Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold380
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: 278973
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.26
Warning! 59211 characters in sequence are not A, C, G, or T
Found at i:7016 original size:18 final size:17
Alignment explanation
Indices: 6985--7023 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
6975 AATTATTTTA
*
6985 AAATTAATTTTATATAAT
1 AAATTAATTATATAT-AT
*
7003 AAATTCATTATATATAT
1 AAATTAATTATATATAT
7020 AAAT
1 AAAT
7024 ATAGATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATTAATTATATATAT
Found at i:7217 original size:16 final size:16
Alignment explanation
Indices: 7196--7305 Score: 132
Period size: 16 Copynumber: 6.9 Consensus size: 16
7186 CTCAAATCTG
*
7196 AATTTAAACTTGAAA-A
1 AATTTAAA-TTTAAATA
7212 AATTTAAATTTAAATA
1 AATTTAAATTTAAATA
7228 AATTTAAATTTAAATA
1 AATTTAAATTTAAATA
*
7244 AATTTAAATTTAAAAA
1 AATTTAAATTTAAATA
* *
7260 AATATAAATCTAAATA
1 AATTTAAATTTAAATA
* *
7276 AATATAAATCTAAATA
1 AATTTAAATTTAAATA
* *
7292 AATCTAAACTTAAA
1 AATTTAAATTTAAA
7306 CGAATTTCGA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
15 5 0.06
16 80 0.94
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (16 bp):
AATTTAAATTTAAATA
Found at i:7222 original size:6 final size:6
Alignment explanation
Indices: 7211--7257 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
7201 AAACTTGAAA
7211 AAATTT AAATTT AAA--T AAATTT AAATTT AAA--T AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
7255 AAA
1 AAA
7258 AAAATATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 8 0.22
6 29 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (6 bp):
AAATTT
Found at i:7261 original size:48 final size:48
Alignment explanation
Indices: 7196--7305 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
7186 CTCAAATCTG
* * * * *
7196 AATTTAAACTTGAAAAAATTTAAATTTAAATAAATTTAAATTTAAATA
1 AATTTAAACTTAAAAAAATATAAATCTAAATAAATATAAATCTAAATA
*
7244 AATTTAAATTTAAAAAAATATAAATCTAAATAAATATAAATCTAAATA
1 AATTTAAACTTAAAAAAATATAAATCTAAATAAATATAAATCTAAATA
*
7292 AATCTAAACTTAAA
1 AATTTAAACTTAAA
7306 CGAATTTCGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (48 bp):
AATTTAAACTTAAAAAAATATAAATCTAAATAAATATAAATCTAAATA
Found at i:9517 original size:2 final size:2
Alignment explanation
Indices: 9510--9539 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9500 GATTTAGCAA
*
9510 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9540 CTTTTGCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13662 original size:157 final size:157
Alignment explanation
Indices: 13316--14235 Score: 1015
Period size: 157 Copynumber: 5.9 Consensus size: 157
13306 ATTCATGTTT
* * ** *
13316 TTATTTCCAAGGGGATACTCCAACCTTAGA-TTTATTTTCAAAACATCAATTTTTCACAATCGGG
1 TTATTTTCGAGGGGATACTCCAACC-CCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGG
** * ** * * *
13380 GATACTTTAACCCCATTATTTTCGAGATGATACTCTAACCCT-AGTTTTATTTCTAAAACACCAA
65 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGA-TTTTATTTCCAAAACACTAA
* *
13444 TTTTTTCACAATCAGGGCTACTCAAACCCCA
129 -TTTTTCACAATC-GGGATACTCCAACCCCA
* * *
13475 TTA-TTTCAGAGGGAATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCATAATTGGG
1 TTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGG
* * * *
13539 GATA-TCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAAT
65 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACTAAT
*
13603 TTTTCGCAATCGGAGATACTCCAACCCCA
130 TTTTCACAATCGG-GATACTCCAACCCCA
* *
13632 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAGAACACCAA-TTTTCAC-ATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
* * *
13695 ATACTCCAACCCCGTTATTTAT-GAGGGGATACTCCAACCTTGGTTTTATTACCAAAACACTAAT
66 ATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACTAAT
* * * *
13759 TTTTCATAATTGGGGATACTCTAACTCCA
130 TTTTCACAA-TCGGGATACTCCAACCCCA
13788 TTA-TTTCTGAGGGGATACTCCAACCCCGATTTT-TTTTCAAAACACCAATTTTTCACAATCGGG
1 TTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGG
* * *
13851 GATACTCCAA-CCCGTTATTTTCGAGGGGATACTCCAA-CTTGGTTTTATTTCCAAAACA-TCAC
65 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACT-AA
*
13913 TTTTTCACAATCAGGGATACTCCAACCCCG
129 TTTTTCACAATC-GGGATACTCCAACCCCA
** * * * **
13943 TTATTTTCGAAAGGATACTCCAACCCCGATTTTATTTTCAAAGCACCAATTTTCCAGAATCGAAG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
* * * *
14008 ATACTCCAACCCTGTTATTTTCGAGGGGATACTTCAACCCAG-TTTTATTTTCAAAACACTAATT
66 ATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACTAATT
* * **
14072 TTTCATAATCGGGGATACTCTAACCCTG
131 TTTCACAATC-GGGATACTCCAACCCCA
* * * * * * * *
14100 TTATTTTCGAAGGGATACTCCAATCCCGATTTTATTTCCAATACATCGATTTTTCACCATTGGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
** * * * *
14165 ATACTCCAACCCCGTTA-TTTCTGAAGGGG-TACTCTGACCCTGTTTTTATCTCCAAAATATTAA
66 ATACTCCAACCCCGTTATTTTC-G-AGGGGATACTCCAACCCTGATTTTATTTCCAAAACACT-A
14228 ATTTTTCA
128 ATTTTTCA
14236 TCGGGAGATG
Statistics
Matches: 653, Mismatches: 85, Indels: 46
0.83 0.11 0.06
Matches are distributed among these distances:
154 2 0.00
155 97 0.15
156 183 0.28
157 230 0.35
158 78 0.12
159 63 0.10
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (157 bp):
TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
ATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACTAATT
TTTCACAATCGGGATACTCCAACCCCA
Found at i:13981 original size:31 final size:27
Alignment explanation
Indices: 13927--13985 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 27
13917 TCACAATCAG
13927 GGATACTCCAACCCCGTTATTTTCGAAA
1 GGATACTCCAACCCCGTTATTTTC-AAA
13955 GGATACTCCAACCCCGATTTTATTTTCAAA
1 GGATACTCCAACCCCG---TTATTTTCAAA
13985 G
1 G
13986 CACCAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 16 0.57
30 4 0.14
31 8 0.29
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTATTTTCAAA
Found at i:14213 original size:79 final size:79
Alignment explanation
Indices: 13316--14184 Score: 970
Period size: 79 Copynumber: 11.1 Consensus size: 79
13306 ATTCATGTTT
* * ** * *
13316 TTATTTCCAAGGGGATACTCCAACCTTAGA-TTTATTTTCAAAACATCAATTTTTCACAATCGGG
1 TTATTTTCGAGGGGATACTCCAACC-CCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
** *
13380 GATACTTTAACCCCA
65 GATACTCCAACCCCG
** * * * *
13395 TTATTTTCGAGATGATACTCTAA-CCCTAGTTTTATTTCTAAAACACCAATTTTTTCACAATCAG
1 TTATTTTCGAGGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAA-TTTTTCACAATCGG
* * *
13459 GGCTACTCAAACCCCA
64 GGATACTCCAACCCCG
* * * *
13475 TTA-TTTCAGAGGGAATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCATAATTGGG
1 TTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
13539 GATA-TCCAACCCCG
65 GATACTCCAACCCCG
* * * * * *
13553 TTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCGCAATCGGAG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
*
13618 ATACTCCAACCCCA
66 ATACTCCAACCCCG
*
13632 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAGAACACCAA-TTTTCAC-ATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
13695 ATACTCCAACCCCG
66 ATACTCCAACCCCG
** * * * * *
13709 TTATTTAT-GAGGGGATACTCCAACCTTGGTTTTATTACCAAAACACTAATTTTTCATAATTGGG
1 TTATTT-TCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
* * *
13773 GATACTCTAACTCCA
65 GATACTCCAACCCCG
*
13788 TTA-TTTCTGAGGGGATACTCCAACCCCGATTTT-TTTTCAAAACACCAATTTTTCACAATCGGG
1 TTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
13851 GATACTCCAA-CCCG
65 GATACTCCAACCCCG
** * * * *
13865 TTATTTTCGAGGGGATACTCCAA-CTTGGTTTTATTTCCAAAACATCACTTTTTCACAATCAGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
13929 ATACTCCAACCCCG
66 ATACTCCAACCCCG
** * * * * **
13943 TTATTTTCGAAAGGATACTCCAACCCCGATTTTATTTTCAAAGCACCAATTTTCCAGAATCGAAG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
*
14008 ATACTCCAACCCTG
66 ATACTCCAACCCCG
* * * * *
14022 TTATTTTCGAGGGGATACTTCAACCCAG-TTTTATTTTCAAAACACTAATTTTTCATAATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
* *
14086 ATACTCTAACCCTG
66 ATACTCCAACCCCG
* * * * * * *
14100 TTATTTTCGAAGGGATACTCCAATCCCGATTTTATTTCCAATACATCGATTTTTCACCATTGGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
14165 ATACTCCAACCCCG
66 ATACTCCAACCCCG
14179 TTATTT
1 TTATTT
14185 CTGAAGGGGT
Statistics
Matches: 657, Mismatches: 116, Indels: 34
0.81 0.14 0.04
Matches are distributed among these distances:
76 6 0.01
77 118 0.18
78 208 0.32
79 263 0.40
80 58 0.09
81 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
ATACTCCAACCCCG
Found at i:24339 original size:23 final size:23
Alignment explanation
Indices: 24312--24383 Score: 144
Period size: 23 Copynumber: 3.1 Consensus size: 23
24302 TCTTTTTGTA
24312 CATAGTTTTCTTCAATTGTATTC
1 CATAGTTTTCTTCAATTGTATTC
24335 CATAGTTTTCTTCAATTGTATTC
1 CATAGTTTTCTTCAATTGTATTC
24358 CATAGTTTTCTTCAATTGTATTC
1 CATAGTTTTCTTCAATTGTATTC
24381 CAT
1 CAT
24384 TTTTTATGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.51
Consensus pattern (23 bp):
CATAGTTTTCTTCAATTGTATTC
Found at i:25235 original size:28 final size:27
Alignment explanation
Indices: 25204--25528 Score: 180
Period size: 28 Copynumber: 11.7 Consensus size: 27
25194 CATTCAAGTT
*
25204 AAAGCTCATATTAGCTGGCACATGAGTC
1 AAAGC-CATATTAGCTGGCACTTGAGTC
*
25232 AAAGCCCATATTACCTGGCA-TCTGAGTC
1 AAAG-CCATATTAGCTGGCACT-TGAGTC
* * * *
25260 AAAGCAATATTAGC-AGTACTTGAGTT
1 AAAGCCATATTAGCTGGCACTTGAGTC
* * *
25286 AAAGCCCAAATTAGCTAGCACTTGAGTT
1 AAAG-CCATATTAGCTGGCACTTGAGTC
* *
25314 AAAGACCAT-TTAGTTGGCA-TTCGAGAC
1 AAAG-CCATATTAGCTGGCACTT-GAGTC
* *
25341 AAAGCCCATATTAGCTAGCACTTAAGTC
1 AAAG-CCATATTAGCTGGCACTTGAGTC
* * * *
25369 AAAACTC-TCACTGGCTGACACTTGAGTC
1 AAAGC-CAT-ATTAGCTGGCACTTGAGTC
* * * *
25397 AAAGCCTATAGTAGCTAGCACCTGAGTTA
1 AAAGCC-ATATTAGCTGGCACTTGAG-TC
* * * *
25426 AAACCCATATTAGCTAGCA-ATCAGTC
1 AAAGCCATATTAGCTGGCACTTGAGTC
25452 AAAGCCTATATTAGCTGGCA-TTCGAGTC
1 AAAGCC-ATATTAGCTGGCACTT-GAGTC
* * *
25480 AAAGCCTACATTAACTGGCA-TATGAGTT
1 AAAGCC-ATATTAGCTGGCACT-TGAGTC
* *
25508 AAAGCTTATATTCGCTGGCAC
1 AAAGC-CATATTAGCTGGCAC
25529 CCGAGTTGAA
Statistics
Matches: 229, Mismatches: 50, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
26 19 0.08
27 55 0.24
28 144 0.63
29 11 0.05
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (27 bp):
AAAGCCATATTAGCTGGCACTTGAGTC
Found at i:25352 original size:82 final size:82
Alignment explanation
Indices: 25200--25355 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 82
25190 TTGGCATTCA
* * * * *
25200 AGTTAAAGCTCATATTAGCTGGCACATGAGTCAAAGCCCATATTACCTGGCATCTGAGTCAAAGC
1 AGTTAAAGCCCAAATTAGCTAGCACATGAGTCAAAGACCATATTACCTGGCATCTGAGACAAAGC
25265 AATATTAGCAGTACTTG
66 AATATTAGCAGTACTTG
* * **
25282 AGTTAAAGCCCAAATTAGCTAGCACTTGAGTTAAAGACCAT-TTAGTTGGCAT-TCGAGACAAAG
1 AGTTAAAGCCCAAATTAGCTAGCACATGAGTCAAAGACCATATTACCTGGCATCT-GAGACAAAG
*
25345 CCCATATTAGC
65 -CAATATTAGC
25356 TAGCACTTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.02
81 17 0.27
82 44 0.71
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (82 bp):
AGTTAAAGCCCAAATTAGCTAGCACATGAGTCAAAGACCATATTACCTGGCATCTGAGACAAAGC
AATATTAGCAGTACTTG
Found at i:33348 original size:12 final size:13
Alignment explanation
Indices: 33327--33355 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
33317 TTCTTCGTTT
33327 GTTGAGTGTTTTG
1 GTTGAGTGTTTTG
33340 GTTGA-TGTTTTG
1 GTTGAGTGTTTTG
33352 GTTG
1 GTTG
33356 GGATGTGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.07, C:0.00, G:0.38, T:0.55
Consensus pattern (13 bp):
GTTGAGTGTTTTG
Found at i:33928 original size:35 final size:31
Alignment explanation
Indices: 33846--33940 Score: 111
Period size: 35 Copynumber: 2.9 Consensus size: 31
33836 CCTTACAACA
*
33846 CTATC-TTTCAAGGCTAAGATAGAAACTTCC
1 CTATCTTTTCAAGGCTAAGATAGAACCTTCC
*
33876 CTATCTTTTCACGGGCTAAGATAGAACCTCTCTTC
1 CTATCTTTTCA-AGGCTAAGATAGAACCT-TC--C
*
33911 CTGTCTTTTTCAAGGCTAAGATAGAACCTT
1 CTATC-TTTTCAAGGCTAAGATAGAACCTT
33941 TCAATCACTT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 5 0.09
31 5 0.09
32 15 0.27
33 2 0.04
34 1 0.02
35 21 0.38
36 6 0.11
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (31 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTTCC
