Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1348
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: 233253
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 1 of 3
Found at i:372 original size:33 final size:32
Alignment explanation
Indices: 327--394 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
317 ATAATTTCCA
***
327 AATGTATGATACAAAGATCCATGTATCGATAC
1 AATGTATGATACAAAGAAAAATGTATCGATAC
*
359 AATGTATTGATACATAGAAAAATGTATCGATAC
1 AATGTA-TGATACAAAGAAAAATGTATCGATAC
392 AAT
1 AAT
395 TCCTGGCAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 6 0.19
33 25 0.81
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (32 bp):
AATGTATGATACAAAGAAAAATGTATCGATAC
Found at i:435 original size:19 final size:19
Alignment explanation
Indices: 411--465 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
401 CAGTAGCTAA
*
411 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
430 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
449 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
466 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:1397 original size:61 final size:57
Alignment explanation
Indices: 1211--2009 Score: 872
Period size: 55 Copynumber: 14.0 Consensus size: 57
1201 TTGAAGAGTA
*
1211 AAAAGTGCCACCAACTCGTGTGGGCTTTGAAA-G-GCATCCTGCTCTTTGAGGACT-G
1 AAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAGCATCCTGCTCTTTGAGGACTGG
* * **
1266 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG--TCCTGCTCTTTGAGGACTAA
1 AAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGAGCATCCTGCTCTTTGAGGACTGG
**
1322 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCCTGCTCTTTGAGGACTAA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGG----AGCATCCTGCTCTTTGAGGACTGG
* *
1383 AAAATGCCACCAACTTGTGTGGGCTTCGAAA-G-GCATCCTGCTCTTTGAGGATTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGCATCCTGCTCTTTGAGGACTGG
* * *
1438 AAAATGCCACCAACTTGTGTGGGCTTT-AAATGGTG--TCCTACTCTTTGGGGACT-G
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAA-GGAGCATCCTGCTCTTTGAGGACTGG
* * *
1492 AAAGGTGCCACCAATTTGTGTGGGCTTT-AAGAGGTG--TCCTGCTCTTTGAGGACTGG
1 AAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGAGCATCCTGCTCTTTGAGGACTGG
* *
1548 AAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAG
1 AAAATGCCACCAACTTGTGTGGGCTTTG-AAAG---GAGCATCCTGCTCTTTGAGGACTGG
* **
1609 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCATGCTCTTTGAGGACTAA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGG----AGCATCCTGCTCTTTGAGGACTGG
**
1670 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCCTGCTCTTTGAGGACTAA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGG----AGCATCCTGCTCTTTGAGGACTGG
* * * *
1731 AAAATGCCACCAACTTGTGTGGGCTTCGAAA-G-GCTTCATGCTCTTTGAGGATTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGCATCCTGCTCTTTGAGGACTGG
* * * *
1786 AAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGGGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAG--GA-GCATCCTGCTCTTTGAGGACTGG
*
1846 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGG-G-GTCCTGCTCTTTGAGGACTAGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGCATCCTGCTCTTTGAGGACT-GG
* * * *
1902 -AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG--TCCTGCTCTTTGAGGATTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGCATCCTGCTCTTTGAGGACTGG
*
1956 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG--TCCTGCTCTTTGAGGACTG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGCATCCTGCTCTTTGAGGACTG
2010 CAAGGGCTAA
Statistics
Matches: 659, Mismatches: 48, Indels: 74
0.84 0.06 0.09
Matches are distributed among these distances:
54 11 0.02
55 359 0.54
56 18 0.03
57 4 0.01
59 2 0.00
60 56 0.08
61 209 0.32
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (57 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGCATCCTGCTCTTTGAGGACTGG
Found at i:1492 original size:226 final size:225
Alignment explanation
Indices: 1211--2009 Score: 1077
Period size: 226 Copynumber: 3.5 Consensus size: 225
1201 TTGAAGAGTA
* ** *
1211 AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCA
1 AAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCA
**
1276 CCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTG
65 CCAACTTGTGTGGGCTTTAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTG
* *
1341 TGGGCTTTGAAAGGAAAAAGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGG
129 TGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
*
1406 CTTCGAAAGGCATCCTGCTCTTTGAGGATTGG
194 CTTTGAAAGGCATCCTGCTCTTTGAGGATTGG
* * *
1438 AAAATGCCACCAACTTGTGTGGGCTTT-AAATGGTGTCCTACTCTTTGGGGACTGAAAGGTGCCA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAA-GGTGTCCTGCTCTTTGAGGACTGAAAGATGCCA
*
1502 CCAATTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTG
65 CCAACTTGTGTGGGCTTTAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTG
1567 TGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
129 TGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
* * **
1632 CTTTGAAAGGAAAAAGCATCATGCTCTTTGAGGACTAA
194 CTTTGAAA-G-----GCATCCTGCTCTTTGAGGATTGG
* * *
1670 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCCTGCTCTTTGAGGACTAAAAAA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGG----TG--TCCTGCTCTTTGAGGACTGAAAGA
* * *
1735 TGCCACCAACTTGTGTGGGCTTCGAAAGGCT-TCATGCTCTTTGAGGATTGGAAAATGCCACCAA
60 TGCCACCAACTTGTGTGGGCTT-TAAAGG-TGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
* * * *
1799 CTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGGGGACTGGAAAATGCCACCAACTTG
123 CTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTG
** *
1863 TGTGGGCTTTGAAAGGGGTCCTGCTCTTTGAGGACTAGG
188 TGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGA-TTGG
* * *
1902 -AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAA-ATGCCA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGATGCCA
1965 CCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
65 CCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGAGGACTG
2010 CAAGGGCTAA
Statistics
Matches: 508, Mismatches: 44, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
224 1 0.00
225 65 0.13
226 186 0.37
227 6 0.01
231 46 0.09
232 48 0.09
233 3 0.01
236 2 0.00
237 60 0.12
238 88 0.17
239 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (225 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCAC
CAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTG
GGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCT
TTGAAAGGCATCCTGCTCTTTGAGGATTGG
Found at i:8223 original size:78 final size:79
Alignment explanation
Indices: 8141--8312 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 79
8131 ATAACAGTGC
* * * *
8141 TGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAATAAA-TCGAGATTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAATAAAGCCGAGATTGGAGTATCCCCT
8204 CAAAAATAACGGGGT
65 CAAAAATAACGGGGT
* * ** * *
8219 TGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAATAAAGCCGAGATTGGAGTATCCCCTC
** *
8284 GGAAGTAACGGGGT
66 AAAAATAACGGGGT
8298 TGGAGTATCCCCGAT
1 TGGAGTATCCCCGAT
8313 GAAATAACGA
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 34 0.44
79 43 0.55
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAATAAAGCCGAGATTGGAGTATCCCCTC
AAAAATAACGGGGT
Found at i:8304 original size:28 final size:28
Alignment explanation
Indices: 8264--8335 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
8254 GGAATAAAGC
** *
8264 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
8292 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
8320 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
8336 TCGATTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:8394 original size:53 final size:52
Alignment explanation
Indices: 8324--8447 Score: 151
Period size: 53 Copynumber: 2.3 Consensus size: 52
8314 AAATAACGAG
* * * * *
8324 GTTGGAGTATCCTCGATT-ATGAAAAATTGGTATTTTTTGGAAATAAAATCTGA
1 GTTGGAGTATCCCCGATTAAGGAAAAATTGG--TGTTTTGAAAATAAAATCGGA
*
8377 GTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATT-AAGGAAAAATTGGTGTTTTGAAAATAAAATCGGA
*
8430 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
8448 GTGGAGAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 52 0.84
55 10 0.16
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTAAGGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:10820 original size:13 final size:13
Alignment explanation
Indices: 10802--10827 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10792 ACAAAGATCC
10802 ATGTATCGATACA
1 ATGTATCGATACA
10815 ATGTATCGATACA
1 ATGTATCGATACA
10828 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:10823 original size:33 final size:33
Alignment explanation
Indices: 10781--10847 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
10771 AAAATTTCCA
***
10781 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
10814 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
10847 A
1 A
10848 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:10891 original size:19 final size:19
Alignment explanation
Indices: 10867--10921 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
10857 CAGTAGCTAA
*
10867 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
10886 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
10905 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
10922 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:10983 original size:21 final size:21
Alignment explanation
Indices: 10976--11054 Score: 149
Period size: 21 Copynumber: 3.8 Consensus size: 21
10966 ACATTTGTAG
10976 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
10997 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
*
11018 AATGTATCGATACATTCTACA
1 AATGTATCGATACATTCCACA
11039 AATGTATCGATACATT
1 AATGTATCGATACATT
11055 TGGATTTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:12516 original size:20 final size:20
Alignment explanation
Indices: 12493--12541 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
12483 TATATTTAAA
12493 TATATAATATTAATAATTAT
1 TATATAATATTAATAATTAT
* * * *
12513 TATATTATTTTTATATTTAT
1 TATATAATATTAATAATTAT
*
12533 TAAATAATA
1 TATATAATA
12542 CATTCATATC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATAATATTAATAATTAT
Found at i:14324 original size:26 final size:26
Alignment explanation
Indices: 14290--14360 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
14280 AAAAATTATA
*
14290 TTTTGTATTTGTCAAAAATAATAAAT
1 TTTTTTATTTGTCAAAAATAATAAAT
* ** *
14316 TTTTTTATTTGTAAAAAATGGTAATT
1 TTTTTTATTTGTCAAAAATAATAAAT
14342 TTTTTTATTTGTCAAAAAT
1 TTTTTTATTTGTCAAAAAT
14361 TATGACTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (26 bp):
TTTTTTATTTGTCAAAAATAATAAAT
Found at i:16540 original size:13 final size:13
Alignment explanation
Indices: 16522--16549 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16512 ATTACTCAAA
16522 TGTATCGATACAT
1 TGTATCGATACAT
16535 TGTATCGATACAT
1 TGTATCGATACAT
16548 TG
1 TG
16550 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:21253 original size:18 final size:18
Alignment explanation
Indices: 21230--21274 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
21220 ATGCAGGCCC
*
21230 AAATCATGAAACTAATGG
1 AAATCATGAAACTAATAG
21248 AAATCATGAAACTAATAG
1 AAATCATGAAACTAATAG
21266 AAATCATGA
1 AAATCATGA
21275 CGACATCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.22
Consensus pattern (18 bp):
AAATCATGAAACTAATAG
Found at i:23598 original size:14 final size:14
Alignment explanation
Indices: 23581--23621 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
23571 AGTCAAAAGT
*
23581 AAACACAAAAAACA
1 AAACACAAAAAAAA
