Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 38
Found at i:2117 original size:15 final size:15
Alignment explanation
Indices: 2097--2132 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
2087 GTCATGTAAA
2097 CGAGCTTCCTGAAAT
1 CGAGCTTCCTGAAAT
2112 CGAGCTTCCTGAAAT
1 CGAGCTTCCTGAAAT
2127 CGAGCT
1 CGAGCT
2133 AGTGCCTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (15 bp):
CGAGCTTCCTGAAAT
Found at i:9322 original size:54 final size:53
Alignment explanation
Indices: 9192--9309 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 53
9182 GTTTTTGGTG
* *
9192 ACCAAAATGTTAGCATCTAAAAGTTGAGTGACTAAATTGAAAAACTATTTTATG
1 ACCAAAATGTTA-CATCTAAAAGTTGAGTGATTAAATTGAAAAACTATTTTATA
** *
9246 ATGAAAATGTTAGATACTAAAAGTTGAGTGATTAAATTGAAAATA-TATTTT-TA
1 ACCAAAATGTTACAT-CTAAAAGTTGAGTGATTAAATTGAAAA-ACTATTTTATA
9299 ACCAAAATGTT
1 ACCAAAATGTT
9310 CACTTCCTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
53 12 0.22
54 42 0.76
55 1 0.02
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (53 bp):
ACCAAAATGTTACATCTAAAAGTTGAGTGATTAAATTGAAAAACTATTTTATA
Found at i:9536 original size:6 final size:6
Alignment explanation
Indices: 9525--9558 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
9515 GCTAACATAG
9525 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTA
9559 TAAAATCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATTAAA
Found at i:10388 original size:229 final size:227
Alignment explanation
Indices: 9983--10431 Score: 785
Period size: 229 Copynumber: 2.0 Consensus size: 227
9973 GTAAATTATC
* * *
9983 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
10048 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
10113 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TT
10177 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
10211 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
10276 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
10340 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
10405 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
10432 GCAGTTTTTA
Statistics
Matches: 211, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
228 44 0.21
229 164 0.78
230 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:10521 original size:20 final size:19
Alignment explanation
Indices: 10498--10543 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
10488 CGATATACCA
10498 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
10518 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
10538 GGTAAA
1 GGTAAA
10544 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:10688 original size:20 final size:19
Alignment explanation
Indices: 10665--10711 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
10655 CGATATAACA
*
10665 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
10685 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
10705 GGTAAAA
1 GGTAAAA
10712 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:11760 original size:20 final size:20
Alignment explanation
Indices: 11720--11782 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
11710 AGTGATGCTG
11720 AAAATATGATAAAACCGGGTA
1 AAAATATGATAAAACC-GGTA
11741 AAAATATGATAAAACCGGTA
1 AAAATATGATAAAACCGGTA
11761 ACAAA-ATGATAAAACCGGTA
1 A-AAATATGATAAAACCGGTA
11781 AA
1 AA
11783 TTTAAAAGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.02
20 21 0.51
21 19 0.46
ACGTcount: A:0.56, C:0.11, G:0.16, T:0.17
Consensus pattern (20 bp):
AAAATATGATAAAACCGGTA
Found at i:11926 original size:20 final size:19
Alignment explanation
Indices: 11903--11949 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
11893 CGATATAACA
*
11903 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
11923 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
11943 GGTAAAA
1 GGTAAAA
11950 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:14281 original size:33 final size:33
Alignment explanation
Indices: 14239--14304 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
14229 AAATAGATGG
*
14239 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
14272 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
14305 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:16139 original size:19 final size:19
Alignment explanation
Indices: 16095--16138 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
16085 AATGTCGAGT
16095 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
16114 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
16133 T-ATTTT
1 TAATTTT
16139 TTATGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:17387 original size:200 final size:200
Alignment explanation
Indices: 16220--18638 Score: 4588
Period size: 199 Copynumber: 12.1 Consensus size: 200
16210 TTAAGGGTCA
*
16220 TGTCGATACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