Found at i:34540 original size:20 final size:19
Alignment explanation
Indices: 34514--34583 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
34504 CTGCCAATTT
**
34514 TATGTATCGATACAATTCA
1 TATGTATCGATACAATGAA
* *
34533 TGATGTATTGATATAATGAA
1 T-ATGTATCGATACAATGAA
*
34553 TATGTATCGATATAA-GCAA
1 TATGTATCGATACAATG-AA
34572 TATGTATCGATA
1 TATGTATCGATA
34584 TATCTGGGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
18 1 0.02
19 28 0.64
20 15 0.34
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
TATGTATCGATACAATGAA
Found at i:34559 original size:19 final size:19
Alignment explanation
Indices: 34535--34585 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
34525 ACAATTCATG
*
34535 ATGTATTGATATAATG-AAT
1 ATGTATCGATATAA-GCAAT
34554 ATGTATCGATATAAGCAAT
1 ATGTATCGATATAAGCAAT
34573 ATGTATCGATATA
1 ATGTATCGATATA
34586 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 1 0.03
19 29 0.97
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (19 bp):
ATGTATCGATATAAGCAAT
Found at i:35400 original size:21 final size:21
Alignment explanation
Indices: 35367--35413 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
35357 TTTAGGCAAG
*
35367 TTCTCCCCCTTAATACAAATT
1 TTCTTCCCCTTAATACAAATT
* **
35388 TTCTTCCCTTTAATATGAATT
1 TTCTTCCCCTTAATACAAATT
35409 TTCTT
1 TTCTT
35414 TTTCTCCCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.02, T:0.49
Consensus pattern (21 bp):
TTCTTCCCCTTAATACAAATT
Found at i:35511 original size:127 final size:127
Alignment explanation
Indices: 35285--35540 Score: 424
Period size: 127 Copynumber: 2.0 Consensus size: 127
35275 TGTGAACCAT
* *
35285 TTTTTCTCCCCCTTTCAATTAGGCCAAATCTATTCTCTCTCTTTTTGTTATTCTTGTAACTAATA
1 TTTTTCTCCCCCTTTCAATTAGGACAAATCTATTCTCTATCTTTTTGTTATTCTTGTAACTAATA
**
35350 CCAAAAGTTTAGGCAAGTTCTCCCCCTTAATACAAATTTTCTTCCCTTTAATATGAATTTTC
66 CCAAAAGTTTAGGCAAACTCTCCCCCTTAATACAAATTTTCTTCCCTTTAATATGAATTTTC
* * *
35412 TTTTTCTCCCCCTTTCTATTAGGATAAATCTATTCTCTAAT-TTTTTGTTATTTTTGTAACTAAT
1 TTTTTCTCCCCCTTTCAATTAGGACAAATCTATTCTCT-ATCTTTTTGTTATTCTTGTAACTAAT
*
35476 ATCAAAAGTTTAGGCAAACTCTCCCCCTTAATACAAATTTTCTTCCCTTTAATATGAATTTTC
65 ACCAAAAGTTTAGGCAAACTCTCCCCCTTAATACAAATTTTCTTCCCTTTAATATGAATTTTC
35539 TT
1 TT
35541 CAAACTCACC
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
127 119 0.99
128 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.46
Consensus pattern (127 bp):
TTTTTCTCCCCCTTTCAATTAGGACAAATCTATTCTCTATCTTTTTGTTATTCTTGTAACTAATA
CCAAAAGTTTAGGCAAACTCTCCCCCTTAATACAAATTTTCTTCCCTTTAATATGAATTTTC
Found at i:35522 original size:22 final size:22
Alignment explanation
Indices: 35497--35541 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
35487 AGGCAAACTC
35497 TCCCCCTTAATACAAATTTTCT
1 TCCCCCTTAATACAAATTTTCT
* **
35519 T-CCCTTTAATATGAATTTTCT
1 TCCCCCTTAATACAAATTTTCT
35540 TC
1 TC
35542 AAACTCACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.47
Consensus pattern (22 bp):
TCCCCCTTAATACAAATTTTCT
Found at i:38023 original size:21 final size:21
Alignment explanation
Indices: 37999--38039 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37989 TTTTCTCCTC
* *
37999 TAATTCATTTATTTTCTTTTA
1 TAATTCACTTAATTTCTTTTA
38020 TAATTCACTTAATTTCTTTT
1 TAATTCACTTAATTTCTTTT
38040 CAAGAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
TAATTCACTTAATTTCTTTTA
Found at i:39403 original size:17 final size:17
Alignment explanation
Indices: 39381--39415 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
39371 TAGCTCAAGC
*
39381 TCCAAATCAAATTAGAA
1 TCCAAATCAAATCAGAA
39398 TCCAAATCAAATCAGAA
1 TCCAAATCAAATCAGAA
39415 T
1 T
39416 ACATTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (17 bp):
TCCAAATCAAATCAGAA
Found at i:46961 original size:19 final size:18
Alignment explanation
Indices: 46937--47004 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
46927 CAGTAGCTAA
46937 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
46956 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
46971 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAA-AC
46988 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
47005 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 2 0.05
19 27 0.63
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:46977 original size:13 final size:13
Alignment explanation
Indices: 46959--46983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46949 ACAATACTTA
46959 TGTATCGATACAT
1 TGTATCGATACAT
46972 TGTATCGATACA
1 TGTATCGATACA
46984 ACACTTATGT
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:46981 original size:32 final size:32
Alignment explanation
Indices: 46940--47002 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
46930 TAGCTAATTA
*
46940 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
46972 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
47003 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:56994 original size:19 final size:19
Alignment explanation
Indices: 56950--57021 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
56940 CTGCCAGTTT
* **
56950 CATGTATCGATACAATTGTC
1 CATGTATCGATAC-AGTGAA
*
56970 CATGTATCGATATAGTGAA
1 CATGTATCGATACAGTGAA
56989 CATGTATCGATACAGTGAA
1 CATGTATCGATACAGTGAA
57008 CATGTATCGGATAC
1 CATGTATC-GATAC
57022 TATGTTTCGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 29 0.63
20 17 0.37
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAGTGAA
Found at i:57822 original size:28 final size:28
Alignment explanation
Indices: 57779--58292 Score: 503
Period size: 28 Copynumber: 18.5 Consensus size: 28
57769 CCTTCATCTC
*
57779 TTCAAAGCCCATAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
**
57807 TTCAAAGCTGACAAGTCAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCAT-TCT
* * *
57836 TT-AAAGCCCACAAGTTACTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
* * * **
57863 TTTAAAGTCCACAAGTCAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
*
57891 TTCAAAGCCCACAAGTCAATGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCATTC-T
* **
57919 TTCAAAGCCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
*
57947 TTCAAAGCCCACAAGTCAATGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
* *
57974 CTCCAAAGCCCACAAGTCAGTGGCATCCT
1 -TTCAAAGCCCACAAGTCAGTGGCATTCT
* *
58003 TTCAAAGTCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
58031 TTCAAAGCCCACAAGTCAGTGGC-TTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATTC-T
*
58059 TTCAAACCCCACAAGTCAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCATTC-T
* * **
58087 TTCCAAGCTCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
* *
58115 TTCAGAGCCCACAAGTTAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCATTC-T
* **
58143 TTCAAAGCCCATAAGTCAGTTCCA---T
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
* * *
58168 TT-AACGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
* *
58195 CTTAAAAGCCCACAAGTCAGTGGCA-CCT
1 -TTCAAAGCCCACAAGTCAGTGGCATTCT
* *
58223 ATTTAAAGCCCACAAGTCAGTGGCA-CCAT
1 -TTCAAAGCCCACAAGTCAGTGGCATTC-T
* * *
58252 TTCAAAGCCCATAAATCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATTCT
58280 TTCAAAGCCCACA
1 TTCAAAGCCCACA
58293 CAAGTCGATG
Statistics
Matches: 410, Mismatches: 59, Indels: 34
0.82 0.12 0.07
Matches are distributed among these distances:
24 16 0.04
25 3 0.01
27 11 0.03
28 349 0.85
29 31 0.08
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATTCT
Found at i:57859 original size:56 final size:56
Alignment explanation
Indices: 57773--58292 Score: 557
Period size: 56 Copynumber: 9.4 Consensus size: 56
57763 CTAGAACCTT
* **
57773 CATCTC-TTCAAAGCCCATAAGTCAGTGGCATTCTTTCAAAGCTGACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTCAAAGCCCACAAGTCAGTGG
* * * *
57829 CATCTCTTT-AAAGCCCACAAGTTACTGGCATCCTTTTAAAGTCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTCAAAGCCCACAAGTCAGTGG
* * * *
57885 TA-CCCTTTCAAAGCCCACAAGTCAATGGCATCTTTTCAAAGCCCACAAGTCAGTGA
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTCAAAGCCCACAAGTCAGTGG
* * *
57941 CA-CCCTTTCAAAGCCCACAAGTCAATGGCATCTCTCCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATCT-TTCAAAGCCCACAAGTCAGTGG
*
57997 CATC-CTTTCAAAGTCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTCAAAGCCCACAAGTCAGTGG
* * * *
58053 CTTCT-TTTCAAACCCCACAAGTCAGTGGCATCTTTTCCAAGCTCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTCAAAGCCCACAAGTCAGTGG
* * * *
58109 CA-CCCTTTCAGAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCATAAGTCAGT--
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTCAAAGCCCACAAGTCAGTGG
* * *
58163 --TC-CATTT-AACGCCCACAAGTCAATGGCATCCTCTTAAAAGCCCACAAGTCAGTGG
1 CATCTC-TTTCAAAGCCCACAAGTCAGTGGCAT-CT-TTCAAAGCCCACAAGTCAGTGG
* * * * *
58218 CACCTATTT-AAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCATAAATCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTCAAAGCCCACAAGTCAGTGG
58274 CATC-CTTTCAAAGCCCACA
1 CATCTCTTTCAAAGCCCACA
58293 CAAGTCGATG
Statistics
Matches: 394, Mismatches: 49, Indels: 42
0.81 0.10 0.09
Matches are distributed among these distances:
52 20 0.05
53 23 0.06
55 13 0.03
56 309 0.78
57 29 0.07
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (56 bp):
CATCTCTTTCAAAGCCCACAAGTCAGTGGCATCTTTCAAAGCCCACAAGTCAGTGG
Found at i:57932 original size:84 final size:84
Alignment explanation
Indices: 57779--58292 Score: 610
Period size: 84 Copynumber: 6.2 Consensus size: 84
57769 CCTTCATCTC
* * **
57779 TTCAAAGCCCATAAGTCAGTGGCATTCTTTCAAAGCTGACAAGTCAGTGGCATCTCTTT-AAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT-TTTCAAAGC
* *
57843 CCACAAGTTACTGGCATCCT
65 CCACAAGTCAGTGGCATCCT
* * * * *
57863 TTTAAAGTCCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTCAATGGCATCTTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCC
* *
57928 CACAAGTCAGTGACACCCT
66 CACAAGTCAGTGGCATCCT
* * * *
57947 TTCAAAGCCCACAAGTCAATGGCAT-CTCTCCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
58011 CCACAAGTCAGTGGCATCCT
65 CCACAAGTCAGTGGCATCCT
* * * * *
58031 TTCAAAGCCCACAAGTCAGTGGCTTCTTTTCAAACCCCACAAGTCAGTGGCATCTTTTCCAAGCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCC
*
58096 CACAAGTCAGTGGCACCCT
66 CACAAGTCAGTGGCATCCT
* * * * * * *
58115 TTCAGAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCATAAGTCAGT-TC--CATTT-AACGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCC
*
58176 CACAAGTCAATGGCATCCT
66 CACAAGTCAGTGGCATCCT
* * * *
58195 CTTAAAAGCCCACAAGTCAGTGGCA-CCTATTTAAAGCCCACAAGTCAGTGGCACCATTTCAAAG
1 -TTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG
* *
58259 CCCATAAATCAGTGGCATCCT
64 CCCACAAGTCAGTGGCATCCT
58280 TTCAAAGCCCACA
1 TTCAAAGCCCACA
58293 CAAGTCGATG
Statistics
Matches: 363, Mismatches: 58, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
80 22 0.06
81 43 0.12
82 1 0.00
83 6 0.02
84 269 0.74
85 22 0.06
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (84 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCC
CACAAGTCAGTGGCATCCT
Found at i:59104 original size:20 final size:20
Alignment explanation
Indices: 59079--59154 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
59069 TTTTTATCTA
*
59079 AATGTATTGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
59099 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
* **
59119 AATGTATCGATATATCCTTC
1 AATGTATCGATACATTTTTC
59139 AATGTATCGATACATT
1 AATGTATCGATACATT
59155 CTATCTTTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:63091 original size:33 final size:32
Alignment explanation
Indices: 63049--63113 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
63039 TACACCCAGA
* * *
63049 TGTATCGATACATTATGCTTTGTATTGATACAT
1 TGTATCGATACATGAT-CATTGTATCGATACAT
63082 TGTATCGATACATGATCATTGTATCGATACAT
1 TGTATCGATACATGATCATTGTATCGATACAT
63114 AGACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATACAT
Found at i:63097 original size:20 final size:20
Alignment explanation
Indices: 63074--63135 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
63064 TGCTTTGTAT
63074 TGATACATTGTATCGATACA
1 TGATACATTGTATCGATACA
