Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002837.1 Hibiscus syriacus cultivar Beakdansim tig00005840_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: 55888
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Found at i:2824 original size:36 final size:36
Alignment explanation
Indices: 2780--2869 Score: 94
Period size: 36 Copynumber: 2.5 Consensus size: 36
2770 ATTTTCGATT
* *
2780 TGAATTCTGTTCTGATTTCTAATCTGA-ATTATGTTC
1 TGAATTCTGTTCTGATTTCTAATCTGATA-TATGATA
* * *
2816 TGATTTCTGATCTGGA-TTCTATTCTGATATATGATA
1 TGAATTCTGTTCT-GATTTCTAATCTGATATATGATA
*
2852 TGAATTCTGTTTTGATTT
1 TGAATTCTGTTCTGATTT
2870 TTGATATCTC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
35 2 0.05
36 38 0.88
37 3 0.07
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (36 bp):
TGAATTCTGTTCTGATTTCTAATCTGATATATGATA
Found at i:2875 original size:24 final size:24
Alignment explanation
Indices: 2766--2876 Score: 107
Period size: 24 Copynumber: 4.6 Consensus size: 24
2756 GAATGTTTTA
*
2766 TCTGATTT-TCGATTTGAATTCTGT
1 TCTGATTTCT-GATATGAATTCTGT
* * *
2790 TCTGATTTCTAATCTGAATTATGT
1 TCTGATTTCTGATATGAATTCTGT
* * *
2814 TCTGATTTCTGATCTGGATTCTAT
1 TCTGATTTCTGATATGAATTCTGT
* *
2838 TCTGATATATGATATGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
* *
2862 TTTGATTTTTGATAT
1 TCTGATTTCTGATAT
2877 CTCAGTTTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
24 70 0.99
25 1 0.01
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:9021 original size:45 final size:45
Alignment explanation
Indices: 8971--9295 Score: 515
Period size: 45 Copynumber: 7.2 Consensus size: 45
8961 TATTCATTAT
* * ** **
8971 TTTCATTTATGACATCATTTCATGCCTTTAATGCACATTTGCGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
9016 TTTCATTTATGGCATCCTTTCATGTCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
9061 TTTCAATTACGGCATCCTTTCATACCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
9106 TTTAATTTATGACATCATTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
9151 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
9196 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTGTGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
9241 TTTCATTTATGGCATCCTTTCATGCCTTTAAGGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
9286 TTTCATTTAT
1 TTTCATTTAT
9296 CTAATGAAAA
Statistics
Matches: 257, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 257 1.00
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:9813 original size:94 final size:96
Alignment explanation
Indices: 9649--9847 Score: 262
Period size: 95 Copynumber: 2.1 Consensus size: 96
9639 CCTACAATGT
* *
9649 TATCGATACTTCTATACTATGGTATCGATACGCCCTTCTAGTATCGATACCATTTCTACATTCTT
1 TATCGATACTTCTATACTATGGTATCGATACGCCCTTCTAATATCGATACCATTTCTACATTCTG
* *
9714 TAATT-CATGATATCAATACCTTTCTCTTAG
66 GAATTCCATGATATCAATAACTTTCTCTTAG
* *
9744 TATCGATACTTCTATACTAT-GTATCGATACTCCCTT-TCAATATCGATATCATTT-TGACATTC
1 TATCGATACTTCTATACTATGGTATCGATACGCCCTTCT-AATATCGATACCATTTCT-ACATTC
* * *
9806 TGGAATTCCCTGGTATCAATAACTTTCTCTTGG
64 TGGAATTCCATGATATCAATAACTTTCTCTTAG
*
9839 TATTGATAC
1 TATCGATAC
9848 CTATAGCAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
93 2 0.02
94 40 0.44
95 49 0.54
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (96 bp):
TATCGATACTTCTATACTATGGTATCGATACGCCCTTCTAATATCGATACCATTTCTACATTCTG
GAATTCCATGATATCAATAACTTTCTCTTAG
Found at i:16042 original size:45 final size:45
Alignment explanation
Indices: 15987--16356 Score: 517
Period size: 45 Copynumber: 8.2 Consensus size: 45
15977 TATTCATTAT
* * * ** *
15987 TTTCAATTATGGCATCATTTCATGCCTTTATTGCACATTTGTGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
16032 TTTCATTTAT-GCATCCTTTCATGCCTTTAATGCATCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * *
16076 TTTCATTTATGGCATCTTTTCTTGTCTTTAATGGACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
16121 TTTCATTTACGACATCCTTTCATGCCTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
16166 TTTTATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
16211 TTTTATTTATGGCATCCTTTCGTGCCTTTAATGCACCGTTATGAA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