23595 AAACA-AAAAAAAA
1 AAACACAAAAAAAA
23608 ACAACACAAAAAAA
1 A-AACACAAAAAAA
23622 GTGCAAAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 9 0.38
15 7 0.29
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACACAAAAAAAA
Found at i:23608 original size:16 final size:16
Alignment explanation
Indices: 23587--23621 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
23577 AAGTAAACAC
23587 AAAAAACAAAACAAAA
1 AAAAAACAAAACAAAA
*
23603 AAAAAACAACACAAAA
1 AAAAAACAAAACAAAA
23619 AAA
1 AAA
23622 GTGCAAAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAACAAAACAAAA
Found at i:24911 original size:30 final size:29
Alignment explanation
Indices: 24871--25015 Score: 121
Period size: 31 Copynumber: 4.8 Consensus size: 29
24861 AATCTCTTCT
*
24871 CAAAGCCCACGACTCAGTGGCATTTTGTCC
1 CAAAGTCCACGACTCAGTGGCATTTT-TCC
24901 CAAAGTCCACGACTCAGTGGCATTTTTTCTC
1 CAAAGTCCACGACTCAGTGGCA-TTTTTC-C
* * * *
24932 CGAAGTCTACAACTCAGTGGCAATCTCTTT-T
1 CAAAGTCCACGACTCAGTGGC-AT-T-TTTCC
* *
24963 CAAAGTCCACGACTCAGTGGTATCTTTTCTT
1 CAAAGTCCACGACTCAGTGGCAT-TTTTC-C
* * *
24994 CAAAGCCCACAACTCCGTGGCA
1 CAAAGTCCACGACTCAGTGGCA
25016 CATTTTTTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
29 3 0.03
30 27 0.28
31 60 0.63
32 2 0.02
33 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (29 bp):
CAAAGTCCACGACTCAGTGGCATTTTTCC
Found at i:25257 original size:136 final size:130
Alignment explanation
Indices: 24995--25281 Score: 364
Period size: 136 Copynumber: 2.2 Consensus size: 130
24985 TCTTTTCTTC
*
24995 AAAGCCCACAACTCCGTGGCACATTTTTTTTTTCAAAGCCCACAACTCCGTGGCATCCTTTTAAA
1 AAAGTCCACAACTCCGTGGCACATTTTTTTTTTCAAAGCCCACAACTCCGTGGCATCCTTTTAAA
*
25060 GTCCACAACTCCGTAGCACCTTGTTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTC-TTTT
66 GTCCACAACTCCGTAGCACCTTGTTCCTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
* * * **
25124 CAAGTCCACAACTCTGTGGCACCTTTTTCTTTTT-AAAGCCCACAACTTTGTGGCACTCTTTTTC
1 AAAGTCCACAACTCCGTGGCACATTTTT-TTTTTCAAAGCCCACAACTCCGTGGCA-TC-----C
* * * * *
25188 TTTTTAAAGTCCACAACTCCGTGGCATCTT-TTTCTTTCAAAGCCCACAACTTTGTGGTACTCTT
59 -TTTTAAAGTCCACAACTCCGTAGCACCTTGTTCCTTT-AAAGCCCACAACTCTGTGGCACTCTT
25252 TTTCTTTTT
122 TTTCTTTTT
25261 AAAGTCCACAACTCCGTGGCA
1 AAAGTCCACAACTCCGTGGCA
25282 TCTCTTTCCT
Statistics
Matches: 134, Mismatches: 14, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
129 43 0.32
130 7 0.05
135 7 0.05
136 54 0.40
137 23 0.17
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.36
Consensus pattern (130 bp):
AAAGTCCACAACTCCGTGGCACATTTTTTTTTTCAAAGCCCACAACTCCGTGGCATCCTTTTAAA
GTCCACAACTCCGTAGCACCTTGTTCCTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
Found at i:25303 original size:136 final size:136
Alignment explanation
Indices: 24987--25306 Score: 363
Period size: 136 Copynumber: 2.4 Consensus size: 136
24977 CAGTGGTATC
* * * * * * **
24987 TTTTC-TTCAAAGCCCACAACTCCGTGGCACATTTTTTTTTTCAAAGCCCACAACTCCGTGGCA-
1 TTTTCTTTTAAAGTCCACAACTCCGTGGCACCTCTTTCTCTTCAAAGCCCACAACTTTGTGGCAC
*
25050 TC-----C-TTTTAAAGTCCACAACTCCGTAGCACCTTGTTCCTTTTAAGCCCACAACTCTGTGG
66 TCTTTTTCTTTTTAAAGTCCACAACTCCGTAGCACCTTGTTCCTTTAAAGCCCACAACTCTGTGG
25109 CACTCT
131 CACTCT
* * * * *
25115 TTTTCTTTTCAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTTTGTGGCAC
1 TTTTCTTTTAAAGTCCACAACTCCGTGGCACCTCTTTCTCTTCAAAGCCCACAACTTTGTGGCAC
* * * *
25180 TCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCATCTT-TTTCTTTCAAAGCCCACAACTTTGTG
66 TCTTTTTCTTTTTAAAGTCCACAACTCCGTAGCACCTTGTTCCTTT-AAAGCCCACAACTCTGTG
*
25244 GTACTCT
130 GCACTCT
* *
25251 TTTTCTTTTTAAAGTCCACAACTCCGTGGCATCTCTTTC-CTTCAAAGTCCACAACT
1 TTTTC-TTTTAAAGTCCACAACTCCGTGGCACCTCTTTCTCTTCAAAGCCCACAACT
25307 CAATGGCATC
Statistics
Matches: 160, Mismatches: 22, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
128 5 0.03
129 49 0.31
130 2 0.01
135 7 0.04
136 68 0.43
137 29 0.18
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.37
Consensus pattern (136 bp):
TTTTCTTTTAAAGTCCACAACTCCGTGGCACCTCTTTCTCTTCAAAGCCCACAACTTTGTGGCAC
TCTTTTTCTTTTTAAAGTCCACAACTCCGTAGCACCTTGTTCCTTTAAAGCCCACAACTCTGTGG
CACTCT
Found at i:25314 original size:33 final size:33
Alignment explanation
Indices: 24901--25377 Score: 321
Period size: 34 Copynumber: 14.7 Consensus size: 33
24891 CATTTTGTCC
* * *
24901 CAAAGTCCACGACTCAGTGGCAT-TTTTTC-TC
1 CAAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * * *
24932 CGAAGTCTACAACTCAGTGGCAATC--TCT-TTT
1 CAAAGTCCACAACTCCGTGGC-ATCTTTTTCTTT
* * *
24963 CAAAGTCCACGACTCAGTGGTATC-TTTTC-TT
1 CAAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* *
24994 CAAAGCCCACAACTCCGTGGCA-CATTTTTTTTTT
1 CAAAGTCCACAACTCCGTGGCATC--TTTTTCTTT
*
25028 CAAAGCCCACAACTCCGTGGCATC-----CTTT
1 CAAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * * *
25056 TAAAGTCCACAACTCCGTAGCACCTTGTTCCTTT
1 CAAAGTCCACAACTCCGTGGCATCTT-TTTCTTT
* * *
25090 -TAAGCCCACAACTCTGTGGCACTCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCA-TCTTTTTC-TTT
* *
25124 C-AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCATCTTTTTC-TTT
* * **
25157 TAAAGCCCACAACTTTGTGGCACTCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCA-TCTTTTTC-TTT
*
25192 TAAAGTCCACAACTCCGTGGCATCTTTTTCTTT
1 CAAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* ** *
25225 CAAAGCCCACAACTTTGTGGTACTCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCA-TCTTTTTC-TTT
* * *
25260 TAAAGTCCACAACTCCGTGGCATCTCTTTCCTT
1 CAAAGTCCACAACTCCGTGGCATCTTTTTCTTT
** *
25293 CAAAGTCCACAACTCAATGGCATCCCTTTTTCCTGT
1 CAAAGTCCACAACTCCGTGGCAT--CTTTTT-CTTT
* * *
25329 --AAGTCCATAACTCAGTGGCATC--TCT-TTT
1 CAAAGTCCACAACTCCGTGGCATCTTTTTCTTT
25357 CAAA-TCCACAACTCCGTGGCA
1 CAAAGTCCACAACTCCGTGGCA
25378 CCCTTTTAAG
Statistics
Matches: 359, Mismatches: 59, Indels: 58
0.75 0.12 0.12
Matches are distributed among these distances:
28 25 0.07
29 15 0.04
30 8 0.02
31 60 0.17
32 3 0.01
33 77 0.21
34 113 0.31
35 56 0.16
36 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.35
Consensus pattern (33 bp):
CAAAGTCCACAACTCCGTGGCATCTTTTTCTTT
Found at i:25314 original size:136 final size:135
Alignment explanation
Indices: 24987--25357 Score: 359
Period size: 136 Copynumber: 2.8 Consensus size: 135
24977 CAGTGGTATC
* * * * * * **
24987 TTTTC-TTCAAAGCCCACAACTCCGTGGCACATTTTTTTTTTCAAAGCCCACAACTCCGTGGCAT
1 TTTTCTTTTAAAGTCCACAACTCCGTGGCACCTCTTTCTCTTCAAAGCCCACAACTCAATGGCAT
* * * *
25051 --C-----CTTTTAAAGTCCACAACTCCGTAGCACCTTGTTCCTTTTAAGCCCACAACTCTGTGG
66 CCCTTTTTCTTTTAAAGTCCACAACTCCGTGGCATCTT-TTTCTTTAAAGCCCACAACTCTGTGG
25109 CACTCT
130 CACTCT
* * * * * ***
25115 TTTTCTTTTCAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTTTGTGGCA-
1 TTTTCTTTTAAAGTCCACAACTCCGTGGCACCTCTTTCTCTTCAAAGCCCACAACTCAATGGCAT
* *
25179 CTCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCATCTTTTTCTTTCAAAGCCCACAACTTTGTG
66 CCCTTTTTC-TTTTAAAGTCCACAACTCCGTGGCATCTTTTTCTTT-AAAGCCCACAACTCTGTG
*
25244 GTACTCT
129 GCACTCT
* *
25251 TTTTCTTTTTAAAGTCCACAACTCCGTGGCATCTCTTTC-CTTCAAAGTCCACAACTCAATGGCA
1 TTTTC-TTTTAAAGTCCACAACTCCGTGGCACCTCTTTCTCTTCAAAGCCCACAACTCAATGGCA
* * * *
25315 TCCCTTTTTCCTGT-AAGTCCATAACTCAGTGGCATCTCTTTTC
65 TCCCTTTTTCTTTTAAAGTCCACAACTCCGTGGCATCT-TTTTC
25358 AAATCCACAA
Statistics
Matches: 200, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
128 5 0.03
129 49 0.25
130 1 0.00
135 28 0.14
136 80 0.40
137 37 0.19
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (135 bp):
TTTTCTTTTAAAGTCCACAACTCCGTGGCACCTCTTTCTCTTCAAAGCCCACAACTCAATGGCAT
CCCTTTTTCTTTTAAAGTCCACAACTCCGTGGCATCTTTTTCTTTAAAGCCCACAACTCTGTGGC
ACTCT
Found at i:25402 original size:27 final size:28
Alignment explanation
Indices: 25257--25458 Score: 158
Period size: 29 Copynumber: 6.8 Consensus size: 28
25247 CTCTTTTTCT
* *
25257 TTTTAAAGTCCACAACTCCGTGGCATCTCT
1 TTTT-AAGTCCACAACTCAGTGGCATC-CC
*
25287 TTCCTTCAAAGTCCACAACTCAATGGCATCCC
1 TT--TT--AAGTCCACAACTCAGTGGCATCCC
* *
25319 TTTTTCCTGTAAGTCCATAACTCAGTGGCATCTC
1 ---TT--T-TAAGTCCACAACTCAGTGGCATCCC
* *
25353 TTTTCAAATCCACAACTCCGTGGCA-CCC
1 TTTT-AAGTCCACAACTCAGTGGCATCCC
**
25381 TTTTAAGTCCACAACTCAGTGGCATTTC
1 TTTTAAGTCCACAACTCAGTGGCATCCC
25409 TTTTCAAGTCCACAACTCCA-TGGCA-CCC
1 TTTT-AAGTCCACAACT-CAGTGGCATCCC
*
25437 TTTTAAGTCCACAACTCCGTGG
1 TTTTAAGTCCACAACTCAGTGG
25459 TATCTTTCTC
Statistics
Matches: 143, Mismatches: 17, Indels: 27
0.76 0.09 0.14
Matches are distributed among these distances:
26 1 0.01
27 33 0.23
28 17 0.12
29 35 0.24
30 4 0.03
31 2 0.01
32 3 0.02
33 21 0.15
34 21 0.15
35 5 0.03
36 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.31
Consensus pattern (28 bp):
TTTTAAGTCCACAACTCAGTGGCATCCC
Found at i:25414 original size:56 final size:56
Alignment explanation
Indices: 25257--25463 Score: 234
Period size: 56 Copynumber: 3.5 Consensus size: 56
25247 CTCTTTTTCT
* *
25257 TTTTAAAGTCCACAACTCCGTGGCATCTCTTTCCTTCAAAGTCCACAACTCAATGGCATCCC
1 TTTT-AAGTCCACAACTCAGTGGCATCTC-TT--TTCAAA-TCCACAACTCCATGGCA-CCC
* *
25319 TTTTTCCTGTAAGTCCATAACTCAGTGGCATCTCTTTTCAAATCCACAACTCCGTGGCACCC
1 ---TT--T-TAAGTCCACAACTCAGTGGCATCTCTTTTCAAATCCACAACTCCATGGCACCC
* *
25381 TTTTAAGTCCACAACTCAGTGGCATTTCTTTTCAAGTCCACAACTCCATGGCACCC
1 TTTTAAGTCCACAACTCAGTGGCATCTCTTTTCAAATCCACAACTCCATGGCACCC
* *
25437 TTTTAAGTCCACAACTCCGTGGTATCT
1 TTTTAAGTCCACAACTCAGTGGCATCT
25464 TTCTCCTTTT
Statistics
Matches: 128, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
56 73 0.57
57 1 0.01
59 2 0.02
62 3 0.02
63 15 0.12
64 6 0.05
65 2 0.02
66 2 0.02
67 23 0.18
68 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.31
Consensus pattern (56 bp):
TTTTAAGTCCACAACTCAGTGGCATCTCTTTTCAAATCCACAACTCCATGGCACCC
Found at i:25592 original size:49 final size:49
Alignment explanation
Indices: 25532--26597 Score: 823
Period size: 49 Copynumber: 21.9 Consensus size: 49
25522 GGCATCTTCT
* *
25532 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
25581 TTTAAGACCAATGTCGCTGGCCTTGAATCAGC--A----CA---TTAGC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * ** * *
25621 -ATAAGCCCAATATTACTAGCCTTGAATCAGCATATTGGCACC-TCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
25668 TTTAAGAT-CAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAG-TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
*
25711 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTGT-T-
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATC
* * * * *
25759 TTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGG----------
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * * *
25798 TGTAAG-CCTAATGTCACTGGCCTTGAATCAGCACATTGGCATCTTCATC
1 TTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
** *
25847 TTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * *
25895 TTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGG---C---A--
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * *
25936 --TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * *
25983 TTTAAGTCCAATGTCGCTGGCCCTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
*
26032 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCACCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT---G-----G-CACC-TT-T-ATC
* *
26093 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* ** *
26142 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATCAGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC
* *
26194 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * *
26243 TTTAAGTCCAATATCGGTGGCCTTGAATCAGGATATCGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC
* * * * *
26295 TTTAAGTCTAATATCACTGGCCTTGAATCATCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
