Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold31
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: 2401195
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 123915 characters in sequence are not A, C, G, or T
File 1 of 16
Found at i:569 original size:18 final size:19
Alignment explanation
Indices: 530--571 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
520 ATGTCCTCGT
* *
530 TTTTTATTTTGTTGTTCTC
1 TTTTTATTTTGCTGTTCAC
549 TTTTTATTTTGCT-TTCAC
1 TTTTTATTTTGCTGTTCAC
567 TTTTT
1 TTTTT
572 TTCTTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTTATTTTGCTGTTCAC
Found at i:1397 original size:27 final size:27
Alignment explanation
Indices: 1361--1803 Score: 634
Period size: 27 Copynumber: 16.0 Consensus size: 27
1351 GTGGTATTTT
* *
1361 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
1389 TTTTTAAGTCCACAACTCTGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1416 CTTTTAAGTCCACAACTCCGTGGCACCGCACC
1 CTTTTAAGTCCACAACTCCGT-G----GCACC
* *
1448 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1476 CTTTTAATTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1503 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1531 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1558 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1585 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1612 CTTTTAAGTCCACAATTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1639 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1667 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1695 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1722 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1749 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * * *
1776 GTTTTAAATTCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1803 C
1 C
1804 ATTTCAAAGC
Statistics
Matches: 378, Mismatches: 29, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
27 247 0.65
28 105 0.28
31 1 0.00
32 25 0.07
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1690 original size:164 final size:164
Alignment explanation
Indices: 1361--1818 Score: 666
Period size: 164 Copynumber: 2.8 Consensus size: 164
1351 GTGGTATTTT
* * * * *
1361 CTTTTAAAGTCCACAACTCTGTGGCATCTTTTTAAGTCCACAACTCTGCGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * * *
1426 CACAACTCCGTGGCACCGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTT-AATTCCACA
65 CACAACTCCGT-G----GCACCCTTTTAAGTCCACAACTCTGTGGCA-CCCTTTTAAAGTCCACA
*
1490 ACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
124 ACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
*
1531 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1596 ACAACTCCGTGGCACCCTTTTAAGTCCACAATTCTGTGGCACCCTTTTAAAGTCCACAACTCCGT
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGT
1661 GGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
131 GGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
*
1695 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * * * * *
1760 ACAACTCCGTGGCATCGTTTTAAATTCACAACTCTGTGGCACCCATTTCAAAGCCCACA
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCC-TTTTAAAGTCCACA
1819 CAAGTCGGTG
Statistics
Matches: 265, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
163 6 0.02
164 177 0.67
165 12 0.05
168 1 0.00
169 64 0.24
170 5 0.02
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (164 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGT
GGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
Found at i:1934 original size:32 final size:32
Alignment explanation
Indices: 1786--2141 Score: 574
Period size: 32 Copynumber: 11.5 Consensus size: 32
1776 GTTTTAAATT
* * *
1786 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1817 CACAAGTCGGTGGCAACCCATTCC-AAG-CCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1847 CACAA--C-GTGGC-A-CCA-T-C-AAGCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1871 CACAAGTCGGTGGCAACCCATT-CAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1902 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1934 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1966 CACAAGTCGGTGGCAACCCATTCCAAAGCCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAG-CCCA
1999 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
2031 CATAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
2063 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
2095 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
2127 CACAAGTCGGTGGCA
1 CACAAGTCGGTGGCA
2142 CATCAAGCCA
Statistics
Matches: 307, Mismatches: 7, Indels: 21
0.92 0.02 0.06
Matches are distributed among these distances:
23 4 0.01
24 9 0.03
25 3 0.01
26 2 0.01
27 10 0.03
28 2 0.01
29 3 0.01
30 10 0.03
31 44 0.14
32 188 0.61
33 32 0.10
ACGTcount: A:0.31, C:0.37, G:0.19, T:0.13
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
Found at i:1986 original size:64 final size:64
Alignment explanation
Indices: 1786--2518 Score: 708
Period size: 64 Copynumber: 11.4 Consensus size: 64
1776 GTTTTAAATT
* *
1786 CACAACTCTGTGGC-ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCC-AAG-CCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1847 CACAA--C-GTGGC-A-CCA--TC-AAGCCCACACAAGTCGGTGGCAACCCATT-CAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1902 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1966 CACAAGTCGGTGGCAACCCATTCCAAAGCCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAG-CCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * *
2031 CATAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * ** *
2095 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGC-ACATCAAGCCAAGGCACC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC-CCATTCCAAAGC-CC
2159 A
64 A
* * ** * ** ** ** **** ** *
2160 TTTCA-AAGCCCACACAAGTTGGTGGCAACCCATTTTAAAGCC-CACACAAGTCG-GTGGCAACC
1 ---CACAAG-----TC--GGT-G-GCAACCCATTTCAAAGCCCACACA-AGTCGGTG-GCAACCC
* *** **
2222 CTTTTCAAAGCC-
52 ATTCCAAAGCCCA
*
2234 CACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCC
1 CAC--AAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCC
2299 A
64 A
* *
2300 CACAAGTCGGTGGCAACCCATTTCAAAGCACACACAAGTCGGTGGCAACCCATTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* ** **
2364 CACAAGTAGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTTTTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* ** **
2428 CACAAGTCGGTGGCAACCCATTTAAAAGCCCATGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * *
2492 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
2519 TCACCATTTT
Statistics
Matches: 557, Mismatches: 80, Indels: 67
0.79 0.11 0.10
Matches are distributed among these distances:
53 1 0.00
54 32 0.06
55 10 0.02
57 4 0.01
58 11 0.02
59 2 0.00
60 3 0.01
61 5 0.01
62 1 0.00
63 31 0.06
64 320 0.57
65 89 0.16
66 9 0.02
67 5 0.01
68 2 0.00
69 1 0.00
71 2 0.00
72 1 0.00
74 5 0.01
75 8 0.01
76 14 0.03
77 1 0.00
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.15
Consensus pattern (64 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
Found at i:2193 original size:32 final size:32
Alignment explanation
Indices: 2157--2518 Score: 573
Period size: 32 Copynumber: 11.3 Consensus size: 32
2147 AGCCAAGGCA
*
2157 CCATTTCAAAGCCCACACAAGTTGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
2189 CCATTTTAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
2221 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
2253 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
2285 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
2317 CCATTTCAAAGCACACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
2349 CCA-TTCTAAAGCCCACACAAGTAGGTGGCAAC
1 CCATTTC-AAAGCCCACACAAGTCGGTGGCAAC
2381 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
** *
2413 CTTTTTGAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
2445 CCATTTAAAAGCCCATGCAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
2477 CCATTTAAAAGCCCACGCAAGTCAGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
2509 CCTTTTCAAA
1 CCATTTCAAA
2519 TCACCATTTT
Statistics
Matches: 307, Mismatches: 21, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
31 3 0.01
32 301 0.98
33 3 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (32 bp):
CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:7612 original size:28 final size:28
Alignment explanation
Indices: 7173--9366 Score: 1274
Period size: 27 Copynumber: 77.3 Consensus size: 28
7163 AAAATGGTGA
7173 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTG-AAAGGG-TGCCACTGACTTG--TGGGC
* *
7205 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
*
7237 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAAGGG-TGCCACTGAC-T-TGTGGGC
*
7269 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
*
7301 TTTGGAATGGGTTGCCACTGACTTGTGTGGGC
1 TTT-GAAAGGG-TGCCACTGAC-T-TGTGGGC
*
7333 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
*
7365 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
*
7397 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
*
7429 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAAGGG-TGCCACTGAC-T-TGTGGGC
*
7461 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
*
7493 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
*
7525 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
* *
7557 TTTGAAATAGGTTGCCACCGACTTGTGGGC
1 TTTG-AA-AGGGTGCCACTGACTTGTGGGC
* *
7587 TTTGAAAGAGTGCCACTGACTCGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
7615 TTTGAAAAGGTGCCACTGACTCGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
*
7643 TTTAAAAGGAGTGCCACTGACTTGTGTGGGC
1 TTTGAAAGG-GTGCCACTGAC-T-TGTGGGC
* * *
7674 TTTGAAAGGATGCCATTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
7702 TTTGAAAGAGTGCCATTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
7730 TTCGCAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
7758 TTCGAAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
7786 TCTGAAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
*
7814 TTTGAAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
*
7842 TTTGAAAAGGTGCCACTGACTTGCGTGGGC
1 TTTGAAAGGGTGCCACTGACTT--GTGGGC
* *
7872 TTTAAAAAGAGTGCCACTGACTTGTGTGGGC
1 TTT-GAAAGGGTGCCACTGAC-T-TGTGGGC
7903 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
7931 TTTAAAAGAGTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
*
7959 -TTCACAAGGGTGCCACTGACTTGTGGGC
1 TTTGA-AAGGGTGCCACTGACTTGTGGGC
*
7987 TTCGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
8015 TCTGAAAGAGTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
