGACAAAGGCTTTCAAAAAATGTATGTTGTGAATAAACGCATGTATGTATTCATATGTA
CAAATAAGTGCAAAGATGAAATTAATGTAATATGAAAGAAAAGTTATAACAAATAATACAAATAA
ATACACACAAAAGCTCTACAAACAAAAGGCCTAGAGATAAGTGCCTCTAAAATGCATGTCTTGAA
TGAATGCATATATATATATATATTCATGTATGCAAATGAATGAAAGAATGAAATTAATGCAATAT
CAAAGAAAAGTTATAACAAAACAAATATATAAAAAAGGGTTTATCATCAACGGATTGCCTAAAAA
TGAAAATTAAAGCATTACGGTGCCTTAAAGAAAAAAAATCAATTTTTATTATGGCTAGCACGATA
TTCGTTCACTGTTGATGTATTTCATTATGGTATAATAATATACAAAGAAAAGAAAAAATGAATTA
GCACAGTAATACAATTAATATAGAAAAATAATGTTTGCCCTAGGAGAATCTTATAAGTCATTACG
ATGCCTATAGGGGCAAATAAATAGCTTCATTGTTGACGATGATGCTCATTCATTTCATTTGATAC
C
Found at i:105272 original size:82 final size:82
Alignment explanation
Indices: 105196--105374 Score: 340
Period size: 82 Copynumber: 2.2 Consensus size: 82
105186 ATCTTACTAC
*
105196 AAGTGATGATGTTCAGTCATCATCGTTTGATATTTAGATAAAAATTAAAGACATCTTCTGAATGA
1 AAGTGATGATGTTCAGTCATCAACGTTTGATATTTAGATAAAAATTAAAGACATCTTCTGAATGA
105261 AACAAAGATCTTATCAT
66 AACAAAGATCTTATCAT
*
105278 AAGTGATGATGTTCAGTCATCAACGTTTGATATTTAGATAAAAATTGAAGACATCTTCTGAATGA
1 AAGTGATGATGTTCAGTCATCAACGTTTGATATTTAGATAAAAATTAAAGACATCTTCTGAATGA
105343 AACAAAGATCTTATCAT
66 AACAAAGATCTTATCAT
105360 AAGTGATGATGTTCA
1 AAGTGATGATGTTCA
105375 TTTTTAGCCT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 95 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (82 bp):
AAGTGATGATGTTCAGTCATCAACGTTTGATATTTAGATAAAAATTAAAGACATCTTCTGAATGA
AACAAAGATCTTATCAT
Found at i:107511 original size:29 final size:29
Alignment explanation
Indices: 107455--107511 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
107445 CTAAGTTCCT
*
107455 AAACTTTTCAAAATTACATATTGACCCCA
1 AAACTTTTCAAAATTACACATTGACCCCA
* *
107484 AAACTTTTCAAAATTACACGTTGTCCCC
1 AAACTTTTCAAAATTACACATTGACCCC
107512 TAAATGGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (29 bp):
AAACTTTTCAAAATTACACATTGACCCCA
Found at i:109786 original size:18 final size:19
Alignment explanation
Indices: 109763--109805 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
109753 AAACCGAGAA
109763 AAATTTC-AAAAATAATTC
1 AAATTTCAAAAAATAATTC
109781 AAATTTCAAAAAATAATTC
1 AAATTTCAAAAAATAATTC
*
109800 TAATTT
1 AAATTT
109806 TAGGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTTCAAAAAATAATTC
Found at i:115141 original size:95 final size:96
Alignment explanation
Indices: 114958--115143 Score: 227
Period size: 95 Copynumber: 1.9 Consensus size: 96
114948 GTCTCCGACG
* *
114958 ATGATAATTTAAGCAAAATAAGATTCAAAGCTTGACAAGTTTTAAAAACGGGGTTGGAGTATCCC
1 ATGATAAATTAAGCAAAACAAGATTCAAA-CTTGACAAGTTTTAAAAACGGGGTTGGAGTATCCC
** *
115023 TTCGGAGGAATAGGATTGCAGTATCCTCGATA
65 TTCAAAAGAATAGGATTGCAGTATCCTCGATA
* * *
115055 ATGATAAATTAGGCAAAACAAGATTTAATA-TTGACAA-TTTTAAAAACGGGGTTGGAGTAT-TC
1 ATGATAAATTAAGCAAAACAAGATTCAA-ACTTGACAAGTTTTAAAAACGGGGTTGGAGTATCCC
*
115117 TCTCAAAAGAATGAGG-TTGTAGTATCC
65 T-TCAAAAGAAT-AGGATTGCAGTATCC
115144 CCAATGAAGG
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
94 2 0.03
95 40 0.52
96 10 0.13
97 24 0.31
98 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (96 bp):
ATGATAAATTAAGCAAAACAAGATTCAAACTTGACAAGTTTTAAAAACGGGGTTGGAGTATCCCT
TCAAAAGAATAGGATTGCAGTATCCTCGATA
Found at i:120299 original size:8 final size:7
Alignment explanation
Indices: 120292--120347 Score: 53
Period size: 8 Copynumber: 7.7 Consensus size: 7
120282 TTCCTTTTTA
120292 TTTCTTT
1 TTTCTTT
120299 ATTTCTTT
1 -TTTCTTT
120307 ATTTC-TT
1 -TTTCTTT
120314 TTT-TTT
1 TTTCTTT
120320 TTTCTTTT
1 TTTC-TTT
120328 TTTCTTT
1 TTTCTTT
*
120335 CTCTCTTT
1 -TTTCTTT
120343 TTTCT
1 TTTCT
120348 CTGTCTTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
6 8 0.19
7 9 0.21
8 25 0.60
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:120309 original size:16 final size:15
Alignment explanation
Indices: 120288--120347 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
120278 ATTTTTCCTT
120288 TTTATTTCTTTATTTC
1 TTTATTTCTTT-TTTC
