Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009186.1 Hibiscus syriacus cultivar Beakdansim tig00112759_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: 192732
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:615 original size:20 final size:20
Alignment explanation
Indices: 567--625 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
557 AATAGTTTCT
** *
567 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
587 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
607 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
626 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:913 original size:22 final size:22
Alignment explanation
Indices: 886--943 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
876 GATGGAGATA
886 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
908 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
930 GACGGATGTCGCCG
1 GACGGATTTCGCCG
944 TAGAGAGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.17, C:0.19, G:0.45, T:0.19
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1222 original size:20 final size:20
Alignment explanation
Indices: 1129--1221 Score: 159
Period size: 20 Copynumber: 4.7 Consensus size: 20
1119 GATTATGTAT
1129 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1149 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
1169 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1189 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1209 TATCGCATTGCGA
1 TATCGCGTTGCGA
1222 TTTTCCAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1304 original size:21 final size:22
Alignment explanation
Indices: 1252--1304 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1242 ATTTACTTAT
1252 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
1273 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
1294 TCGCATTGCGA
1 TCGCATTGCGA
1305 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:3027 original size:2 final size:2
Alignment explanation
Indices: 3020--3061 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
3010 AATTGCATAG
* *
3020 TA TA TA TA TA TT TA TA CCA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T
3062 TTGTATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 34 0.97
3 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9986 original size:233 final size:233
Alignment explanation
Indices: 9580--10151 Score: 869
Period size: 233 Copynumber: 2.5 Consensus size: 233
9570 AAAAAATGAA
* * * *
9580 ATGAGAAAGGTTTCTCATTCAAATCTGAAAATTAAAATTGTTGAAAAAT-AGAAAGGTTTCTTAC
1 ATGAGAAAGGTTTCTCATTCAAATTTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTAC
* * *** * * *
9644 CTAGTCAACTATTTCTAAAATTTATAAACCCTTCGGGTCATCAGTAAGTCTTTCGAGCGTGATGC
66 CTAGTAAACTATTTCCAAAATTTATAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATAATGC
* * *
9709 TTAAATCCTTCAGGCCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTACGGGCCATCCATAA
131 TTAAATCCTCCAGGCCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATACAGGCCATCCATAA
*
9774 GACCTTT-GGGTAGGATGTTTTCACATGTCTATCAAAAT
196 G-CCTTTCGGGCAGGATGTTTTCACATGTCTATCAAAAT
*
9812 ATGAGAAAGGTTTCTCATTTAAATTTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTAC
1 ATGAGAAAGGTTTCTCATTCAAATTTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTAC
*
9877 TTAGTAAACTATTTCCAAAATTTATAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATAATGC
66 CTAGTAAACTATTTCCAAAATTTATAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATAATGC
* * * * * *
9942 TTAATTTCTCCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATTCAGGTCATCCATAA
131 TTAAATCCTCCAGGCCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATACAGGCCATCCATAA
* * *
10007 GTCTTTCGTGCAGGATGTTTTCACATGTCTATCGAAAT
196 GCCTTTCGGGCAGGATGTTTTCACATGTCTATCAAAAT
10045 ATGAGAAAGGTTTCTCATTCAAATTTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTAC
1 ATGAGAAAGGTTTCTCATTCAAATTTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTAC
*
10110 CTAGTAAACTATTTCCAAAATTTGTAAGTTCTTCGGGCCATC
66 CTAGTAAACTATTTCCAAAATTTATAAGTTCTTCGGGCCATC
10152 TCTAAGTTTG
Statistics
Matches: 308, Mismatches: 30, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
232 48 0.16
233 260 0.84
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (233 bp):
ATGAGAAAGGTTTCTCATTCAAATTTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTAC
CTAGTAAACTATTTCCAAAATTTATAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATAATGC
TTAAATCCTCCAGGCCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATACAGGCCATCCATAA
GCCTTTCGGGCAGGATGTTTTCACATGTCTATCAAAAT
Found at i:10697 original size:44 final size:44
Alignment explanation
Indices: 10642--10743 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 44
10632 TTTTTTAAAA
*
10642 AACCAGACCCG-ACCCTGACCCGAATATCACACTTAAAAAATCCC
1 AACCAGACCCGAACCC-GACCCGAATATCAAACTTAAAAAATCCC
* *
10686 AACCTGACCCGAACCCGACCCGAATATCAAACTTAAAAAAACCC
1 AACCAGACCCGAACCCGACCCGAATATCAAACTTAAAAAATCCC
*
10730 GACCCA-ACCCGAAC
1 -AACCAGACCCGAAC
10744 TCAAAATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 44 0.86
45 7 0.14
ACGTcount: A:0.40, C:0.39, G:0.10, T:0.11
Consensus pattern (44 bp):
AACCAGACCCGAACCCGACCCGAATATCAAACTTAAAAAATCCC
Found at i:12663 original size:31 final size:31
Alignment explanation
Indices: 12578--12697 Score: 118
Period size: 31 Copynumber: 3.8 Consensus size: 31
12568 AGGGTTTACA
*
12578 TATGTTCTACGGAACATATGGACAGAATTACC
1 TATGTTCTACGGAACATATGGACAGTA-TACC
* * *
12610 TATG-TCTTTCGGGACATTTGGACAGTATACC
1 TATGTTC-TACGGAACATATGGACAGTATACC
* *
12641 TATGTTCTAAGGAACATATGGACAGTTTACC
1 TATGTTCTACGGAACATATGGACAGTATACC
* * *
12672 TAGGTTCTTC-GAGACCTATGGACAGT
1 TATGTTCTACGGA-ACATATGGACAGT
12698 TGCCGAGGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
30 2 0.03
31 48 0.67
32 22 0.31
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (31 bp):
TATGTTCTACGGAACATATGGACAGTATACC
Found at i:14044 original size:113 final size:113
Alignment explanation
Indices: 13844--14468 Score: 848
Period size: 113 Copynumber: 5.5 Consensus size: 113
13834 CCTTCAAGTA
* *
13844 TCTCTTTTCCAAGATTTGATATTCCCTTCAGAGTAAATGG-A-AAGTCTGCCCCGATTCAATTGA
1 TCTCTTTTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGA
* *
13907 TCAACTCCCTCAGATCTGATTTTCCCTTGAGAGTAAGCGGAACAGGTC
66 TCAACTCCCCCAGATCTGATTTTCCCTTCAGAGTAAGCGGAACAGGTC
* *
13955 TCTCTTTTCCAAGATTTGATAATCCCTTCAGAGTAAGTGGAACAAGTATGCCCCGATTCAATGGA
1 TCTCTTTTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGA
*
14020 TCAACTCCCCCAGATCTGATTTTCCCTTCAGAGTAAGCGGATCAGGTC
66 TCAACTCCCCCAGATCTGATTTTCCCTTCAGAGTAAGCGGAACAGGTC
* * * * *
14068 TCTTTTTTCCAAGATTTGATATTCCCTTCAAAGTATGTGGAACAAGTCTACCCCGATTCAATGGG
1 TCTCTTTTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGA
** *
14133 TTGACTCCCCCAGATCTGATTTTCCCTTCAGAGTAAGCGGAATAGGTC
66 TCAACTCCCCCAGATCTGATTTTCCCTTCAGAGTAAGCGGAACAGGTC
* * * *
14181 TCTCTTTTCCAAGATTTGATATT-CTTTCCAGAGTAAATGGAGCAAGTCTGCCCCGATTCAATGA
1 TCTCTTTTCCAAGATTTGATATTCCCTT-CAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGG
* * * * *
14245 ATCAACTCCCCTAGATCTAATATTCCCTTCAGAGTAAGCGAAACATGTC
65 ATCAACTCCCCCAGATCTGATTTTCCCTTCAGAGTAAGCGGAACAGGTC
* * * *
14294 TCTCTTTTCTAAGATTTGGTATTCCCTTTAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATAGA
1 TCTCTTTTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGA
* * * **
14359 TCAAATCCCCCAATATCTGATATTCCCTTCAGAGTAAGCGGAACATATC
66 TCAACTCCCCC-AGATCTGATTTTCCCTTCAGAGTAAGCGGAACAGGTC
* * *
14408 CCTCTTTTCCAAGATTTGATATTCCC-T--GAGTGACAGTGGAACAAGTCTACCCTGATTCAAT
1 TCTCTTTTCCAAGATTTGATATTCCCTTCAGAGT-A-AGTGGAACAAGTCTGCCCCGATTCAAT
14469 TTTCCCTGAG
Statistics
Matches: 453, Mismatches: 54, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
111 42 0.09
112 5 0.01
113 347 0.77
114 59 0.13
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (113 bp):
TCTCTTTTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGA
TCAACTCCCCCAGATCTGATTTTCCCTTCAGAGTAAGCGGAACAGGTC
Found at i:14600 original size:135 final size:134
Alignment explanation
Indices: 14357--14655 Score: 390
Period size: 135 Copynumber: 2.2 Consensus size: 134
14347 CGATTCAATA
* *
14357 GATCAA-ATCCCCCAATATCTGATATTCCCTTCAGAGTAAGCGGAACATATCCCTCTTTTCCAAG
1 GATCAACAT-CCCCAA-ATCTGATATTCCCTTAAGAGTAAGCGGAACAGATCCCTCTTTTCCAAG
* * *
14421 ATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCCTGATTCAATTTTCCCTGAGTGACGA-
64 ATTTAATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATCTTCCCTGAGTGA-GAG
14485 CGGAATG
128 CGGAATG
* * * * * *
14492 TATCAACCTCCTCCAAATTTGATATTCCCTTAAGAAG-AAGCGGAATAGATCCTTCTTTTCTAAG
1 GATCAACATCC-CCAAATCTGATATTCCCTTAAG-AGTAAGCGGAACAGATCCCTCTTTTCCAAG
* *
14556 ATTTAATATTCCCTGAGTGACAGCGGAACAAGTCTATCCC-GATTCAATCTTCCTTGAGTGATAG
64 ATTTAATATTCCCTGAGTGACAGCGGAACAAGTCTA-CCCTGATTCAATCTTCCCTGAGTGAGAG
14620 CGGAATG
128 CGGAATG
*
14627 GATCAACATCCCCAGATCTGATATTCCCT
1 GATCAACATCCCCAAATCTGATATTCCCT
14656 GAGTGAAACG
Statistics
Matches: 142, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
134 17 0.12
135 115 0.81
136 10 0.07
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (134 bp):
GATCAACATCCCCAAATCTGATATTCCCTTAAGAGTAAGCGGAACAGATCCCTCTTTTCCAAGAT
TTAATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATCTTCCCTGAGTGAGAGCGG
AATG
Found at i:14809 original size:3 final size:3
Alignment explanation
Indices: 14801--14845 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
14791 TTTTCCATCA
*
14801 TAT TAT TAT TA- TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14846 TAAAAATACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:16749 original size:2 final size:2
Alignment explanation
Indices: 16698--16732 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
16688 AATTCCATAG
16698 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16733 GTTTATACCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23252 original size:19 final size:19
Alignment explanation
Indices: 23228--23265 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23218 AGTGAAATTG
23228 AATATTAAAATGTTGATTT
1 AATATTAAAATGTTGATTT
*
23247 AATATTGAAATGTTGATTT
1 AATATTAAAATGTTGATTT
23266 TGGACTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (19 bp):
AATATTAAAATGTTGATTT
Found at i:23694 original size:13 final size:13
Alignment explanation
Indices: 23676--23701 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23666 AATATATCAA
23676 TGTGATAATTTTT
1 TGTGATAATTTTT
23689 TGTGATAATTTTT
1 TGTGATAATTTTT
23702 ATATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
TGTGATAATTTTT
Found at i:26010 original size:39 final size:39
Alignment explanation
Indices: 25967--26049 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
25957 CTCATGATTT
* *
25967 TATCAAAACCATGATAAACAATATCACACATAATAGTCA
1 TATCAAAACCATGATAAACAATATCACACATAACAGACA
* *
26006 TATCAAAGCCATGATAAACAATATCATACATAACAGACA
1 TATCAAAACCATGATAAACAATATCACACATAACAGACA
26045 TATCA
1 TATCA
26050 TGTTCTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (39 bp):
TATCAAAACCATGATAAACAATATCACACATAACAGACA
Found at i:29137 original size:30 final size:30
Alignment explanation
Indices: 29101--29219 Score: 100
Period size: 30 Copynumber: 3.9 Consensus size: 30
29091 AAGACCTAGA
*
29101 TTTTTAAAATTATACTTTTGGTCCCTAAAC
1 TTTTTAAAATTATACTTTTGGTACCTAAAC
* * *
29131 TTTTTAAATTTACACTTTTGGTACTTAAAC
1 TTTTTAAAATTATACTTTTGGTACCTAAAC
* * *
29161 TTTCTAAAATTTATACTCTATAG-ACACTAAAC
1 TTTTTAAAA-TTATACT-TTTGGTAC-CTAAAC
* *
29193 -TTTCAAAATT-TACATTTTGGTAACTAA
1 TTTTTAAAATTATAC-TTTTGGTACCTAA
29220 CCAAAATTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 11
0.73 0.16 0.12
Matches are distributed among these distances:
29 10 0.14
30 37 0.54
31 14 0.20
32 8 0.12
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (30 bp):
TTTTTAAAATTATACTTTTGGTACCTAAAC
Found at i:29519 original size:29 final size:29
Alignment explanation
Indices: 29463--29541 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
29453 TGCATTTCTG
* * *
29463 TCATTCTACATGGGATTAAATCCCCATCC
1 TCATTCTGCATGGGATTATATACCCATCC
**
29492 TCATTCTGCATGGGATTATATATTCATCC
1 TCATTCTGCATGGGATTATATACCCATCC
*
29521 TGA-TCATGCATGGGATTATAT
1 TCATTC-TGCATGGGATTATAT
29542 CACTGTCCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 2 0.05
29 41 0.95
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TCATTCTGCATGGGATTATATACCCATCC
Found at i:29561 original size:29 final size:29
Alignment explanation
Indices: 29529--29598 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
29519 CCTGATCATG
*
29529 CATGGGATTATATCACT-GTCCTGTTTTTA
1 CATGGGATCATAT-ACTCGTCCTGTTTTTA
* *
29558 CATGGGATCATATTCTCGTCCTG-TTTTG
1 CATGGGATCATATACTCGTCCTGTTTTTA
*
29586 CGTGGGATCATAT
1 CATGGGATCATAT
29599 CCCCAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (29 bp):
CATGGGATCATATACTCGTCCTGTTTTTA
Found at i:30138 original size:16 final size:16
Alignment explanation
Indices: 30110--30140 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30100 AGTTCAATTT
30110 AGGTTAATTTCAGTTC
1 AGGTTAATTTCAGTTC
*
30126 AGGTTACTTTCAGTT
1 AGGTTAATTTCAGTT
30141 TGGCTAAAAT
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:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (16 bp):
AGGTTAATTTCAGTTC
Found at i:30213 original size:25 final size:24
Alignment explanation
Indices: 30185--30241 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
30175 TTTTTTGAGT
*
30185 TTCGAGTCAAATTT-GGGTCATCATG
1 TTCGAGTCAAATTTCGGGTC-TCA-A
*
30210 TTCGAGT-ATATTTCGGGTCTCAA
1 TTCGAGTCAAATTTCGGGTCTCAA
30233 TTCGAGTCA
1 TTCGAGTCA
30242 TCGGGTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 7 0.25
24 9 0.32
25 12 0.43
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (24 bp):
TTCGAGTCAAATTTCGGGTCTCAA
Found at i:30743 original size:24 final size:24
Alignment explanation
Indices: 30716--30765 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
30706 AATTATGAAC
*
30716 TCATATTC-TATTTACAGATTTAGA
1 TCATA-TCATATTTACAAATTTAGA
30740 TCATATCATATTTACAAATTTAGA
1 TCATATCATATTTACAAATTTAGA
30764 TC
1 TC
30766 GATTTCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (24 bp):
TCATATCATATTTACAAATTTAGA
Found at i:31313 original size:58 final size:58
Alignment explanation
Indices: 31206--31315 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
31196 ATAGTTGAGT
*
31206 GATCATTTGTAACTTTTAATAGTCGAAAGACTCAACAAAACAACATCCTATAATCGGG
1 GATCATTTGTAACTTTTAATAGTCGAAAGAATCAACAAAACAACATCCTATAATCGGG
* ** * * *
31264 GATCACTTTGTAACTTTTACTAGTCG-GGGAATCAACAAGATAATATCCTATA
1 GATCA-TTTGTAACTTTTAATAGTCGAAAGAATCAACAAAACAACATCCTATA
31316 GTCGATAGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 25 0.57
59 19 0.43