16284 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
16349 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
16414 TAATG
196 TAATG
16419 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
16484 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
16548 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT-AA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
16612 TAATG
196 TAATG
16617 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
16682 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
16747 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
16812 TAATG
196 TAATG
16817 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
16881 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
16946 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
17011 TAATG
196 TAATG
17016 TGTCGACACTAATATA-TTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
17080 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
17144 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
17209 TAATG
196 TAATG
17214 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
17279 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
17344 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
17409 TAATG
196 TAATG
17414 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
17479 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
17543 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
17608 TAATG
196 TAATG
17613 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
17677 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
17742 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
17807 TAATG
196 TAATG
17812 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
17877 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
17942 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
18007 TAATG
196 TAATG
*
18012 TGTCGACACTAATATATTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
18077 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
18142 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
18207 TAATG
196 TAATG
*
18212 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
18277 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
18341 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
18406 TAATG
196 TAATG
*
18411 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
18476 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
18540 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
18605 TAATG
196 TAATG
*
18610 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
18639 CAAATTTAAA
Statistics
Matches: 2187, Mismatches: 25, Indels: 16
0.98 0.01 0.01
Matches are distributed among these distances:
198 310 0.14
199 1116 0.51
200 761 0.35
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATG
Found at i:20544 original size:23 final size:23
Alignment explanation
Indices: 20513--20576 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
20503 ATAGGTAAAC
*
20513 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
20536 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
20559 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
20577 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:20583 original size:23 final size:23
Alignment explanation
Indices: 20513--20585 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
20503 ATAGGTAAAC
* **
20513 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
20536 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
20559 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
20582 ATAT
1 ATAT
20586 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:20974 original size:23 final size:23
Alignment explanation
Indices: 20943--21006 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
20933 ATAGGTAAAC
*
20943 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
20966 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
20989 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
21007 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:21013 original size:23 final size:23
Alignment explanation
Indices: 20943--21015 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
20933 ATAGGTAAAC
* **
20943 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
20966 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
20989 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
21012 ATAT
1 ATAT
21016 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:21405 original size:23 final size:23
Alignment explanation
Indices: 21374--21437 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
21364 ATAGGTAAAC
*
21374 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
21397 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
21420 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