120304 TTTATTTC-TTTTT-
1 TTTATTTCTTTTTTC
120317 TTT-TTTCTTTTTTTC
1 TTTATTTC-TTTTTTC
* *
120332 TTTCTCTCTTTTTTC
1 TTTATTTCTTTTTTC
120347 T
1 T
120348 CTGTCTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
12 4 0.10
13 3 0.08
14 8 0.21
15 13 0.33
16 11 0.28
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTATTTCTTTTTTC
Found at i:120323 original size:28 final size:28
Alignment explanation
Indices: 120286--120345 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
120276 TAATTTTTCC
*
120286 TTTTTATTTCTTTATTTCTTTATTTCTT
1 TTTTTATTTCTTTATTTCTTTATCTCTT
* * *
120314 TTTTTTTTTCTTTTTTTCTTTCTCTCTT
1 TTTTTATTTCTTTATTTCTTTATCTCTT
120342 TTTT
1 TTTT
120346 CTCTGTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (28 bp):
TTTTTATTTCTTTATTTCTTTATCTCTT
Found at i:120325 original size:12 final size:12
Alignment explanation
Indices: 120279--120336 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
120269 AGCTAGTTAA
*
120279 TTTTTCCTTTTT
1 TTTTTTCTTTTT
* *
120291 ATTTCTTTATTTCT
1 -TTT-TTTCTTTTT
*
120305 TTATTTCTTTTT
1 TTTTTTCTTTTT
120317 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
120329 TTCTTTCT
1 TTTTTTCT
120337 CTCTTTTTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
12 25 0.69
13 5 0.14
14 6 0.17
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:120696 original size:20 final size:21
Alignment explanation
Indices: 120667--120711 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
120657 AACTAGTTGG
*
120667 AAAAACAAATTA-AATCAAATC
1 AAAAACAAATTATAA-AAAATC
120688 AAAAA-AAATTATAAAAAATC
1 AAAAACAAATTATAAAAAATC
120708 AAAA
1 AAAA
120712 TGAAGTTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAAACAAATTATAAAAAATC
Found at i:123209 original size:14 final size:13
Alignment explanation
Indices: 123190--123238 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
123180 TTTGTTATGT
*
123190 AAAATTATACTACA
1 AAAATTA-ATTACA
*
123204 AAAATTAATTAGA
1 AAAATTAATTACA
*
123217 AAAATTAAATTATA
1 AAAATT-AATTACA
123231 AAAATTAA
1 AAAATTAA
123239 AAATTATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.39
14 19 0.61
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (13 bp):
AAAATTAATTACA
Found at i:123239 original size:14 final size:14
Alignment explanation
Indices: 123203--123239 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
123193 ATTATACTAC
123203 AAAAATT-AATTAG
1 AAAAATTAAATTAG
*
123216 AAAAATTAAATTAT
1 AAAAATTAAATTAG
123230 AAAAATTAAA
1 AAAAATTAAA
123240 AATTATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAAAATTAAATTAG
Found at i:125149 original size:149 final size:155
Alignment explanation
Indices: 124944--125313 Score: 457
Period size: 149 Copynumber: 2.4 Consensus size: 155
124934 ATATAAAAAA
*
124944 TTTTGAAATCTTTTAATATCCCTACT-GATACCCATAGGAATATAAAAGATTAAAAATGATTAAT
1 TTTTGAAATCTTTT-ATACCCCTA-TAGATACCCATAGGAATATAAAAGATTAAAAATGATTAAT
* *
125008 ATTTATTT-TATT-GAGGA-G-AGT-TAATTTAATTATTTCTA-AAAAAATCATTTCGTACTTTA
64 ATTTATTTAAATTAGAGGAGGTAGTATAATTTAATTATTTCTAGAAAAAATCATTTCGTACCTTA
* *
125067 ATGGATACTCGAAAAGATACGACAAGT
129 ATGGATACCCGAAAAGATACGAAAAGT
*
125094 TTTTGAAATCTTTTATACCCCTATAGATACCCATAGGAGTATAAAAGATTAAAAATGATTAATAT
1 TTTTGAAATCTTTTATACCCCTATAGATACCCATAGGAATATAAAAGATTAAAAATGATTAATAT
* * * *
125159 TTGTTTAAATTAACGAGGAGTGAATTTAGTATTATTTATTTATTTTTAGGGAAAAAATCATTTCG
66 TTATTTAAATT-A-GAGGAG-G----TAGTATAATTTAATTATTTCTA--GAAAAAATCATTTCG
*
125224 TGCCTTAATGGATACCCGAAAAGATACGAAAAGT
122 TACCTTAATGGATACCCGAAAAGATACGAAAAGT
* * *
125258 TTTTCGAAATCTTTTATACCCCTACAGATACCTATAGGAATATGAAAGATTAAAAA
1 TTTT-GAAATCTTTTATACCCCTATAGATACCCATAGGAATATAAAAGATTAAAAA
125314 ATAATAGATA
Statistics
Matches: 188, Mismatches: 15, Indels: 19
0.85 0.07 0.09
Matches are distributed among these distances:
148 1 0.01
149 52 0.28
150 17 0.09
153 5 0.03
155 1 0.01
160 3 0.02
161 14 0.07
164 48 0.26
165 47 0.25
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (155 bp):