26344 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC
*
26396 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATC
** * *
26445 TTTAAGTCCAATATCTTTGGCCTTGAATCAGCATATTGGCGCCTTCATCATT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATC
** * * * * *
26497 TTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTCCTAATC
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--C-CTTTATC
* * * * * *
26550 TTTAAGTCCAAATGTTGCTGACCGTGAATCAGCACATTGACATCCTTT
1 TTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTT
26598 TTCTCATCTT
Statistics
Matches: 834, Mismatches: 115, Indels: 134
0.77 0.11 0.12
Matches are distributed among these distances:
38 2 0.00
39 91 0.11
40 3 0.00
41 1 0.00
42 2 0.00
43 40 0.05
44 1 0.00
45 3 0.00
46 1 0.00
47 5 0.01
48 104 0.12
49 305 0.37
50 13 0.02
51 9 0.01
52 140 0.17
53 65 0.08
55 1 0.00
56 2 0.00
57 1 0.00
58 5 0.01
59 2 0.00
61 38 0.05
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
Found at i:25848 original size:179 final size:179
Alignment explanation
Indices: 25532--26373 Score: 565
Period size: 179 Copynumber: 4.4 Consensus size: 179
25522 GGCATCTTCT
*
25532 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* * *
25597 CTGGCCTTGAATCAGCACATTAGCATAAGCCCAATATTACTAGCCTTGAATCAGCATATTGGCAC
66 CTGGCCTTGAATCAACACATTAGCATAAGCCCAATATCACTAGCCTTGAATCAGCACATTGGCAC
*
25662 CTCATCTTTAAGAT-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
131 CTCATCTTTAAG-TCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
* *
25711 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACC-TTGTTTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* * ** * * *
25775 TTGGCCTTGAATCAACACATTGGTGTAAGCCTAATGTCACTGGCCTTGAATCAGCACATTGGCAT
66 CTGGCCTTGAATCAACACATTAGCATAAGCCCAATATCACTAGCCTTGAATCAGCACATTGGCA-
* ** *
25840 CTTCATCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCACTTCATC
130 CCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA---C--C
* * * * * *
25895 TTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA----------TAAGCCCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* * * * * * *
25950 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCCTGAATCAGC
66 CTGGCCTTGAATCA--ACA----CA--TT-AGC-ATAAGCCCAATATCACTAGCCTTGAATCAGC
* *
26015 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGT
121 ACATTGGCACC-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATT---G-----G-
26080 CACCTTTGTCATC
176 CA-------C--C
* ** * *
26093 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* * * * *
26158 CTGGCCTTGAATTAGCATATCAGCGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
66 CTGGCCTTGAA-T--CA-A-CA---CATTAG-CA----TAAGCCCAATATCACTAGCCTTGAATC
* * *
26223 AGCACATTGGCACCTTCATCTTTAAGTCCAATATCGGTGGCCTTGAATCAGGATATCGGCGCCTT
118 AGCACATTGGCACC-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATC-----A---GC-ACAT
* *
26288 TGTCATC
173 TGGCACC
* * * * ** * *
26295 TTTAAGTCTAATATCACTGGCCTTGAATCATCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
26360 CTGGCCTTGAATCA
66 CTGGCCTTGAATCA
26374 GCATATTGGC
Statistics
Matches: 539, Mismatches: 65, Indels: 98
0.77 0.09 0.14
Matches are distributed among these distances:
175 26 0.05
177 3 0.01
178 75 0.14
179 82 0.15
181 2 0.00
182 1 0.00
183 2 0.00
184 37 0.07
185 74 0.14
188 1 0.00
193 1 0.00
194 2 0.00
198 42 0.08
199 2 0.00
201 1 0.00
202 74 0.14
208 26 0.05
209 1 0.00
210 3 0.01
211 78 0.14
216 1 0.00
217 1 0.00
219 2 0.00
220 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (179 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
CTGGCCTTGAATCAACACATTAGCATAAGCCCAATATCACTAGCCTTGAATCAGCACATTGGCAC
CTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:25887 original size:136 final size:137
Alignment explanation
Indices: 25676--26071 Score: 574
Period size: 136 Copynumber: 2.9 Consensus size: 137
25666 TCTTTAAGAT
*
25676 CAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATTGCTGGCCTT
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTT
* * *
25735 GAATCAGCATATTGGCACCTT-GTTTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGT
66 GAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGC
*
25799 GTAAGCC
131 ATAAGCC
* * **
25806 TAATGTCACTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCCTT
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTT
25871 GAATCAGCATATTGGCA-CTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGC
66 GAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGC
25935 ATAAGCC
131 ATAAGCC
* *
25942 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCCT
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTT
* * * * * * *
26007 GAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGC
66 GAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGC
26072 GCCTTTGTCA
Statistics
Matches: 236, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
130 31 0.13
134 1 0.00
135 3 0.01
136 160 0.68
137 41 0.17
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (137 bp):
CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGC
ATAAGCC
Found at i:25956 original size:39 final size:39
Alignment explanation
Indices: 25897--25975 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
25887 ACTTCATCTT
*
25897 TAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
* *
25936 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
25975 T
1 T
25976 CTTCATCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (39 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
Found at i:26010 original size:88 final size:87
Alignment explanation
Indices: 25860--26023 Score: 274
Period size: 88 Copynumber: 1.9 Consensus size: 87
25850 AAGTCCGGTA
* * *
25860 TCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGACCAATGTCGCTGGCCCTGAATCA
25925 ACACATTGGCATAAGCCCAATG
66 ACACATTGGCATAAGCCCAATG
*
25947 TCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCCTGAATC
1 TCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGACCAATGTCGCTGGCCCTGAATC
*
26012 AGCACATTGGCA
65 AACACATTGGCA
26024 CCTTCATCTT
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
87 27 0.38
88 44 0.62
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (87 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGACCAATGTCGCTGGCCCTGAATCA
ACACATTGGCATAAGCCCAATG
Found at i:26257 original size:101 final size:101
Alignment explanation
Indices: 26082--26583 Score: 707
Period size: 101 Copynumber: 4.9 Consensus size: 101
26072 GCCTTTGTCA
26082 CCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 CCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* *
26147 GTCCAATATCGCTGGCCTTGAATTAGCATATCAGCG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATCGGCG
26183 CCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 CCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* *
26248 GTCCAATATCGGTGGCCTTGAATCAGGATATCGGCG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATCGGCG
* * *
26284 CCTTTGTCATCTTTAAGTCTAATATCACTGGCCTTGAATCATCACATTGGCACCTTCATCTTTAA
1 CCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* *
26349 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
66 GTCCAATATCGCTGGCCTTGAATCAGCATATCGGCG
* * *
26385 CCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAA
1 CCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
** *
26450 GTCCAATATCTTTGGCCTTGAATCAGCATATTGGCG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATCGGCG
** * ** * * * *
26486 CCTTCATCATTTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTCCTAATCT
1 CCTTTGTCATCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--C-CTTCATCT
* * * *
26551 TTAAGTCCAAATGTTGCTGACCGTGAATCAGCA
62 TTAAGTCC-AATATCGCTGGCCTTGAATCAGCA
26584 CATTGACATC
Statistics
Matches: 360, Mismatches: 36, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
101 294 0.82
102 34 0.09
104 1 0.00
105 13 0.04
106 18 0.05
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (101 bp):
CCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
GTCCAATATCGCTGGCCTTGAATCAGCATATCGGCG
Found at i:26391 original size:202 final size:202
Alignment explanation
Indices: 25814--26635 Score: 904
Period size: 202 Copynumber: 4.1 Consensus size: 202
25804 CCTAATGTCA
* **
25814 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGC
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * * * * *
25879 ATATTGGC-AC--T-TCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGG------
66 ATATCGGCGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
25934 CA----TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TCT-TCATCTTTAAGTCC
131 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCC
*
25992 AATGTCG
196 AATATCG
* *
25999 CTGGCCCTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGC
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
*
26064 ATATTGGCGCCTTTGTCACCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
66 ATA-T--CG-----G-CGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * ** *
26129 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATCAGCGCCTTTGTCATC
122 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATC
26194 TTTAAGTCCAATATCG
187 TTTAAGTCCAATATCG
* *
26210 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGGTGGCCTTGAATCAGG
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * *
26275 ATATCGGCGCCTTTGTCATCTTTAAGTCTAATATCACTGGCCTTGAATCATCACATTGGCACCTT
66 ATATCGGCGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
*
26340 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCC
131 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCC
*
26405 AATGTCG
196 AATATCG
* * **
26412 CTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATATCTTTGGCCTTGAATCAGC
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* ** * ** * *
26477 ATATTGGCGCCTTCATCATTTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTC
66 ATATCGGCGCCTTTGTCATCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--C
* * * * * * * *
26542 TCCTAATCTTTAAGTCCAAATGTTGCTGACCGTGAATCAGCACATTGACATCCTTTTTCTCATCT
128 -CTTCATCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCACATTGGCA-CC--TTTGTCATCT
**
26607 TTAAACCCAATATCG
188 TTAAGTCCAATATCG
* *
26622 TTGGCCGTGAATCA
1 CTGGCCTTGAATCA
26636 ACGTATTGGT
Statistics
Matches: 540, Mismatches: 63, Indels: 43
0.84 0.10 0.07
Matches are distributed among these distances:
185 63 0.12
186 1 0.00
188 1 0.00
193 1 0.00
194 1 0.00
195 1 0.00
197 1 0.00
198 40 0.07
202 200 0.37
203 32 0.06
204 2 0.00
205 1 0.00
206 14 0.03
207 26 0.05
208 36 0.07
210 36 0.07
211 84 0.16
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (202 bp):
CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
ATATCGGCGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCC
AATATCG
Found at i:26810 original size:176 final size:176
Alignment explanation
Indices: 26516--26890 Score: 696
Period size: 176 Copynumber: 2.1 Consensus size: 176
26506 CAATGTCGTT
*
26516 GGCCTTGAATCAGCACATTGGCATTCTCCTAATCTTTAAGTCCAAATGTTGCTGACCGTGAATCA
1 GGCCTTGAATCAGCACATTGGCATTCTCCTAATCTTCAAGTCCAAATGTTGCTGACCGTGAATCA
26581 GCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
66 GCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
26646 CCTTTTATCACTCCTCATCCTCATCATCTTTAAGTCCAGTGTGGCA
131 CCTTTTATCACTCCTCATCCTCATCATCTTTAAGTCCAGTGTGGCA
* *
26692 GGCCTTGAATCAGCACATTGGCATTCTCCTCATCTTCAAGTCCAAATGTTGTTGACCGTGAATCA
1 GGCCTTGAATCAGCACATTGGCATTCTCCTAATCTTCAAGTCCAAATGTTGCTGACCGTGAATCA
26757 GCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
66 GCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
*
26822 CTTTTTATCACTCCTCATCCTCATCATCTTTAAGTCCAGTGTGGCA
