Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009160.1 Hibiscus syriacus cultivar Beakdansim tig00112688_pilon, whole genome shotgun sequence
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: 458650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:7487 original size:14 final size:14
Alignment explanation
Indices: 7468--7499 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7458 AATGAATGAG
*
7468 GATGGTTTTGAGAA
1 GATGGTTTTAAGAA
7482 GATGGTTTTAAGAA
1 GATGGTTTTAAGAA
7496 GATG
1 GATG
7500 TTGTTGAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (14 bp):
GATGGTTTTAAGAA
Found at i:24861 original size:108 final size:108
Alignment explanation
Indices: 24672--24887 Score: 432
Period size: 108 Copynumber: 2.0 Consensus size: 108
24662 CTGCATTAGG
24672 GAAAACAAATACAAAATTACCAATAGAAAGGTAATATAGAACATTCAAATACAATACACACCAGC
1 GAAAACAAATACAAAATTACCAATAGAAAGGTAATATAGAACATTCAAATACAATACACACCAGC
24737 TCTGCTCAACGAGAACTGCACAATCTGCTAGCTTTCTCCTCGT
66 TCTGCTCAACGAGAACTGCACAATCTGCTAGCTTTCTCCTCGT
24780 GAAAACAAATACAAAATTACCAATAGAAAGGTAATATAGAACATTCAAATACAATACACACCAGC
1 GAAAACAAATACAAAATTACCAATAGAAAGGTAATATAGAACATTCAAATACAATACACACCAGC
24845 TCTGCTCAACGAGAACTGCACAATCTGCTAGCTTTCTCCTCGT
66 TCTGCTCAACGAGAACTGCACAATCTGCTAGCTTTCTCCTCGT
24888 TCGAAAGCTC
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (108 bp):
GAAAACAAATACAAAATTACCAATAGAAAGGTAATATAGAACATTCAAATACAATACACACCAGC
TCTGCTCAACGAGAACTGCACAATCTGCTAGCTTTCTCCTCGT
Found at i:26882 original size:17 final size:18
Alignment explanation
Indices: 26860--26907 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
26850 ATATGAAATT
26860 AGATTTCAATTCC-TGAC
1 AGATTTCAATTCCTTGAC
*
26877 AGATTTCAATTCCTTTAC
1 AGATTTCAATTCCTTGAC
*
26895 ATATTTCAATTCC
1 AGATTTCAATTCC
26908 CTCATAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (18 bp):
AGATTTCAATTCCTTGAC
Found at i:31595 original size:17 final size:18
Alignment explanation
Indices: 31567--31609 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
31557 TTTATCTTTA
*
31567 TTATTATTATTTTTTATT
1 TTATTATTATTTCTTATT
31585 TTATT-TTATTTCTTATT
1 TTATTATTATTTCTTATT
*
31602 TTTTTATT
1 TTATTATT
31610 TATACGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (18 bp):
TTATTATTATTTCTTATT
Found at i:31677 original size:9 final size:8
Alignment explanation
Indices: 31648--31712 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
31638 TATATATATA
31648 TTTTTATT
1 TTTTTATT
* *
31656 TTTTAATC
1 TTTTTATT
*
31664 ATTTTATT
1 TTTTTATT
31672 ATTTTTATT
1 -TTTTTATT
*
31681 TCTTTA--
1 TTTTTATT
31687 TTTTTATT
1 TTTTTATT
*
31695 ATTTTATT
1 TTTTTATT
31703 TCTTTTATT
1 T-TTTTATT
31712 T
1 T
31713 CTATTACTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
6 5 0.12
8 23 0.53
9 15 0.35
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATT
Found at i:31686 original size:17 final size:17
Alignment explanation
Indices: 31666--31698 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31656 TTTTAATCAT
31666 TTTATTATTT-TTATTTC
1 TTTATT-TTTATTATTTC
31683 TTTATTTTTATTATTT
1 TTTATTTTTATTATTT
31699 TATTTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTATTTC
Found at i:31687 original size:14 final size:14
Alignment explanation
Indices: 31670--31717 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
31660 AATCATTTTA
31670 TTATTTTTATT-TCT
1 TTATTTTTATTAT-T
31684 TTATTTTTATTATT
1 TTATTTTTATTATT
31698 TTATTTCTT-TTATT
1 TTATTT-TTATTATT
31712 TCTATT
1 T-TATT
31718 ACTTTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 24 0.77
15 7 0.23
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTTTATTATT
Found at i:31695 original size:23 final size:23
Alignment explanation
Indices: 31646--31718 Score: 87
Period size: 23 Copynumber: 3.1 Consensus size: 23
31636 TATATATATA
31646 TATTTTTATTT-TTTAATCATTTTAT
1 TATTTTTATTTCTTT-AT--TTTTAT
31671 TATTTTTATTTCTTTATTTTTAT
1 TATTTTTATTTCTTTATTTTTAT
*
31694 TA-TTTTATTTCTTTTATTTCTAT
1 TATTTTTATTTC-TTTATTTTTAT
31717 TA
1 TA
31719 CTTTGTTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
22 9 0.20
23 20 0.44
25 13 0.29
26 3 0.07
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (23 bp):
TATTTTTATTTCTTTATTTTTAT
Found at i:31699 original size:31 final size:33
Alignment explanation
Indices: 31650--31714 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 33
31640 TATATATATT
31650 TTTATTTTTTAATCATTTTATTAT-TTTTATTTC
1 TTTATTTTTTAATCATTTTATT-TCTTTTATTTC
*
31683 TTTA-TTTTT-ATTATTTTATTTCTTTTATTTC
1 TTTATTTTTTAATCATTTTATTTCTTTTATTTC
31714 T
1 T
31715 ATTACTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 1 0.03
31 20 0.67
32 5 0.17
33 4 0.13
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.75
Consensus pattern (33 bp):
TTTATTTTTTAATCATTTTATTTCTTTTATTTC
Found at i:31827 original size:23 final size:22
Alignment explanation
Indices: 31797--31854 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
31787 CTCTCTTTTA
31797 TTTA-TTTAATTTATTTAATTT
1 TTTATTTTAATTTATTTAATTT
*
31818 TTTATCTTT-ATTGTATTTATTTT
1 TTTAT-TTTAATT-TATTTAATTT
31841 TTTATTTCTAATTT
1 TTTATTT-TAATTT
31855 CTAGTTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 4 0.13
22 5 0.16
23 19 0.61
24 3 0.10
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTATTTTAATTTATTTAATTT
Found at i:31876 original size:7 final size:7
Alignment explanation
Indices: 31792--31904 Score: 52
Period size: 7 Copynumber: 15.6 Consensus size: 7
31782 ATATACTCTC
31792 TTTTATT
1 TTTTATT
31799 TATTTAATT
1 T-TTT-ATT
31808 TATTTAATT
1 T-TTT-ATT
31817 TTTTA-T
1 TTTTATT
*
31823 CTTTATT
1 TTTTATT
31830 GTATTTATT
1 -T-TTTATT
31839 TTTT-TAT
1 TTTTAT-T
* *
31846 TTCTAAT
1 TTTTATT
* *
31853 TTCTAGT
1 TTTTATT
* *
31860 TTCTAGT
1 TTTTATT
31867 TTTTATT
1 TTTTATT
31874 TTTTATT
1 TTTTATT
*
31881 TTTT-TA
1 TTTTATT
* *
31887 TTATATA
1 TTTTATT
31894 TTTTATT
1 TTTTATT
31901 TTTT
1 TTTT
31905 CCCTTGTTCT
Statistics
Matches: 87, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
6 10 0.11
7 51 0.59
8 7 0.08
9 19 0.22
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTTATT
Found at i:32007 original size:15 final size:14
Alignment explanation
Indices: 31972--32018 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 14
31962 TTAACTTTAT
* *
31972 TTTATTTTATTTTA
1 TTTATCTTATCTTA
*
31986 TTT-TCTTTTCTTA
1 TTTATCTTATCTTA
31999 TCTTATCTTATCTTA
1 T-TTATCTTATCTTA
32014 TTTAT
1 TTTAT
32019 TTCATTTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 8 0.30
14 9 0.33
15 10 0.37
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATCTTATCTTA
Found at i:37422 original size:84 final size:83
Alignment explanation
Indices: 37268--38111 Score: 853
Period size: 84 Copynumber: 10.2 Consensus size: 83
37258 TTAAAGACAA
* * * *
37268 CATTTACGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCCTCGAGTTCGATTAC
*
37333 GCTCAGCTCCAAGGCACAT
65 ACTCAGCTCCAAGGCACAT
* * * * *
37352 CGTTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCCCGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCCTCGAGTTCGATTAC
* * *
37417 ACTCAGCTTCGAGGGCATAT
65 ACTCAGC-TCCAAGGCACAT
* * * * * *
37437 CATTTACAGCATAGCTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCG-TCTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCCTCGAGTTCGAT-TAC
* *
37501 GCTCAGCTCCAAGGTACAT
65 ACTCAGCTCCAAGGCACAT
* * *
37520 CATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCA--AAAGACCCCCGAGTTCGATTACA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCCTCGAGTTCGATTACA
* *
37583 CTCAGCTTCGAGGGCACAT
66 CTCAGC-TCCAAGGCACAT
* * * *
37602 CATTTACGGTATAACTTAAGTCGAGAAGGGTCATCTGCCAACCAAAGACCCCCGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCCTCGAGTTCGATTAC
* * *
37667 ACTCAGCTTCGAGGGCATAT
65 ACTCAGC-TCCAAGGCACAT
* * * * * * *
37687 CATTTACAGCATAACTCAAGGT-TATAAGGGTTATATGTCACCAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAA-GTCGAGAAGGGTTATCTGCCACCAAAGACCCTCGAGTTCGATTAC
*
37751 ACTCAGCTCCAAGGTACAT
65 ACTCAGCTCCAAGGCACAT
* * * * * * *
37770 CATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCCTCGAGTTCGATTAC
* *
37835 GCTCAGCTCCAAGGCATAT
65 ACTCAGCTCCAAGGCACAT
** * * **
37854 CATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTTAAGTTCGATTACA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCCTCGAGTTCGATTACA
* * *
37916 CTCAGCTTCAAGGGGATAT
66 CTCAGCTCCAA-GGCACAT
* * * * * * *
37935 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCCTCGAGTTCGATTACA
38000 CTCAGCTCCAAGGCACAT
66 CTCAGCTCCAAGGCACAT
* * *
38018 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCCCCGAGTTCGATTACA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCCTCGAGTTCGATTACA
* * * *
38080 CTCAACTTCGAGGTCATAT
66 CTCAGCTCCAAGG-CACAT
*
38099 CATTTACAACATA
1 CATTTACAGCATA
38112 GCTCAAGGCA
Statistics
Matches: 633, Mismatches: 112, Indels: 33
0.81 0.14 0.04
Matches are distributed among these distances:
80 62 0.10
81 75 0.12
82 46 0.07
83 119 0.19
84 219 0.35
85 110 0.17
86 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCCTCGAGTTCGATTACA
CTCAGCTCCAAGGCACAT
Found at i:37758 original size:250 final size:249
Alignment explanation
Indices: 37268--38132 Score: 1148
Period size: 250 Copynumber: 3.5 Consensus size: 249
37258 TTAAAGACAA
* * ***
37268 CATTTACGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-A--AAAGACCCCCGAGTTCGATTAC
* * *
37333 GCTCAGCTCCAAGGCACATCGTTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAA
63 ACTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAA
*
37398 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAGCTCAAGGCTAGA
128 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGA
* *
37463 AGGGTTATCTGTCACCAAAGACCTTCGAGTTCGTCTACGCTCAGCTCCAAGGTACAT
193 AGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGTACAT
* *
37520 CATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACT
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCCCCGAGTTCGATTACACT
* * * * *
37585 CAGCTTCGAGGGCACATCATTTACGGTATAACTTAAGTCGAGAAGGG-TCATCTGCCAACCAAAG
66 CAGC-TCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCT-ATCTGCCAACCAAAG
* *
37649 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGTTATAA
129 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAA
*
37714 GGGTTATATGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGTACAT
194 GGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGTACAT
* * * * ***
37770 CATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CAAAAGACCCCCGAGTTCGATTAC