TTTTGAAATCTTTTATACCCCTATAGATACCCATAGGAATATAAAAGATTAAAAATGATTAATAT
TTATTTAAATTAGAGGAGGTAGTATAATTTAATTATTTCTAGAAAAAATCATTTCGTACCTTAAT
GGATACCCGAAAAGATACGAAAAGT
Found at i:126140 original size:15 final size:14
Alignment explanation
Indices: 126120--126157 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
126110 TTCTACTTAT
126120 TTTCTCTATTTTTTC
1 TTTCTCT-TTTTTTC
126135 TTTCTCTTTTTTT-
1 TTTCTCTTTTTTTC
126148 TTCTCTCTTT
1 TT-TCTCTTT
126158 CTCAACTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 13 0.59
15 7 0.32
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTCTTTTTTTC
Found at i:128340 original size:42 final size:42
Alignment explanation
Indices: 128124--128724 Score: 194
Period size: 42 Copynumber: 14.3 Consensus size: 42
128114 ATGAAAAAAA
* * * * *
128124 ATGAAGAAGTCTCCCAGGTCTGAGCCAACGAGTAGACGAAAG
1 ATGAAGAAGTCTCCCTGGTCTGAGCCGACGGGCAGATGAAAG
* ** * **
128166 ATGAAGAAGTCT-CCTAAG-CTTGAGTTGACGGGCAAATGATTG
1 ATGAAGAAGTCTCCCT-GGTC-TGAGCCGACGGGCAGATGAAAG
* * * * * **
128208 ATGGAGAAGTTTCTC-GAGCCTGAGCCTACAAGCAGATGAAAG
1 ATGAAGAAGTCTCCCTG-GTCTGAGCCGACGGGCAGATGAAAG
* * * * ** **
128250 ATAAAGGAAGTCT-CCTGAGACTGAGTCGATAGGAAAGAAAAAAG
1 ATGAA-GAAGTCTCCCTG-GTCTGAGCCGA-CGGGCAGATGAAAG
* * *
128294 ATGAAGAAGTCTCCCTGGTTTGAGCTGACGGGCAGACGAAAG
1 ATGAAGAAGTCTCCCTGGTCTGAGCCGACGGGCAGATGAAAG
* * * * **
128336 ATGAAAAAGTCT-CCTAAGCCTGAGCCGACGGGTAGATGATTG
1 ATGAAGAAGTCTCCCT-GGTCTGAGCCGACGGGCAGATGAAAG
* ** * *
128378 ATGGAAG-AGTCTCCC-GGTCCTGAGCTGATAGGTA-A-AAATAG
1 AT-GAAGAAGTCTCCCTGGT-CTGAGCCGACGGGCAGATGAA-AG
* * * *
128419 ATAAAAAAGTCTCCC-GAGTCTGAGCCGACGGGCAAAAGAAAG
1 ATGAAGAAGTCTCCCTG-GTCTGAGCCGACGGGCAGATGAAAG
* * * * * * * **
128461 ATGAAAAAGTCT--CTGACGCCTAAGTCAATGGGCAGACGATCG
1 ATGAAGAAGTCTCCCTG--GTCTGAGCCGACGGGCAGATGAAAG
* * * * *
128503 ATGGAGGAGTCTCCCAGGCCTGTGCCGACGGGCAGATGAAAG
1 ATGAAGAAGTCTCCCTGGTCTGAGCCGACGGGCAGATGAAAG
* *
128545 ATGAAGAAGTCT-CCTAGATTTTGAGCCGACGGGCAGATGAAAG
1 ATGAAGAAGTCTCCCT-G-GTCTGAGCCGACGGGCAGATGAAAG
* * * * * **
128588 ATGAAGAAGTCT-CCTAGGCCTAAGTCGACGGACAGACGATTG
1 ATGAAGAAGTCTCCCT-GGTCTGAGCCGACGGGCAGATGAAAG
* * * * * * * *
128630 ATGGAGAAGTCTCTCTCGACTGAGCCGACTGGAAGA-CAATTG
1 ATGAAGAAGTCTCCCTGGTCTGAGCCGACGGGCAGATGAA-AG
* * * * *
128672 ATGAAAGAAGTCTCCCAGGACTGAGTCGATGGG-A-A-AAAAG
1 ATG-AAGAAGTCTCCCTGGTCTGAGCCGACGGGCAGATGAAAG
128712 ATGAAGAAGTCTC
1 ATGAAGAAGTCTC
128725 TCGGATCTGA
Statistics
Matches: 401, Mismatches: 131, Indels: 57
0.68 0.22 0.10
Matches are distributed among these distances:
39 10 0.02
40 8 0.02
41 38 0.09
42 227 0.57
43 101 0.25
44 17 0.04
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (42 bp):
ATGAAGAAGTCTCCCTGGTCTGAGCCGACGGGCAGATGAAAG
Found at i:128450 original size:125 final size:124
Alignment explanation
Indices: 128287--128642 Score: 369
Period size: 125 Copynumber: 2.8 Consensus size: 124
128277 GATAGGAAAG
* *
128287 AAAAAAGATGAAGAAGTCTCCCTG-GTTTGAGCTGACGGGCAGACGAAAGATGAAAAAGTCTCCT
1 AAAAAAGATGAAGAAGTCTCCC-GAGTTTGAGCCGACGGGCAGAAGAAAGATGAAAAAGTCTCCT
* * * * * * *
128351 AAGCCTGAGCCGACGGGTAGATGATTGATGGAAGAGTCTCCC-GGTCCTGAGCTGATAGGT
65 AAGCCTAAGTCGACGGGCAGACGATTGATGGAAGAGTCTCCCAGG-CCTGAGCCGACAGGC
* * * *
128411 AAAAATAGATAAAAAAGTCTCCCGAGTCTGAGCCGACGGGCAAAAGAAAGATGAAAAAGTCT-CT
1 AAAAA-AGATGAAGAAGTCTCCCGAGTTTGAGCCGACGGGCAGAAGAAAGATGAAAAAGTCTCCT
* * * * * * *
128475 GACGCCTAAGTCAATGGGCAGACGATCGATGGAGGAGTCTCCCAGGCCTGTGCCGACGGGC
65 -AAGCCTAAGTCGACGGGCAGACGATTGATGGAAGAGTCTCCCAGGCCTGAGCCGACAGGC
* * * * *
128536 AGATGAAAGATGAAGAAGTCTCCTAGATTTTGAGCCGACGGGCAGATGAAAGATGAAGAAGTCTC
1 A-A-AAAAGATGAAGAAGTCTCC-CGAGTTTGAGCCGACGGGCAGAAGAAAGATGAAAAAGTCTC
* *
128601 CTAGGCCTAAGTCGACGGACAGACGATTGATGG-AGAAGTCTC
63 CTAAGCCTAAGTCGACGGGCAGACGATTGATGGAAG-AGTCTC
128643 TCTCGACTGA
Statistics
Matches: 188, Mismatches: 35, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
124 8 0.04
125 92 0.49
126 18 0.10
127 68 0.36