63094 TGAT-CATTGTATCGATACA
1 TGATACATTGTATCGATACA
*
63113 T-AGACAATTGTATCGATACA
1 TGATAC-ATTGTATCGATACA
63133 TGA
1 TGA
63136 AACTAGAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
18 1 0.03
19 17 0.45
20 19 0.50
21 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (20 bp):
TGATACATTGTATCGATACA
Found at i:63277 original size:19 final size:20
Alignment explanation
Indices: 63253--63290 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
63243 ATAATTTCAA
63253 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCGATACATT
63272 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
63291 AGCTACAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:73857 original size:10 final size:10
Alignment explanation
Indices: 73838--73894 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
73828 GTATCGATAC
73838 ATGAACAGTG
1 ATGAACAGTG
*
73848 ATGAATAGTG
1 ATGAACAGTG
73858 ATGAACAGT-
1 ATGAACAGTG
* * *
73867 ATTAAACAATA
1 A-TGAACAGTG
73878 ATGAACAGTG
1 ATGAACAGTG
73888 ATGAACA
1 ATGAACA
73895 ATAATGTATC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 1 0.03
10 36 0.95
11 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:80647 original size:18 final size:17
Alignment explanation
Indices: 80610--80643 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
80600 AAGAGGTACA
80610 AAACTCTTCACGATGCC
1 AAACTCTTCACGATGCC
*
80627 AAACTCTTCATGATGCC
1 AAACTCTTCACGATGCC
80644 CAAAATCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (17 bp):
AAACTCTTCACGATGCC
Found at i:81363 original size:17 final size:18
Alignment explanation
Indices: 81332--81365 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
81322 GGAGTATCCT
81332 CAAAAATGAAAATTTAAG
1 CAAAAATGAAAATTTAAG
*
81350 CAAAAAT-AAGATTTAA
1 CAAAAATGAAAATTTAA
81366 ATCTTGACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.24
Consensus pattern (18 bp):
CAAAAATGAAAATTTAAG
Found at i:81442 original size:96 final size:96
Alignment explanation
Indices: 81241--81429 Score: 220
Period size: 96 Copynumber: 2.0 Consensus size: 96
81231 ATCCCTGACG
* * * *
81241 ATGATAATTTAGGCAAAAATAAGATTTAAATCGTGACAAGTTAAAAAATAAGGTTAGAGTATCCC
1 ATGAAAATTTAAGCAAAAATAAGATTTAAATCGTGACAAATTAAAAAACAAGGTTAGAGTATCCC
* * *
81306 TTGAAAGAATGGGATTGGAGTATCCTCAAAA
66 TTGAAAGAATGAGATTAGAGTATCCCCAAAA
* ** * *
81337 ATGAAAATTTAAGCAAAAATAAGATTTAAATCTTGACAAATTTGAAAACGAGG-TAGGAGTTTCC
1 ATGAAAATTTAAGCAAAAATAAGATTTAAATCGTGACAAATTAAAAAACAAGGTTA-GAGTAT-C
*
81401 CCTTGGAAGAATGA-AGTTAGAGTATCCCC
64 CCTTGAAAGAATGAGA-TTAGAGTATCCCC
81430 GTGAATAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
95 2 0.03
96 51 0.66
97 24 0.31
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (96 bp):
ATGAAAATTTAAGCAAAAATAAGATTTAAATCGTGACAAATTAAAAAACAAGGTTAGAGTATCCC
TTGAAAGAATGAGATTAGAGTATCCCCAAAA
Found at i:83053 original size:4 final size:4
Alignment explanation
Indices: 83044--83068 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
83034 TTGATTTTGC
83044 TGGT TGGT TGGT TGGT TGGT TGGT T
1 TGGT TGGT TGGT TGGT TGGT TGGT T
83069 TGGACAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (4 bp):
TGGT
Found at i:88615 original size:20 final size:21
Alignment explanation
Indices: 88590--88643 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
88580 AATTTTAGGC
88590 ATGTATCAATACATTCACT-T
1 ATGTATCAATACATTCACTAT
* *
88610 ATGTATCGATACATTTACTAT
1 ATGTATCAATACATTCACTAT
*
88631 TTGTATCAATACA
1 ATGTATCAATACA
88644 AATTATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (21 bp):
ATGTATCAATACATTCACTAT
Found at i:90497 original size:13 final size:13
Alignment explanation
Indices: 90478--90516 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
90468 ACTATTTATG
90478 ATGTATCGATACA
1 ATGTATCGATACA
*
90491 CTGTATCGATACA
1 ATGTATCGATACA
*
90504 ATGCATCGATACA
1 ATGTATCGATACA
90517 TGAATAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:90607 original size:22 final size:22
Alignment explanation
Indices: 90582--90637 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
90572 ACAGTGACTT
90582 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
*
90604 ATGAA-GGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
90625 ATGAACAGTGATG
1 ATGAACAGTGATG
90638 AACAGTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:90731 original size:34 final size:34
Alignment explanation
Indices: 90688--90773 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 34
90678 ACATATTTTG
90688 TGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
90722 TGTATCGATACAAATTTGGCTACTGCCAATGTCT
1 TGTATCGATACAAATTTGGCTACTGCCAATGACC
*
90756 TGTATCGATACATATTTG
1 TGTATCGATACAAATTTG
90774 TGTGCATCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (34 bp):
TGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:90890 original size:21 final size:21
Alignment explanation
Indices: 90866--90906 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90856 GTCAACCTTG
90866 TGTATTAATATCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
90887 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
90907 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:96382 original size:52 final size:52
Alignment explanation
Indices: 96302--96421 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
96292 GAAAGTTACT
* *
96302 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
96354 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
96406 TGCATGTATCGATACA
1 TGCATGTATCGATACA
96422 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:96434 original size:52 final size:52
Alignment explanation
Indices: 96302--96441 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 52
96292 GAAAGTTACT
* *
96302 TGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*** *
96354 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*
96406 TGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AGTGTATCGATACA
96442 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:96538 original size:13 final size:13
Alignment explanation
Indices: 96520--96544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96510 CAAAGAAGTA
96520 TGTATCGATACAT
1 TGTATCGATACAT
96533 TGTATCGATACA
1 TGTATCGATACA
96545 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:98454 original size:20 final size:20
Alignment explanation
Indices: 98429--98466 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98419 ATTTTCCAGA
98429 TTGTATCGATACAATGTAAT
1 TTGTATCGATACAATGTAAT
* *
98449 TTGTATCTATACATTGTA
1 TTGTATCGATACAATGTA
98467 TCGATACATT
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:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACAATGTAAT
Found at i:101614 original size:35 final size:35
Alignment explanation
Indices: 101556--101622 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
101546 CAATTCTCAG
* *
101556 AGTGATTGAAAGGTTCTATCTTAGCCTTCAAAAGAT
1 AGTGATTGAAAGGTTATACCTTAGCC-TCAAAAGAT
*
101592 AGTG-TTGTAAGGTTATACCTTAGCCTCAAAA
1 AGTGATTGAAAGGTTATACCTTAGCCTCAAAA
101623 ATAACAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 6 0.21
35 18 0.64
36 4 0.14
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (35 bp):
AGTGATTGAAAGGTTATACCTTAGCCTCAAAAGAT
Found at i:102757 original size:19 final size:18
Alignment explanation
Indices: 102712--102788 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 18
102702 CATTTTGAAT
*
102712 AAAAAAGAAAAAGGAAAA
1 AAAAAAAAAAAAGGAAAA
* **
102730 ATGAAAAAATGAAGGAAAA
1 A-AAAAAAAAAAAGGAAAA
*
102749 AAAACAAAAAAAAAGAAAA
1 AAAA-AAAAAAAAGGAAAA
102768 AAAAAAGAGAAAAAGGAAAA
1 AAAAAA-A-AAAAAGGAAAA
102788 A
1 A
102789 GAAAGAAAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
18 5 0.11
19 30 0.65
20 11 0.24
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAAAGGAAAA
Found at i:102778 original size:13 final size:12
Alignment explanation
Indices: 102712--102807 Score: 59
Period size: 13 Copynumber: 7.5 Consensus size: 12
102702 CATTTTGAAT
102712 AAAAAAGAAAAAGG
1 AAAAAA-AAAAA-G
102726 AAAAATGAAAAAATG
1 AAAAA--AAAAAA-G
**
102741 AAGGAAAAAAA-
1 AAAAAAAAAAAG
*
102752 ACAAAAAAAAAG
1 AAAAAAAAAAAG
102764 AAAAAAAAAAGAG
1 AAAAAAAAAA-AG
*
102777 AAAAAGGAAAAAG
1 AAAAA-AAAAAAG
* **
102790 AAAGAAAGTAAG
1 AAAAAAAAAAAG
102802 AAAAAA
1 AAAAAA
102808 GATATGGCTT
Statistics
Matches: 64, Mismatches: 13, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
11 8 0.12
12 18 0.28
13 19 0.30
14 9 0.14
15 9 0.14
16 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:102780 original size:10 final size:10
Alignment explanation
Indices: 102712--102796 Score: 55
Period size: 10 Copynumber: 8.0 Consensus size: 10
102702 CATTTTGAAT
102712 AAAAAAGAAAA
1 AAAAAAG-AAA
102723 AGGAAAAATGAAA
1 A--AAAAA-GAAA
* *
102736 AAATGAAGGAA
1 AAA-AAAGAAA
*
102747 AAAAAACAAA
1 AAAAAAGAAA
102757 AAAAAAGAAA
1 AAAAAAGAAA
*
102767 AAAAAA-AGAG
1 AAAAAAGA-AA
*
102777 AAAAAGGAAA
1 AAAAAAGAAA
*
102787 AAGAAAGAAA
1 AAAAAAGAAA
102797 GTAAGAAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
9 1 0.02
10 34 0.60
11 10 0.18
12 2 0.04
13 9 0.16
14 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:102806 original size:19 final size:19
Alignment explanation
Indices: 102758--102809 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
102748 AAAAACAAAA
*
102758 AAAAAGAAAAAAAAAAGAG
1 AAAAAGAAAAAAGAAAGAG
*
102777 AAAAAGGAAAAAGAAAGA-
1 AAAAAGAAAAAAGAAAGAG
*
102795 AAGTAAGAAAAAAGA
1 AA-AAAGAAAAAAGA
102810 TATGGCTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 2 0.07
19 26 0.93
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAAGAG
Found at i:170320 original size:21 final size:20
Alignment explanation
Indices: 170296--170339 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
170286 ATGCAAATTT
170296 TTATTTT-TCTTAGTTAACTCA
1 TTATTTTATCTT-G-TAACTCA
170317 TTATTTTCATCTTGTAACTCA
1 TTATTTT-ATCTTGTAACTCA
170338 TT
1 TT
170340 TATCTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 16 0.76
22 1 0.05
23 4 0.19
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATTTTATCTTGTAACTCA
Found at i:172648 original size:37 final size:34
Alignment explanation
Indices: 172598--172685 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 34
172588 AGTGATTGAA
* *
172598 AGGTTTTATCTTAGCCTTTTGAAAAAGATATGGAGAG
1 AGGTTCTATCTTAGCCTTGTG-AAAAGATA-GG-GAG
*
172635 AGGTTCTATCTTAGCC-CGTGAAAAGATAGGGAG
1 AGGTTCTATCTTAGCCTTGTGAAAAGATAGGGAG
*
172668 -GTTTCTATCTTAGCCTTG
1 AGGTTCTATCTTAGCCTTG
172686 AAAGATAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 14 0.31
33 4 0.09
34 2 0.04
35 8 0.18
36 2 0.04
37 15 0.33
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (34 bp):
AGGTTCTATCTTAGCCTTGTGAAAAGATAGGGAG
Found at i:172677 original size:32 final size:36
Alignment explanation
Indices: 172598--172683 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 36
172588 AGTGATTGAA
**
172598 AGGTTT-TATCTTAGCCTTTTGAAAAAGATATGGAG
1 AGGTTTCTATCTTAGCCTCGTGAAAAAGATATGGAG
*
172633 AGAGGTTCTATCTTAGCC-CGTG-AAAAGATA-GG-G
1 AG-GTTTCTATCTTAGCCTCGTGAAAAAGATATGGAG
172666 AGGTTTCTATCTTAGCCT
1 AGGTTTCTATCTTAGCCT
172684 TGAAAGATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
32 14 0.32
33 3 0.07
34 2 0.05
35 10 0.23
36 5 0.11
37 10 0.23
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (36 bp):
AGGTTTCTATCTTAGCCTCGTGAAAAAGATATGGAG
Found at i:173476 original size:50 final size:50
Alignment explanation
Indices: 173413--173512 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
173403 TAAGCTTGCC
173413 ACTACACATGAAGGGACGAATCAAGTCAAGGAGTCAAAGATAAGTATGCT
1 ACTACACATGAAGGGACGAATCAAGTCAAGGAGTCAAAGATAAGTATGCT
*
173463 ACTACACATGAAGGGACGAATCAAGTCAAGGAGTCGAAGATAAGTATGCT
1 ACTACACATGAAGGGACGAATCAAGTCAAGGAGTCAAAGATAAGTATGCT
173513 TACTCTTGAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (50 bp):
ACTACACATGAAGGGACGAATCAAGTCAAGGAGTCAAAGATAAGTATGCT
Found at i:174360 original size:21 final size:21
Alignment explanation
Indices: 174304--174363 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
174294 AGTGAACTAG
*
174304 AAGAGAAATGAATGAGTTGGAA