8043 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
8071 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGC
*
8100 TTTGAAAAGGGTGCCACTGATTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGC
*
8129 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGC
* *
8158 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGC
* * * * * *
8187 -TTAAAAGAGATGCCACGGAGTTATGGAC
1 TTTGAAAG-GGTGCCACTGACTTGTGGGC
* * * *
8215 -TTAAAAGGGTGCCACGGAGTTGTGGTC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
8242 -TTAAAAGGATGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
8269 -TTAAAAAGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8296 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8323 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
** * * *
8350 -TAAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8377 TTTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8405 -TTAAAAGGGTGCCACGGAGTTGTGGTC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8432 -TTAAAAGGGATGCCACGGAGTTGTGGAC
1 TTTGAAAGGG-TGCCACTGACTTGTGGGC
* * * *
8460 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8487 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8514 -TTAAAAGGGTGCCACAGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8541 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* ** * * *
8568 -TTAAAAGAATGCCACAGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* ** * *
8595 TTTAAAAGAATGCCAC-GAAGTTGTGGAC
1 TTTGAAAGGGTGCCACTG-ACTTGTGGGC
* * * *
8623 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8650 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8677 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* ** * * *
8704 -TTAAAAGAATGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8731 TTTAAAAGGATGCCAC-GATGTTGTGGAC
1 TTTGAAAGGGTGCCACTGA-CTTGTGGGC
* * * *
8759 -TTAAAAGGGATGCCACAGAGTTGTGGAC
1 TTTGAAAGGG-TGCCACTGACTTGTGGGC
* * * *
8787 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8814 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8841 -TTAAAAGGGTGCCACAGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* ** * * *
8868 -TTAAAAGAATGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8895 TTTAAAAGGATGCCAC-GAAGTTGTGGAC
1 TTTGAAAGGGTGCCACTG-ACTTGTGGGC
* * * *
8923 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
8950 -TTAAAAGGGTGCCACAGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
8977 -TTAAAAGGGTGGCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
9004 TTTAAAAGGGTGCTACAGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
9032 -TTAAAAGAGATGCCA-TGGAGTTATGGAC
1 TTTGAAAG-GGTGCCACT-GACTTGTGGGC
* * *
9060 -TTAAAAGGGTGCCA-TGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACT-GACTTGTGGGC
* * * *
9087 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
** * * * *
9114 TTAAAAAGGATGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
9142 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
9169 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
9196 -TTAAAAGGGTGCCACAGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
9223 TTTAAAAGGATGCCAC-GAAGTTGTGGAC
1 TTTGAAAGGGTGCCACTG-ACTTGTGGGC
* * * *
9251 -TTAAAAGGGATGCCACAGAGTTGTGGAC
1 TTTGAAAGGG-TGCCACTGACTTGTGGGC
* * * *
9279 -TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
9306 -TTAAAAGGGTGCCACGGAGTTATGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
9333 -TTAAAAGGGTGCCAC-GAAGTTGTGGGC
1 TTTGAAAGGGTGCCACTG-ACTTGTGGGC
9360 TTT-AAAG
1 TTTGAAAG
9367 AGGTCACAGT
Statistics
Matches: 1992, Mismatches: 124, Indels: 97
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.00
27 799 0.40
28 630 0.32
29 125 0.06
30 44 0.02
31 50 0.03
32 325 0.16
33 15 0.01
34 3 0.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (28 bp):
TTTGAAAGGGTGCCACTGACTTGTGGGC
Found at i:8235 original size:27 final size:27
Alignment explanation
Indices: 7907--9366 Score: 1950
Period size: 27 Copynumber: 53.1 Consensus size: 27
7897 GTGGGCTTTG
* * *
7907 AAAGGGTGCCACTGACTTGTGGGCTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* ** * *
7935 AAAGAGTGCCACTAACTTGTGGGCTTCA
1 AAAGGGTGCCACGGAGTTGTGGACTT-A
* * * * *
7963 CAAGGGTGCCACTGACTTGTGGGCTTCG
1 AAAGGGTGCCACGGAGTTGTGGACTT-A
* * * *
7991 AAAGGGTGCCACTGACTTGTGGGCTCTG
1 AAAGGGTGCCACGGAGTTGTGGACT-TA
* ** * * *
8019 AAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* * *
8047 AAAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-A
* * * *
8076 AAAGAGTGCCACTGATTTGTGGGCTTTGA
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-A
* * *
8105 AAAGGGTGCCACTGATTTGTGGGCTTTGA
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-A
* * * *
8134 AAAGAGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-A
* * * *
8163 AAAGAGTGCCACTGATTTGTGGGCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
8190 AAAGAGATGCCACGGAGTTATGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
*
8218 AAAGGGTGCCACGGAGTTGTGGTCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
8245 AAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
8272 AAAAGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8299 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
8326 AAAGGGTGCCACGGAGTTGTGGACTAA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8353 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
8381 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
8408 AAAGGGTGCCACGGAGTTGTGGTCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8435 AAAGGGATGCCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
8463 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8490 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
8517 AAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8544 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
** *
8571 AAAGAATGCCACAGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
** *
8599 AAAGAATGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8626 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8653 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8680 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
**
8707 AAAGAATGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
8735 AAAGGATGCCAC-GATGTTGTGGACTTA
1 AAAGGGTGCCACGGA-GTTGTGGACTTA
*
8762 AAAGGGATGCCACAGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
8790 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8817 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
8844 AAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
**
8871 AAAGAATGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
8899 AAAGGATGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
8926 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
8953 AAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
8980 AAAGGGTGGCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
9008 AAAGGGTGCTACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * *
9035 AAAGAGATGCCATGGAGTTATGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
*
9063 AAAGGGTGCCATGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
9090 AAAGGGTGCCACGGAGTTGTGGACTTAA
1 AAAGGGTGCCACGGAGTTGTGGACTT-A
*
9118 AAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
9145 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
9172 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
9199 AAAGGGTGCCACAGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
9227 AAAGGATGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
9254 AAAGGGATGCCACAGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
9282 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
9309 AAAGGGTGCCACGGAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * *
9336 AAAGGGTGCCACGAAGTTGTGGGCTTT
1 AAAGGGTGCCACGGAGTTGTGGACTTA
9363 AAAG
1 AAAG
9367 AGGTCACAGT
Statistics
Matches: 1326, Mismatches: 88, Indels: 37
0.91 0.06 0.03
Matches are distributed among these distances:
27 803 0.61
28 414 0.31
29 109 0.08
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (27 bp):
AAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:8300 original size:109 final size:108
Alignment explanation
Indices: 7907--9366 Score: 1918
Period size: 109 Copynumber: 13.3 Consensus size: 108
7897 GTGGGCTTTG
* * * * * ** * * *
7907 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTAACTTGTGGGCTTCACAAGGGTGC
1 AAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGC
* * * * * * * *
7972 CACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTG
64 CACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACT-TA
** * * * * * * *
8019 AAA-GAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 AAAGGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGT
* * * * * *
8083 GCCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGATTTGTGGGCTTTGA
62 GCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC-TT-A
* * * * * * * *
8134 AAA-GAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTAAAAGAGAT
1 AAAGGA-TGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGT
* *
8198 GCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTA
62 GCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
*
8245 AAAGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
*
8310 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAA
66 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
*
8353 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
8418 ACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTA
*
8463 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
*
8528 CAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
66 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * ** *
8571 AAAGAATGCCACAGAGTTGTGGACTTTAAAAGAATGCCACGAAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
8636 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* ** *
8680 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAAGGATGCC
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCC
*
8745 AC-GATGTTGTGGACTTAAAAGGGATGCCACAGAGTTGTGGACTTA
65 ACGGA-GTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTA
*
8790 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
* **
8855 CAGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTA
66 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
*
8899 AAAGGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
* *
8964 CAGAGTTGTGGACTTAAAAGGGTGGCACGGAGTTGTGGACTTTA
66 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
* * * * * *
9008 AAAGGGTGCTACAGAGTTGTGGACTTAAAAGAGATGCCATGGAGTTATGGACTTAAAAGGGTGCC