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (58 bp):
GATCATTTGTAACTTTTAATAGTCGAAAGAATCAACAAAACAACATCCTATAATCGGG
Found at i:31327 original size:59 final size:58
Alignment explanation
Indices: 31206--31331 Score: 137
Period size: 58 Copynumber: 2.2 Consensus size: 58
31196 ATAGTTGAGT
* *
31206 GATCATTTGTAACTTTTAATAGTCGAAAGACTCAACAAAACAACATCCTATAATCGGG
1 GATCATTTGTAACTTTTAATAGTCGAAAGAATCAACAAAACAACATCCTATAATCGGA
* ** * * * * *
31264 GATCACTTTGTAACTTTTACTAGTCG-GGGAATCAACAAGATAATATCCTATAGTCGATA
1 GATCA-TTTGTAACTTTTAATAGTCGAAAGAATCAACAAAACAACATCCTATAATCG-GA
31323 GATCATTTG
1 GATCATTTG
31332 CCTACTTTAC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 32 0.57
59 24 0.43
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (58 bp):
GATCATTTGTAACTTTTAATAGTCGAAAGAATCAACAAAACAACATCCTATAATCGGA
Found at i:44460 original size:15 final size:15
Alignment explanation
Indices: 44440--44474 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44430 TGCTCACCAT
44440 TCGAACAAACTTCAC
1 TCGAACAAACTTCAC
*
44455 TCGAACAAGCTTCAC
1 TCGAACAAACTTCAC
44470 TCGAA
1 TCGAA
44475 GAGCCTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.20
Consensus pattern (15 bp):
TCGAACAAACTTCAC
Found at i:45393 original size:117 final size:117
Alignment explanation
Indices: 45144--45393 Score: 392
Period size: 117 Copynumber: 2.1 Consensus size: 117
45134 CTTAGCTTTC
* * * * *
45144 GCACCGAGCTTTACTTCGGTGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTGGAAACACTT
1 GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT
*
45209 TAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
66 CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
* ** * *
45261 TCACCGAGCCCTGCTTCATTGGTGCAATCTCGCACCTTGTGTTCTCCATCACATCGGAAACACTT
1 GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT
*
45326 CAATGGCTCTCGCTTCTTTATCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
66 CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
45378 GCACCGAGCTTTGCTT
1 GCACCGAGCTTTGCTT
45394 TGTTTGGGCA
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (117 bp):
GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT
CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
Found at i:45442 original size:117 final size:116
Alignment explanation
Indices: 45163--45472 Score: 365
Period size: 117 Copynumber: 2.6 Consensus size: 116
45153 TTTACTTCGG
* * * * *
45163 TGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTGGAAACACTTTAATGGCTCTCGCTTCTTT
1 TGGTGCAATCTCGCACCTTGTG-TCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTT
*
45228 ACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGTCACCGAGCCCTGCTTCAT
65 ACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCCCTGCTTCAT
*
45280 TGGTGCAATCTCGCACCTTGTGTTCTCCATCACATCGGAAACACTTCAATGGCTCTCGCTTCTTT
1 TGGTGCAATCTCGCACCTTGTG-TCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTT
* ** **
45345 ATCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCTTTGCTTTGTT
65 ACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCCCTGC-TTCAT
* * * * * * * *
45398 TGG-GCAACTCTTGGC-CCTATGTG-CTCCTTGACATATGAAGCACTTCAGTGGATCTCGCTTGT
1 TGGTGCAA-TC-TCGCACCT-TGTGTCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCT
45460 TTACCCTCGGCTT
63 TTACCCTCGGCTT
45473 TCCTGCACCA
Statistics
Matches: 168, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
117 150 0.89
118 11 0.07
119 7 0.04
ACGTcount: A:0.15, C:0.31, G:0.20, T:0.34
Consensus pattern (116 bp):
TGGTGCAATCTCGCACCTTGTGTCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTTA
CCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCCCTGCTTCAT
Found at i:47976 original size:6 final size:6
Alignment explanation
Indices: 47967--48013 Score: 58
Period size: 6 Copynumber: 7.2 Consensus size: 6
47957 TAACAGATTA
47967 AAAATT AAAATT AAAATT AAAATT AAAAAAGTT AAGAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT --AAAA-TT AA-AATT AAAATT A
48014 CATCAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 23 0.62
7 6 0.16
8 6 0.16
9 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:48009 original size:22 final size:20
Alignment explanation
Indices: 47973--48013 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
47963 ATTAAAAATT
47973 AAAATTAAAATTAAAATTAA
1 AAAATTAAAATTAAAATTAA
47993 AAAAGTTAAGAATTAAAATTA
1 AAAA-TTAA-AATTAAAATTA
48014 CATCAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAATTAAAATTAAAATTAA
Found at i:50716 original size:12 final size:12
Alignment explanation
Indices: 50676--50720 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
50666 ACAATACAAA
50676 ACTTTCATTTCTC
1 ACTTTCATTT-TC
*
50689 ATTTTCATCTTTC
1 ACTTTCAT-TTTC
*
50702 ACTTTCATGTTC
1 ACTTTCATTTTC
50714 ACTTTCA
1 ACTTTCA
50721 CATTTCGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.36
13 16 0.57
14 2 0.07
ACGTcount: A:0.18, C:0.27, G:0.02, T:0.53
Consensus pattern (12 bp):
ACTTTCATTTTC
Found at i:55819 original size:58 final size:58
Alignment explanation
Indices: 55698--55829 Score: 160
Period size: 58 Copynumber: 2.3 Consensus size: 58
55688 ATATAGATAG
* * * *
55698 TCGAGTGATCATTTGTAACTTTTAATAGTCGGAAGACTGAACAAAACAACATCCTATAA
1 TCGAGTGATCATTTGTAACTTTTAAAAATC-GAAAACTCAACAAAACAACATCCTATAA
* *
55757 TCGAGT-ATCACTTTGTAACTTTTAAAAATC-AATAACTCAACAAAATAACATCCTATAC
1 TCGAGTGATCA-TTTGTAACTTTTAAAAATCGAA-AACTCAACAAAACAACATCCTATAA
*
55815 TCGAGAGATCATTTG
1 TCGAGTGATCATTTG
55830 CCTACTTTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
57 2 0.03
58 34 0.54
59 27 0.43
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (58 bp):
TCGAGTGATCATTTGTAACTTTTAAAAATCGAAAACTCAACAAAACAACATCCTATAA
Found at i:71541 original size:32 final size:34
Alignment explanation
Indices: 71505--71570 Score: 93
Period size: 32 Copynumber: 2.0 Consensus size: 34
71495 ATGTTTCGGA
71505 TTCAGA-TTCAAATTCCTT-C-AAATTATAATTCT
1 TTCAGATTTC-AATTCCTTCCAAAATTATAATTCT
*
71537 TTCAGATTTCAATTCCTTCCAAAATTCTAATTCT
1 TTCAGATTTCAATTCCTTCCAAAATTATAATTCT
71571 CTCATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 14 0.47
33 4 0.13
34 12 0.40
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (34 bp):
TTCAGATTTCAATTCCTTCCAAAATTATAATTCT
Found at i:73402 original size:3 final size:3
Alignment explanation
Indices: 73394--73476 Score: 125
Period size: 3 Copynumber: 28.3 Consensus size: 3
73384 TATTTGTAAC
*
73394 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
73441 AAT TGT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
73477 TATTATTGGA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
2 4 0.05
3 69 0.95
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:77078 original size:16 final size:18
Alignment explanation
Indices: 77040--77080 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
77030 TAAACAGTAA
*
77040 TTAAATAAATATTGTATC
1 TTAAAAAAATATTGTATC
*
77058 ATAAAAAAATA-T-TATC
1 TTAAAAAAATATTGTATC
77074 TTAAAAA
1 TTAAAAA
77081 TAGTTTCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 10 0.50
17 1 0.05
18 9 0.45
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (18 bp):
TTAAAAAAATATTGTATC
Found at i:77823 original size:182 final size:184
Alignment explanation
Indices: 77508--77890 Score: 616
Period size: 182 Copynumber: 2.1 Consensus size: 184
77498 TTTTCTAATT
* * * *
