Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1482
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: 284187
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:3233 original size:21 final size:21
Alignment explanation
Indices: 3209--3264 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
3199 TTTTTGTCCA
3209 AATGTATCGATACATTGTTAT
1 AATGTATCGATACATTGTTAT
3230 AATGTATCGATACATTGTTAT
1 AATGTATCGATACATTGTTAT
3251 AATGTATCGATACA
1 AATGTATCGATACA
3265 AGGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTGTTAT
Found at i:3340 original size:13 final size:13
Alignment explanation
Indices: 3322--3346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3312 CATAAAGTGT
3322 TGTATCGATACAA
1 TGTATCGATACAA
3335 TGTATCGATACA
1 TGTATCGATACA
3347 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3344 original size:33 final size:33
Alignment explanation
Indices: 3302--3368 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3292 TTCAACGATT
3302 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
3335 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3368 T
1 T
3369 TTAAGCTACT
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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3433 original size:34 final size:34
Alignment explanation
Indices: 3390--3467 Score: 147
Period size: 34 Copynumber: 2.3 Consensus size: 34
3380 CCAAAAAATG
3390 TATCGATACATCACTTAAATGTATCGATACATTA
1 TATCGATACATCACTTAAATGTATCGATACATTA
*
3424 TATCGATACATCACTTAAATGTATCGATACATTG
1 TATCGATACATCACTTAAATGTATCGATACATTA
3458 TATCGATACA
1 TATCGATACA
3468 CTGATCTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (34 bp):
TATCGATACATCACTTAAATGTATCGATACATTA
Found at i:3461 original size:13 final size:13
Alignment explanation
Indices: 3443--3467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3433 ATCACTTAAA
3443 TGTATCGATACAT
1 TGTATCGATACAT
3456 TGTATCGATACA
1 TGTATCGATACA
3468 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:10362 original size:21 final size:21
Alignment explanation
Indices: 10338--10379 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10328 TACCATCTTG
* *
10338 TAATTCATTTATTTTCTTTTC
1 TAATTCAATCATTTTCTTTTC
*
10359 TAATTTAATCATTTTCTTTTC
1 TAATTCAATCATTTTCTTTTC
10380 AAGCACATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (21 bp):
TAATTCAATCATTTTCTTTTC
Found at i:12521 original size:52 final size:52
Alignment explanation
Indices: 12454--12561 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
12444 ATGCATTTGA
* * *
12454 AATTCTAGTCATTGGGCTCAATGTATCAATACAATTCATAATGTATCGATGC
1 AATTATAGTCATTGGGCTCAATGTATCAATACAATTCACAATGTATCGATAC
* * * * *
12506 AATTATAGTCGTTGGGCTTAATGTATCGATACAATTTACCATGTATCGATAC
1 AATTATAGTCATTGGGCTCAATGTATCAATACAATTCACAATGTATCGATAC
12558 AATT
1 AATT
12562 CACTTAGGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (52 bp):
AATTATAGTCATTGGGCTCAATGTATCAATACAATTCACAATGTATCGATAC
Found at i:12667 original size:33 final size:32
Alignment explanation
Indices: 12607--12670 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
12597 TACATTTTAT
*
12607 AGTGTATCGATACAAAGAACATGTATCGATAG
1 AGTGTATCAATACAAAGAACATGTATCGATAG
* *
12639 AGTGTATCAATACTAAGCAATATGTATCGATA
1 AGTGTATCAATACAAAG-AACATGTATCGATA
12671 CATCTGGGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (32 bp):
AGTGTATCAATACAAAGAACATGTATCGATAG
Found at i:13847 original size:25 final size:25
Alignment explanation
Indices: 13819--13871 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
13809 TGTTATAATA
13819 TAGCATGATTTTGATGATTCAATGT
1 TAGCATGATTTTGATGATTCAATGT
13844 TAGCATGATTTTGATGATTCAATGT
1 TAGCATGATTTTGATGATTCAATGT
13869 TAG
1 TAG
13872 ATCTAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (25 bp):
TAGCATGATTTTGATGATTCAATGT
Found at i:17959 original size:79 final size:79
Alignment explanation
Indices: 17868--18234 Score: 374
Period size: 79 Copynumber: 4.7 Consensus size: 79
17858 TCATTCATGT
* * * * * *
17868 TTTTATTTCTAAAATACCGATTTTCTACCATCGGGGATACTCCAACCCCGTTATTTTTGAGAGGA
1 TTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGAGGA
*
17933 TACTCCAACCTTAG
66 TACTCCAACCCTAG
* *
17947 TTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCTAACCCTGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGAGGA
* *
18012 TACTTCAACCTTAG
66 TACTCCAACCCTAG
* * **
18026 -----TTTCCAAAACA-CTGATTTTCCAAAATCGGGGATACTCTGACCCTGTTATTTTCGAG-GG
1 TTTTATTTCTAAAACATC-GATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGAGG
*
18084 AATACTCCAACCCTGG
65 -ATACTCCAACCCTAG
* * * * * *
18100 CTTTATTTCTAAAACATC-AATTTCCATAATCGAGGATGCTCCAACCCTGTTA-TTTCTGAAAGG
1 TTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTC-GAGA-G
* * *
18163 GATGCTCCAACCCCAA
64 GATACTCCAACCCTAG
* * * *
18179 TTTTATTTCCAAAACATCAATTTTCCACTATCGGGGATACTCCAACCCCGTTATTT
1 TTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTT
18235 CTAAGGAGAC
Statistics
Matches: 240, Mismatches: 35, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
73 3 0.01
74 63 0.26
77 4 0.02
78 30 0.12
79 107 0.45
80 31 0.13
81 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGAGGA
TACTCCAACCCTAG
Found at i:18165 original size:153 final size:153
Alignment explanation
Indices: 17897--18234 Score: 389
Period size: 153 Copynumber: 2.2 Consensus size: 153
17887 ATTTTCTACC
* * *
17897 ATCGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCTTAGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCTAGCTTTATTTCTAAAAC
* * * * *
17962 ATCGATTTTCCACAATCGGGGATACTCTAACCCTGTTATTTTCGAGGGGATACTTCAACCTTAGT
66 ATCGAATTTCCACAATCGAGGATACTCCAACCCTGTTATTTTCGAAGGGATACTCCAACCTTAGT
18027 TTCCAAAACACTGATTTTCCAAA
131 TTCCAAAACACTGATTTTCCAAA
** * *
18050 ATCGGGGATACTCTGACCCTGTTATTTTCGAG-GGAATACTCCAACCCTGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGAGG-ATACTCCAACCCTAGCTTTATTTCTAAAA
* * *
18114 CATC-AATTTCCATAATCGAGGATGCTCCAACCCTGTTA-TTTCTGAAAGGGATGCTCCAACCCC
65 CATCGAATTTCCACAATCGAGGATACTCCAACCCTGTTATTTTC-G-AAGGGATACTCCAA--CC
* **
18177 AATTTTA-TTTCCAAAACA-TCAATTTTCCACT
126 ----TTAGTTTCCAAAACACT-GATTTTCCAAA
18208 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
18235 CTAAGGAGAC
Statistics
Matches: 154, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
151 4 0.03
152 32 0.21
153 69 0.45
155 2 0.01
157 1 0.01
158 43 0.28
159 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (153 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCTAGCTTTATTTCTAAAAC
ATCGAATTTCCACAATCGAGGATACTCCAACCCTGTTATTTTCGAAGGGATACTCCAACCTTAGT
TTCCAAAACACTGATTTTCCAAA
Found at i:19481 original size:29 final size:29
Alignment explanation
Indices: 19439--19497 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
19429 TTTGGAGTAA
19439 AACTAAAGGTTTGTTTGTTTCCTTGACAC
1 AACTAAAGGTTTGTTTGTTTCCTTGACAC
19468 AACTAAAGGTTTGTTTGTTTCCTTGACAC
1 AACTAAAGGTTTGTTTGTTTCCTTGACAC
19497 A
1 A
19498 CATTGTGCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (29 bp):
AACTAAAGGTTTGTTTGTTTCCTTGACAC
Found at i:26131 original size:33 final size:33
Alignment explanation
Indices: 26089--26155 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
26079 GCCATTGGGC
* *
26089 ATAATGTATCGATACAAT-TCTTCATGTATCGAT
1 ATAATGTATCAATACAATGT-TCCATGTATCGAT
26122 ATAATGTATCAATACAATGTTCCATGTATCGAT
1 ATAATGTATCAATACAATGTTCCATGTATCGAT
26155 A
1 A
26156 CATTTCACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (33 bp):
ATAATGTATCAATACAATGTTCCATGTATCGAT
Found at i:26212 original size:20 final size:19
Alignment explanation
Indices: 26187--26277 Score: 94
Period size: 20 Copynumber: 4.6 Consensus size: 19
26177 TACCAGTTTC
26187 ATGTATCGATACAATGGAGT
1 ATGTATCGATACAATGGA-T
*
26207 ATGTATCGATACAAT-GAGC
1 ATGTATCGATACAATGGA-T
* *
26226 ATGTATCGATACAAAGCAT
1 ATGTATCGATACAATGGAT
*
26245 AATGTATCGATACATCTGGAT
1 -ATGTATCGATACA-ATGGAT
*
26266 ATGTATCAATAC
1 ATGTATCGATAC
26278 TTACTAGGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
19 17 0.28
20 40 0.67
21 3 0.05
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (19 bp):
ATGTATCGATACAATGGAT
Found at i:29331 original size:14 final size:14
Alignment explanation
Indices: 29312--29342 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
29302 TGGTGAGACA
29312 TATTGCACTAGTAT
1 TATTGCACTAGTAT
29326 TATTGCACTAGTAT
1 TATTGCACTAGTAT
29340 TAT
1 TAT
29343 CACACTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (14 bp):
TATTGCACTAGTAT
Found at i:42104 original size:21 final size:20
Alignment explanation
Indices: 42057--42110 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
42047 CATTTTAGGC
42057 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
* **
42077 ATGTATCGATATATTGTCTT
1 ATGTATCGATACATTCACTT
42097 ATTGTATCGATACA
1 A-TGTATCGATACA
42111 AATTATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:54736 original size:17 final size:17
Alignment explanation
Indices: 54695--54735 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