16256 TTTCATTTATGGCATCCCTTCATGCCTTTAATGCACCGTTGTGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
16301 TTTCATTTATGGCATCCTTTTATGCCTTTAATGCATCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
16346 TTTCATTTATG
1 TTTCATTTATG
16357 TAATGAAATC
Statistics
Matches: 287, Mismatches: 37, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 38 0.13
45 249 0.87
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:16857 original size:95 final size:96
Alignment explanation
Indices: 16711--16908 Score: 247
Period size: 95 Copynumber: 2.1 Consensus size: 96
16701 TACCATGGTG
* * * **
16711 TCGATACTTCTATACTATAGTATCAATACACCCTTCTAGTATAGATGCCATTTTTACATTCTGCA
1 TCGATACTTCTATACTATAGTACCAATACACCCTTCTAATATAGATACCATTTCGACATTCTGCA
*
16776 ATT-CATAGTATCGATACCTTTCTCTTAGTA
66 ATTCCATAGTATCAATACCTTTCTCTTAGTA
* * * * *
16806 TCGATACTTCTATACTATTGTACCAATACTCCCTT-TCAATATCGATACCATTTCGACATTTTGG
1 TCGATACTTCTATACTATAGTACCAATACACCCTTCT-AATATAGATACCATTTCGACATTCTGC
* * *
16870 AATTCCCTGGTATCAATACCTTTCTCTTGGTA
65 AATTCCATAGTATCAATACCTTTCTCTTAGTA
16902 TCGATAC
1 TCGATAC
16909 CTACAACATT
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
94 1 0.01
95 56 0.64
96 30 0.34
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (96 bp):
TCGATACTTCTATACTATAGTACCAATACACCCTTCTAATATAGATACCATTTCGACATTCTGCA
ATTCCATAGTATCAATACCTTTCTCTTAGTA
Found at i:19155 original size:45 final size:45
Alignment explanation
Indices: 19104--19256 Score: 200
Period size: 45 Copynumber: 3.4 Consensus size: 45
19094 TAAGTCAAGG
*
19104 CTTTTGATTATTGGGTTGTCAAAAGTAAAATCAAAGGATTCGTTT
1 CTTTTGATTATTGGGTTGTCAAAAGTAAAATCAAAGGATTAGTTT
* * *
19149 CTTTTGATTATTGTGTTGCCAAAAGTAAAATCAAAGGATTATTTT
1 CTTTTGATTATTGGGTTGTCAAAAGTAAAATCAAAGGATTAGTTT
* * * *
19194 CTTTGGATTATTGGATTGCTGAAAA-TAAAATCAAAGGATTAGTTC
1 CTTTTGATTATTGGGTTG-TCAAAAGTAAAATCAAAGGATTAGTTT
* *
19239 CTTTTGAATATTAGGTTG
1 CTTTTGATTATTGGGTTG
19257 ACATAATTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 88 0.96
46 4 0.04
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (45 bp):
CTTTTGATTATTGGGTTGTCAAAAGTAAAATCAAAGGATTAGTTT
Found at i:19494 original size:58 final size:58
Alignment explanation
Indices: 19412--19632 Score: 306
Period size: 58 Copynumber: 3.8 Consensus size: 58
19402 AATCTTGCAT
* * * *
19412 TGATTCT-ACTTCGTAAGGAAAATAGATTGTTGAATTTATTTCTTTGAGAATCTTTAA
1 TGATTCTAACTTTGTAAAGAAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTAAA
19469 TGATTCTAACTTTGTAAAGAAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTAAA
1 TGATTCTAACTTTGTAAAGAAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTAAA
*
19527 TGATTCTAACTTTGTAAGGAAAATA-ATTTGTTGAATTTATTTCCTTG-GAAATCTTAAA
1 TGATTCTAACTTTGTAAAGAAAATAGA-TTGTTGAATTTATTTCCTTGAG-AATCTTAAA
* * * *
19585 TGATTTTAACTTTGT-AAGAAAAATAAATTGTCGAATTTATTTTCTTGA
1 TGATTCTAACTTTGTAAAG-AAAATAGATTGTTGAATTTATTTCCTTGA
19633 TATGATTATA
Statistics
Matches: 149, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
57 11 0.07
58 137 0.92
59 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.43
Consensus pattern (58 bp):
TGATTCTAACTTTGTAAAGAAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTAAA
Found at i:19718 original size:58 final size:59
Alignment explanation
Indices: 19648--19803 Score: 179
Period size: 58 Copynumber: 2.7 Consensus size: 59
19638 TTATATCCAT
* * * *
19648 TAAAAAGAAATAAATTATTAAATTTATTTTTTTGAGAATCTTAAATGATTTTT-TTGTG
1 TAAAAGGAAATAAATTGTTAAATTTATTTTCTTGAGAATCCTAAATGATTTTTATTGTG
** * * * *
19706 TAAAAGTTAATAAATTGTTAAAATTATTTTCATGAGAATCCTAAATTATTTTTATTTTG
1 TAAAAGGAAATAAATTGTTAAATTTATTTTCTTGAGAATCCTAAATGATTTTTATTGTG
* * * *
19765 TTAAAGGAAATAAGTTGTTAAGTTTATTTTCTTGGGAAT
1 TAAAAGGAAATAAATTGTTAAATTTATTTTCTTGAGAAT
19804 ATTGAATAAA
Statistics
Matches: 79, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
58 44 0.56
59 35 0.44
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (59 bp):
TAAAAGGAAATAAATTGTTAAATTTATTTTCTTGAGAATCCTAAATGATTTTTATTGTG
Found at i:19920 original size:39 final size:38
Alignment explanation
Indices: 19852--19925 Score: 121
Period size: 39 Copynumber: 1.9 Consensus size: 38
19842 TATGATTCTA
*
19852 TTTTTAAAAGGAAATAAATCGTTGGATTTATTTTCCTG
1 TTTTTAAAAGGAAATAAATCGTTGAATTTATTTTCCTG
*