* * **
37835 GCTCAGCTCCAAGGCATATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAA
63 ACTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAA
*** * *
37896 GACCCTTAAGTTCGATTACACTCAGCTTCAAGGGGATATCATTTACAGCATAACTCAAGGCTAGA
128 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGA
* * * *
37961 AGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACAT
193 AGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGTACAT
* *
38018 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC-AAAGACCCCCGAGTTCGATTACACT
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCCCCGAGTTCGATTACACT
* * * * * * * *
38082 CAACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGGCTAT
66 CAGCTCCAAGG-CACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTAT
38133 TTGTCAATAA
Statistics
Matches: 538, Mismatches: 68, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
244 29 0.05
245 34 0.06
247 1 0.00
248 148 0.28
249 26 0.05
250 196 0.36
251 2 0.00
252 74 0.14
253 28 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (249 bp):
CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCCCCGAGTTCGATTACACT
CAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGAC
CCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGG
GTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGTACAT
Found at i:37877 original size:334 final size:333
Alignment explanation
Indices: 37268--38128 Score: 1040
Period size: 334 Copynumber: 2.6 Consensus size: 333
37258 TTAAAGACAA
*
37268 CATTTACGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTACGGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTAC
* * * * *
37333 GCTCAGCTCCAAGGCACATCGTTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAA
66 ACTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGTCGAGAAGGGCTATATGCCAACCAAA
* * * * * *
37398 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAGCTCAAGGCTAGA
131 GACCCCCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTACAGCACAACTCAAGGCTAGA
* * *
37463 AGGGTTATCTGTCACCAAAGACCTTCGAGTTCGTCTACGCTCAGCTCCAAGGTACATCATTTACA
196 AGGGTTATCTGCCACAAAAGACCTTCGAGTTCGTCTACGCTCAGCTCCAAGGCACATCATTTACA
* *
37528 GCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTTCG
261 GCATAGCTTAAGTCGAGAAGGGCTATCTGCC-AAAGACCCCCAAGTTCGATTACACTCAGCTTCA
37593 AGGGCACAT
325 AGGGCACAT
* * ***
37602 CATTTACGGTATAACTTAAGTCGAGAAGGGTCATCTGCCAACCAAAGACCCCCGAGTTCGATTAC
1 CATTTACGGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTAC
* * * * * * * *
37667 ACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGT-TATAAGGGTTATATGTC-ACCA
66 ACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTCAA-GTCGAGAAGGGCTATATGCCAACCA
** * * * *
37730 AAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGTACATCATTTGCAGCACAACTTAAGTCTA
129 AAGACCCCCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTACAGCACAACTCAAGGCTA
* * *
37794 GAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGAT-TACGCTCAGCTCCAAGGCATATCATT
194 GAAGGGTTATCTGCC-ACAAAAGACCTTCGAGTTCG-TCTACGCTCAGCTCCAAGGCACATCATT
** **
37858 TGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCT
257 TACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCT
* *
37923 TCAAGGGGATAT
322 TCAAGGGCACAT
* * * * *
37935 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACCTTTGAGTTCGATTAC
1 CATTTACGGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTAC
* * **
37999 ACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG-T-TAT--CTGCCAAA
66 ACTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGTCGAGAAGGGCTATATGCCAACCAAA
* * * * * * * *
38060 GACCCCCGAGTTCGATTACACTCAACTT-CGAGGTCATATCATTTACAACATAGCTCAAGGCAAG
131 GACCCCCGAGTTCGACTACACTCAGCTTCCAAGG-CACATCATTTACAGCACAACTCAAGGCTAG
38124 AAGGG
195 AAGGG
38129 CTATTTGTCA
Statistics
Matches: 441, Mismatches: 78, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
327 1 0.00
328 31 0.07
329 30 0.07
330 3 0.01
331 31 0.07
332 27 0.06
333 110 0.25
334 169 0.38
335 37 0.08
336 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (333 bp):
CATTTACGGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTAC
ACTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGTCGAGAAGGGCTATATGCCAACCAAA
GACCCCCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTACAGCACAACTCAAGGCTAGA
AGGGTTATCTGCCACAAAAGACCTTCGAGTTCGTCTACGCTCAGCTCCAAGGCACATCATTTACA
GCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAA
GGGCACAT
Found at i:39692 original size:3 final size:3
Alignment explanation
Indices: 39684--39708 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
39674 CCTTTTATCT
39684 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
39709 ATTTCTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:39813 original size:29 final size:30
Alignment explanation
Indices: 39759--39822 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
39749 TATATATATA
*
39759 TATTATTTTTTTATTTTTTATCATTT-TAT
1 TATTTTTTTTTTATTTTTTATCATTTCTAT
* * * *
39788 TATTTTTTTTTTTTTTTTTTTTATTTCTTT
1 TATTTTTTTTTTATTTTTTATCATTTCTAT
39818 TATTT
1 TATTT
39823 CTATTACTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (30 bp):
TATTTTTTTTTTATTTTTTATCATTTCTAT
Found at i:39824 original size:9 final size:8
Alignment explanation
Indices: 39761--39822 Score: 67
Period size: 7 Copynumber: 7.8 Consensus size: 8
39751 TATATATATA
39761 TTATTTTT
1 TTATTTTT
39769 TTATTTTT
1 TTATTTTT
*
39777 TATCATTTTA
1 T-T-ATTTTT
39787 TTA-TTTT
1 TTATTTTT
39794 TT-TTTTT
1 TTATTTTT
39801 TT-TTTTT
1 TTATTTTT
39808 TTATTTCTT
1 TTATTT-TT
39817 TTATTT
1 TTATTT
39823 CTATTACTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
7 18 0.38
8 13 0.28
9 10 0.21
10 6 0.13
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (8 bp):
TTATTTTT
Found at i:39947 original size:23 final size:22
Alignment explanation
Indices: 39917--39974 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
39907 CTCTCTTTTA
39917 TTTA-TTTAATTTATTTAATTT
1 TTTATTTTAATTTATTTAATTT
*
39938 TTTATCTTT-ATTGTATTTATTTT
1 TTTAT-TTTAATT-TATTTAATTT
39961 TTTATTTCTAATTT
1 TTTATTT-TAATTT
39975 CTAGTTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 4 0.13
22 5 0.16
23 19 0.61
24 3 0.10
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTATTTTAATTTATTTAATTT
Found at i:40060 original size:15 final size:16
Alignment explanation
Indices: 40040--40071 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
40030 TCTTTATATT
40040 TTTATTAT-TTTTTCC
1 TTTATTATATTTTTCC
40055 TTTATTATATTTTTCC
1 TTTATTATATTTTTCC
40071 T
1 T
40072 ATTTAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTATATTTTTCC
Found at i:43841 original size:42 final size:42
Alignment explanation
Indices: 43773--43859 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
43763 GCAGTCCAGT
*
43773 GAGCCCAAAAGAAGTTAGAAGTCCAGTGAGAGGCAGAAGCCG
1 GAGCCCAAAAGAAGTTAGAAGCCCAGTGAGAGGCAGAAGCCG
* * *
43815 GAGCCCAAGAGAGGTTGGAAGCCCAGTGAGAGGCAGAAGCCG
1 GAGCCCAAAAGAAGTTAGAAGCCCAGTGAGAGGCAGAAGCCG
43857 GAG
1 GAG
43860 TCCATACCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.38, T:0.08
Consensus pattern (42 bp):
GAGCCCAAAAGAAGTTAGAAGCCCAGTGAGAGGCAGAAGCCG
Found at i:48867 original size:17 final size:17
Alignment explanation
Indices: 48845--48880 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
48835 TTGTTATTTT
48845 TAATCTTCTATGAATCA
1 TAATCTTCTATGAATCA
48862 TAATCTTCTATGAATCA
1 TAATCTTCTATGAATCA
48879 TA
1 TA
48881 GTGGTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (17 bp):
TAATCTTCTATGAATCA
Found at i:54980 original size:40 final size:40
Alignment explanation
Indices: 54925--55004 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
54915 GTCCGATAAC
*
54925 AAACCATGTCTAACTCATCATACAAAACTAAGATCAATGT
1 AAACCATGTCTAACTCATCACACAAAACTAAGATCAATGT
54965 AAACCATGTCTAACTCATCACACAAAACTAAGATCAATGT
1 AAACCATGTCTAACTCATCACACAAAACTAAGATCAATGT
55005 CGATTACGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (40 bp):
AAACCATGTCTAACTCATCACACAAAACTAAGATCAATGT
Found at i:57444 original size:27 final size:27
Alignment explanation
Indices: 57406--57459 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
57396 AATAAAGTAT
*
57406 GAACCTCATGCCTCCCTTATCTTCCTC
1 GAACCCCATGCCTCCCTTATCTTCCTC
*
57433 GAACCCCATGCCTCCCTTGTCTTCCTC
1 GAACCCCATGCCTCCCTTATCTTCCTC
57460 CTTCCCACGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.13, C:0.46, G:0.09, T:0.31
Consensus pattern (27 bp):
GAACCCCATGCCTCCCTTATCTTCCTC
Found at i:66767 original size:16 final size:16
Alignment explanation
Indices: 66748--66778 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66738 TTTATATGTA
66748 AATAAAAAAATATTTT
1 AATAAAAAAATATTTT
*
66764 AATAAAAATATATTT
1 AATAAAAAAATATTT
66779 AACATATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAAAAAAATATTTT
Found at i:68376 original size:59 final size:59
Alignment explanation
Indices: 68266--68386 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 59
68256 AAATGTCCGT
* * * * * *
68266 AAACTATGACATTTATTATAAATTGGTTCTAAACTTTTAAATATTCAAATTTTGTTCCC
1 AAACTATGACATTCATTATAAATTGGTCCAAAACTTTTAAATACTCAAATTTTATCCCC
* *
68325 AAACTATGACCA-TCATTCTAAATTGGTCCAAAAACTTTTAAAT-CTCTAATTTTATCCCC
1 AAACTATGA-CATTCATTATAAATTGGTCC-AAAACTTTTAAATACTCAAATTTTATCCCC
68384 AAA
1 AAA
68387 TTCGTCCAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
59 38 0.73
60 14 0.27
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (59 bp):
AAACTATGACATTCATTATAAATTGGTCCAAAACTTTTAAATACTCAAATTTTATCCCC
Found at i:69429 original size:2 final size:2
Alignment explanation
Indices: 69417--69452 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
69407 ATACCTCTAC
69417 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
69453 TTAATTACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:70831 original size:25 final size:25
Alignment explanation
Indices: 70772--70838 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
70762 AAATATATTT
* * *
70772 TATTCTTATCTTAAGTTCAAAATATA
1 TATT-TTATTTTAATTTAAAAATATA
70798 TATTTTATTTTAATTTAAAAATATA
1 TATTTTATTTTAATTTAAAAATATA
*
70823 TATTTTATTTTTATTT
1 TATTTTATTTTAATTT
70839 TATTGTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (25 bp):
TATTTTATTTTAATTTAAAAATATA
Found at i:70910 original size:31 final size:31
Alignment explanation
Indices: 70749--70910 Score: 142
Period size: 31 Copynumber: 5.5 Consensus size: 31
70739 TAAATTCATG
* * *
70749 TCTTAATATGAAAAAATATATTTTATTCTTA