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
9073 ATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
65 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-A
9118 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
*
9183 CGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTA
66 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
9227 AAAGGATGCCACGAAGTTGTGGACTTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
9292 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTA
65 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
9336 AAAGGGTGCCACGAAGTTGTGGGCTTTAAAG
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAG
9367 AGGTCACAGT
Statistics
Matches: 1235, Mismatches: 93, Indels: 43
0.90 0.07 0.03
Matches are distributed among these distances:
108 156 0.13
109 581 0.47
110 285 0.23
111 20 0.02
112 49 0.04
113 46 0.04
114 33 0.03
115 43 0.03
116 22 0.02
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (108 bp):
AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:10405 original size:10 final size:10
Alignment explanation
Indices: 10390--10417 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
10380 AAAGGGTTTT
10390 TTTTTTTTGG
1 TTTTTTTTGG
10400 TTTTTTTTGG
1 TTTTTTTTGG
10410 TTTTTTTT
1 TTTTTTTT
10418 TTAGGATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (10 bp):
TTTTTTTTGG
Found at i:16618 original size:23 final size:23
Alignment explanation
Indices: 16569--16619 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
16559 AATATTTTTT
* * *
16569 ATTTTTTAAAACAAATAAAGATC
1 ATTTTTTAAAACAAAAAAACATA
16592 ATTTTTTAAAA-AAAAAAACATA
1 ATTTTTTAAAACAAAAAAACATA
*
16614 AATTTT
1 ATTTTT
16620 GAACTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (23 bp):
ATTTTTTAAAACAAAAAAACATA
Found at i:17167 original size:17 final size:17
Alignment explanation
Indices: 17145--17200 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
17135 ATTTCATATT
17145 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
* *
17162 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTTTTTTTTC
** * *
17179 TTCATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
17196 TTTTT
1 TTTTT
17201 TACCTAACTC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:22636 original size:13 final size:12
Alignment explanation
Indices: 22618--22650 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
22608 GTGTTTCTTC
22618 TTTGTTTTGCTTT
1 TTTGTTTTG-TTT
22631 TTTGTTTTGTTT
1 TTTGTTTTGTTT
22643 TTT-TTTTG
1 TTTGTTTTG
22651 GAAAAGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 6 0.30
13 9 0.45
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (12 bp):
TTTGTTTTGTTT
Found at i:22913 original size:5 final size:5
Alignment explanation
Indices: 22903--22935 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
22893 TCTGTGTGTT
22903 TTTTG TTTTG TTTTG TTTTG TTTT- TTTT- TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
22936 ACTTTTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:29024 original size:13 final size:13
Alignment explanation
Indices: 28980--29029 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
28970 TAAAATTTTT
*
28980 TAAAAAT-AGTAA
1 TAAAAATAAATAA
28992 TAAAAA-AGAA-AA
1 TAAAAATA-AATAA
*
29004 TAACAATAAATAA
1 TAAAAATAAATAA
29017 TAAAAATAAATAA
1 TAAAAATAAATAA
29030 ATATCTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 15 0.48
13 16 0.52
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (13 bp):
TAAAAATAAATAA
Found at i:33391 original size:108 final size:106
Alignment explanation
Indices: 33183--33379 Score: 245
Period size: 108 Copynumber: 1.8 Consensus size: 106
33173 AATATGCAAT
* * *
33183 ATTTAATGATTTAAAAGACGTTACAACTTCATATATGTCATGTATGTTAGCAACATATCATACTT
1 ATTTAATGAATTAAAAGACGTTACAACTTCATAAATGTCATGTATGTTAG-AACATATCACACTT
* *
33248 AATTTACCATATAATAATTAGGTAGGTAGATTTTTTTTCAAC
65 AATTTACCATATAATAATTAGGAAAGTAGATTTTTTTTCAAC
* * * * * *
33290 ATTTAATGAAATTGAAAGACGTTATAATTTCATAAATGTCATGTATGTT-GATGACGTGTTACAC
1 ATTTAATG-AATTAAAAGACGTTACAACTTCATAAATGTCATGTATGTTAGA--ACATATCACAC
33354 TTAATTTACCATATAATAATT-GGAAA
63 TTAATTTACCATATAATAATTAGGAAA
33380 ATTAATTTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
106 1 0.01
107 12 0.16
108 63 0.83
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.39
Consensus pattern (106 bp):
ATTTAATGAATTAAAAGACGTTACAACTTCATAAATGTCATGTATGTTAGAACATATCACACTTA
ATTTACCATATAATAATTAGGAAAGTAGATTTTTTTTCAAC
Found at i:33566 original size:6 final size:6
Alignment explanation
Indices: 33549--33586 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
33539 AAACATTAAT
* *
33549 ATATAA TTATAA ACATAA ATATAA ATATAA ATATAA AT
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA AT
33587 CTATAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:33572 original size:18 final size:18
Alignment explanation
Indices: 33525--33586 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
33515 CTTTATATAA
*
33525 ATAAATA-AATATAAAAAC
1 ATAAATATAAT-TATAAAC
33543 ATTAATATATAATTATAAAC
1 A-TAA-ATATAATTATAAAC
* *
33563 ATAAATATAAATATAAAT
1 ATAAATATAATTATAAAC
33581 ATAAAT
1 ATAAAT
33587 CTATAATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 19 0.50
19 6 0.16
20 10 0.26
21 3 0.08
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATATAATTATAAAC
Found at i:33586 original size:12 final size:12
Alignment explanation
Indices: 33519--33586 Score: 61
Period size: 12 Copynumber: 5.7 Consensus size: 12
33509 AAATATCTTT
33519 ATATAAATAAATAA
1 ATATAAAT--ATAA
*
33533 ATATAAA-A-AC
1 ATATAAATATAA
33543 AT-TAATATATAA
1 ATATAA-ATATAA
* *
33555 TTATAAACATAA
1 ATATAAATATAA
33567 ATATAAATATAA
1 ATATAAATATAA
33579 ATATAAAT
1 ATATAAAT
33587 CTATAATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
9 3 0.07
10 4 0.09
11 2 0.05
12 25 0.57
13 3 0.07
14 7 0.16
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATAAATATAA
Found at i:34073 original size:13 final size:14
Alignment explanation
Indices: 34021--34090 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 14
34011 AATGCGAAAA
* * *
34021 TAATTTAATAAATA
1 TAATATAATATATT
*
34035 TAATATAATATGTT
1 TAATATAATATATT
*
34049 TAA-ATAAGATATT
1 TAATATAATATATT
*
34062 TAATAT-ATATATA
1 TAATATAATATATT
*
34075 TATATATATTATATT
1 TA-ATATAATATATT
34090 T
1 T
34091 TTGTTCATGC
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
13 18 0.42
14 19 0.44
15 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TAATATAATATATT
Found at i:34402 original size:3 final size:3
Alignment explanation
Indices: 34394--34419 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34384 CCTTTAAGTG
34394 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
34420 AAACTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:39441 original size:20 final size:20
Alignment explanation
Indices: 39416--39541 Score: 128
Period size: 20 Copynumber: 5.8 Consensus size: 20
39406 TTTTCACAAT
39416 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
39436 TTGTATCGATATATTGTTCA
1 TTGTATCGATACATTGTTCA
39456 TTGTATCGATACATTCTGGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
*
39484 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
39505 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
39525 TTGTATCGATACATTGT
1 TTGTATCGATACATTGT
39542 ATCGATACAT
Statistics
Matches: 89, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
20 63 0.71
21 4 0.04
22 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
27 1 0.01
28 3 0.03
29 12 0.13
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:39539 original size:13 final size:13
Alignment explanation
Indices: 39523--39552 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
39513 ATACATTGCT
39523 CATTGTATCGATA
1 CATTGTATCGATA
39536 CATTGTATCGATA
1 CATTGTATCGATA
39549 CATT
1 CATT
39553 ACCCAGATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:39565 original size:21 final size:20
Alignment explanation
Indices: 39539--39593 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
39529 ATCGATACAT
39539 TGTATCGATACATTACCCAGA
1 TGTATCGATACATTACCCA-A
* ***
39560 TGTATCGATATATTTTGCAA
1 TGTATCGATACATTACCCAA
39580 TGTATCGATACATT
1 TGTATCGATACATT
39594 CAGGCATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTACCCAA
Found at i:39584 original size:74 final size:69
Alignment explanation
Indices: 39417--39593 Score: 230
Period size: 69 Copynumber: 2.5 Consensus size: 69
39407 TTTCACAATT
* * * * *
39417 TGTATCGATACATTGTT-CATTGTATCGATATATTGTTCATTGTATCGATACATTCTGGGTTTAC
1 TGTATCGATACATT-TTGCATTGTATCGATACATTGCTCATTGTATCGATACATTATCGATTTAC
39481 CCAGA
65 CCAGA
39486 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGTATCGATACATTGTATCGATACA
1 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGTATCGATACA-T-TATCGAT---
39551 TTACCCAGA
61 TTACCCAGA
* *
39560 TGTATCGATATATTTTGCAATGTATCGATACATT
1 TGTATCGATACATTTTGCATTGTATCGATACATT
39594 CAGGCATTTT
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
68 2 0.02
69 47 0.49
70 1 0.01
71 4 0.04
74 41 0.43
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (69 bp):
TGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGTATCGATACATTATCGATTTACC
CAGA
Found at i:41761 original size:20 final size:19
Alignment explanation
Indices: 41715--41772 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
41705 TTTTACCCAG
* *
41715 ATGTATCGATACATTTTTCA
1 ATGTATCGATACA-TTATGA
*
41735 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATGA
*
41755 ATGTATCAATACATTATG
1 ATGTATCGATACATTATG
41773 TCTTTTTACC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTATGA
Found at i:42705 original size:22 final size:22
Alignment explanation
Indices: 42679--42729 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
42669 AGCCTTTGAC
42679 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
42701 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
42723 CATGCAT
1 CATGCAT
42730 CTTTAACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.59
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:45644 original size:129 final size:130
Alignment explanation
Indices: 45414--45648 Score: 325
Period size: 129 Copynumber: 1.8 Consensus size: 130
45404 TTCATCTCGG
* * * *
45414 GGATACTCCAACCCGAGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCGAATTTTATTCCCAAAACAACAATCTTTCACAATCGGGGATACTCCAACCC
* ** *
45479 CGTTATTTCTGAGGGGATACTCCAACCTTGGTTTTATTTCTAAAACACCAATTTTCCACAATCGA
66 CATTATTTCTGAGGGGATACTCCAACCTCAGCTTTATTTCTAAAACACCAATTTTCCACAATCGA
*
45544 GGATACTCCAACTCC-AATTTTATTCCCAAAATAACAA-CTTTCACAATCGGGGATACTCCAACC