1 AAGA-AAATGAATGAGTTGCAA
174326 AAGAAAA-GAAATGAGTTGCAA
1 AAGAAAATG-AATGAGTTGCAA
174347 AATGAAAATG-ATGAGTT
1 AA-GAAAATGAATGAGTT
174364 AACTAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 1 0.03
21 23 0.68
22 9 0.26
23 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.27, T:0.20
Consensus pattern (21 bp):
AAGAAAATGAATGAGTTGCAA
Found at i:178704 original size:34 final size:35
Alignment explanation
Indices: 178605--178805 Score: 243
Period size: 35 Copynumber: 5.9 Consensus size: 35
178595 AGTGATTAAG
* * * *
178605 AGGTTCTATCTTAGCCTTTGAAAAAGGTAAGGAAG
1 AGGTTCTATCTTAGCCTGTGAAAAAGATAGGGAAA
*
178640 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAAA
1 AGGTTCTATCTTAGCCTGTGAAAAAGATAGGGAAA
*
178675 ATGTTCTATCTTAGCCTGTG-AAAAGATAGGG---
1 AGGTTCTATCTTAGCCTGTGAAAAAGATAGGGAAA
* * * *
178706 AGGTTTTATCTTAGCTTTTGAAAAAGATAGGGAAG
1 AGGTTCTATCTTAGCCTGTGAAAAAGATAGGGAAA
* *
178741 AGGTTCTATCTTAGCTTGTG-AAAAGATAGGGAGA
1 AGGTTCTATCTTAGCCTGTGAAAAAGATAGGGAAA
*
178775 AGGTTCTATCTTAACCTGTG-AAAAGATAGGG
1 AGGTTCTATCTTAGCCTGTGAAAAAGATAGGG
178806 TTGTAAAGTT
Statistics
Matches: 147, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
31 16 0.11
32 11 0.07
34 52 0.35
35 68 0.46
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.30
Consensus pattern (35 bp):
AGGTTCTATCTTAGCCTGTGAAAAAGATAGGGAAA
Found at i:178727 original size:66 final size:66
Alignment explanation
Indices: 178605--178805 Score: 251
Period size: 66 Copynumber: 3.0 Consensus size: 66
178595 AGTGATTAAG
* *
178605 AGGTTCTATCTTAGCCTTTGAAAAAGGTAAGGAAGAGGTTCTATCTTAGCCTTTGAAAAAGATAG
1 AGGTTCTATCTTAGCCTGTG-AAAAGAT-AGG--GAGGTTCTATCTTAGCCTTTGAAAAAGATAG
178670 GGAAA
62 GGAAA
* * *
178675 ATGTTCTATCTTAGCCTGTGAAAAGATAGGGAGGTTTTATCTTAGCTTTTGAAAAAGATAGGGAA
1 AGGTTCTATCTTAGCCTGTGAAAAGATAGGGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAA
*
178740 G
66 A
* * *
178741 AGGTTCTATCTTAGCTTGTGAAAAGATAGGGAGAAGGTTCTATCTTAACCTGTG-AAAAGATAGG
1 AGGTTCTATCTTAGCCTGTGAAAAGATA-GG-G-AGGTTCTATCTTAGCCTTTGAAAAAGATAGG
178805 G
63 G
178806 TTGTAAAGTT
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
66 59 0.51
67 2 0.02
68 15 0.13
69 22 0.19
70 18 0.16
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.30
Consensus pattern (66 bp):
AGGTTCTATCTTAGCCTGTGAAAAGATAGGGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAA
A
Found at i:179807 original size:20 final size:20
Alignment explanation
Indices: 179770--179843 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
179760 TTCTACAATT
179770 TGTATCGATACAATAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
*
179791 TGTATTGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* **
179811 TGTATCAATACATATTTGAAA
1 TGTATCGATACATAAGTG-AA
179832 TGTATCGATACA
1 TGTATCGATACA
179844 AGACCATGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 23 0.50
21 23 0.50
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:180838 original size:20 final size:21
Alignment explanation
Indices: 180809--180847 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
180799 GTGCCTAAAA
*
180809 TGCCATGTT-CATGCATTTGG
1 TGCCACGTTCCATGCATTTGG
180829 TGCCACGTTCCATGCATTT
1 TGCCACGTTCCATGCATTT
180848 TAACAAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (21 bp):
TGCCACGTTCCATGCATTTGG
Found at i:182521 original size:96 final size:96
Alignment explanation
Indices: 182310--182523 Score: 252
Period size: 96 Copynumber: 2.2 Consensus size: 96
182300 TCTTTCGAGA
* *
182310 GGATACTCCAATCCTGTTTTTAAACTTTTCAAGATTTAAATCTTATTTTTGCTTAAAATATCATC
1 GGATACTCCAA-CCTGTTTTTAAACTTATCAAGATTTAAATCTTATTTTTGCCTAAAATATCATC
* *
182375 ATCGAAAATGCTCTAACCCCATTTTTCTGAGG
65 ATCGAAAATACTCTAACCCCATTTTTCTAAGG
* * *
182407 GGATACTCTAACCTTGTTTTTAAACTTATCAAGATTTAAATCTTA-TTTTGCCTAAATTATCATT
1 GGATACTCCAACC-TGTTTTTAAACTTATCAAGATTTAAATCTTATTTTTGCCTAAAATATCATC
* *** **
182471 ATTGGGGATACTCTAACCTTATTTCTTC-AAGG
65 ATCGAAAATACTCTAACCCCATTT-TTCTAAGG
*
182503 GGATACTCCAGCCATGTTTTT
1 GGATACTCCAACC-TGTTTTT
182524 CAACCAAAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
96 56 0.57
97 43 0.43
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.41
Consensus pattern (96 bp):
GGATACTCCAACCTGTTTTTAAACTTATCAAGATTTAAATCTTATTTTTGCCTAAAATATCATCA
TCGAAAATACTCTAACCCCATTTTTCTAAGG
Found at i:184254 original size:14 final size:15
Alignment explanation
Indices: 184218--184255 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
184208 TTTATATATA
184218 TAAAA-TTTTCTTCG
1 TAAAATTTTTCTTCG
184232 TAAAGATTTTTC-TCG
1 TAAA-ATTTTTCTTCG
184247 TAAAATTTT
1 TAAAATTTT
184256 ACAAGTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 8 0.36
16 5 0.23
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (15 bp):
TAAAATTTTTCTTCG
Found at i:184371 original size:13 final size:13
Alignment explanation
Indices: 184335--184365 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
184325 TATTTTTATT
184335 AATTTTAATTTGA
1 AATTTTAATTTGA
184348 AATTTTAATTT-A
1 AATTTTAATTTGA
184360 AATTTT
1 AATTTT
184366 GGATTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
AATTTTAATTTGA
Found at i:186257 original size:19 final size:19
Alignment explanation
Indices: 186214--186258 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
186204 GGAATTTTTA
*
186214 GAAAATTAAAGTAATATCT
1 GAAAATTAAAATAATATCT
** *
186233 CCAAATTAAAATAATATGT
1 GAAAATTAAAATAATATCT
186252 GAAAATT
1 GAAAATT
186259 TTCCCAAAAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (19 bp):
GAAAATTAAAATAATATCT
Found at i:192291 original size:20 final size:19
Alignment explanation
Indices: 192268--192341 Score: 112
Period size: 20 Copynumber: 3.8 Consensus size: 19
192258 ACAAAGACAG
192268 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
*
192287 GAATGTATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
*
192308 CATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
192327 AATGTATCGATACAT
1 AATGTATCGATACAT
192342 CTAGGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 15 0.31
20 33 0.67
21 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:193215 original size:28 final size:28
Alignment explanation
Indices: 193174--193665 Score: 520
Period size: 28 Copynumber: 17.6 Consensus size: 28
193164 CACCAACTTG
193174 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * **
193202 TGTGGGCTTAGAAAGGGTGCTGCTGA-T
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
193229 TGGTGGGCTTTGAAA-AAGTGCCATTAACT
1 T-GTGGGCTTTGAAAGGA-TGCCACTGACT
* *
193258 CGTAGGCTTTGAAGAGG-TGCCACTGACT
1 TGTGGGCTTTGAA-AGGATGCCACTGACT
* * * * *
193286 GGTAGGCTTTGAAA-AAGTGCCATTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
193314 CGTAGGCTTTGAAGAGG-TGCCACTGACT
1 TGTGGGCTTTGAA-AGGATGCCACTGACT
* * *
193342 GGTAGGCTTTGAAA-AAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
193370 TGTGGGCTTTGAAGAGG-TGCCACTGACT
1 TGTGGGCTTTGAA-AGGATGCCACTGACT
*
193398 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
193426 TATGGGCTTTG-AAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
*
193454 TATGGGCTTTG-AAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
*
193482 TGTGGGCTTTGAATGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
193510 TGTGGGCTTAAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
193538 TGTGGGCTTTG-AAGAGATGCCATTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
193566 TGTGGGCTTT-AAATGGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
193594 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
193622 TATGGGCTTTGGAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
193650 GGTGGGCTTTAAAAGG
1 TGTGGGCTTTGAAAGG
193666 GTCGTATTGA
Statistics
Matches: 394, Mismatches: 50, Indels: 40
0.81 0.10 0.08
Matches are distributed among these distances:
27 13 0.03
28 371 0.94
29 10 0.03
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:194946 original size:10 final size:10
Alignment explanation
Indices: 194922--194985 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
194912 TGGACCCTTC
*
194922 TTTGTTT-TG
1 TTTGTTTATT
194931 TTTGTTTATT
1 TTTGTTTATT
*
194941 TTTGTTTGTT
1 TTTGTTTATT
*
194951 TTGGTTTATT
1 TTTGTTTATT
*
194961 TTGGTTTA-T
1 TTTGTTTATT
*
194970 TTTGTTGTTTT
1 TTTGTT-TATT
194981 TTTGT
1 TTTGT
194986 ACGAAGGATG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
9 13 0.28
10 27 0.59
11 6 0.13
ACGTcount: A:0.05, C:0.00, G:0.19, T:0.77
Consensus pattern (10 bp):
TTTGTTTATT
Found at i:211255 original size:78 final size:80
Alignment explanation
Indices: 211173--211349 Score: 250
Period size: 80 Copynumber: 2.2 Consensus size: 80
211163 TCGGAAACGA
* * * * *
211173 TGGGGTTAGAGTATTCCCTGAGATGAAAATTTTAGTG-TTT-GAAGTAAAAACGGGATTGGAGTA
1 TGGGGTTAGAGTATCCCCTGAGATGAAAAGTTCAATGTTTTGGAAGTAAAAACGGGATTAGAGTA
211236 TCCCCTTAAAGATGG
66 TCCCCTTAAAGATGG
* *
211251 TGGGGTTAGAGTATCCCCAGAGATGAAAAGTTCAATGTTTTGGAAGTAAAAACGGGGTTAGAGTA
1 TGGGGTTAGAGTATCCCCTGAGATGAAAAGTTCAATGTTTTGGAAGTAAAAACGGGATTAGAGTA
**
211316 TCCCCTTGGAGATGG
66 TCCCCTTAAAGATGG
*
211331 TGGGGTTGGAGTATCCCCT
1 TGGGGTTAGAGTATCCCCT
211350 CTTGATGTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 32 0.37
79 3 0.03
80 51 0.59
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (80 bp):
TGGGGTTAGAGTATCCCCTGAGATGAAAAGTTCAATGTTTTGGAAGTAAAAACGGGATTAGAGTA
TCCCCTTAAAGATGG
Found at i:217340 original size:13 final size:13
Alignment explanation
Indices: 217322--217347 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
217312 ACAAAGATCC
217322 ATGTATCGATACA
1 ATGTATCGATACA
217335 ATGTATCGATACA
1 ATGTATCGATACA
217348 TTTCCTTGGC
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:217403 original size:19 final size:20
Alignment explanation
Indices: 217379--217431 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
217369 AGCGATACAT
217379 TGTATCGATACAATACT-TA
1 TGTATCGATACAATACTGTA
* *
217398 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-ATACTGTA
217419 TGTATCGATACAA
1 TGTATCGATACAA
217432 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTGTA
Found at i:221647 original size:155 final size:155
Alignment explanation
Indices: 221488--221841 Score: 387
Period size: 154 Copynumber: 2.3 Consensus size: 155
221478 CATAGAAGCA
* *
221488 ACCTGGTGTCAAAGTAGGACTCGATTTTAGAAAAATTATGAAAATATCCTTATG-GGATACCTTC
1 ACCTGGTGT-AAACTAGGACTCGATTTTAGAAAAATTATGAAAATACCCTTA-GAGGATACCTTC
* ** * * * *
221552 GACTTAGAAATGCTTGCTACCCCTAAAAGACTTAAAAATGATTATAGATGGGATAAACCTATCCT
64 GACTTAGAAATGCCTAATACCCCTAAAAGACTTAAAAAGGACTATAAATAGGATAAACCTATCC-
* *
221617 AA-ATACCTACCTTCGACATAAAAG-GG
128 AATATACCCACCTTCGACATAAAAGAAG
* * * ** * *
221643 ACCTGGTGATAACCTAAGACTCGTTTTTA-AAAAATTACAAAAATACCCTTAGAGGATATCTTTG
1 ACCTGGTG-TAAACTAGGACTCGATTTTAGAAAAATTATGAAAATACCCTTAGAGGATACCTTCG
* *
221707 ACTTAGAAGTGCCTAATACCCCTAAAAGACTTAAAAAGGACTATAAATAGGATGAACCTATCCAA
65 ACTTAGAAATGCCTAATACCCCTAAAAGACTTAAAAAGGACTATAAATAGGATAAACCTATCCAA
* * *
221772 TATACCCATCTTCGGCTTAAAAGAAG
130 TATACCCACCTTCGACATAAAAGAAG
* *
221798 A-CTTGTGAAAACCTAGGACAT-GATTTTAGAAAAATTATGAAAAT
1 ACCTGGTGTAAA-CTAGGAC-TCGATTTTAGAAAAATTATGAAAAT
221842 GCCTATAAGA
Statistics
Matches: 162, Mismatches: 30, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
153 5 0.03
154 117 0.72
155 39 0.24
156 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (155 bp):
ACCTGGTGTAAACTAGGACTCGATTTTAGAAAAATTATGAAAATACCCTTAGAGGATACCTTCGA
CTTAGAAATGCCTAATACCCCTAAAAGACTTAAAAAGGACTATAAATAGGATAAACCTATCCAAT
ATACCCACCTTCGACATAAAAGAAG
Found at i:223703 original size:165 final size:166
Alignment explanation
Indices: 223495--223915 Score: 480
Period size: 165 Copynumber: 2.5 Consensus size: 166
223485 GTTATATGAG
* * *
223495 AAAAATGCAAAATTCAT-AAAATAAATTA-AATTTTCTC-AAACTGAATTAATATGAATTTAATA
1 AAAAATGAAAAACTCATGAAAATAAA--AGAATTTT-TCAAAACTGAATTAATATGAATTAAATA
* * * * **
223557 ACAATATTTGATGAATTTTAAAAATTTTAAA-TCGAGAAAAATCCTCTCGAAAACATTTATGGAG
63 ATAATATTTAATGAATTTTAAAAATTTTAAACT-AAGAAAAATCCTCCCGAAAACATTTACAGAG
* * *
223621 TAGAAAACT-TAGT-TTTTCAAAAATAAGAAAATTTCAGAG-
127 TAAAAAACTCTA-TATTTT-AAAAATAAAAAAATTTCAAAGA
* * * * *