77508 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATAATTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
*
77572 TATAAAATAAAAATTTTAGATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
*
77637 GGATCTTAAATTATTAATTGGGTTTTAAATTG-TTTGGGCTT-AACCCATATTTTA
131 GGATCTTAAATTATTAATTGGGTTTTAAA-TGATTTGGG-TTGAACCCATATGTTA
77691 TATATAATATATTTAATAATTTTTAATT-AAAAAACAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATAATTTTTAATTCAAAAAA-AGTTTACAATTAATTTAAATAATATATAA
*
77755 TTAT-AAATAAAAAATTTATATAA-TTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
* *
77818 TGGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCTCATATGTTA
130 TGGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAACCCATATGTTA
77873 TATATAATATATTTAATA
1 TATATAATATATTTAATA
77891 TTTAAAATTT
Statistics
Matches: 187, Mismatches: 9, Indels: 9
0.91 0.04 0.04
Matches are distributed among these distances:
181 4 0.02
182 104 0.56
183 30 0.16
184 49 0.26
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (184 bp):
TATATAATATATTTAATAATTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAAATTTAGATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
GGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAACCCATATGTTA
Found at i:83041 original size:19 final size:19
Alignment explanation
Indices: 83017--83060 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
83007 AAAACGTTTT
83017 TATGAATAGTACTATACTA
1 TATGAATAGTACTATACTA
* *
83036 TATGAATTGTACTATACTG
1 TATGAATAGTACTATACTA
83055 TATGAA
1 TATGAA
83061 CAATACAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (19 bp):
TATGAATAGTACTATACTA
Found at i:83112 original size:21 final size:21
Alignment explanation
Indices: 83088--83129 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
83078 CTATGAACAG
* *
83088 TGCTGCAGTGTACCGATGCAC
1 TGCTACAGTGTACCAATGCAC
*
83109 TGCTATAGTGTACCAATGCAC
1 TGCTACAGTGTACCAATGCAC
83130 AAAAATATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (21 bp):
TGCTACAGTGTACCAATGCAC
Found at i:84681 original size:21 final size:22
Alignment explanation
Indices: 84621--84689 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 22
84611 GGGGAAAAGT
*
84621 AAAATATAAATATAGATCAAATGAA
1 AAAAAATAAA-ATA-AT-AAATGAA
**
84646 AAAAAATATTA-AATAAAT-AA
1 AAAAAATAAAATAATAAATGAA
*
84666 AAAAAATAAAATAATAAAGGAA
1 AAAAAATAAAATAATAAATGAA
84688 AA
1 AA
84690 TAGATAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
20 11 0.31
21 10 0.28
22 6 0.17
23 1 0.03
24 1 0.03
25 7 0.19
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.20
Consensus pattern (22 bp):
AAAAAATAAAATAATAAATGAA
Found at i:85890 original size:22 final size:22
Alignment explanation
Indices: 85853--85919 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 22
85843 CAAAAAACAA
*
85853 AACAT-AAATAAGAAATAAAAT
1 AACATAAAATAAAAAATAAAAT
85874 AACATAAAATAAAAAATAATATAAT
1 AACATAAAATAAAAAAT-A-A-AAT
*
85899 AATATAATAAT-AAAAATAAAA
1 AACATAA-AATAAAAAATAAAA
85920 AATATTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 5 0.13
22 12 0.31
23 2 0.05
24 2 0.05
25 15 0.38
26 3 0.08
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.22
Consensus pattern (22 bp):
AACATAAAATAAAAAATAAAAT
Found at i:85894 original size:25 final size:25
Alignment explanation
Indices: 85866--85923 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
85856 ATAAATAAGA
85866 AATAAAATAACATAA-AATAAAAAAT
1 AATAAAATAACATAATAAT-AAAAAT
* *
85891 AATATAATAATATAATAATAAAAAT
1 AATAAAATAACATAATAATAAAAAT
85916 AA-AAAATA
1 AATAAAATA
85924 TTTTCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 5 0.17
25 21 0.72
26 3 0.10
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (25 bp):
AATAAAATAACATAATAATAAAAAT
Found at i:86005 original size:26 final size:26
Alignment explanation
Indices: 85969--86024 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
85959 ATGTTTTTTT
85969 AAAAACTATATAATATATATATATTC
1 AAAAACTATATAATATATATATATTC
* * *
85995 AAAAATTATATAATATATATGTTTTC
1 AAAAACTATATAATATATATATATTC
86021 AAAA
1 AAAA
86025 TGTTTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (26 bp):
AAAAACTATATAATATATATATATTC
Found at i:86010 original size:65 final size:63
Alignment explanation
Indices: 85921--86113 Score: 167
Period size: 65 Copynumber: 3.0 Consensus size: 63
85911 AAAATAAAAA
*
85921 ATATTTTCAAAAACATATATAATATATAAATTTCCAAAATGTTTTTTTAAAAACTATATAATATA
1 ATATATTCAAAAACATATATAATATATAAATTTCCAAAATG---TTTTAAAAACTATATAATATA
85986 T
63 T
* ** * * *
85987 ATATATTCAAAAA-TTATATAATATATATGTTTTCAAAATGTTTTAAAAACTATATTATATTTT
1 ATATATTCAAAAACATATATAATATATAAATTTCCAAAATGTTTTAAAAACTATATAATA-TAT
* * * * * * * *
86050 CAAAATGTTTTAAAAAC-TATATAACATAT-ATTTTCAAAAATATTTTAAAAACTATATATTATA
1 --ATAT-ATTCAAAAACATATATAATATATAAATTTCCAAAATGTTTTAAAAACTATATAATATA
86113 T
63 T
86114 TTTATTTTCA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
62 18 0.17
63 2 0.02
64 2 0.02
65 51 0.50
66 30 0.29
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (63 bp):
ATATATTCAAAAACATATATAATATATAAATTTCCAAAATGTTTTAAAAACTATATAATATAT
Found at i:86097 original size:35 final size:34
Alignment explanation
Indices: 85995--86223 Score: 261
Period size: 35 Copynumber: 6.6 Consensus size: 34
85985 ATATATATTC
*
85995 AAAAATTATATAATATATATGTTTTCAAAATGTTTT
1 AAAAACTATATAATATATA--TTTTCAAAATGTTTT
86031 AAAAAC--TAT-AT-TATATTTTCAAAATGTTTT
1 AAAAACTATATAATATATATTTTCAAAATGTTTT
* *
86061 AAAAACTATATAACATATATTTTCAAAAATATTTT
1 AAAAACTATATAATATATATTTTC-AAAATGTTTT
*
86096 AAAAACTATATATTATATTTTATTTTCAAAATGTTTT
1 AAAAACTATATA--ATA-TATATTTTCAAAATGTTTT
*
86133 AAAAATTATATAATATATATTTTCAAAAATGTTTT
1 AAAAACTATATAATATATATTTTC-AAAATGTTTT
* * *
86168 AAAACCATATATTATATTTATTTTCAAAATGTTTT
1 AAAAAC-TATATAATATATATTTTCAAAATGTTTT
86203 -AAAACTATAATATATATATAT
1 AAAAACTAT-ATA-ATATATAT
86224 ATATATATAA
Statistics
Matches: 166, Mismatches: 15, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
30 21 0.13
32 7 0.04
33 6 0.04
34 26 0.16
35 55 0.33
36 21 0.13
37 22 0.13
38 8 0.05
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (34 bp):
AAAAACTATATAATATATATTTTCAAAATGTTTT
Found at i:86216 original size:72 final size:69
Alignment explanation
Indices: 85995--86223 Score: 290
Period size: 72 Copynumber: 3.3 Consensus size: 69
85985 ATATATATTC
*
85995 AAAAATTATATAATATATATGTTTTC-AAAATGTTTTAAAAAC-TATA-T-TA--TATTTTCAAA
1 AAAAA-TATATAATATATA--TTTTCAAAAATGTTTTAAAACCATATATTATATTTATTTTCAAA
86054 ATGTTTT
63 ATGTTTT
* * *
86061 AAAAACTATATAACATATATTTTCAAAAATATTTTAAAAACTATATATTATATTTTATTTTCAAA
1 AAAAA-TATATAATATATATTTTCAAAAATGTTTT-AAAACCATATATTATA-TTTATTTTCAAA
86126 ATGTTTT
63 ATGTTTT
86133 AAAAATTATATAATATATATTTTCAAAAATGTTTTAAAACCATATATTATATTTATTTTCAAAAT
1 AAAAA-TATATAATATATATTTTCAAAAATGTTTTAAAACCATATATTATATTTATTTTCAAAAT
86198 GTTTT
65 GTTTT
*
86203 AAAACTATAATATATATATAT
1 AAAAATAT-ATA-ATATATAT
86224 ATATATATAA
Statistics
Matches: 143, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
64 5 0.03
65 9 0.06
66 21 0.15
67 4 0.03
68 1 0.01
69 5 0.03
70 26 0.18
71 23 0.16
72 49 0.34
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (69 bp):
AAAAATATATAATATATATTTTCAAAAATGTTTTAAAACCATATATTATATTTATTTTCAAAATG
TTTT
Found at i:92766 original size:84 final size:84
Alignment explanation
Indices: 92611--93197 Score: 463
Period size: 84 Copynumber: 7.0 Consensus size: 84