1 TCTTAATTTTAAAAAATATATTTTATTTTTA
* *
70780 TCTTAA-GTT-CAAAATATA---TA-TTTTA
1 TCTTAATTTTAAAAAATATATTTTATTTTTA
*
70805 TTTTAA-TTTAAAAATATATATTTTATTTTTA
1 TCTTAATTTTAAAAA-ATATATTTTATTTTTA
* * * * *
70836 T-TTTATTGTAATAAATATAATTTGTTTTTA
1 TCTTAATTTTAAAAAATATATTTTATTTTTA
* *
70866 TCTTAACTATAAAAAATATATTTTATTTTTA
1 TCTTAATTTTAAAAAATATATTTTATTTTTA
70897 TCTTAATTTTAAAA
1 TCTTAATTTTAAAA
70911 TATTACTAGA
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
25 11 0.11
26 5 0.05
27 5 0.05
29 8 0.08
30 21 0.20
31 53 0.51
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (31 bp):
TCTTAATTTTAAAAAATATATTTTATTTTTA
Found at i:73673 original size:60 final size:60
Alignment explanation
Indices: 73537--73664 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
73527 ATAGTCGAGT
* * * * * * *
73537 GACCATTCTGTAACTTTTAATAGTCAGAGGACTCAACAAAACAACATCTTATAATTGATG
1 GACCATTTTATAACTTTTAACAGTCAAAGGACTCAACAAAACAACACCCTATAATTGAGG
* * * * *
73597 GACCATTTTATAACTTTTAACAGTTAAAGGACTGAATAAAGCAACACCCTATAGTTGAGG
1 GACCATTTTATAACTTTTAACAGTCAAAGGACTCAACAAAACAACACCCTATAATTGAGG
73657 GACCATTT
1 GACCATTT
73665 ATTTACTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAACAGTCAAAGGACTCAACAAAACAACACCCTATAATTGAGG
Found at i:73891 original size:16 final size:17
Alignment explanation
Indices: 73867--73909 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
73857 ATTAGTTAAA
*
73867 AATTTAAATATAAT-TT
1 AATTAAAATATAATATT
73883 AATTAAAATATAATATT
1 AATTAAAATATAATATT
*
73900 TA-TAAAATAT
1 AATTAAAATAT
73910 TAGTTTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAAATATAATATT
Found at i:77342 original size:41 final size:41
Alignment explanation
Indices: 77280--77573 Score: 245
Period size: 41 Copynumber: 7.1 Consensus size: 41
77270 CGGCGTTACG
* * *
77280 CCGCTATAGACGTGCATTTTAGTGGCGTTTTTATACAAACA
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
* * *
77321 CTGCTATAGACTTGTACTTTAGTGGCATTTTTATAC-AACG
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
** * *
77361 CCGCTATAGACTTGTGTTTTAGTAGCGTTTTTAATTACAAACG
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTT-A-TACAAACA
* ** * * * *
77404 CCGCTAAAGACTAATACTTTAGCGGCTTTTTTATAAAAACG
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
* *
77445 TCGCTATAGACTCTTGT--TTTAGTGGCATTTTTATACAAA-A
1 CCGCTATAGA--CTTGTACTTTAGTGGCGTTTTTATACAAACA
* * *
77485 GCCGCTATAGACTTGTGCTTTAGTGGTGTTTTTCATTACAAACG
1 -CCGCTATAGACTTGTACTTTAGTGGCGTTTTT-A-TACAAACA
** ** * *
77529 CCGCTATAGACACGTGTTTTAGTGGCGTTTTTGTACAAACG
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
77570 CCGC
1 CCGC
77574 GAATTTACAG
Statistics
Matches: 205, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
39 5 0.02
40 30 0.15
41 100 0.49
42 5 0.02
43 65 0.32
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (41 bp):
CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
Found at i:77528 original size:84 final size:81
Alignment explanation
Indices: 77296--77573 Score: 310
Period size: 84 Copynumber: 3.4 Consensus size: 81
77286 TAGACGTGCA
* *
77296 TTTTAGTGGCGTTTTTATACAAACA-CTGCTATAGACTTGTACTTTAGTGGCATTTTTATAC-AA
1 TTTTAGTGGCGTTTTTATACAAA-AGCCGCTATAGACTTGTACTTTAGTGG-TTTTTTATACAAA
77359 CGCCGCTATAGACT-TGTG
64 CGCCGCTATAGACTCT-TG
* * * ** * *
77377 TTTTAGTAGCGTTTTTAATTACAAACGCCGCTAAAGACTAATACTTTAGCGGCTTTTTTATAAAA
1 TTTTAGTGGCGTTTTT-A-TACAAAAGCCGCTATAGACTTGTACTTTAGTGG-TTTTTTATACAA
*
77442 ACGTCGCTATAGACTCTTG
63 ACGCCGCTATAGACTCTTG
* *
77461 TTTTAGTGGCATTTTTATACAAAAGCCGCTATAGACTTGTGCTTTAGTGGTGTTTTTCATTACAA
1 TTTTAGTGGCGTTTTTATACAAAAGCCGCTATAGACTTGTACTTTAGTGGT-TTTTT-A-TACAA
* *
77526 ACGCCGCTATAGACACGTG
63 ACGCCGCTATAGACTCTTG
* *
77545 TTTTAGTGGCGTTTTTGTACAAACGCCGC
1 TTTTAGTGGCGTTTTTATACAAAAGCCGC
77574 GAATTTACAG
Statistics
Matches: 164, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
81 16 0.10
82 33 0.20
83 37 0.23
84 77 0.47
85 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (81 bp):
TTTTAGTGGCGTTTTTATACAAAAGCCGCTATAGACTTGTACTTTAGTGGTTTTTTATACAAACG
CCGCTATAGACTCTTG
Found at i:77533 original size:125 final size:123
Alignment explanation
Indices: 77297--77539 Score: 339
Period size: 125 Copynumber: 2.0 Consensus size: 123
77287 AGACGTGCAT
* *
77297 TTTAGTGGCGTTTTTATACAAACACTGCTATAGACTTGTACTTTAGTGGCATTTTTATACAACGC
1 TTTAGCGGCGTTTTTATACAAACACTGCTATAGACTTGTA-TTTAGTGGCATTTTTATACAAAGC
*
77362 CGCTATAGACTTGTGTTTTAGTAGCGTTTTTAATTACAAACGCCGCTAAAGACTAATAC
65 CGCTATAGACTTGTGCTTTAGTAGCGTTTTTAATTACAAACGCCGCTAAAGACTAATAC
*
77421 TTTAGCGGCTTTTTTATA-AAA-ACGTCGCTATAGACTCTTGT-TTTAGTGGCATTTTTATACAA
1 TTTAGCGGCGTTTTTATACAAACAC-T-GCTATAGA--CTTGTATTTAGTGGCATTTTTATAC-A
* * * *
77483 AAGCCGCTATAGACTTGTGCTTTAGTGGTGTTTTTCATTACAAACGCCGCTATAGAC
61 AAGCCGCTATAGACTTGTGCTTTAGTAGCGTTTTTAATTACAAACGCCGCTAAAGAC
77540 ACGTGTTTTA
Statistics
Matches: 106, Mismatches: 8, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
122 2 0.02
123 4 0.04
124 43 0.41
125 52 0.49
126 5 0.05
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (123 bp):
TTTAGCGGCGTTTTTATACAAACACTGCTATAGACTTGTATTTAGTGGCATTTTTATACAAAGCC
GCTATAGACTTGTGCTTTAGTAGCGTTTTTAATTACAAACGCCGCTAAAGACTAATAC
Found at i:80536 original size:43 final size:43
Alignment explanation
Indices: 80451--80584 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 43
80441 AAGGTAATTA
* * * *
80451 GCGGCGTTTGTATCCAAAAACATCACTATAGAT-ATGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGTCGCTATAGATCTTGATCTTTT
* *
80494 GCGGCGTTTGTCCCAAAAATGTCGCTATAGATCTTGATCTTTT
1 GCGGCGTTTGTTCCAAAAACGTCGCTATAGATCTTGATCTTTT
* * *
80537 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGGATCTATT
1 GCGGCGTTTGTTCCAAAAACGTCGCTATAGATCTTGATCTTTT
80580 GCGGC
1 GCGGC
80585 ATTTTTTGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 17 0.22
43 62 0.78
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (43 bp):
GCGGCGTTTGTTCCAAAAACGTCGCTATAGATCTTGATCTTTT
Found at i:85028 original size:2 final size:2
Alignment explanation
Indices: 85010--85061 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
85000 TATATTGTAA
* *
85010 AT AT AT TT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85052 AT AT AT AT AT
1 AT AT AT AT AT
85062 TATGTCCACC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:86612 original size:17 final size:17
Alignment explanation
Indices: 86590--86624 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
86580 TTGAAGCTCG
86590 ATTCAAGGTCGAACTCA
1 ATTCAAGGTCGAACTCA
86607 ATTCAAGGTCGAACTCA
1 ATTCAAGGTCGAACTCA
86624 A
1 A
86625 ACTCGAATTT
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:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (17 bp):
ATTCAAGGTCGAACTCA
Found at i:91019 original size:2 final size:2
Alignment explanation
Indices: 91012--91036 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
91002 ATATTCAAAT
91012 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
91037 TAAATGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:91418 original size:20 final size:20
Alignment explanation
Indices: 91373--91465 Score: 132
Period size: 20 Copynumber: 4.6 Consensus size: 20
91363 AATATAAAAA
* *
91373 TCGCAACGCGATCTTCCAGAT
1 TCGCAACGCGAT-TTTCAGTT
*
91394 TCGCAACGCGATTTTCAGCT
1 TCGCAACGCGATTTTCAGTT
*
91414 TCGCAACGTGATTTTCAGTT
1 TCGCAACGCGATTTTCAGTT
91434 TCGCAACGCGATTTTCAGTT
1 TCGCAACGCGATTTTCAGTT
*
91454 TCGTAACGCGAT
1 TCGCAACGCGAT
91466 CTTCCAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
20 54 0.82
21 12 0.18
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (20 bp):
TCGCAACGCGATTTTCAGTT
Found at i:91445 original size:40 final size:41
Alignment explanation
Indices: 91373--91485 Score: 156
Period size: 40 Copynumber: 2.8 Consensus size: 41
91363 AATATAAAAA
91373 TCGCAACGCGATCTTCCAGATTCGCAACGCGATTTTCAGCT
1 TCGCAACGCGATCTTCCAGATTCGCAACGCGATTTTCAGCT
* * * *
91414 TCGCAACGTGAT-TTTCAGTTTCGCAACGCGATTTTCAGTT
1 TCGCAACGCGATCTTCCAGATTCGCAACGCGATTTTCAGCT
* * *
91454 TCGTAACGCGATCTTCCAAAATCGCAACGCGA
1 TCGCAACGCGATCTTCCAGATTCGCAACGCGA
91486 CTGATGGTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 35 0.57
41 26 0.43
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
TCGCAACGCGATCTTCCAGATTCGCAACGCGATTTTCAGCT
Found at i:99934 original size:64 final size:63
Alignment explanation
Indices: 99845--100009 Score: 188
Period size: 64 Copynumber: 2.5 Consensus size: 63
99835 ATGCACATTC
* * *
99845 ATAAGTGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCA-TCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACA
* * *
99909 GATAATGCATCGATGCATCCTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACA
* *
99973 AGTAGTGCATCGATGCATACCTTCATTGAAAGAAGAA
1 A-TAATGCATCGATGCAT-CCTT--TTAAAAGAAGAA
100010 ATGGGCTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
63 4 0.05
64 64 0.75
65 8 0.09
67 9 0.11
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (63 bp):
ATAATGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:100491 original size:17 final size:19
Alignment explanation
Indices: 100469--100504 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
100459 GATTTACATG
100469 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
100486 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
100505 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:100732 original size:31 final size:31
Alignment explanation
Indices: 100638--100745 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
100628 AGTCGAGGGT
* *
100638 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
100669 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
100700 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
100731 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
100746 ATGACCTCTG
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
30 13 0.21
31 47 0.75
32 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:100752 original size:30 final size:30
Alignment explanation
Indices: 100660--100766 Score: 90
Period size: 31 Copynumber: 3.5 Consensus size: 30
100650 TTTCGAGACA
* * * *
100660 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
100691 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAGGACC
* *
100722 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
100752 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
100767 GGGTCTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
30 29 0.46
31 30 0.48
32 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:103152 original size:30 final size:30