19890 TTTTGTAAAAGGAAATAAATTGTTGAATTTATTTTC
1 TTTT-TAAAAGGAAATAAATCGTTGAATTTATTTTC
19926 TTGAGAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
38 4 0.12
39 29 0.88
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (38 bp):
TTTTTAAAAGGAAATAAATCGTTGAATTTATTTTCCTG
Found at i:19966 original size:97 final size:97
Alignment explanation
Indices: 19837--20195 Score: 460
Period size: 97 Copynumber: 3.8 Consensus size: 97
19827 GAATTTATTT
* * * * * *
19837 TCTTATATGATTCT-ATTTTTAAAAGGAAATAAATCGTTGGATTTATTTTCCTGTTTTGTAAAAG
1 TCTTGTATGATTCTGATATGTAAAAGGAAATAAATCGTAGAATTTATTTTCCTGTTTTGAAAAAG
* * * *
19901 GAAATAAATTGTTGAATTTATTTTCTTGAGAA
66 GAAATAAATTGGTAAATTTATTTTCCTAAGAA
*** * * *
19933 TCTCACATGATTCTGATTTGTAAAAGGAAATAAATCGTAGAATTTATTTTCTTGTTTTGAAAAAA
1 TCTTGTATGATTCTGATATGTAAAAGGAAATAAATCGTAGAATTTATTTTCCTGTTTTGAAAAAG
19998 GAAATAAATTGGTAAATTTATTTTCCTAAGAA
66 GAAATAAATTGGTAAATTTATTTTCCTAAGAA
* * *
20030 TCTTGTATGATTATGATATGT--AA--AAA-AAATCGTAGAATTTATTTTCATGTTTTAAAAAAG
1 TCTTGTATGATTCTGATATGTAAAAGGAAATAAATCGTAGAATTTATTTTCCTGTTTTGAAAAAG
20090 GAAATAAATTGGTAAATTTATTTTCCTAAGAA
66 GAAATAAATTGGTAAATTTATTTTCCTAAGAA
* * * * *
20122 TCTTGTATGATTCTAATATGTAATAGGAAATAAATCGTTGGATTTATTTTCCTATTTTGAAAAAG
1 TCTTGTATGATTCTGATATGTAAAAGGAAATAAATCGTAGAATTTATTTTCCTGTTTTGAAAAAG
20187 GAAATAAAT
66 GAAATAAAT
20196 CATAGAATTT
Statistics
Matches: 229, Mismatches: 28, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
92 82 0.36
93 3 0.01
94 1 0.00
95 2 0.01
96 15 0.07
97 126 0.55
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.42
Consensus pattern (97 bp):
TCTTGTATGATTCTGATATGTAAAAGGAAATAAATCGTAGAATTTATTTTCCTGTTTTGAAAAAG
GAAATAAATTGGTAAATTTATTTTCCTAAGAA
Found at i:20206 original size:39 final size:39
Alignment explanation
Indices: 20140--20481 Score: 389
Period size: 39 Copynumber: 8.6 Consensus size: 39
20130 GATTCTAATA
* *
20140 TGTAATAGGAAATAAATCGTTGGATTTATTTTCCTATTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTCCTATTT
* * * * * **
20179 TGAAAAAGGAAATAAATCATAGAATTTAGTTTCTTGGTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTCCTATTT
*
20218 TGTAAAAGGAAATAAAAT-GTTGGATTTATTTTCCTATTT
1 TGTAAAAGGAAAT-AAATCATTGGATTTATTTTCCTATTT
* * *
20257 TGTACAAGAAAATAAATCATTGGATTTAGTTTCCTATTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTCCTATTT
*
20296 TGTAAAAGGAAATAAATCGAACAAATTGTTGATTTATTTTCCTGTTT
1 TGTAAAAGGAAATAAAT----C--ATTG--GATTTATTTTCCTATTT
* ** *
20343 TGTAAAAGGAAATAAATCGTTAAATTTATTTTTCTATTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTCCTATTT
* *
20382 TGTAAAAGAAAATAAATCATTGGATTTAGTTTCCTATTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTCCTATTT
* *
20421 TGTAAAAGGAAATAAATCGTTGGATTTATTTTTCTATTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTCCTATTT
*
20460 TGTAACAGGAAATAAATCATTG
1 TGTAAAAGGAAATAAATCATTG
20482 AACTTTTTTT
Statistics
Matches: 251, Mismatches: 42, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
38 4 0.02
39 203 0.81
40 4 0.02
41 2 0.01
43 2 0.01
45 4 0.02
47 32 0.13
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (39 bp):
TGTAAAAGGAAATAAATCATTGGATTTATTTTCCTATTT
Found at i:20391 original size:125 final size:119
Alignment explanation
Indices: 20140--20439 Score: 390
Period size: 125 Copynumber: 2.5 Consensus size: 119
20130 GATTCTAATA
* * * * *
20140 TGTAATAGGAAATAAATCGTTGGATTTATTTTCCTATTTTGAAAAAGGAAATAAAT--CATAGAA
1 TGTAAAAGAAAATAAATCATTGGATTTAGTTTCCTATTTTGTAAAAGGAAATAAATCGCATAGAA
* **
20203 TTTAGTTTCTTGGTTTGTAAAAGGAAATAAAATGTTGGATTTATTTTCCTATTT
66 TTTAGTTTCCTGGTTTGTAAAAGGAAATAAAATGTTAAATTTATTTTCCTATTT
*
20257 TGTACAAGAAAATAAATCATTGGATTTAGTTTCCTATTTTGTAAAAGGAAATAAATCGAACAAAT
1 TGTAAAAGAAAATAAATCATTGGATTTAGTTTCCTATTTTGTAAAAGGAAATAAATCG--C--AT
* * * * *
20322 TGTTGATTTATTTTCCTGTTTTGTAAAAGGAAAT-AAATCGTTAAATTTATTTTTCTATTT
62 AG--AATTTAGTTTCCTGGTTTGTAAAAGGAAATAAAAT-GTTAAATTTATTTTCCTATTT
20382 TGTAAAAGAAAATAAATCATTGGATTTAGTTTCCTATTTTGTAAAAGGAAATAAATCG
1 TGTAAAAGAAAATAAATCATTGGATTTAGTTTCCTATTTTGTAAAAGGAAATAAATCG
20440 TTGGATTTAT
Statistics
Matches: 159, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
117 50 0.31
121 1 0.01
123 3 0.02
124 4 0.03
125 101 0.64
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.41