92601 ACAACTTTCT
* * * * * * ** *
92611 TAGTTTCTTCTGCAATCCTCTTTTGCTCCTCTGCCTT-AGCCATCGC-AAGCTCAGCTTGTTGTC
1 TAGTTTCTTCAGCAATCTTCCTTTGCTCCGCTG-CTTCAGCCATCTCTAA-ATCAGCACGTTTTC
* *
92674 TTACTTCAACAGCCTTCGTCA
64 TTTCTTCAACAGCCTTCTTCA
** *
92695 T-GTTTTCTTCAGCAATCTTAGTTTGCTCCGCTGCTTCAGCCATCTCTAAATCAGCATGTTTTCT
1 TAG-TTTCTTCAGCAATCTTCCTTTGCTCCGCTGCTTCAGCCATCTCTAAATCAGCACGTTTTCT
* * *
92759 TTTTTCAACGGCCTTCTTCT
65 TTCTTCAACAGCCTTCTTCA
* * * * * * * *
92779 TAGTTTCTGT-AGCAACCTT-CTTCTGCTTCTCTGCTTTAGCCATCTCTGAATCGGCACATTTCC
1 TAGTTTCT-TCAGCAATCTTCCTT-TGCTCCGCTGCTTCAGCCATCTCTAAATCAGCACGTTTTC
* * *
92842 TTTCGTCAACAGCCTTTTTCT
64 TTTCTTCAACAGCCTTCTTCA
* **
92863 TAGTTTCTTCAGCAATCTTCCTTTGCTCCTCTGCCTT-AGCCATCTC-AAACTCAGCTTGTTTTC
1 TAGTTTCTTCAGCAATCTTCCTTTGCTCCGCTG-CTTCAGCCATCTCTAAA-TCAGCACGTTTTC
*
92926 TTACTTCAACAGCCTTCTTCA
64 TTTCTTCAACAGCCTTCTTCA
* *
92947 T-GTTTTCTTCAGCAATCTTCCTTTGTTCTGCTGCTTCAGCCATCTCTAAATCAGCACGTTTTCT
1 TAG-TTTCTTCAGCAATCTTCCTTTGCTCCGCTGCTTCAGCCATCTCTAAATCAGCACGTTTTCT
** *
93011 TTCTTCGGCAGCCTTCTTCT
65 TTCTTCAACAGCCTTCTTCA
* * * * * * * * * * *
93031 TAGTTTCTTTAGCAACCTTCATCTGCTTCTCCGCTTTAGCCATCTCTGAATCAGCACATTTTCTA
1 TAGTTTCTTCAGCAATCTTCCTTTGCTCCGCTGCTTCAGCCATCTCTAAATCAGCACGTTTTCTT
* * * *
93096 TCGTCCACAGCCTTTTTCT
66 TCTTCAACAGCCTTCTTCA
* *** * * * *
93115 TAGTTTCTTCTGCAATCTTCCTCAACTCC-CTTGCTTTAGCCATTTCTAAATCAAACAAGTTTTC
1 TAGTTTCTTCAGCAATCTTCCTTTGCTCCGC-TGCTTCAGCCATCTCTAAATC-AGCACGTTTTC
* *
93179 TTTCTTCATCTGCCTTCTT
64 TTTCTTCAACAGCCTTCTT
93198 TTTCTCTTCT
Statistics
Matches: 402, Mismatches: 85, Indels: 31
0.78 0.16 0.06
Matches are distributed among these distances:
83 14 0.03
84 353 0.88
85 35 0.09
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (84 bp):
TAGTTTCTTCAGCAATCTTCCTTTGCTCCGCTGCTTCAGCCATCTCTAAATCAGCACGTTTTCTT
TCTTCAACAGCCTTCTTCA
Found at i:93157 original size:252 final size:252
Alignment explanation
Indices: 92606--93136 Score: 855
Period size: 252 Copynumber: 2.1 Consensus size: 252
92596 CTTCAACAAC
* * *
92606 TTTCTTAGTTTCTTCTGCAATCCTCTTTTGCTCCTCTGCCTTAGCCATCGCAAGCTCAGCTTGTT
1 TTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCCTTAGCCATCGCAAACTCAGCTTGTT
*
92671 GTCTTACTTCAACAGCCTTCGTCATGTTTTCTTCAGCAATCTTAGTTTGCTCCGCTGCTTCAGCC
66 GTCTTACTTCAACAGCCTTCGTCATGTTTTCTTCAGCAATCTTACTTTGCTCCGCTGCTTCAGCC
* * * *
92736 ATCTCTAAATCAGCATGTTTTCTTTTTTCAACGGCCTTCTTCTTAGTTTCTGTAGCAACCTTCTT
131 ATCTCTAAATCAGCACGTTTTCTTTCTTCAACAGCCTTCTTCTTAGTTTCTGTAGCAACCTTCAT
* * *
92801 CTGCTTCTCTGCTTTAGCCATCTCTGAATCGGCACATTTCCTTTCGTCAACAGCCTT
196 CTGCTTCTCCGCTTTAGCCATCTCTGAATCAGCACATTTCCTATCGTCAACAGCCTT
* *
92858 TTTCTTAGTTTCTTCAGCAATCTTCCTTTGCTCCTCTGCCTTAGCCATCTCAAACTCAGCTTGTT
1 TTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCCTTAGCCATCGCAAACTCAGCTTGTT
* * * * *
92923 TTCTTACTTCAACAGCCTTCTTCATGTTTTCTTCAGCAATCTTCCTTTGTTCTGCTGCTTCAGCC
66 GTCTTACTTCAACAGCCTTCGTCATGTTTTCTTCAGCAATCTTACTTTGCTCCGCTGCTTCAGCC
** *
92988 ATCTCTAAATCAGCACGTTTTCTTTCTTCGGCAGCCTTCTTCTTAGTTTCTTTAGCAACCTTCAT
131 ATCTCTAAATCAGCACGTTTTCTTTCTTCAACAGCCTTCTTCTTAGTTTCTGTAGCAACCTTCAT
* *
93053 CTGCTTCTCCGCTTTAGCCATCTCTGAATCAGCACATTTTCTATCGTCCACAGCCTT
196 CTGCTTCTCCGCTTTAGCCATCTCTGAATCAGCACATTTCCTATCGTCAACAGCCTT
93110 TTTCTTAGTTTCTTCTGCAATCTTCCT
1 TTTCTTAGTTTCTTCTGCAATCTTCCT
93137 CAACTCCCTT
Statistics
Matches: 255, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
252 255 1.00
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (252 bp):
TTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCCTTAGCCATCGCAAACTCAGCTTGTT
GTCTTACTTCAACAGCCTTCGTCATGTTTTCTTCAGCAATCTTACTTTGCTCCGCTGCTTCAGCC
ATCTCTAAATCAGCACGTTTTCTTTCTTCAACAGCCTTCTTCTTAGTTTCTGTAGCAACCTTCAT
CTGCTTCTCCGCTTTAGCCATCTCTGAATCAGCACATTTCCTATCGTCAACAGCCTT
Found at i:96949 original size:18 final size:18
Alignment explanation
Indices: 96916--96951 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96906 ACCGGTCATA
*
96916 ACCCGACCCGACCCGTTG
1 ACCCGACCCAACCCGTTG
*
96934 ACCCGACCCAATCCGTTG
1 ACCCGACCCAACCCGTTG
96952 GCCACTCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.47, G:0.19, T:0.14
Consensus pattern (18 bp):
ACCCGACCCAACCCGTTG
Found at i:99462 original size:24 final size:24
Alignment explanation
Indices: 99435--99529 Score: 91
Period size: 24 Copynumber: 4.0 Consensus size: 24
99425 ATTTCCGACT
* * *
99435 TGAATTCTGTTTTGATATATGACC
1 TGAATTCTGTTCTGATATCTGATC
* *
99459 TGAATTTTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
* * *
99483 TGGATTATGTTCTGATATCTGTTC
1 TGAATTCTGTTCTGATATCTGATC
* * *
99507 TGAAGTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATATCTGAT
99530 ATCTCCGTTT
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:99484 original size:12 final size:12
Alignment explanation
Indices: 99462--99527 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
99452 TATGACCTGA
99462 ATTT-TGTTCTG
1 ATTTCTGTTCTG
*
99473 ATTTCTGATCTGG
1 ATTTCTGTTCT-G
*
99486 A-TTATGTTCTG
1 ATTTCTGTTCTG
*
99497 ATATCTGTTCTG
1 ATTTCTGTTCTG
** *
99509 AAGTCTGTTTTG
1 ATTTCTGTTCTG
99521 ATTTCTG
1 ATTTCTG
99528 ATATCTCCGT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
11 6 0.14
12 34 0.81
13 2 0.05
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.53
Consensus pattern (12 bp):
ATTTCTGTTCTG
Found at i:99695 original size:2 final size:2
Alignment explanation
Indices: 99688--99724 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
99678 TGGGATGGGG
99688 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99725 GTTTTAAAAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:103008 original size:24 final size:24
Alignment explanation
Indices: 102923--102995 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
102913 CTAGAAGGCC
102923 GGTTGATTTTCAAATTAAGGGGCT
1 GGTTGATTTTCAAATTAAGGGGCT
* * *
102947 GGTTGATTTTCAAACTAAAGGGTT
1 GGTTGATTTTCAAATTAAGGGGCT
102971 GGTTGATTTTCAAATTAAGGGGCT
1 GGTTGATTTTCAAATTAAGGGGCT
102995 G
1 G
102996 TTTTGAATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (24 bp):
GGTTGATTTTCAAATTAAGGGGCT
Found at i:107534 original size:24 final size:24
Alignment explanation
Indices: 107506--107581 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
107496 AAATTCTAGA
107506 GGGCCGGTTGATTTTCAAATTAAG
1 GGGCCGGTTGATTTTCAAATTAAG
*
107530 GGGCCGGTTGATTTTCAAACTAAG
1 GGGCCGGTTGATTTTCAAATTAAG
**
107554 GGGTTGGTTGATTTTCAAATTAAG
1 GGGCCGGTTGATTTTCAAATTAAG
107578 GGGC
1 GGGC
107582 TGCTTTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.33
Consensus pattern (24 bp):
GGGCCGGTTGATTTTCAAATTAAG
Found at i:110203 original size:22 final size:21
Alignment explanation
Indices: 110164--110223 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
110154 AAATCAGTAC
*
110164 AAATATTATTTAAT-AATTAAAT
1 AAATATT-TTTATTAAATT-AAT
*
110186 AAATA-TTTTATATAAATTTAT
1 AAATATTTTTAT-TAAATTAAT
110207 AAATATTTTTATTAAAT
1 AAATATTTTTATTAAAT
110224 ATTTTGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 14 0.42
22 15 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATATTTTTATTAAATTAAT
Found at i:110208 original size:21 final size:21
Alignment explanation
Indices: 110184--110223 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
110174 TAATAATTAA
110184 ATAAATA-TTTTATATAAATTT
1 ATAAATATTTTTAT-TAAATTT
110205 ATAAATATTTTTATTAAAT
1 ATAAATATTTTTATTAAAT