21438 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:21444 original size:23 final size:23
Alignment explanation
Indices: 21374--21446 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
21364 ATAGGTAAAC
* **
21374 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
21397 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
21420 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
21443 ATAT
1 ATAT
21447 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:21518 original size:431 final size:431
Alignment explanation
Indices: 20414--21867 Score: 2874
Period size: 431 Copynumber: 3.4 Consensus size: 431
20404 AATTCGCAGT
20414 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
20479 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
20544 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
20609 AAAAGTGTCCATACTCTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
20674 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
20739 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
20804 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
20845 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
20909 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
20974 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
21039 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
21104 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
21169 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
21234 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
21275 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
21340 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
21405 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
21470 AAAAATGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
21535 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
21600 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
21665 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
21706 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
21771 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
21836 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
21868 TCTATCTCGC
Statistics
Matches: 1019, Mismatches: 3, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
430 429 0.42
431 590 0.58
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:21868 original size:23 final size:23
Alignment explanation
Indices: 21805--21869 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
21795 ATAGGTAAAC
* *
21805 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
21828 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
21851 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
21870 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:22094 original size:18 final size:18
Alignment explanation
Indices: 22073--22109 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22063 GTAATTGGAG
22073 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
22091 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
22109 T
1 T
22110 ATATTTCGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:35802 original size:17 final size:18
Alignment explanation
Indices: 35772--35806 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35762 TGAATTAATT
35772 TTTTTTATCCATTTTTAA
1 TTTTTTATCCATTTTTAA
*
35790 TTTTTT-TCTATTTTTAA
1 TTTTTTATCCATTTTTAA
35807 ATATTTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTATCCATTTTTAA
Found at i:41954 original size:11 final size:11
Alignment explanation
Indices: 41940--41973 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
41930 AGTTTTCTCT
*
41940 TTTTACTTTTC
1 TTTTATTTTTC
41951 TTTTCATTTTTC
1 TTTT-ATTTTTC
41963 TTTTATTTTTC
1 TTTTATTTTTC
41974 AAGCTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:41972 original size:12 final size:12
Alignment explanation
Indices: 41932--41973 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
41922 TTTATAAAAG
*
41932 TTTTCTCTTTTTA
1 TTTT-TCTTTTCA
*
41945 CTTTTCTTTTCA
1 TTTTTCTTTTCA
41957 TTTTTCTTTT-A
1 TTTTTCTTTTCA
41968 TTTTTC
1 TTTTTC
41974 AAGCTTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 7 0.27
12 16 0.62
13 3 0.12
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTTCA
Found at i:58761 original size:44 final size:42
Alignment explanation
Indices: 58713--58958 Score: 141
Period size: 44 Copynumber: 5.7 Consensus size: 42
58703 AATTTTAGTC
*
58713 TTTATCCTTATAATTGATGTCCCTAATTTTTGTAATACTACTTT
1 TTTA-CCTTATAATTGA-GGCCCTAATTTTTGTAATACTACTTT
* *
58757 TTTATCTTTATAATGGAGGCCCCTAATTTTT-TCAAT-CT-CATTT
1 TTTA-CCTTATAATTGAGG-CCCTAATTTTTGT-AATACTAC-TTT
* * ** *
58800 TTTACTCATATAATTTAAGTACCTAATTTTTTTCAAT-CTCAC-TT
1 TTTAC-CTTATAA-TTGAGGCCCTAATTTTTGT-AATACT-ACTTT
* * * * * *
58844 TTTACATTTAAAATTAATGCTCCTATTTTTTTTAATA-TCAC-TT
1 TTTAC-CTTATAATTGAGGC-CCTAATTTTTGTAATACT-ACTTT