128 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (124 bp):
AAAAAAGATGAAGAAGTCTCCCGAGTTTGAGCCGACGGGCAGAAGAAAGATGAAAAAGTCTCCTA
AGCCTAAGTCGACGGGCAGACGATTGATGGAAGAGTCTCCCAGGCCTGAGCCGACAGGC
Found at i:128459 original size:170 final size:170
Alignment explanation
Indices: 128116--128473 Score: 370
Period size: 170 Copynumber: 2.1 Consensus size: 170
128106 CTGAGCCAAT
* *
128116 GAAAAAAAATGAAGAAGTCTCCCAGGTCTGAGCCAACGAGTAGACGAAAGATGAAGAAGTCTCCT
1 GAAAAAAAATGAAGAAGTCTCCCAGGTCTGAGCCAACGAGCAGACGAAAGATGAAAAAGTCTCCT
* ** * * *
128181 AAGCTTGAGTTGACGGGCAAATGATTGATGGAGAAGTTTCTCGAGCCTGAGCCTACAAGCAGATG
66 AAGCCTGAGCCGACGGGCAAATGATTGATGGAGAAGTCTCCCGAGCCTGAGCCTACAAGCAGATA
* * * *
128246 AAAGATAAAGGAAGTCTCCTGAGACTGAGTCGATAGGAAA
131 AAAGATAAAGAAAGTCTCCCGAGACTGAGCCGACAGGAAA
* * * ** *
128286 GAAAAAAGATGAAGAAGTCTCCCTGGTTTGAGCTGACGGGCAGACGAAAGATGAAAAAGTCTCCT
1 GAAAAAAAATGAAGAAGTCTCCCAGGTCTGAGCCAACGAGCAGACGAAAGATGAAAAAGTCTCCT
* * * * *
128351 AAGCCTGAGCCGACGGGTAGATGATTGATGGA-AGAGTCTCCCG-GTCCTGAG-CTGATAGGTA-
66 AAGCCTGAGCCGACGGGCAAATGATTGATGGAGA-AGTCTCCCGAG-CCTGAGCCT-ACAAGCAG
* * *
128412 A-AAATAGATAAA-AAAGTCTCCCGAGTCTGAGCCGACGGGCAA
128 ATAAA-AGATAAAGAAAGTCTCCCGAGACTGAGCCGACAGGAAA
* * *
128454 -AAGAAAGATGAAAAAGTCTC
1 GAAAAAAAATGAAGAAGTCTC
128474 TGACGCCTAA
Statistics
Matches: 156, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
167 18 0.12
168 25 0.16
169 12 0.08
170 101 0.65
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.18
Consensus pattern (170 bp):
GAAAAAAAATGAAGAAGTCTCCCAGGTCTGAGCCAACGAGCAGACGAAAGATGAAAAAGTCTCCT
AAGCCTGAGCCGACGGGCAAATGATTGATGGAGAAGTCTCCCGAGCCTGAGCCTACAAGCAGATA
AAAGATAAAGAAAGTCTCCCGAGACTGAGCCGACAGGAAA
Found at i:128675 original size:127 final size:123
Alignment explanation
Indices: 128292--128686 Score: 361
Period size: 127 Copynumber: 3.1 Consensus size: 123
128282 GAAAGAAAAA
* *
128292 AGATGAAGAAGTCTCCCTG-GTTTGAGCTGACGGGCAGACGAAAGATGAAAAAGTCTCCTAAGCC
1 AGATGAAGAAGTCT-CCTGAGTTTGAGCCGACGGGCAGAAGAAAGATGAAAAAGTCTCCTAAGCC
* * * * *
128356 TGAGCCGACGGGTAGATGATTGATGGA-AGAGTCTCCCGGTCCTGAGCTGA-TAGGTAA-AAAT
65 TAAGTCGACGGGCAGACGATTGATGGAGA-AGTCTCCC-G-CCTGAGCCGACT-GG-AAGAAAT
* * * * * *
128417 AGATAAAAAAGTCTCCCGAGTCTGAGCCGACGGGCAAAAGAAAGATGAAAAAGTCT-CTGACGCC
1 AGATGAAGAAGTCTCCTGAGTTTGAGCCGACGGGCAGAAGAAAGATGAAAAAGTCTCCT-AAGCC
* * * * * * *
128481 TAAGTCAATGGGCAGACGATCGATGGAGGAGTCTCCCAGGCCTGTGCCGACGGGCAGATGAA-
65 TAAGTCGACGGGCAGACGATTGATGGAGAAGTCTCCC--GCCTGAGCCGACTGGAAGA--AAT
* * * *
128543 AGATGAAGAAGTCTCCTAGATTTTGAGCCGACGGGCAGATGAAAGATGAAGAAGTCTCCTAGGCC
1 AGATGAAGAAGTCTCCT-GAGTTTGAGCCGACGGGCAGAAGAAAGATGAAAAAGTCTCCTAAGCC
* *
128608 TAAGTCGACGGACAGACGATTGATGGAGAAGTCTCTCTCGACTGAGCCGACTGGAAGACAAT
65 TAAGTCGACGGGCAGACGATTGATGGAGAAGTCTC-C-CGCCTGAGCCGACTGGAAGA-AAT
*
128670 TGATGAAAGAAGTCTCC
1 AGATG-AAGAAGTCTCC
128687 CAGGACTGAG
Statistics
Matches: 216, Mismatches: 40, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
124 6 0.03
125 88 0.41
126 18 0.08
127 89 0.41
128 14 0.06
129 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.19
Consensus pattern (123 bp):
AGATGAAGAAGTCTCCTGAGTTTGAGCCGACGGGCAGAAGAAAGATGAAAAAGTCTCCTAAGCCT
AAGTCGACGGGCAGACGATTGATGGAGAAGTCTCCCGCCTGAGCCGACTGGAAGAAAT
Found at i:128694 original size:43 final size:42
Alignment explanation
Indices: 128510--128696 Score: 121
Period size: 43 Copynumber: 4.4 Consensus size: 42
128500 TCGATGGAGG
* * * * *
128510 AGTCTCCCAGGCCTGTGCCGACGGGCAGATGAA-AGATGAAGA
1 AGTCTCCCAGGACTGAGCCGACGGACAGA-CAATTGATGAAGA
* * * * *
128552 AGTCTCCTA-GATTTTGAGCCGACGGGCAGATGAA-AGATGAAGA
1 AGTCTCCCAGGA--CTGAGCCGACGGACAGA-CAATTGATGAAGA
* * * * * *
128595 AGTCTCCTAGGCCTAAGTCGACGGACAGACGATTGATGGAGA
1 AGTCTCCCAGGACTGAGCCGACGGACAGACAATTGATGAAGA
* **
128637 AGTCTCTCTCGACTGAGCCGACTGGA-AGACAATTGATGAAAGA
1 AGTCTCCCAGGACTGAGCCGAC-GGACAGACAATTGATG-AAGA
128680 AGTCTCCCAGGACTGAG
1 AGTCTCCCAGGACTGAG
128697 TCGATGGGAA
Statistics