110224 ATTTTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAATATTTTTATTAAATTT
Found at i:110271 original size:23 final size:20
Alignment explanation
Indices: 110245--110290 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
110235 AATACTCAAA
*
110245 TAATTTATAAATAATAATATATT
1 TAATTT-TAAA-AA-AATAAATT
110268 TAATTTTAAAAAAATAAATT
1 TAATTTTAAAAAAATAAATT
110288 TAA
1 TAA
110291 ATAATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 4 0.18
23 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATTTTAAAAAAATAAATT
Found at i:110707 original size:14 final size:14
Alignment explanation
Indices: 110688--110741 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
110678 AATATATTTG
110688 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
*
110702 TTTATGTTCGTTTA
1 TTTATGTTCGTTCA
*
110716 CTTT-CGTTCGTTCA
1 -TTTATGTTCGTTCA
110730 TTTATGTTCGTT
1 TTTATGTTCGTT
110742 TATGTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 3 0.09
14 28 0.82
15 3 0.09
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.59
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:110997 original size:32 final size:33
Alignment explanation
Indices: 110932--111001 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
110922 TGTTGTTGTG
*
110932 GTTTATGTTCATTTATTTGGTTCATTTACGTTC
1 GTTTATGTTCAATTATTTGGTTCATTTACGTTC
* *
110965 GTTTATGTT-AATTA-TTGTGTTCGTTTATGTTC
1 GTTTATGTTCAATTATTTG-GTTCATTTACGTTC
110997 GTTTA
1 GTTTA
111002 CTTGTATTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 3 0.09
32 21 0.64
33 9 0.27
ACGTcount: A:0.16, C:0.09, G:0.17, T:0.59
Consensus pattern (33 bp):
GTTTATGTTCAATTATTTGGTTCATTTACGTTC
Found at i:111011 original size:24 final size:22
Alignment explanation
Indices: 110962--111017 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
110952 TTCATTTACG
*
110962 TTCGTTTATGTTAATTATTGTG
1 TTCGTTTATGTTAATTATTGTA
**
110984 TTCGTTTATGTTCGTTTACTTGTA
1 TTCGTTTATGTT-AATTA-TTGTA
111008 TTCGTTTATG
1 TTCGTTTATG
111018 ATTTAAACGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 12 0.41
23 3 0.10
24 14 0.48
ACGTcount: A:0.14, C:0.09, G:0.18, T:0.59
Consensus pattern (22 bp):
TTCGTTTATGTTAATTATTGTA
Found at i:137850 original size:27 final size:26
Alignment explanation
Indices: 137788--137851 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
137778 TATGTAGTAA
*
137788 AATTTTCTAATAGTTATATTTTAATTT
1 AATTTT-TAATAGTTATATTTTAATCT
*
137815 AATTATTTAATAGTTATTTGTTTATATCT
1 AATT-TTTAATAGTTATAT-TTTA-ATCT
137844 -ATTTTTAA
1 AATTTTTAA
137852 AAAATTAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 20 0.62
28 9 0.28
29 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (26 bp):
AATTTTTAATAGTTATATTTTAATCT
Found at i:145757 original size:21 final size:21
Alignment explanation
Indices: 145731--145773 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
145721 TTTTACCGCG
*
145731 ATTGCGGCCATAGCGGGCGCT
1 ATTGCGGCCATAGCGAGCGCT
*
145752 ATTGCGGCCGTAGCGAGCGCT
1 ATTGCGGCCATAGCGAGCGCT
145773 A
1 A
145774 CTGAATGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.28, G:0.37, T:0.19
Consensus pattern (21 bp):
ATTGCGGCCATAGCGAGCGCT
Found at i:152055 original size:20 final size:20
Alignment explanation
Indices: 152043--152080 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
152033 AAACTTTAGG
152043 GAAAGTTTTGAAACTCTTAA
1 GAAAGTTTTGAAACTCTTAA
* *
152063 GATAGTTTTGAAAATCTT
1 GAAAGTTTTGAAACTCTT
152081 GAACAGTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (20 bp):
GAAAGTTTTGAAACTCTTAA
Found at i:156067 original size:19 final size:19
Alignment explanation
Indices: 156045--156114 Score: 140
Period size: 19 Copynumber: 3.7 Consensus size: 19
156035 TTGGTTAGTG
156045 ACCAAAATGTAAAATTTAA
1 ACCAAAATGTAAAATTTAA
156064 ACCAAAATGTAAAATTTAA
1 ACCAAAATGTAAAATTTAA
156083 ACCAAAATGTAAAATTTAA
1 ACCAAAATGTAAAATTTAA
156102 ACCAAAATGTAAA
1 ACCAAAATGTAAA
156115 TTTTGAAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (19 bp):
ACCAAAATGTAAAATTTAA
Found at i:157383 original size:19 final size:20
Alignment explanation
Indices: 157340--157385 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
157330 TAATATGCTG
* *
157340 GAAATTAATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
*
157360 GAAATTGATTTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
157379 GAAATTG
1 GAAATTG
157386 GATCATATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:161905 original size:38 final size:38
Alignment explanation
Indices: 161854--161926 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
161844 CTCCTTTTCA
*
161854 TTCTGTCCGTGTATTTCTAACTAGGTTGAAAAATACTG
1 TTCTGTCCGTGTATTTATAACTAGGTTGAAAAATACTG
*
161892 TTCTGTCTGTGTATTTATAACTAGGTTGAAAAATA
1 TTCTGTCCGTGTATTTATAACTAGGTTGAAAAATA
161927 ATTGTGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (38 bp):
TTCTGTCCGTGTATTTATAACTAGGTTGAAAAATACTG
Found at i:162797 original size:30 final size:30
Alignment explanation
Indices: 162758--162936 Score: 277
Period size: 30 Copynumber: 6.0 Consensus size: 30
162748 AAGCCCAAGC
*
162758 AACCGGAGAAGCCGAAAGAGGCTGAGAAGA
1 AACCGGAGAAGCCGAAAGAGGCCGAGAAGA
* * *
162788 AACCCGAGAAGTCGAAAGAGGCTGAGAAGA
1 AACCGGAGAAGCCGAAAGAGGCCGAGAAGA
* * * *
162818 AACCCGAGAAGCCTAAGGAAGCCGAGAAGA
1 AACCGGAGAAGCCGAAAGAGGCCGAGAAGA
162848 AACCGGAGAAGCCGAAAGAGGCCGAGAAGA
1 AACCGGAGAAGCCGAAAGAGGCCGAGAAGA
162878 AACCGGAGAAGCCGAAAGAGGCCGAGAAGA
1 AACCGGAGAAGCCGAAAGAGGCCGAGAAGA
*
162908 AAACGGAGAAGCCGAAAGAGGCCGAGAAG
1 AACCGGAGAAGCCGAAAGAGGCCGAGAAG
162937 CCTAAGGAGT
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 137 1.00
ACGTcount: A:0.44, C:0.19, G:0.35, T:0.02
Consensus pattern (30 bp):
AACCGGAGAAGCCGAAAGAGGCCGAGAAGA
Found at i:162876 original size:18 final size:18
Alignment explanation
Indices: 162853--162938 Score: 63
Period size: 18 Copynumber: 5.4 Consensus size: 18
162843 GAAGAAACCG
162853 GAGAAGCCGAAAGAGGCC
1 GAGAAGCCGAAAGAGGCC
162871 GAGAA---G-AA-A--CC
1 GAGAAGCCGAAAGAGGCC
162882 GGAGAAGCCGAAAGAGGCC
1 -GAGAAGCCGAAAGAGGCC
*
162901 GAGAA---GAAA-A--CG
1 GAGAAGCCGAAAGAGGCC
162913 GAGAAGCCGAAAGAGGCC
1 GAGAAGCCGAAAGAGGCC
162931 GAGAAGCC
1 GAGAAGCC
162939 TAAGGAGTCT
Statistics
Matches: 52, Mismatches: 2, Indels: 28
0.63 0.02 0.34
Matches are distributed among these distances:
11 2 0.04
12 11 0.21
13 1 0.02
14 3 0.06
15 10 0.19
16 3 0.06
17 1 0.02
18 19 0.37
19 2 0.04
ACGTcount: A:0.43, C:0.20, G:0.37, T:0.00
Consensus pattern (18 bp):
GAGAAGCCGAAAGAGGCC
Found at i:163887 original size:174 final size:176
Alignment explanation
Indices: 163638--164010 Score: 569
Period size: 178 Copynumber: 2.1 Consensus size: 176
163628 AATTTTCTAA
* * * *
163638 TTTATATAAAAATTAAATATTTTTTAATTCAAAAAAGTTTAATTAATTTAAATAATATATAATTA
1 TTTATATATATATTTAATATTTTTTAATTAAAAAAAGTTTAATTAATTTAAATAATATATAATTA
*
163703 TAAAAT-AAAAATTTTAGATAA-TTTTT-TTAATTAATATTGATTTAAGTTTAAAAGTTATTGGA
66 TAAAATAAAAAAATTTAGATAATTTTTTATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGA
* * *
163765 TCTTAAA-TATTAATTGGGTTTTAAATGGTTTGGGTTTAGCCCATAT
131 TCTTAAATTATTAATTAGGTTTTAAATGATTT-GGTTGAGCCCATAT
163811 TTTATATATATATTTAATATTTTTTAATTAAAAAACAGTTTACAATTAATTTAAAT-A-ATATAA
1 TTTATATATATATTTAATATTTTTTAATTAAAAAA-AGTTT--AATTAATTTAAATAATATATAA
*
163874 TTATAAAATAAAAAAATTTATATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