223660 AAAAATGAAAAACTTATGGAAATAAAAGAATTTTTCAAAACTGAATTACTATGAATTAAATGATG
1 AAAAATGAAAAACTCATGAAAATAAAAGAATTTTTCAAAACTGAATTAATATGAATTAAATAATA
* * * *
223725 ATGTTTAATGAATTTTAAAAATTATAAACTAAGAAAAATTCTCCCGAAAATATTTACAGAGTAAA
66 ATATTTAATGAATTTTAAAAATTTTAAACTAAGAAAAATCCTCCCGAAAACATTTACAGAGTAAA
*
223790 AAACTCTATATTTTAAAAATAAAAAAATTTTAAAGA
131 AAACTCTATATTTTAAAAATAAAAAAATTTCAAAGA
* * *
223826 AAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAATTG-ATATAATATGAGTTAAATAAT
1 AAAAATGAAAAACTCATGAAAATAAAAGAATTTTTCAAAACTGAAT-TAATATGAATTAAATAAT
* *
223890 AATATTTCATGAATTTTCAAAATTTT
65 AATATTTAATGAATTTTAAAAATTTT
223916 GAATAATAAT
Statistics
Matches: 214, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
164 3 0.01
165 122 0.57
166 89 0.42
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (166 bp):
AAAAATGAAAAACTCATGAAAATAAAAGAATTTTTCAAAACTGAATTAATATGAATTAAATAATA
ATATTTAATGAATTTTAAAAATTTTAAACTAAGAAAAATCCTCCCGAAAACATTTACAGAGTAAA
AAACTCTATATTTTAAAAATAAAAAAATTTCAAAGA
Found at i:223921 original size:33 final size:33
Alignment explanation
Indices: 223884--223951 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
223874 ATATGAGTTA
*
223884 AATAATAATATTTCATGAATTTTCAAAATTTTG
1 AATAATAATATTTCATGAATTTTAAAAATTTTG
*
223917 AATAATAATATTTGATGAATTTTAAAAATTTTG
1 AATAATAATATTTCATGAATTTTAAAAATTTTG
223950 AA
1 AA
223952 CCGATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (33 bp):
AATAATAATATTTCATGAATTTTAAAAATTTTG
Found at i:224797 original size:49 final size:50
Alignment explanation
Indices: 224674--224807 Score: 180
Period size: 49 Copynumber: 2.7 Consensus size: 50
224664 TTTCACAATT
*
224674 TGTATCGATACATTGTTCATTGTATCGATACATTTTGGGTTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
* *
224724 TGTATCGATACATTGTTCGTTGTATCGATACATTCTGTG-TTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
* * * * **
224773 TGTAGCGATATATTTTTCAATGTATCTTTACATTC
1 TGTATCGATACATTGTTCATTGTATCGATACATTC
224808 AGGCATTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 38 0.51
50 36 0.49
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (50 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
Found at i:227276 original size:79 final size:76
Alignment explanation
Indices: 227139--227337 Score: 227
Period size: 79 Copynumber: 2.5 Consensus size: 76
227129 AAATTTTCAC
* * * * * *
227139 CAAAACACCAATTTTTTTTACAATCGGAGATACTCCAATCCCGTTATTTTCGAGGGGATAGTCAA
1 CAAAACACCAA--TTTTCTACAATCGG-GATACTCCAA-CCCATTATTTCCAAAGGGATACTCAA
227204 ACCCCGGTTTTATTTT
62 ACCCCGGTTTTA-TTT
* *
227220 CAAAACACCAATTTTCTATAATCAGGGATACTCCAACCCTATTATTTCCAAAGGGATACTCCAAC
1 CAAAACACCAATTTTCTACAATC-GGGATACTCCAACCC-ATTATTTCCAAAGGGATACTCAAAC
227285 CCCGGTTTTATTT
64 CCCGGTTTTATTT
* *
227298 CTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCC
1 C-AAAACACCAATTTTCTACAATC-GGGATACTCCAACCC
227338 CGATTTTATT
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
78 7 0.07
79 83 0.81
80 2 0.02
81 11 0.11
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (76 bp):
CAAAACACCAATTTTCTACAATCGGGATACTCCAACCCATTATTTCCAAAGGGATACTCAAACCC
CGGTTTTATTT
Found at i:227336 original size:51 final size:51
Alignment explanation
Indices: 227272--227390 Score: 179
Period size: 51 Copynumber: 2.3 Consensus size: 51
227262 TATTTCCAAA
*
227272 GGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTCCA-CAATCG
1 GGGATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTCCAGC-ATCG
*
227323 GGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTCCAGCATCG
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTCCAGCATCG
*
227374 GGGATACTCTAACCCCG
1 GGGATACTCCAACCCCG
227391 TTATTTCCAA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
51 58 0.92
52 5 0.08
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTCCAGCATCG
Found at i:227425 original size:130 final size:130
Alignment explanation
Indices: 227192--227434 Score: 360
Period size: 130 Copynumber: 1.9 Consensus size: 130
227182 TTATTTTCGA
* * * *
227192 GGGGATAGTCAAACCCCGGTTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTCCAGAATCAGGGATACTCCAAC
* *
227257 CCTATTATTTCCAAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATC
66 CCCATTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATC
* * * * * *
227322 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTCCAGCATCGGGGATACTCTAAC
1 GGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTCCAGAATCAGGGATACTCCAAC
* *
227387 CCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
66 CCCATTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCTAAAAC
227435 TTCACAGAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
130 99 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (130 bp):
GGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTCCAGAATCAGGGATACTCCAAC
CCCATTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATC
Found at i:233483 original size:62 final size:62
Alignment explanation
Indices: 233404--234434 Score: 1141
Period size: 62 Copynumber: 16.6 Consensus size: 62
233394 TCACTTTTAG
* *
233404 CCCTTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
233466 CCATTTAGTCCTCAAAGAGCAGGACGTCTTTTTTCTTTTCAAAG-CC-CACGAGCTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACATC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *** *
233527 CCCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCC-TTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
233590 -CCTTTAGTCCTCGAAGAGCAGGGCA-CCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
233650 CCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* ** * *
233712 CCCTTTAGTCCTCAAAGAGTAGGATGTCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
*** * *
233774 -CCTTTGAGTCCTCAAAGAGCAGGATGCCTTTGTCTTTTC-TAGCCCACACAAGTTGGTGGCA
1 CCCTTT-AGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
** ** * * ** *
233835 CTTTTTAGTCCTCAAAGAGCAGGATGTTTTTTTTCTTTTTAAAGCCCACAGGAGCTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGA-CATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * * * *
233898 GCTTTTTAGTCTTCAAAGAACAGGACACCTTTATTCTTTTCAAAGCTCACACAAGCTAGTGGCA
1 -CCCTTTAGTCCTCAAAGAGCAGGACATCTTT-TTCTTTTCAAAGCCCACACAAGTTGGTGGCA
*** * *
233962 CCCTTTAGTCCTCAAAGAGCAGGGTGTTTTTTTCTTTTCAAAGCCCTCACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
234024 CCCTTTAGTCCTCAAAGAGCAGG--ATGCATTTTCCTTTCGAAGCCCACACAAGCTAGTAGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACAT-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
234085 CCCTTTAGTCTTCAAAGAACATGACACCTTTATTCTTTTCAAAGCCCACACAAGCTAGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACATCTTT-TTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
234148 CCCTTTTGTCCTCAAAGAGCAGGGCGTTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
234210 CCCTTTAGTCCTCAAAGAGAAGG--ATGCTTTTTCCTTTCGAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACAT-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
234271 CCTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCCTT-TAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
*** **
234334 -CCTCTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCA
1 CCCT-TTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
234396 CCTTTTAGTCTTTAAAGTGCAGGA-TTCTTTTTCCTTTTC
1 CCCTTTAGTCCTCAAAGAGCAGGACATCTTTTT-CTTTTC
234435 TCTTTTGTCC
Statistics
Matches: 826, Mismatches: 120, Indels: 46
0.83 0.12 0.05
Matches are distributed among these distances:
60 34 0.04
61 202 0.24
62 382 0.46
63 159 0.19
64 49 0.06
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (62 bp):
CCCTTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:234487 original size:44 final size:43
Alignment explanation
Indices: 234438--235050 Score: 241
Period size: 44 Copynumber: 14.5 Consensus size: 43
234428 CCTTTTCTCT
* * *
234438 TTTGTCCTCAAAAAGCAGGACACATTTCATTTCTTTCTTGTCCC
1 TTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTCTT-TCCA
* * * **
234482 TTTGTCCCCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCTT
1 TTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTC-TTTCCA
* *
234526 TTTCATCCTCAAAAAGCAGGACGCACTT--TTTCCTT-TTT-CA
1 TTT-GTCCTCAAAAAGCAGGACACACTTCATTTCCTTCTTTCCA
* * * ***
234566 TTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTTTTT
1 TTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTCTTTCCA
* * * * * * * * * *
234609 TTTATCCTTAAAGAGTAGGGCGCACCTCATTTTCTTATTGTCCC
1 TTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTCTT-TCCA
* ** * *
234653 TTTGTCCTCAAAGAGCAGGATGCGCTTCATTTCCTTCTTTTCTCT
1 TTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTC-TTTC-CA
* * * * * *
234698 TTTGTCCTTAAAGAGCAAGACGCACTTTATTTCCTTTTTTCC-
1 TTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTCTTTCCA
* * * * * * *
234740 TTTTTCCCCAAAGAGCAGGGCGCTCCTT-ATTTCTTTCTTTTCC-
1 TTTGTCCTCAAAAAGCAGGACAC-ACTTCATTTCCTTC-TTTCCA
* * * *
234783 TTTAGTCCTCAAAGAGCAAGATAC-C-T--TTTCCTT-TTCTTC-
1 TTT-GTCCTCAAAAAGCAGGACACACTTCATTTCCTTCTT-TCCA
* * * * * *
234822 TTTATCCTCAAAGAGCAGAACGCATTTCATTCTCCTT-TTT-CT
1 TTTGTCCTCAAAAAGCAGGACACACTTCATT-TCCTTCTTTCCA
* * * * *
234864 TTTGTCTTCAAAGAGCAGGACGCACTTTATTTCCTT-TTTTC-
1 TTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTCTTTCCA
* * * * *
234905 TTTGTCCTCAAAGAGTAGGGCGCACCTT-ATTTCCTTCTTTTCCC
1 TTTGTCCTCAAAAAGCAGGACACA-CTTCATTTCCTTC-TTTCCA
* * *
234949 TTAGTCCTCAAAGAGCAGGACAC-C-T--TTTCCTT-TTCTTC-
1 TTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTCTT-TCCA
* ** * *
234987 TTTGTCCTCAAAGAGCAGGACGTATTTCATTTTCCTTTTTTTCC-
1 TTTGTCCTCAAAAAGCAGGACACACTTCA-TTTCC-TTCTTTCCA
* *
235031 TTTGTCTTCAAAGAGCAGGA
1 TTTGTCCTCAAAAAGCAGGA
235051 TGCCTTTTCC
Statistics
Matches: 449, Mismatches: 88, Indels: 64
0.75 0.15 0.11
Matches are distributed among these distances:
38 39 0.09
39 26 0.06
40 18 0.04
41 50 0.11
42 63 0.14
43 66 0.15
44 128 0.29
45 59 0.13
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (43 bp):
TTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTCTTTCCA
Found at i:234682 original size:87 final size:85
Alignment explanation
Indices: 234429--235064 Score: 440
Period size: 82 Copynumber: 7.5 Consensus size: 85
234419 ATTCTTTTTC
* * * * * * *
234429 CTTTTCTCTTTTGTCCTCAAAAAGCAGGACACATTTCATTTCTTTCTTGTCCCTTTGTCCCCAAA
1 CTTTTCT-TTTTATCCTTAAAGAGCAGGACGCACTT--TTTCCTT-TTGTCCCTTTGTCCTCAAA
234494 GAGCAGGACGCACTTCATTTCCTT
62 GAGCAGGACGCACTTCATTTCCTT
* * *
234518 CTTTTCTTTTTCATCCTCAAAAAGCAGGACGCACTTTTTCCTTTT-T-CATTTGTCCTCAAAGAG
1 CTTTTCTTTTT-ATCCTTAAAGAGCAGGACGCACTTTTTCCTTTTGTCCCTTTGTCCTCAAAGAG
* * *
234581 TAGGACACATTTCATTTCCTT
65 CAGGACGCACTTCATTTCCTT
* *
234602 CTTTT-TTTTTATCCTTAAAGAGTAGGGCGCACCTCATTTT-CTTATTGTCCCTTTGTCCTCAAA
1 CTTTTCTTTTTATCCTTAAAGAGCAGGACGCA-CT--TTTTCCTT-TTGTCCCTTTGTCCTCAAA
* *
234665 GAGCAGGATGCGCTTCATTTCCTT
62 GAGCAGGACGCACTTCATTTCCTT
* * * * *
234689 CTTTTCTCTTTTGTCCTTAAAGAGCAAGACGCACTTTATTTCCTTTT-TTCCTTTTTCCCCAAAG
1 CTTTTCT-TTTTATCCTTAAAGAGCAGGACGCAC-TT-TTTCCTTTTGTCCCTTTGTCCTCAAAG
* * *
234753 AGCAGGGCGCTCCTT-ATTTCTTT
63 AGCAGGACGC-ACTTCATTTCCTT
* * * * * * * *
234776 CTTTTC-CTTTAGTCCTCAAAGAGCAAGA--TACCTTTTCCTTTTCT-TCTTTATCCTCAAAGAG
1 CTTTTCTTTTTA-TCCTTAAAGAGCAGGACGCACTTTTTCCTTTTGTCCCTTTGTCCTCAAAGAG
* *
234837 CAGAACGCATTTCATTCTCC-T
65 CAGGACGCACTTCATT-TCCTT
* *
234858 -TTTTC-TTTTGT-CTTCAAAGAGCAGGACGCACTTTATTTCCTTTT-T-TCTTTGTCCTCAAAG
1 CTTTTCTTTTTATCCTT-AAAGAGCAGGACGCAC-TT-TTTCCTTTTGTCCCTTTGTCCTCAAAG
* *
234918 AGTAGGGCGCACCTT-ATTTCCTT
63 AGCAGGACGCA-CTTCATTTCCTT
** * * * *
234941 CTTTTC-CCTTAGTCCTCAAAGAGCAGGA--CACCTTTTCCTTTTCT-TCTTTGTCCTCAAAGAG
1 CTTTTCTTTTTA-TCCTTAAAGAGCAGGACGCACTTTTTCCTTTTGTCCCTTTGTCCTCAAAGAG
* *
235002 CAGGACGTATTTCATTTTCCTT
65 CAGGACGCACTTCA-TTTCCTT
* * * *
235024 TTTTTC-CTTTGT-CTTCAAAGAGCAGGATGC-C-TTTTCCTTTT
1 CTTTTCTTTTTATCCTT-AAAGAGCAGGACGCACTTTTTCCTTTT
235065 AAACCCACAC
Statistics
Matches: 447, Mismatches: 67, Indels: 73
0.76 0.11 0.12
Matches are distributed among these distances:
79 2 0.00
80 11 0.02
81 23 0.05
82 103 0.23
83 58 0.13
84 62 0.14
85 22 0.05
86 20 0.04
87 79 0.18
88 14 0.03