54685 CATATATGTA
54695 TTTATTTTATTTATTAC
1 TTTATTTTATTTATTAC
*
54712 TTTATTTTATTTATT-T
1 TTTATTTTATTTATTAC
54728 TTTATTTT
1 TTTATTTT
54736 TTTGAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTATTAC
Found at i:55264 original size:159 final size:158
Alignment explanation
Indices: 54720--55330 Score: 613
Period size: 159 Copynumber: 3.9 Consensus size: 158
54710 ACTTTATTTT
* * *
54720 ATTTATTTTTTA-TT-TTTTTG-AAAATATCATTTCATACCTTAATGGAAACCTGAAAAGATACG
1 ATTTAATTTTTATTTATTTTTGAAAAATATCATTTCATACCTTAATGAAAACCCGAAAAGATACG
** * * *
54782 AAATTTTTTTTGGAAATCTTTTATA-CCTCTACGGAC-CCTCATAGGAGTATAAAATATTAAAAA
66 AAA-AGTTTTT--AAATCTTTTATACCCTATACGGACACC-CATAGGAATATAAAAGATTAAAAA
* * *** * *
54845 GATTAATGTTTCTTTCGGTTGTATA-AGTATTA
127 GATTAATATTTATTTTAATTAT-TAGAGTGTTA
* * * * *
54877 ATTTTA-TTTTATTTATTCATTTTCAAGAAATACCTTTTTCATACCTTAATG-AGACCCGAAAAG
1 ATTTAATTTTTATTTA-T--TTTTGAA-AAATATC-ATTTCATACCTTAATGAAAACCCGAAAAG
* *
54940 ATATGAAAAGTTTTTAAGATCCTTTATACTCCTATA--GACACCCATAGGAATATAAAAGATTAA
61 ATACGAAAAGTTTTTAA-ATCTTTTATAC-CCTATACGGACACCCATAGGAATATAAAAGATTAA
*
55003 AAACG-TTAATATTTATTTTAATTATGAGAGTGTTA
124 AAA-GATTAATATTTATTTTAATTATTAGAGTGTTA
* * * ** * *
55038 ATTCAATTTTT-TTTATTTTTGTAAAATATCATTTCGTATTTTAAT-AGAAGCTCGAAAAGATAC
1 ATTTAATTTTTATTTATTTTTGAAAAATATCATTTCATACCTTAATGA-AAACCCGAAAAGATAC
* * *
55101 GAAAAGTTTTTGAAATCTTTTATACCCT-TACGGATACGCATAAGAATATAAAAGATTAAAAATG
65 GAAAAGTTTTT-AAATCTTTTATACCCTATACGGACACCCATAGGAATATAAAAGATTAAAAA-G
* *
55165 AATAATATTTATTTTAATAATTAGAGTGTTA
128 ATTAATATTTATTTTAATTATTAGAGTGTTA
*
55196 ATTTAATTTTTATTTATTTTTGAAAAATATCATTTCATACCTTAATGAAAACCCGAAAAGATAAG
1 ATTTAATTTTTATTTATTTTTGAAAAATATCATTTCATACCTTAATGAAAACCCGAAAAGATACG
* * *
55261 AAAAGTTTTTAGAATCTTTTATACCCT-TACAGATACCCATAGGAATATAAAAGATTAAAAAAAT
66 AAAAGTTTTTA-AATCTTTTATACCCTATACGGACACCCATAGGAATATAAAAGATTAAAAAGAT
55325 TAATAT
130 TAATAT
55331 GAAAACATCT
Statistics
Matches: 374, Mismatches: 56, Indels: 47
0.78 0.12 0.10
Matches are distributed among these distances:
155 2 0.01
156 19 0.05
157 73 0.20
158 52 0.14
159 101 0.27
160 5 0.01
161 66 0.18
162 13 0.03
163 28 0.07
164 15 0.04
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (158 bp):
ATTTAATTTTTATTTATTTTTGAAAAATATCATTTCATACCTTAATGAAAACCCGAAAAGATACG
AAAAGTTTTTAAATCTTTTATACCCTATACGGACACCCATAGGAATATAAAAGATTAAAAAGATT
AATATTTATTTTAATTATTAGAGTGTTA
Found at i:56379 original size:20 final size:20
Alignment explanation
Indices: 56331--56368 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56321 TACTGGAGCT
* *
56331 GCTATTTCATGCTTGCTGAA
1 GCTATTGCAAGCTTGCTGAA
56351 GCTATTGCAAGCTTGCTG
1 GCTATTGCAAGCTTGCTG
56369 TTGCTGTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
GCTATTGCAAGCTTGCTGAA
Found at i:56454 original size:22 final size:25
Alignment explanation
Indices: 56408--56456 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
56398 ATTTTGTTTT
*
56408 TTTCTTTTTATTCTTTTCTTTGCTG
1 TTTCTTTTTATTCTTATCTTTGCTG
56433 TTTC-TTTT-TTCTTAT-TTTGCTG
1 TTTCTTTTTATTCTTATCTTTGCTG
56455 TT
1 TT
56457 GTTGTCTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 6 0.26
24 4 0.17
25 4 0.17
ACGTcount: A:0.04, C:0.14, G:0.08, T:0.73
Consensus pattern (25 bp):
TTTCTTTTTATTCTTATCTTTGCTG
Found at i:56539 original size:26 final size:27
Alignment explanation
Indices: 56494--56545 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
56484 TAATGCAACT
56494 GTTTCGATTACTTTCTTCATTGCAGCC
1 GTTTCGATTACTTTCTTCATTGCAGCC
*
56521 GTTTCG-TTTCTTTCTTCATTGCAGC
1 GTTTCGATTACTTTCTTCATTGCAGC
56546 TGTCAGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.12, C:0.25, G:0.15, T:0.48
Consensus pattern (27 bp):
GTTTCGATTACTTTCTTCATTGCAGCC
Found at i:56563 original size:25 final size:26
Alignment explanation
Indices: 56504--56565 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
56494 GTTTCGATTA
*
56504 CTTTCTTCATTGCAGCCGTTTCGTTT
1 CTTTCTTCATTGCAGCCGTGTCGTTT
56530 CTTTCTTCATTGCAG-C-TGTCAGTTT
1 CTTTCTTCATTGCAGCCGTGTC-GTTT
*
56555 CTTTTTTCATT
1 CTTTCTTCATT
56566 ACAACTGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 3 0.09
25 15 0.45
26 15 0.45
ACGTcount: A:0.10, C:0.24, G:0.13, T:0.53
Consensus pattern (26 bp):
CTTTCTTCATTGCAGCCGTGTCGTTT
Found at i:56573 original size:25 final size:25
Alignment explanation
Indices: 56526--56573 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56516 CAGCCGTTTC
* *
56526 GTTTCTTTCTTCATTGCAGCTGTCA
1 GTTTCTTTCTTCATTACAACTGTCA
*
56551 GTTTCTTTTTTCATTACAACTGT
1 GTTTCTTTCTTCATTACAACTGT
56574 TTCTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.12, T:0.52
Consensus pattern (25 bp):
GTTTCTTTCTTCATTACAACTGTCA
Found at i:56998 original size:16 final size:17
Alignment explanation
Indices: 56961--57001 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
56951 CTTTCTCTTT
56961 TTTTTTAATTCATTAATA
1 TTTTTT-ATTCATTAATA
56979 --TTTTATT-ATTAATA
1 TTTTTTATTCATTAATA
56993 TTTTTTATT
1 TTTTTTATT
57002 TAATTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.33
15 3 0.14
16 11 0.52
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTATTCATTAATA
Found at i:57001 original size:21 final size:20
Alignment explanation
Indices: 56977--57019 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
56967 AATTCATTAA
*
56977 TATTTTATTATTAATATTTTT
1 TATTTAATTATTAAT-TTTTT
*
56998 TATTTAATTATTTATTTTTT
1 TATTTAATTATTAATTTTTT
57018 TA
1 TA
57020 ATAAACCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTAATTATTAATTTTTT
Found at i:57004 original size:14 final size:14
Alignment explanation
Indices: 56973--57022 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
56963 TTTTAATTCA
56973 TTAATATTTTATTA-
1 TTAATATTTT-TTAT
56987 TTAATATTTTTTAT
1 TTAATATTTTTTAT
*
57001 TTAATTATTTATTTTT
1 TTAA-TATTT-TTTAT
57017 TTAATA
1 TTAATA
57023 AACCAATAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 3 0.09
14 14 0.44
15 7 0.22
16 8 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTAATATTTTTTAT
Found at i:59650 original size:20 final size:20
Alignment explanation
Indices: 59625--59674 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
59615 ACCCTGAAAA
*
59625 GTATCGATACACATTTAATT
1 GTATCGATACACATTGAATT
** *
59645 GTATCGATACATGTTGCATT
1 GTATCGATACACATTGAATT
59665 GTATCGATAC
1 GTATCGATAC
59675 TTGAAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACACATTGAATT
Found at i:59789 original size:33 final size:32
Alignment explanation
Indices: 59731--59794 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
59721 GCCAAACTTG
**
59731 TATCGATACACATAGTATGTATCGATACATTA
1 TATCGATACACATAAAATGTATCGATACATTA
59763 TATCGATACACCATAAAATGTATCGATACATT
1 TATCGATACA-CATAAAATGTATCGATACATT
59795 GTCTTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (32 bp):
TATCGATACACATAAAATGTATCGATACATTA
Found at i:65965 original size:13 final size:13
Alignment explanation
Indices: 65947--65985 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
65937 ACAGCATTCT
65947 TTGTATCGATACA
1 TTGTATCGATACA
65960 TTGTATCGATACA
1 TTGTATCGATACA
*
65973 CTGTATCGATACA
1 TTGTATCGATACA
65986 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:66160 original size:22 final size:21
Alignment explanation
Indices: 66117--66157 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
66107 CAAAATTCTT
66117 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
66139 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
66158 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:68310 original size:20 final size:20
Alignment explanation
Indices: 68285--68334 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
68275 ACCCTGAAAA
*
68285 GTATCGATACACATTTAATT
1 GTATCGATACACATTGAATT
** *
68305 GTATCGATACATGTTGCATT
1 GTATCGATACACATTGAATT
68325 GTATCGATAC
1 GTATCGATAC
68335 CTGAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACACATTGAATT
Found at i:68426 original size:13 final size:13
Alignment explanation
Indices: 68408--68432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68398 ACACACAATA
68408 TGTATCGATACAT
1 TGTATCGATACAT
68421 TGTATCGATACA
1 TGTATCGATACA
68433 CCATAAAATG
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:68429 original size:32 final size:33
Alignment explanation
Indices: 68388--68455 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
68378 GTAGCCAAAC
*
68388 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
68420 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
68453 TTG
1 TTG
68456 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:71123 original size:19 final size:18
Alignment explanation
Indices: 71098--71162 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
71088 ATTTCAACAA
71098 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
71116 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
71132 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
71148 TTTTGTATCGATACA
1 -TTTGTATCGATACA