58887 TTTACCTTTATAATTG-GG-CCTAATTTTTGTAATACTACTTT
1 TTTACC-TTATAATTGAGGCCCTAATTTTTGTAATACTACTTT
* *
58928 TTTATCTTTATAATGGAGGCCCCTAATTTTT
1 TTTA-CCTTATAATTGAGG-CCCTAATTTTT
58959 TCAATCTCAT
Statistics
Matches: 160, Mismatches: 25, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
40 16 0.10
41 15 0.09
42 6 0.04
43 51 0.32
44 71 0.44
46 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.07, T:0.51
Consensus pattern (42 bp):
TTTACCTTATAATTGAGGCCCTAATTTTTGTAATACTACTTT
Found at i:58939 original size:171 final size:167
Alignment explanation
Indices: 58734--59071 Score: 631
Period size: 171 Copynumber: 2.0 Consensus size: 167
58724 AATTGATGTC
58734 CCTAATTTTTGTAATACTACTTTTTTATCTTTATAATGGAGGCCCCTAATTTTTTCAATCTCATT
1 CCTAATTTTTGTAATACTACTTTTTTATCTTTATAATGGAGGCCCCTAATTTTTTCAATCTCATT
*
58799 TTTTACTCATATAATTTAAGTACCTAATTTTTTTCAATCTCACTTTTTACATTTAAAATTAATGC
66 TTTTACTCATAT-ATTTAAGTACCTAA-TTTTTTCAATCTCAC--TGTACATTTAAAATTAATGC
58864 TCCTATTTTTTTTAATATCACTTTTTACCTTTATAATTGGG
127 TCCTATTTTTTTTAATATCACTTTTTACCTTTATAATTGGG
58905 CCTAATTTTTGTAATACTACTTTTTTATCTTTATAATGGAGGCCCCTAATTTTTTCAATCTCATT
1 CCTAATTTTTGTAATACTACTTTTTTATCTTTATAATGGAGGCCCCTAATTTTTTCAATCTCATT
58970 TTTTACTCATATATTTAAGTACCTAATTTTTTCAATCTCACTGTACATTTAAAATTAATGCTCCT
66 TTTTACTCATATATTTAAGTACCTAATTTTTTCAATCTCACTGTACATTTAAAATTAATGCTCCT
59035 ATTTTTTTTAATATCACTTTTTACCTTTATAATTGGG
131 ATTTTTTTTAATATCACTTTTTACCTTTATAATTGGG
59072 GTCCCTAATT
Statistics
Matches: 166, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
167 60 0.36
169 15 0.09
170 14 0.08
171 77 0.46
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (167 bp):
CCTAATTTTTGTAATACTACTTTTTTATCTTTATAATGGAGGCCCCTAATTTTTTCAATCTCATT
TTTTACTCATATATTTAAGTACCTAATTTTTTCAATCTCACTGTACATTTAAAATTAATGCTCCT
ATTTTTTTTAATATCACTTTTTACCTTTATAATTGGG
Found at i:59079 original size:84 final size:83
Alignment explanation
Indices: 58821--59098 Score: 273
Period size: 84 Copynumber: 3.3 Consensus size: 83
58811 AATTTAAGTA
58821 CCTAATTTTTTTCAATCTCACTTTTTACATTTAAAATTAATGCTCCTATTTTTTTTAATATCACT
1 CCTAA-TTTTTTCAATCTCAC-TTTTACATTTAAAATTAATGCTCCTATTTTTTTTAATATCACT
58886 TTTTACCTTTATAATTGGG-
64 TTTTACCTTTATAATTGGGT
* ** * * * * *
58905 CCTAATTTTTGT-AATACT-ACTTTTTTATC-TTTATAATGGAGGCCCCTAATTTTTTCAATCTC
1 CCTAATTTTT-TCAAT-CTCAC--TTTTA-CATTTAAAATTAATGCTCCTATTTTTTTTAATATC
* * * **
58967 ATTTTTTA-CTCATATATTTAAGT
61 ACTTTTTACCT-TTATAATTGGGT
*
58990 ACCTAATTTTTTCAATCTCAC-TGTACATTTAAAATTAATGCTCCTATTTTTTTTAATATCACTT
1 -CCTAATTTTTTCAATCTCACTTTTACATTTAAAATTAATGCTCCTATTTTTTTTAATATCACTT
59054 TTTACCTTTATAATTGGGGT
65 TTTACCTTTATAATT-GGGT
59074 CCCTAATTTTTTCAATCAT-ACTTTT
1 -CCTAATTTTTTCAATC-TCACTTTT
59099 TACTTTTATA
Statistics
Matches: 151, Mismatches: 29, Indels: 27
0.73 0.14 0.13
Matches are distributed among these distances:
82 1 0.01
83 53 0.35
84 75 0.50
85 7 0.05
86 15 0.10
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (83 bp):
CCTAATTTTTTCAATCTCACTTTTACATTTAAAATTAATGCTCCTATTTTTTTTAATATCACTTT
TTACCTTTATAATTGGGT
Found at i:59085 original size:43 final size:43
Alignment explanation
Indices: 58720--59108 Score: 237
Period size: 43 Copynumber: 9.1 Consensus size: 43
58710 GTCTTTATCC
* * *
58720 TTATAATTGATGTCCCTAATTTTTGTAATA-CTACTTTTTTATCT
1 TTATAATTGAGGTCCCTAATTTTTTTAATATC-AC-TTTTTACCT
* * * * *
58764 TTATAATGGAGGCCCCTAATTTTTTCAATCTCATTTTTTA-CT
1 TTATAATTGAGGTCCCTAATTTTTTTAATATCACTTTTTACCT
* * * * * *
58806 CATATAATTTAAGTACCTAATTTTTTTCAATCTCACTTTTTACAT
1 -TTATAATTGAGGTCCCTAATTTTTTT-AATATCACTTTTTACCT
* * * *
58851 TTAAAATTAATG-CTCCTATTTTTTTTAATATCACTTTTTACCT
1 TTATAATTGAGGTC-CCTAATTTTTTTAATATCACTTTTTACCT
* *
58894 TTATAATTG-GG--CCTAATTTTTGTAATA-CTACTTTTTTATCT
1 TTATAATTGAGGTCCCTAATTTTTTTAATATC-AC-TTTTTACCT
* * * * *
58935 TTATAATGGAGGCCCCTAATTTTTTCAATCTCATTTTTTA-C-
1 TTATAATTGAGGTCCCTAATTTTTTTAATATCACTTTTTACCT
* * * * * * * *
58976 TCATATATTTAAGTACCTAATTTTTTCAATCTCAC--TGTACAT
1 TTATA-ATTGAGGTCCCTAATTTTTTTAATATCACTTTTTACCT
* * * *
59018 TTAAAATTAATG-CTCCTATTTTTTTTAATATCACTTTTTACCT
1 TTATAATTGAGGTC-CCTAATTTTTTTAATATCACTTTTTACCT
* * *
59061 TTATAATTGGGGTCCCTAATTTTTTCAATCAT-ACTTTTTACTT
1 TTATAATTGAGGTCCCTAATTTTTTTAAT-ATCACTTTTTACCT
59104 TTATA
1 TTATA
59109 GTTTAAGCCC
Statistics
Matches: 265, Mismatches: 61, Indels: 39
0.73 0.17 0.11
Matches are distributed among these distances:
39 1 0.00
40 19 0.07
41 42 0.16
42 32 0.12
43 94 0.35
44 74 0.28
45 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (43 bp):
TTATAATTGAGGTCCCTAATTTTTTTAATATCACTTTTTACCT
Found at i:74223 original size:157 final size:157
Alignment explanation
Indices: 73935--74250 Score: 526
Period size: 157 Copynumber: 2.0 Consensus size: 157
73925 GACTTTTCAG
*
73935 AACTTTTGTATTTCATTTTTATAGCACAAAGTATATTTTAAGAGAATATAAGGCACGTGAGTCAG
1 AACTTTTGTACTTCATTTTTATAGCACAAAGTATATTTTAAGAGAATATAAGGCACGTGAGTCAG