1 GGATACTCCAAC-CCGAATTTTATTCCCAAAACAACAATCTTTCACAATCGGGGATACTCCAACC
*
45607 CCATTATTTCAT-CGGGGATACTCCAATCC-CAGCTTTATTTCT
65 CCATTATTTC-TGAGGGGATACTCCAA-CCTCAGCTTTATTTCT
45649 GAAATATTGA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
129 57 0.62
130 33 0.36
131 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (130 bp):
GGATACTCCAACCCGAATTTTATTCCCAAAACAACAATCTTTCACAATCGGGGATACTCCAACCC
CATTATTTCTGAGGGGATACTCCAACCTCAGCTTTATTTCTAAAACACCAATTTTCCACAATCGA
Found at i:45693 original size:79 final size:75
Alignment explanation
Indices: 45544--45919 Score: 329
Period size: 79 Copynumber: 4.8 Consensus size: 75
45534 CCACAATCGA
* * * * * * * *
45544 GGATACTCCAACTCCAATTTTATTCCCAAAATAACAACTTTCACAATCGGGGATACTCCAACCCC
1 GGATACTCCAAC-CCAGTTTTATTTCTAAAACATCGATTTTCATAATCGGGGATACTCCAACCCC
45609 ATTATTTCATCGG
65 ATTATTT--TCGG
* * * * *
45622 GGATACTCCAATCCCAGCTTTATTTCTGAAATATTGATTTCTCATAATTGGGGATACTCCAACCC
1 GGATACTCCAA-CCCAGTTTTATTTCTAAAACATCGATTT-TCATAATCGGGGATACTCCAACCC
* *
45687 CGTTATTTTTGAGG
64 CATTA-TTTT-CGG
* * * * *
45701 GGATACTCCAACCCTAGTTTTATTTTTAAAACACCAATTTTTCACAATCGGGGATACTCCATCCC
1 GGATACTCCAACCC-AGTTTTATTTCTAAAACATCGA-TTTTCATAATCGGGGATACTCCAACCC
45766 CATTATTTTCGAAG
64 CATTATTTTCG--G
* * *
45780 GGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCTATAATCAGGGATACTCCAACCC
1 GGATACTCCAACCCAG-TTTTATTTCTAAAACATCGATTTTC-ATAATCGGGGATACTCCAACCC
*
45845 TATTATTTTCAAGG
64 CATTATTTTC--GG
* * * * * *
45859 GGACACTCCAACCCCGGTTTTACTTCCAGAACACCGATTTTTCATAATCGGGGATACTCCA
1 GGATACTCCAA-CCCAGTTTTATTTCTAAAACATCGA-TTTTCATAATCGGGGATACTCCA
45920 GCTCCGTTAT
Statistics
Matches: 244, Mismatches: 40, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
77 1 0.00
78 43 0.18
79 184 0.75
80 15 0.06
81 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (75 bp):
GGATACTCCAACCCAGTTTTATTTCTAAAACATCGATTTTCATAATCGGGGATACTCCAACCCCA
TTATTTTCGG
Found at i:45930 original size:79 final size:79
Alignment explanation
Indices: 45582--45919 Score: 367
Period size: 79 Copynumber: 4.3 Consensus size: 79
45572 AAATAACAAC
* * * * *
45582 TTTCACAATCGGGGATACTCCAACCCCATTA-TTTCATCGGGGATACTCCAATCCCAGCTTTATT
1 TTTCATAATCGGGGATACTCCAACCCCATTATTTTCA-AGGGGATACTCCAACCCCGGTTTTATT
** * **
45646 TCTGAAATATTGATT
65 TCCAAAACACCGATT
* * * ** **
45661 TCTCATAATTGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCTAGTTTTATTT
1 TTTCATAATCGGGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTT
** *
45726 TTAAAACACCAATT
66 CCAAAACACCGATT
* * *
45740 TTTCACAATCGGGGATACTCCATCCCCATTATTTTCGAA-GGGATACTCCAACCCCGATTTTATT
1 TTTCATAATCGGGGATACTCCAACCCCATTATTTTC-AAGGGGATACTCCAACCCCGGTTTTATT
*
45804 TCCAAAACATCGA-T
65 TCCAAAACACCGATT
* * * *
45818 TTTCTATAATCAGGGATACTCCAACCCTATTATTTTCAAGGGGACACTCCAACCCCGGTTTTACT
1 TTTC-ATAATCGGGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCGGTTTTATT
*
45883 TCCAGAACACCGATT
65 TCCAAAACACCGATT
45898 TTTCATAATCGGGGATACTCCA
1 TTTCATAATCGGGGATACTCCA
45920 GCTCCGTTAT
Statistics
Matches: 214, Mismatches: 40, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
78 7 0.03
79 198 0.93
80 9 0.04
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
TTTCATAATCGGGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTT
CCAAAACACCGATT
Found at i:45930 original size:158 final size:157
Alignment explanation
Indices: 45548--45919 Score: 412
Period size: 158 Copynumber: 2.4 Consensus size: 157
45538 AATCGAGGAT
* * * * *
45548 ACTCCAACTCCAATTTTA-TTCCCAAAATAACAA-CTTTCACAATCGGGGATACTCCAACCCCAT
1 ACTCCAACCCCAGTTTTACTT-CCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCAT
* ** * * **
45611 TATTTCATCGGGGATACTCCAATCCCAGCTTTATTTCTGAAATATTGATTTCTCATAATTGGGGA
65 TATTT-ATCGGGGATACTCCAACCCCAGCTTTATTTCCAAAACATCGATTTCTCATAATCAGGGA
* ** *
45676 TACTCCAACCCCGTTATTTTTGAGGGGAT
129 TACTCCAACCCCATTATTTTCAAGGGGAC
* * ** *
45705 ACTCCAACCCTAGTTTTATTTTTAAAACACCAATTTTTCACAATCGGGGATACTCCATCCCCATT
1 ACTCCAACCCCAGTTTTACTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCATT
*
45770 ATTT-TCGAAGGGATACTCCAACCCC-GATTTTATTTCCAAAACATCGATTT-TCTATAATCAGG
66 ATTTATCG--GGGATACTCCAACCCCAG-CTTTATTTCCAAAACATCGATTTCTC-ATAATCAGG
*
45832 GATACTCCAACCCTATTATTTTCAAGGGGAC
127 GATACTCCAACCCCATTATTTTCAAGGGGAC
* * * *
45863 ACTCCAACCCCGGTTTTACTTCCAGAACACCGATTTTTCATAATCGGGGATACTCCA
1 ACTCCAACCCCAGTTTTACTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCA
45920 GCTCCGTTAT
Statistics
Matches: 179, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
156 3 0.02
157 26 0.15
158 150 0.84
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (157 bp):
ACTCCAACCCCAGTTTTACTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCATT
ATTTATCGGGGATACTCCAACCCCAGCTTTATTTCCAAAACATCGATTTCTCATAATCAGGGATA
CTCCAACCCCATTATTTTCAAGGGGAC
Found at i:55545 original size:1 final size:1
Alignment explanation
Indices: 55535--55630 Score: 75
Period size: 1 Copynumber: 96.0 Consensus size: 1
55525 TGGCAATTGG
* * * ** * * * * **
55535 AAAAAGAAAAAAACAAAACAAAAAAAAGGAAAAAGAAAAAGAAAAAAAACAAAACAAAAAAAAGG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
55600 AAAAAGAAAAAAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
55631 GTGAAGATTT
Statistics
Matches: 73, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.86, C:0.05, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:55588 original size:36 final size:36
Alignment explanation
Indices: 55534--55630 Score: 171
Period size: 36 Copynumber: 2.8 Consensus size: 36
55524 ATGGCAATTG
55534 GAAAAAG-AAAAAAACAAAACAAAAAAAAGGAAAAA
1 GAAAAAGAAAAAAAACAAAACAAAAAAAAGGAAAAA
55569 GAAAAAGAAAAAAAACAAAACAAAAAAAAGGAAAAA
1 GAAAAAGAAAAAAAACAAAACAAAAAAAAGGAAAAA
*
55605 GAAAAAAAAAAAAAACAAAA-AAAAAA
1 GAAAAAGAAAAAAAACAAAACAAAAAA
55631 GTGAAGATTT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
35 13 0.22
36 47 0.78
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (36 bp):
GAAAAAGAAAAAAAACAAAACAAAAAAAAGGAAAAA
Found at i:68737 original size:15 final size:15
Alignment explanation
Indices: 68705--68756 Score: 86
Period size: 15 Copynumber: 3.4 Consensus size: 15
68695 AAAAAACAAT
68705 AAACAATAAACAAAAA
1 AAACAATAAAC-AAAA
68721 AAACAATAAACAAAA
1 AAACAATAAACAAAA
68736 AAACAATAAACAAAA
1 AAACAATAAACAAAA
*
68751 CAACAA
1 AAACAA
68757 AAAAAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
15 24 0.69
16 11 0.31
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (15 bp):
AAACAATAAACAAAA
Found at i:68746 original size:7 final size:7
Alignment explanation
Indices: 68698--68748 Score: 57
Period size: 7 Copynumber: 6.9 Consensus size: 7
68688 AAAAATAAAA
68698 AAACAAT
1 AAACAAT
68705 AAACAAT
1 AAACAAT
*
68712 AAACAAAAA
1 AAAC--AAT
68721 AAACAAT
1 AAACAAT
*
68728 AAACAAAA
1 AAAC-AAT
68736 AAACAAT
1 AAACAAT
68743 AAACAA
1 AAACAA
68749 AACAACAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
7 25 0.68
8 6 0.16
9 6 0.16
ACGTcount: A:0.78, C:0.14, G:0.00, T:0.08
Consensus pattern (7 bp):
AAACAAT
Found at i:69983 original size:55 final size:55
Alignment explanation
Indices: 69853--69983 Score: 183
Period size: 55 Copynumber: 2.4 Consensus size: 55
69843 TTCACCCTTT
* * **
69853 AGTCATCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
* *
69908 AGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CC
*
69963 AGTCCTCAAAGAGTAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
69984 TCTCTCCTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 3 0.04
55 64 0.96
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:70004 original size:94 final size:94
Alignment explanation
Indices: 69905--70169 Score: 442
Period size: 94 Copynumber: 2.8 Consensus size: 94
69895 GGTGGCACCT
* *
69905 TTTAGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
69970 AAAGAGTAGGACGCTCTCTCCTTTCATCC
66 AAAGAGTAGGACGCTCTCTCCTTTCATCC
* * *
69999 TTTAGTCCTCAAAAAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
70064 AAAGAGTAGGACGCTCTCTCCTTTCATCC
66 AAAGAGTAGGACGCTCTCTCCTTTCATCC
* *
70093 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGGCACCTT-TCAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCT
*
70157 CAAAGAGCAGGAC
65 CAAAGAGTAGGAC
70170 ACCTTTCAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
94 156 0.98
95 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (94 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
AAAGAGTAGGACGCTCTCTCCTTTCATCC
Found at i:70077 original size:149 final size:149
Alignment explanation
Indices: 69779--70069 Score: 487
Period size: 149 Copynumber: 2.0 Consensus size: 149
69769 GACGCTTTTT
* * *
69779 CCTTTTAAAGCCTACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGATGCTCTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCTCTCTCCTT
* *
69844 TCACCCTTTAGTCATCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTA
66 TCACCCTTTAGTCATCAAAAAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTA
69909 GTCCTCAAAGAGCAAGACG
131 GTCCTCAAAGAGCAAGACG
69928 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGTAGGACGCTCTCTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGTAGGACGCTCTCTCCT
* *
69992 TTCATCCTTTAGTCCTCAAAAAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCC
65 TTCACCCTTTAGTCATCAAAAAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
70056 TAGTCCTCAAAGAG
129 TAGTCCTCAAAGAG
70070 TAGGACGCTC
Statistics
Matches: 133, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
148 6 0.05
149 127 0.95
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (149 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCTCTCTCCTT
TCACCCTTTAGTCATCAAAAAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTA
GTCCTCAAAGAGCAAGACG
Found at i:70220 original size:243 final size:243
Alignment explanation
Indices: 69779--70223 Score: 721
Period size: 243 Copynumber: 1.8 Consensus size: 243
69769 GACGCTTTTT
* * *
69779 CCTTTTAAAGCCTACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGATGCTCTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCTCTCTCCTT
* *
69844 TCACCCTTTAGTCATCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTA
66 TCACCCTTTAGTCATCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
* * *
69909 GTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
131 GTCCTCAAAGAGCAAGACACCTTTCAAAACCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
69974 AGTAGGACGCTCTCTCCTTTCATCCTTTAGTCCTCAAAAAGCAGGATG
196 AGTAGGACGCTCTCTCCTTTCATCCTTTAGTCCTCAAAAAGCAGGATG
70022 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGTAGGACGCTCTCTCCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGTAGGACGCTCTCTCCT
* * *