71163 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:71136 original size:32 final size:32
Alignment explanation
Indices: 71100--71170 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
71090 TTCAACAATT
71100 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
* *
71132 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
71164 TGTATCG
1 TGTATCG
71171 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:73485 original size:13 final size:13
Alignment explanation
Indices: 73467--73492 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73457 CAAAGAATAG
73467 ATGTATCGATACA
1 ATGTATCGATACA
73480 ATGTATCGATACA
1 ATGTATCGATACA
73493 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:73489 original size:34 final size:33
Alignment explanation
Indices: 73446--73512 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
73436 AACTTCCTAG
*
73446 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
73480 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
73513 TTCCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:84857 original size:13 final size:13
Alignment explanation
Indices: 84839--84863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84829 ATTACTCAAA
84839 TGTATCGATACAT
1 TGTATCGATACAT
84852 TGTATCGATACA
1 TGTATCGATACA
84864 CTAATCTTTG
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:90110 original size:52 final size:51
Alignment explanation
Indices: 90032--90147 Score: 205
Period size: 52 Copynumber: 2.3 Consensus size: 51
90022 AGTTGCTTGT
*
90032 ATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTGCCTGC
*
90084 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTGCCTGC
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGCCTGC
90135 ATGTATCGATACA
1 ATGTATCGATACA
90148 AAGATCAGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 21 0.34
52 41 0.66
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
ATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGCCTGC
Found at i:90160 original size:51 final size:52
Alignment explanation
Indices: 90032--90167 Score: 188
Period size: 52 Copynumber: 2.6 Consensus size: 52
90022 AGTTGCTTGT
*
90032 ATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
*** *
90084 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-TTGCCTGC
1 ATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
90135 ATGTATCGATACA-AAGATCAGTGTATCGATACA
1 ATGTATCGATACATAAGAT-AGTGTATCGATACA
90168 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
50 2 0.03
51 36 0.47
52 38 0.50
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
ATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
Found at i:90174 original size:13 final size:13
Alignment explanation
Indices: 90156--90180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90146 CAAAGATCAG
90156 TGTATCGATACAA
1 TGTATCGATACAA
90169 TGTATCGATACA
1 TGTATCGATACA
90181 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:90248 original size:20 final size:19
Alignment explanation
Indices: 90219--90256 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
90209 GCAGTAGCTT
90219 AAATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
90238 AAATATGTATCGATACAAA
1 AAAT-TGTATCGATACAAA
90257 TCGTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (19 bp):
AAATTGTATCGATACAAAA
Found at i:91113 original size:52 final size:54
Alignment explanation
Indices: 90979--91132 Score: 188
Period size: 52 Copynumber: 2.9 Consensus size: 54
90969 GAAAAGTGAT
* * * * *
90979 AAAGATGCCAATATG-TCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCT-GATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* * * *
91033 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
91086 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
91133 GTGCCAATGT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
52 38 0.45
53 6 0.07
54 5 0.06
55 35 0.41
56 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (54 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
Found at i:91147 original size:43 final size:43
Alignment explanation
Indices: 91086--91177 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
91076 TAAAGATGGA
91086 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
91129 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
91172 AGAAGG
1 A-AAGG
91178 GTTGCCACCG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 42 0.91
44 4 0.09
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:91226 original size:32 final size:29
Alignment explanation
Indices: 91165--91253 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 29
91155 CCAGCTATAT
* *
91165 TGGGCTTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAAGGG-TGCCACTGACTTGTG
91195 TGGGCTTTGGAAAAGGGTGCCACTGA-TT-TG
1 TGGGCTTT-G--AAGGGTGCCACTGACTTGTG
*
91225 TGGGCTTTGAAGGTTGCCACTGACTTGTG
1 TGGGCTTTGAAGGGTGCCACTGACTTGTG
91254 GGCTTTCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 13 0.25
28 2 0.04
29 3 0.06
30 17 0.33
31 3 0.06
32 8 0.16
33 5 0.10
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.30
Consensus pattern (29 bp):
TGGGCTTTGAAGGGTGCCACTGACTTGTG
Found at i:91245 original size:27 final size:27
Alignment explanation
Indices: 91165--91259 Score: 100
Period size: 27 Copynumber: 3.3 Consensus size: 27
91155 CCAGCTATAT
* *
91165 TGGGCTTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAA-GGTTGCCACTGA-TT-TG
*
91195 TGGGCTTTGGAAAAGGGTGCCACTGATTTG
1 TGGGCTTT-G--AAGGTTGCCACTGATTTG
*
91225 TGGGCTTTGAAGGTTGCCACTGACTTG
1 TGGGCTTTGAAGGTTGCCACTGATTTG
91252 TGGGCTTT
1 TGGGCTTT
91260 CAAAAAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
27 24 0.42
29 1 0.02
30 17 0.30
31 3 0.05
32 10 0.18
33 2 0.04
ACGTcount: A:0.16, C:0.17, G:0.36, T:0.32
Consensus pattern (27 bp):
TGGGCTTTGAAGGTTGCCACTGATTTG
Found at i:91298 original size:30 final size:31
Alignment explanation
Indices: 91239--91320 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 31
91229 CTTTGAAGGT
*
91239 TGCCACTGACTTGTGGGCTTTCAAAAAAAAA
1 TGCCACTGACTTGTGGACTTTCAAAAAAAAA
* * *
91270 TGCCACCGACTTGTGGCCTTT-GAAAAAAAA
1 TGCCACTGACTTGTGGACTTTCAAAAAAAAA
91300 TGCCACTGACTTGTGGACTTT
1 TGCCACTGACTTGTGGACTTT
91321 TGAAGGGTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (31 bp):
TGCCACTGACTTGTGGACTTTCAAAAAAAAA
Found at i:92772 original size:1 final size:1
Alignment explanation
Indices: 92761--92860 Score: 56
Period size: 1 Copynumber: 100.0 Consensus size: 1
92751 TCCGGACCCC
* * * * * * * * *
92761 TTTTTTGTTTTTGTTTATTTTTTTATTGTTTTTGTTTTTTTTTCTTTTGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** * **
92826 TTCATTCATTTTTTTTGTTTTTTCATTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
92861 GGAGGACGCC
Statistics
Matches: 70, Mismatches: 29, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.05, C:0.04, G:0.07, T:0.84
Consensus pattern (1 bp):
T
Found at i:92789 original size:15 final size:13
Alignment explanation
Indices: 92761--92827 Score: 71
Period size: 15 Copynumber: 4.8 Consensus size: 13
92751 TCCGGACCCC
*
92761 TTTTTTGTTTTTG
1 TTTTTTTTTTTTG
92774 TTTATTTTTTTATTG
1 TTT-TTTTTTT-TTG
*
92789 TTTTTGTTTTTTTT
1 TTTTT-TTTTTTTG
92803 TCTTTTGTTTTTTTG
1 T-TTTT-TTTTTTTG
92818 TTTTTTTTTT
1 TTTTTTTTTT
92828 CATTCATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
13 8 0.17
14 15 0.32
15 24 0.51
ACGTcount: A:0.03, C:0.01, G:0.09, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:92791 original size:21 final size:20
Alignment explanation
Indices: 92761--92857 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 20
92751 TCCGGACCCC
92761 TTTT-TTGTTTTTGTTTATTT
1 TTTTATTGTTTTTGTTT-TTT
92781 TTTTATTGTTTTTGTTTTTT
1 TTTTATTGTTTTTGTTTTTT
*
92801 TTTCTTTTGTTTTTTTGTTTTTT
1 TTT-TATTG--TTTTTGTTTTTT
*
92824 TTTTCATTCATTTTT-TTTGTTT
1 TTTT-ATT-GTTTTTGTTT-TTT
*
92846 TTTCATT-TTTTT
1 TTTTATTGTTTTT
92858 TTTGGAGGAC
Statistics
Matches: 66, Mismatches: 4, Indels: 15
0.78 0.05 0.18
Matches are distributed among these distances:
19 5 0.08
20 10 0.15
21 22 0.33
22 12 0.18
23 17 0.26
ACGTcount: A:0.05, C:0.04, G:0.07, T:0.84
Consensus pattern (20 bp):
TTTTATTGTTTTTGTTTTTT
Found at i:92816 original size:44 final size:44
Alignment explanation
Indices: 92760--92861 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 44
92750 ATCCGGACCC
*
92760 CTTTTTTGTTTTTGTTTATTTTTTT-ATT-GTTTTTGTTT-TTTTTT
1 CTTTTTT-TTTTTGTTT-TTTTTTTCATTCATTTTT-TTTGTTTTTT
92804 CTTTTGTTTTTTTGTTTTTTTTTTCATTCATTTTTTTTGTTTTTT
1 CTTTT-TTTTTTTGTTTTTTTTTTCATTCATTTTTTTTGTTTTTT
*
92849 CATTTTTTTTTTG
1 CTTTTTTTTTTTG
92862 GAGGACGCCG
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
43 7 0.13
44 28 0.54
45 17 0.33
ACGTcount: A:0.05, C:0.05, G:0.08, T:0.82
Consensus pattern (44 bp):
CTTTTTTTTTTTGTTTTTTTTTTCATTCATTTTTTTTGTTTTTT
Found at i:106790 original size:52 final size:51
Alignment explanation
Indices: 106712--106827 Score: 205
Period size: 52 Copynumber: 2.3 Consensus size: 51