Alignment explanation
Indices: 103096--103155 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
103086 GGGAGTTTTT
*
103096 AATGAGACCTCCAACTTCTATCAAAAAAAA
1 AATGAGACCTCCAACTTCTATAAAAAAAAA
* *
103126 AATGAGGCCTTCAA-TTCCTATAAAAAAAAA
1 AATGAGACCTCCAACTT-CTATAAAAAAAAA
103156 CTCCATGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.50, C:0.20, G:0.08, T:0.22
Consensus pattern (30 bp):
AATGAGACCTCCAACTTCTATAAAAAAAAA
Found at i:104171 original size:20 final size:20
Alignment explanation
Indices: 104146--104236 Score: 81
Period size: 20 Copynumber: 5.0 Consensus size: 20
104136 TAAATTAAAT
104146 ATTAGATAGAATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
104166 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
104186 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
104198 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
104218 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
104237 TTATTCTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
12 3 0.05
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.05
18 1 0.02
19 2 0.04
20 39 0.71
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:104259 original size:53 final size:53
Alignment explanation
Indices: 104145--104294 Score: 252
Period size: 53 Copynumber: 2.9 Consensus size: 53
104135 CTAAATTAAA
* *
104145 TATTAGATAGAATCAGTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
*
104197 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTTTTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
104250 TATTAGATAGGATCATTTTTAATTAGATAGAATC--TTTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCT
104295 GTTGCTAATT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 11 0.12
52 34 0.36
53 49 0.52
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (53 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
Found at i:104276 original size:20 final size:20
Alignment explanation
Indices: 104251--104290 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
104241 TCTTTTAGTT
*
104251 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
*
104271 ATTAGATAGAATCTTTTTTA
1 ATTAGATAGAATCATTTTTA
104291 TTCTGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:107567 original size:20 final size:20
Alignment explanation
Indices: 107542--107652 Score: 103
Period size: 20 Copynumber: 6.0 Consensus size: 20
107532 TAAATTAAAT
107542 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGGATCAGTTTTA
* *
107562 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGGATCAGTTTTA
* *
107582 ATT--CT---ATTAG--TT-
1 ATTAGATAGGATCAGTTTTA
*
107594 ATTAGATAGGATCATTTTTA
1 ATTAGATAGGATCAGTTTTA
*
107614 ATTAGATAGGATCATTTTTA
1 ATTAGATAGGATCAGTTTTA
*
107634 ATTAGATAGAATCAGTTTT
1 ATTAGATAGGATCAGTTTT
107653 TTATTCTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
12 3 0.04
13 2 0.03
14 1 0.01
15 4 0.05
17 3 0.04
18 1 0.01
19 2 0.03
20 58 0.78
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGGATCAGTTTTA
Found at i:107692 original size:20 final size:20
Alignment explanation
Indices: 107667--107706 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
107657 TCTATTAGTT
*
107667 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
*
107687 ATTAGATAGAATCTTTTTTA
1 ATTAGATAGAATCATTTTTA
107707 TTCTGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:107704 original size:72 final size:72
Alignment explanation
Indices: 107542--107706 Score: 294
Period size: 73 Copynumber: 2.3 Consensus size: 72
107532 TAAATTAAAT
*
107542 ATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATC
1 ATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATC
107607 ATTTTTA
66 ATTTTTA
107614 ATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGTTATTAGATAGGAT
1 ATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGTTATTAGATAGGAT
107679 CATTTTTA
65 CATTTTTA
* *
107687 ATTAGATAGAATCTTTTTTA
1 ATTAGATAGGATCATTTTTA
107707 TTCTGTTGCT
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 34 0.38
73 55 0.62
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.47
Consensus pattern (72 bp):
ATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATC
ATTTTTA
Found at i:108699 original size:33 final size:33
Alignment explanation
Indices: 108657--108723 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
108647 GTCAACATGA
108657 AAGAAAATTTGCCAAATTTTAACATACAAAGAT
1 AAGAAAATTTGCCAAATTTTAACATACAAAGAT
108690 AAGAAAATTTGCCAAATTTTAACATACAAAGAT
1 AAGAAAATTTGCCAAATTTTAACATACAAAGAT
108723 A
1 A
108724 TAAATGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (33 bp):
AAGAAAATTTGCCAAATTTTAACATACAAAGAT
Found at i:114521 original size:19 final size:19
Alignment explanation
Indices: 114499--114538 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
114489 TGATTTGTAT
*
114499 TATTATTCATAATTTTTTA
1 TATTATTAATAATTTTTTA
* *
114518 TATTTTTAATATTTTTTTA
1 TATTATTAATAATTTTTTA
114537 TA
1 TA
114539 AAAAGTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTAATAATTTTTTA
Found at i:128961 original size:17 final size:18
Alignment explanation
Indices: 128941--128977 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
128931 TTAAATATTA
*
128941 TTTTA-AATAATTACATT
1 TTTTATAATAATAACATT
128958 TTTTATAATAATAACATT
1 TTTTATAATAATAACATT
128976 TT
1 TT
128978 CACCTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTATAATAATAACATT
Found at i:129093 original size:3 final size:3
Alignment explanation
Indices: 129085--129111 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
129075 CTTTGTATAG
129085 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
129112 CAAATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:146638 original size:64 final size:63
Alignment explanation
Indices: 146540--146700 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
146530 TAATGAAGGT
* * *
146540 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAAT--
*
146603 AG
62 AC
*
146605 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
* *
146669 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
146701 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
63 1 0.01
64 57 0.67
65 24 0.28
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
Found at i:149520 original size:2 final size:2
Alignment explanation
Indices: 149513--149570 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
149503 CCAATTAATG
149513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
149555 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
149571 CACTCAATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:158376 original size:30 final size:30
Alignment explanation
Indices: 158342--158402 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
158332 TTATATTCTT
158342 ATTAA-AATTAAAATTAAATAATAATAAAGG
1 ATTAATAATT-AAATTAAATAATAATAAAGG
*
158372 ATTAATGATTAAATTAAATAATAATAAAGG
1 ATTAATAATTAAATTAAATAATAATAAAGG
158402 A
1 A
158403 GTTAGTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (30 bp):
ATTAATAATTAAATTAAATAATAATAAAGG
Found at i:163710 original size:42 final size:43
Alignment explanation
Indices: 163628--163877 Score: 107
Period size: 42 Copynumber: 6.0 Consensus size: 43
163618 GCGCCACAAA
** * *
163628 TTGATACTTTAGCGGCGTTTGTTGTAAAAACGCTGTAATAGAT
1 TTGATACTTTAGCGGCGTTTGTTACAAAAACGCCGCAATAGAT
*
163671 TTGATA-TTTAGCGGCGTTT-TTACAAAAACCGCCGCAATAG-G
1 TTGATACTTTAGCGGCGTTTGTTACAAAAA-CGCCGCAATAGAT
* * * * *
163712 GTGGT--TTATTGCGCCGTTTGTTA-AAAAATGCCGCAATAGA-
1 TTGATACTT-TAGCGGCGTTTGTTACAAAAACGCCGCAATAGAT
* * ** * * *
163752 GTGGTAAATTAGCGGCGTTT-ATACCATAAACGCCGTAATAGA-
1 TTGATACTTTAGCGGCGTTTGTTA-CAAAAACGCCGCAATAGAT
* * * *
163794 TT-A-ACATATAGTGGTG-TT-TTAGCCAAAACGCCGCAATAGA-
1 TTGATAC-TTTAGCGGCGTTTGTTA-CAAAAACGCCGCAATAGAT
* * ** *
163834 TCGGTAAATTAGCGGCGTTT-ATACCAAAAACGCCGCAATAGAT
1 TTGATACTTTAGCGGCGTTTGTTA-CAAAAACGCCGCAATAGAT
163877 T
1 T
163878 ACACATATAG
Statistics
Matches: 155, Mismatches: 39, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
40 40 0.26
41 45 0.29
42 63 0.41
43 7 0.05
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (43 bp):
TTGATACTTTAGCGGCGTTTGTTACAAAAACGCCGCAATAGAT
Found at i:163771 original size:41 final size:42
Alignment explanation
Indices: 163678--163875 Score: 148
Period size: 40 Copynumber: 4.8 Consensus size: 42
163668 GATTTGATAT
* **
163678 TTAGCGGCGTTTTTACAAAAACCGCCGCAATAGGGTGGTTTA
1 TTAGCGGCGTTTTTACAAAAACCGCCGCAATAGAGTGGTAAA
* *
163720 TT-GCGCCGTTTGTTA-AAAAA-TGCCGCAATAGAGTGGTAAA
1 TTAGCGGCGTTT-TTACAAAAACCGCCGCAATAGAGTGGTAAA
* * *
163760 TTAGCGGCGTTTATACCATAAA-CGCCGTAATAGA-T--TAACA
1 TTAGCGGCGTTTTTA-CAAAAACCGCCGCAATAGAGTGGTAA-A
* * *
163800 TATAGTGGTG-TTTTAGCCAAAA-CGCCGCAATAGA-TCGGTAAA
1 T-TAGCGGCGTTTTTA-CAAAAACCGCCGCAATAGAGT-GGTAAA
*
163842 TTAGCGGCGTTTATACCAAAAA-CGCCGCAATAGA
1 TTAGCGGCGTTTTTA-CAAAAACCGCCGCAATAGA
163876 TTACACATAT
Statistics
Matches: 124, Mismatches: 22, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
39 3 0.02
40 42 0.34
41 34 0.27
42 42 0.34
43 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (42 bp):
TTAGCGGCGTTTTTACAAAAACCGCCGCAATAGAGTGGTAAA
Found at i:163827 original size:82 final size:83
Alignment explanation
Indices: 163736--163890 Score: 260
Period size: 82 Copynumber: 1.9 Consensus size: 83
163726 CGTTTGTTAA
* * *
163736 AAAATGCCGCAATAGAGT-GGTAAATTAGCGGCGTTTATACCATAAACGCCGTAATAGATTA-AC
1 AAAACGCCGCAATAGA-TCGGTAAATTAGCGGCGTTTATACCAAAAACGCCGCAATAGATTACAC
163799 ATATAGTGGTGTTTTAGCC
65 ATATAGTGGTGTTTTAGCC
163818 AAAACGCCGCAATAGATCGGTAAATTAGCGGCGTTTATACCAAAAACGCCGCAATAGATTACACA
1 AAAACGCCGCAATAGATCGGTAAATTAGCGGCGTTTATACCAAAAACGCCGCAATAGATTACACA
163883 TATAGTGG
66 TATAGTGG
163891 CATTTATTCT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
81 1 0.01
82 56 0.82
83 11 0.16
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (83 bp):
AAAACGCCGCAATAGATCGGTAAATTAGCGGCGTTTATACCAAAAACGCCGCAATAGATTACACA
TATAGTGGTGTTTTAGCC
Found at i:163897 original size:42 final size:41
Alignment explanation
Indices: 163735--164059 Score: 171
Period size: 41 Copynumber: 7.9 Consensus size: 41
163725 CCGTTTGTTA
* *
163735 AAAAATGCCGCAATAGAGTGGTAA-AT-TAGCGGCGTTTATACC
1 AAAAACGCCGCAATAGA-T--TAACATATAGTGGCGTTTATACC
* * *
163777 ATAAACGCCGTAATAGATTAACATATAGTGGTGTTT-TAGCC
1 AAAAACGCCGCAATAGATTAACATATAGTGGCGTTTATA-CC
*
163818 -AAAACGCCGCAATAGATCGGTAA-AT-TAGCGGCGTTTATACC
1 AAAAACGCCGCAATAGAT---TAACATATAGTGGCGTTTATACC