131 CCTTTTATCACTCCTCATCCTCATCATCTTTAAGTCCAGTGTGGCA
* *
26868 GGCCTTGAATCTGCACAGTGGCA
1 GGCCTTGAATCAGCACATTGGCA
26891 CATTGCAAAA
Statistics
Matches: 193, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 193 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (176 bp):
GGCCTTGAATCAGCACATTGGCATTCTCCTAATCTTCAAGTCCAAATGTTGCTGACCGTGAATCA
GCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
CCTTTTATCACTCCTCATCCTCATCATCTTTAAGTCCAGTGTGGCA
Found at i:27487 original size:19 final size:19
Alignment explanation
Indices: 27442--27525 Score: 81
Period size: 19 Copynumber: 4.6 Consensus size: 19
27432 ATTCAATAAT
*
27442 TTGTATCGATACAAACAAGTAG
1 TTGTATCGATAC--ATAAGT-G
27464 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
27483 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
27497 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
27515 TTGAATCGATA
1 TTGTATCGATA
27526 TAATGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 22 0.41
20 5 0.09
22 12 0.22
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:27502 original size:13 final size:13
Alignment explanation
Indices: 27484--27508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27474 ACATAAGTGT
27484 TGTATCGATACAA
1 TGTATCGATACAA
27497 TGTATCGATACA
1 TGTATCGATACA
27509 TAAGTGTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27506 original size:32 final size:32
Alignment explanation
Indices: 27465--27534 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
27455 AACAAGTAGT
*
27465 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGAATCGATACAA
*
27497 TGTATCGATACATAAGTGTTGAATCGATATAA
1 TGTATCGATACATAAGTGTTGAATCGATACAA
27529 TGTATC
1 TGTATC
27535 ACTACGAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGAATCGATACAA
Found at i:27611 original size:20 final size:20
Alignment explanation
Indices: 27557--27612 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
27547 TTGCCAAGTA
**
27557 AATGTATCGATACAAAGATC
1 AATGTATCGATACATTGATC
27577 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
27597 TTTGTATCGATACATT
1 AATGTATCGATACATT
27613 TGGGAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:39044 original size:41 final size:41
Alignment explanation
Indices: 38987--39069 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
38977 TATTAGTTAC
38987 CATATAGAGAAAGTGTATTGGCACATCACACTCTGAATCTG
1 CATATAGAGAAAGTGTATTGGCACATCACACTCTGAATCTG
*
39028 CATATATAGAAAGTGTATTGGCACATCACACTCTGAATCTG
1 CATATAGAGAAAGTGTATTGGCACATCACACTCTGAATCTG
39069 C
1 C
39070 CAAAATAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (41 bp):
CATATAGAGAAAGTGTATTGGCACATCACACTCTGAATCTG
Found at i:39091 original size:2 final size:2
Alignment explanation
Indices: 39084--39108 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39074 ATAATTAACG
39084 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
39109 CAATCGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41520 original size:2 final size:2
Alignment explanation
Indices: 41513--41553 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
41503 AACCCTCTTT
41513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41554 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:41972 original size:64 final size:64
Alignment explanation
Indices: 41896--42015 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 64
41886 AATTATCCTC
* *
41896 ATGGTAACTTTTATTCATTTAATGTATTATTTATAAAATATTTATTTGAATATTATCTATTTTT
1 ATGGTAACTTTTATCCATTTAATGTATTATTCATAAAATATTTATTTGAATATTATCTATTTTT
* * * **
41960 ATGGTAATTTTTATCCGTTTGATGTATTATTCATGCAATATTTATTTGAATATTAT
1 ATGGTAACTTTTATCCATTTAATGTATTATTCATAAAATATTTATTTGAATATTAT
42016 TTTATTTGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (64 bp):
ATGGTAACTTTTATCCATTTAATGTATTATTCATAAAATATTTATTTGAATATTATCTATTTTT
Found at i:42079 original size:24 final size:24
Alignment explanation
Indices: 42052--42100 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
42042 TTGACATAAT
42052 AAAAGTCATAA-TTTGAAAATTAAA
1 AAAAGTCATAAGTTT-AAAATTAAA
* *
42076 AAAAGTTATAAGTTTAATATTAAA
1 AAAAGTCATAAGTTTAAAATTAAA
42100 A
1 A
42101 TTCAAACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (24 bp):
AAAAGTCATAAGTTTAAAATTAAA
Found at i:43020 original size:18 final size:18
Alignment explanation
Indices: 42999--43041 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
42989 TATTTATTAA
*
42999 ATTTTAAT-AAAATATATT
1 ATTTTAATAAAAAT-TACT
43017 ATTTTAATAAAAATTACT
1 ATTTTAATAAAAATTACT
43035 ATTTTAA
1 ATTTTAA
43042 GTTGAACCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTAATAAAAATTACT
Found at i:49076 original size:19 final size:19
Alignment explanation
Indices: 49033--49077 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
49023 ATTCGGTCTA
*
49033 ATTTAAAATAGTAATTTTT
1 ATTTAAAATAATAATTTTT
*
49052 AATTAAAATAAT-ATATTTT
1 ATTTAAAATAATAAT-TTTT
49071 ATTTAAA
1 ATTTAAA
49078 TTTAATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTTAAAATAATAATTTTT
Found at i:51720 original size:20 final size:20
Alignment explanation
Indices: 51695--51761 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
51685 ATATTAAAGT
51695 TATTAATATTTAAATATAAA
1 TATTAATATTTAAATATAAA
**
51715 TATTAATATAAAAATA-AAA
1 TATTAATATTTAAATATAAA
* * *
51734 TTTTTAATATTTTATTATAAA
1 -TATTAATATTTAAATATAAA
*
51755 TAATAAT
1 TATTAAT
51762 TTAGGTGAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
19 3 0.08
20 30 0.83
21 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTAATATTTAAATATAAA
Found at i:51741 original size:40 final size:39
Alignment explanation
Indices: 51622--51761 Score: 110
Period size: 40 Copynumber: 3.6 Consensus size: 39
51612 ATGTTATCTA
* *
51622 AATATGTAAATAT-AA-ATAATATAAATTAAT-AAATATTT
1 AATATTTAAATATAAATATAATATAAA--AATAAAATTTTT
* * * * *
51660 AA-ATTTAAAAATAAATA-AAGTATATATATTAAAGTTATT
1 AATATTTAAATATAAATATAA-TATA-AAAATAAAATTTTT
51699 AATATTTAAATATAAATATTAATATAAAAATAAAATTTTT
1 AATATTTAAATATAAATA-TAATATAAAAATAAAATTTTT
* *
51739 AATATTTTATTATAAATAATAAT
1 AATATTTAAATATAAAT-ATAAT
51762 TTAGGTGAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
37 8 0.10
38 8 0.10
39 12 0.15
40 44 0.56
41 5 0.06
42 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (39 bp):
AATATTTAAATATAAATATAATATAAAAATAAAATTTTT
Found at i:51874 original size:40 final size:45
Alignment explanation
Indices: 51829--51924 Score: 105
Period size: 47 Copynumber: 2.2 Consensus size: 45
51819 AACTCAATTT
51829 ATAAATATTTCT-ATT-CA-TATA-TAATTAAAATT-TAAAT-TA
1 ATAAATATTTCTCATTACATTATATTAATTAAAATTATAAATATA
* *
51868 CATAAATAAATTTTTCATTACATTATATTTATTAAAATTATAAATATA
1 -ATAAAT--ATTTCTCATTACATTATATTAATTAAAATTATAAATATA
51916 ATAAATATT
1 ATAAATATT
51925 ATCCAAACAA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
40 6 0.13
42 5 0.11
43 3 0.07
44 2 0.04
45 7 0.15
46 10 0.22
47 11 0.24
48 2 0.04
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (45 bp):
ATAAATATTTCTCATTACATTATATTAATTAAAATTATAAATATA
Found at i:52790 original size:2 final size:2
Alignment explanation
Indices: 52778--52813 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
52768 AAAACAATAA
*
52778 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52814 TGTTTGCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:53300 original size:19 final size:19
Alignment explanation
Indices: 53262--53300 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
53252 TTTATTTAAA
* *
53262 TTATATTAATATTCATAAT
1 TTATATTAATATTAAAAAT
*
53281 TTATATTCATATTAAAAAT
1 TTATATTAATATTAAAAAT
53300 T
1 T
53301 AAATTATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATATTAATATTAAAAAT
Found at i:53847 original size:2 final size:2
Alignment explanation
Indices: 53840--53906 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
53830 CCCCCTTTTC
53840 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
53882 TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
53907 GTATTAAATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:54056 original size:98 final size:98
Alignment explanation
Indices: 53887--54083 Score: 394
Period size: 98 Copynumber: 2.0 Consensus size: 98
53877 ATATATATAT
53887 ATATATATATATATGTATATGTATTAAATTAATTTATCGTAAGCATGATAACTAGTACATTAGAA
1 ATATATATATATATGTATATGTATTAAATTAATTTATCGTAAGCATGATAACTAGTACATTAGAA
53952 GTGTGTTTTTCTCGATCCTCTTATGTTAGGGAA
66 GTGTGTTTTTCTCGATCCTCTTATGTTAGGGAA
53985 ATATATATATATATGTATATGTATTAAATTAATTTATCGTAAGCATGATAACTAGTACATTAGAA
1 ATATATATATATATGTATATGTATTAAATTAATTTATCGTAAGCATGATAACTAGTACATTAGAA
54050 GTGTGTTTTTCTCGATCCTCTTATGTTAGGGAA
66 GTGTGTTTTTCTCGATCCTCTTATGTTAGGGAA
54083 A
1 A
54084 GGTCTAACTA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (98 bp):
ATATATATATATATGTATATGTATTAAATTAATTTATCGTAAGCATGATAACTAGTACATTAGAA
GTGTGTTTTTCTCGATCCTCTTATGTTAGGGAA
Found at i:58830 original size:32 final size:35
Alignment explanation
Indices: 58771--58863 Score: 122
Period size: 32 Copynumber: 2.7 Consensus size: 35
58761 TATCATAACT
*
58771 ATATTTAAAGTAT-TTTATATTTATATAAATTTTAAA
1 ATATTTATA-TATATTTATA-TTATATAAATTTTAAA
58807 ATA-TTA-ATA-ATTTATATTATATAAATTTTAAA
1 ATATTTATATATATTTATATTATATAAATTTTAAA
*
58839 ATATTTATATATTTTTATATTATAT
1 ATATTTATATATATTTATATTATAT
58864 TTTAATTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
32 19 0.37
33 11 0.21
34 4 0.08
35 15 0.29
36 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (35 bp):
ATATTTATATATATTTATATTATATAAATTTTAAA
Found at i:58847 original size:18 final size:18
Alignment explanation
Indices: 58794--58853 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
58784 TTTATATTTA
58794 TATAAATTTTAAAATATT
1 TATAAATTTTAAAATATT
*
58812 AAT-AA-TTT---ATATT
1 TATAAATTTTAAAATATT
58825 ATATAAATTTTAAAATATT
1 -TATAAATTTTAAAATATT
*
58844 TATATATTTT
1 TATAAATTTT
58854 TATATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
13 5 0.15
14 2 0.06
15 2 0.06
16 6 0.18
17 2 0.06
18 11 0.33
19 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATAAATTTTAAAATATT
Found at i:58874 original size:30 final size:30
Alignment explanation
Indices: 58774--58881 Score: 100
Period size: 32 Copynumber: 3.6 Consensus size: 30
58764 CATAACTATA
*
58774 TTTAAAGTATTT-TATA--TTTATATAAAT
1 TTTAAAATATTTATATATTTTTATATAAAT
*
58801 TTTAAAATATTAATA-ATTTATATTATATAAAT
1 TTTAAAATATTTATATA-TT-T-TTATATAAAT
*
58833 TTTAAAATATTTATATATTTTTATATTATAT
1 TTTAAAATATTTATATATTTTTATA-TAAAT
* *
58864 TTT-AATTATTTTTATATT
1 TTTAAAATATTTATATATT
58882 ATATTCATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
27 11 0.16
28 2 0.03
30 18 0.27
31 9 0.13
32 26 0.39
33 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTAAAATATTTATATATTTTTATATAAAT
Found at i:58882 original size:11 final size:11
Alignment explanation
Indices: 58842--58883 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
58832 TTTTAAAATA
58842 TTTATA-TATT
1 TTTATATTATT
58852 TTTATATTATAT
1 TTTATATTAT-T
58864 TTTA-ATTATT
1 TTTATATTATT
58874 TTTATATTAT
1 TTTATATTAT
58884 ATTCATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 11 0.38
11 13 0.45
12 5 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTATATTATT
Found at i:59363 original size:30 final size:30
Alignment explanation
Indices: 59329--59390 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
59319 AGTTTGAGTA
59329 ATATAACTAATCATTCTTTTTCTCTCACCT
1 ATATAACTAATCATTCTTTTTCTCTCACCT
*
59359 ATATAATTAATCATTCTTTTTCTCTCACCT
1 ATATAACTAATCATTCTTTTTCTCTCACCT
59389 AT
1 AT
59391 TTCATCCGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.48
Consensus pattern (30 bp):
ATATAACTAATCATTCTTTTTCTCTCACCT
Found at i:65603 original size:17 final size:17
Alignment explanation