106702 AGTTGCTTGT
*
106712 ATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTGCCTGC
*
106764 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTGCCTGC
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGCCTGC
106815 ATGTATCGATACA
1 ATGTATCGATACA
106828 AAGATCAGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 21 0.34
52 41 0.66
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
ATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGCCTGC
Found at i:106840 original size:51 final size:52
Alignment explanation
Indices: 106712--106847 Score: 188
Period size: 52 Copynumber: 2.6 Consensus size: 52
106702 AGTTGCTTGT
*
106712 ATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
*** *
106764 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-TTGCCTGC
1 ATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
106815 ATGTATCGATACA-AAGATCAGTGTATCGATACA
1 ATGTATCGATACATAAGAT-AGTGTATCGATACA
106848 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
50 2 0.03
51 36 0.47
52 38 0.50
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
ATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
Found at i:106854 original size:13 final size:13
Alignment explanation
Indices: 106836--106860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106826 CAAAGATCAG
106836 TGTATCGATACAA
1 TGTATCGATACAA
106849 TGTATCGATACA
1 TGTATCGATACA
106861 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:106938 original size:33 final size:33
Alignment explanation
Indices: 106901--106967 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
106891 AGTAGCTTAA
106901 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
106934 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
106967 A
1 A
106968 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:106941 original size:13 final size:13
Alignment explanation
Indices: 106923--106947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106913 CAAAAAAATA
106923 TGTATCGATACAT
1 TGTATCGATACAT
106936 TGTATCGATACA
1 TGTATCGATACA
106948 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:108946 original size:8 final size:8
Alignment explanation
Indices: 108918--108965 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
108908 AGAAGAGACA
*
108918 AAAAAAAC
1 AAAAAAAT
108926 AACAAACAAT
1 AA-AAA-AAT
108936 AAAAAAAT
1 AAAAAAAT
*
108944 AAAAAAAAC
1 -AAAAAAAT
108953 AAAAAAAT
1 AAAAAAAT
108961 AAAAA
1 AAAAA
108966 CAACGAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 17 0.50
9 13 0.38
10 4 0.12
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.06
Consensus pattern (8 bp):
AAAAAAAT
Found at i:108956 original size:17 final size:17
Alignment explanation
Indices: 108897--108974 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 17
108887 GCGTCCTTCG
*
108897 CAAAAAAAAAAAGAAGAGA
1 CAAAAAAAAAAA-AACA-A
108916 CAAAAAAAACAACAAACAA
1 CAAAAAAAA-AA-AAACAA
*
108935 TAAAAAAATAAAAAA-AA
1 CAAAAAAA-AAAAAACAA
*
108952 CAAAAAAATAAAAACAA
1 CAAAAAAAAAAAAACAA
*
108969 CGAAAA
1 CAAAAA
108975 GGGTCCGGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
16 5 0.10
17 16 0.32
18 3 0.06
19 19 0.38
20 6 0.12
21 1 0.02
ACGTcount: A:0.81, C:0.10, G:0.05, T:0.04
Consensus pattern (17 bp):
CAAAAAAAAAAAAACAA
Found at i:108974 original size:27 final size:27
Alignment explanation
Indices: 108917--108974 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
108907 AAGAAGAGAC
*
108917 AAAAAAAACAACAAACAATAAAAAAAT
1 AAAAAAAACAACAAACAATAAAAAAAG
108944 AAAAAAAACAA-AAA-AATAAAAACAACG
1 AAAAAAAACAACAAACAATAAAAA-AA-G
108971 AAAA
1 AAAA
108975 GGGTCCGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.29
26 5 0.18
27 15 0.54
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (27 bp):
AAAAAAAACAACAAACAATAAAAAAAG
Found at i:110446 original size:28 final size:28
Alignment explanation
Indices: 110408--110579 Score: 211
Period size: 28 Copynumber: 6.1 Consensus size: 28
110398 TCCTCACCCT
*
110408 TTCAAAAGCCCACAAGTCAGTGGTAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
110436 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
*
110464 TTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
110492 TTTTCCAAAGCCCACAAGTCAGTGGCATCTT
1 --TTCAAAAGCCCACAAGTCAGTGGCAAC-C
* * *
110523 TTCCAAAGCCCACAAGCCAATGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
110551 TTCAAAAGTCCACAACTCCGTGGC-ACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
110578 TT
1 TT
110580 TTTTTTTTAA
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
27 5 0.04
28 72 0.57
29 24 0.19
30 25 0.20
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (28 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:110549 original size:87 final size:86
Alignment explanation
Indices: 110402--110582 Score: 247
Period size: 87 Copynumber: 2.1 Consensus size: 86
110392 AGATGTTCCT
* * *
110402 CACCC-TTTCAAAAGCCCACAAGTCAGTGGTAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTT
1 CACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGCCAATGGCAACCTT
*
110466 CAAAAGCCCACAAGTCAGTGG
66 CAAAAGCCCACAACTCAGTGG
* * * *
110487 CACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGCCAATGGCAACCT
1 CACCCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGCCAATGGCAACCT
* *
110552 TCAAAAGTCCACAACTCCGTGG
65 TCAAAAGCCCACAACTCAGTGG
*
110574 CACCTTTTT
1 CACCCTTTT
110583 TTTTTAAAGC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
85 5 0.06
86 25 0.30
87 53 0.64
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (86 bp):
CACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGCCAATGGCAACCTT
CAAAAGCCCACAACTCAGTGG
Found at i:110627 original size:34 final size:34
Alignment explanation
Indices: 110560--110717 Score: 221
Period size: 34 Copynumber: 4.7 Consensus size: 34
110550 CTTCAAAAGT
*
110560 CCACAACTCCGTGGCAC-CTTTTT-TTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGC
*
110593 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
110627 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAAC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
110661 CCACAACTCCATGACACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
110695 CCACAACTCCGTGACACCCTTTT
1 CCACAACTCCGTGGCACTCTTTT
110718 AAGCCTACAA
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
33 16 0.14
34 93 0.82
35 4 0.04
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.35
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:110758 original size:30 final size:28
Alignment explanation
Indices: 110718--110810 Score: 86
Period size: 30 Copynumber: 3.3 Consensus size: 28
110708 ACACCCTTTT
*
110718 AAGCCTACAAGTCGGTGGCACCCCTTTCAA
1 AAGCCCACAAGTC-GTGGCA-CCCTTTCAA
* *
110748 AAGCCCACAAGTTAGTGGCAACC-TTCAA
1 AAGCCCACAAG-TCGTGGCACCCTTTCAA
*
110776 AAGCACACAAG-C-T-GCAACCCTTTCAA
1 AAGCCCACAAGTCGTGGC-ACCCTTTCAA
110802 AAGCCCACA
1 AAGCCCACA
110811 CAAGTTGGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
24 2 0.04
25 4 0.08
26 13 0.25
28 15 0.28
29 2 0.04
30 16 0.30
31 1 0.02
ACGTcount: A:0.34, C:0.33, G:0.16, T:0.16
Consensus pattern (28 bp):
AAGCCCACAAGTCGTGGCACCCTTTCAA
Found at i:110810 original size:28 final size:28
Alignment explanation
Indices: 110732--110815 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
110722 CTACAAGTCG
*
110732 GTGGCACCCCTTTCAAAAGCCCACA-AGTTA
1 GTGGCAACCCTTTCAAAAGCCCACACA---A
110762 GTGGCAA-CC-TTCAAAAG--CACACAA
1 GTGGCAACCCTTTCAAAAGCCCACACAA
110786 GCT-GCAACCCTTTCAAAAGCCCACACAA
1 G-TGGCAACCCTTTCAAAAGCCCACACAA
110814 GT
1 GT
110816 TGGTGGCGTC
Statistics
Matches: 47, Mismatches: 1, Indels: 15
0.75 0.02 0.24
Matches are distributed among these distances:
24 6 0.13
25 3 0.06
26 12 0.26
27 2 0.04
28 16 0.34
29 2 0.04
30 6 0.13
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.17
Consensus pattern (28 bp):
GTGGCAACCCTTTCAAAAGCCCACACAA
Found at i:111082 original size:87 final size:87
Alignment explanation
Indices: 110832--111273 Score: 470
Period size: 87 Copynumber: 4.9 Consensus size: 87
110822 CGTCTTCTTC
* * * *
110832 TAAGTCCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGA-CCAATGTCGC
* * **
110897 TGACCTTGAATCAGCATATTAACA
64 TGGCCTTGAATCAGCACATTGGCA
* * ** ** *
110921 CCTTTAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGCACCGACATCTTTATGACCAATGT
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGT
*
110986 TGCTGGCCTTGAATCAGCACATTGGCA
61 CGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
111013 TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTCCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
*
111078 GCCTTGAATCAGCACATTGGTACCT
66 GCCTTGAATCAGCACATTGG---CA
* * *
111103 TCAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTTGCT
1 T-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCT
* *
111168 AGTCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * * * * *
111191 CAAGCCCAGTATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGACCGACGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
*
111256 GGCCTTGAATTAGCACAT
65 GGCCTTGAATCAGCACAT
111274 CGACACCTCA
Statistics
Matches: 292, Mismatches: 52, Indels: 15
0.81 0.14 0.04
Matches are distributed among these distances:
87 76 0.26
88 67 0.23
90 2 0.01
91 74 0.25
92 28 0.10
93 45 0.15
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:111097 original size:48 final size:48
Alignment explanation
Indices: 111013--111581 Score: 295
Period size: 48 Copynumber: 11.8 Consensus size: 48
111003 CACATTGGCA
* * ** *
111013 TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * *
111061 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACC-T-TC--
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * *
111105 -AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACTTTATCTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * * * *
111152 TAAGACCAATGTTGCTAGTCTTGAATCAGCACATTGG---C--A-C--
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * *
111192 -AAGCCCAGTATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
* * ** * * * * *
111240 TAAGACCGACGTCGTTGGCCTTGAATTAGCACATCGACACCTCAACCATCTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT----TATCTT
* * * *
111292 TAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACATCATCTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * * *
111340 TAAGTCCAATATCGCTGGCCTTAAATCAGCACATTAGCACCTTCATCCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
** ** * * * * *
111389 TAAATCCGCTATCGTTGGCCTTGAATCAACATATTGGCATCTTTAACATT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTTATC-TT
* * * ** * ** *
111439 CCTAAGCCCAATGTTGCTGGCCGTGTCTCAGCACGTTGGCATTTTTTCTT
1 --TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * * * * * * *
111489 CAAGTCTAATGTCGCTGACCGTAAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CC----T-T-ATCTT
* * *
111544 TAAG-CCAATATCGTTGGCCGTGAATCAGCATATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
111582 TCTTTATCAT
Statistics
Matches: 384, Mismatches: 106, Indels: 56
0.70 0.19 0.10
Matches are distributed among these distances:
39 28 0.07
42 2 0.01
43 35 0.09
44 1 0.00
45 3 0.01
46 3 0.01
47 1 0.00
48 134 0.35
49 67 0.17
50 6 0.02
51 4 0.01
52 64 0.17
53 1 0.00
54 28 0.07
55 7 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (48 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
Found at i:111139 original size:179 final size:177
Alignment explanation
Indices: 110832--111374 Score: 618
Period size: 179 Copynumber: 3.0 Consensus size: 177
110822 CGTCTTCTTC
* * * *
110832 TAAGTCCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGA-CCAATGTCGC
* * * * * *
110897 TGACCTTGAATCAGCATATTAACACCTTTAAGTCCGATATCATTGGCCTTGAATCAGCATATTGG
64 TGGCCTTGAATCAGCACATTGATACCTTTAAGCCCAATATCATTGGCCTTGAATCAGCATATTGG
*
110962 CACCGACATCTTTATGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
129 CA-C-ACATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
111013 TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTCCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
* * *
111078 GCCTTGAATCAGCACATTGGTACCTTCAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCA
66 GCCTTGAATCAGCACATTGATACCTTTAAGCCCAATATCATTGGCCTTGAATCAGCATATTGGCA
** * *
111143 CTTTATCTTTAAGACCAATGTTGCTAGTCTTGAATCAGCACATTGGCA
131 C-ACATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
* * * * * *
111191 CAAGCCCAGTATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGACCGACGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
* * *
111256 GGCCTTGAATTAGCACATCGACACCTCAACCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAG
65 GGCCTTGAATCAGCACATTG--A--T--A-C--CTTTAAGCCCAATATCATTGGCCTTGAATCAG
* * * *
111321 CATATTGGCACATCATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATT
121 CATATTGGCACA-CATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATT
111375 AGCACCTTCA
Statistics
Matches: 302, Mismatches: 49, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
178 79 0.26
179 101 0.33
180 9 0.03
181 36 0.12
183 1 0.00
185 1 0.00
186 1 0.00
188 74 0.25
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (177 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGATACCTTTAAGCCCAATATCATTGGCCTTGAATCAGCATATTGGCA
CACATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
Found at i:111307 original size:52 final size:48
Alignment explanation
Indices: 111192--111373 Score: 141
Period size: 52 Copynumber: 3.7 Consensus size: 48
111182 ACATTGGCAC
* * * * * *
111192 AAGCCCAGTATCGCTGGCCTTAAATCAGCATATTGGCAC-CTTCATCTTT
1 AAGCCCAATATCGTTGGCCTTGAATCAGCACATCGACACAC--CATCTTT
* * ** *
111241 AAGACCGACGTCGTTGGCCTTGAATTAGCACATCGACACCTCAACCATCTTT
1 AAGCCCAATATCGTTGGCCTTGAATCAGCACATCGACA---C-ACCATCTTT
* * * *
111293 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACATCATCTTT
1 AAGCCCAATATCGTTGGCCTTGAATCAGCACATCGACACACCATCTTT
* * *
111341 AAGTCCAATATCGCTGGCCTTAAATCAGCACAT
1 AAGCCCAATATCGTTGGCCTTGAATCAGCACAT
111374 TAGCACCTTC
Statistics
Matches: 104, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
48 37 0.36
49 28 0.27
52 38 0.37
54 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (48 bp):
AAGCCCAATATCGTTGGCCTTGAATCAGCACATCGACACACCATCTTT
Found at i:111408 original size:49 final size:49
Alignment explanation
Indices: 111200--111427 Score: 199
Period size: 49 Copynumber: 4.6 Consensus size: 49
111190 ACAAGCCCAG
* * * *
111200 TATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGA-CCGA
1 TATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA-ATCCAA
** * * * * **
111249 CGTCGTTGGCCTTGAATTAGCACATCGACACCTCAACCATCTTTAAGCCCAA
1 TATCGTTGGCCTTGAATCAGCACATTGGCACCT---TCATCTTTAAATCCAA
* * *
111301 TATCGTTGGCCTTGAATCAGCATATTGGCA-CATCATCTTTAAGTCCAA
1 TATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAA
* * * * **
111349 TATCGCTGGCCTTAAATCAGCACATTAGCACCTTCATCCTTAAATCCGC
1 TATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAA
* *
111398 TATCGTTGGCCTTGAATCAACATATTGGCA
1 TATCGTTGGCCTTGAATCAGCACATTGGCA
111428 TCTTTAACAT
Statistics
Matches: 140, Mismatches: 34, Indels: 10
0.76 0.18 0.05
Matches are distributed among these distances:
48 40 0.29
49 63 0.45
51 1 0.01
52 36 0.26
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (49 bp):
TATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAA
Found at i:111470 original size:149 final size:149
Alignment explanation
Indices: 111191--111523 Score: 323
Period size: 149 Copynumber: 2.2 Consensus size: 149
111181 CACATTGGCA
* * * * * *
111191 CAAGCCCAGTATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGACCGACGTCGTT
1 CAAGTCCAATATCGCTGGCCTTAAATCAGCACATTAGCACCTTCATCCTTAAGACCGACATCGTT
* * * * *
111256 GGCCTTGAATTAGCACATCGACACCTCAACCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAG
66 GGCCTTGAATCAACACATCGACACCTCAACCATCTCTAAGCCCAATATCGCTGGCCGTGAATCAG
*
111321 CATATTGGCACATCATCTT
131 CACATTGGCACATCATCTT
*
111340 TAAGTCCAATATCGCTGGCCTTAAATCAGCACATTAGCACCTTCATCCTTAA-ATCCG-CTATCG
1 CAAGTCCAATATCGCTGGCCTTAAATCAGCACATTAGCACCTTCATCCTTAAGA-CCGAC-ATCG
* * * * * * * **
111403 TTGGCCTTGAATCAACATATTGGCATCTTTAA-CAT-TCCTAAGCCCAATGTTGCTGGCCGTGTC
64 TTGGCCTTGAATCAACACATCGACA-CCTCAACCATCT-CTAAGCCCAATATCGCTGGCCGTGAA
* ** **
111466 TCAGCACGTTGGCATTTTTTCTT
127 TCAGCACATTGGCACATCATCTT
* * * *
111489 CAAGTCTAATGTCGCTGACCGTAAATCAGCACATT
1 CAAGTCCAATATCGCTGGCCTTAAATCAGCACATT
111524 GACATCCTTT
Statistics
Matches: 148, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
148 3 0.02
149 141 0.95
150 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (149 bp):
CAAGTCCAATATCGCTGGCCTTAAATCAGCACATTAGCACCTTCATCCTTAAGACCGACATCGTT
GGCCTTGAATCAACACATCGACACCTCAACCATCTCTAAGCCCAATATCGCTGGCCGTGAATCAG
CACATTGGCACATCATCTT
Found at i:112416 original size:19 final size:19
Alignment explanation
Indices: 112392--112441 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
112382 ATCGATACAA
*
112392 TGTATCAATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
112411 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
112430 TGTATCGATACA
1 TGTATCGATACA
112442 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:112494 original size:20 final size:20
Alignment explanation
Indices: 112469--112506 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
112459 TACTACCAAG
112469 GAAATGTATCGATACATTAC
1 GAAATGTATCGATACATTAC
112489 GAAATGTATCGATACATT
1 GAAATGTATCGATACATT
112507 GTATCGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
GAAATGTATCGATACATTAC
Found at i:112511 original size:13 final size:13
Alignment explanation
Indices: 112493--112518 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
112483 CATTACGAAA
112493 TGTATCGATACAT
1 TGTATCGATACAT
112506 TGTATCGATACAT
1 TGTATCGATACAT
112519 AGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:116539 original size:51 final size:51
Alignment explanation
Indices: 116496--116601 Score: 176