70086 TTCATCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGGCACCTTTC
65 TTCACCCTTTAGTCATCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * * *
70151 AGTCCTCAAAGAGCAGGACACCTTTCAAAACCCACATAGGTTGGTGGCATTTTCTAGTCCTCAAA
130 AGTCCTCAAAGAGCAAGACACCTTTCAAAACCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
70216 GAGTAGGA
195 GAGTAGGA
70224 TGCCTTTTCC
Statistics
Matches: 184, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
242 3 0.02
243 181 0.98
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (243 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCTCTCTCCTT
TCACCCTTTAGTCATCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
GTCCTCAAAGAGCAAGACACCTTTCAAAACCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
AGTAGGACGCTCTCTCCTTTCATCCTTTAGTCCTCAAAAAGCAGGATG
Found at i:70266 original size:61 final size:61
Alignment explanation
Indices: 70116--70475 Score: 374
Period size: 61 Copynumber: 6.1 Consensus size: 61
70106 GAGCAGGACG
* * * * *
70116 CCTTTCAAAGCCCATACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGA---C---A
1 CCTTTTAAAGCCCACATAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
70171 CCTTTCAAAACCCACATAGGTTGGTGGCATTTTCTAGTCCTCAAAGAGTAGGATGCCTTTT
1 CCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* **
70232 CCTTTTAAAGCCCACATAAGTTGGTAGCATTTTCTAGTCCTCAAAGAGCAGGGCGCCTTTT
1 CCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* *
70293 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCC-TTT
1 CCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * *
70353 -C----AAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAAGATG-CTTTCT
1 CCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-T
* * *
70409 CCTTTTAAAGACCA-TTCAAGTTGGTGCCACTTTT-TAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACAT-AAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
70470 CCTTTT
1 CCTTTT
70476 CTCGTTTGTC
Statistics
Matches: 259, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
54 5 0.02
55 88 0.34
56 1 0.00
57 1 0.00
58 1 0.00
59 1 0.00
60 3 0.01
61 151 0.58
62 8 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (61 bp):
CCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:70358 original size:116 final size:118
Alignment explanation
Indices: 70095--70468 Score: 378
Period size: 116 Copynumber: 3.2 Consensus size: 118
70085 TTTCATCCTT
* * * *
70095 TAGTCCTCAAAGAGCAGGACGCCTTT-C-AAAGCCCATACAAGTTGGTGGCACCTTT-CAGTCCT
1 TAGTCCTCAAAGAGCAGGATGCCTTTCCTAAAGCCCACACAAGTTGGTAGCA-TTTTCCAGTCCT
* * * * * *
70157 CAAAGAGC-AG--G---ACACCTTTCAAAACCCACATAGGTTGGTGGCATTTTC
65 CAAAGAGCAAGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
* * *
70205 TAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTAGCATTTTCTAGT
1 TAGTCCTCAAAGAGCAGGATGCC-TTTCC---TAAAGCCCACACAAGTTGGTAGCATTTTCCAGT
* *
70270 CCTCAAAGAGCAGGGCGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
62 CCTCAAAGAGCAAGACG-CTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
* * *
70327 TAGTCCTCAAAGAGCAGGACGCCTTT-C-AAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTCCTAAAGCCCACACAAGTTGGTAGCATTTTCCAGTCCTC
* * * ** *
70390 AAAGAGTAAGATGCTTTCTCCTTTTAAAGACCATTCAAGTTGGTGCCACTTTT-
66 AAAGAGCAAGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTC
70443 TAGTCCTCAAAGAGCAGGATGCCTTT
1 TAGTCCTCAAAGAGCAGGATGCCTTT
70469 TCCTTTTCTC
Statistics
Matches: 219, Mismatches: 29, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
110 21 0.10
111 3 0.01
112 1 0.00
115 7 0.03
116 126 0.58
117 5 0.02
119 1 0.00
120 1 0.00
121 3 0.01
122 51 0.23
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (118 bp):
TAGTCCTCAAAGAGCAGGATGCCTTTCCTAAAGCCCACACAAGTTGGTAGCATTTTCCAGTCCTC
AAAGAGCAAGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
Found at i:70389 original size:177 final size:177
Alignment explanation
Indices: 70093--70475 Score: 527
Period size: 177 Copynumber: 2.2 Consensus size: 177
70083 CCTTTCATCC
*
70093 TTTAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCATACAAGTTGGTGGCACCTTTCA
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCA
* * *
70152 GTCCTCAAAGAGCAGGACACCTTTCAAAACCCACATAGGTTGGTGGCATTTTCTAGTCCTCAAAG
66 GTCCTCAAAGAGCAGGACACCTTTCAAAACCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
* *
70217 AGTAGGATGCCTTT-TCCTTTTAAAGCCCACAT-AAGTTGGTAG-CA-TT
131 AGTAAGATG-CTTTCTCCTTTTAAAGACCA-ATCAAGTTGGT-GCCACTT
* *
70263 TTCTAGTCCTCAAAGAGCAGGGCGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
70327 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAA
65 -AGTCCTCAAAGAGCAGGACACCTTTCAAAACCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
*
70392 AGAGTAAGATGCTTTCTCCTTTTAAAGACCATTCAAGTTGGTGCCACTT
129 AGAGTAAGATGCTTTCTCCTTTTAAAGACCAATCAAGTTGGTGCCACTT
*
70441 TTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
70476 CTCGTTTGTC
Statistics
Matches: 187, Mismatches: 14, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
170 2 0.01
171 22 0.12
172 3 0.02
173 1 0.01
176 10 0.05
177 145 0.78
178 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (177 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCA
GTCCTCAAAGAGCAGGACACCTTTCAAAACCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
AGTAAGATGCTTTCTCCTTTTAAAGACCAATCAAGTTGGTGCCACTT
Found at i:70627 original size:43 final size:43
Alignment explanation
Indices: 70466--70631 Score: 160
Period size: 42 Copynumber: 3.8 Consensus size: 43
70456 GCAGGATGCC
* * * * * *
70466 TTTTCCTTTTCTCGTTTGTCCTCAAAGAGCCGGACACACTTCAG
1 TTTTCCTTTTTTCCTTTGTCCTCAAAAAGCAGGACGCATTTC-G
* * *
70510 --TCCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTT-A
1 TTTTCCTT-TTTT-CC-TTTGTCCTCAAAAAGCAGGACGCA-TTTCG
* *
70554 TTTTCC-TCTTTCTTTTGTCCTCAAAAAGCAGGACGCATTTCG
1 TTTTCCTTTTTTCCTTTGTCCTCAAAAAGCAGGACGCATTTCG
70596 TTTTCCTTTTTTCCTTTGTCCTCAAAAAGCAGGACG
1 TTTTCCTTTTTTCCTTTGTCCTCAAAAAGCAGGACG
70632 TACTCTTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
41 3 0.03
42 34 0.34
43 31 0.31
44 4 0.04
45 23 0.23
46 5 0.05
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.39
Consensus pattern (43 bp):
TTTTCCTTTTTTCCTTTGTCCTCAAAAAGCAGGACGCATTTCG
Found at i:70677 original size:35 final size:34
Alignment explanation
Indices: 70604--70686 Score: 82
Period size: 35 Copynumber: 2.4 Consensus size: 34
70594 CGTTTTCCTT
*
70604 TTTTC-CTTTGTCCTCAAAAAGCAGGACGTACTCT
1 TTTTCACTTTGTCCTCAAAAAGCAGGACG-ACTCC
* *
70638 TTTTCACTTTGTCCTCTAGAAGCAGGAC-ACTTTCC
1 TTTTCACTTTGTCCTCAAAAAGCAGGACGAC--TCC
*
70673 TTTTCA-TTTTTCCT
1 TTTTCACTTTGTCCT
70687 TTGTCCTCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
33 2 0.05
34 12 0.29
35 28 0.67
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (34 bp):
TTTTCACTTTGTCCTCAAAAAGCAGGACGACTCC
Found at i:71366 original size:20 final size:20
Alignment explanation
Indices: 71341--71393 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
71331 CAAAATTTGT
71341 ATCGATACATTGTTCATTGC
1 ATCGATACATTGTTCATTGC
* *
71361 ATCGATATATTGTTCATTGT
1 ATCGATACATTGTTCATTGC
71381 ATCGATACATTGT
1 ATCGATACATTGT
71394 ATCGATACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (20 bp):
ATCGATACATTGTTCATTGC
Found at i:71391 original size:13 final size:13
Alignment explanation
Indices: 71375--71404 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
71365 ATATATTGTT
71375 CATTGTATCGATA
1 CATTGTATCGATA
71388 CATTGTATCGATA
1 CATTGTATCGATA
71401 CATT
1 CATT
71405 ATGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:71460 original size:20 final size:20
Alignment explanation
Indices: 71420--71474 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
71410 TTTACCTAGA
*
71420 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
* *
71440 TTTATCGTTACATTGCTCAT
1 TGTATCGATACATTGCTCAT
71460 TGTATCGATACATTG
1 TGTATCGATACATTG
71475 TATCGATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:71475 original size:13 final size:13
Alignment explanation
Indices: 71457--71482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71447 TTACATTGCT
71457 CATTGTATCGATA
1 CATTGTATCGATA
71470 CATTGTATCGATA
1 CATTGTATCGATA
71483 TATTACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:73988 original size:51 final size:50
Alignment explanation
Indices: 73904--74022 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
73894 TTATTTCTGA
* * *
73904 GGGGATACTCCAACCCCGGTTTTATTTCTAAAAC-ACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTAATTTCTAAAACAAC-AA-CTTTCACAATC
**
73955 GGGGATACTCCAACTTCGATTTAA-TTCTCAAAACAACAACTTTCACAATC
1 GGGGATACTCCAACCCCGATTTAATTTCT-AAAACAACAACTTTCACAATC
*
74005 GGGGATACTTCAACCCCG
1 GGGGATACTCCAACCCCG
74023 TTATTTCATC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
50 29 0.50
51 27 0.47
52 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGATTTAATTTCTAAAACAACAACTTTCACAATC
Found at i:74038 original size:28 final size:28
Alignment explanation
Indices: 74002--74105 Score: 147
Period size: 28 Copynumber: 3.7 Consensus size: 28
73992 AACTTTCACA
*
74002 ATCGGGGATACTTCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
* **
74030 ATCGAGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
74058 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
74086 -TGAGGGGATACTCCAACCCC
1 AT-CGGGGATACTCCAACCCC
74106 AACTTTATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 1 0.01
28 66 0.99
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:74156 original size:79 final size:79
Alignment explanation
Indices: 74062--74397 Score: 356
Period size: 79 Copynumber: 4.2 Consensus size: 79
74052 TATTTCATCG
* * **
74062 GGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAACTTTATTTCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCG
74127 A-TTTCTCATAATCA
66 ATTTTC-CATAATCA
* * **** *
74141 GGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACCTTGGTTTTATTTCTAAAACACCA
1 GGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCG
* *
74206 ATTTTCCACAATCG
66 ATTTTCCATAATCA
* * * * * *
74220 GGGATACTCTAACCTCCTTTTTTTTTGAAGGGATACTCCAACCCCGATTTTATTT-TCAAAACAC
1 GGGATACTCCAACC-CCGTTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTCT-AAAACAC
*
74284 CGATTTTCTATAATCA
64 CGATTTTCCATAATCA
* * * *
74300 GGGATACTCCAACCCTGTTATTT-TCGAGGGGATACTCCAACCCCAGTTTTACTTTC-AGAACAT
1 GGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCAATTTTA-TTTCTAAAACAC
**
74363 CGATTTTCCATAATTG
64 CGATTTTCCATAATCA
*
74379 GGGATACTCCAGCCCCGTT
1 GGGATACTCCAACCCCGTT
74398 GTTATCTCCA
Statistics
Matches: 211, Mismatches: 40, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
78 1 0.00
79 139 0.66
80 71 0.34