* * *
163859 AAAAACGCCGCAATAGATTACACATATAGTGGCATTTATTCT
1 AAAAACGCCGCAATAGATTA-ACATATAGTGGCGTTTATACC
* * * * * *
163901 TAAAACGCCGCAATAG-TGATAATAAAAAGTGACGTTTTTA--
1 AAAAACGCCGCAATAGAT--TAACATATAGTGGCGTTTATACC
* *
163941 AATAAACGCCGCAATA-ATGTTAATCA-ATAGTGGCGTTTTTA-G
1 AA-AAACGCCGCAATAGA--TTAA-CATATAGTGGCGTTTATACC
* * *
163983 AAAAACACCGCAATAGTTTTAATCA-ATAGTGGCGTTTGTTA--
1 AAAAACGCCGCAATAG-ATTAA-CATATAGTGGCGTTT-ATACC
*
164024 AAAAACGCCACAATAG-TGTAATCA-ATAGTGGCGTTT
1 AAAAACGCCGCAATAGAT-TAA-CATATAGTGGCGTTT
164060 TTTGTATAAA
Statistics
Matches: 231, Mismatches: 29, Indels: 48
0.75 0.09 0.16
Matches are distributed among these distances:
39 6 0.03
40 39 0.17
41 100 0.43
42 80 0.35
43 6 0.03
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (41 bp):
AAAAACGCCGCAATAGATTAACATATAGTGGCGTTTATACC
Found at i:163978 original size:41 final size:40
Alignment explanation
Indices: 163859--164061 Score: 214
Period size: 41 Copynumber: 5.0 Consensus size: 40
163849 CGTTTATACC
* * *
163859 AAAAACGCCGCAATAG-ATTACA-CATATAGTGGCATTTATTCT
1 AAAAACGCCGCAATAGTGTTA-ATCA-ATAGTGGCGTTT-TT-A
* * * * *
163901 TAAAACGCCGCAATAGTGATAATAAAAAGTGACGTTTTTA
1 AAAAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTA
*
163941 AATAAACGCCGCAATAATGTTAATCAATAGTGGCGTTTTTA
1 AA-AAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTA
* *
163982 GAAAAACACCGCAATAGTTTTAATCAATAGTGGCGTTTGTTA
1 -AAAAACGCCGCAATAGTGTTAATCAATAGTGGCGTTT-TTA
*
164024 AAAAACGCCACAATAGTG-TAATCAATAGTGGCGTTTTT
1 AAAAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTT
164062 TGTATAAACG
Statistics
Matches: 136, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
39 2 0.01
40 19 0.14
41 82 0.60
42 30 0.22
43 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (40 bp):
AAAAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTA
Found at i:164796 original size:83 final size:81
Alignment explanation
Indices: 164581--164863 Score: 318
Period size: 83 Copynumber: 3.4 Consensus size: 81
164571 TAAAAGGTAA
* * * **
164581 TTAGTGGCGTTTGTATCCAGAAATGCCGCTATAG-GTACGTACTTTAGTGATGTTTTTATACAAA
1 TTAGTGGCGTTT-TAT--ACAAACGCCGCTATAGACTA-GTACTTTAGTGGCGTTTTTATACAAA
* *
164645 CGCCGCTATAGAATCGTACG
62 CGCCGCTATAGACTCGTACC
* *
164665 TTAGTGGCGTTTCTATACAAACGCCGCTATATACTAGTACTTTAGTGGCGTTTCTATACAAACGC
1 TTAGTGGCGTTT-TATACAAACGCCGCTATAGACTAGTACTTTAGTGGCGTTTTTATACAAACGC
* * *
164730 CGCTATATACTCATACT
65 CGCTATAGACTCGTACC
164747 TTAGTGGCGTTTTGA-ATCTAAACGCCGCTATAGACTAGTACTTTAGTGGCGTTTTTATACAAAC
1 TTAGTGGCGTTTT-ATA-C-AAACGCCGCTATAGACTAGTACTTTAGTGGCGTTTTTATACAAAC
164811 GCCGCTATAGACTCGTACCC
63 GCCGCTATAGACTCGTA-CC
* * * *
164831 TTAGTGGCATTTTTAGATAAACGCCGCAATAGA
1 TTAGTGGC-GTTTTATACAAACGCCGCTATAGA
164864 TATAATATTT
Statistics
Matches: 172, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
81 2 0.01
82 66 0.38
83 74 0.43
84 25 0.15
85 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (81 bp):
TTAGTGGCGTTTTATACAAACGCCGCTATAGACTAGTACTTTAGTGGCGTTTTTATACAAACGCC
GCTATAGACTCGTACC
Found at i:164853 original size:42 final size:41
Alignment explanation
Indices: 164581--164863 Score: 309
Period size: 41 Copynumber: 6.8 Consensus size: 41
164571 TAAAAGGTAA
* * * *
164581 TTAGTGGCGTTTGTATCCAGAAATGCCGCTATAG-GTACGTACT
1 TTAGTGGCGTTTTTAT--ACAAACGCCGCTATAGACT-CGTACT
** * *
164624 TTAGTGATGTTTTTATACAAACGCCGCTATAGAATCGTACG
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
* * *
164665 TTAGTGGCGTTTCTATACAAACGCCGCTATATACTAGTACT
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
* * *
164706 TTAGTGGCGTTTCTATACAAACGCCGCTATATACTCATACT
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
* *
164747 TTAGTGGCGTTTTGA-ATCTAAACGCCGCTATAGACTAGTACT
1 TTAGTGGCGTTTTTATA-C-AAACGCCGCTATAGACTCGTACT
*
164789 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACCC
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTA-CT
* * * *
164831 TTAGTGGCATTTTTAGATAAACGCCGCAATAGA
1 TTAGTGGCGTTTTTATACAAACGCCGCTATAGA
164864 TATAATATTT
Statistics
Matches: 207, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
40 1 0.00
41 126 0.61
42 66 0.32
43 14 0.07
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (41 bp):
TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
Found at i:164904 original size:43 final size:41
Alignment explanation
Indices: 164834--164918 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 41
164824 CGTACCCTTA
* *
164834 GTGGCATTTTTAGATAAACGCCGCAATAGATATAATATTTT
1 GTGGCATTTTTAGATAAACACAGCAATAGATATAATATTTT
*
164875 GTGGCATTTTTAAAGATAAACACATCAATAGATATAATATTTT
1 GTGGCATTTTT--AGATAAACACAGCAATAGATATAATATTTT
164918 G
1 G
164919 CGGTGCTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 11 0.28
43 28 0.72
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (41 bp):
GTGGCATTTTTAGATAAACACAGCAATAGATATAATATTTT
Found at i:173679 original size:21 final size:21
Alignment explanation
Indices: 173632--173682 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
173622 AGCGGAAAAT
*
173632 GAAGCAAG-GGAAGCAGAGAGA
1 GAAGC-AGCGGAAGCAGAGAAA
* *
173653 GCAGCAGCGGAAGCATAGAAA
1 GAAGCAGCGGAAGCAGAGAAA
173674 GAAGCAGCG
1 GAAGCAGCG
173683 ACAACACAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.43, C:0.16, G:0.39, T:0.02
Consensus pattern (21 bp):
GAAGCAGCGGAAGCAGAGAAA
Found at i:174147 original size:43 final size:42
Alignment explanation
Indices: 174100--174452 Score: 287
Period size: 43 Copynumber: 8.2 Consensus size: 42
174090 AGACCTGTAC
* * * *
174100 CGGCGTTTTTAGCAGAAACGCCGCAAAACATCAACACCTACTA
1 CGGCGTTTTTAG-AGAAACGCCGCTAAATATCAACACCTATTG
* * * * *
174143 CGGCGTTTTAACAAAAAAGCCGCTAAATATCATA-ACATATTG
1 CGGCGTTTTTAGAGAAACGCCGCTAAATATCA-ACACCTATTG
* *
174185 CGGCGTTTGTCT-GAGAAACGCTGCTAAATATTAACACCTATTG
1 CGGCGTTT-T-TAGAGAAACGCCGCTAAATATCAACACCTATTG
* *
174228 CGGCGTTTTTATGACAAACGCCACTAAATATCAACACCTATTG
1 CGGCGTTTTTA-GAGAAACGCCGCTAAATATCAACACCTATTG
* * * * *
174271 CGACGTTTTTATAAAAAAAACGCTGCTAAATATCAACACATATTG
1 CGGCG-TTTT-T-AGAGAAACGCCGCTAAATATCAACACCTATTG
** * *
174316 CAACGTTTTTATGACAAACGTCGCTAAATATCAACACCTATTG
1 CGGCGTTTTTA-GAGAAACGCCGCTAAATATCAACACCTATTG
* * * * *
174359 CGGTGTTTTTATAACAAACGCCACTAAATATCAACACCTATTA
1 CGGCGTTTTTA-GAGAAACGCCGCTAAATATCAACACCTATTG
* * * * * *
174402 CGACGTTTTTGCACACAAACGCCACTAAATATCAATACTTATTG
1 CGGCGTTTTT--AGAGAAACGCCGCTAAATATCAACACCTATTG
174446 CGGCGTT
1 CGGCGTT
174453 AAAAACGCCG
Statistics
Matches: 252, Mismatches: 46, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.00
42 32 0.13
43 145 0.58
44 41 0.16
45 32 0.13
46 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (42 bp):
CGGCGTTTTTAGAGAAACGCCGCTAAATATCAACACCTATTG
Found at i:174315 original size:88 final size:86
Alignment explanation
Indices: 174165--174452 Score: 337
Period size: 88 Copynumber: 3.3 Consensus size: 86
174155 AAAAAAGCCG
* * * * * *
174165 CTAAATATCATA-ACATATTGCGGCGTTTGTCTGAGAAACGCTGCTAAATATTAACACCTATTGC
1 CTAAATATCA-ACACCTATTGCGGCGTTTTTATAAAAAACGCTGCTAAATATCAACACCTATTGC
*
174229 GGCGTTTTTATGACAAACGCCA
65 GACGTTTTTATGACAAACGCCA
* *
174251 CTAAATATCAACACCTATTGCGACGTTTTTATAAAAAAAACGCTGCTAAATATCAACACATATTG
1 CTAAATATCAACACCTATTGCGGCGTTTTTAT--AAAAAACGCTGCTAAATATCAACACCTATTG
* * *
174316 CAACGTTTTTATGACAAACGTCG
64 CGACGTTTTTATGACAAACGCCA
* * ** *
174339 CTAAATATCAACACCTATTGCGGTGTTTTTATAACAAACGCCACTAAATATCAACACCTATTACG
1 CTAAATATCAACACCTATTGCGGCGTTTTTATAAAAAACGCTGCTAAATATCAACACCTATTGCG
*
174404 ACGTTTTTGCA-CACAAACGCCA
66 ACGTTTTT--ATGACAAACGCCA
* *
174426 CTAAATATCAATACTTATTGCGGCGTT
1 CTAAATATCAACACCTATTGCGGCGTT
174453 AAAAACGCCG
Statistics
Matches: 171, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
85 1 0.01
86 61 0.36
87 32 0.19
88 77 0.45
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (86 bp):
CTAAATATCAACACCTATTGCGGCGTTTTTATAAAAAACGCTGCTAAATATCAACACCTATTGCG
ACGTTTTTATGACAAACGCCA
Found at i:174343 original size:131 final size:129
Alignment explanation
Indices: 174100--174411 Score: 398
Period size: 131 Copynumber: 2.4 Consensus size: 129
174090 AGACCTGTAC
* * * * * * *
174100 CGGCGTTTTTA-GCAGAAACGCCGCAAAACATCAACACCTACTACGGCG-TTTTAACAAAAAAGC
1 CGGCGTTTTTATG-ACAAACGCCACTAAATATCAACACCTATTACGACGTTTTTAAAAAAAAAGC
** * * *
174163 CGCTAAATATCATAACATATTGCGGCGTTTGTCTGAGAAACGCTGCTAAATATTAACACCTATTG
65 CGCTAAATATCATAACATATTGCAACGTTTGTATGACAAACGCTGCTAAATATCAACACCTATTG
*
174228 CGGCGTTTTTATGACAAACGCCACTAAATATCAACACCTATTGCGACGTTTTTATAAAAAAAACG
1 CGGCGTTTTTATGACAAACGCCACTAAATATCAACACCTATTACGACGTTTTTA-AAAAAAAA-G
* *
174293 CTGCTAAATATCA-ACACATATTGCAACGTTTTTATGACAAACG-TCGCTAAATATCAACACCTA
64 CCGCTAAATATCATA-ACATATTGCAACGTTTGTATGACAAACGCT-GCTAAATATCAACACCTA
174356 TTG
127 TTG
* *
174359 CGGTGTTTTTATAACAAACGCCACTAAATATCAACACCTATTACGACGTTTTT
1 CGGCGTTTTTATGACAAACGCCACTAAATATCAACACCTATTACGACGTTTTT
174412 GCACACAAAC
Statistics
Matches: 160, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
128 39 0.24
129 6 0.04
130 9 0.06
131 106 0.66
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (129 bp):
CGGCGTTTTTATGACAAACGCCACTAAATATCAACACCTATTACGACGTTTTTAAAAAAAAAGCC
GCTAAATATCATAACATATTGCAACGTTTGTATGACAAACGCTGCTAAATATCAACACCTATTG
Found at i:174654 original size:2 final size:2
Alignment explanation
Indices: 174647--174683 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
174637 CTTACTTCAC
174647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
174684 GGAAGTTCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:176717 original size:19 final size:20
Alignment explanation
Indices: 176693--176743 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
176683 AATGACCAAT
176693 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
176712 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
176732 AAAATCGCAACG
1 AAAATCGCAACG
176744 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:176737 original size:20 final size:20
Alignment explanation
Indices: 176693--176950 Score: 94
Period size: 20 Copynumber: 12.6 Consensus size: 20
176683 AATGACCAAT
* *
176693 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
176712 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
176732 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
176752 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
**
176772 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
176792 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
176813 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