Period size: 51 Copynumber: 2.1 Consensus size: 51
116486 TATCGGTAGA
*
116496 TTGGATAAAAAATCCAAAATGTATCGATACAAAGCAAATTGTATCGATACAT
1 TTGGAT-AAAAACCCAAAATGTATCGATACAAAGCAAATTGTATCGATACAT
**
116548 TTGGATAAAAACCCGGAATGTATCGATACAAAGCAAATTGTATCGATACAT
1 TTGGATAAAAACCCAAAATGTATCGATACAAAGCAAATTGTATCGATACAT
116599 TTG
1 TTG
116602 AGAATGTATC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 45 0.88
52 6 0.12
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (51 bp):
TTGGATAAAAACCCAAAATGTATCGATACAAAGCAAATTGTATCGATACAT
Found at i:116640 original size:20 final size:20
Alignment explanation
Indices: 116586--116632 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
116576 CAAAGCAAAT
116586 TGTATCGATACATTTGAGAA
1 TGTATCGATACATTTGAGAA
*
116606 TGTATCGATACATTTGGGAA
1 TGTATCGATACATTTGAGAA
116626 TGTATCG
1 TGTATCG
116633 CATCATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTGAGAA
Found at i:116738 original size:20 final size:20
Alignment explanation
Indices: 116713--116759 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
116703 AAATATGTAC
116713 CAATACATTCACTTA-GGTAT
1 CAATACATTCAC-TACGGTAT
*
116733 CAATACATTCACTACTGTAT
1 CAATACATTCACTACGGTAT
116753 CAATACA
1 CAATACA
116760 AAGCAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (20 bp):
CAATACATTCACTACGGTAT
Found at i:116853 original size:81 final size:80
Alignment explanation
Indices: 116606--116864 Score: 242
Period size: 81 Copynumber: 3.2 Consensus size: 80
116596 CATTTGAGAA
*
116606 TGTATCGATACATTTGGGAATGTATCGCATCATTTACTTTTGTATCAATATAGTTTTTTTGACCA
1 TGTATCGATACATTTGGGAATGTATCGAATCATTTACTTTTGTATCAATATAGTTTTTTTGACC-
116671 AAATGTAACATGGTCC
65 AAATGTAACATGGTCC
** * * ** * * **
116687 TGTATCGATACATTTGAAATATGTA-CCAATACATTCACTTAGGTATCAATACA-TTCACTACTG
1 TGTATCGATACATTTGGGA-ATGTATCGAAT-CATTTACTTTTGTATCAATATAGTT--TTTTTG
* ** **
116750 TATC-AATACAAAGCA-AAT--
62 -ACCAAAT-GTAA-CATGGTCC
*
116768 TGTATCGATACATTTGGGAATGTATCGAATCATTTACTTTTGTATCGATATAGTTTTTTTGACCA
1 TGTATCGATACATTTGGGAATGTATCGAATCATTTACTTTTGTATCAATATAGTTTTTTTGACCA
116833 GAATGTAACATGGTCC
66 -AATGTAACATGGTCC
116849 TGTATCGATACATTTG
1 TGTATCGATACATTTG
116865 AAATATGTAC
Statistics
Matches: 132, Mismatches: 32, Indels: 28
0.69 0.17 0.15
Matches are distributed among these distances:
78 4 0.03
79 6 0.05
80 25 0.19
81 61 0.46
82 26 0.20
83 6 0.05
84 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (80 bp):
TGTATCGATACATTTGGGAATGTATCGAATCATTTACTTTTGTATCAATATAGTTTTTTTGACCA
AATGTAACATGGTCC
Found at i:116873 original size:162 final size:162
Alignment explanation
Indices: 116606--116905 Score: 555
Period size: 162 Copynumber: 1.9 Consensus size: 162
116596 CATTTGAGAA
*
116606 TGTATCGATACATTTGGGAATGTATCGCATCATTTACTTTTGTATCAATATAGTTTTTTTGACCA
1 TGTATCGATACATTTGGGAATGTATCGAATCATTTACTTTTGTATCAATATAGTTTTTTTGACCA
*
116671 AAATGTAACATGGTCCTGTATCGATACATTTGAAATATGTACCAATACATTCACTTAGGTATCAA
66 AAATGTAACATGGTCCTGTATCGATACATTTGAAATATGTACCAACACATTCACTTAGGTATCAA
116736 TACATTCACTACTGTATCAATACAAAGCAAAT
131 TACATTCACTACTGTATCAATACAAAGCAAAT
*
116768 TGTATCGATACATTTGGGAATGTATCGAATCATTTACTTTTGTATCGATATAGTTTTTTTGACCA
1 TGTATCGATACATTTGGGAATGTATCGAATCATTTACTTTTGTATCAATATAGTTTTTTTGACCA
* *
116833 GAATGTAACATGGTCCTGTATCGATACATTTGAAATATGTACCAACACATTCACTTAGGTATCGA
66 AAATGTAACATGGTCCTGTATCGATACATTTGAAATATGTACCAACACATTCACTTAGGTATCAA
116898 TACATTCA
131 TACATTCA
116906 TGTATTGATA
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 133 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (162 bp):
TGTATCGATACATTTGGGAATGTATCGAATCATTTACTTTTGTATCAATATAGTTTTTTTGACCA
AAATGTAACATGGTCCTGTATCGATACATTTGAAATATGTACCAACACATTCACTTAGGTATCAA
TACATTCACTACTGTATCAATACAAAGCAAAT
Found at i:122683 original size:14 final size:14
Alignment explanation
Indices: 122657--122716 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
122647 TAAAAAAAAG
122657 AAAAAAATGAAATA
1 AAAAAAATGAAATA
122671 AAAATAAAT-AAATA
1 AAAA-AAATGAAATA
* * *
122685 ATACAAAGGAAATA
1 AAAAAAATGAAATA
*
122699 AAGAAAA--AAATA
1 AAAAAAATGAAATA
122711 AAAAAA
1 AAAAAA
122717 TCAAATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
12 10 0.27
13 3 0.08
14 20 0.54
15 4 0.11
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (14 bp):
AAAAAAATGAAATA
Found at i:124211 original size:42 final size:41
Alignment explanation
Indices: 124148--124284 Score: 114
Period size: 42 Copynumber: 3.3 Consensus size: 41
124138 ATCTTAGAAG
* *
124148 ACTTGTCAGCTCAGTCTCTAGTCAACCTTCATCTCTTTGTTT
1 ACTTGTCAGCTTAGTCCCTAGTCAACCTTCATC-CTTTGTTT
* * * * * *
124190 ACTTGTCAGCTTAGTCCCTAGTAAACCCTTTACCCCTATGGTC
1 ACTTGTCAGCTTAGTCCCTAGTCAA-CCTTCA-TCCTTTGTTT
* * * *
124233 ACCTGTCAGCTTAATCTCCGA-TCAACCTTCATCCTTTATTT
1 ACTTGTCAGCTTAGTC-CCTAGTCAACCTTCATCCTTTGTTT
*
124274 ACTAGTCAGCT
1 ACTTGTCAGCT
124285 CAGTTTTGAT
Statistics
Matches: 72, Mismatches: 20, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
41 14 0.19
42 27 0.38
43 27 0.38
44 4 0.06
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (41 bp):
ACTTGTCAGCTTAGTCCCTAGTCAACCTTCATCCTTTGTTT
Found at i:124470 original size:85 final size:84
Alignment explanation
Indices: 124303--124512 Score: 214
Period size: 85 Copynumber: 2.5 Consensus size: 84
124293 ATAAACACCT
* * * * * * *
124303 TTTATCCTTTGTCTACCTGTCAACTCAGTCCCGGA-AGATACC-ATTACCCCTATGGTGACCTGT
1 TTTATCCTTTATTTACCTATCGACTCAGTCCCCGATA-A-ACCTTTTACCCCTATAGTGACCTGT
124366 CAGTTCAGTTTTCGATCAACC
64 CAGTTCAGTTTTCGATCAACC
* * *
124387 TTCATAT-CTTTGTTTACCTGTCGACTTAGTCCCCGATAAACCTTTTACCCCTATAGTGACCTGT
1 TT--TATCCTTTATTTACCTATCGACTCAGTCCCCGATAAACCTTTTACCCCTATAGTGACCTGT
*
124451 CAGCTT-AGTCTTT-GGTCAACC
64 CAG-TTCAGT-TTTCGATCAACC
* *
124472 TTTATCCTTTATTTACTTATCGGCTCAGTCCCCGATAAACC
1 TTTATCCTTTATTTACCTATCGACTCAGTCCCCGATAAACC
124513 CCTTACCTTT
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
83 3 0.03
84 35 0.33
85 60 0.56
86 9 0.08
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (84 bp):
TTTATCCTTTATTTACCTATCGACTCAGTCCCCGATAAACCTTTTACCCCTATAGTGACCTGTCA
GTTCAGTTTTCGATCAACC
Found at i:124530 original size:84 final size:84
Alignment explanation
Indices: 124346--124541 Score: 218
Period size: 84 Copynumber: 2.3 Consensus size: 84
124336 GAAGATACCA
* *
124346 TTACCCCTATGGTGACCTGTCAG-TTCAGTTTTCGATCAACCTTCATATCTTTGTTTACCTGTCG
1 TTACCCCTATGGTGACCTGTCAGCTT-AGTTTTCGATCAACCTT-ATATCTTTATTTACCTATCG
* **
124410 ACTTAGTCCCCGATAAACCTT
64 ACTCAGTCCCCGATAAACCCC
* * *
124431 TTACCCCTATAGTGACCTGTCAGCTTAGTCTTT-GGTCAACCTT-TATCCTTTATTTACTTATCG
1 TTACCCCTATGGTGACCTGTCAGCTTAGT-TTTCGATCAACCTTATAT-CTTTATTTACCTATCG
*
124494 GCTCAGTCCCCGATAAACCCC
64 ACTCAGTCCCCGATAAACCCC
** * *
124515 TTACCTTTTTGGTGACTTGTCAGCTTA
1 TTACCCCTATGGTGACCTGTCAGCTTA
124542 ATCTCTGATC
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
83 3 0.03
84 52 0.55
85 34 0.36
86 5 0.05
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.38
Consensus pattern (84 bp):
TTACCCCTATGGTGACCTGTCAGCTTAGTTTTCGATCAACCTTATATCTTTATTTACCTATCGAC
TCAGTCCCCGATAAACCCC
Found at i:126534 original size:13 final size:14
Alignment explanation
Indices: 126516--126548 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
126506 AAAGGAACTG
126516 AAAAAAAG-AAGAA
1 AAAAAAAGAAAGAA
126529 AAAAAAAGAAAGAA
1 AAAAAAAGAAAGAA
126543 AAAAAA
1 AAAAAA
126549 CTTGGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAGAA
Found at i:129617 original size:39 final size:40
Alignment explanation
Indices: 129568--129664 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 40
129558 ATTAGTCGTA
* * *
129568 CTTTTCAAATTTCAATAAATAATCCATACATTACTAATAT
1 CTTTTAAAATTTCAATAAAAAATCCATACATTAATAATAT
*
129608 CTTTT-AAA-TTCTAATAAAAAATTCATACATTAATAATAT
1 CTTTTAAAATTTC-AATAAAAAATCCATACATTAATAATAT
129647 CTTTTAAAATTT-AATAAA
1 CTTTTAAAATTTCAATAAA
129665 CTTTAAGTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
38 3 0.06
39 38 0.75
40 8 0.16
41 2 0.04
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (40 bp):
CTTTTAAAATTTCAATAAAAAATCCATACATTAATAATAT
Found at i:130332 original size:2 final size:2
Alignment explanation
Indices: 130325--130382 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
130315 AACATAAAGG
130325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130367 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
130383 CGAATTTACT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130646 original size:24 final size:23
Alignment explanation
Indices: 130609--130659 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
130599 TTAAATTTTT
**
130609 TAATTTATTCAAATTTAATATACA
1 TAATTTATTCAAATAAAATATA-A
130633 TAATTTATAT-AAATAAAATATAA
1 TAATTTAT-TCAAATAAAATATAA
130656 TAAT
1 TAAT
130660 ATAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 18 0.75
25 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATTTATTCAAATAAAATATAA
Found at i:130662 original size:8 final size:8
Alignment explanation