63 TTATAAAATAAAAAAATTTAGATAATTTTTT-ATTAATTAATATTGATTTAAGTTTAAAAGTTAT
163939 TGGATCTTAAATTATTAATTAGGTTTTAAATGATTTGGTTGAGCCCATAT
127 TGGATCTTAAATTATTAATTAGGTTTTAAATGATTTGGTTGAGCCCATAT
*
163989 GTTATATATATATTTAATATTT
1 TTTATATATATATTTAATATTT
164011 AAAATTTAAT
Statistics
Matches: 182, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
173 31 0.17
174 20 0.11
175 14 0.08
176 18 0.10
178 77 0.42
179 22 0.12
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (176 bp):
TTTATATATATATTTAATATTTTTTAATTAAAAAAAGTTTAATTAATTTAAATAATATATAATTA
TAAAATAAAAAAATTTAGATAATTTTTTATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGA
TCTTAAATTATTAATTAGGTTTTAAATGATTTGGTTGAGCCCATAT
Found at i:164735 original size:50 final size:49
Alignment explanation
Indices: 164580--164737 Score: 115
Period size: 59 Copynumber: 3.0 Consensus size: 49
164570 GCACCAAATA
164580 AAAAATATT-TTTTGATAAATTCGTCACCTTAATGTGACAAGTTTCTTGAAT
1 AAAAATATTATTTTGATAAATTCGTCACCTTAA--TGACAAG-TTCTTGAAT
* * ** * * *
164631 ATTGTAAAAAATTATATTTTATTGAAATTTATCATCTCGACATGACGAG-T-TTGAAT
1 A----AAAATATTAT-TTTGA-T-AAATTCGTCACCT-TA-ATGACAAGTTCTTGAAT
164687 AAAAATATTATTTTGATAAATTCGTCACCTTAATGACAAGTTGCTTGAAT
1 AAAAATATTATTTTGATAAATTCGTCACCTTAATGACAAGTT-CTTGAAT
164737 A
1 A
164738 TTGTAAAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 27
0.66 0.12 0.22
Matches are distributed among these distances:
47 7 0.09
48 2 0.03
49 10 0.12
50 8 0.10
51 5 0.06
52 9 0.11
55 7 0.09
56 8 0.10
57 5 0.06
58 1 0.01
59 16 0.20
60 1 0.01
61 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (49 bp):
AAAAATATTATTTTGATAAATTCGTCACCTTAATGACAAGTTCTTGAAT
Found at i:165538 original size:69 final size:69
Alignment explanation
Indices: 165427--165564 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
165417 CAAATTTAAT
165427 TTCTTAATATTTAGACAACACATCACCATGTAAACATTTCAAGGAAACAATGATACCA-TCGAGA
1 TTCTTAATATTTAGACAACACATCACCATGTAAACATTTCAAGGAAACAATGATACCATTCGAGA
165491 GAAAA
66 -AAAA
165496 TTCTTAATATTTAGACAACACATCACCATGTAAACATTTCAAGGAAACAATGATACCATTCGAGA
1 TTCTTAATATTTAGACAACACATCACCATGTAAACATTTCAAGGAAACAATGATACCATTCGAGA
165561 AAAA
66 AAAA
165565 GATAAAGATC
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
69 62 0.91
70 6 0.09
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (69 bp):
TTCTTAATATTTAGACAACACATCACCATGTAAACATTTCAAGGAAACAATGATACCATTCGAGA
AAAA
Found at i:175843 original size:15 final size:15
Alignment explanation
Indices: 175806--175847 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
175796 TACTTTAAAA
* *
175806 TTTTAATTTGTATAT
1 TTTTAAATTATATAT
175821 TTTT--ATTATATAT
1 TTTTAAATTATATAT
175834 TTTTAAATTATATA
1 TTTTAAATTATATA
175848 AATAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTAAATTATATAT
Found at i:176126 original size:16 final size:18
Alignment explanation
Indices: 176091--176127 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
176081 TCTCAATTAT
*
176091 TTATATTTTTTAATTTAA
1 TTATATTTTTTAATTAAA
176109 TTATA-TTTTTAA-TAAA
1 TTATATTTTTTAATTAAA
176125 TTA
1 TTA
176128 AAATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 7 0.39
18 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATATTTTTTAATTAAA
Found at i:177031 original size:111 final size:110
Alignment explanation
Indices: 176838--177056 Score: 393
Period size: 111 Copynumber: 2.0 Consensus size: 110
176828 GAAATCATAC
* *
176838 ATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTAATTTAATTTAAATTATTAGTAATAT
1 ATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTAATTTAATTTAAATTATTAGTAATAA
176903 TTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAAAT
66 TTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAAAT
176948 ATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATA
1 ATCTCGACACTTTGCTGATACGGTAACATTTTAACG-TTTAATTTAATTTAAATTATTAGTAATA
* *
177013 ATTATTTGATTTATTTAATGCATTATTATTAGATTAAGAATTAA
65 ATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
177057 TTTTTGTAAT
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 35 0.34
111 69 0.66
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.46
Consensus pattern (110 bp):
ATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTAATTTAATTTAAATTATTAGTAATAA
TTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAAAT
Found at i:182630 original size:27 final size:27
Alignment explanation
Indices: 182555--182633 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
182545 GACTTAATTT
* *
182555 TTTTA-TATCAACTT-A-TTAAATATA
1 TTTTATTATTAACTTAATTTAAAAATA
*
182579 TTTTATTATTAACTTAATTTTAAAATA
1 TTTTATTATTAACTTAATTTAAAAATA
* ** *
182606 TTTTATTTTTATTTTCATTTAAAAATA
1 TTTTATTATTAACTTAATTTAAAAATA
182633 T
1 T
182634 ATAATTTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 5 0.11
25 8 0.18
26 1 0.02
27 30 0.68
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTATTATTAACTTAATTTAAAAATA
Found at i:182994 original size:20 final size:21
Alignment explanation
Indices: 182969--183077 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
182959 TTTTCCCAAT
*
182969 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
182989 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
183010 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
183030 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
183051 TCGCAATGCGATAATAA-AAAA
1 TCGCAATGCGA-ATTAAGAAAA
183072 TCGCAA
1 TCGCAA
183078 CGAGATACTT
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
20 27 0.39
21 41 0.59
22 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:183014 original size:41 final size:41
Alignment explanation
Indices: 182969--183079 Score: 188
Period size: 41 Copynumber: 2.7 Consensus size: 41
182959 TTTTCCCAAT
182969 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
183010 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
183051 TCGCAATGCGATAATAA-AAAATCGCAACG
1 TCGCAATGCG--AATAAGTAAATCGCAACG
183080 AGATACTTAC
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
41 51 0.76
42 11 0.16
43 5 0.07
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:183120 original size:20 final size:20
Alignment explanation
Indices: 183072--183123 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
183062 TAATAAAAAA
* *
183072 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
183092 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
183112 TCGCAACGCGAT
1 TCGCAACGCGAT
183124 TTACATAGCG
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:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:183678 original size:19 final size:19
Alignment explanation
Indices: 183640--183695 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
183630 TTCGAGAATG
183640 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
183660 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
183679 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
183696 CCAAAATTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:183748 original size:20 final size:19
Alignment explanation
Indices: 183707--183867 Score: 135
Period size: 20 Copynumber: 8.8 Consensus size: 19
183697 CAAAATTGCA
183707 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
183726 TTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGC-G
183746 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
183765 TTGCGATTGTC---T-G-G