Matches: 114, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.02
42 54 0.47
43 57 0.50
44 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (42 bp):
AGTCTCCCAGGACTGAGCCGACGGACAGACAATTGATGAAGA
Found at i:128772 original size:34 final size:34
Alignment explanation
Indices: 128708--128773 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
128698 CGATGGGAAA
* * **
128708 AAAGATGAAGAAGTCTCTCGGATCTGAGTTGACG
1 AAAGATGAAAAAGTCTCCCGGATCAAAGTTGACG
128742 AAAGATGAAAAAGTCTCCCAGG-TCAAAGTTGA
1 AAAGATGAAAAAGTCTCCC-GGATCAAAGTTGA
128774 TGGGCAGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 25 0.93
35 2 0.07
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (34 bp):
AAAGATGAAAAAGTCTCCCGGATCAAAGTTGACG
Found at i:128984 original size:209 final size:209
Alignment explanation
Indices: 128753--129187 Score: 536
Period size: 209 Copynumber: 2.1 Consensus size: 209
128743 AAGATGAAAA
* * * *
128753 AGTCTCCCAGGTCAAAGTTGATGGGCAGACAAAAAATGAAGAAGTCT-TTCAGGTTTGAGCCAAC
1 AGTCTCCCAGGTCAAAGTTGATGGGCAGACAAAAAATGAAAAAGTCTCCT-AGGTCTAAGCCAAC
* * *
128817 GAGCAGACAAAAGATGAAGAAGTCTACCGAGTTAGAATTGACGGGCAGAAAAAAGATGAAGAAGT
65 GAGCAGACAAAAGATGAAAAAGTCTACCGAGTCAGAATCGACGGGCAGAAAAAAGATGAAGAAGT
* *
128882 CTCTCGAA-TCAAAGCCGAC-GGCAGAAAAAAGGTAAA-AGAGTCTCCCAAGTTAAAGCCAATAG
130 -TCTCCAAGTCAAAGCCGACGGGCAGAAAAAAGGTAAAGA-AGTCTCCCAAGTCAAAG-CAATAG
128944 GCAGACGAAGGGTGAAGG
192 GCAGACGAAGGGTGAAGG
* *** ** *
128962 AGTCTCCCAGGTCAAAGTTGATGGGCAGACGAAGGGTGAAAAAGTCTCCTAGGTCTAAGCTGAGG
1 AGTCTCCCAGGTCAAAGTTGATGGGCAGACAAAAAATGAAAAAGTCTCCTAGGTCTAAGCCAACG
* * * * * * *
129027 GGTAGACAAAAGATGAAAAAGTCTCCCGGGTCAGAGTCGACGGGTAGACAAAAGATGAAGAAGTT
66 AGCAGACAAAAGATGAAAAAGTCTACCGAGTCAGAATCGACGGGCAGAAAAAAGATGAAGAAGTT
* * * * * *
129092 TTCCAAGTCAAAGCTGACGGGCAGACAAAAGGTAAAGAAGTTTCCCAAGTCAAAGCGATGGGCAG
131 CTCCAAGTCAAAGCCGACGGGCAGAAAAAAGGTAAAGAAGTCTCCCAAGTCAAAGCAATAGGCAG
129157 ACGAAGGGTGAAGG
196 ACGAAGGGTGAAGG
*
129171 AGTCTCCCAAGTCAAAG
1 AGTCTCCCAGGTCAAAG
129188 GCGACGGGCA
Statistics
Matches: 192, Mismatches: 30, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
208 5 0.03
209 154 0.80
210 32 0.17
211 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (209 bp):
AGTCTCCCAGGTCAAAGTTGATGGGCAGACAAAAAATGAAAAAGTCTCCTAGGTCTAAGCCAACG
AGCAGACAAAAGATGAAAAAGTCTACCGAGTCAGAATCGACGGGCAGAAAAAAGATGAAGAAGTT
CTCCAAGTCAAAGCCGACGGGCAGAAAAAAGGTAAAGAAGTCTCCCAAGTCAAAGCAATAGGCAG
ACGAAGGGTGAAGG
Found at i:129210 original size:42 final size:41
Alignment explanation
Indices: 128738--129215 Score: 242
Period size: 42 Copynumber: 11.4 Consensus size: 41
128728 GATCTGAGTT
* * * * *
128738 GACGAAAGATGAAAAAGTCTCCCAGGTCAAAGTTGATGGGCA
1 GACGAAAGGTGAAGAAGTCTCCCAAGTCAAAG-CGACGGGCA
* ** ** * *** * *
128780 GACAAAAAATGAAGAAGTCTTTCAGGTTTGAGCCAACGAGCA
1 GACGAAAGGTGAAGAAGTCTCCCAAGTCAAAG-CGACGGGCA
* * * * * **
128822 GACAAAAGATGAAGAAGTCTACCGAGTTAGAATTGACGGGCA
1 GACGAAAGGTGAAGAAGTCTCCCAAGTCA-AAGCGACGGGCA
** * *
128864 GAAAAAAGATGAAGAAGTCTCTCGAA-TCAAAGCCGAC-GGCA
1 GACGAAAGGTGAAGAAGTCTC-CCAAGTCAAAG-CGACGGGCA
** * * * **
128905 GAAAAAAGGT-AAAAGAGTCTCCCAAGTTAAAGCCAATAGGCA
1 GACGAAAGGTGAAGA-AGTCTCCCAAGTCAAAG-CGACGGGCA
* * * * *
128947 GACGAAGGGTGAAGGAGTCTCCCAGGTCAAAGTTGATGGGCA
1 GACGAAAGGTGAAGAAGTCTCCCAAGTCAAAG-CGACGGGCA
* * * * * * *
128989 GACGAAGGGTGAAAAAGTCTCCTAGGTCTAAGCTGAGGGGTA
1 GACGAAAGGTGAAGAAGTCTCCCAAGTCAAAGC-GACGGGCA
* * * ** * *
129031 GACAAAAGATGAAAAAGTCTCCCGGGTCAGAGTCGACGGGTA
1 GACGAAAGGTGAAGAAGTCTCCCAAGTCAAAG-CGACGGGCA
* * * *
129073 GACAAAAGATGAAGAAGTTTTCCAAGTCAAAGCTGACGGGCA
1 GACGAAAGGTGAAGAAGTCTCCCAAGTCAAAGC-GACGGGCA
* * * *
129115 GACAAAAGGTAAAGAAGTTTCCCAAGTCAAAGCGATGGGCA
1 GACGAAAGGTGAAGAAGTCTCCCAAGTCAAAGCGACGGGCA
* *
129156 GACGAAGGGTGAAGGAGTCTCCCAAGTCAAAGGCGACGGGCA
1 GACGAAAGGTGAAGAAGTCTCCCAAGTCAAA-GCGACGGGCA
* *
129198 AATGAAAGGTGAAGAAGT
1 GACGAAAGGTGAAGAAGT
129216 TTTTTGGGTC
Statistics
Matches: 341, Mismatches: 84, Indels: 22
0.76 0.19 0.05