Consensus pattern (119 bp):
TGTAAAAGAAAATAAATCATTGGATTTAGTTTCCTATTTTGTAAAAGGAAATAAATCGCATAGAA
TTTAGTTTCCTGGTTTGTAAAAGGAAATAAAATGTTAAATTTATTTTCCTATTT
Found at i:20407 original size:164 final size:164
Alignment explanation
Indices: 20153--20477 Score: 451
Period size: 164 Copynumber: 2.0 Consensus size: 164
20143 AATAGGAAAT
20153 AAATCGTTGGATTTATTTTCCTATTTTGAAAAAGGAAATAAATCATAGAATTTAGTTTCTTGGTT
1 AAATCGTTGGATTTATTTTCCTATTTTGAAAAAGGAAATAAATCATAGAATTTAGTTTCTT-GTT
* * * *
20218 TGTAAAAGGAAATAAAATGTTGGATTTATTTTCCTATTTTGTACAAGAAAATAAATCATTGGATT
65 TGTAAAAGAAAATAAAATATTGGATTTAGTTTCCTATTTTGTAAAAGAAAATAAATCATTGGATT
20283 TAGTTTCCTATTTTGTAAAAGGAAATAAATCGAAC
130 TAGTTTCCTATTTTGTAAAAGGAAATAAATCGAAC
* * * * *
20318 AAATTGTT-GATTTATTTTCCTGTTTTGTAAAAGGAAATAAATCGTTA-AATTTATTTTTCTAT-
1 AAATCGTTGGATTTATTTTCCTATTTTGAAAAAGGAAATAAATC-ATAGAATTTA-GTTTCT-TG
* *
20380 TTTGTAAAAGAAAAT-AAATCATTGGATTTAGTTTCCTATTTTGTAAAAGGAAATAAATCGTTGG
63 TTTGTAAAAGAAAATAAAAT-ATTGGATTTAGTTTCCTATTTTGTAAAAGAAAATAAATCATTGG
* * *
20444 ATTTATTTTTCTATTTTGTAACAGGAAATAAATC
127 ATTTAGTTTCCTATTTTGTAAAAGGAAATAAATC
20478 ATTGAACTTT
Statistics
Matches: 142, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
163 4 0.03
164 123 0.87
165 14 0.10
166 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (164 bp):
AAATCGTTGGATTTATTTTCCTATTTTGAAAAAGGAAATAAATCATAGAATTTAGTTTCTTGTTT
GTAAAAGAAAATAAAATATTGGATTTAGTTTCCTATTTTGTAAAAGAAAATAAATCATTGGATTT
AGTTTCCTATTTTGTAAAAGGAAATAAATCGAAC
Found at i:24947 original size:45 final size:45
Alignment explanation
Indices: 24852--25200 Score: 506
Period size: 45 Copynumber: 7.8 Consensus size: 45
24842 GTAAGCATGC
*
24852 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
24896 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTAGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
24941 AAATAAGCTTACGAGCTAATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * * *
24986 AAATAAGCTTATGAGCTTATGAAATAAAAGGTAAGAATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
25031 AAATAAGCTTATGAGCTTATGGAAAAAAAT-TTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGTA
*
25076 AAACAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
25121 AAATTAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
25166 AAATAAGCTTACGAGCTCATAGG-ATAAATGATAAG
1 AAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAG
25201 AAATTTTATA
Statistics
Matches: 273, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
44 31 0.11
45 235 0.86
46 7 0.03
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:26811 original size:21 final size:21
Alignment explanation
Indices: 26768--26811 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
26758 GTTACGTTTA
*
26768 TAAAAAATTTAAAATTTTATT
1 TAAAAAATTTAAAATATTATT
26789 TAAAAAACTTTAAAATATT-TT
1 TAAAAAA-TTTAAAATATTATT
26810 TA
1 TA
26812 TATTTAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAAATTTAAAATATTATT
Found at i:27215 original size:19 final size:19
Alignment explanation
Indices: 27188--27232 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
27178 TTTTCAAATT
*
27188 TTTGGGATTCATTTTAAGA
1 TTTGAGATTCATTTTAAGA
*
27207 TTTGAGATTTATTTTAAGA
1 TTTGAGATTCATTTTAAGA
27226 TTTGAGA
1 TTTGAGA
27233 AAAATTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (19 bp):
TTTGAGATTCATTTTAAGA
Found at i:27239 original size:19 final size:19
Alignment explanation
Indices: 27198--27256 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
27188 TTTGGGATTC
***
27198 ATTTTAAGATTTGAGATTT
1 ATTTTAAGATTTGAGAAAA
27217 ATTTTAAGATTTGAGAAAA
1 ATTTTAAGATTTGAGAAAA
* *
27236 A-TTTAAGGTTTTA-AAAA
1 ATTTTAAGATTTGAGAAAA
27253 ATTT
1 ATTT
27257 ATACTTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 5 0.15
18 12 0.35
19 17 0.50
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (19 bp):
ATTTTAAGATTTGAGAAAA
Found at i:27288 original size:19 final size:20
Alignment explanation
Indices: 27247--27289 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
27237 TTTAAGGTTT
* * *
27247 TAAAAAATTTATACTTTTAA
1 TAAAAAATTCAAAATTTTAA
27267 TAAAAAATTCAAAATTTT-A
1 TAAAAAATTCAAAATTTTAA
27286 TAAA
1 TAAA