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCG
ATTTTCCATAATCA
Found at i:74382 original size:159 final size:158
Alignment explanation
Indices: 74058--74397 Score: 409
Period size: 159 Copynumber: 2.1 Consensus size: 158
74048 TTGTTATTTC
* *
74058 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAACTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCAACTTTATTTCTAAAAC
** ***
74123 ATTGATTTCTCATAATCAGGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACCTTGGT
66 ACCGATTTCTCATAATCAGGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACCCCAGT
74188 TTTATTTCTAAAACACCAATTTTCCACA
131 TTTATTTCTAAAACACCAATTTTCCACA
* * * * * *
74216 ATCGGGGATACTCTAACCTCCTTTTTTTTTGAAGGGATACTCCAACCCCGATTTTATTT-TCAAA
1 ATCGGGGATACTCCAACC-CCGTTATTTCTGAAGGGATACTCCAACCCCAACTTTATTTCT-AAA
** *
74280 ACACCGATTT-TCTATAATCAGGGATACTCCAACCCTGTTATTT-TCGAGGGGATACTCCAACCC
64 ACACCGATTTCTC-ATAATCAGGGATACTCCAACCCCATTATTTCT-AAGGGGATACTCCAACCC
* * * *
74343 CAGTTTTACTTTC-AGAACATCGATTTTCCATA
127 CAGTTTTA-TTTCTAAAACACCAATTTTCCACA
* *
74375 ATTGGGGATACTCCAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
74398 GTTATCTCCA
Statistics
Matches: 153, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
158 25 0.16
159 124 0.81
160 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (158 bp):
ATCGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCAACTTTATTTCTAAAAC
ACCGATTTCTCATAATCAGGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACCCCAGT
TTTATTTCTAAAACACCAATTTTCCACA
Found at i:77237 original size:2 final size:2
Alignment explanation
Indices: 77232--77264 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
77222 ATTGTTCTTT
77232 TA TA TA TA TA TA TA TA -A 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
77265 ATGAAAGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:77251 original size:15 final size:15
Alignment explanation
Indices: 77233--77262 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
77223 TTGTTCTTTT
77233 ATATATATATATATA
1 ATATATATATATATA
77248 ATATATATATATATA
1 ATATATATATATATA
77263 TAATGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:77252 original size:17 final size:17
Alignment explanation
Indices: 77232--77266 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
77222 ATTGTTCTTT
77232 TATATATATATATATAA
1 TATATATATATATATAA
77249 TATATATATATATATAA
1 TATATATATATATATAA
77266 T
1 T
77267 GAAAGAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATATATATATATAA
Found at i:78846 original size:18 final size:18
Alignment explanation
Indices: 78819--78855 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
78809 TATAAATTTA
78819 GAACACATAAATAAATAT
1 GAACACATAAATAAATAT
* *
78837 GAACATATAACTAAATAT
1 GAACACATAAATAAATAT
78855 G
1 G
78856 GCAATCCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.24
Consensus pattern (18 bp):
GAACACATAAATAAATAT
Found at i:82604 original size:17 final size:17
Alignment explanation
Indices: 82582--82616 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
82572 GGTTATATTT
82582 TAAGATTATCTTAATTA
1 TAAGATTATCTTAATTA
*
82599 TAAGATTATCTTGATTA
1 TAAGATTATCTTAATTA
82616 T
1 T
82617 TATTGTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (17 bp):
TAAGATTATCTTAATTA
Found at i:83581 original size:17 final size:17
Alignment explanation
Indices: 83561--83593 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
83551 AATATTTATA
*
83561 TTTTTATAATTTAAAAT
1 TTTTTATAATATAAAAT
83578 TTTTTATAATATAAAA
1 TTTTTATAATATAAAA
83594 CAATAATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTATAATATAAAAT
Found at i:85952 original size:106 final size:105
Alignment explanation
Indices: 85766--85959 Score: 280
Period size: 106 Copynumber: 1.8 Consensus size: 105
85756 TGTCAATATG
* * * *
85766 CAATATTTAATGAATTAAAAGACCTTACAACTTCATATATGTCATGTATGTTGGCAACATGTCAT
1 CAATATTTAATGAATTAAAAGACATTACAACTTCATAAATGTCATGTATGTTGACAACATGTCAC
85831 ACTTAATTTACCATATAATAATTAGGTGGTAGATTTTTTT
66 ACTTAATTTACCATATAATAATTAGGTGGTAGATTTTTTT
* * ** * *
85871 CAATATTTAATGAAATTGAAAGACATTACAATTTCATAAATGTCATGTATGTTGATGACGTGTTA
1 CAATATTTAATG-AATTAAAAGACATTACAACTTCATAAATGTCATGTATGTTGACAACATGTCA
*
85936 CACTTAATTTATCATATAATAATT
65 CACTTAATTTACCATATAATAATT
85960 GAAAAATTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
105 12 0.16
106 65 0.84
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (105 bp):
CAATATTTAATGAATTAAAAGACATTACAACTTCATAAATGTCATGTATGTTGACAACATGTCAC
ACTTAATTTACCATATAATAATTAGGTGGTAGATTTTTTT
Found at i:86147 original size:6 final size:6
Alignment explanation
Indices: 86138--86167 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
86128 AAACATTAAT
*
86138 ATATAA ATATAA ACATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA
86168 TGTATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (6 bp):
ATATAA
Found at i:86153 original size:20 final size:18
Alignment explanation
Indices: 86108--86167 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
86098 AAATATCTTT
86108 ATATAAAC--AAATA-AA
1 ATATAAACATAAATATAA
*
86123 GATAAAAACATTAATATATAA
1 -ATATAAACA-TAA-ATATAA
86144 ATATAAACATAAATATAA
1 ATATAAACATAAATATAA
86162 ATATAA
1 ATATAA
86168 TGTATAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 7 0.19
18 12 0.32
19 5 0.14
20 11 0.30
21 2 0.05
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (18 bp):
ATATAAACATAAATATAA
Found at i:86942 original size:3 final size:3
Alignment explanation
Indices: 86934--86983 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
86924 CCCTTAAGTG
86934 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
86982 AA
1 AA
86984 AAACTTTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:87877 original size:23 final size:24
Alignment explanation
Indices: 87851--87898 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
87841 CAAACTTATA
87851 TTAAATAAATAT-AATACAAATAT
1 TTAAATAAATATAAATACAAATAT
*
87874 TTAAATAAATATAAATATAAATAT
1 TTAAATAAATATAAATACAAATAT
87898 T
1 T
87899 ATTATATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TTAAATAAATATAAATACAAATAT
Found at i:87889 original size:18 final size:19
Alignment explanation
Indices: 87856--87891 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
87846 TTATATTAAA
87856 TAAATATAATACAAATATT
1 TAAATATAATACAAATATT
*
87875 TAAATA-AATATAAATAT
1 TAAATATAATACAAATAT
87892 AAATATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATATAATACAAATATT
Found at i:88301 original size:13 final size:13
Alignment explanation
Indices: 88283--88311 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
88273 TACCACAATA
88283 TGAATAAAAAGTT
1 TGAATAAAAAGTT
88296 TGAATAAAAAGTT
1 TGAATAAAAAGTT
88309 TGA
1 TGA
88312 GGGAAAGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (13 bp):
TGAATAAAAAGTT
Found at i:90087 original size:140 final size:142
Alignment explanation
Indices: 89833--90114 Score: 550
Period size: 140 Copynumber: 2.0 Consensus size: 142
89823 AATATTAAAA
89833 AATATTATTTATATTAATATTTTTAATTAAATAAAATAATTTTTTATTAATATATAGTAATTTAA
1 AATATTATTTATATTAATATTTTTAATTAAATAAAATAATTTTTTATTAATATATAGTAATTTAA
89898 ACTGAATCGATTAGAATTAAAAAAATCATGTCCAAATTTAACCTAATACAAATGATGCCTATTGG
66 ACTGAATCGATTAGAATTAAAAAAATCATGTCCAAATTTAACCTAATACAAATGATGCCTATTGG
89963 ATAACCCGATCC
131 ATAACCCGATCC
89975 AATATT-TTT-TATTAATATTTTTAATTAAATAAAATAATTTTTTATTAATATATAGTAATTTAA
1 AATATTATTTATATTAATATTTTTAATTAAATAAAATAATTTTTTATTAATATATAGTAATTTAA
90038 ACTGAATCGATTAGAATTAAAAAAATCATGTCCAAATTTAACCTAATACAAATGATGCCTATTGG
66 ACTGAATCGATTAGAATTAAAAAAATCATGTCCAAATTTAACCTAATACAAATGATGCCTATTGG
90103 ATAACCCGATCC
131 ATAACCCGATCC
90115 TCAAATAACT
Statistics
Matches: 140, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
140 131 0.94
141 3 0.02
142 6 0.04
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (142 bp):
AATATTATTTATATTAATATTTTTAATTAAATAAAATAATTTTTTATTAATATATAGTAATTTAA
ACTGAATCGATTAGAATTAAAAAAATCATGTCCAAATTTAACCTAATACAAATGATGCCTATTGG
ATAACCCGATCC
Found at i:90764 original size:18 final size:18
Alignment explanation
Indices: 90737--90774 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
90727 TATAAATTTA
90737 GAACACATAAATAAATAT
1 GAACACATAAATAAATAT
* *
90755 GAACATATAACTAAATAT
1 GAACACATAAATAAATAT
90773 GA
1 GA
90775 CAATCAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (18 bp):
GAACACATAAATAAATAT
Found at i:97510 original size:106 final size:104
Alignment explanation
Indices: 97324--97517 Score: 255
Period size: 106 Copynumber: 1.8 Consensus size: 104
97314 TGTCAATATG
* * *
97324 CAATATTTAATGAATTAAAAGATATTACAACTTCATATATGTCATGTATGTTAGCAACATGTCAT
1 CAATATTTAATGAATTAAAAGACATTACAACTTCATAAATGTCATGTATGTTAG-AACATGTCAC
*
97389 ACTTAATTTATCATATAATAATTAGGTGGTAGATTTTTTT
65 ACTTAATTTACCATATAATAATTAGGTGGTAGATTTTTTT
* * * * * *
97429 CAATATTTAATGAAATTGAAAGACGTTATAATTTCATAAATGTCATGTATGTT-GATGACGTGTT
1 CAATATTTAATG-AATTAAAAGACATTACAACTTCATAAATGTCATGTATGTTAGA--ACATGTC
97493 ACACTTAATTTACCATATAATAATT
63 ACACTTAATTTACCATATAATAATT
97518 GAAAAATTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
104 1 0.01
105 13 0.17
106 62 0.82
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.41
Consensus pattern (104 bp):
CAATATTTAATGAATTAAAAGACATTACAACTTCATAAATGTCATGTATGTTAGAACATGTCACA
CTTAATTTACCATATAATAATTAGGTGGTAGATTTTTTT
Found at i:97720 original size:14 final size:14
Alignment explanation
Indices: 97672--97722 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
97662 TAAATATCTT
97672 TATATAAATAAATAAA
1 TATATAAAT--ATAAA
97688 TATAATAACAT-T-AA
1 TAT-ATAA-ATATAAA
97702 TATATAAATATAAA
1 TATATAAATATAAA
97716 TATATAA
1 TATATAA
97723 TTTATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 2 0.06
13 5 0.16
14 14 0.45
15 1 0.03
16 3 0.10
17 4 0.13
18 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
TATATAAATATAAA
Found at i:97937 original size:3 final size:3
Alignment explanation
Indices: 97929--97973 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
97919 GACTAGGGTA
97929 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
97974 TGCATGTGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:101168 original size:18 final size:18
Alignment explanation
Indices: 101141--101177 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
101131 TATAAATTTA
101141 GAACACATAAATAAATAT
1 GAACACATAAATAAATAT
* *
101159 GAACATATAACTAAATAT
1 GAACACATAAATAAATAT
101177 G
1 G
101178 TCATATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.24
Consensus pattern (18 bp):
GAACACATAAATAAATAT
Found at i:106399 original size:18 final size:18
Alignment explanation