Indices: 65581--65643 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
65571 AAATATAATA
65581 AAATATAATAATTTATC
1 AAATATAATAATTTATC
65598 AAATAT-A-AATTTAT-
1 AAATATAATAATTTATC
*
65612 ATAT-TAATAATTTATC
1 AAATATAATAATTTATC
*
65628 AAATATAATATTTTAT
1 AAATATAATAATTTAT
65644 TTTATTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.03
14 4 0.10
15 14 0.36
16 4 0.10
17 16 0.41
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATAATAATTTATC
Found at i:65608 original size:15 final size:15
Alignment explanation
Indices: 65590--65640 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
65580 AAAATATAAT
65590 AATTTATCAAATATA
1 AATTTATCAAATATA
*
65605 AATTTAT-ATAT-TAA
1 AATTTATCAAATAT-A
65619 TAATTTATCAAATATA
1 -AATTTATCAAATATA
65635 ATATTT
1 A-ATTT
65641 TATTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 15 0.52
16 8 0.28
17 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTATCAAATATA
Found at i:65687 original size:21 final size:21
Alignment explanation
Indices: 65662--65705 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
65652 TTTTTATAAC
* *
65662 ATAAAAATAAGATATAATTAA
1 ATAAAAATAACATAAAATTAA
**
65683 ATAAATTTAACATAAAATTAA
1 ATAAAAATAACATAAAATTAA
65704 AT
1 AT
65706 CAATCTCACG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAAAAATAACATAAAATTAA
Found at i:67356 original size:54 final size:55
Alignment explanation
Indices: 67248--67361 Score: 128
Period size: 54 Copynumber: 2.1 Consensus size: 55
67238 GCTTGGATAT
**
67248 TATTTAAAGTGATAAATAAATGTATAATCTATTAATCATTGAATTAAATAATTAA
1 TATTTAAAGTGATAAATAAATGTATAATCTATTAATCATTGAAAAAAATAATTAA
* * *
67303 -ATTTAAAGTGATAAATTAATGTGATATTTTAATT-AT-ATTGATAAAAAAT-ATTAA
1 TATTTAAAGTGATAAATAAATGT-ATAATCT-ATTAATCATTGA-AAAAAATAATTAA
67357 TATTT
1 TATTT
67362 TTAATATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
54 31 0.62
55 16 0.32
56 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (55 bp):
TATTTAAAGTGATAAATAAATGTATAATCTATTAATCATTGAAAAAAATAATTAA
Found at i:68207 original size:12 final size:12
Alignment explanation
Indices: 68178--68215 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
68168 ATTTGTTATT
68178 AATTTAATTAATA
1 AATTTAATTAA-A
*
68191 AATTTATTTAAA
1 AATTTAATTAAA
68203 AATTTAATTAAA
1 AATTTAATTAAA
68215 A
1 A
68216 TAAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTTAATTAAA
Found at i:70931 original size:22 final size:21
Alignment explanation
Indices: 70903--70970 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 21
70893 AAAATTTTAT
70903 TTTATATAATATATTTTATATA
1 TTTATAT-ATATATTTTATATA
70925 TTTATAT-TATATTTATATTATA
1 TTTATATATATATTT-TA-TATA
70947 TTTATTATATTATATTTTTATATA
1 TTTA-TATA-TATA-TTTTATATA
70971 ATTTTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
20 7 0.17
21 2 0.05
22 15 0.38
23 3 0.08
24 4 0.10
25 6 0.15
26 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTATATATATATTTTATATA
Found at i:70935 original size:11 final size:11
Alignment explanation
Indices: 70907--70962 Score: 68
Period size: 9 Copynumber: 5.5 Consensus size: 11
70897 TTTTATTTTA
*
70907 TATAATATATT
1 TATATTATATT
70918 T-TA-TATATT
1 TATATTATATT
70927 TATATTATATT
1 TATATTATATT
70938 TATATTATA-T
1 TATATTATATT
70948 T-TATTATA-T
1 TATATTATATT
70957 TATATT
1 TATATT
70963 TTTATATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
9 16 0.38
10 10 0.24
11 16 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTATATT
Found at i:70935 original size:20 final size:21
Alignment explanation
Indices: 70907--70970 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
70897 TTTTATTTTA
*
70907 TATAATATATTTTATATAT-T
1 TATATTATATTTTATATATAT
70927 TATATTATATTTATATTATATTTAT
1 TATATTATATTT-TA-TATA--TAT
70952 TATATTATATTTT-TATATA
1 TATATTATATTTTATATATA
70971 ATTTTTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 13 0.34
21 2 0.05
22 8 0.21
24 2 0.05
25 13 0.34
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATTATATTTTATATATAT
Found at i:70936 original size:45 final size:45
Alignment explanation
Indices: 70847--70975 Score: 120
Period size: 45 Copynumber: 2.8 Consensus size: 45
70837 TTTTTATTGT
*
70847 AATTATATTTAAATTA-ATATATATTTTTATAAAATTTTAATATATTAA
1 AATTATATTT--ATTATA-ATATATTTTTAT-ATATTTTAATATATTAA
* * *
70895 AATTTTATTT-TATATAATATA-TTTTATATATTTATATTATATTTA
1 AATTATATTTAT-TATAATATATTTTTATATATTT-TAATATATTAA
* *
70940 TATTATATTTATTATATTATATTTTTATATAATTTT
1 AATTATATTTATTATAATATATTTTTATAT-ATTTT
70976 TAAAATTATA
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
44 5 0.07
45 32 0.47
46 17 0.25
47 5 0.07
48 9 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (45 bp):
AATTATATTTATTATAATATATTTTTATATATTTTAATATATTAA
Found at i:70974 original size:25 final size:25
Alignment explanation
Indices: 70912--70963 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
70902 TTTTATATAA
* *
70912 TATATTTTATATATTTATATTATATT
1 TATATTATATTTA-TTATATTATATT
70938 TATATTATATTTATTATATTATATT
1 TATATTATATTTATTATATTATATT
70963 T
1 T
70964 TTATATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TATATTATATTTATTATATTATATT
Found at i:70983 original size:25 final size:25
Alignment explanation
Indices: 70912--70985 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
70902 TTTTATATAA
70912 TATATTT-TA-TATATTTA-T--AT
1 TATATTTATATTATATTTATTAAAT
*
70932 TATATTTATATTATATTTATTATAT
1 TATATTTATATTATATTTATTAAAT
*
70957 TATATTTTTA-TATAATTT-TTAAAAT
1 TATATTTATATTAT-ATTTATT-AAAT
70982 TATA
1 TATA
70986 AAATTTAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
20 7 0.16
21 2 0.04
22 8 0.18
23 1 0.02
24 5 0.11
25 22 0.49
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATTTATATTATATTTATTAAAT
Found at i:71315 original size:18 final size:19
Alignment explanation
Indices: 71294--71362 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 19
71284 TTATATAATG
71294 TATTAAAAT-T-ATATATAA
1 TATTAAAATATAAT-TATAA
71312 TATTATAAATATAATTATAA
1 TATTA-AAATATAATTATAA
* * *
71332 TA-TAAAAAATAATAAAAA
1 TATTAAAATATAATTATAA
*
71350 TA-TAATATATAAT
1 TATTAAAATATAAT
71363 AATTATTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 27 0.63
19 6 0.14
20 8 0.19
21 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAAATATAATTATAA
Found at i:71316 original size:12 final size:12
Alignment explanation
Indices: 71275--71508 Score: 57
Period size: 12 Copynumber: 19.8 Consensus size: 12
71265 ATAATTATTT
* *
71275 TATAAAATATTA
1 TATAATATATAA
*
71287 TATAATGTATTAA
1 TATAATATA-TAA
* *
71300 AATTATATATAA
1 TATAATATATAA
*
71312 TATTATAAATATAA
1 TA-TA-ATATATAA
*
71326 TTATAATATAAAA
1 -TATAATATATAA
* *
71339 AATAATA-AAAA
1 TATAATATATAA
71350 TATAATATATAA
1 TATAATATATAA
*
71362 TA-ATTAT-TAA
1 TATAATATATAA
*
71372 -AAAATATGCACTAA
1 TATAATAT--A-TAA
* * * **
71386 TTTATTACATGT
1 TATAATATATAA
*
71398 TA-AATAATTTAA
1 TATAAT-ATATAA
71410 -ATAATATATAAA
1 TATAATATAT-AA
71422 TATAA-A-A-AA
1 TATAATATATAA
71431 T-TAA-ATATAA
1 TATAATATATAA
71441 TATAA-ATATAA
1 TATAATATATAA
71452 TATAAATATATGAA
1 TAT-AATATAT-AA
*
71466 TAT-ATAAAT-A
1 TATAATATATAA
*
71476 TATAAATAAATAA
1 TAT-AATATATAA
* * *
71489 TTTAAAAT-TTA
1 TATAATATATAA
71500 TATAATATA
1 TATAATATA
71509 AATTATTAAT
Statistics
Matches: 161, Mismatches: 36, Indels: 50
0.65 0.15 0.20
Matches are distributed among these distances:
8 4 0.02
9 5 0.03
10 14 0.09
11 41 0.25
12 48 0.30
13 27 0.17
14 17 0.11
15 5 0.03
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (12 bp):
TATAATATATAA
Found at i:71320 original size:20 final size:20
Alignment explanation
Indices: 71274--71334 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
71264 GATAATTATT
71274 TTATAAAA-TATTATATAAT-
1 TTATAAAATTA-TATATAATA
*
71293 GTATTAAAATTATATATAATA
1 TTA-TAAAATTATATATAATA
*
71314 TTATAAATATAAT-TATAATA
1 TTATAAA-ATTATATATAATA
71334 T
1 T
71335 AAAAAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 2 0.06
20 25 0.71
21 8 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TTATAAAATTATATATAATA
Found at i:71372 original size:25 final size:25
Alignment explanation
Indices: 71280--71374 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 25
71270 TATTTTATAA
71280 AATAT-TATATAATGTATT-AAAAT-T
1 AATATATA-ATAAT-TATTAAAAATAT
*
71304 -ATATATAAT-ATTATAAATATAATTAT
1 AATATATAATAATTATTAA-A-AA-TAT
* *
71330 AATATA-AA-AAATAATAAAAATAT
1 AATATATAATAATTATTAAAAATAT
71353 AATATATAATAATTATTAAAAA
1 AATATATAATAATTATTAAAAA
71375 ATATGCACTA
Statistics
Matches: 55, Mismatches: 6, Indels: 19
0.69 0.08 0.24
Matches are distributed among these distances:
21 3 0.05
22 3 0.05
23 16 0.29
24 8 0.15
25 12 0.22
26 8 0.15
27 5 0.09
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (25 bp):
AATATATAATAATTATTAAAAATAT
Found at i:71425 original size:8 final size:8
Alignment explanation
Indices: 71412--71581 Score: 81
Period size: 8 Copynumber: 21.2 Consensus size: 8
71402 TAATTTAAAT
71412 AATATATA
1 AATATATA
71420 AATATA-A
1 AATATATA
*
71427 AAAAT-TA
1 AATATATA
71434 AATATA-A
1 AATATATA
* *
71441 TATAAATA
1 AATATATA
*
71449 TA-ATATA
1 AATATATA
*
71456 AATATATG
1 AATATATA
71464 AATATATA
1 AATATATA
71472 AATATATA
1 AATATATA
*
71480 AATAAAT-
1 AATATATA
*
71487 AATTTA-A
1 AATATATA
*
71494 AATTTATA
1 AATATATA
71502 TAATATA-A
1 -AATATATA
*
71510 ATTATTAATA
1 AATA-T-ATA
71520 AAT-TA-A
1 AATATATA
71526 AACT-TATA
1 AA-TATATA
*
71534 AAAATATAA
1 AATATAT-A
*
71543 AATATTTTA
1 AATA-TATA
71552 AATATAATTA
1 AATAT-A-TA
71562 TAATATATA
1 -AATATATA
71571 AATATGATA
1 AATAT-ATA
71580 AA
1 AA
71582 ATTTAACTTA
Statistics
Matches: 125, Mismatches: 18, Indels: 37
0.69 0.10 0.21
Matches are distributed among these distances:
6 3 0.02
7 37 0.30
8 50 0.40
9 22 0.18
10 8 0.06
11 5 0.04
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (8 bp):
AATATATA
Found at i:71426 original size:6 final size:6
Alignment explanation
Indices: 71410--71461 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
71400 AATAATTTAA
*
71410 ATAATAT ATAAAT ATAAAAA ATTAAAT AT-AAT ATAAAT AT-AAT ATAAAT
1 ATAA-AT ATAAAT AT-AAAT A-TAAAT ATAAAT ATAAAT ATAAAT ATAAAT
71459 ATA
1 ATA
71462 TGAATATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 10 0.26
6 16 0.41
7 12 0.31
8 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATAAAT
Found at i:71447 original size:36 final size:39
Alignment explanation
Indices: 71401--71582 Score: 111
Period size: 37 Copynumber: 4.8 Consensus size: 39
71391 TACATGTTAA
*
71401 ATAATTTAAATAAT-ATATAAATATA-AAAAAT-TAAAT
1 ATAATATAAATAATAATATAAATATATAAAAATATAAAT
* *
71437 ATAATATAAAT-ATAATATAAATATATGAATATATAAAT
1 ATAATATAAATAATAATATAAATATATAAAAATATAAAT
* * * *
71475 ATATAAATAAATAAT-TTA-AAATTTAT-ATAATATAAATT
1 ATA-ATATAAATAATAATATAAATATATAAAAATATAAA-T
* * *
71513 ATTAATA-AATTAA-AACTTATAAAAATATAAAATATTTTAAAT
1 A-TAATATAAATAATAA--TATAAATATATAAAA-A-TATAAAT
71555 ATAAT-T--ATAAT-ATATAAATATGATAAAA
1 ATAATATAAATAATAATATAAATAT-ATAAAA
71583 TTTAACTTAA
Statistics
Matches: 112, Mismatches: 17, Indels: 32
0.70 0.11 0.20
Matches are distributed among these distances:
35 2 0.02
36 21 0.19
37 25 0.22
38 25 0.22
39 17 0.15
40 8 0.07
41 6 0.05
42 3 0.03
43 5 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (39 bp):
ATAATATAAATAATAATATAAATATATAAAAATATAAAT
Found at i:71502 original size:32 final size:31
Alignment explanation
Indices: 71410--71546 Score: 99
Period size: 32 Copynumber: 4.5 Consensus size: 31
71400 AATAATTTAA
*
71410 ATAATATATAAATATAAA-AAATTAAATA-TAAT
1 ATAA-ATATAAA-ATAAATAAATTAAA-ACTTAT
* * *
71442 ATAAATATAATATAAATATA-T-GAA--TAT
1 ATAAATATAAAATAAATAAATTAAAACTTAT
* *
71469 ATAAATATATAAATAAATAATTTAAAATTTAT
1 ATAAATATA-AAATAAATAAATTAAAACTTAT