27290 CACGACACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAAAATTCAAAATTTTAA
Found at i:27928 original size:14 final size:14
Alignment explanation
Indices: 27909--27938 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27899 TTCCAGATAA
27909 AAACAAAAAACAAT
1 AAACAAAAAACAAT
*
27923 AAACAAAAAATAAT
1 AAACAAAAAACAAT
27937 AA
1 AA
27939 TATATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (14 bp):
AAACAAAAAACAAT
Found at i:32593 original size:16 final size:16
Alignment explanation
Indices: 32572--32603 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32562 CATAGGAGAG
32572 GACAAAATGAGATAGA
1 GACAAAATGAGATAGA
*
32588 GACAAAATGTGATAGA
1 GACAAAATGAGATAGA
32604 TAAACTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.25, T:0.16
Consensus pattern (16 bp):
GACAAAATGAGATAGA
Found at i:32950 original size:107 final size:105
Alignment explanation
Indices: 32744--32951 Score: 249
Period size: 107 Copynumber: 2.0 Consensus size: 105
32734 TTAATGTAAT
* * *
32744 TATATATATATGCAATAAATATGAGTTATTCCTCTAAAGCAATTAGTTAAAAGCCCTGGCTTTAT
1 TATACATATATGCAATAAATATGAGCTATTCCTCTAAAGCAATTAGTTAAAAGCCCTGACTTTAT
* * *
32809 AGATAGGCTCCATCAGCTAGCCAAATAAAGGCAAATCATA
66 AGATAGACTCCATCAGCTAGCCAAACAAAAGCAAATCATA
* *
32849 TATACATATATGTACAATAAAGT-TGAGCTATTCCTCTAAAGTAATTGGTTAAAAGCCCTGACTT
1 TATACATATATG--CAATAAA-TATGAGCTATTCCTCTAAAGCAATTAGTTAAAAGCCCTGACTT
* * * * *
32913 TATGGATAGATTTC-TCTAGCTATCTAAACAAAAGCAAAT
63 TATAGATAGACTCCATC-AGCTAGCCAAACAAAAGCAAAT
32952 TAAATTGAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
105 11 0.13
106 2 0.02
107 72 0.84
108 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (105 bp):
TATACATATATGCAATAAATATGAGCTATTCCTCTAAAGCAATTAGTTAAAAGCCCTGACTTTAT
AGATAGACTCCATCAGCTAGCCAAACAAAAGCAAATCATA
Found at i:33632 original size:18 final size:18
Alignment explanation
Indices: 33606--33655 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
33596 ATTTGTCATG
* *
33606 AGATGAAGACTTAAGCAA
1 AGATAAAGACTCAAGCAA
33624 AGATAAAGACTCAAGCAA
1 AGATAAAGACTCAAGCAA
* *
33642 AGATGATGACTCAA
1 AGATAAAGACTCAA
33656 CAAGGGGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.20, T:0.16
Consensus pattern (18 bp):
AGATAAAGACTCAAGCAA
Found at i:38032 original size:39 final size:39
Alignment explanation
Indices: 37966--38042 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
37956 GCTGAGCCAC
* * * *
37966 CGAGCCGAGCCGCCGCGTCGAGTCACTGAGCCGAGTCGT
1 CGAGCAGAGCCACCGAGTCGAGCCACTGAGCCGAGTCGT
*
38005 CGAGCAGAGCCACCGAGTTGAGCCACTGAGCCGAGTCG
1 CGAGCAGAGCCACCGAGTCGAGCCACTGAGCCGAGTCG
38043 CTGAGCCAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.19, C:0.34, G:0.35, T:0.12
Consensus pattern (39 bp):
CGAGCAGAGCCACCGAGTCGAGCCACTGAGCCGAGTCGT
Found at i:40106 original size:31 final size:31
Alignment explanation
Indices: 40068--40250 Score: 156
Period size: 31 Copynumber: 5.9 Consensus size: 31
40058 CTAATGTGAC
** *
40068 TCTTGGGTAGGCTATGCGGCCCCAAGATCAT
1 TCTTGGGTAGGCCCTGCGGCCCCAAGATCTT
* *
40099 TCTTGGGTAGGCCCTGCGG-CCCTAGCATTTT
1 TCTTGGGTAGGCCCTGCGGCCCCAAG-ATCTT
* * *
40130 TCTTGGGTAGG-TCT-CATGGCCCTAAGATCAT
1 TCTTGGGTAGGCCCTGC--GGCCCCAAGATCTT
* **
40161 TCTTGGGTAGGCCCTACGGCCCTGAGATCTT
1 TCTTGGGTAGGCCCTGCGGCCCCAAGATCTT
* ** *
40192 TCTTGGGTAGGCCCTGTGGCCCTGAGAACTT
1 TCTTGGGTAGGCCCTGCGGCCCCAAGATCTT
* **
40223 TCTTGGGTAGGCTCTTAGGCCCCAAGAT
1 TCTTGGGTAGGCCCTGCGGCCCCAAGAT
40251 GCTCCCTTAG
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
29 1 0.01
30 7 0.06
31 109 0.88
32 6 0.05
33 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.30
Consensus pattern (31 bp):
TCTTGGGTAGGCCCTGCGGCCCCAAGATCTT
Found at i:40212 original size:62 final size:62
Alignment explanation
Indices: 40068--40234 Score: 212
Period size: 62 Copynumber: 2.7 Consensus size: 62
40058 CTAATGTGAC
* * * * *
40068 TCTTGGGTAGGCTATGCGGCCCCAAGATCATTCTTGGGTAGGCCCTGCGGCCCTAGCATTTT
1 TCTTGGGTAGGCTCTGTGGCCCTAAGATCATTCTTGGGTAGGCCCTACGGCCCTAGCATCTT
*
40130 TCTTGGGTAGG-TCTCATGGCCCTAAGATCATTCTTGGGTAGGCCCTACGGCCCTGAG-ATCTT
1 TCTTGGGTAGGCTCT-GTGGCCCTAAGATCATTCTTGGGTAGGCCCTACGGCCCT-AGCATCTT
* * * *
40192 TCTTGGGTAGGCCCTGTGGCCCTGAGAACTTTCTTGGGTAGGC
1 TCTTGGGTAGGCTCTGTGGCCCTAAGATCATTCTTGGGTAGGC
40235 TCTTAGGCCC