176836 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
176856 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
176876 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
176896 AGAGTCGTAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
176919 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
*
176939 AGAATCGCAACG
1 AAAATCGCAACG
176951 GTCAAAAGAA
Statistics
Matches: 187, Mismatches: 40, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
19 17 0.09
20 128 0.68
21 14 0.07
23 28 0.15
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:176763 original size:40 final size:41
Alignment explanation
Indices: 176712--176806 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 41
176702 ACGCGATATC
** *
176712 AAAATCGCAACGCGAT-TTAGAAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATAAAAGAAAATCGCAACGGTAAAAAG
*
176752 AAAATCGCAACG-G-TCAAAAGAAAATCGCAACGGTCAAAAG
1 AAAATCGCAACGCGAT-AAAAGAAAATCGCAACGGTAAAAAG
176792 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
176807 GCTTCCAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.02
39 1 0.02
40 44 0.94
41 1 0.02
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (41 bp):
AAAATCGCAACGCGATAAAAGAAAATCGCAACGGTAAAAAG
Found at i:176891 original size:40 final size:42
Alignment explanation
Indices: 176817--176950 Score: 182
Period size: 43 Copynumber: 3.2 Consensus size: 42
176807 GCTTCCAAGT
*
176817 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTTAGAAG-AAATCGCAATGCGATTGAGAGAA
* * *
176860 TCGCAATGCGATTTA-TAG-AATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGAAGAAATCGCAATGCGATTGAGAGAA
* *
176900 TCGTAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTAGAAG-AAATCGCAATGCGATTGAGAGAA
176943 TCGCAACG
1 TCGCAACG
176951 GTCAAAAGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 33 0.42
41 2 0.03
42 2 0.03
43 41 0.53
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (42 bp):
TCGCAACGCGATTTAGAAGAAATCGCAATGCGATTGAGAGAA
Found at i:177049 original size:6 final size:6
Alignment explanation
Indices: 177038--177098 Score: 122
Period size: 6 Copynumber: 10.2 Consensus size: 6
177028 GACACGTATT
177038 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
177086 ACCACG ACCACG A
1 ACCACG ACCACG A
177099 GACGGCGGCG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.34, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:177802 original size:20 final size:20
Alignment explanation
Indices: 177777--177967 Score: 240
Period size: 20 Copynumber: 9.4 Consensus size: 20
177767 ATTTTCAACG
*
177777 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATCAATCGCA
* *
177797 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATCAATCGCA
* *
177817 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATCAATCGCA
*
177837 TTGCGATTTTCT-TCTAAATCGCG
1 TTGCGA--TTCTATC--AATCGCA
* *
177860 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTATCAATCGCA
* *
177880 TTGCGATTATATAAATCGCA
1 TTGCGATTCTATCAATCGCA
*
177900 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATCAATCGCA
177920 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
177940 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
177960 TTGCGATT
1 TTGCGATT
177968 TTCTTCTAAA
Statistics
Matches: 153, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
20 131 0.86
21 5 0.03
22 6 0.04
23 11 0.07
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTATCAATCGCA
Found at i:178027 original size:20 final size:20
Alignment explanation
Indices: 178002--178053 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
177992 TGGAAGCTCG
*
178002 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
178022 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
178042 CGTTGCGATTTT
1 CGTTGCGATTTT
178054 GATATCGCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:182886 original size:7 final size:7
Alignment explanation
Indices: 182874--183081 Score: 409
Period size: 7 Copynumber: 29.9 Consensus size: 7
182864 TTAACCGAAA
182874 TTAAATT
1 TTAAATT
182881 TTAAATT
1 TTAAATT
182888 TTAAATT
1 TTAAATT
182895 TTAAATT
1 TTAAATT
182902 TTAAATT
1 TTAAATT
182909 TTAAATT
1 TTAAATT
182916 TTAAATT
1 TTAAATT
182923 TTAAATT
1 TTAAATT
182930 TTAAATT
1 TTAAATT
182937 TTAAATT
1 TTAAATT
182944 TTAAATT
1 TTAAATT
182951 TTAAATT
1 TTAAATT
182958 TTAAATT
1 TTAAATT
182965 TTAAATT
1 TTAAATT
182972 TTAAATT
1 TTAAATT
182979 TTAAATT
1 TTAAATT
182986 TTAAATT
1 TTAAATT
182993 TTAAATT
1 TTAAATT
183000 TTAAATT
1 TTAAATT
183007 TTAAATT
1 TTAAATT
183014 TTAAATT
1 TTAAATT
183021 TTAAATT
1 TTAAATT
183028 TTAAATT
1 TTAAATT
183035 TTAAA-T
1 TTAAATT
183041 TTAAATT
1 TTAAATT
183048 TTAAATT
1 TTAAATT
183055 TTAAATT
1 TTAAATT
183062 TTAAATT
1 TTAAATT
183069 TTAAATT
1 TTAAATT
183076 TTAAAT
1 TTAAAT
183082 ATATTATATA
Statistics
Matches: 200, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
6 6 0.03
7 194 0.97
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTAAATT
Found at i:183275 original size:181 final size:184
Alignment explanation
Indices: 183080--183438 Score: 579
Period size: 181 Copynumber: 2.0 Consensus size: 184
183070 TAAATTTTAA
*
183080 ATATATTATATATAATATATAGG-CTCAA-CCCAAACCATTTAAAA-CTCAATTAATAATTTAAG
1 ATATATTATATATAACATAT-GGACT-AAGCCCAAACCATTTAAAACCT-AATTAATAATTTAAG
183142 ATTC-AATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAA-TTATAT-AAAATTTTATT
63 A-TCAAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATGAAAATTTTATT
*
183204 TTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTT-AATTAAAAATATTCT
127 TTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTGAATTAAAAATATTCT
*
183261 ATATATTATATATAACATATGGACTAAGCCTAAACCATTTAAAACCTAATTAATAATTTAAGATC
1 ATATATTATATATAACATATGGACTAAGCCCAAACCATTTAAAACCTAATTAATAATTTAAGATC
* *
183326 AAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGAAATTTTTATTTTAT
66 AAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATGAAAATTTTATTTTAT
*
183391 AATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAAAA
131 AATTATATATTATTTAAATTAATTATAAACTGTTTTTTGAATTAAAAA
183439 AATATTTAAT
Statistics
Matches: 165, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
180 6 0.04
181 93 0.56
182 7 0.04
183 50 0.30
184 9 0.05
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (184 bp):
ATATATTATATATAACATATGGACTAAGCCCAAACCATTTAAAACCTAATTAATAATTTAAGATC
AAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATGAAAATTTTATTTTAT
AATTATATATTATTTAAATTAATTATAAACTGTTTTTTGAATTAAAAATATTCT
Found at i:184265 original size:20 final size:20
Alignment explanation
Indices: 184242--184294 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
184232 CAGTTCCCAG
**
184242 AATCGCAACGCGAGTATGA-A
1 AATCGCAACGCGAACAT-ATA
184262 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAACATATA
184282 AATCGCAACGCGA
1 AATCGCAACGCGA
184295 TTTTGACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:184350 original size:20 final size:20
Alignment explanation
Indices: 184303--184536 Score: 220
Period size: 20 Copynumber: 11.6 Consensus size: 20
184293 GATTTTGACT
*
184303 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
* *
184324 ATTGCAACGCGTATCCATAA
1 ATCGCAACGCGTATCCGTAA
* *
184344 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
184365 ATAGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
184385 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
184405 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
184425 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* *
184445 ATCGCAATGAGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
184465 ATCACAATGTGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
184485 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
184506 ATCGTAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
184526 ATCGCAACGCG
1 ATCGCAACGCG
184537 ATCGATAATT
Statistics
Matches: 171, Mismatches: 36, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
20 125 0.73
21 46 0.27
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:184425 original size:40 final size:40
Alignment explanation
Indices: 184303--184536 Score: 245
Period size: 40 Copynumber: 5.8 Consensus size: 40
184293 GATTTTGACT
* * * *
184303 ATCGCAACGAGTATCCGTAAAATTGCAACGCGTATCCATAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* *
184344 ATCGCAACGACAATACGTAAAATAGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
*
184385 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* *
184425 ATCGCAACGAGAATACGTAAATCGCAATGAGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* * * * * * *
184465 ATCACAATGTGTATCCGTAAATCGCAACGAC-AATACGTAAA
1 ATCGCAACGAGAATACGTAAATCGCAACG-CGTATCCGT-AA
* * * *
184506 ATCGTAACGCGTATCCGTAAATCGCAACGCG
1 ATCGCAACGAGAATACGTAAATCGCAACGCG
184537 ATCGATAATT
Statistics
Matches: 166, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 86 0.52
41 80 0.48
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:184635 original size:21 final size:21
Alignment explanation
Indices: 184606--184652 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
184596 ATTCTGACTA
*
184606 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCAATTTCCCAAAT
* * *
184627 TCGCGTTGCAATTTTCCTAAT
1 TCGCATTGCAATTTCCCAAAT
184648 TCGCA
1 TCGCA
184653 ATGCGAATAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (21 bp):
TCGCATTGCAATTTCCCAAAT
Found at i:184673 original size:20 final size:20
Alignment explanation
Indices: 184648--184713 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
184638 TTTTCCTAAT
184648 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
184668 TCGCAATGTGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
184688 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
184708 TCGCAA
1 TCGCAA
184714 CGAGATTCTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.02
20 40 0.98
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:184723 original size:20 final size:20
Alignment explanation
Indices: 184663--184723 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
184653 ATGCGAATAC
*
184663 GTAAATCGCAATGTGATTAC-
1 GTAAATCGCAATGAGATT-CT
* *
184683 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAATGAGATTCT
*
184703 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAATGAGATTCT
184723 G
1 G
184724 ACTATCGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
GTAAATCGCAATGAGATTCT
Found at i:185602 original size:24 final size:24