* * * * *
74000 ACGAGTGTGCGTAATACATATCTCAGATCATCAGAGTTGGAACAAATAAGCACACACCGTGATAT
66 AAGAATGTGCGCAATACATATCTCAGATCATCAGAGTCGGAACAAATAAGCACACACAGTGATAT
74065 CGCATC-GAAAATAACAATATGCACACA
131 CGCATCAG-AAATAACAATATGCACACA
* *
74092 AACTTTTGTACTTCATTTTTATAGCACAAAGTATATTTTAAGAGAATATATGGTACGTGAGTCAG
1 AACTTTTGTACTTCATTTTTATAGCACAAAGTATATTTTAAGAGAATATAAGGCACGTGAGTCAG
* *
74157 AAGAATGTGTGCAATACATATCTCAGATCATCAGAGTCGGAACAAATAAGCACACACAGTGCTAT
66 AAGAATGTGCGCAATACATATCTCAGATCATCAGAGTCGGAACAAATAAGCACACACAGTGATAT
74222 CGCATCAGAAATAACAATATGCACACA
131 CGCATCAGAAATAACAATATGCACACA
74249 AA
1 AA
74251 GTACATTCAG
Statistics
Matches: 148, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
157 147 0.99
158 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (157 bp):
AACTTTTGTACTTCATTTTTATAGCACAAAGTATATTTTAAGAGAATATAAGGCACGTGAGTCAG
AAGAATGTGCGCAATACATATCTCAGATCATCAGAGTCGGAACAAATAAGCACACACAGTGATAT
CGCATCAGAAATAACAATATGCACACA
Found at i:79261 original size:13 final size:13
Alignment explanation
Indices: 79241--79280 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
79231 TTAAAATGTT
79241 AAATTAAAAAATA
1 AAATTAAAAAATA
79254 AGAA-TAAAAAATA
1 A-AATTAAAAAATA
79267 AAATTAAAAAATA
1 AAATTAAAAAATA
79280 A
1 A
79281 TATATGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.08
13 21 0.84
14 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAATTAAAAAATA
Found at i:79347 original size:26 final size:27
Alignment explanation
Indices: 79318--79371 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
79308 AATATATTAC
79318 AAAAATAAATAAAA-A-GAAAAAATGTT
1 AAAAATAAA-AAAATATGAAAAAATGTT
*
79344 -AAAATAAAAAAATATGAAGAAATGTT
1 AAAAATAAAAAAATATGAAAAAATGTT
79370 AA
1 AA
79372 TTTCTAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
24 4 0.17
25 9 0.38
26 10 0.42
27 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (27 bp):
AAAAATAAAAAAATATGAAAAAATGTT
Found at i:79456 original size:3 final size:3
Alignment explanation
Indices: 79450--79475 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
79440 TTTATTCCAA
79450 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
79476 AGGGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:80763 original size:37 final size:36
Alignment explanation
Indices: 80715--80957 Score: 165
Period size: 37 Copynumber: 6.6 Consensus size: 36
80705 TGTAAAATTA
* *
80715 TATATTTTATATGTTTCTAAAAAATGTTTTCAAAAAC
1 TATATTATATATGTTTTTAAAAAATGTTTTC-AAAAC
*
80752 TATATTATATATACG-TTTT-AAAAATATTTT-AAGAAC
1 TATATTATATAT--GTTTTTAAAAAATGTTTTCAA-AAC
* *
80788 TATA-TATTATATGTTTTTCAAAACTGATTTT-AAAACC
1 TATATTA-TATATGTTTTTAAAAAATG-TTTTCAAAA-C
* * **
80825 TATA-TATTATATATTTTCAAAAGTTGTTTTTCAAAAC
1 TATATTA-TATATGTTTTTAAAAAATG-TTTTCAAAAC
* * *
80862 TATATAATATATGTTTTTAAAAATGTGTTTTCAAAAT
1 TATATTATATATGTTTTTAAAAA-ATGTTTTCAAAAC
* * *** *
80899 TATATAAAATATGTTTTTAAATCGTATTTTCAAAAC
1 TATATTATATATGTTTTTAAAAAATGTTTTCAAAAC
* * *
80935 CATATTATATATATTTTCAAAAA
1 TATATTATATATGTTTTTAAAAA
80958 CCGATTTTTT
Statistics
Matches: 166, Mismatches: 29, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
34 1 0.01
35 8 0.05
36 46 0.28
37 100 0.60
38 10 0.06
39 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (36 bp):
TATATTATATATGTTTTTAAAAAATGTTTTCAAAAC
Found at i:80803 original size:73 final size:74
Alignment explanation
Indices: 80715--80897 Score: 189
Period size: 73 Copynumber: 2.5 Consensus size: 74
80705 TGTAAAATTA
* *
80715 TATATTTTATATGTTTCTAAAAAATGTTTTCAAAAACTATAT-TATATATACGTTTT-AAAA-AT
1 TATATATTATATGTTTTTAAAAAATGTTTTCAAAAACTATATAT-TATATA--TTTTCAAAAGAT
80777 -ATTTT-AAGAAC
63 GATTTTCAA-AAC
* * * * *
80788 TATATATTATATGTTTTTCAAAACTGATTTT-AAAACCTATATATTATATATTTTCAAAAGTTGT
1 TATATATTATATGTTTTTAAAAAATG-TTTTCAAAAACTATATATTATATATTTTCAAAAGATGA
80852 TTTTCAAAAC
65 TTTTCAAAAC
* *
80862 TATATAATATATGTTTTTAAAAATGTGTTTTCAAAA
1 TATATATTATATGTTTTTAAAAA-ATGTTTTCAAAA
80898 TTATATAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
71 4 0.04
72 4 0.04
73 39 0.42
74 37 0.40
75 8 0.09
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.46
Consensus pattern (74 bp):
TATATATTATATGTTTTTAAAAAATGTTTTCAAAAACTATATATTATATATTTTCAAAAGATGAT
TTTCAAAAC
Found at i:80903 original size:74 final size:72
Alignment explanation
Indices: 80722--80957 Score: 178
Period size: 73 Copynumber: 3.2 Consensus size: 72
80712 TTATATATTT
* * * * *
80722 TATATGTTTCTAAAAAATG-TTTTCAAAAACTATATTATATATACGTTTTAAAA--ATATTTT-A
1 TATATGTTT-TTAAAAATGATTTT-AAAACCTATATAAAATATA--TTTTAAAATCGTATTTTCA
*
80783 AGAACTATATAT
62 A-AACTATATAA
* ** *
80795 TATATGTTTTTCAAAACTGATTTTAAAACCTATATATTATATATTTTCAAAAGTTGT-TTTTCAA
1 TATATGTTTTT-AAAAATGATTTTAAAACCTATATAAAATATATTTT-AAAA-TCGTATTTTCAA
80859 AACTATATAA
63 AACTATATAA
* * * *
80869 TATATGTTTTTAAAAATGTGTTTTCAAAA-TTATATAAAATATGTTTTTAAATCGTATTTTCAAA