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
61 2 0.02
62 85 0.93
63 4 0.04
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (62 bp):
TCTTGGGTAGGCTCTGTGGCCCTAAGATCATTCTTGGGTAGGCCCTACGGCCCTAGCATCTT
Found at i:40225 original size:93 final size:93
Alignment explanation
Indices: 40068--40250 Score: 235
Period size: 93 Copynumber: 2.0 Consensus size: 93
40058 CTAATGTGAC
* * **
40068 TCTTGGGTAGGCTATGCGGCCCCAAGATCATTCTTGGGTAGGCCCTGCGGCCCTAGCATTTTTCT
1 TCTTGGGTAGGCCATACGGCCCCAAGATCATTCTTGGGTAGGCCCTGCGGCCCTAGCAACTTTCT
*
40133 TGGGTAGGTCTCAT-GGCCCTAAGATCAT
66 TGGGTAGG-CTCATAGGCCCCAAGATCAT
* ** * *
40161 TCTTGGGTAGGCCCTACGGCCCTGAGATCTTTCTTGGGTAGGCCCTGTGGCCCTGAG-AACTTTC
1 TCTTGGGTAGGCCATACGGCCCCAAGATCATTCTTGGGTAGGCCCTGCGGCCCT-AGCAACTTTC
*
40225 TTGGGTAGGCTCTTAGGCCCCAAGAT
65 TTGGGTAGGCTCATAGGCCCCAAGAT
40251 GCTCCCTTAG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
92 4 0.05
93 71 0.92
94 2 0.03
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.30
Consensus pattern (93 bp):
TCTTGGGTAGGCCATACGGCCCCAAGATCATTCTTGGGTAGGCCCTGCGGCCCTAGCAACTTTCT
TGGGTAGGCTCATAGGCCCCAAGATCAT
Found at i:42329 original size:53 final size:55
Alignment explanation
Indices: 42213--42334 Score: 164
Period size: 53 Copynumber: 2.3 Consensus size: 55
42203 GTCCTCCATG
* *
42213 ACGTTGCTTTGTTGAG-CCCCGTACAAGTTATAAGATGGTCTCCAACTATACGAA
1 ACGTTGCTTTGTTGAGTCCCCGTAAAAGTTATAAAATGGTCTCCAACTATACGAA
*
42267 AC--TACTTTGTTGAGTCCCCGTAAAAGTTATAAAATGGTCTCCAACTATA-G-A
1 ACGTTGCTTTGTTGAGTCCCCGTAAAAGTTATAAAATGGTCTCCAACTATACGAA
* *
42318 GCGTTGTTTTGTTGAGT
1 ACGTTGCTTTGTTGAGT
42335 GTCCCGATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
51 2 0.03
52 12 0.20
53 43 0.73
54 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (55 bp):
ACGTTGCTTTGTTGAGTCCCCGTAAAAGTTATAAAATGGTCTCCAACTATACGAA
Found at i:43099 original size:15 final size:16
Alignment explanation
Indices: 43063--43100 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
43053 AGAACCTCTG
*
43063 AATCATTTAGCATTTA
1 AATCATTTAGCACTTA
*
43079 AATCATTTAGTACTT-
1 AATCATTTAGCACTTA
43094 AATCATT
1 AATCATT
43101 CTGAAATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (16 bp):
AATCATTTAGCACTTA
Found at i:43814 original size:16 final size:17
Alignment explanation
Indices: 43782--43817 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
43772 TACTATTAAA
43782 AAATAGTGTAATTGGTT
1 AAATAGTGTAATTGGTT
*
43799 AAATAG-GTAGTTGGTT
1 AAATAGTGTAATTGGTT
43815 AAA
1 AAA
43818 ATTGATAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (17 bp):
AAATAGTGTAATTGGTT
Found at i:43819 original size:17 final size:18
Alignment explanation
Indices: 43781--43819 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
43771 ATACTATTAA
43781 AAAATAGTGTAATTGGTT
1 AAAATAGTGTAATTGGTT
*
43799 -AAATAG-GTAGTTGGTT
1 AAAATAGTGTAATTGGTT
43815 AAAAT
1 AAAAT
43820 TGATAACGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.23, T:0.36
Consensus pattern (18 bp):
AAAATAGTGTAATTGGTT
Found at i:44624 original size:224 final size:224
Alignment explanation
Indices: 43949--44756 Score: 911
Period size: 225 Copynumber: 3.6 Consensus size: 224
43939 ACCGGAAATA
* * ** * *
43949 TTATTAACCATAATAA-ATTATTAGGTAGCACTTATAAAACGTAATA-AGTAGCTCATTTTT-AA
1 TTATCAACCATAATAACA-TATTAGGTAGCGCTTATGTAACGTAATAGA-TAGCGCCTTTTTAAA
* * * * *
44011 GCTAATGAAG-CTCAGAAATCCGACGATAACAAAATAAGTTAATTACTTAATTTGTTATCAGTAT
64 GCTGATG-GGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTAT
* ** * * *
44075 TATCAACATATTAGGTAACGAAT-AAAAATGTTGTCAAATTTTAAGTTGATGGAGCCTTAGAAAT
128 TATCAACATATTAGGTAACG--TCAAAAATATTACCAAAGTTTAAGTTGATAGAGTCTTAGAAAT
*
44139 CCAACGATA-AT-ATAACCGCTTAATTACTTAATTTG
191 CCGACGATACATAATAA--G-TTAATTACTTAATTTG
*
44174 TTATCAACTATAATAACATATTAGGTAGCGCTTATGTAACGTAATA-AGTAGCGCCTTTTTAAAG
1 TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGA-TAGCGCCTTTTTAAAG
* * * *
44238 CTAATGGGACATTAGAAATCAGACGATAATAAAATAGGTTAATTACTTAATTTGTTATCAGTATT
65 CTGATGGG-CCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATT
* ** * * * *
44303 ATCAACATATTAGATAACACCTAAAATGA-TACTAAAGTTTAAG-CGGTAGAGTCTTAGAAATCC
129 ATCAACATATTAGGTAACGTCAAAAAT-ATTACCAAAGTTTAAGTTGATAGAGTCTTAGAAATCC