Alignment explanation
Indices: 185575--185628 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
185565 GTATTCGAAA
185575 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
185599 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
185623 TTTGAT
1 TTTGAT
185629 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:188034 original size:20 final size:19
Alignment explanation
Indices: 188008--188088 Score: 73
Period size: 20 Copynumber: 4.4 Consensus size: 19
187998 TAGACATTCA
188008 GTTGCGATTTTCATTTTCGC
1 GTTGCGATTTTCA-TTTCGC
* *
188028 ATTGCGA--TTCA---CTC
1 GTTGCGATTTTCATTTCGC
188042 GTTGCGATTTTCATTTCGC
1 GTTGCGATTTTCATTTCGC
**
188061 GTTGCGATAGTCATTTCCGC
1 GTTGCGATTTTCATTT-CGC
188081 GTTGCGAT
1 GTTGCGAT
188089 AGTCAATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
14 8 0.16
16 4 0.08
18 4 0.08
19 16 0.33
20 17 0.35
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.42
Consensus pattern (19 bp):
GTTGCGATTTTCATTTCGC
Found at i:188089 original size:20 final size:19
Alignment explanation
Indices: 188041--188093 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
188031 GCGATTCACT
**
188041 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
188060 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
188080 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
188094 ATTTTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:189685 original size:42 final size:42
Alignment explanation
Indices: 189578--189685 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
189568 TCTAGAATGT
* * *
189578 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGAAAGTGGCCTCTTGAACGA
* * **
189620 TGGGAGGGGACTCTTGAGGGATGATAAG-GGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGA-AAGTGGCCTCTTGAACGA
189662 TAGGG-GAGGCCTCTTGAACGATGA
1 T-GGGAGAGGCCTCTTGAACGATGA
189686 CAGGTGAGTC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
42 46 0.87
43 7 0.13
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGAAAGTGGCCTCTTGAACGA
Found at i:190200 original size:20 final size:20
Alignment explanation
Indices: 190177--190242 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
190167 AAATCACAAC
190177 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
190197 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
** *
190217 GCGAATTTGACTATCGTAAT
1 GCGAAAATGACTATCGCAAT
190237 GCGAAA
1 GCGAAA
190243 TGAAAATCGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:190232 original size:40 final size:39
Alignment explanation
Indices: 190166--190259 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 39
190156 TCTGAAACTT
* **
190166 AAAATCACAACGCGAAAATGACTATCGCAATGCGAAAATG
1 AAAATCGCAACGCGAATTTGACTATCGCAATGCG-AAATG
** * *
190206 ACTATCGCAATGCGAATTTGACTATCGTAATGCGAAATG
1 AAAATCGCAACGCGAATTTGACTATCGCAATGCGAAATG
190245 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
190260 TTATAGTTTC
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 17 0.39
40 27 0.61
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.19
Consensus pattern (39 bp):
AAAATCGCAACGCGAATTTGACTATCGCAATGCGAAATG
Found at i:190278 original size:19 final size:19
Alignment explanation
Indices: 190265--190331 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
190255 CGCGATTATA
190265 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
190284 GTTTCGCGTTGTGATTTT-
1 GTTTCGCGTTGCGATTTTG
190302 G--T--CGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
190317 GTTTCGCGTTGCGAT
1 GTTTCGCGTTGCGAT
190332 AGTCATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 11 0.27
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 26 0.63
ACGTcount: A:0.06, C:0.15, G:0.31, T:0.48
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:190565 original size:94 final size:94
Alignment explanation
Indices: 190419--190798 Score: 620
Period size: 94 Copynumber: 4.1 Consensus size: 94
190409 ATGGATTGCA
* *
190419 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
190483 TTAGCAGAATTGGCAACAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
190512 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
190577 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
190606 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACATAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
190671 TTAGCAGAATTGGCATCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * *
190700 TTAC-TTCAACCAAAATACAAAACAAAAGAAAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
190764 TTTAGCAGTATTGGCAGCAATCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
190794 TTACT
1 TTACT
190799 AAGCAATCTA
Statistics
Matches: 269, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
93 22 0.08
94 247 0.92
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:192406 original size:26 final size:25
Alignment explanation
Indices: 192355--192408 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
192345 ATACCAAGTT
* *
192355 AGATATACCAAAAACTACACTGTAA
1 AGATATACCAAAAACTAAACTATAA
192380 AGATATACCAAAAACAATAAAC-ATAA
1 AGATATACCAAAAAC--TAAACTATAA
192406 AGA
1 AGA
192409 GTAGTAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 15 0.60
26 6 0.24
27 4 0.16
ACGTcount: A:0.59, C:0.17, G:0.07, T:0.17
Consensus pattern (25 bp):
AGATATACCAAAAACTAAACTATAA
Found at i:192496 original size:20 final size:20
Alignment explanation
Indices: 192471--192526 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
192461 TGAAATAAAA
192471 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
192491 ATCGCAATGCG-GA-AATGACT
1 ATCGCAA--CGAGAGAATGACT
192511 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
192527 CGCAACGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 24 0.75
21 2 0.06
22 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:192583 original size:19 final size:20
Alignment explanation
Indices: 192559--192668 Score: 125
Period size: 21 Copynumber: 5.5 Consensus size: 20
192549 AACGAGAGAA
*
192559 TTGCGATTTTCA-TTTCGCG
1 TTGCGATTTTCATTTTCGTG
*
192578 TTGCGATTTTCA-TTTCGCG
1 TTGCGATTTTCATTTTCGTG
**
192597 TTGCGATAGTCATTTTTCGTG
1 TTGCGATTTTCA-TTTTCGTG
**
192618 TTGCGATAGTCATTTTTCGTG
1 TTGCGATTTTCA-TTTTCGTG
*
192639 TTGCGATTTTCATTTTCATG
1 TTGCGATTTTCATTTTCGTG
192659 TTGCGATTTT
1 TTGCGATTTT
192669 AAGTTTAGAA
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
19 29 0.35
20 17 0.20
21 37 0.45
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
TTGCGATTTTCATTTTCGTG
Found at i:193251 original size:20 final size:20
Alignment explanation
Indices: 193226--193418 Score: 226
Period size: 20 Copynumber: 9.6 Consensus size: 20
193216 CTTTAAAAAT
193226 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
193246 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
193266 TGTCGTTGTGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * * *
193287 CGCATTACGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
193307 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
*
193327 CGCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* *
193347 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
193367 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
193387 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
193408 CTCGTTGCGAT
1 CGCGTTGCGAT
193419 AGTCAGAATC
Statistics
Matches: 144, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
20 109 0.76
21 35 0.24
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:193312 original size:40 final size:40
Alignment explanation
Indices: 193226--193479 Score: 230
Period size: 40 Copynumber: 6.3 Consensus size: 40
193216 CTTTAAAAAT
193226 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATA
* * * * *
193266 TGTCGTTGTGATTTACGGATACGCATTACGATTTACGTATT
1 CG-CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATA
* *
193307 CTCGTTGCGATTTACAGATACGCGTTGCGATTTACAG-ATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTAC-GTATA
* * * *
193347 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGTATA
* * *
193387 CGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGAAT-
1 CGCGTTGCGA-TTTACGGATACGCGTTGCGAT-TTAC-GTATA
** * * * *
193428 CGCGTTGCGATTTATATG-TTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTA-CGGATACGCGTTGCGATTTACGTATA
193468 CGCGTTGCGATT
1 CGCGTTGCGATT
193480 CTGGAAAATC
Statistics
Matches: 177, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
39 4 0.02
40 112 0.63
41 57 0.32
42 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (40 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGTATA
Found at i:193412 original size:101 final size:100
Alignment explanation
Indices: 193223--193479 Score: 331
Period size: 101 Copynumber: 2.5 Consensus size: 100
193213 GCGCTTTAAA
* * *
193223 AATCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGTGATTTACGGATAC
1 AATCGCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATAC
* * *
193288 GCATTACGATTTACGTATTCTCGTTGCGAT-TTACAG
65 GCATTACGATTTACGGATACTCGTTGCGATAGT-CAG
193324 -ATACGCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATAC
1 AAT-CGCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATAC
* *
193388 GCGTTGCGATTTTACGGATACTCGTTGCGATAGTCAG
65 GCATTACGA-TTTACGGATACTCGTTGCGATAGTCAG
* * * * *
193425 AATCGCGTTGCGATTTATATG-TTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 AATCGCGTTGCGATTTACA-GATACGCGTTGCGATTTACGTATTCTCGTTGCGATT
193480 CTGGAAAATC
Statistics
Matches: 138, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
100 38 0.28
101 96 0.70
102 4 0.03
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (100 bp):
AATCGCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
CATTACGATTTACGGATACTCGTTGCGATAGTCAG
Found at i:193450 original size:20 final size:20
Alignment explanation
Indices: 193427--193520 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
193417 ATAGTCAGAA
*
193427 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
193447 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
** * *
193467 TCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGATT-TTCATAT
**
193488 TCGCAATGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
193508 TCGCGTTGCGATT
1 TCGCGTTGCGATT
193521 CTGGAAAATC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
19 1 0.02
20 44 0.75
21 14 0.24
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:193497 original size:21 final size:21
Alignment explanation