*
71501 AT-AATATAAATTATTAATAAATTAAAACTTAT
1 ATAAATATAAA--ATAAATAAATTAAAACTTAT
*
71533 AAAAATATAAAATA
1 ATAAATATAAAATA
71547 TTTTAAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
27 11 0.13
28 9 0.11
29 2 0.02
30 10 0.12
31 16 0.19
32 27 0.33
33 8 0.10
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (31 bp):
ATAAATATAAAATAAATAAATTAAAACTTAT
Found at i:73095 original size:32 final size:33
Alignment explanation
Indices: 73053--73117 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
73043 TGGTTAAATA
* * *
73053 AATAT-TTTAAATGTTATA-AAATATAAATTATT
1 AATATATTAAAAT-TTATATAAATAAAAAATATT
73085 AATATATTAAAATTTATATAAATAAAAAATATT
1 AATATATTAAAATTTATATAAATAAAAAATATT
73118 TTAAATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (33 bp):
AATATATTAAAATTTATATAAATAAAAAATATT
Found at i:73412 original size:24 final size:26
Alignment explanation
Indices: 73384--73433 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
73374 ATTTTATTTT
73384 TATTAATCATA-T-AAATATTAAAAA
1 TATTAATCATATTAAAATATTAAAAA
* *
73408 TATTAATTATATTAAAATTTTAAAAA
1 TATTAATCATATTAAAATATTAAAAA
73434 ATAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 1 0.05
26 11 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
TATTAATCATATTAAAATATTAAAAA
Found at i:73442 original size:24 final size:27
Alignment explanation
Indices: 73396--73447 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
73386 TTAATCATAT
*
73396 AAATATTAAAAATATTAATTAT-ATTA
1 AAATATTAAAAATATTAAATATAATTA
*
73422 AAATTTTAAAAA-A-TAAATATAATTA
1 AAATATTAAAAATATTAAATATAATTA
73447 A
1 A
73448 TGAATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 6 0.26
26 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AAATATTAAAAATATTAAATATAATTA
Found at i:74522 original size:29 final size:29
Alignment explanation
Indices: 74489--74545 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
74479 TAATAATATT
74489 TTTTAATATTT-TACTAATAAATATTACTC
1 TTTTAATATTTATACTAAT-AATATTACTC
* *
74518 TTTTAATATTTATATTGATAATATTACT
1 TTTTAATATTTATACTAATAATATTACT
74546 ATTTAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTTAATATTTATACTAATAATATTACTC
Found at i:75126 original size:44 final size:44
Alignment explanation
Indices: 75063--75151 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
75053 CTGCATCTGT
75063 ATTCAAAATTATCCTCAAAAATATATCAGACATAAATATCCATA
1 ATTCAAAATTATCCTCAAAAATATATCAGACATAAATATCCATA
75107 ATTCAAAATTATCCTCAAAAATATATCAGACATAAATATCCATA
1 ATTCAAAATTATCCTCAAAAATATATCAGACATAAATATCCATA
75151 A
1 A
75152 ATACTTTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (44 bp):
ATTCAAAATTATCCTCAAAAATATATCAGACATAAATATCCATA
Found at i:76932 original size:29 final size:29
Alignment explanation
Indices: 76889--76972 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
76879 TTTAAAATTT
*
76889 AATATGTACAAATTATATAAATATAATATA
1 AATATATA-AAATTATATAAATATAATATA
*
76919 AA-ATATAATAATTAAATTAAATA-AATATA
1 AATATATAA-AATTATA-TAAATATAATATA
*
76948 AATTATATAAAAATATATAAA-ATAA
1 AA-TATATAAAATTATATAAATATAA
76973 AATTAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
28 2 0.04
29 24 0.53
30 13 0.29
31 6 0.13
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (29 bp):
AATATATAAAATTATATAAATATAATATA
Found at i:76970 original size:20 final size:20
Alignment explanation
Indices: 76902--76970 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
76892 ATGTACAAAT
*
76902 TATATAAATATAATAT-AAAA
1 TATATAAA-ATTATATAAAAA
* *
76922 TATA-ATAATTAAATTAAATAA
1 TATATAAAATTATA-TAAA-AA
76943 -ATAT-AAATTATATAAAAA
1 TATATAAAATTATATAAAAA
76961 TATATAAAAT
1 TATATAAAAT
76971 AAAATTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
18 6 0.16
19 11 0.29
20 19 0.50
21 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATAAAATTATATAAAAA
Found at i:76976 original size:40 final size:40
Alignment explanation
Indices: 76903--76978 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
76893 TGTACAAATT
* *
76903 ATATAAATATAATATAAAATATAATAATTAAATTAAATAA
1 ATATAAATATAATATAAAATATAAAAATAAAATTAAATAA
76943 ATATAAAT-T-ATATAAAAATATATAAAATAAAATTAA
1 ATATAAATATAATAT-AAAATATA-AAAATAAAATTAA
76979 TTTTATACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 4 0.12
39 9 0.28
40 19 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (40 bp):
ATATAAATATAATATAAAATATAAAAATAAAATTAAATAA
Found at i:77320 original size:22 final size:21
Alignment explanation
Indices: 77285--77335 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
77275 TTTTCAACAG
*
77285 AAAAAATATATTAATTTATATTT
1 AAAAAA-ATATTAA-TTATAATT
*
77308 ATAAAAATATTAATTATAATT
1 AAAAAAATATTAATTATAATT
77329 AAAAAAA
1 AAAAAAA
77336 GTTAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.52
22 7 0.28
23 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAAAATATTAATTATAATT
Found at i:77382 original size:12 final size:12
Alignment explanation
Indices: 77365--77389 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77355 TGACCTAAAA
77365 TTAAATAATTAT
1 TTAAATAATTAT
77377 TTAAATAATTAT
1 TTAAATAATTAT
77389 T
1 T
77390 ATTATTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAAATAATTAT
Found at i:77428 original size:17 final size:17
Alignment explanation
Indices: 77406--77439 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
77396 ATTTTGTTAC
77406 AATCATTTATTTTCATT
1 AATCATTTATTTTCATT
77423 AATCATTTATTTTCATT
1 AATCATTTATTTTCATT
77440 TAATTAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
AATCATTTATTTTCATT
Found at i:77546 original size:30 final size:29
Alignment explanation
Indices: 77505--77581 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
77495 CCAATAGTTT
* *
77505 AATTGAGTAAAAATAAATATTTAATGATTTA
1 AATTGA-TAAAAATAAATACTTAA-AATTTA
*
77536 AATTGATAAAAATAAATACTTAAAATTTG
1 AATTGATAAAAATAAATACTTAAAATTTA
*
77565 AATTAATAAAAATAAAT
1 AATTGATAAAAATAAAT
77582 TTTTGAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 20 0.48
30 16 0.38
31 6 0.14
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.35
Consensus pattern (29 bp):
AATTGATAAAAATAAATACTTAAAATTTA
Found at i:77568 original size:29 final size:30
Alignment explanation
Indices: 77497--77581 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 30
77487 TTGTTCAACC
* *
77497 AATAGTTT-AATTGAGTAAAAATAAATATTT
1 AATAATTTAAATTGA-TAAAAATAAATACTT
*
77527 AATGATTTAAATTGATAAAAATAAATACTT
1 AATAATTTAAATTGATAAAAATAAATACTT
* *
77557 AA-AATTTGAATTAATAAAAATAAAT
1 AATAATTTAAATTGATAAAAATAAAT
77582 TTTTGAAAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 20 0.42
30 22 0.46
31 6 0.12
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (30 bp):
AATAATTTAAATTGATAAAAATAAATACTT
Found at i:77597 original size:29 final size:29
Alignment explanation
Indices: 77512--77595 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
77502 TTTAATTGAG
* *
77512 TAAAAATAAATATTTAATGATTTAAATTGA
1 TAAAAATAAATATTTAAAG-TTTAAATTAA
* * *
77542 TAAAAATAAATACTTAAAATTTGAATTAA
1 TAAAAATAAATATTTAAAGTTTAAATTAA
*
77571 TAAAAATAAATTTTTGAAAGTTTAA
1 TAAAAATAAATATTT-AAAGTTTAA
77596 TTGATTATAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 21 0.48
30 23 0.52
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (29 bp):
TAAAAATAAATATTTAAAGTTTAAATTAA
Found at i:79361 original size:9 final size:9
Alignment explanation
Indices: 79347--79419 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
79337 AAATTTAATA
79347 TATATAAAT
1 TATATAAAT
79356 TATATAAAT
1 TATATAAAT
*
79365 ATAATATAAAA
1 -T-ATATAAAT
79376 TATA-ATAAT
1 TATATA-AAT
*
79385 TAAATTAAAT
1 TATA-TAAAT
*
79395 AAATATAAAT
1 -TATATAAAT
*
79405 TATATAAAA
1 TATATAAAT
79414 TATATA
1 TATATA
79420 TAAAATAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
8 1 0.02
9 30 0.59
10 10 0.20
11 10 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TATATAAAT
Found at i:79365 original size:34 final size:33
Alignment explanation
Indices: 79326--79401 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 33
79316 ATCAAATAAT
* * *
79326 TAAATAT-TTTAAAATTTAATATATATAAATTATA
1 TAAATATATATAAAATATAATA-AT-TAAATTAAA
79360 TAAATATAATATAAAATATAATAATTAAATTAAA
1 TAAATAT-ATATAAAATATAATAATTAAATTAAA
79394 TAAATATA
1 TAAATATA
79402 AATTATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 1 0.03
34 22 0.59
35 2 0.05
36 12 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TAAATATATATAAAATATAATAATTAAATTAAA
Found at i:79373 original size:20 final size:19
Alignment explanation
Indices: 79343--79419 Score: 77
Period size: 19 Copynumber: 4.0 Consensus size: 19
79333 TTTAAAATTT
*
79343 AATATATATAAATTATATA
1 AATATATATAAAATATATA
79362 AATATAATATAAAATATAATA
1 AATAT-ATATAAAATAT-ATA
* * *
79383 ATTAAAT-TAAATAAATATA
1 AATATATATAAA-ATATATA
79402 AAT-TATATAAAATATATA
1 AATATATATAAAATATATA
79420 TAAAATAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
18 8 0.17
19 18 0.38
20 15 0.32
21 6 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATATATAAAATATATA
Found at i:79401 original size:49 final size:50
Alignment explanation
Indices: 79337--79435 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 50
79327 AAATATTTTA
* * *
79337 AAATTTAATATATATAAATTATAT-AAATATAATATAAAATATAA-TAATT
1 AAATTAAATAAATATAAATTATATAAAATAT-ATATAAAATAAAATTAATT
79386 AAATTAAATAAATATAAATTATATAAAATATATATAAAATAAAATTAATT
1 AAATTAAATAAATATAAATTATATAAAATATATATAAAATAAAATTAATT
79436 TTATACTTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 34 0.76
50 11 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (50 bp):
AAATTAAATAAATATAAATTATATAAAATATATATAAAATAAAATTAATT
Found at i:79402 original size:34 final size:36
Alignment explanation
Indices: 79335--79428 Score: 113
Period size: 34 Copynumber: 2.7 Consensus size: 36
79325 TTAAATATTT
* *
79335 TAAAATTTAATATATATAAATTATATAAATATAATA
1 TAAAATATAATATATATAAATTAAATAAATATAATA
79371 TAAAATATAATA-AT-TAAATTAAATAAATATAA-A
1 TAAAATATAATATATATAAATTAAATAAATATAATA
* * * *
79404 TTATATAAAATATATATAAAATAAA
1 TAAAATATAATATATATAAATTAAA
79429 ATTAATTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 10 0.20
34 19 0.38
35 10 0.20
36 11 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (36 bp):
TAAAATATAATATATATAAATTAAATAAATATAATA
Found at i:79420 original size:20 final size:20
Alignment explanation
Indices: 79345--79423 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
79335 TAAAATTTAA
79345 TATATATAAAT-TATATAAAT
1 TATATA-AAATATATATAAAT
79365 ATAATATAAAATATA-AT-AAT
1 -T-ATATAAAATATATATAAAT
* * *
79385 TAAATTAAATAAATATAAAT
1 TATATAAAATATATATAAAT
79405 TATATAAAATATATATAAA
1 TATATAAAATATATATAAA
79424 ATAAAATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
18 9 0.19
19 3 0.06
20 22 0.46
21 7 0.15
22 7 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATAAAATATATATAAAT
Found at i:79767 original size:21 final size:22
Alignment explanation
Indices: 79735--79778 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
79725 CAGAAATAAT
* *
79735 ATATTAATTTATATTTATAAAA
1 ATATTAATTTATAATTAAAAAA
79757 ATATTAA-TTATAATTAAAAAA
1 ATATTAATTTATAATTAAAAAA
79778 A
1 A
79779 CTTAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATTAATTTATAATTAAAAAA
Found at i:79825 original size:12 final size:12
Alignment explanation
Indices: 79808--79832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79798 TGACTTAAAA
79808 TTAAATAATTAT
1 TTAAATAATTAT
79820 TTAAATAATTAT
1 TTAAATAATTAT
79832 T
1 T
79833 ATTATTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAAATAATTAT
Found at i:79990 original size:29 final size:29
Alignment explanation
Indices: 79937--80013 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
79927 TTTAATTGTG
* * *