* **
44366 GACGAAAACATAACCAGTTAATTACTTAATTTG
193 GACG-ATACATAATAAGTTAATTACTTAATTTG
* * * *
44399 TTATCAACCAAAATAACATATTAGGTAGCGCTTATGTAATGTAATAGATAACGCCTTTTTAAA-T
1 TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGATAGCGCCTTTTTAAAGC
** * * *
44463 TGATGTGGCCTTAGCGATCTGACGATAACAAAATAGGTTAATTATTTAATTTGTTTTCAATATTA
66 TGATG-GGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATTA
* * * *
44528 TCATCATATTAGGTAACGTCAAAAATATTACCAAAGTTTAAGTTGATATAATCTTAGAAATCTGA
130 TCAACATATTAGGTAACGTCAAAAATATTACCAAAGTTTAAGTTGATAGAGTCTTAGAAATCCGA
* * *
44593 CGATACATAATTAGTTAATTATTTGATTTG
195 CGATACATAATAAGTTAATTACTTAATTTG
* *
44623 TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGATAGTGCCTTTTTAAAGC
1 TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGATAGCGCCTTTTTAAAGC
* * *
44688 TGATGGTGCCTTAGAAAT-TCGACGATAATAAAATAGGTTAATTACTTAATATGTTATTAGTATT
66 TGATGG-GCCTTAGAAATCT-GACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATT
44752 ATCAA
129 ATCAA
44757 TATAATCGGT
Statistics
Matches: 492, Mismatches: 75, Indels: 32
0.82 0.13 0.05
Matches are distributed among these distances:
223 1 0.00
224 170 0.35
225 221 0.45
226 29 0.06
227 69 0.14
228 2 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (224 bp):
TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGATAGCGCCTTTTTAAAGC
TGATGGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATTAT
CAACATATTAGGTAACGTCAAAAATATTACCAAAGTTTAAGTTGATAGAGTCTTAGAAATCCGAC
GATACATAATAAGTTAATTACTTAATTTG
Found at i:45104 original size:381 final size:383
Alignment explanation
Indices: 44382--45137 Score: 1074
Period size: 381 Copynumber: 2.0 Consensus size: 383
44372 AACATAACCA
*
44382 GTTAATTACTTAATTTGTTATCAACCAAAATAACATATTAGGTAGCGCTTATGTAATGTAATAGA
1 GTTAATTACTTAATTTGTTATCAACCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGA
** ** * *
44447 TAACGCCTTTTTAAATTGATGTGGCCTTAGCGATCTGACGATAACAAAATAGGTTAATTATTTAA
66 TAACGCCTTTTTAAATTGATGTGGCCTTAGAAATCCAACGATAACAAAAAAGGTTAATTACTTAA
* ** * *
44512 TTTGTTTTCAATATTATCATCATATTAGGTAACGTCAAAAATATTACCAAAGTTTAAGTTGATAT
131 TTTGTTTTCAATATTATCAACATATTAGGTAACACCAAAAATATTACAAAAGTTTAAGTTGATAG
* * **
44577 AATCTTAGAAATCTGACGATACATAATTAGTTAATTATTTGATTTGTTATCAACCATAATAACAT
196 AACCTTAGAAATCCGACGATACATAACCAGTTAATTATTTGATTTGTTATCAACCATAATAACAT
** * *
44642 ATTAGGTAGCGCTTATGTAACATAATAGATAGTGCCTTTTTAAAGCTGATGGTGCCTTAGAAATT
261 ATTAGGTAGCGCTTATGTAACATAATAGATAACGCCTTCTTAAAGCTGATAGTGCCTTAGAAATT
* * *
44707 CGACGATAATAAAATAGGTTAATTACTTAATATGTTATTAGTATTATCAATATAATCG
326 CGAAGATAACAAAATAGGTTAATTACTTAATATGTTATCAGTATTATCAATATAATCG
* * * *
44765 GTTAATTATTTGATTTGTTATCAACCATAATAACATATTAGGTAGCGTTTATATAATGTAATAGA
1 GTTAATTACTTAATTTGTTATCAACCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGA
* * *
44830 TAGCTCC-TTTTAAGTTGATGTGGCCTTAGAAATCCAACGATAA-AAAAAAGGTTAATTACTTAA
66 TAACGCCTTTTTAAATTGATGTGGCCTTAGAAATCCAACGATAACAAAAAAGGTTAATTACTTAA
* * * *
44893 TTTGTTATT-AGTATTATCAACATATTAGGTAACACCTAAAATGTTACAAAAGTTTAAGTTGATG
131 TTTGTT-TTCAATATTATCAACATATTAGGTAACACCAAAAATATTACAAAAGTTTAAGTTGATA
* *
44957 GAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTATTTGATTTGTTATCAACCATAATAAC
195 GAACCTTAGAAATCCGACGAT-ACATAACCAGTTAATTATTTGATTTGTTATCAACCATAATAAC
*
45022 ATATTAGGTAGCGCTTATGTAACATAATAGATAACGTCTTCTT-AAGCTGATAAG-GCCTTAGAA
259 ATATTAGGTAGCGCTTATGTAACATAATAGATAACGCCTTCTTAAAGCTGAT-AGTGCCTTAGAA
* * *
45085 A-TCTGAAGATAACAAAATAGGTTAATTATTTAATTTGTTATCGGTATTATCAA
323 ATTC-GAAGATAACAAAATAGGTTAATTACTTAATATGTTATCAGTATTATCAA
45138 CATATTAGGT
Statistics
Matches: 329, Mismatches: 40, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
380 2 0.01
381 149 0.45
382 113 0.34
383 65 0.20
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (383 bp):
GTTAATTACTTAATTTGTTATCAACCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGA
TAACGCCTTTTTAAATTGATGTGGCCTTAGAAATCCAACGATAACAAAAAAGGTTAATTACTTAA
TTTGTTTTCAATATTATCAACATATTAGGTAACACCAAAAATATTACAAAAGTTTAAGTTGATAG
AACCTTAGAAATCCGACGATACATAACCAGTTAATTATTTGATTTGTTATCAACCATAATAACAT
ATTAGGTAGCGCTTATGTAACATAATAGATAACGCCTTCTTAAAGCTGATAGTGCCTTAGAAATT
CGAAGATAACAAAATAGGTTAATTACTTAATATGTTATCAGTATTATCAATATAATCG