89 53 0.12
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (85 bp):
CTTTTCTTTTTATCCTTAAAGAGCAGGACGCACTTTTTCCTTTTGTCCCTTTGTCCTCAAAGAGC
AGGACGCACTTCATTTCCTT
Found at i:234956 original size:165 final size:166
Alignment explanation
Indices: 234481--235050 Score: 629
Period size: 165 Copynumber: 3.4 Consensus size: 166
234471 TTTCTTGTCC
* *
234481 CTTTGTCCCCAAAGAGCAGGACGCACTTCATT-TCCTTCTTTTCTTTT-TCATCCTCAAAAAGCA
1 CTTTGTCCTCAAAGAGCAGGACGCACTTCATTCTCCTT-TTTTCTTTTGTC-T--TCAAAGAGCA
* * *
234544 GGACGCAC-TT-TTTCC-TTTTTCATTTGTCCTCAAAGAGTAGGACACA-TTTCATTTCCTTCTT
62 GGACGCACTTTATTTCCTTTTTTC-TTTGTCCTCAAAGAGTAGGGCGCACCTT-ATTTCCTTCTT
** * * * * * *
234605 TTTTTTTA-TCCTTAAAGAGTAGGGCGCACCTCATTTTCTTATTGTCC
125 TTCCTTTAGTCCTCAAAGAGCA-GG-ACACCT--TTTCCTT-TTCT-T
* *
234652 CTTTGTCCTCAAAGAGCAGGATGCGCTTCATT-TCCTTCTTTTCTCTTTTGTCCTT-AAAGAGCA
1 CTTTGTCCTCAAAGAGCAGGACGCACTTCATTCTCC-T-TTTT-TCTTTTGT-CTTCAAAGAGCA
* * * * * *
234715 AGACGCACTTTATTTCCTTTTTTCCTTTTTCCCCAAAGAGCAGGGCGCTCCTTATTTCTTTCTTT
62 GGACGCACTTTATTTCCTTTTTT-CTTTGTCCTCAAAGAGTAGGGCGCACCTTATTTCCTTCTTT
* *
234780 TCCTTTAGTCCTCAAAGAGCAAGATACCTTTTCCTTTTCTT
126 TCCTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTCTT
* * *
234821 CTTTATCCTCAAAGAGCAGAACGCATTTCATTCTCC-TTTTTCTTTTGTCTTCAAAGAGCAGGAC
1 CTTTGTCCTCAAAGAGCAGGACGCACTTCATTCTCCTTTTTTCTTTTGTCTTCAAAGAGCAGGAC
*
234885 GCACTTTATTTCCTTTTTTCTTTGTCCTCAAAGAGTAGGGCGCACCTTATTTCCTTCTTTTCCCT
66 GCACTTTATTTCCTTTTTTCTTTGTCCTCAAAGAGTAGGGCGCACCTTATTTCCTTCTTTTCCTT
234950 TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTCTT
131 TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTCTT
* * * *
234986 CTTTGTCCTCAAAGAGCAGGACGTATTTCATTTTCCTTTTTTTCCTTTGTCTTCAAAGAGCAGGA
1 CTTTGTCCTCAAAGAGCAGGACGCACTTCATTCTCC-TTTTTTCTTTTGTCTTCAAAGAGCAGGA
235051 TGCCTTTTCC
Statistics
Matches: 342, Mismatches: 42, Indels: 34
0.82 0.10 0.08
Matches are distributed among these distances:
165 109 0.32
166 38 0.11
167 30 0.09
169 27 0.08
170 6 0.02
171 52 0.15
172 7 0.02
173 16 0.05
174 42 0.12
175 15 0.04
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.41
Consensus pattern (166 bp):
CTTTGTCCTCAAAGAGCAGGACGCACTTCATTCTCCTTTTTTCTTTTGTCTTCAAAGAGCAGGAC
GCACTTTATTTCCTTTTTTCTTTGTCCTCAAAGAGTAGGGCGCACCTTATTTCCTTCTTTTCCTT
TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTCTT
Found at i:235164 original size:61 final size:60
Alignment explanation
Indices: 235038--235242 Score: 250
Period size: 61 Copynumber: 3.4 Consensus size: 60
235028 TCCTTTGTCT
* *
235038 TCAAAGAGCAGGATGCCTTTTCCTTTTAAA-CCCACACAAGTTGGTGGCACTTTTCTGGTCC
1 TCAAAGAGCAGGATGCCTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCC
* * * * * *
235099 TCAAAGAGCAGGATGCCTTTTCTTTGCAAAGTCCACACAAGTTGGTGACACCTTCCAATCT
1 TCAAAGAGCAGGATGCCTTTTCTTT-CAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCC
* * *
235160 TCAAAGAGCAAGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCC
1 TCAAAGAGCAGGATGCCTTTTC-TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCC
* *
235221 TCAAAGAGCATGACGCCTTTTC
1 TCAAAGAGCAGGATGCCTTTTC
235243 CTTCTCTCCT
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
60 4 0.03
61 97 0.80
62 21 0.17
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (60 bp):
TCAAAGAGCAGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCC
Found at i:237587 original size:165 final size:165
Alignment explanation
Indices: 237365--237787 Score: 479
Period size: 165 Copynumber: 2.6 Consensus size: 165
237355 ATTTTTATAT
* * * *
237365 GAAAAAATGCAAAATTCAT-AAAATAAATTAAATTTTCTC-AAACTGATTTAATATGAATTTAAT
1 GAAAAAATGAAAAACTCATGAAAATAAA-TAAATTTT-TCAAAACTGAATTAATATGAATTAAAT
* *
237428 AACAATATTTGATGAATTTTAAAAATTTTAAATCG-AGAAAAATCTTCT-CGAAAATATTTATGA
64 AATAATATTTGATGAATTTTAAAAATTTTAAA-CGAAG-AAAA-CTTCTCCGAAAATATTTACGA
* * *
237491 AG-AAGAAAC-CTGAGTTTTTCAAAAATAAGAA-AATTTCAAA
126 AGTAAAAAACTCT-A-TATTTCAAAAACAA-AAGAATTTCAAA
* * *
237531 G-AAAAATGAAAAACTTATGAAAATAAA-AGAATTTTTCAAAACTGAATTACTATGAATTAAATG
1 GAAAAAATGAAAAACTCATGAAAATAAATA-AATTTTTCAAAACTGAATTAATATGAATTAAATA
* * * * * *
237594 ATGATGTTTAATGAATTTTAAAAATTATAAACTAAGAAAACTTCTCCCGAAAATATTTACGGAGT
65 ATAATATTTGATGAATTTTAAAAATTTTAAACGAAGAAAACTTCT-CCGAAAATATTTACGAAGT
*
237659 AAAAAACTCTATATTTCAAAAACAAAAGAATTTTAAA
129 AAAAAACTCTATATTTCAAAAACAAAAGAATTTCAAA
* *
237696 GAAAAAATGAAAAACTCATGAAAATAAATAAAATTTTCAAAACTG-ATATAATATGAGTTAAATA
1 GAAAAAATGAAAAACTCATGAAAATAAATAAATTTTTCAAAACTGAAT-TAATATGAATTAAATA
*
237760 ATAATATTTGATGAATTTTCAAAATTTT
65 ATAATATTTGATGAATTTTAAAAATTTT
237788 GAATAATAAT
Statistics
Matches: 216, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
163 5 0.02
164 10 0.05
165 107 0.50
166 91 0.42
167 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (165 bp):
GAAAAAATGAAAAACTCATGAAAATAAATAAATTTTTCAAAACTGAATTAATATGAATTAAATAA
TAATATTTGATGAATTTTAAAAATTTTAAACGAAGAAAACTTCTCCGAAAATATTTACGAAGTAA
AAAACTCTATATTTCAAAAACAAAAGAATTTCAAA
Found at i:237823 original size:33 final size:33
Alignment explanation
Indices: 237756--237819 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
237746 ATATGAGTTA
237756 AATAATAATATTTGATGAATTTTCAAAATTTTG
1 AATAATAATATTTGATGAATTTTCAAAATTTTG
237789 AATAATAATATTTGATGAATTTT-AAAATTTT
1 AATAATAATATTTGATGAATTTTCAAAATTTT
237820 TGAACCGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.26
33 23 0.74
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (33 bp):
AATAATAATATTTGATGAATTTTCAAAATTTTG
Found at i:238573 original size:20 final size:20
Alignment explanation
Indices: 238548--238674 Score: 146
Period size: 20 Copynumber: 5.8 Consensus size: 20
238538 TTTTCACAAT
238548 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
238568 TTGTATCGATACATTCTTGGTTTTACCCAA
1 TTGTATCGATACA---TT-G--TT---C-A
*
238598 ATGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
238618 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
238638 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
238658 TTGTATTGATACATTGT
1 TTGTATCGATACATTGT
238675 ATCGATACAT
Statistics
Matches: 94, Mismatches: 3, Indels: 20
0.80 0.03 0.17
Matches are distributed among these distances:
20 69 0.73
21 1 0.01
23 2 0.02
24 3 0.03
26 3 0.03
27 2 0.02
29 1 0.01
30 13 0.14
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:241112 original size:79 final size:77
Alignment explanation
Indices: 240979--241262 Score: 336
Period size: 79 Copynumber: 3.6 Consensus size: 77
240969 TCATTCATGT
* * ** *
240979 TTTTATTTCCAAAATACCAATTTTTTTTACAATCGGGGATACTCCATTCCCGTTATTTCCAAGGG
1 TTTTATTTTCAAAACACCAA--TTTTCCACAATCGGGGATACTCCA-ACCCGTTATTTCCAAGGG
*
241044 GATACTCCAACCCTGA
63 GATACTCCAACCC-GG
* *
241060 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTCCAAGGGGA
1 TTTTATTTTCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC-CGTTATTTCCAAGGGGA
241125 TACTCCAACCCCGG
65 TACTCCAA-CCCGG
* * ** * * *
241139 TTTTATTTTTAAAACACCAATTTTCCATAATTAGGGATACTTCAACCCCCTTATTTTCAAGGGGA
1 TTTTATTTTCAAAACACCAATTTTCCACAATCGGGGATACTCCAA-CCCGTTATTTCCAAGGGGA
241204 TACTCCAACTCCGG
65 TACTCCAAC-CCGG
*
241218 TTTTA-TTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAA
1 TTTTATTTTC-AAAACACCAATTTTCCACAATCGGGGATACTCCAA
241263 TTCTGGTTTT
Statistics
Matches: 179, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
78 6 0.03
79 150 0.84
80 5 0.03
81 18 0.10
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (77 bp):
TTTTATTTTCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCGTTATTTCCAAGGGGAT
ACTCCAACCCGG
Found at i:241262 original size:51 final size:51
Alignment explanation
Indices: 241199--241310 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
241189 TTATTTTCAA
*
241199 GGGGATACTCCAACTCCGGTTTTATTTCTAAAACATCAATTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCCAAAACATCAATTTTCCACAATC
* * *
241250 GGGGATACTCCAATTCTGGTTTTATTTCCAAAACATCAATTTTCCACCATC
1 GGGGATACTCCAACTCCGGTTTTATTTCCAAAACATCAATTTTCCACAATC
241301 GGGGATACTC
1 GGGGATACTC
241311 TAACCCTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCCAAAACATCAATTTTCCACAATC
Found at i:241271 original size:130 final size:130
Alignment explanation
Indices: 241120--241476 Score: 475
Period size: 130 Copynumber: 2.7 Consensus size: 130
241110 TTATTTCCAA
* * * * **
241120 GGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTCCATAATTAGGGATACT-TCAA
1 GGGGATACTCCAACTCCGGTTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCT-AA
** *
241184 CCCCCTTATTTTCAAGGGGATACTCCAACTCCGGTTTTATTTCTAAAACATCAATTTTCCACAAT
65 CCCTATTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAAT
241249 C
130 C
* * * *
241250 GGGGATACTCCAATTCTGGTTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCTAAC
1 GGGGATACTCCAACTCCGGTTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCTAAC
* *
241315 CCTATTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATC
66 CCTATTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATC
* * ** *
241380 AGGGATACTCAAACTCCAATTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCTAAC
1 GGGGATACTCCAACTCCGGTTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCTAAC
* * *
241445 CCTGTTA-TTTCATCGGGGATACTCCAATCCCG
66 CCTATTATTTTCA-AGGGGATACTCCAACCCCG
241477 TTATTTCTGA
Statistics
Matches: 197, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
129 4 0.02
130 192 0.97
131 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (130 bp):
GGGGATACTCCAACTCCGGTTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCTAAC
CCTATTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATC
Found at i:241403 original size:51 final size:51
Alignment explanation
Indices: 241330--241446 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
241320 TATTTCCAAG
* **
241330 GGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTTCACAATCA
1 GGGATACTCAAACCCCAATTTTATTTTC-AAAACATCAATTTTTCACAATCA
* *
241381 GGGATACTCAAACTCCAATTTTATTTTCAAAACATCAATTTTTCACAATCG
1 GGGATACTCAAACCCCAATTTTATTTTCAAAACATCAATTTTTCACAATCA
*
241432 GGGATACTCTAACCC
1 GGGATACTCAAACCC
241447 TGTTATTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 54 0.93
52 4 0.07
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.32
Consensus pattern (51 bp):
GGGATACTCAAACCCCAATTTTATTTTCAAAACATCAATTTTTCACAATCA
Found at i:241464 original size:28 final size:27
Alignment explanation
Indices: 241428--241500 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
241418 ATTTTTCACA
241428 ATCGGGGATACTCTAACCCTGTTATTTC
1 ATCGGGGATACTCTAACCC-GTTATTTC
*
241456 ATCGGGGATACTCCAATCCCGTTATTTC
1 ATCGGGGATACTCTAA-CCCGTTATTTC
*
241484 -TGAGGGGATAC-CTAACC
1 AT-CGGGGATACTCTAACC
241501 TCGACTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 31 0.77
29 3 0.08
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
ATCGGGGATACTCTAACCCGTTATTTC
Found at i:241626 original size:79 final size:79
Alignment explanation
Indices: 241456--241712 Score: 247
Period size: 79 Copynumber: 3.3 Consensus size: 79
241446 CTGTTATTTC
* * *
241456 ATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATAC-CTAACCTCGACTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTCGACTTTATTTCTAAAAT
*
241520 ATTGATTTCTCACA
66 ACTGATTTCTCACA
*
241534 ATCGGGGATACTCCAACCCCGTTATTTTTGCA-GGGATACTCCAATCCT-GATTTTA-TTCTCAA
1 ATCGGGGATACTCCAACCCCGTTATTTTTG-AGGGGATACTCCAA-CCTCGACTTTATTTCT-AA
*
241596 AATACTGATTT-TCTATA
63 AATACTGATTTCTC-ACA
** * * * * * *
241613 ATCGGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCGAACCCCAATTTTTATTTCTAGAA
1 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTCGA-CTTTATTTCTAAAA
* * *
241678 CACAGATTT-TCCAAA
65 TACTGATTTCT-CACA
* *
241693 ATCAGGGATACTCCAGCCCC
1 ATCGGGGATACTCCAACCCC
241713 ATTGTTATTT
Statistics
Matches: 150, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
78 44 0.29
79 63 0.42
80 38 0.25
81 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTCGACTTTATTTCTAAAAT
ACTGATTTCTCACA
Found at i:243363 original size:84 final size:84
Alignment explanation
Indices: 243275--243553 Score: 303
Period size: 84 Copynumber: 3.3 Consensus size: 84
243265 CAAGCAATCT
* * *