Matches are distributed among these distances:
40 6 0.02
41 63 0.18
42 266 0.78
43 6 0.02
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.15
Consensus pattern (41 bp):
GACGAAAGGTGAAGAAGTCTCCCAAGTCAAAGCGACGGGCA
Found at i:129241 original size:209 final size:209
Alignment explanation
Indices: 128821--129401 Score: 526
Period size: 209 Copynumber: 2.8 Consensus size: 209
128811 GCCAACGAGC
* * * * * * *
128821 AGACAAAAGATGAAGAAGTCTACCGAGTTAGAATTGACGGGCAGAAAAAAGATGAAGAAGTCTCT
1 AGACAAAAGATGAAAAAGTCTACCGGGTCAGAGTCGACGGGTAGACAAAAGATGAAGAAGTCTCT
* *
128886 CGAATCAAAGCCGACGGCAGAAAAAAGGTAAAAGAGTCTCCCAAGTTAAAGCCAATAGGCAGACG
66 CCAATCAAAGCCGACGGCAGAAAAAAGGTAAAAGAGTCTCCCAAGTCAAAGCCAATAGGCAGACG
* ** * * *
128951 AAGGGTGAAGGAGTCTCCCAGGTCAAAGTTGATGGGCAGACGAAGGGTGAAAAAGTCTCCTAGGT
131 AAGGGTGAAGGAGTCTCCCAAGTCAAAGGCGACGGGCAAACGAAAGGTGAAAAAGTCTCCTAGGT
*
129016 CTAAGCTGAGGGGT
196 CAAAGCTGAGGGGT
* *
129030 AGACAAAAGATGAAAAAGTCTCCCGGGTCAGAGTCGACGGGTAGACAAAAGATGAAGAAGT-TTT
1 AGACAAAAGATGAAAAAGTCTACCGGGTCAGAGTCGACGGGTAGACAAAAGATGAAGAAGTCTCT
* * * * *
129094 CCAAGTCAAAGCTGACGGGCAGACAAAAGGT-AAAGAAGTTTCCCAAGTCAAAG-CGATGGGCAG
66 CCAA-TCAAAGCCGAC-GGCAGAAAAAAGGTAAAAG-AGTCTCCCAAGTCAAAGCCAATAGGCAG
* * * ** *
129157 ACGAAGGGTGAAGGAGTCTCCCAAGTCAAAGGCGACGGGCAAATGAAAGGTGAAGAAGTTTTTTG
128 ACGAAGGGTGAAGGAGTCTCCCAAGTCAAAGGCGACGGGCAAACGAAAGGTGAAAAAGTCTCCTA
*
129222 GGTCAAAG-TCGATGGGT
193 GGTCAAAGCT-GAGGGGT
** * * * * * ** * *
129239 AGACAAGGGATG-AAAAGTCTATCGGTTCAAAGCCGATGGGTAGACAAGGGGTGAAGAAGTATCT
1 AGACAAAAGATGAAAAAGTCTACCGGGTCAGAGTCGACGGGTAGACAAAAGATGAAGAAGTCTCT
*** *** * * * * * ** * *
129303 CGGGTCAAAGTTAACAGCTAGACAAAAGGTGAAAGAGCCTCCCGAGTCAAAGTTGACTA-GCAAA
66 CCAATCAAAGCCGACGGC-AGAAAAAAGGTAAAAGAGTCTCCCAAGTCAAAG-CCAATAGGCAGA
* * * *
129367 CAAAGGGTGAAAGAGTCTCCTAAGTCAAAGCCGAC
129 CGAAGGGTGAAGGAGTCTCCCAAGTCAAAGGCGAC
129402 AAGCAGACAA
Statistics
Matches: 303, Mismatches: 60, Indels: 18
0.80 0.16 0.05
Matches are distributed among these distances:
207 2 0.01
208 79 0.26
209 193 0.64
210 29 0.10
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.16
Consensus pattern (209 bp):
AGACAAAAGATGAAAAAGTCTACCGGGTCAGAGTCGACGGGTAGACAAAAGATGAAGAAGTCTCT
CCAATCAAAGCCGACGGCAGAAAAAAGGTAAAAGAGTCTCCCAAGTCAAAGCCAATAGGCAGACG
AAGGGTGAAGGAGTCTCCCAAGTCAAAGGCGACGGGCAAACGAAAGGTGAAAAAGTCTCCTAGGT
CAAAGCTGAGGGGT
Found at i:129258 original size:83 final size:84
Alignment explanation
Indices: 128966--129258 Score: 247
Period size: 84 Copynumber: 3.5 Consensus size: 84
128956 TGAAGGAGTC
* * * * * * * * *
128966 TCCCAGGTCAAAGTTGATGGGCAGACGAAGGG-TGAAAAAGTCTCCTAGGTCTAAGCTGAGGGGT
1 TCCCGGGTCAAAGTCGATGGGTAGAC-AAGGGATGAAGAAGTCTCCCAAGTCAAAGCTGACGGGC
* * *
129030 AGACAAAAGATGAAA-AAGTC
65 AAACAAAAGGT-AAAGAAGTT
* * ** * *
129050 TCCCGGGTCAGAGTCGACGGGTAGACAAAAGATGAAGAAGTTTTCCAAGTCAAAGCTGACGGGCA
1 TCCCGGGTCAAAGTCGATGGGTAGACAAGGGATGAAGAAGTCTCCCAAGTCAAAGCTGACGGGCA
*
129115 GACAAAAGGTAAAGAAGTT
66 AACAAAAGGTAAAGAAGTT
** * *
129134 TCCCAAGTCAAAG-CGATGGGCAGACGAAGGG-TGAAGGAGTCTCCCAAGTCAAAGGC-GACGGG
1 TCCCGGGTCAAAGTCGATGGGTAGAC-AAGGGATGAAGAAGTCTCCCAAGTCAAA-GCTGACGGG
** *
129196 CAAATGAAAGGTGAAGAAGTT
64 CAAACAAAAGGTAAAGAAGTT
***
129217 TTTTGGGTCAAAGTCGATGGGTAGACAAGGGATGAA-AAGTCT
1 TCCCGGGTCAAAGTCGATGGGTAGACAAGGGATGAAGAAGTCT
129259 ATCGGTTCAA
Statistics
Matches: 165, Mismatches: 38, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
83 76 0.46
84 89 0.54
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.17
Consensus pattern (84 bp):
TCCCGGGTCAAAGTCGATGGGTAGACAAGGGATGAAGAAGTCTCCCAAGTCAAAGCTGACGGGCA
AACAAAAGGTAAAGAAGTT
Found at i:129281 original size:41 final size:42
Alignment explanation
Indices: 129207--129312 Score: 133
Period size: 41 Copynumber: 2.5 Consensus size: 42
129197 AAATGAAAGG
* * * *
129207 TGAAGAAGTTTTTTGGGTCAAAGTCGATGGGTAGACAAGGGA
1 TGAAGAAGTATATCGGGTCAAAGCCGATGGGTAGACAAGGGA
* * *
129249 TGAA-AAGTCTATCGGTTCAAAGCCGATGGGTAGACAAGGGG