Indices: 193473--193539 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
193463 ATATTCGCGT
193473 TGCGATTCTGGAAAATCGCAA
1 TGCGATTCTGGAAAATCGCAA
** * * **
193494 TGCGATT-TTCATATTCGCGT
1 TGCGATTCTGGAAAATCGCAA
193514 TGCGATTCTGGAAAATCGCAA
1 TGCGATTCTGGAAAATCGCAA
193535 TGCGA
1 TGCGA
193540 ATTTGTACTA
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (21 bp):
TGCGATTCTGGAAAATCGCAA
Found at i:193574 original size:42 final size:41
Alignment explanation
Indices: 193453--193564 Score: 174
Period size: 41 Copynumber: 2.7 Consensus size: 41
193443 ATGTTCGCGT
193453 TGCGATTTTCATATTCGCGTTGCGATTCTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTCTGGAAAATCGCAA
193494 TGCGATTTTCATATTCGCGTTGCGATTCTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTCTGGAAAATCGCAA
*
193535 TGCGAATTTGT-ACTA-TCGCATTGCGATTCT
1 TGCG-ATTT-TCA-TATTCGCGTTGCGATTCT
193565 TCATAATCGC
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
41 45 0.67
42 19 0.28
43 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (41 bp):
TGCGATTTTCATATTCGCGTTGCGATTCTGGAAAATCGCAA
Found at i:194339 original size:35 final size:35
Alignment explanation
Indices: 194292--194404 Score: 140
Period size: 35 Copynumber: 3.2 Consensus size: 35
194282 AAAACAATCC
* * *
194292 TCAATTTCATTCTAAACAACAAATTCCAAATTAAT
1 TCAATTTCATTCTAAACACCAAATTCTAAAATAAT
*
194327 TCAATTTTATTCTAAAC-CCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACACC-AAATTCTAAAATAAT
* *
194362 TCAATTACATTCTAAA-ACCCAAATTCTAAAATACT
1 TCAATTTCATTCTAAACA-CCAAATTCTAAAATAAT
194397 TCAATTTC
1 TCAATTTC
194405 TGTCTTTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
34 1 0.01
35 64 0.96
36 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACACCAAATTCTAAAATAAT
Found at i:195493 original size:35 final size:33
Alignment explanation
Indices: 195399--195507 Score: 139
Period size: 35 Copynumber: 3.2 Consensus size: 33
195389 TATTCTCCTT
*
195399 AAATTGAAATATTTTAGAA-TTGGGTTTAGAATG
1 AAATTG-AATATTTTGGAATTTGGGTTTAGAATG
* *
195432 TAATTTAATATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATATTTTGGAATTT-GGGTTTAGAATG
*
195466 AAATTGAATTACTTTGGAATTTGGGGTTTAGAATG
1 AAATTGAA-TATTTTGGAATTT-GGGTTTAGAATG
195501 AAATTGA
1 AAATTGA
195508 GGAATGTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 11 0.17
33 6 0.09
34 18 0.27
35 31 0.47
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.41
Consensus pattern (33 bp):
AAATTGAATATTTTGGAATTTGGGTTTAGAATG
Found at i:196679 original size:37 final size:38
Alignment explanation
Indices: 196612--196696 Score: 136
Period size: 37 Copynumber: 2.2 Consensus size: 38
196602 CCAGAACGTG
196612 ACGCTCCAATTCTTGTCTCTGATTTGTTTGGTAATAGTA
1 ACGCTCCAATTCTTG-CTCTGATTTGTTTGGTAATAGTA
* *
196651 TCGCTCCAATTCTTG-TCTGATTTGTTTGGTAATGGTA
1 ACGCTCCAATTCTTGCTCTGATTTGTTTGGTAATAGTA
196688 ACGCTCCAA
1 ACGCTCCAA
196697 ATCTAGATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 29 0.67
39 14 0.33
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (38 bp):
ACGCTCCAATTCTTGCTCTGATTTGTTTGGTAATAGTA
Found at i:204904 original size:24 final size:22
Alignment explanation
Indices: 204851--204916 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
204841 TCTACTAGTG
*
204851 TTCCAAATATATCGTCAGTGTT
1 TTCCAAATATATCGTTAGTGTT
204873 TTCCAAATATATCGTTAGTGTT
1 TTCCAAATATATCGTTAGTGTT
*
204895 TTCCTAAAATATATAG-TAGTGT
1 TTCC--AAATATATCGTTAGTGT
204917 ATGTTTCCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
22 25 0.62
23 6 0.15
24 9 0.22
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (22 bp):
TTCCAAATATATCGTTAGTGTT
Found at i:212207 original size:19 final size:19
Alignment explanation
Indices: 212183--212222 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
212173 TAATTAGTTT
*
212183 TTTCACCCCCCAAATTTTC
1 TTTCACCCCACAAATTTTC
212202 TTTCACCCCACAAATTTTC
1 TTTCACCCCACAAATTTTC
212221 TT
1 TT
212223 ACACAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTCACCCCACAAATTTTC
Found at i:216465 original size:25 final size:25
Alignment explanation
Indices: 216437--216490 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
216427 ATTATTTAAC
* *
216437 TAATTTAAATG-GTTTCTTATAATTT
1 TAATTTAAATGATTTTC-TATAATTA
216462 TAATTTAAATGATTTTCTATAATTA
1 TAATTTAAATGATTTTCTATAATTA
216487 TAAT
1 TAAT
216491 ATGTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (25 bp):
TAATTTAAATGATTTTCTATAATTA
Found at i:219656 original size:35 final size:35
Alignment explanation
Indices: 219607--219718 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
219597 AAAACATTCC
*
219607 TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
219642 TCAATTTCAATCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* * * * * *
219677 TCAATTACATTTTAAAACGCAAATTCTAAAATATT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
219712 TCAATTT
1 TCAATTT
219719 AAGGAGGAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.35
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:220812 original size:35 final size:35
Alignment explanation
Indices: 220771--220848 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
220761 TAAAAAAAAA
* *
220771 GAAATTGAAGTATTTTAGAATTTATGTTTTAGAAT
1 GAAATTGAAGTATTTTAGAATTTAGGGTTTAGAAT
* * *
220806 GTAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAAGTATTTTAGAATTTAGGGTTTAGAAT
220841 GAAATTGA
1 GAAATTGA
220849 GGATTGTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (35 bp):
GAAATTGAAGTATTTTAGAATTTAGGGTTTAGAAT
Found at i:221855 original size:12 final size:12
Alignment explanation
Indices: 221838--221884 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
221828 TTTATGTCAG
221838 AGTCGGAGGAGA
1 AGTCGGAGGAGA
221850 AGTCGGAGGAGA
1 AGTCGGAGGAGA
*
221862 AG--AGA-GAGA
1 AGTCGGAGGAGA
221871 AGTCGGAGGAGA
1 AGTCGGAGGAGA
221883 AG
1 AG
221885 AGGAGGAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 6 0.20
10 2 0.07
11 2 0.07
12 20 0.67
ACGTcount: A:0.38, C:0.06, G:0.49, T:0.06
Consensus pattern (12 bp):
AGTCGGAGGAGA
Found at i:221870 original size:21 final size:21
Alignment explanation
Indices: 221846--221886 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
221836 AGAGTCGGAG
221846 GAGAAGTCGGAGGAGAAGAGA
1 GAGAAGTCGGAGGAGAAGAGA
221867 GAGAAGTCGGAGGAGAAGAG
1 GAGAAGTCGGAGGAGAAGAG
221887 GAGGAACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.49, T:0.05
Consensus pattern (21 bp):
GAGAAGTCGGAGGAGAAGAGA
Found at i:221977 original size:44 final size:43
Alignment explanation
Indices: 221902--222017 Score: 164
Period size: 44 Copynumber: 2.7 Consensus size: 43
221892 ACGAAGGAGT
* ** *
221902 GAAGAG-GAATTAGGAAGAGAAGAATGAGGGTTAGGGATTATG
1 GAAGAGTGAATTGGGAATTGAAGAAAGAGGGTTAGGGATTATG
221944 G-AGAGTGAATTGGGAATTGAAAGGAAAGAGGGTTAGGGATTATG
1 GAAGAGTGAATTGGGAATTG-AA-GAAAGAGGGTTAGGGATTATG
221988 GAAGAGTGAATTGGGAATTGAAGAAAGAGG
1 GAAGAGTGAATTGGGAATTGAAGAAAGAGG
222018 ATTACCTGAT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
41 4 0.06
42 11 0.17
43 10 0.15
44 23 0.35
45 18 0.27
ACGTcount: A:0.40, C:0.00, G:0.41, T:0.20
Consensus pattern (43 bp):
GAAGAGTGAATTGGGAATTGAAGAAAGAGGGTTAGGGATTATG
Found at i:227047 original size:12 final size:12
Alignment explanation
Indices: 227030--227076 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
227020 GTATTGTTAG
227030 AGTCGGAGGAGA
1 AGTCGGAGGAGA
227042 AGTCGGAGGAGA
1 AGTCGGAGGAGA
*
227054 AG--AG-GGAGA
1 AGTCGGAGGAGA
227063 AGTCGGAGGAGA
1 AGTCGGAGGAGA
227075 AG
1 AG
227077 AGGAGGAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
11 1 0.03
12 21 0.70
ACGTcount: A:0.36, C:0.06, G:0.51, T:0.06
Consensus pattern (12 bp):
AGTCGGAGGAGA
Found at i:227061 original size:21 final size:21
Alignment explanation
Indices: 227037--227079 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
227027 TAGAGTCGGA
227037 GGAGAAGTCGGAGGAGAAGAG
1 GGAGAAGTCGGAGGAGAAGAG
227058 GGAGAAGTCGGAGGAGAAGAG
1 GGAGAAGTCGGAGGAGAAGAG
227079 G
1 G
227080 AGGAACGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.53, T:0.05
Consensus pattern (21 bp):
GGAGAAGTCGGAGGAGAAGAG
Found at i:228127 original size:23 final size:23
Alignment explanation
Indices: 228101--228151 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
228091 AATAACATAT
* **
228101 TAGGTACCGTTTATATAATGTAA
1 TAGGTACCGCTTATATAATAAAA
*
228124 TAGGTAGCGCTTATATAATAAAA
1 TAGGTACCGCTTATATAATAAAA
228147 TAGGT
1 TAGGT
228152 TAATTACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (23 bp):
TAGGTACCGCTTATATAATAAAA
Found at i:228205 original size:23 final size:23
Alignment explanation
Indices: 228179--228230 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
228169 ATCAAGCACA
*
228179 ATAATATATTAGGTAAAACTTAT
1 ATAATATAATAGGTAAAACTTAT
* ***
228202 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAAAACTTAT
228225 ATAATA
1 ATAATA
228231 AAATTAGTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (23 bp):
ATAATATAATAGGTAAAACTTAT
Found at i:228319 original size:21 final size:22
Alignment explanation
Indices: 228276--228320 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
228266 ATAATATATT
228276 AGGTAGCGATTATATAACGTAAA
1 AGGTAGCGATTATATAAC-TAAA
* *
228299 AGGTAGTGCTTATATAA-TAAA
1 AGGTAGCGATTATATAACTAAA
228320 A
1 A
228321 TATGTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
23 15 0.75
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (22 bp):
AGGTAGCGATTATATAACTAAA
Found at i:228332 original size:87 final size:86
Alignment explanation
Indices: 228073--228333 Score: 371
Period size: 87 Copynumber: 3.0 Consensus size: 86
228063 TCATTTAACC
* * *
228073 GGAAATATTATCAAGCACAATAACATATTAGGTACCGTTTATATAATGTAATAGGTAGCGCTTAT
1 GGAAACATTATCAAGCACAATAATATATTAGGTA-CGATTATATAATGTAATAGGTAGCGCTTAT
* *
228138 ATAATAAAATAGGTTAATTACT
65 ATAATAAAATATGTTAATTATT
** **
228160 ATAAACATTATCAAGCACAATAATATATTAGGTAAAACTTATATAATGTAATAGGTAGCGCTTAT
1 GGAAACATTATCAAGCACAATAATATATTAGGTACGA-TTATATAATGTAATAGGTAGCGCTTAT
228225 ATAATAAAAT-TAGTTAATTATT
65 ATAATAAAATAT-GTTAATTATT
* * *
228247 GGAAACATTATCAAGCACAATAATATATTAGGTAGCGATTATATAACGTAAAAGGTAGTGCTTAT
1 GGAAACATTATCAAGCACAATAATATATTAGGTA-CGATTATATAATGTAATAGGTAGCGCTTAT
228312 ATAATAAAATATGTTAATTATT
65 ATAATAAAATATGTTAATTATT
228334 TAATTTGTTA
Statistics
Matches: 154, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
87 152 0.99
88 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (86 bp):
GGAAACATTATCAAGCACAATAATATATTAGGTACGATTATATAATGTAATAGGTAGCGCTTATA
TAATAAAATATGTTAATTATT
Done.