Indices: 130624--130679 Score: 62
Period size: 8 Copynumber: 7.0 Consensus size: 8
130614 TATTCAAATT
130624 TAATATACA
1 TAATATA-A
*
130633 TAATTTATA
1 TAATATA-A
130642 TAA-ATAA
1 TAATATAA
130649 -AATATAA
1 TAATATAA
130656 TAATATAA
1 TAATATAA
130664 TAATATAA
1 TAATATAA
*
130672 TAAAATAA
1 TAATATAA
130680 ATATAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
6 2 0.05
7 5 0.12
8 24 0.59
9 10 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
TAATATAA
Found at i:131662 original size:15 final size:16
Alignment explanation
Indices: 131632--131669 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
131622 ATTAGTGATG
131632 AATTTAAAATATTTATA
1 AATTT-AAATATTTATA
131649 AATTTAAA-ATTTATA
1 AATTTAAATATTTATA
*
131664 TATTTA
1 AATTTA
131670 TTTTTTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 3 0.15
17 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTAAATATTTATA
Found at i:132634 original size:2 final size:2
Alignment explanation
Indices: 132627--132651 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
132617 CTTTATAGAC
132627 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
132652 TTGGGGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:135379 original size:23 final size:23
Alignment explanation
Indices: 135351--135394 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
135341 GTTATGCATA
*
135351 TTTATAAATTTTAAATTTATATT
1 TTTATAAATTTTAAATATATATT
**
135374 TTTATACTTTTTAAATATATA
1 TTTATAAATTTTAAATATATA
135395 ATTATATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTATAAATTTTAAATATATATT
Found at i:141280 original size:21 final size:21
Alignment explanation
Indices: 141238--141297 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
141228 GAATTAGAGG
141238 AGAAAATGAATGAGTTAGAAA
1 AGAAAATGAATGAGTTAGAAA
141259 AGAAAA-GAAATGAGTT-GCAAA
1 AGAAAATG-AATGAGTTAG-AAA
141280 ATGAAAATG-ATGAGTTAG
1 A-GAAAATGAATGAGTTAG
141298 CTAATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 2 0.06
21 25 0.74
22 6 0.18
23 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.25, T:0.20
Consensus pattern (21 bp):
AGAAAATGAATGAGTTAGAAA
Found at i:142798 original size:13 final size:13
Alignment explanation
Indices: 142780--142805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
142770 ACAATCAAAT
142780 TTATATCGATATA
1 TTATATCGATATA
142793 TTATATCGATATA
1 TTATATCGATATA
142806 ATTTTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TTATATCGATATA
Found at i:144150 original size:10 final size:10
Alignment explanation
Indices: 144135--144193 Score: 66
Period size: 10 Copynumber: 5.7 Consensus size: 10
144125 CTCATTTTTT
144135 TCACTGTTCA
1 TCACTGTTCA
144145 TCACTGTTCA
1 TCACTGTTCA
144155 TCACTGTTCA
1 TCACTGTTCA
* *
144165 TGTA-TCGATACA
1 T-CACT-G-TTCA
144177 TCACTGTTCA
1 TCACTGTTCA
144187 TCACTGT
1 TCACTGT
144194 ACATTGAGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 32 0.78
11 4 0.10
12 5 0.12
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:144247 original size:22 final size:22
Alignment explanation
Indices: 144219--144272 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
144209 GCTATATTTT
144219 TCACTGTTCATGTATCGATACA
1 TCACTGTTCATGTATCGATACA
*
144241 TCACTGTTCATGTCTCGATACA
1 TCACTGTTCATGTATCGATACA
144263 TCACTGTTCA
1 TCACTGTTCA
144273 CACTATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (22 bp):
TCACTGTTCATGTATCGATACA
Found at i:144307 original size:86 final size:85
Alignment explanation
Indices: 144153--144326 Score: 221
Period size: 86 Copynumber: 2.0 Consensus size: 85
144143 CATCACTGTT
** *
144153 CATCACTGTTCATGTATCGATACATCACTGTTCATCACTGTACATTGAGCCCAACGGCTATATTT
1 CATCACTGTTCATGTATCGATACATCACTGTTCATCACTGTACATAAAGCCCAACGGCTATATAT
*
144218 TTC-ACTGTTCATGTATCGATA
66 TTCAAATG--CATGTATCGATA
* *
144239 CATCACTGTTCATGTCTCGATACATCACTGTTCA-CACTATTTA-ATAAAAGCCCAACGGCTATA
1 CATCACTGTTCATGTATCGATACATCACTGTTCATCAC--TGTACAT-AAAGCCCAACGGCTATA
144302 -ATTTCAAATGCATGTATCGATA
63 TATTTCAAATGCATGTATCGATA
144324 CAT
1 CAT
144327 TATGAATTGT
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
85 18 0.23
86 39 0.50
87 21 0.27
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (85 bp):
CATCACTGTTCATGTATCGATACATCACTGTTCATCACTGTACATAAAGCCCAACGGCTATATAT
TTCAAATGCATGTATCGATA
Found at i:144775 original size:34 final size:35
Alignment explanation
Indices: 144712--144778 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
144702 CTAAGTGATT
144712 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
144748 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
144779 TGTTGTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:145896 original size:21 final size:21
Alignment explanation
Indices: 145870--145911 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
145860 AATCAACCGT
* *
145870 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
145891 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
145912 AGAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:146470 original size:84 final size:84
Alignment explanation
Indices: 146297--146457 Score: 193
Period size: 84 Copynumber: 1.9 Consensus size: 84
146287 ACTCAAAGAA
* * * *
146297 GAAAATAAATCAATAAGTGTAGAGAATGATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAA
*
146362 TATGAAAGAGTTACAAAAT
66 TAAGAAAGAGTTACAAAAT
* * * *
146381 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATTGGAGGAG
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
146444 AA-AAGAAATGAGTT
64 AATAAGAAA-GAGTT
146458 GCAAGTGGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
82 4 0.06
83 6 0.09
84 55 0.85
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAA
TAAGAAAGAGTTACAAAAT
Found at i:147420 original size:17 final size:18
Alignment explanation
Indices: 147392--147427 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
147382 TTGTGCTTAA
*
147392 TTGAATTTGTTCAATTCT
1 TTGAATTTGTTCAAATCT
147410 TTGAA-TTGTTCAAATCT
1 TTGAATTTGTTCAAATCT
147427 T
1 T
147428 GTTTAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.53
Consensus pattern (18 bp):
TTGAATTTGTTCAAATCT
Found at i:148717 original size:99 final size:99
Alignment explanation
Indices: 148546--148734 Score: 342
Period size: 99 Copynumber: 1.9 Consensus size: 99
148536 TGTGAATTTC
* *
148546 TATCAACTTAGCTTATGAACCAAAAAGGGGGAGAGATTATTGTTAATTGGTTTAAGGGTGAGAAC
1 TATCAACTTAGCTTATGAACCAAAAAGGGGGAAAGATTATTGTTAATTGGTTTAAAGGTGAGAAC
148611 GTATTAAGAGGGAGAGTTTGCATAAGCTTGGTTT
66 GTATTAAGAGGGAGAGTTTGCATAAGCTTGGTTT
* *
148645 TATCAACTTAGCTTATGAACCGAAAAGGGGGAAAGATTATTGTTTATTGGTTTAAAGGTGAGAAC
1 TATCAACTTAGCTTATGAACCAAAAAGGGGGAAAGATTATTGTTAATTGGTTTAAAGGTGAGAAC
148710 GTATTAAGAGGGAGAGTTTGCATAA
66 GTATTAAGAGGGAGAGTTTGCATAA
148735 AATTTGTATT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 86 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.31
Consensus pattern (99 bp):
TATCAACTTAGCTTATGAACCAAAAAGGGGGAAAGATTATTGTTAATTGGTTTAAAGGTGAGAAC
GTATTAAGAGGGAGAGTTTGCATAAGCTTGGTTT
Found at i:149640 original size:10 final size:10
Alignment explanation
Indices: 149621--149721 Score: 51
Period size: 10 Copynumber: 9.8 Consensus size: 10
149611 CTCATTTTTT
*
149621 TCACTGTTCA
1 TCACTATTCA
149631 TCACTATTCA
1 TCACTATTCA
*
149641 TCACTGTTCA
1 TCACTATTCA
* * *
149651 TGTATCAATACA
1 T-CA-CTATTCA
*
149663 TCACTGTTCA
1 TCACTATTCA
* *
149673 TAACTATTTA
1 TCACTATTCA
*
149683 TCACTGTTCA
1 TCACTATTCA
* * *
149693 TGTCTCGATACA
1 --TCACTATTCA
149705 TCACTATTCA
1 TCACTATTCA
149715 -CACTATT
1 TCACTATT
149722 TAATAAAAGC
Statistics
Matches: 64, Mismatches: 23, Indels: 9
0.67 0.24 0.09
Matches are distributed among these distances:
9 7 0.11
10 44 0.69
11 2 0.03
12 11 0.17
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.40
Consensus pattern (10 bp):
TCACTATTCA
Found at i:149646 original size:20 final size:20
Alignment explanation
Indices: 149621--149693 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
149611 CTCATTTTTT
*
149621 TCACTGTTCATCACTATTCA
1 TCACTGTTCATAACTATTCA
* * *
149641 TCACTGTTCATGTATCAATACA
1 TCACTGTTCA--TAACTATTCA
*
149663 TCACTGTTCATAACTATTTA
1 TCACTGTTCATAACTATTCA
149683 TCACTGTTCAT
1 TCACTGTTCAT
149694 GTCTCGATAC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 27 0.63
22 16 0.37
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (20 bp):
TCACTGTTCATAACTATTCA
Found at i:149667 original size:22 final size:22
Alignment explanation
Indices: 149639--149714 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
149629 CATCACTATT
149639 CATCACTGTTCATGTATCAATA
1 CATCACTGTTCATGTATCAATA
* * *
149661 CATCACTGTTCA--TAACTATT
1 CATCACTGTTCATGTATCAATA
* * *
149681 TATCACTGTTCATGTCTCGATA
1 CATCACTGTTCATGTATCAATA
*
149703 CATCACTATTCA
1 CATCACTGTTCA
149715 CACTATTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 16 0.38
22 26 0.62
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCAATA
Found at i:149680 original size:42 final size:42