1 TGAAGAAGTATATCGGGTCAAAGCCGATGGGTAGACAAGGGA
*
129290 TGAAGAAGTATCTCGGGTCAAAG
1 TGAAGAAGTATATCGGGTCAAAG
129313 TTAACAGCTA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 35 0.65
42 19 0.35
ACGTcount: A:0.32, C:0.11, G:0.34, T:0.23
Consensus pattern (42 bp):
TGAAGAAGTATATCGGGTCAAAGCCGATGGGTAGACAAGGGA
Found at i:129352 original size:42 final size:42
Alignment explanation
Indices: 129306--129396 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
129296 AGTATCTCGG
* *
129306 GTCAAAGTTAAC-AGCTAGACAAAAGGTGAAAGAGCCTCCCGA
1 GTCAAAGTTAACTAGC-AAACAAAAGGTGAAAGAGCCTCCCAA
* * * *
129348 GTCAAAGTTGACTAGCAAACAAAGGGTGAAAGAGTCTCCTAA
1 GTCAAAGTTAACTAGCAAACAAAAGGTGAAAGAGCCTCCCAA
129390 GTCAAAG
1 GTCAAAG
129397 CCGACAAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (42 bp):
GTCAAAGTTAACTAGCAAACAAAAGGTGAAAGAGCCTCCCAA
Found at i:129584 original size:44 final size:43
Alignment explanation
Indices: 129536--129831 Score: 224
Period size: 44 Copynumber: 6.7 Consensus size: 43
129526 AAGGAGGCAG
* * *
129536 ATTTGACTAGGGTAGTAACCATATGTCAAATTAGAATGAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAAA-TAGAATGAAAAGA
*
129580 ATTTGACCAGGGTGGTAACCATACGTCAAATTGGAATGAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAAA-TAGAATGAAAAGA
* * * * *
129624 ATCTGACTAGGGTGGGAACCATATGTCAGACA-AGAA-G-AAAGCTG
1 ATTTGACCAGGGTGGTAACCATACGTCA-A-ATAGAATGAAAAG--A
* * * *
129668 ATTTGA-CTGAGGTGGTAACTATACGTCAAATCGAAATGAAAAAA
1 ATTTGACCAG-GGTGGTAACCATACGTCAAATAG-AATGAAAAGA
* * * **
129712 ATCTGACCAGGGTTGTAACCATACGTCAAACAAGAATGAGGCAG-
1 ATTTGACCAGGGTGGTAACCATACGTCAAA-TAGAATGA-AAAGA
* * *
129756 ATTTAACCAGGGTGGTAACCATACGTCAAATCGAAATGAAAAAAAA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATAG-AATG--AAAAGA
* * *
129802 AATTGACCAGGGTTGTAACCATATGTCAAA
1 ATTTGACCAGGGTGGTAACCATACGTCAAA
129832 CAGGAAAGAT
Statistics
Matches: 196, Mismatches: 40, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
42 5 0.03
43 5 0.03
44 148 0.76
45 7 0.04
46 31 0.16
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (43 bp):
ATTTGACCAGGGTGGTAACCATACGTCAAATAGAATGAAAAGA
Found at i:129631 original size:88 final size:87
Alignment explanation
Indices: 129539--129833 Score: 335
Period size: 88 Copynumber: 3.3 Consensus size: 87
129529 GAGGCAGATT
* * **
129539 TGACTAGGGTAGTAACCATATGTCAAATTAGAATGAAAAGAATTTGACCAGGGTGGTAACCATAC
1 TGACCAGGGTTGTAACCATATGTCAAACAAGAATGAAAAG-ATTTGACCAGGGTGGTAACCATAC
* * *
129604 GTCAAATTGGAATGAAAAGAATC
65 GTCAAATCGAAATGAAAAAAATC
* * * * * * *
129627 TGACTAGGGTGGGAACCATATGTCAGACAAGAA-GAAAGCTGATTTGA-CTGAGGTGGTAACTAT
1 TGACCAGGGTTGTAACCATATGTCAAACAAGAATGAAA--AGATTTGACCAG-GGTGGTAACCAT
129690 ACGTCAAATCGAAATGAAAAAAATC
63 ACGTCAAATCGAAATGAAAAAAATC
* ** *
129715 TGACCAGGGTTGTAACCATACGTCAAACAAGAATGAGGCAGATTTAACCAGGGTGGTAACCATAC
1 TGACCAGGGTTGTAACCATATGTCAAACAAGAATGA-AAAGATTTGACCAGGGTGGTAACCATAC
129780 GTCAAATCGAAATGAAAAAAAAAAT-
65 GTCAAATCGAAATG---AAAAAAATC
129805 TGACCAGGGTTGTAACCATATGTCAAACA
1 TGACCAGGGTTGTAACCATATGTCAAACA
129834 GGAAAGATGA
Statistics
Matches: 175, Mismatches: 23, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
87 6 0.03
88 128 0.73
89 5 0.03
90 28 0.16
91 8 0.05
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (87 bp):
TGACCAGGGTTGTAACCATATGTCAAACAAGAATGAAAAGATTTGACCAGGGTGGTAACCATACG
TCAAATCGAAATGAAAAAAATC
Found at i:129686 original size:132 final size:132
Alignment explanation
Indices: 129502--129741 Score: 322
Period size: 132 Copynumber: 1.8 Consensus size: 132
129492 GTTTGACCAT
* * * * * *
129502 GGTGGTAACCATATGTTAAACAGGAAGGAGGCAGATTTGACTAGGGTAGTAACCATATGTCAAAT
1 GGTGGGAACCATATGTCAAACAAGAAGAAAGCAGATTTGACTAGGGTAGTAACCATACGTCAAA-
* *
129567 TAG-AATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCAAATTGGAATGAAAAGAATCTGAC
65 TAGAAATGAAAAAAATCTGACCAGGGTGGTAACCATACGTCAAATTGGAATGAAAAGAATCTGAC
129631 TAG
130 TAG
* * * *