1 TATATGTTTTTAAAAATG-ATTTT-AAAACCTATATAAAATATATTTTAAAATCGTATTTTCAAA
* *
80933 ACCATATTA
64 ACTATATAA
* *
80942 TATATATTTTCAAAAA
1 TATATGTTTTTAAAAA
80958 CCGATTTTTT
Statistics
Matches: 134, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
71 4 0.03
72 8 0.06
73 69 0.51
74 46 0.34
75 7 0.05
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (72 bp):
TATATGTTTTTAAAAATGATTTTAAAACCTATATAAAATATATTTTAAAATCGTATTTTCAAAAC
TATATAA
Found at i:80928 original size:110 final size:111
Alignment explanation
Indices: 80713--80957 Score: 265
Period size: 110 Copynumber: 2.2 Consensus size: 111
80703 TTTGTAAAAT
*
80713 TATATATTTTATATGTTTCTAAAAAATGTTTTCAAAAACTATATTATATATACGTTTTAAAAATA
1 TATATATTATATAT-TTTC-AAAAAATGTTTTCAAAAACTATATTATATATACGTTTTAAAAATA
**
80778 TTTTAAGAACTATATATTATATGTTTTTCAAAACTGATTTT-AAAACC
64 TTTTAAGAACTATATAAAATATGTTTTTCAAAACTGATTTTCAAAACC
** *
80825 TATATATTATATATTTTCAAAAGTTGTTTTTC-AAAACTATA-TA-ATATATGTTTTTAAAAATG
1 TATATATTATATATTTTCAAAAAATG-TTTTCAAAAACTATATTATATATACG-TTTTAAAAA--
* * *
80887 TGTTTTCAA-AATTATATAAAATATGTTTTT-AAATC-GTATTTTCAAAACC
62 TATTTT-AAGAACTATATAAAATATGTTTTTCAAAACTG-ATTTTCAAAACC
80936 -ATAT-TATATATATTTTCAAAAA
1 TATATAT-TATATATTTTCAAAAA
80958 CCGATTTTTT
Statistics
Matches: 115, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
108 6 0.05
109 13 0.11
110 43 0.37
111 38 0.33
112 15 0.13
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (111 bp):
TATATATTATATATTTTCAAAAAATGTTTTCAAAAACTATATTATATATACGTTTTAAAAATATT
TTAAGAACTATATAAAATATGTTTTTCAAAACTGATTTTCAAAACC
Found at i:81563 original size:86 final size:85
Alignment explanation
Indices: 81404--81742 Score: 507
Period size: 85 Copynumber: 4.0 Consensus size: 85
81394 TACCATGTGG
* * * * *
81404 TTGATAGGCCCTCGAGCTGAATGTAATCTAACTCGAAAGTTTTTGTTGACAGATAGCCCTTCTCT
1 TTGATATGCCCTTGAGCTGAATGGAATCTAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCG
*
81469 CCTTGAGCTATGTTGTAAAT
66 CCTTGAGCTATGCTGTAAAT
*
81489 TTGATATGCCCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTTGTTGACAGATAGCCCTTCTC
1 TTGATATGCCCTTGAGCTGAATGGAATCTAACTCGAAGG-TTTTTGTTGACAGATAGCCCTTCTC
*
81554 TCCTTGAGCTATGCTGTAAAT
65 GCCTTGAGCTATGCTGTAAAT
* * * *
81575 TTGATATTCCCTTGAGCTGAATGAAATCTAACTCGAAGGTTTTTGTTGATAGATAACCCTTCTCG
1 TTGATATGCCCTTGAGCTGAATGGAATCTAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCG
81640 CCTTGAGCTATGCTGTAAAT
66 CCTTGAGCTATGCTGTAAAT
* * * * *
81660 TTGATATGTCCTTCAGCTGAATGGAATCGAACTCGAAGGTTTTTCTTGACAGAGAGCCCTTCTCG
1 TTGATATGCCCTTGAGCTGAATGGAATCTAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCG
*
81725 CCTTGAGCTATACTGTAA
66 CCTTGAGCTATGCTGTAA
81743 TAGGCTGGGA
Statistics
Matches: 231, Mismatches: 22, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
85 150 0.65
86 81 0.35
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (85 bp):
TTGATATGCCCTTGAGCTGAATGGAATCTAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCG
CCTTGAGCTATGCTGTAAAT
Found at i:81702 original size:171 final size:170
Alignment explanation
Indices: 81412--81742 Score: 527
Period size: 171 Copynumber: 1.9 Consensus size: 170
81402 GGTTGATAGG
* * *
81412 CCCTCGAGCTGAATGTAATCTAACTCGAAAGTTTTTGTTGACAGATAGCCCTTCTCTCCTTGAGC
1 CCCTCGAGCTGAATGAAATCTAACTCGAAAGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGC
* * *
81477 TATGTTGTAAATTTGATATGCCCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTTGTTGACAG
66 TATGCTGTAAATTTGATATGCCCTTCAGCTGAATGGAATCAAACTCGAAGG-TTTTTCTTGACAG
* * *
81542 ATAGCCCTTCTCTCCTTGAGCTATGCTGTAAATTTGATATT
130 AGAGCCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATT
* * *
81583 CCCTTGAGCTGAATGAAATCTAACTCGAAGGTTTTTGTTGATAGATAACCCTTCTCGCCTTGAGC
1 CCCTCGAGCTGAATGAAATCTAACTCGAAAGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGC
* *
81648 TATGCTGTAAATTTGATATGTCCTTCAGCTGAATGGAATCGAACTCGAAGGTTTTTCTTGACAGA
66 TATGCTGTAAATTTGATATGCCCTTCAGCTGAATGGAATCAAACTCGAAGGTTTTTCTTGACAGA
81713 GAGCCCTTCTCGCCTTGAGCTATACTGTAA
131 GAGCCCTTCTCGCCTTGAGCTATACTGTAA
81743 TAGGCTGGGA
Statistics
Matches: 146, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
170 40 0.27
171 106 0.73
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (170 bp):
CCCTCGAGCTGAATGAAATCTAACTCGAAAGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGC
TATGCTGTAAATTTGATATGCCCTTCAGCTGAATGGAATCAAACTCGAAGGTTTTTCTTGACAGA
GAGCCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATT
Found at i:88003 original size:21 final size:21
Alignment explanation
Indices: 87955--88018 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
87945 TTAAAAAGTT
* *
87955 AAATTAAAAAATAAGAATAAA
1 AAATAAAAAAATAATAATAAA
*
87976 AAATAAAAAAATAATAATATA
1 AAATAAAAAAATAATAATAAA
* * *
87997 TATTAAAAAAGGTAATAATAAA
1 AAATAAAAAA-ATAATAATAAA
88019 GTGAAATAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
21 26 0.74
22 9 0.26