243275 AGTCAACAAAGGATAAAAAGAGTTACCCGGGACTAAGCCGATAGGTAAACAAAAGAGCTAAAGTT
1 AGTCAACAAAGGATAAAAAGATTTACCCAGGACTAAGCCGACAGGTAAACAAAAGAGCTAAAGTT
*
243340 GATC-GAGATTAAACCGACA
66 GATCAG-GATTAAACTGACA
* * * * * *
243359 AGTCAACAAAAGATAAAAGGATTTACCTAGGACTAAGCTGACAGGTAAA-TAAAG-GATAAAAGG
1 AGTCAACAAAGGATAAAAAGATTTACCCAGGACTAAGCCGACAGGTAAACAAAAGAGCT-AAA-G
* *
243422 TTGATCAGGATTGAACTGGCA
64 TTGATCAGGATTAAACTGACA
* * * *
243443 AGTTAACAAAGAATAAAAAGATTTACCCAGGACTAAGCCGACAGGTAAACAAAGGATGCAAAAGT
1 AGTCAACAAAGGATAAAAAGATTTACCCAGGACTAAGCCGACAGGTAAACAAAAGA-GCTAAAGT
* *
243508 TGACCAGGGTTAAACTGACA
65 TGATCAGGATTAAACTGACA
** * *
243528 AACCAATAAAGGACAAAAAGATTTAC
1 AGTCAACAAAGGATAAAAAGATTTAC
243554 TTGAGACTCA
Statistics
Matches: 157, Mismatches: 32, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
82 2 0.01
83 7 0.04
84 102 0.65
85 42 0.27
86 3 0.02
87 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (84 bp):
AGTCAACAAAGGATAAAAAGATTTACCCAGGACTAAGCCGACAGGTAAACAAAAGAGCTAAAGTT
GATCAGGATTAAACTGACA
Found at i:243494 original size:43 final size:43
Alignment explanation
Indices: 243279--243496 Score: 119
Period size: 43 Copynumber: 5.2 Consensus size: 43
243269 CAATCTAGTC
* * * *
243279 AACAAAGGATAAAAAGAGTTACCCGGGACTAAGCCGATAGGTA
1 AACAAAGAATAAAAAGATTTACCCAGGACTAAGCCGACAGGTA
* * * * * * * *
243322 AACAAAAGAGCT--AAAG-TTGATCGA-GATTAAACCGACAAGTC
1 AAC-AAAGA-ATAAAAAGATTTACCCAGGACTAAGCCGACAGGTA
* * *
243363 AACAAA-AGATAAAAGGATTTACCTAGGACTAAGCTGACAGGTA
1 AACAAAGA-ATAAAAAGATTTACCCAGGACTAAGCCGACAGGTA
* * * * * * * * * *
243406 AATAAAGGAT-AAAAGGTTGA-TCAGGATTGAA-CTGGCAAGTT
1 AACAAAGAATAAAAAGATTTACCCAGGACT-AAGCCGACAGGTA
243447 AACAAAGAATAAAAAGATTTACCCAGGACTAAGCCGACAGGTA
1 AACAAAGAATAAAAAGATTTACCCAGGACTAAGCCGACAGGTA
243490 AACAAAG
1 AACAAAG
243497 GATGCAAAAG
Statistics
Matches: 121, Mismatches: 43, Indels: 22
0.65 0.23 0.12
Matches are distributed among these distances:
39 3 0.02
40 3 0.02
41 38 0.31
42 27 0.22
43 45 0.37
44 4 0.03
45 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (43 bp):
AACAAAGAATAAAAAGATTTACCCAGGACTAAGCCGACAGGTA
Found at i:244506 original size:92 final size:88
Alignment explanation
Indices: 244307--244684 Score: 327
Period size: 87 Copynumber: 4.2 Consensus size: 88
244297 TCTCAACTCT
* * * * * ** * *
244307 TAGATGGTATTGATGCATCACAAAGCCTAATTTTCTAAGGG-AGGGTGCAAACCACTAATTCCCA
1 TAGATGGTATTGATGCATCACAAAGCTTGA-TTTCCATGGGCAAGGTATACACCACTCATTCCCA
* *
244371 AACATATCCCCTTTCATCCAAACAC
65 ATCATAT-CCCTTTCATCCAACCAC
*
244396 TAGATGGTATTGATGCATCACAAAGCCTT-ATTTCCATAGGGCAAGGATATCTCGACCACTCATT
1 TAGATGGTATTGATGCATCACAAAG-CTTGATTTCCAT-GGGCAAGG-TAT-AC-ACCACTCATT
* *
244460 CCCAATCATATCCCTTTCTTTCAACCAC
61 CCCAATCATATCCCTTTCATCCAACCAC
* * * * *
244488 TAAATGGTATTGATGCATCACAAAGCTTGATTTCCATGGGGAAGGTGTACACCACACATT-CTAA
1 TAGATGGTATTGATGCATCACAAAGCTTGATTTCCATGGGCAAGGTATACACCACTCATTCCCAA
*
244552 TCATTTCCCTTTCATCCAACCAC
66 TCATATCCCTTTCATCCAACCAC
* ** * * * * * *
244575 TAGGTGGTATTGATGCATCACAAAATTTTATTTTCTTGGG-GAGGT-TGCAGACCACTTATTCCC
1 TAGATGGTATTGATGCATCACAAAGCTTGATTTCCATGGGCAAGGTAT--ACACCACTCATTCCC
* *
244638 AATCATATCCCCTTT-ATCTAACTAC
64 AATCATAT-CCCTTTCATCCAACCAC
* *
244663 TAGATGGTATTGTTGCACCACA
1 TAGATGGTATTGATGCATCACA
244685 TGACCACAAA
Statistics
Matches: 238, Mismatches: 40, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
85 1 0.00
86 4 0.02
87 65 0.27
88 49 0.21
89 36 0.15
90 7 0.03
91 11 0.05
92 46 0.19
93 19 0.08
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (88 bp):
TAGATGGTATTGATGCATCACAAAGCTTGATTTCCATGGGCAAGGTATACACCACTCATTCCCAA
TCATATCCCTTTCATCCAACCAC
Found at i:244674 original size:175 final size:181
Alignment explanation
Indices: 244307--244684 Score: 416
Period size: 181 Copynumber: 2.1 Consensus size: 181
244297 TCTCAACTCT
* *
244307 TAGATGGTATTGATGCATCACAAAGCCTAATTTTCTAAGGGAGGGTGCAAACCACTAATTCCCAA
1 TAGATGGTATTGATGCATCACAAAGCCTAATTTCCTAAGGGAAGGTGCAAACCACTAATTCCCAA
*
244372 ACATATCCCCTTTCATCCAAACACTAGATGGTATTGATGCATCACAAAGCCTTATTTCCATAGGG
66 ACATATCCCCTTTCATCCAAACACTAGATGGTATTGATGCATCACAAAACCTTATTTCCATAGGG
* * *
244437 CAAGGATATCTCGACCACTCATTCCCAATCATATCCCTTTCTTTCAACCAC
131 CAAGGATATCTAGACCACTCATTCCCAATCATATCCCTTTATCTCAACCAC
* * * * * * *
244488 TAAATGGTATTGATGCATCACAAAGCTTGATTTCC-ATGGGGAAGGTGTACACCAC-ACATT-CT
1 TAGATGGTATTGATGCATCACAAAGCCTAATTTCCTA-AGGGAAGGTGCAAACCACTA-ATTCCC
* * * * ** * *
244550 AATCAT-TTCCCTTTCATCCAACCACTAGGTGGTATTGATGCATCACAAAATTTTATTTTC-TTG
64 AAACATATCCCCTTTCATCCAAACACTAGATGGTATTGATGCATCACAAAACCTTATTTCCATAG
* * *
244613 GG-GAGG-T-TGC-AGACCACTTATTCCCAATCATATCCCCTTTATCT-AACTAC
129 GGCAAGGATAT-CTAGACCACTCATTCCCAATCATAT-CCCTTTATCTCAACCAC
* *
244663 TAGATGGTATTGTTGCACCACA
1 TAGATGGTATTGATGCATCACA
244685 TGACCACAAA
Statistics
Matches: 166, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
175 46 0.28
176 10 0.06
177 3 0.02
178 4 0.02
179 47 0.28
180 8 0.05
181 48 0.29
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (181 bp):
TAGATGGTATTGATGCATCACAAAGCCTAATTTCCTAAGGGAAGGTGCAAACCACTAATTCCCAA
ACATATCCCCTTTCATCCAAACACTAGATGGTATTGATGCATCACAAAACCTTATTTCCATAGGG
CAAGGATATCTAGACCACTCATTCCCAATCATATCCCTTTATCTCAACCAC
Found at i:245168 original size:46 final size:45
Alignment explanation
Indices: 245097--245341 Score: 242
Period size: 46 Copynumber: 5.4 Consensus size: 45
245087 AACCTTTTAA
* *
245097 TCGTTTGACTATA-CGGTTATCACCCTGGTCATAGCCTTTTCATTC
1 TCGTTTGACTGTATCGGTTATCACCCTGGTCA-AACCTTTTCATTC
*
245142 TCGTTTGACTATATCGGTTATCACCCTGGTCAAACCTTTTTCATTC
1 TCGTTTGACTGTATCGGTTATCACCCTGGTCAAACC-TTTTCATTC
* * * * *
245188 TCCTTTGACTGTATCAGTTATTACCC-GAGTCAAACCCTTTTTATTA
1 TCGTTTGACTGTATCGGTTATCACCCTG-GTCAAA-CCTTTTCATTC
* * * *
245234 TCATTTGACTGTATCGGTTACCACCCTAGTCAAACTTTTTTCATTC
1 TCGTTTGACTGTATCGGTTATCACCCTGGTCAAAC-CTTTTCATTC
* * * * ***
245280 TCATTTGAATGTATTGGTTACCATGTTGGTCAAACCTTTTTCATTC
1 TCGTTTGACTGTATCGGTTATCACCCTGGTCAAACC-TTTTCATTC
*
245326 TTGTTTGACTGTATCG
1 TCGTTTGACTGTATCG
245342 ATGTAAATGT
Statistics
Matches: 167, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
45 18 0.11
46 147 0.88
47 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (45 bp):
TCGTTTGACTGTATCGGTTATCACCCTGGTCAAACCTTTTCATTC
Found at i:246880 original size:5 final size:6
Alignment explanation
Indices: 246866--246907 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 6
246856 TGCAACTAAA
246866 TTTTCT TTTTCT TTTTCCT TTTT-T TTTTGCT TTTTCT ATTTT
1 TTTTCT TTTTCT TTTT-CT TTTTCT TTTT-CT TTTTCT -TTTT
246908 TTTGTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.16
6 12 0.38
7 15 0.47
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:246893 original size:19 final size:19
Alignment explanation
Indices: 246865--246910 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
246855 ATGCAACTAA
246865 ATTTTCTTTTT-CTTTTTCCT
1 ATTTT-TTTTTGCTTTTT-CT
246885 -TTTTTTTTTGCTTTTTCT
1 ATTTTTTTTTGCTTTTTCT
246903 ATTTTTTT
1 ATTTTTTT
246911 GTTTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (19 bp):
ATTTTTTTTTGCTTTTTCT
Found at i:246900 original size:12 final size:12
Alignment explanation
Indices: 246866--246907 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
246856 TGCAACTAAA
246866 TTTTCTTTTTCT
1 TTTTCTTTTTCT
246878 TTTTCCTTTTT-T
1 TTTT-CTTTTTCT
246890 TTTTGCTTTTTCT
1 TTTT-CTTTTTCT
246903 ATTTT
1 -TTTT
246908 TTTGTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 15 0.58
13 7 0.27
14 4 0.15
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:246907 original size:17 final size:15
Alignment explanation
Indices: 246887--246920 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
246877 TTTTTCCTTT
246887 TTTTTTTGCTTTTTCTA
1 TTTTTTTG-TTTTT-TA
246904 TTTTTTTGTTTTTTA
1 TTTTTTTGTTTTTTA
246919 TT
1 TT
246921 GAAAATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTTTTTGTTTTTTA
Found at i:248251 original size:22 final size:22
Alignment explanation
Indices: 248226--248267 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
248216 TCATTGTTAA
248226 ATATTTAGATTAAAAAAAGATG
1 ATATTTAGATTAAAAAAAGATG
***
248248 ATATTTTTTTTAAAAAAAGA
1 ATATTTAGATTAAAAAAAGA
248268 CCTTACCGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (22 bp):
ATATTTAGATTAAAAAAAGATG
Found at i:250437 original size:158 final size:156
Alignment explanation
Indices: 250138--250491 Score: 412
Period size: 158 Copynumber: 2.3 Consensus size: 156
250128 TAGGACTTAA
* * * * * *
250138 TTCTAACAAAATTACAAAAATACCTTTATA-AGATACCTTCGACTTAGAAGTGCTTGATACCGCT
1 TTCTAAAAAAATTATAAAAATACCCTTA-AGGGATACCTTCGACTTAGAAGTGCCTAATACCGCT
* * * *
250202 AAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCTACCTTCAGCATAAAAG
65 AAAGGACTTAAAAAGCATTATAAATAGGATGAACCTATCCTAAATACCTACCATCAGCATAAAAG
* * * *
250267 TGAACCTAGTGACAACCTAGGACTCGAT
130 AGAACATAGTGACAACCTAAGACTCG-G
* *
250295 TTTTGAAAAAAATTATAAAAATACCCTTAGGGGATACCTTCGACTTAGAAGTGCCTAATATCC-C
1 TTCT-AAAAAAATTATAAAAATACCCTTAAGGGATACCTTCGACTTAGAAGTGCCTAATA-CCGC
*
250359 TAAAGGACTTAAAAAGCATTATAAATAGGATGAACCTATCCTAAATAACC-GCCATC-GACATAA
64 TAAAGGACTTAAAAAGCATTATAAATAGGATGAACCTATCCTAAAT-ACCTACCATCAG-CATAA
* *
250422 AAGCAG-ACATGGTGACAACCTAAGACTTGG
127 AAG-AGAACATAGTGACAACCTAAGACTCGG
* * *
250452 TTCTAAAAAAATTATGAAAATGCCCTTAAGGTATACCTTC
1 TTCTAAAAAAATTATAAAAATACCCTTAAGGGATACCTTC
250492 AACATAAAAG
Statistics
Matches: 167, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
156 32 0.19
157 7 0.04
158 122 0.73
159 6 0.04
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (156 bp):
TTCTAAAAAAATTATAAAAATACCCTTAAGGGATACCTTCGACTTAGAAGTGCCTAATACCGCTA
AAGGACTTAAAAAGCATTATAAATAGGATGAACCTATCCTAAATACCTACCATCAGCATAAAAGA
GAACATAGTGACAACCTAAGACTCGG
Found at i:251800 original size:13 final size:13
Alignment explanation
Indices: 251782--251807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
251772 CAATTTTTTG
251782 TGTATCGATACAT
1 TGTATCGATACAT
251795 TGTATCGATACAT
1 TGTATCGATACAT
251808 ACTTGGTGTA
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:251822 original size:32 final size:33
Alignment explanation
Indices: 251762--251825 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
251752 TACAAGCCAA
** *
251762 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
251795 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
251826 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:254385 original size:25 final size:25
Alignment explanation
Indices: 254357--254418 Score: 124
Period size: 25 Copynumber: 2.5 Consensus size: 25
254347 ATAATCACCC
254357 TGTATCGATACATTGAATTTCCAGA
1 TGTATCGATACATTGAATTTCCAGA
254382 TGTATCGATACATTGAATTTCCAGA
1 TGTATCGATACATTGAATTTCCAGA
254407 TGTATCGATACA
1 TGTATCGATACA
254419 CAAACACATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (25 bp):
TGTATCGATACATTGAATTTCCAGA
Found at i:260524 original size:13 final size:13
Alignment explanation
Indices: 260506--260531 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
260496 CAATTTTTTG
260506 TGTATCGATACAT
1 TGTATCGATACAT
260519 TGTATCGATACAT
1 TGTATCGATACAT
260532 ACTTGGTGTA
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:260546 original size:32 final size:33
Alignment explanation
Indices: 260486--260549 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
260476 TACAAGCCAA
** *
260486 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
260519 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
260550 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:262464 original size:164 final size:162
Alignment explanation
Indices: 262041--262591 Score: 431
Period size: 164 Copynumber: 3.3 Consensus size: 162
262031 AAATCACTTA
* * *
262041 AATTTTCTC-AAACTGATTTAATAAGAATTTAATAACAATATTTGATGAATTTTAAAAATTTTAG
1 AATTTT-TCAAAACTGATTTAAT--GAGTTAAATAATAATATTTGATGAATTTTAAAAATTTTA-
* * * * * * * * *
262105 ATCTAGAAAAATCCCTCCAAAAACATTTATAGAATAGAAAACTCAGTTTTTCTTAAATAAG-GAA
62 ATCAAGAAAAATCCCTCGAAAAA-ATTTATGGAGTAGAAAATTCTGTATTTCTGAAAT-AGTAAA
* * * * *
262169 ATTTCAA-CAAAAAAAGATAAACTTATGAAAATAAATG
125 ATTTTAAGGAAAAAATGAAAAACTCATGAAAATAAATG
* * * * * *