Indices: 106372--106409 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
106362 TATAAATTTA
106372 GAACACATAAATAAATAT
1 GAACACATAAATAAATAT
* *
106390 GAACATATAACTAAATAT
1 GAACACATAAATAAATAT
106408 GA
1 GA
106410 CAATCCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (18 bp):
GAACACATAAATAAATAT
Found at i:113522 original size:108 final size:107
Alignment explanation
Indices: 113310--113505 Score: 239
Period size: 108 Copynumber: 1.8 Consensus size: 107
113300 TGTCAATATG
* * * * * *
113310 CAATATTTAATGAATTAAAAGACGTTACAACTTCATATATGTCATGTATGTTGGCAACATATCAT
1 CAATATTTAATAAATTAAAAGACGATACAACTTCATAAATGTCATGTATATTGACAACATATCAC
* * *
113375 ACTTAATTTACCATATAATAGTTAAGTAGGTAGATTTTTTTT
66 ACTTAATTTACCATATAATAATTAAGAAAGTAGATTTTTTTT
* * * ** * *
113417 CAATATTTAATAAAATTTAAAGACGATATAATTTCATAAATGTCATGTATATTGATGACATGTTA
1 CAATATTTAAT-AAATTAAAAGACGATACAACTTCATAAATGTCATGTATATTGACAACATATCA
113482 CACTTAATTTACCATATAATAATT
65 CACTTAATTTACCATATAATAATT
113506 GGAAAAATTA
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
107 11 0.15
108 63 0.85
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (107 bp):
CAATATTTAATAAATTAAAAGACGATACAACTTCATAAATGTCATGTATATTGACAACATATCAC
ACTTAATTTACCATATAATAATTAAGAAAGTAGATTTTTTTT
Found at i:113688 original size:20 final size:18
Alignment explanation
Indices: 113649--113699 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
113639 CTTTATATAA
*
113649 ATAAATA-AAGATAAAAAC
1 ATAAATATAA-ATAGAAAC
113667 ATTAATATATAAATAGAAAC
1 A-TAA-ATATAAATAGAAAC
113687 ATAAATATAAATA
1 ATAAATATAAATA
113700 TAAATGTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 10 0.34
19 6 0.21
20 11 0.38
21 2 0.07
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (18 bp):
ATAAATATAAATAGAAAC
Found at i:114482 original size:3 final size:3
Alignment explanation
Indices: 114474--114517 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
114464 CCCTTAAGTG
114474 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
114518 AAACTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:115411 original size:23 final size:24
Alignment explanation
Indices: 115385--115432 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
115375 CAAACTTATA
115385 TTAAATAAATAT-AATACAAATAT
1 TTAAATAAATATAAATACAAATAT
*
115408 TTAAATAAATATAAATATAAATAT
1 TTAAATAAATATAAATACAAATAT
115432 T
1 T
115433 ATTATATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TTAAATAAATATAAATACAAATAT
Found at i:115423 original size:18 final size:19
Alignment explanation
Indices: 115390--115425 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
115380 TTATATTAAA
115390 TAAATATAATACAAATATT
1 TAAATATAATACAAATATT
*
115409 TAAATA-AATATAAATAT
1 TAAATATAATACAAATAT
115426 AAATATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATATAATACAAATATT
Found at i:115835 original size:13 final size:13
Alignment explanation
Indices: 115817--115845 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
115807 TACCACAATA
115817 TGAATAAAAAGTT
1 TGAATAAAAAGTT
115830 TGAATAAAAAGTT
1 TGAATAAAAAGTT
115843 TGA
1 TGA
115846 GGGAAAGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (13 bp):
TGAATAAAAAGTT
Found at i:121052 original size:106 final size:104
Alignment explanation
Indices: 120868--121059 Score: 251
Period size: 106 Copynumber: 1.8 Consensus size: 104
120858 TGTCAATATG
* * *
120868 CAATATTTAATGAATTAAAAGATATTACAACTTCATATATATCATGTATGTTAGCAACATGTCAT
1 CAATATTTAATGAATTAAAAGACATTACAACTTCATAAATATCATGTATGTTAG-AACATGTCAC
120933 ACTTAATTTACCATATAATAATTAGGTGGTATATTTTTTT
65 ACTTAATTTACCATATAATAATTAGGTGGTATATTTTTTT
* * * * * * *
120973 CAATATTTAATGAAATTGAAAGACGTTATAATTTCATAAATGTCATGTATGTT-GATGACGTGTT
1 CAATATTTAATG-AATTAAAAGACATTACAACTTCATAAATATCATGTATGTTAGA--ACATGTC
121037 ACACTTAATTTACCATATAATAA
63 ACACTTAATTTACCATATAATAA
121060 ATGAAAAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
104 1 0.01
105 13 0.18
106 60 0.81
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (104 bp):
CAATATTTAATGAATTAAAAGACATTACAACTTCATAAATATCATGTATGTTAGAACATGTCACA
CTTAATTTACCATATAATAATTAGGTGGTATATTTTTTT
Found at i:121207 original size:2 final size:2
Alignment explanation
Indices: 121146--121187 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
121136 TTACAAAAGA
*
121146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
121188 TCCTTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121282 original size:14 final size:14
Alignment explanation
Indices: 121234--121284 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
121224 TAAATATCTT
121234 TATATAAATAAATAAA
1 TATATAAAT--ATAAA
121250 TATAATAACAT-T-AA
1 TAT-ATAA-ATATAAA
121264 TATATAAATATAAA
1 TATATAAATATAAA
121278 TATATAA
1 TATATAA
121285 TTTATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 2 0.06
13 5 0.16
14 14 0.45
15 1 0.03
16 3 0.10
17 4 0.13
18 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
TATATAAATATAAA
Found at i:121500 original size:3 final size:3
Alignment explanation
Indices: 121492--121539 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
121482 GACTAGGGTA
121492 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
121540 TGCATGTGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:124732 original size:18 final size:18
Alignment explanation
Indices: 124705--124741 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
124695 TATAAATTTA
124705 GAACACATAAATAAATAT
1 GAACACATAAATAAATAT
* *
124723 GAACATATAACTAAATAT
1 GAACACATAAATAAATAT
124741 G
1 G
124742 TCATATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.24
Consensus pattern (18 bp):
GAACACATAAATAAATAT
Found at i:129960 original size:18 final size:18
Alignment explanation
Indices: 129933--129970 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
129923 TATAAATTTA
129933 GAACACATAAATAAATAT
1 GAACACATAAATAAATAT
* *
129951 GAACATATAACTAAATAT
1 GAACACATAAATAAATAT
129969 GA
1 GA
129971 CAATCCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (18 bp):
GAACACATAAATAAATAT
Found at i:133718 original size:17 final size:17
Alignment explanation
Indices: 133696--133743 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
133686 ATATTTTAAG
133696 ATTATCTTGATTATAAA
1 ATTATCTTGATTATAAA
133713 ATTATCTTGATTATAAA
1 ATTATCTTGATTATAAA
133730 ATTATCTTGATTAT
1 ATTATCTTGATTAT
133744 TGTTGTAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTATCTTGATTATAAA
Found at i:137052 original size:18 final size:18
Alignment explanation
Indices: 137029--137064 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
137019 ATATAATTTC
137029 ATAAATGTCATGTATATT
1 ATAAATGTCATGTATATT
137047 ATAAATGTCATGTATATT
1 ATAAATGTCATGTATATT
137065 GATGACATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (18 bp):
ATAAATGTCATGTATATT
Found at i:137280 original size:6 final size:6
Alignment explanation
Indices: 137271--137302 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
137261 AAACATTAAT
*
137271 ATATAA ATATAA ACATAA ATATAA ATATAA AT
1 ATATAA ATATAA ATATAA ATATAA ATATAA AT
137303 GTATAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (6 bp):
ATATAA
Found at i:137286 original size:20 final size:18
Alignment explanation
Indices: 137247--137301 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
137237 CTTTATATAA
*
137247 ATAAATA-AAGATAAAAAC
1 ATAAATATAA-ATATAAAC
137265 ATTAATATATAAATATAAAC
1 A-TAA-ATATAAATATAAAC
137285 ATAAATATAAATATAAA
1 ATAAATATAAATATAAA
137302 TGTATAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 14 0.42
19 6 0.18
20 11 0.33
21 2 0.06
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
ATAAATATAAATATAAAC
Found at i:138080 original size:3 final size:3
Alignment explanation
Indices: 138072--138109 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
138062 CCCTTAAGTG
138072 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
138110 CTTTAATAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:138465 original size:6 final size:6
Alignment explanation
Indices: 138454--138489 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
138444 AATGATTTTT
138454 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
138490 TATTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:140813 original size:12 final size:12
Alignment explanation
Indices: 140796--140820 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
140786 AATTATCATC
140796 ATAATGACAAGT
1 ATAATGACAAGT
140808 ATAATGACAAGT
1 ATAATGACAAGT
140820 A
1 A
140821 AAAGAAAATT
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:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAATGACAAGT
Found at i:142462 original size:22 final size:22
Alignment explanation
Indices: 142428--142484 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
142418 CTGGACATGT
*
142428 TAAAAAAA-ACATGAAACATAA
1 TAAAAAAATGCATGAAACATAA
142449 TAAAAAAATGCATGAAACATAA
1 TAAAAAAATGCATGAAACATAA
142471 TAAAAAAATGCATG
1 TAAAAAAATGCATG
142485 GTCAAAGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 8 0.24
22 26 0.76
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (22 bp):
TAAAAAAATGCATGAAACATAA
Found at i:143439 original size:20 final size:20
Alignment explanation
Indices: 143393--143466 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
143383 AAAAAGACAT
** *
143393 AATG-ATCGATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
143412 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
143432 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
143452 AATGTATCGATACAT
1 AATGTATCGATACAT
143467 CAAGGTAAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:143460 original size:40 final size:38
Alignment explanation
Indices: 143390--143466 Score: 100
Period size: 40 Copynumber: 2.0 Consensus size: 38
143380 GGTAAAAAGA
* *
143390 CATAATGATCGATACATTGTAGAATATATCGATACATT
1 CATAATGATCGATACATTGAAAAATATATCGATACATT
* *
143428 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATG-ATCGATACATTGAAAAATATATCGATACAT
143467 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 4 0.12
39 3 0.09
40 26 0.79
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (38 bp):
CATAATGATCGATACATTGAAAAATATATCGATACATT
Found at i:144412 original size:12 final size:12
Alignment explanation
Indices: 144395--144439 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
144385 AAGTCTATAT
144395 TAATATTTAAAA
1 TAATATTTAAAA
*
144407 TAATATTAAAAAA
1 TAATATT-TAAAA
* *
144420 TAATATTTATAT
1 TAATATTTAAAA
144432 TAATATTT
1 TAATATTT
144440 TTAATTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATATTTAAAA
Found at i:145213 original size:18 final size:18
Alignment explanation