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAAAAAAATAATAATAAA
Found at i:88074 original size:26 final size:26
Alignment explanation
Indices: 88036--88089 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
88026 AATATTACAA
*
88036 AAAATAAATAAAAAGGAAAAAATGTT
1 AAAATAAAAAAAAAGGAAAAAATGTT
* *
88062 AAAATAAAAAAAAATGAAGAAATGTT
1 AAAATAAAAAAAAAGGAAAAAATGTT
88088 AA
1 AA
88090 TTTCTAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (26 bp):
AAAATAAAAAAAAAGGAAAAAATGTT
Found at i:88518 original size:25 final size:26
Alignment explanation
Indices: 88469--88520 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
88459 ATACCCCAAA
* *
88469 TCACAAAAAAATATCATTTCACTCAT
1 TCACAAAAAAAAAACATTTCACTCAT
*
88495 TCACAAAAAAAAAACCTTTC-CTCAT
1 TCACAAAAAAAAAACATTTCACTCAT
88520 T
1 T
88521 AAAAAAGCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (26 bp):
TCACAAAAAAAAAACATTTCACTCAT
Found at i:89344 original size:21 final size:23
Alignment explanation
Indices: 89306--89350 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
89296 AAAAACAAAA
*
89306 AATATAATTAAATAAATAAGTAAT
1 AATATAA-TAAATAAATAAATAAT
89330 AATATAA-AAAT-AATAAATAAT
1 AATATAATAAATAAATAAATAAT
89351 CACAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
24 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AATATAATAAATAAATAAATAAT
Found at i:89457 original size:37 final size:34
Alignment explanation
Indices: 89409--89498 Score: 92
Period size: 36 Copynumber: 2.5 Consensus size: 34
89399 TATAAAATTA
*
89409 TATATTATATATGTTTCTAAAAA-ACGTTTCCAAAAAC
1 TATATTTTATATGTTT-TAAAAATA--TTT-CAAAAAC
*
89446 TATATTTTATATACGTTTTAAAAATATTTTAAAAAC
1 TATATTTTATAT--GTTTTAAAAATATTTCAAAAAC
*
89482 TATATATTATATGTTTT
1 TATATTTTATATGTTTT
89499 TCAAAACCGA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
34 5 0.11
36 17 0.36
37 14 0.30
38 6 0.13
39 5 0.11
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (34 bp):
TATATTTTATATGTTTTAAAAATATTTCAAAAAC
Found at i:89495 original size:73 final size:74
Alignment explanation
Indices: 89397--89571 Score: 169
Period size: 73 Copynumber: 2.3 Consensus size: 74
89387 ATAACATGTC
* *
89397 TTTATAAAATTATATATTATATATGTTTCTAAAAAACG-TTTCCAAAAACTATATTTTATATACG
1 TTTA-AAAACTATATA-T-TATATGTTTCTAAAAAACGATTT-CAAAAACTATATATTATATA--
89461 TTTT-AAAA-AT-AT
60 TTTTCAAAAGATGAT
* * * * *
89473 TTTAAAAACTATATATTATATGTTTTTCAAAACCGATTTTAAAAATTATATATTATATATTTTCA
1 TTTAAAAACTATATATTATATGTTTCTAAAAAACGATTTCAAAAACTATATATTATATATTTTCA
* *
89538 AAAGTTGTT
66 AAAGATGAT
* *
89547 TTTCAAAACTATATAATATATGTTT
1 TTTAAAAACTATATATTATATGTTT
89572 TCAAAAATGT
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
71 4 0.05
72 4 0.05
73 34 0.40
74 28 0.33
75 10 0.12
76 4 0.05
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (74 bp):
TTTAAAAACTATATATTATATGTTTCTAAAAAACGATTTCAAAAACTATATATTATATATTTTCA
AAAGATGAT
Found at i:89523 original size:37 final size:37
Alignment explanation
Indices: 89409--89610 Score: 146
Period size: 37 Copynumber: 5.5 Consensus size: 37
89399 TATAAAATTA
* * * * *
89409 TATATTATATATGTTTCTAAAAAACG-TTTCCAAAAAC
1 TATATAATATATGTTTTTCAAAAATGATTT-TAAAAAC
* *
89446 TATATTTTATATACG-TTTT-AAAAAT-ATTTTAAAAAC
1 TATA--TAATATATGTTTTTCAAAAATGATTTTAAAAAC
* ** *
89482 TATATATTATATGTTTTTCAAAACCGATTTTAAAAAT
1 TATATAATATATGTTTTTCAAAAATGATTTTAAAAAC
* * * * *
89519 TATATATTATAT-ATTTTCAAAAGTTGTTTTTCAAAAC
1 TATATAATATATGTTTTTCAAAA-ATGATTTTAAAAAC
* * *
89556 TATATAATATATG-TTTTCAAAAATGTGTTTTCAAAAT
1 TATATAATATATGTTTTTCAAAAATG-ATTTTAAAAAC
89593 TATATAATATATGTTTTT
1 TATATAATATATGTTTTT
89611 AAATCGTATT
Statistics
Matches: 135, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
34 6 0.04
35 4 0.03
36 25 0.19
37 85 0.63
38 7 0.05
39 8 0.06
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (37 bp):
TATATAATATATGTTTTTCAAAAATGATTTTAAAAAC
Found at i:89570 original size:74 final size:74
Alignment explanation
Indices: 89472--89609 Score: 188
Period size: 74 Copynumber: 1.9 Consensus size: 74
89462 TTTAAAAATA
* * *
89472 TTTTAAAAACTATATATTATATGTTTTTCAAAACCG-ATTTTAAAAATTATATATTATATATTTT
1 TTTTAAAAACTATATAATATATG-TTTTCAAAAACGTATTTTAAAAATTATATAATATATATTTT
89536 CAAAAGTTGT
65 CAAAAGTTGT
* * * * *
89546 TTTTCAAAACTATATAATATATGTTTTCAAAAATGTGTTTTCAAAATTATATAATATATGTTTT
1 TTTTAAAAACTATATAATATATGTTTTCAAAAACGTATTTTAAAAATTATATAATATATATTTT
89610 TAAATCGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 10 0.18
74 45 0.82
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.48
Consensus pattern (74 bp):
TTTTAAAAACTATATAATATATGTTTTCAAAAACGTATTTTAAAAATTATATAATATATATTTTC
AAAAGTTGT
Found at i:90032 original size:44 final size:42
Alignment explanation
Indices: 89934--90032 Score: 94
Period size: 44 Copynumber: 2.3 Consensus size: 42
89924 ATTCTCACAT
* *
89934 TTTTAC-TTTAAAATTGAGACCCCTAATTTTTTTAATCTCTT