79937 TAAAAATAAATATTTAAAAATTCAAATTGA
1 TAAAAATAAAT-TTTTAAAACTCAAATTAA
79967 TAAAAATAAATTTTTAAAACTCAAATTAA
1 TAAAAATAAATTTTTAAAACTCAAATTAA
*
79996 TAACAATAAATTTTTAAA
1 TAAAAATAAATTTTTAAA
80014 GATTTAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 32 0.74
30 11 0.26
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.35
Consensus pattern (29 bp):
TAAAAATAAATTTTTAAAACTCAAATTAA
Found at i:80032 original size:29 final size:28
Alignment explanation
Indices: 79937--80034 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 28
79927 TTTAATTGTG
*
79937 TAAAAATAAATATTTAAAAATTCAAATTGA
1 TAAAAATAAAT-TTTTAAAATT-AAATTGA
* *
79967 TAAAAATAAATTTTTAAAACTCAAATTAA
1 TAAAAATAAATTTTTAAAA-TTAAATTGA
* *
79996 TAACAATAAATTTTTAAAGATTTAATTGA
1 TAAAAATAAATTTTTAAA-ATTAAATTGA
* *
80025 TTATAATAAA
1 TAAAAATAAA
80035 ATAATAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
29 44 0.77
30 13 0.23
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (28 bp):
TAAAAATAAATTTTTAAAATTAAATTGA
Found at i:81250 original size:17 final size:17
Alignment explanation
Indices: 81225--81272 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
81215 TATAAAAGTA
*
81225 TTTTGATATTTTAAAAT
1 TTTTTATATTTTAAAAT
81242 TTTTTATATTTTTTAAAAT
1 TTTTTATA--TTTTAAAAT
*
81261 TATTTATTATTT
1 TTTTTA-TATTT
81273 ATTTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.27
18 3 0.12
19 14 0.54
20 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTATATTTTAAAAT
Found at i:81255 original size:19 final size:20
Alignment explanation
Indices: 81233--81272 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
81223 TATTTTGATA
*
81233 TTTTAAAATTTTTTA-TATT
1 TTTTAAAATTATTTATTATT
81252 TTTTAAAATTATTTATTATT
1 TTTTAAAATTATTTATTATT
81272 T
1 T
81273 ATTTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTAAAATTATTTATTATT
Found at i:83583 original size:16 final size:15
Alignment explanation
Indices: 83525--83585 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
83515 CCGTCCATAT
*
83525 ATTTTTTTTAATTTA
1 ATTTTTTTAAATTTA
* *
83540 GTTTTTTTAAA-TAA
1 ATTTTTTTAAATTTA
*
83554 ATATTTTTAAAAATTTA
1 AT-TTTTT-TAAATTTA
83571 ATTTTTATTAAATTT
1 ATTTTT-TTAAATTT
83586 TAAAATTTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
14 3 0.09
15 14 0.40
16 13 0.37
17 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATTTTTTTAAATTTA
Found at i:84871 original size:2 final size:2
Alignment explanation
Indices: 84866--84910 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
84856 TTTTTTGGTT
*
84866 TA TA TA T- TA T- TA TA T- TA TG TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84904 TA TA TA T
1 TA TA TA T
84911 GACATAGAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 4 0.11
2 33 0.89
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:84881 original size:8 final size:9
Alignment explanation
Indices: 84866--84908 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
84856 TTTTTTGGTT
84866 TATATATTA
1 TATATATTA
84875 T-TATATTA
1 TATATATTA
* *
84883 TGTATATAA
1 TATATATTA
84892 TATATATATA
1 TATATAT-TA
84902 TATATAT
1 TATATAT
84909 ATGACATAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
10 8 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATATATTA
Found at i:84909 original size:8 final size:8
Alignment explanation
Indices: 84866--84910 Score: 53
Period size: 7 Copynumber: 6.1 Consensus size: 8
84856 TTTTTTGGTT
84866 TATATAT-
1 TATATATA
84873 TAT-TATA
1 TATATATA
*
84880 T-TATGTA
1 TATATATA
84887 TATA-ATA
1 TATATATA
84894 TATATATA
1 TATATATA
84902 TATATATA
1 TATATATA
84910 T
1 T
84911 GACATAGAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
6 4 0.12
7 14 0.44
8 14 0.44
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (8 bp):
TATATATA
Found at i:94930 original size:2 final size:2
Alignment explanation
Indices: 94923--94964 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
94913 TGCCATTAAG
* *
94923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94965 GGGATAGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:97898 original size:2 final size:2
Alignment explanation
Indices: 97891--97917 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
97881 AGAGTTATTT
97891 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
97918 CTTTGCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:100882 original size:27 final size:27
Alignment explanation
Indices: 100831--100882 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
100821 AAATCGACTT
* *
100831 AATTTAATTAAAAAATATTTTTATTTA
1 AATTTAATTAAAAAATATATATATTTA
*
100858 AATTTAATTATAAAATATATATATT
1 AATTTAATTAAAAAATATATATATT
100883 AATATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
AATTTAATTAAAAAATATATATATTTA
Found at i:101324 original size:2 final size:2
Alignment explanation
Indices: 101317--101356 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
101307 CATTGAAATC
*
101317 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101357 GAGTTAAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104444 original size:134 final size:135
Alignment explanation
Indices: 104141--104669 Score: 710
Period size: 134 Copynumber: 3.9 Consensus size: 135
104131 AGCAACATAG
* *
104141 ACCCTAACATCATTTCAGCT--AAACCCATAATTGGAAACCGAAAAGCAAGATAAAAATTA-TAA
1 ACCCTAACATCATTTCAGCTAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTACAAA
* * * * * *
104203 GTTAAGCACGAAAATGAATCATAATAAATATAGCTTTAAAGGGTCCCTTGCGTTTCAATTCAAAG
66 G-TAAGCATGAAAATGAATCATAATACAGATAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAG
104268 ACCTAA
130 ACCTAA
* * * *
104274 ACCCTGACATCATTTCAGCTAAAAACCCATAGTTGAAAACAGAAAAGCAAGATAAATATTACAAA
1 ACCCTAACATCATTTCAGCTAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTACAAA
* * *
104339 GTGAGCATGAAAATGAATCATGATACACATAGCTTTAAAGGGTTCCTTCCA-TTCAATTCAAAGA
66 GTAAGCATGAAAATGAATCATAATACAGATAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGA
104403 CCTAA
131 CCTAA
* ** * * * *
104408 ACCCTGACATCATAGCAGCTAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAA
1 ACCCTAACATCATTTCAGCTAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTACAAA
* * * * *
104473 TTAAGTATGAAAATGAATCACAATTCAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGA
66 GTAAGCATGAAAATGAATCATAATACAGATAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGA
104538 CCT-A
131 CCTAA
104542 ACCCTAAACATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATT-CT
1 ACCCT-AACATCATTTCAGCT-AAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTAC-
* * *
104606 AAATTAAGCATGAAAATGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATTCA
63 AAAGTAAGCATGAAAATGAATCATAATACAGATAGCTTTAAAGGGTTCCTTCCATTTCAATTCA
104670 TCATTTCAGT
Statistics
Matches: 346, Mismatches: 43, Indels: 11
0.87 0.11 0.03
Matches are distributed among these distances:
133 19 0.05
134 124 0.36
135 105 0.30
136 98 0.28
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (135 bp):
ACCCTAACATCATTTCAGCTAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTACAAA
GTAAGCATGAAAATGAATCATAATACAGATAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGA
CCTAA
Found at i:104705 original size:116 final size:117
Alignment explanation
Indices: 104550--104784 Score: 357
Period size: 116 Copynumber: 2.0 Consensus size: 117
104540 TAACCCTAAA
*
104550 CATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTCTAAATTAAGC
1 CATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTATAAATTAAGC
* *
104615 ATGAAAATGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATT
66 ATGAAAATGAATCAAAATACAGATAGCTTTAAACGGTTCCTTCCA-TTCAATT
* * * * *
104668 CATCATTTCAG-TTAAAACCCCA-AATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAGGC
1 CATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTATAAATTAAGC
* *
104731 ATGAAAATGAATCAAAATACATATAGCTTTAAAGGGTTCCTTCCATTCAATT
66 ATGAAAATGAATCAAAATACAGATAGCTTTAAACGGTTCCTTCCATTCAATT
104783 CA
1 CA
104785 AAGACCTAAA
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
115 9 0.08
116 78 0.73
117 9 0.08
118 11 0.10
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (117 bp):
CATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTATAAATTAAGC
ATGAAAATGAATCAAAATACAGATAGCTTTAAACGGTTCCTTCCATTCAATT
Found at i:104913 original size:250 final size:253
Alignment explanation
Indices: 104427--105055 Score: 780
Period size: 250 Copynumber: 2.4 Consensus size: 253
104417 TCATAGCAGC
*
104427 TAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAAGTATGAAAATGAATC
1 TAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAAGCATGAAAATGAATC
* * *
104492 ACAATTCAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTAACCCTAAACATCATT
66 AAAATACAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTAACCCTAAACATCATA
* * *
104557 TCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTCTAAATTAAGCATGAAAA
131 GCAGCTAAAAAACCCATAATTGAAAACCGAAAAGAAAGATAAAAATTATAAATTAAGCATGAAAA
* * *
104622 TGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATTCATCATTTCAGT
196 TGAATCACAATACAGACAGCTTTAAACGGTTCCTTCCATTTCAATTCATCATTTCAGT
* * *
104680 TAAAACCCCA-AATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAGGCATGAAAATGAATC
1 TAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAAGCATGAAAATGAATC
* * *
104744 AAAATACATATAGCTTTAAAGGGTTCCTTCCA-TTCAATTCAAAGACCTAAACCCT-GACATCAT
66 AAAATACAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCT-AACCCTAAACATCAT
* * *
104807 AGCAGCT-AAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAAGTATGAAA
130 AGCAGCTAAAAAACCCATAATTGAAAACCGAAAAGAAAGATAAAAATTATAAATTAAGCATGAAA
* *
104871 ATGAATCACAATTCAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTAACCCTAAA
195 ATGAATCACAATACAGACAGCTTTAAACGGTTCCTTCCA--T---TTC--A-A--T-----T---
104936 CATCATTTCAGCT
242 CATCATTTCAG-T
* * * * *
104949 AAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTCTAAATTAAGCATGAAAATGAATC
1 TAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAAGCATGAAAATGAATC
* * * *
105014 ATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATTCA
66 AAAATACAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCA
105056 TCATTTCAGT
Statistics
Matches: 323, Mismatches: 31, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
250 86 0.27
251 28 0.09
252 85 0.26
253 10 0.03
255 3 0.01
257 1 0.00
258 1 0.00
260 1 0.00
265 1 0.00
268 11 0.03
269 9 0.03
270 78 0.24
271 9 0.03
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.26
Consensus pattern (253 bp):
TAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAAGCATGAAAATGAATC
AAAATACAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTAACCCTAAACATCATA
GCAGCTAAAAAACCCATAATTGAAAACCGAAAAGAAAGATAAAAATTATAAATTAAGCATGAAAA
TGAATCACAATACAGACAGCTTTAAACGGTTCCTTCCATTTCAATTCATCATTTCAGT
Found at i:105005 original size:136 final size:135
Alignment explanation
Indices: 104668--105055 Score: 575
Period size: 136 Copynumber: 2.9 Consensus size: 135
104658 CATTTCAATT
* * *
104668 CATCATTTCAGTTAAAACCCCA-AATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAGGCA
1 CATCATTTCAGCTAAAACCCCATAATTGAAAACTGAAAAGCAAGATAAAAATTATAAATTAAGCA
*
104732 TGAAAATGAATCAAAATACATATAGCTTTAAAGGGTTCCTTCCA-TTCAATTCAAAGACCTAAAC
66 TGAAAATGAATCAAAATACAGATAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTAAAC
*
104796 CCTGA
131 CCTAA
** * *
104801 CATCATAGCAGCTAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAAGTA
1 CATCATTTCAGCTAAAACCCCATAATTGAAAACTGAAAAGCAAGATAAAAATTATAAATTAAGCA
* * *
104866 TGAAAATGAATCACAATTCAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCT-AAC
66 TGAAAATGAATCAAAATACAGATAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTAAAC
104930 CCTAAA
131 CCT-AA
* * *
104936 CATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTCTAAATTAAGC
1 CATCATTTCAGCT-AAAACCCCATAATTGAAAACTGAAAAGCAAGATAAAAATTATAAATTAAGC
* * *
105001 ATGAAAATGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATTCA
65 ATGAAAATGAATCAAAATACAGATAGCTTTAAAGGGTTCCTTCCATTTCAATTCA
105056 TCATTTCAGT
Statistics
Matches: 227, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
133 19 0.08
134 84 0.37
135 28 0.12
136 96 0.42
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (135 bp):
CATCATTTCAGCTAAAACCCCATAATTGAAAACTGAAAAGCAAGATAAAAATTATAAATTAAGCA
TGAAAATGAATCAAAATACAGATAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTAAAC
CCTAA
Found at i:105008 original size:386 final size:386
Alignment explanation
Indices: 104281--105166 Score: 1639
Period size: 386 Copynumber: 2.3 Consensus size: 386
104271 TAAACCCTGA
* * * * * * * *
104281 CATCATTTCAGCTAAAAACCCATAGTTGAAAACAGAAAAGCAAGATAAATATTACAAAGT-GAGC
1 CATCATTTCAGTTAAAACCCCA-AATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAG-GC
** *
104345 ATGAAAATGAATCATGATACACATAGCTTTAAAGGGTTCCTTCCATTCAATTCAAAGACCTAAAC
64 ATGAAAATGAATCAAAATACATATAGCTTTAAAGGGTTCCTTCCATTCAATTCAAAGACCTAAAC
104410 CCTGACATCATAGCAGCTAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATT
129 CCTGACATCATAGCAGCTAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATT
104475 AAGTATGAAAATGAATCACAATTCAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACC
194 AAGTATGAAAATGAATCACAATTCAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACC
104540 TAACCCTAAACATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTC
259 TAACCCTAAACATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTC
104605 TAAATTAAGCATGAAAATGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATT
324 TAAATTAAGCATGAAAATGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATT
104668 CATCATTTCAGTTAAAACCCCAAATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAGGCAT
1 CATCATTTCAGTTAAAACCCCAAATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAGGCAT
104733 GAAAATGAATCAAAATACATATAGCTTTAAAGGGTTCCTTCCATTCAATTCAAAGACCTAAACCC
66 GAAAATGAATCAAAATACATATAGCTTTAAAGGGTTCCTTCCATTCAATTCAAAGACCTAAACCC
104798 TGACATCATAGCAGCTAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAA
131 TGACATCATAGCAGCTAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAA
104863 GTATGAAAATGAATCACAATTCAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTA
196 GTATGAAAATGAATCACAATTCAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTA
104928 ACCCTAAACATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTCTA
261 ACCCTAAACATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTCTA
104993 AATTAAGCATGAAAATGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATT
326 AATTAAGCATGAAAATGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATT
105054 CATCATTTCAGTTAAAACCCCAAATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAGGCAT
1 CATCATTTCAGTTAAAACCCCAAATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAGGCAT
105119 GAAAATGAATCAAAATACATATAGCTTTAAAGGGTTCCTTCCAATTCA
66 GAAAATGAATCAAAATACATATAGCTTTAAAGGGTTCCTTCC-ATTCA
105167 TCTAGGGAAT
Statistics
Matches: 486, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
386 460 0.95
387 26 0.05
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (386 bp):
CATCATTTCAGTTAAAACCCCAAATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAGGCAT
GAAAATGAATCAAAATACATATAGCTTTAAAGGGTTCCTTCCATTCAATTCAAAGACCTAAACCC
TGACATCATAGCAGCTAAAACCCCATAATTGAAAACTGAAAAGAAAGATAAAAATTATAAATTAA
GTATGAAAATGAATCACAATTCAGACAGCTTTAAAGGGTTCCTTCCATTTCAATTCAAAGACCTA
ACCCTAAACATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTCTA
AATTAAGCATGAAAATGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATT
Found at i:105091 original size:116 final size:118
Alignment explanation
Indices: 104936--105166 Score: 349
Period size: 116 Copynumber: 2.0 Consensus size: 118
104926 TAACCCTAAA
*
104936 CATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTCTAAATTAAGC
1 CATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTATAAATTAAGC
* * *
105001 ATGAAAATGAATCATAATACAGATATCTTTAAACGGTTCCTTCCATTTCAATT
66 ATGAAAATGAATCAAAATACAGATAGCTTTAAACGGTTCCTTCCAATTCAATT
* * * * *
105054 CATCATTTCAG-TTAAAACCCCA-AATTGAAAACTGAAAAGCAGGATAAAAATTATAAATTAGGC
1 CATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTATAAATTAAGC
* *
105117 ATGAAAATGAATCAAAATACATATAGCTTTAAAGGGTTCCTTCCAATTCA
66 ATGAAAATGAATCAAAATACAGATAGCTTTAAACGGTTCCTTCCAATTCA
105167 TCTAGGGAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
116 82 0.80
117 9 0.09
118 11 0.11
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (118 bp):
CATCATTTCAGCTAAAAAACCCATAATTGAAAACCGAAAAGCAAGATAAAAATTATAAATTAAGC
ATGAAAATGAATCAAAATACAGATAGCTTTAAACGGTTCCTTCCAATTCAATT
Found at i:105727 original size:25 final size:23
Alignment explanation
Indices: 105695--105744 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
105685 TTTAAGTTAT
105695 TTTAATTTTTAAAAATTAGATTAAA
1 TTTAATTTTTAAAAA-TA-ATTAAA
*
105720 TTTAATTTTTAAATATAATTAAA
1 TTTAATTTTTAAAAATAATTAAA
105743 TT
1 TT
105745 AAGTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.33
24 2 0.08
25 14 0.58
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTAATTTTTAAAAATAATTAAA
Found at i:105853 original size:14 final size:15
Alignment explanation
Indices: 105835--105904 Score: 62
Period size: 14 Copynumber: 5.0 Consensus size: 15
105825 AGATTTAATA
105835 ATAAATATTT-TTAT
1 ATAAATATTTATTAT
*
105849 TTAAAT-TTTATTAT
1 ATAAATATTTATTAT
105863 ATAAATA-TTA--AT
1 ATAAATATTTATTAT
*
105875 ATAAA-ATTTATTTT
1 ATAAATATTTATTAT
*
105889 TTAAATATTTTATTAT
1 ATAAATA-TTTATTAT
105905 TTTATAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
11 1 0.02
12 10 0.23
13 3 0.07
14 22 0.50
15 1 0.02
16 7 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATAAATATTTATTAT
Found at i:106661 original size:24 final size:23
Alignment explanation
Indices: 106619--106663 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
106609 AGAACTTTAA
*
106619 TATTTAAAAGATAAAAAAAATAT
1 TATTTAAAAAATAAAAAAAATAT
*
106642 TATTTATAAAAATAATAAAAAT
1 TATTTA-AAAAATAAAAAAAAT
106664 TAAAAAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TATTTAAAAAATAAAAAAAATAT
Found at i:106729 original size:52 final size:51
Alignment explanation
Indices: 106640--107107 Score: 322
Period size: 52 Copynumber: 9.4 Consensus size: 51
106630 TAAAAAAAAT
* * *
106640 ATTA-TTTATAAAAATAATAAAAATTAAAAAACTATTTTTTATTAAATCTTAA
1 ATTACTTTTTAAATATAAT-AAAATTAAAAAA-TATTTTATATTAAATCTTAA
*
106692 ATTACTTTTTGAAATATAATAAAATTAAAAAATATTTTATATTAAATTTTAA
1 ATTACTTTTT-AAATATAATAAAATTAAAAAATATTTTATATTAAATCTTAA
*
106744 ATTTGAC-TTTTAAATAATAA-AAAATT-AAAAATATTTTATAATAAAT-TTAAA
1 A-TT-ACTTTTTAAAT-ATAATAAAATTAAAAAATATTTTATATTAAATCTT-AA
* * * *
106795 ATTACTATTTAAA-AAAATAAAAAATAAAAATATATTTTATATTAAATCTCAA
1 ATTACTTTTTAAATATAAT-AAAATTAAAAA-ATATTTTATATTAAATCTTAA
* * * * *
106847 ATT-TTTATTTAAAAAATAATAAAAATAAAAAA-A---TA-CTT--ATCTCAA
1 ATTACTT-TTT-AAATATAATAAAATTAAAAAATATTTTATATTAAATCTTAA
* * * * * *
106892 ATTAATATTTAAAAATTAATAAAAATTTAAAATATATTTTATGTT-AATCTTGA
1 ATTACTTTTTAAATA-TAAT-AAAA-TTAAAAAATATTTTATATTAAATCTTAA
* ** *
106945 ATTAGTACTT-AA-A-AAT--AA-TAAAAATATATTTTATATTAAATCTTGA
1 ATTACTTTTTAAATATAATAAAATTAAAAA-ATATTTTATATTAAATCTTAA
* * * * *
106991 ATTACTATTTAAAAAATAATAAAAAT-AAAAATATTTTATATTCAATCTTGA
1 ATTACT-TTTTAAATATAATAAAATTAAAAAATATTTTATATTAAATCTTAA
* *
107042 ATTACTTTTT-AATAGAATAAAAATT-AAAAATATTTTATATTTAATCTTAA
1 ATTACTTTTTAAATATAAT-AAAATTAAAAAATATTTTATATTAAATCTTAA
107092 ATTA-TTTTTAAA-ATAA
1 ATTACTTTTTAAATATAA
107108 GTATTGGGTT
Statistics
Matches: 343, Mismatches: 37, Indels: 75
0.75 0.08 0.16
Matches are distributed among these distances:
44 10 0.03
45 28 0.08
46 20 0.06
47 9 0.03
48 8 0.02
49 20 0.06
50 55 0.16
51 57 0.17
52 67 0.20
53 55 0.16
54 14 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (51 bp):
ATTACTTTTTAAATATAATAAAATTAAAAAATATTTTATATTAAATCTTAA
Found at i:106800 original size:103 final size:104
Alignment explanation
Indices: 106651--107104 Score: 299
Period size: 103 Copynumber: 4.5 Consensus size: 104
106641 TTATTTATAA
* * * *
106651 AAATAATAAAAATTAAAAAACTATTTTTTATTAAATCTTAAATTACTTTTTGAAATATAAT-AAA
1 AAATAATAAAAATTAAAAAACTATTTTATAATAAATCTTAAATTACTATTT-AAA-AAAATAAAA
* * *
106715 ATTAAAAA-ATATTTTATATTAAATTTTAAATTTGACTTTT
64 AATAAAAATATATTTTATATTAAATCTCAAATTTGACTTTT
106755 AAATAATAAAAAATT-AAAAA-TATTTTATAATAAAT-TTAAAATTACTATTTAAAAAAATAAAA
1 AAATAAT-AAAAATTAAAAAACTATTTTATAATAAATCTT-AAATTACTATTTAAAAAAATAAAA
* *
106817 AATAAAAATATATTTTATATTAAATCTCAAATTTTTA-TTTAAA
64 AATAAAAATATATTTTATATTAAATCTCAAA-TTTGACTTT--T
* *
106860 AAATAATAAAAA-TAAAAAA--A---TACT--T--ATCTCAAATTAATATTTAAAAATTAATAAA
1 AAATAATAAAAATTAAAAAACTATTTTA-TAATAAATCTTAAATTACTATTTAAAAA--AATAAA
* * * ** *
106915 AATTTAAAATATATTTTATGTT-AATCTTGAATTAGTAC--TT
63 AAATAAAAATATATTTTATATTAAATCTCAAATTTG-ACTTTT
* *
106955 AAA-AAT---AA-TAAAAATA-TATTTTATATTAAATCTTGAATTACTATTT-AAAAAATAATAA
1 AAATAATAAAAATTAAAAA-ACTATTTTATAATAAATCTTAAATTACTATTTAAAAAAATAA-AA
* **
107013 AA-ATAAAA-ATATTTTATATTCAATCTTGAA-TT-ACTTTTT
64 AATA-AAAATATATTTTATATTAAATCTCAAATTTGAC-TTTT
* * * *
107052 AATAGAATAAAAATT-AAAAA-TATTTTATATTTAATCTTAAATTA-TTTTTAAAA
1 AA-ATAATAAAAATTAAAAAACTATTTTATAATAAATCTTAAATTACTATTTAAAA
107105 TAAGTATTGG
Statistics
Matches: 285, Mismatches: 29, Indels: 75
0.73 0.07 0.19
Matches are distributed among these distances:
91 8 0.03
92 1 0.00
93 1 0.00
94 5 0.02
95 4 0.01
96 19 0.07
97 42 0.15
98 14 0.05
99 43 0.15
100 6 0.02
101 31 0.11
102 21 0.07
103 50 0.18
104 26 0.09
105 14 0.05
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (104 bp):
AAATAATAAAAATTAAAAAACTATTTTATAATAAATCTTAAATTACTATTTAAAAAAATAAAAAA
TAAAAATATATTTTATATTAAATCTCAAATTTGACTTTT
Found at i:106861 original size:51 final size:50
Alignment explanation
Indices: 106639--107104 Score: 333
Period size: 51 Copynumber: 9.2 Consensus size: 50
106629 ATAAAAAAAA
*
106639 TATTATTTATAAAAATAATAAAAATTAAAAAACTATTTTTTATTAAATCTTAAAT
1 TATTATTTA-AAAAAT-A-AAAAA-TAAAAAA-TATTTTATATTAAATCTTAAAT
* * *
106694 TACTT-TTTGAAATATAATAAAATTAAAAAATATTTTATATTAAATTTTAAAT
1 TA-TTATTTAAAAAATAA-AAAA-TAAAAAATATTTTATATTAAATCTTAAAT
* * * *
106746 T-TGACTTTTAAATAATAAAAAATTAAAAATATTTTATAATAAAT-TTAAAAT
1 TATTA--TTTAAAAAATAAAAAATAAAAAATATTTTATATTAAATCTT-AAAT
* *
106797 TACTATTTAAAAAAATAAAAAATAAAAATATATTTTATATTAAATCTCAAAT
1 TATTATTT-AAAAAATAAAAAATAAAAA-ATATTTTATATTAAATCTTAAAT
* * *
106849 TTTTATTTAAAAAATAATAAAAATAAAAAA-A---TA-CTT--ATCTCAAAT
1 TATTATTTAAAAAAT-A-AAAAATAAAAAATATTTTATATTAAATCTTAAAT
* * * * *
106894 TAATATTTAAAAATTAATAAAAATTTAAAATATATTTTATGTT-AATCTTGAAT
1 TATTATTT-AAAA--AATAAAAA-ATAAAAAATATTTTATATTAAATCTTAAAT
* * *
106947 TAGTACTT-AAAAAT----AATAAAAATATATTTTATATTAAATCTTGAAT
1 TATTATTTAAAAAATAAAAAATAAAAA-ATATTTTATATTAAATCTTAAAT
* * *
106993 TACTATTTAAAAAATAATAAAA-ATAAAAATATTTTATATTCAATCTTGAAT
1 TATTATTTAAAAAATAA-AAAATA-AAAAATATTTTATATTAAATCTTAAAT
* * *
107044 TACTT-TTTAATAGAAT-AAAAATTAAAAATATTTTATATTTAATCTTAAAT
1 TA-TTATTTAA-AAAATAAAAAATAAAAAATATTTTATATTAAATCTTAAAT
107094 TATT-TTTAAAA
1 TATTATTTAAAA
107105 TAAGTATTGG
Statistics
Matches: 337, Mismatches: 40, Indels: 75
0.75 0.09 0.17
Matches are distributed among these distances:
44 5 0.01
45 27 0.08
46 24 0.07
47 15 0.04
48 7 0.02
49 10 0.03
50 37 0.11
51 86 0.26
52 67 0.20
53 47 0.14
54 5 0.01
55 5 0.01
56 2 0.01
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (50 bp):
TATTATTTAAAAAATAAAAAATAAAAAATATTTTATATTAAATCTTAAAT
Done.