129634 GGTGGGAACCATATGTCAGACAAGAAGAAAGCTGATTTGACT-GAGGTGGTAACTATACGTCAAA
1 GGTGGGAACCATATGTCAAACAAGAAGAAAGCAGATTTGACTAG-GGTAGTAACCATACGTCAAA
* *
129698 TCGAAATGAAAAAAATCTGACCAGGGTTGTAACCATACGTCAAA
65 TAGAAATGAAAAAAATCTGACCAGGGTGGTAACCATACGTCAAA
129742 CAAGAATGAG
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
131 3 0.03
132 89 0.97
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (132 bp):
GGTGGGAACCATATGTCAAACAAGAAGAAAGCAGATTTGACTAGGGTAGTAACCATACGTCAAAT
AGAAATGAAAAAAATCTGACCAGGGTGGTAACCATACGTCAAATTGGAATGAAAAGAATCTGACT
AG
Found at i:129768 original size:132 final size:132
Alignment explanation
Indices: 129497--129785 Score: 314
Period size: 132 Copynumber: 2.2 Consensus size: 132
129487 AAATTGTTTG
* * * * * *
129497 ACCATGGTGGTAACCATATGTTAAACAGGAAGGAGGCAGATTTGACTAGGGTAGTAACCATATGT
1 ACCAGGGTGGTAACCATATGTCAAACAAGAAGAAAGCAGATTTGACTAGGGTAGTAACCATACGT
* * * ***
129562 CAAATTAGAATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCAAATTGGAATGAAAAGAATC
66 CAAATGAGAATGAAAAAAATCTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAGAATC
*
129627 TG
131 TA
* * * * * *
129629 ACTAGGGTGGGAACCATATGTCAGACAAGAAGAAAGCTGATTTGACT-GAGGTGGTAACTATACG
1 ACCAGGGTGGTAACCATATGTCAAACAAGAAGAAAGCAGATTTGACTAG-GGTAGTAACCATACG
* **
129693 TCAAATCGA-AATGAAAAAAATCTGACCAGGGTTGTAACCATACGTCAAACAAGAATGAGGCAG-
65 TCAAAT-GAGAATGAAAAAAATCTGACCAGGGTGGTAACCATACGTCAAACAAGAATGA-AAAGA
*
129756 ATTTA
128 ATCTA
*
129761 ACCAGGGTGGTAACCATACGTCAAA
1 ACCAGGGTGGTAACCATATGTCAAA
129786 TCGAAATGAA
Statistics
Matches: 127, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
131 1 0.01
132 123 0.97
133 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (132 bp):
ACCAGGGTGGTAACCATATGTCAAACAAGAAGAAAGCAGATTTGACTAGGGTAGTAACCATACGT
CAAATGAGAATGAAAAAAATCTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAGAATC
TA
Found at i:130010 original size:35 final size:35
Alignment explanation
Indices: 129971--130052 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
129961 AACAAGGGAT
* * *
129971 GAAAGAGTTTGGCCAAATACAGCCAAATGATGATG
1 GAAAGAGTTTGACCAAATACAACCAAACGATGATG
** *
130006 GAAAGAGTTTGACCAGGTACAATCAAACGATGATG
1 GAAAGAGTTTGACCAAATACAACCAAACGATGATG
*
130041 GAAAGAGCTTGA
1 GAAAGAGTTTGA
130053 GAGAAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (35 bp):
GAAAGAGTTTGACCAAATACAACCAAACGATGATG
Found at i:130897 original size:88 final size:88
Alignment explanation
Indices: 130717--130880 Score: 213
Period size: 88 Copynumber: 1.9 Consensus size: 88
130707 GCAGTTTTGC
* * * * **
130717 ATGAAACGATGCAAATGCAAGCATCAATAAAGTGGCGAATGCTTATGAAATGATGCAAATACCAA
1 ATGAAACAATGCAAATGCAAGCATCAATAAAATAGCAAATGCGCATGAAATGATGCAAATACCAA
* *
130782 TGTCATTTAAAATGCATATGTAG
66 TGTCATTCAAAATGAATATGTAG
* * *
130805 ATGAAACAATGCAAATGCAGGGATCAATAAAATAGCAAATGCGCATGAAATGATGCAAATGCCAA
1 ATGAAACAATGCAAATGCAAGCATCAATAAAATAGCAAATGCGCATGAAATGATGCAAATACCAA
*
130870 TGTTA-TCAAAA
66 TGTCATTCAAAA
130881 CTACGAATAT
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
87 5 0.08
88 60 0.92
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.23
Consensus pattern (88 bp):
ATGAAACAATGCAAATGCAAGCATCAATAAAATAGCAAATGCGCATGAAATGATGCAAATACCAA
TGTCATTCAAAATGAATATGTAG
Found at i:132185 original size:9 final size:9
Alignment explanation
Indices: 132173--132208 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
132163 TTTTTTTAAA
132173 TCTTTTTTT
1 TCTTTTTTT
*
132182 TCTTTTTTC
1 TCTTTTTTT
132191 TCTTTTTTT
1 TCTTTTTTT
*
132200 GCTTTTTTT
1 TCTTTTTTT
132209 CTTCATTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:132198 original size:17 final size:17
Alignment explanation
Indices: 132173--132211 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
132163 TTTTTTTAAA
*
132173 TCTTTTTTTTCTTTTTT
1 TCTTTTTTTGCTTTTTT
132190 CTCTTTTTTTGCTTTTTT
1 -TCTTTTTTTGCTTTTTT
132208 TCTT
1 TCTT
132212 CATTGCACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TCTTTTTTTGCTTTTTT
Done.