1 TTGCGATTTTCATTTCGCG
* **
183779 TCGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
183798 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
**
183812 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
* *
183832 TTGCGATTCTCATTATCTCG
1 TTGCGATTTTCATT-TCGCG
183852 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
183868 AACCAAAAGA
Statistics
Matches: 115, Mismatches: 14, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 37 0.32
20 49 0.43
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:183783 original size:39 final size:39
Alignment explanation
Indices: 183707--183783 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
183697 CAAAATTGCA
* **
183707 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
183746 TTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
183784 ATAGTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:183792 original size:33 final size:33
Alignment explanation
Indices: 183755--183842 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
183745 GTTGCGATTT
* *
183755 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
183788 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
183821 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
183843 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:185926 original size:42 final size:42
Alignment explanation
Indices: 185866--185988 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
185856 GCCCGACTCG
* * *
185866 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
185908 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
185950 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
185989 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:185946 original size:21 final size:21
Alignment explanation
Indices: 185922--185988 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
185912 TCATTCCTCG
185922 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
185943 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
185964 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
185985 AGAG
1 AGAG
185989 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:187368 original size:14 final size:14
Alignment explanation
Indices: 187349--187380 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
187339 GTTTAATTGA
187349 TTGTAAAAGGTGAT
1 TTGTAAAAGGTGAT
*
187363 TTGTAAAAGTTGAT
1 TTGTAAAAGGTGAT
187377 TTGT
1 TTGT
187381 TTAATTGATG
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:0.25, T:0.44
Consensus pattern (14 bp):
TTGTAAAAGGTGAT
Found at i:187581 original size:19 final size:19
Alignment explanation
Indices: 187559--187709 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
187549 CGAAATTAAA
187559 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
187578 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
187593 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
187611 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
187625 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
187644 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
187659 -TCTCGTTGCGATTATCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
187677 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
187696 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
187710 GGACATTAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 31
0.64 0.15 0.21
Matches are distributed among these distances:
14 28 0.30
16 5 0.05
17 6 0.06
19 45 0.48
20 10 0.11
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.41
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:187605 original size:33 final size:32
Alignment explanation
Indices: 187563--187689 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
187553 ATTAAATTCG
187563 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
187596 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
187629 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
187662 CGTTGCGATTATCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
187690 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 79 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:187652 original size:66 final size:66
Alignment explanation
Indices: 187556--187688 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
187546 ATGCGAAATT
* *
187556 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTATCATTTCGCATTGC
187621 G
66 G
*
187622 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTATCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTATCATTTCGCATTGC
187687 G
66 G
187688 A
1 A
187689 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTATCATTTCGCATTGC
G
Found at i:190207 original size:24 final size:24
Alignment explanation
Indices: 190173--190226 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
190163 CTGAAACATC
* *
190173 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
190197 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
190221 ATCAAA
1 ATCAAA
190227 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:191287 original size:20 final size:20
Alignment explanation
Indices: 191262--191319 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
191252 CATTCATTGA
*
191262 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGAGAAAATGG
*
191282 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
*
191302 TTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
191320 CGCAATGCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:191362 original size:14 final size:14
Alignment explanation
Indices: 191343--191396 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
191333 GAAAATCGCA
191343 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
191357 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
191374 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
191390 TTGCGAT
1 TTGCGAT
191397 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:191362 original size:33 final size:33
Alignment explanation
Indices: 191325--191395 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
191315 AAAATCGCAA
191325 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
191358 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
191391 TGCGA
1 TGCGA
191396 TAGCCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:191396 original size:33 final size:33
Alignment explanation
Indices: 191338--191415 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
191328 GAAATGAAAA
***
191338 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
191371 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
191404 TCGCGTTGCGAT
1 TCGCATTGCGAT
191416 AGTCTGTTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:191507 original size:13 final size:13
Alignment explanation
Indices: 191481--191548 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
191471 TTTCAACACA
*
191481 AATTATACACATC
1 AATTATACAAATC
*
191494 AATTAAACAAATC
1 AATTATACAAATC
191507 AAGATT-TACAAATC
1 -A-ATTATACAAATC
* *
191521 ATCTTTTACAAATC
1 A-ATTATACAAATC
*
191535 AATTAAAC-AATC
1 AATTATACAAATC
191547 AA
1 AA
191549 AAAAATAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
12 6 0.14
13 18 0.41
14 17 0.39
15 3 0.07
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.29
Consensus pattern (13 bp):
AATTATACAAATC
Done.