Found at i:45164 original size:225 final size:223
Alignment explanation
Indices: 44758--45236 Score: 710
Period size: 225 Copynumber: 2.1 Consensus size: 223
44748 TATTATCAAT
* * **
44758 ATAATCGGTTAATTATTTGATTTGTTATCAACCATAATAACATATTAGGTAGCGTTTATATAATG
1 ATAACCGGTTAATTATTTGATTTGTTATCAACCATAATAACATATTAGGTAGCGCTTATATAACA
* * **
44823 TAATAGATAGCTCCTTTTAAGTTGATGTGGCCTTAGAAATCCAACGATAAAAAAAAGGTTAATTA
66 TAATAGATAACTCCTTTTAAGCTGATAAGGCCTTAGAAATCCAACGATAAAAAAAAGGTTAATTA
* *
44888 CTTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAATGTTACAAAAGTTTAAGTT
131 CTTAATTTGTTATCAGTATTATCAACATATTAGGTAACACCTAAAATGTTACAAAAGTTTAAGCT
* **
44953 GATGGAGCCTTAGAAATCCGACGATAAC
196 GATGAAAACTTAGAAATCCGACGATAAC
*
44981 ATAACCGGTTAATTATTTGATTTGTTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACA
1 ATAACCGGTTAATTATTTGATTTGTTATCAACCATAATAACATATTAGGTAGCGCTTATATAACA
* *
45046 TAATAGATAACGT-CTTCTTAAGCTGATAAGGCCTTAGAAATCTGAA-GATAACAAAATAGGTTA
66 TAATAGATAAC-TCCTT-TTAAGCTGATAAGGCCTTAGAAATC-CAACGATAA-AAAAAAGGTTA
* * * *
45109 ATTATTTAATTTGTTATCGGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTA
127 ATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACACCTAAAATGTTACAAAAGTTTA
45174 AGCTGATGAAAACTTAGAAATCCGACGATAAC
192 AGCTGATGAAAACTTAGAAATCCGACGATAAC
* *
45206 ATAACCGATTAATTACTTGATTTGTTATCAA
1 ATAACCGGTTAATTATTTGATTTGTTATCAA
45237 TCTTTATTAA
Statistics
Matches: 230, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
223 73 0.32
224 28 0.12
225 129 0.56
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (223 bp):
ATAACCGGTTAATTATTTGATTTGTTATCAACCATAATAACATATTAGGTAGCGCTTATATAACA
TAATAGATAACTCCTTTTAAGCTGATAAGGCCTTAGAAATCCAACGATAAAAAAAAGGTTAATTA
CTTAATTTGTTATCAGTATTATCAACATATTAGGTAACACCTAAAATGTTACAAAAGTTTAAGCT
GATGAAAACTTAGAAATCCGACGATAAC
Found at i:46695 original size:194 final size:194
Alignment explanation
Indices: 46356--46724 Score: 460
Period size: 194 Copynumber: 1.9 Consensus size: 194
46346 TTTTTTTCAT
* * *
46356 TTCTTTTCAATTCCTAAAGTACCGATACTATGATACATATACTTATAAAAGTATCGATACCTTCA
1 TTCTTTTAAATTCCTAAAGTACCGATACTATGATACATATACTTAGAAAAATATCGATACCTTCA
* * * * * * *
46421 ACATATCTAGGAGTGCTTTACCGGTTTTGTCATATTGAAACCAATTTTGTCAAATTTTAACCTGT
66 ACATATCTAGGAGTGCTCTACAGGTTTTGTCAAACTGAAACCAATTTTGTCAAACTTCAACATGT
* * *
46486 TCAATTGTCATGTATCGATACATTTGTCTAAGGTATCGATACTTTATAGGCGCTATTATTGCAA
131 TCAATTATCATGTATCGATACATGTATCTAAGGTATCGATACTTTATAGGCGCTATTATTGCAA
* * * *
46550 TTCTTTTAAATTCCTAAAGTACCGATACTTTGGTGCATATACTTAGAAAAATATCGATACAAATT
1 TTCTTTTAAATTCCTAAAGTACCGATACTATGATACATATACTTAGAAAAATATCGATAC---CT
* **
46615 TCAACA-ATCT-GGTA-T-CTCTACATGTTTTGTCAAACTGAAACTGATTTTGTCAAACTTCAAC
63 TCAACATATCTAGG-AGTGCTCTACAGGTTTTGTCAAACTGAAACCAATTTTGTCAAACTTCAAC
* *
46676 ATGTT-ATATTATTATGTATCGATACATGTATGTAAGGTATCGATACTTT
127 ATGTTCA-ATTATCATGTATCGATACATGTATCTAAGGTATCGATACTTT
46725 CGAGACATTT
Statistics
Matches: 148, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
193 1 0.01
194 132 0.89
195 3 0.02
196 5 0.03
197 7 0.05
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (194 bp):
TTCTTTTAAATTCCTAAAGTACCGATACTATGATACATATACTTAGAAAAATATCGATACCTTCA
ACATATCTAGGAGTGCTCTACAGGTTTTGTCAAACTGAAACCAATTTTGTCAAACTTCAACATGT
TCAATTATCATGTATCGATACATGTATCTAAGGTATCGATACTTTATAGGCGCTATTATTGCAA
Found at i:51429 original size:21 final size:20
Alignment explanation
Indices: 51391--51429 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51381 AATTTATAGT
*
51391 TTATTTTCAAAATCATAAAA
1 TTATTTTCAAAAACATAAAA
*
51411 TTATTTTTAAAAACTATAA
1 TTATTTTCAAAAAC-ATAA
51430 TTTTAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTTCAAAAACATAAAA
Found at i:51806 original size:31 final size:31
Alignment explanation
Indices: 51768--51871 Score: 190
Period size: 31 Copynumber: 3.4 Consensus size: 31
51758 ACGAAATGAC
51768 CTCTCGACTATAGAGAGTTGCTTTGTTGTGT
1 CTCTCGACTATAGAGAGTTGCTTTGTTGTGT
51799 CTCTCGACTATAGAGAGTTGCTTTGTTGTGT
1 CTCTCGACTATAGAGAGTTGCTTTGTTGTGT
*
51830 CTCTCGACTATAAAGAGTTGCTTTGTTGTGT
1 CTCTCGACTATAGAGAGTTGCTTTGTTGTGT
*
51861 CTCTTGACTAT
1 CTCTCGACTAT
51872 TAAAAGTTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.42
Consensus pattern (31 bp):
CTCTCGACTATAGAGAGTTGCTTTGTTGTGT
Done.