Alignment explanation
Indices: 149621--149714 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
149611 CTCATTTTTT
*
149621 TCACTGTTCATCACTATTCATCACTGTTCATGTATCAATACA
1 TCACTGTTCATAACTATTCATCACTGTTCATGTATCAATACA
* * *
149663 TCACTGTTCATAACTATTTATCACTGTTCATGTCTCGATACA
1 TCACTGTTCATAACTATTCATCACTGTTCATGTATCAATACA
*
149705 TCACTATTCA
1 TCACTGTTCA
149715 CACTATTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (42 bp):
TCACTGTTCATAACTATTCATCACTGTTCATGTATCAATACA
Found at i:151292 original size:20 final size:20
Alignment explanation
Indices: 151264--151339 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
151254 CACTGTTCAT
151264 GTATCGATACATTGTGAATA
1 GTATCGATACATTGTGAATA
* **
151284 GTGTCGATACATCACTGTTCAT-
1 GTATCGATACAT---TGTGAATA
151306 GTATCGATACATTGTGAATA
1 GTATCGATACATTGTGAATA
*
151326 GAATCGATACATTG
1 GTATCGATACATTG
151340 AGTCCAACGG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
19 5 0.11
20 24 0.53
22 11 0.24
23 5 0.11
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (20 bp):
GTATCGATACATTGTGAATA
Found at i:151310 original size:42 final size:42
Alignment explanation
Indices: 151251--151337 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
151241 AATCACTATT
**
151251 CATCACTGTTCATGTATCGATACATTGTGAATAGTGTCGATA
1 CATCACTGTTCATGTATCGATACATTGTGAATAGAATCGATA
151293 CATCACTGTTCATGTATCGATACATTGTGAATAGAATCGATA
1 CATCACTGTTCATGTATCGATACATTGTGAATAGAATCGATA
151335 CAT
1 CAT
151338 TGAGTCCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (42 bp):
CATCACTGTTCATGTATCGATACATTGTGAATAGAATCGATA
Found at i:151315 original size:22 final size:22
Alignment explanation
Indices: 151251--151317 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
151241 AATCACTATT
151251 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
** *
151273 CAT---TGTGAATAGTGTCGATA
1 CATCACTGTTCAT-GTATCGATA
151293 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
151315 CAT
1 CAT
151318 TGTGAATAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 5 0.14
20 11 0.31
22 14 0.40
23 5 0.14
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:152320 original size:20 final size:20
Alignment explanation
Indices: 152295--152468 Score: 138
Period size: 20 Copynumber: 8.6 Consensus size: 20
152285 GTTGGGCTCA
152295 ATGTATCGATACATTTCACC
1 ATGTATCGATACATTTCACC
152315 ATGTATCGATACATTTCACC
1 ATGTATCGATACATTTCACC
* * *
152335 ATGTATTGATACAATTCATC
1 ATGTATCGATACATTTCACC
* * *
152355 ATGTATCAATATATTTCA-A
1 ATGTATCGATACATTTCACC
** *
152374 AGTGTATCGATACCA--AGAAC
1 A-TGTATCGATA-CATTTCACC
152394 ATGTATCGATATAACATTTCACC
1 ATGTATCG--AT-ACATTTCACC
* * *
152417 ATGTATTGATACAATTCATC
1 ATGTATCGATACATTTCACC
* **
152437 ATGTATCGATATATTTCAAG
1 ATGTATCGATACATTTCACC
*
152457 GTGTATCGATAC
1 ATGTATCGATAC
152469 CAAGAACATG
Statistics
Matches: 120, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
19 9 0.08
20 94 0.78
21 7 0.06
22 1 0.01
23 9 0.08
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTTCACC
Found at i:152346 original size:40 final size:40
Alignment explanation
Indices: 152295--152468 Score: 165
Period size: 40 Copynumber: 4.3 Consensus size: 40
152285 GTTGGGCTCA
* *
152295 ATGTATCGATACATTTCACCATGTATCGATACATTTCACC
1 ATGTATCGATACAATTCATCATGTATCGATACATTTCACC
* * * *
152335 ATGTATTGATACAATTCATCATGTATCAATATATTTCA-A
1 ATGTATCGATACAATTCATCATGTATCGATACATTTCACC
* *
152374 AGTGTATCGATACCAA--GAACATGTATCGATATAACATTTCACC
1 A-TGTATCGATA-CAATTCATCATGTATCG--AT-ACATTTCACC
* * **
152417 ATGTATTGATACAATTCATCATGTATCGATATATTTCAAG
1 ATGTATCGATACAATTCATCATGTATCGATACATTTCACC
*
152457 GTGTATCGATAC
1 ATGTATCGATAC
152469 CAAGAACATG
Statistics
Matches: 106, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
39 10 0.09
40 59 0.56
41 10 0.09
42 16 0.15
43 11 0.10
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (40 bp):
ATGTATCGATACAATTCATCATGTATCGATACATTTCACC
Found at i:152418 original size:82 final size:82
Alignment explanation
Indices: 152314--152489 Score: 313
Period size: 82 Copynumber: 2.2 Consensus size: 82
152304 TACATTTCAC
152314 CATGTATCG--AT-ACATTTCACCATGTATTGATACAATTCATCATGTATCAATATATTTCAAAG
1 CATGTATCGATATAACATTTCACCATGTATTGATACAATTCATCATGTATCAATATATTTCAAAG
152376 TGTATCGATACCAAGAA
66 TGTATCGATACCAAGAA
* *
152393 CATGTATCGATATAACATTTCACCATGTATTGATACAATTCATCATGTATCGATATATTTCAAGG
1 CATGTATCGATATAACATTTCACCATGTATTGATACAATTCATCATGTATCAATATATTTCAAAG
152458 TGTATCGATACCAAGAA
66 TGTATCGATACCAAGAA
152475 CATGTATCGATATAA
1 CATGTATCGATATAA
152490 TGTATCAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
79 9 0.10
81 2 0.02
82 81 0.88
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (82 bp):
CATGTATCGATATAACATTTCACCATGTATTGATACAATTCATCATGTATCAATATATTTCAAAG
TGTATCGATACCAAGAA
Found at i:157047 original size:13 final size:13
Alignment explanation
Indices: 157029--157054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
157019 CATACCCAGA
157029 TGTATCGATACAT
1 TGTATCGATACAT
157042 TGTATCGATACAT
1 TGTATCGATACAT
157055 GTTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:157084 original size:20 final size:19
Alignment explanation
Indices: 157038--157094 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
157028 ATGTATCGAT
*
157038 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
157057 TCATTGTATCGATGCATGG
1 ACATTGTATCGATACATGG
157076 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
157095 AGATTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:163390 original size:33 final size:33
Alignment explanation
Indices: 163348--163437 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
163338 TAGATGTATC
*
163348 GTATCGATACATTGTATCGATATAATATTCCTT
1 GTATCGATACATTGTATCGATACAATATTCCTT
*
163381 GTATCGATACATTGTATTGATACAATATTCCTT
1 GTATCGATACATTGTATCGATACAATATTCCTT
* *
163414 TTATTGATACATTGTATCGATACA
1 GTATCGATACATTGTATCGATACA
163438 TAGGGTACTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (33 bp):
GTATCGATACATTGTATCGATACAATATTCCTT
Found at i:165361 original size:21 final size:21
Alignment explanation
Indices: 165322--165398 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 21
165312 AGATTTGACA
*
165322 AAGGGGGAGAAATGCTTTAATT
1 AAGGGGGAGAAAT-TTTTAATT
*
165344 AAGGGGGAGAAATTTTTAAAT
1 AAGGGGGAGAAATTTTTAATT
* *
165365 AAAGGGAAGAAATTCTTTAATT
1 AAGGGGGAGAAATT-TTTAATT
165387 -AGGGGAGAGAAA
1 AAGGGG-GAGAAA
165399 AATGAAAACT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 22 0.48
22 24 0.52
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.25
Consensus pattern (21 bp):
AAGGGGGAGAAATTTTTAATT
Found at i:165951 original size:13 final size:13
Alignment explanation
Indices: 165933--165959 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
165923 GTATTGTGCT
165933 TTGTATCGATACA
1 TTGTATCGATACA
165946 TTGTATCGATACA
1 TTGTATCGATACA
165959 T
1 T
165960 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:165968 original size:19 final size:19
Alignment explanation
Indices: 165943--165999 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
165933 TTGTATCGAT
*
165943 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
165962 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
165981 ACAATTATATCGATACATG
1 AC-ATTGTATCGATACATG
166000 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:166074 original size:20 final size:20
Alignment explanation
Indices: 166031--166081 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
166021 CCACTGTTGG
*
166031 TATCGATACATGATACAATG
1 TATCGATACATGATACAATA
*
166051 TATCGATACATGATGA-ATTA
1 TATCGATACATGAT-ACAATA
166071 TATCGATACAT
1 TATCGATACAT
166082 TGCTTGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (20 bp):
TATCGATACATGATACAATA
Found at i:166146 original size:20 final size:20
Alignment explanation
Indices: 166121--166173 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
166111 TTCAAATCAA
166121 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
166141 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
166161 TGTATCGATACAT
1 TGTATCGATACAT
166174 GGCTACGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:178595 original size:10 final size:10
Alignment explanation
Indices: 178580--178606 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
178570 CCTTCGTACA
178580 AAAAAAAAAC
1 AAAAAAAAAC
178590 AAAAAAAAAC
1 AAAAAAAAAC
178600 AAAAAAA
1 AAAAAAA
178607 TGAAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:178605 original size:17 final size:17
Alignment explanation
Indices: 178579--178621 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
178569 TCCTTCGTAC
*
178579 AAAAA-AAAAACA-AAA
1 AAAAACAAAAAAATAAA
*
178594 AAAAACAAAAAAATGAA
1 AAAAACAAAAAAATAAA
178611 AAAAACAAAAA
1 AAAAACAAAAA
178622 TAGAAGGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 6 0.25
17 13 0.54
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.02
Consensus pattern (17 bp):
AAAAACAAAAAAATAAA
Done.