262206 AATGATTT-AAAACTAATATACTATGAAG-TAAATGATAATATTTGAAGAATTTTAAAAATTATA
1 AAT-TTTTCAAAACTGATTTA--ATG-AGTTAAATAATAATATTTGATGAATTTTAAAAATT-TT
* * * *
262269 AATTAAGAAAAATTCACC-CGAAAATATTTATGGAGTAGAATATTCTGTATTTCAGAAATAGTAA
61 AATCAAGAAAAA-TC-CCTCGAAAAAATTTATGGAGTAGAAAATTCTGTATTTCTGAAATAGTAA
262333 AATTTTAAGGAAAAAATGAAAAACTCATGAAAATAAATG
124 AATTTTAAGGAAAAAATGAAAAACTCATGAAAATAAATG
* *
262372 AATTTTTCAAATCTGATTTAATGAGTTAAATAATAATATTTGATGAATATTAAAAATTTTGAATC
1 AATTTTTCAAAACTGATTTAATGAGTTAAATAATAATATTTGATGAATTTTAAAAATTTT-AATC
* * * * * * *
262437 GATAAAAATCCTCTCGAAAAAATTTATGAAGAAAAAAATT-TCGTATTT-TGAAA-ACATGAGGA
65 AAGAAAAATCC-CTCGAAAAAATTTATGGAGTAGAAAATTCT-GTATTTCTGAAATA-GT-A-AA
*
262499 A-TTTAAGGAAAAAATGAAAAACTCATG-AAATAAAAGG
125 ATTTTAAGGAAAAAATGAAAAACTCATGAAAAT-AAATG
** * * * * *
262536 AATTTTGAAAAACTGATTTAATTTTAATTAGATAATAATATTTAAAGAATTTTAAA
1 AATTTTTCAAAACTGATTTAA--TGAGTTAAATAATAATATTTGATGAATTTTAAA
262592 GTTAAAAACT
Statistics
Matches: 308, Mismatches: 56, Indels: 43
0.76 0.14 0.11
Matches are distributed among these distances:
162 2 0.01
163 16 0.05
164 119 0.39
165 90 0.29
166 77 0.25
167 4 0.01
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (162 bp):
AATTTTTCAAAACTGATTTAATGAGTTAAATAATAATATTTGATGAATTTTAAAAATTTTAATCA
AGAAAAATCCCTCGAAAAAATTTATGGAGTAGAAAATTCTGTATTTCTGAAATAGTAAAATTTTA
AGGAAAAAATGAAAAACTCATGAAAATAAATG
Found at i:263107 original size:246 final size:246
Alignment explanation
Indices: 262671--263159 Score: 854
Period size: 246 Copynumber: 2.0 Consensus size: 246
262661 AAAATTTAAA
* *
262671 AACTTCATTCAAACTTATGTAAAATAGATTCAAACCCACATATCATCCAAAATATTAATTTTTAA
1 AACTTCATTCAAACTTATGTAAAATAAATTCAAACCCACATATCATCCAAAATATTAATTTCTAA
262736 AATGAAGAAAATGAAACTATGAAATTTAAAACAAATTAGAAATAAAATTCACTAGTGTAATACTC
66 AATGAAGAAAATGAAACTATGAAATTTAAAACAAATTAGAAATAAAATTCACTAGTGTAATACTC
* * *
262801 GCGATACTATGAAAATTCAAAATTAATTTATAAAATTTACAATTTGATACCTCGTGATAGAAAAT
131 GCGATACTATGAAAATTCAAAATTAATTTATAAAATTTACAACTTGACACCTCATGATAGAAAAT
*
262866 GCCAATACGTATTTTTCTACAAAATTTATGATTTTTC-GGGACATGTATAAG
196 GCCAATACGTATTTTTCTAAAAAATTTATGATTTTTCAGGG-CATGTATAAG
262917 AACTTCATTCAAACTTATGTAAAATAAATTCAAACCCACATATCATCCAAAATATTAATTTCTAA
1 AACTTCATTCAAACTTATGTAAAATAAATTCAAACCCACATATCATCCAAAATATTAATTTCTAA
*
262982 AATGAAGAAAATGAAACTATGAAATTTAAAATAAATTAGAAATAAAATTCACTAGTGTAATACTC
66 AATGAAGAAAATGAAACTATGAAATTTAAAACAAATTAGAAATAAAATTCACTAGTGTAATACTC
* *
263047 GCGATTCTATGAAAATTCAAAATTAATTTATAAAATTTACAACTTGACACTTCATGATAGAAAAT
131 GCGATACTATGAAAATTCAAAATTAATTTATAAAATTTACAACTTGACACCTCATGATAGAAAAT
* * *
263112 TCTAATACGTATTTTTCTAAAAAATTTATTATTTTTCAGGGCATGTAT
196 GCCAATACGTATTTTTCTAAAAAATTTATGATTTTTCAGGGCATGTAT
263160 TGGCATAGAA
Statistics
Matches: 230, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
246 227 0.99
247 3 0.01
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.34
Consensus pattern (246 bp):
AACTTCATTCAAACTTATGTAAAATAAATTCAAACCCACATATCATCCAAAATATTAATTTCTAA
AATGAAGAAAATGAAACTATGAAATTTAAAACAAATTAGAAATAAAATTCACTAGTGTAATACTC
GCGATACTATGAAAATTCAAAATTAATTTATAAAATTTACAACTTGACACCTCATGATAGAAAAT
GCCAATACGTATTTTTCTAAAAAATTTATGATTTTTCAGGGCATGTATAAG
Found at i:265202 original size:22 final size:23
Alignment explanation
Indices: 265174--265222 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
265164 GTTAGTAAAA
* **
265174 AAAAT-AACAGACAAATTTACAT
1 AAAATAAACACACAAAAATACAT
265196 AAAATAAACACACAAAAATACAT
1 AAAATAAACACACAAAAATACAT
265219 AAAA
1 AAAA
265223 ATGAGGGGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAATAAACACACAAAAATACAT
Found at i:265534 original size:78 final size:78
Alignment explanation
Indices: 265452--265850 Score: 287
Period size: 78 Copynumber: 5.1 Consensus size: 78
265442 TAATGTGGAG
* * *
265452 ATAAAAACAGGGTTGGAGTATCCTCTTAGAAATAACGGGGTTAGAGTAACCCCGATGGTGAAAAA
1 ATAAAAACAGGGTTGGAGTATCC-CTCAAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAA
*
265517 TCGATGTTTTTG-A
65 TCGATGTTTTAGAA
* ** * *
265530 AT-AAAACTAGGGTTGGAGTATTCCCTCAAAAATAATGCTGTTAAAGTATCCCCGATGGTGGAAA
1 ATAAAAAC-AGGGTTGGAGTA-TCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAA
*
265594 ATTGATGTTTTAGAA
64 ATCGATGTTTTAGAA
* * * *
265609 ATAAAATC-GAGGTTAGAGTATCCCCTCATAAATAAAC-GGGTTGGAGTATCCCCGATGGTGAAA
1 ATAAAAACAG-GGTTGGAGTAT-CCCTCAAAAAT-AACGGGGTTAGAGTATCCCCGATGGTGAAA
*
265672 AATC-A-GTGTT--AA
63 AATCGATGTTTTAGAA
** * * ** * * * *
265684 ATAAAAATTGGGGATAGAGTATCCCCTCAAAAATAATAGGGTTGGAGTAT-CCCAATTGTGGAAA
1 ATAAAAA-CAGGGTTGGAGTAT-CCCTCAAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAA
* *
265748 AT-TAGTTTTTTAGAA
64 ATCGA-TGTTTTAGAA
* * * *** * * * *
265763 ATAAAATCAGAGTTGAAGTATCCCCTTGGAAATAACGGGGATGGAGTATCCCTGATTGTGAAAAA
1 ATAAAAACAGGGTTGGAGTAT-CCCTCAAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAA
* *
265828 TCGGTATTTTAGAA
65 TCGATGTTTTAGAA
265842 ATAAAAACA
1 ATAAAAACA
265851 TTAATGAAAT
Statistics
Matches: 253, Mismatches: 51, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
75 24 0.09
76 33 0.13
77 13 0.05
78 90 0.36
79 87 0.34
80 6 0.02
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (78 bp):
ATAAAAACAGGGTTGGAGTATCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAAT
CGATGTTTTAGAA
Found at i:265787 original size:154 final size:157
Alignment explanation
Indices: 265452--265830 Score: 416
Period size: 154 Copynumber: 2.4 Consensus size: 157
265442 TAATGTGGAG
* * * * * *
265452 ATAAAAACAGGGTTGGAGTATCCTCTTAGAAATAACGGGGTTAGAGTAACCCCGATGGTGAAAAA
1 ATAAAATCAGAGTTGAAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAA
* * * * * *
265517 TCGATGTTTTTGAATAAAACTAGGGTTGGAGTATTCCCTCAAAAATAATGCTGTTAAAGTATCCC
66 TCGATGTTGTTAAATAAAACTAGGGATAGAGTATCCCCTCAAAAATAATGCGGTTAAAGTATCCC
*
265582 CGATGGTGGAAAATTGATGTTTTAGAA
131 CAATGGTGGAAAATTGATGTTTTAGAA
* *
265609 ATAAAATC-GAGGTT-AGAGTATCCCCTCATAAATAAAC-GGGTTGGAGTATCCCCGATGGTGAA
1 ATAAAATCAGA-GTTGA-AGTATCCCCTTAGAAAT-AACGGGGTTGGAGTATCCCCGATGGTGAA
* * **
265671 AAATC-A-G-TGTTAAATAAAAATTGGGGATAGAGTATCCCCTCAAAAATAATAG-GGTTGGAGT
63 AAATCGATGTTGTTAAAT-AAAACTAGGGATAGAGTATCCCCTCAAAAATAAT-GCGGTTAAAGT
* *
265732 AT-CCCAATTGTGGAAAATT-AGTTTTTTAGAA
126 ATCCCCAATGGTGGAAAATTGA-TGTTTTAGAA
* * * *
265763 ATAAAATCAGAGTTGAAGTATCCCCTTGGAAATAACGGGGATGGAGTATCCCTGATTGTGAAAAA
1 ATAAAATCAGAGTTGAAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAA
265828 TCG
66 TCG
265831 GTATTTTAGA
Statistics
Matches: 185, Mismatches: 27, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
153 4 0.02
154 82 0.44
155 41 0.22
156 3 0.02
157 52 0.28
158 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (157 bp):
ATAAAATCAGAGTTGAAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAA
TCGATGTTGTTAAATAAAACTAGGGATAGAGTATCCCCTCAAAAATAATGCGGTTAAAGTATCCC
CAATGGTGGAAAATTGATGTTTTAGAA
Found at i:268286 original size:50 final size:50
Alignment explanation
Indices: 268217--268347 Score: 172
Period size: 51 Copynumber: 2.6 Consensus size: 50
268207 CGCCTGAATG
* * *
268217 TATCGATACATTGAGAAATGTATCGATACATCTGGGTAAAACCCAAAATA
1 TATCGATACAATGAAAAATGTATCGATACATCTGGGGAAAACCCAAAATA
* * * *
268267 TATTGATACAATGAAAAATGTATCAAATACATCTGGGGAAACCCCAAAATG
1 TATCGATACAATGAAAAATGTATC-GATACATCTGGGGAAAACCCAAAATA
* *
268318 TATCGATACAATGAAGAATGTATTGATACA
1 TATCGATACAATGAAAAATGTATCGATACA
268348 AATTGTGAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
50 26 0.38
51 43 0.62
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (50 bp):
TATCGATACAATGAAAAATGTATCGATACATCTGGGGAAAACCCAAAATA
Found at i:268756 original size:34 final size:34
Alignment explanation
Indices: 268716--268948 Score: 421
Period size: 34 Copynumber: 6.9 Consensus size: 34
268706 CTTTGTTAAG
268716 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
* *
268750 TATATTTGGAGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
268784 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
268818 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
268852 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
268886 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
268920 TGTGTTTGGTGAGAATGTTAGGTGTGTTA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTA
268949 ACATGTATAT
Statistics
Matches: 194, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 194 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
Found at i:268837 original size:25 final size:23
Alignment explanation
Indices: 268807--268909 Score: 65
Period size: 25 Copynumber: 4.4 Consensus size: 23
268797 AATGTTAGGT
268807 GTGTTAGGTGATGTATTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
*
268830 GAATGTTAGGTG-TG--TTAGGTGA
1 G--TGTTAGGTGATGTATTTGGTGA
* *
268852 TGTGTTTGGTGA-GAATGTTAGGT--
1 -GTGTTAGGTGATGTAT-TT-GGTGA
*
268875 GTGTTAGGTGATGTGTTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
268898 GAATGTTAGGTG
1 G--TGTTAGGTG
268910 TGTTAGGTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
21 12 0.20
22 19 0.31
23 6 0.10
24 3 0.05
25 21 0.34
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (23 bp):
GTGTTAGGTGATGTATTTGGTGA
Found at i:273665 original size:34 final size:34
Alignment explanation
Indices: 273625--273789 Score: 312
Period size: 34 Copynumber: 4.9 Consensus size: 34
273615 CTTTGTTAAG
273625 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
273659 TATATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
273693 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
273727 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
273761 TGTATTTGGTGAGAATGTTAGGTGTGTTA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTA
273790 ACATGTATAT
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 127 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.42
Consensus pattern (34 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
Found at i:273712 original size:25 final size:23
Alignment explanation
Indices: 273682--273784 Score: 74
Period size: 25 Copynumber: 4.4 Consensus size: 23
273672 AATGTTAGGT
273682 GTGTTAGGTGATGTATTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
*
273705 GAATGTTAGGTG-TG--TTAGGTGA
1 G--TGTTAGGTGATGTATTTGGTGA
* *
273727 TGTGTTTGGTGA-GAATGTTAGGT--
1 -GTGTTAGGTGATGTAT-TT-GGTGA
273750 GTGTTAGGTGATGTATTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
273773 GAATGTTAGGTG
1 G--TGTTAGGTG
273785 TGTTAACATG
Statistics
Matches: 62, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
21 12 0.19
22 19 0.31
23 7 0.11
24 3 0.05
25 21 0.34
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.41
Consensus pattern (23 bp):
GTGTTAGGTGATGTATTTGGTGA
Found at i:277573 original size:13 final size:13
Alignment explanation
Indices: 277555--277579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
277545 ATAATGCACA
277555 GTATCGATACATT
1 GTATCGATACATT
277568 GTATCGATACAT
1 GTATCGATACAT
277580 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:277592 original size:20 final size:21
Alignment explanation
Indices: 277567--277619 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
277557 ATCGATACAT
*
277567 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
277587 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
277608 TGTATCGATACA
1 TGTATCGATACA
277620 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:277962 original size:71 final size:71
Alignment explanation
Indices: 277874--278023 Score: 291
Period size: 71 Copynumber: 2.1 Consensus size: 71
277864 GGCTATAAAT
277874 AAGAGCTTCCAGCAGCAAAACACAAGTAGAACCAAGCAAGAAACATCTAGCAATCAAAGTTTTCA
1 AAGAG-TTCCAGCAGCAAAACACAAGTAGAACCAAGCAAGAAACATCTAGCAATCAAAGTTTTCA
277939 AAGTTCA
65 AAGTTCA
277946 AAGAGTTCCAGCAGCAAAACACAAGTAGAACCAAGCAAGAAACATCTAGCAATCAAAGTTTTCAA
1 AAGAGTTCCAGCAGCAAAACACAAGTAGAACCAAGCAAGAAACATCTAGCAATCAAAGTTTTCAA
278011 AGTTCA
66 AGTTCA
278017 AAGAGTT
1 AAGAGTT
278024 TCATTTTTCT
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 73 0.94
72 5 0.06
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.17
Consensus pattern (71 bp):
AAGAGTTCCAGCAGCAAAACACAAGTAGAACCAAGCAAGAAACATCTAGCAATCAAAGTTTTCAA
AGTTCA
Done.