Indices: 145186--145223 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
145176 TATAAATTTA
145186 GAACACATAAATAAATAT
1 GAACACATAAATAAATAT
* *
145204 GAACATATAACTAAATAT
1 GAACACATAAATAAATAT
145222 GA
1 GA
145224 CAATCCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (18 bp):
GAACACATAAATAAATAT
Found at i:153659 original size:32 final size:33
Alignment explanation
Indices: 153614--153675 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
153604 AACACGTTAC
*
153614 GAATATATGAACATGTCAAAATATATATAACAT
1 GAATATATGAACATATCAAAATATATATAACAT
* *
153647 GAAT-TATTAACATATCAAAATTTATATAA
1 GAATATATGAACATATCAAAATATATATAA
153676 ATATATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (33 bp):
GAATATATGAACATATCAAAATATATATAACAT
Found at i:153786 original size:18 final size:18
Alignment explanation
Indices: 153748--153796 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
153738 GAATTTTTAA
*
153748 AAATAAATTTAGAACACAT
1 AAATAAATAT-GAACACAT
*
153767 AAATAAATATGAACATAT
1 AAATAAATATGAACACAT
* *
153785 AACTAATTATGA
1 AAATAAATATGA
153797 CAATCCATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATAAATATGAACACAT
Found at i:159024 original size:3 final size:3
Alignment explanation
Indices: 159016--159051 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
159006 GACTAGGGTA
*
159016 ATT ATT ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
159052 TGCATGTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:162024 original size:106 final size:105
Alignment explanation
Indices: 161840--162033 Score: 280
Period size: 106 Copynumber: 1.8 Consensus size: 105
161830 TGTCAATATG
* * * *
161840 CAATATTTAATGAATTAAAAGACCTTACAACTTCATATATGTCATGTATGTTGGCAACATGTCAT
1 CAATATTTAATGAATTAAAAGACCTTACAACTTCATAAATATCATGTATGTTGACAACATGTCAC
161905 ACTTAATTTACCATATAATAATTAGGTGGTAGATTTTTTT
66 ACTTAATTTACCATATAATAATTAGGTGGTAGATTTTTTT
* * * ** * *
161945 CAATATTTAATGAAATTGAAAGACGTTACAATTTCATAAATATCATGTATGTTGATGACGTGTTA
1 CAATATTTAATG-AATTAAAAGACCTTACAACTTCATAAATATCATGTATGTTGACAACATGTCA
162010 CACTTAATTTACCATATAATAATT
65 CACTTAATTTACCATATAATAATT
162034 GAAAAATTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
105 12 0.16
106 65 0.84
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (105 bp):
CAATATTTAATGAATTAAAAGACCTTACAACTTCATAAATATCATGTATGTTGACAACATGTCAC
ACTTAATTTACCATATAATAATTAGGTGGTAGATTTTTTT
Found at i:162185 original size:22 final size:20
Alignment explanation
Indices: 162157--162210 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 20
162147 TTTGTTCTTT
162157 TATATAAATATAAACACATTAA
1 TATATAAATATAAA-ACA-TAA
162179 TATATAAATAT-AAACATAA
1 TATATAAATATAAAACATAA
162198 -ATATAAATATAAA
1 TATATAAATATAAA
162211 TGTATAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.32
19 5 0.16
20 3 0.10
21 2 0.06
22 11 0.35
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
TATATAAATATAAAACATAA
Found at i:162199 original size:12 final size:12
Alignment explanation
Indices: 162182--162211 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
162172 ACATTAATAT
162182 ATAAATATAAAC
1 ATAAATATAAAC
*
162194 ATAAATATAAAT
1 ATAAATATAAAC
162206 ATAAAT
1 ATAAAT
162212 GTATAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAAATATAAAC
Found at i:162975 original size:3 final size:3
Alignment explanation
Indices: 162967--163003 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
162957 CCCTTAAGTG
162967 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
163004 GCTTTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:163364 original size:11 final size:11
Alignment explanation
Indices: 163350--163374 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
163340 ATGCATTTAA
163350 AAATTAAAATT
1 AAATTAAAATT
163361 AAATTAAAATT
1 AAATTAAAATT
163372 AAA
1 AAA
163375 ATTATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:163366 original size:5 final size:6
Alignment explanation
Indices: 163349--163378 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
163339 AATGCATTTA
163349 AAAATT AAAATT -AAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT AAAATT A
163379 TATTTTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:164460 original size:29 final size:28
Alignment explanation
Indices: 164396--164460 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
164386 ATCAAACTTA
164396 AATTATT--ATTTAATAATAAAAAATAT
1 AATTATTAAATTTAATAATAAAAAATAT
** *
164422 TTTTATTTAAATTTAATTATAAAAATATAT
1 AATTA-TTAAATTTAATAATAAAAA-ATAT
164452 AATTATTAA
1 AATTATTAA
164461 TATAAAGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
26 3 0.10
27 2 0.07
29 18 0.60
30 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AATTATTAAATTTAATAATAAAAAATAT
Found at i:165107 original size:13 final size:13
Alignment explanation
Indices: 165089--165114 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
165079 TACAGCAAGT
165089 ATGTATCGATACA
1 ATGTATCGATACA
165102 ATGTATCGATACA
1 ATGTATCGATACA
165115 CAAAAAATTG
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:167046 original size:34 final size:36
Alignment explanation
Indices: 166983--167055 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 36
166973 ATAATATTAA
**
166983 AAAATAATATTTATATTAATATTTTTAA-TTAAA-T
1 AAAATAATATTTATATTAATATTAGTAATTTAAACT
*
167017 AAAATAAT-TTTTTATTAATATATAGTAATTTAAACT
1 AAAATAATATTTATATTAATAT-TAGTAATTTAAACT
167053 AAA
1 AAA
167056 TTGATTAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 12 0.36
34 12 0.36
35 5 0.15
36 4 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
AAAATAATATTTATATTAATATTAGTAATTTAAACT
Found at i:167777 original size:18 final size:18
Alignment explanation
Indices: 167750--167787 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
167740 TATAAATTTA
167750 GAACACATAAATAAATAT
1 GAACACATAAATAAATAT
* *
167768 GAACATATAACTAAATAT
1 GAACACATAAATAAATAT
167786 GA
1 GA
167788 CAATCCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (18 bp):
GAACACATAAATAAATAT
Found at i:172258 original size:41 final size:41
Alignment explanation
Indices: 172201--172287 Score: 174
Period size: 41 Copynumber: 2.1 Consensus size: 41
172191 GTGAATGATA
172201 TTTTTTTTAGAATAGTAATTTATGATAAATATAACTATAAC
1 TTTTTTTTAGAATAGTAATTTATGATAAATATAACTATAAC
172242 TTTTTTTTAGAATAGTAATTTATGATAAATATAACTATAAC
1 TTTTTTTTAGAATAGTAATTTATGATAAATATAACTATAAC
172283 TTTTT
1 TTTTT
172288 AATATTGTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (41 bp):
TTTTTTTTAGAATAGTAATTTATGATAAATATAACTATAAC
Found at i:172937 original size:13 final size:13
Alignment explanation
Indices: 172919--172944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
172909 TACACCAAGT
172919 ATGTATCGATACA
1 ATGTATCGATACA
172932 ATGTATCGATACA
1 ATGTATCGATACA
172945 CAAAAAATTG
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:172942 original size:32 final size:33
Alignment explanation
Indices: 172901--172964 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
172891 TAGCCAAACT
* **
172901 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
172933 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
172965 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:173466 original size:34 final size:35
Alignment explanation
Indices: 173403--173469 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
173393 CTAAGTGATT
173403 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
173439 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
173470 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:174497 original size:13 final size:13
Alignment explanation
Indices: 174479--174503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
174469 TTTTCCAGAT
174479 TGTATCGATACAA
1 TGTATCGATACAA
174492 TGTATCGATACA
1 TGTATCGATACA
174504 TTACTTCAGT
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:176378 original size:13 final size:13
Alignment explanation
Indices: 176360--176385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
176350 TACACCAAGT
176360 ATGTATCGATACA
1 ATGTATCGATACA
176373 ATGTATCGATACA
1 ATGTATCGATACA
176386 CAAAAAATTG
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:176383 original size:32 final size:33
Alignment explanation
Indices: 176342--176405 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
176332 TATCCAAACT
* **
176342 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
176374 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
176406 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:176907 original size:34 final size:35
Alignment explanation
Indices: 176844--176910 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
176834 CTAAGTGATT
176844 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
176880 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
176911 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:179471 original size:79 final size:78
Alignment explanation
Indices: 179340--179529 Score: 290
Period size: 79 Copynumber: 2.4 Consensus size: 78
179330 TTAAGGGAAT
179340 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGCGAGAAATCAATATTTTAGGAATAAAG
1 TCCCCTCG-AAATAACGGGGTTGGAGTATCCCCGATTGCGAGAAATCAATATTTTAGGAATAAAG
* **
179405 CTAGGGTTGGAGTA
65 CCAGGGTTAAAGTA
*
179419 TCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAG
1 TCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATTGCGAGAAATCAATATTTTAGGAATAAAG
*
179484 CCGGGGTTAAAGTA
65 CCAGGGTTAAAGTA
* *
179498 TCCCCTCGGAAGTGACGGGGTTGGAGTATCCC
1 TCCCCTC-GAAATAACGGGGTTGGAGTATCCC
179530 GATGATTAAC
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
79 101 0.99
80 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCCCTCGAAATAACGGGGTTGGAGTATCCCCGATTGCGAGAAATCAATATTTTAGGAATAAAGC
CAGGGTTAAAGTA
Found at i:181979 original size:20 final size:20
Alignment explanation
Indices: 181954--182007 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
181944 AAACTTCCAA
181954 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
181974 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
*
181994 GATGTATTGATACA
1 GATGTATCGATACA
182008 TTTTACAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (20 bp):
GATGTATCGATACAAAGATC
Found at i:182084 original size:19 final size:21
Alignment explanation
Indices: 182060--182111 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
182050 AGCGATACAC
*
182060 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
182079 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
182100 TGTATCGATACA
1 TGTATCGATACA
182112 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Done.