1 TTTTACTTTTATAATTGAGACCCCTAATTTTTTTAATCTCTC
** *
89975 TTTTTTTAATTTATAATTGAGATCCCTAATTTTTTTCAATCATAC-C
1 TTTTACT--TTTATAATTGAGACCCCTAATTTTTTT-AATC-T-CTC
90021 TTTTACTTTTAT
1 TTTTACTTTTAT
90033 GGTTTAAGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
41 4 0.09
44 30 0.67
45 4 0.09
46 6 0.13
47 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.04, T:0.55
Consensus pattern (42 bp):
TTTTACTTTTATAATTGAGACCCCTAATTTTTTTAATCTCTC
Found at i:90743 original size:2 final size:2
Alignment explanation
Indices: 90736--90778 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
90726 TATTTCATAC
90736 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90778 A
1 A
90779 AATTATTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:91466 original size:75 final size:76
Alignment explanation
Indices: 91315--91523 Score: 253
Period size: 75 Copynumber: 2.8 Consensus size: 76
91305 CAAAGCCAAA
* * * * * **
91315 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACTGATT-CTCCCTAAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
91379 TTTTGGCCCCGAG
64 TTTTGGCCCCGAG
*
91392 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
*
91457 TT-GCTCCGAG
66 TTGGCCCCGAG
* * * *
91467 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCT
91524 TGTACAATGG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
75 72 0.62
76 19 0.16
77 25 0.22
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.21
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TTGGCCCCGAG
Found at i:92452 original size:17 final size:17
Alignment explanation
Indices: 92432--92485 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
92422 AAAAAAGTCA
92432 AAAGAAATGAAAAAAAT
1 AAAGAAATGAAAAAAAT
92449 AAAGAAA-GAAAAAATAT
1 AAAGAAATGAAAAAA-AT
*
92466 AAATAAAT-AAATAAAAT
1 AAAGAAATGAAA-AAAAT
92483 AAA
1 AAA
92486 AATAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.21
17 23 0.70
18 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (17 bp):
AAAGAAATGAAAAAAAT
Found at i:100258 original size:76 final size:77
Alignment explanation
Indices: 100107--100314 Score: 289
Period size: 76 Copynumber: 2.8 Consensus size: 77
100097 CAAAGCCAAA
* * * **
100107 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
100171 TTTGGCCCCGAG
66 TTTGGCCCCGAG
*
100183 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
*
100248 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* * * *
100259 AATTCCAGTATGCTCGGAGGGAACCGA-TCCCCCCA-AGGGGGTACAGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
100315 TGTACAACGG
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
74 18 0.15
75 8 0.07
76 79 0.66
77 14 0.12
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:101242 original size:17 final size:18
Alignment explanation
Indices: 101222--101273 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
101212 AAAAAAGTCA
101222 AAAGAAATGAAAAAA-AT
1 AAAGAAATGAAAAAAGAT
101239 AAAGAAA-GAAAAAAGAT
1 AAAGAAATGAAAAAAGAT
* *
101256 AAATAAATAAATAAAAGA
1 AAAGAAATGAA-AAAAGA
101274 AAAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 7 0.23
17 15 0.50
18 2 0.07
19 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAGAAATGAAAAAAGAT
Found at i:101284 original size:25 final size:24
Alignment explanation
Indices: 101226--101285 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
101216 AAGTCAAAAG
* *
101226 AAATGAAAA-AAATAAAGAAAGAA
1 AAATAAAAATAAATAAAAAAAGAA
101249 AAA-AGATAAATAAATAAATAAAAGAA
1 AAATA-A-AAATAAATAAA-AAAAGAA
101275 AAATAAAAATA
1 AAATAAAAATA
101286 TGAACATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
23 4 0.13
24 3 0.10
25 12 0.40
26 10 0.33
27 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.13
Consensus pattern (24 bp):
AAATAAAAATAAATAAAAAAAGAA
Found at i:102605 original size:36 final size:35
Alignment explanation
Indices: 102563--102997 Score: 267
Period size: 37 Copynumber: 12.2 Consensus size: 35
102553 AAACTATGTA
*
102563 ATATATATTTTCAAAAGTATTTTAAAATTATATATT
1 ATATATATTTTCAAAAGT-TTTTAAAACTATATATT
* *
102599 ATATATATTTTTTTAAAA-TGTTTT----C-A-AAATT
1 ATATATA--TTTTCAAAAGT-TTTTAAAACTATATATT
* *
102630 ATATA-GTTTTCAATAATGTTTTTAAAACTTTATATT
1 ATATATATTTTCAA-AA-GTTTTTAAAACTATATATT
* * * *
102666 ATA-A-GTTTTCAAAATGATTTCAAAACTATATAAT
1 ATATATATTTTCAAAA-GTTTTTAAAACTATATATT
* *
102700 ATATATGTTTTTCAAAATGTTTTTAAAA--A-CTA-T
1 ATATAT-ATTTTCAAAA-GTTTTTAAAACTATATATT
* *
102733 ATATAT-TTTT-AAAA-TGTTTAAAAACTATATAAT
1 ATATATATTTTCAAAAGT-TTTTAAAACTATATATT
*
102766 ATATATATTTTCAAAAATGTTTTAAAAACTATATATT
1 ATATATATTTTC-AAAA-GTTTTTAAAACTATATATT
* * * *
102803 TTATTTATTTTCAAAATGTTTTAAAAACTATATAAT
1 ATATATATTTTCAAAA-GTTTTTAAAACTATATATT
* *
102839 ATATATATTTTCAAAAATGTTTTAAAAACTATATAAT
1 ATATATATTTTC-AAAA-GTTTTTAAAACTATATATT
* *
102876 ATATTTATTTTCAAAATGTTTTAAAAACTATATAATAT
1 ATATATATTTTCAAAA-GTTTTTAAAACTATAT-AT-T
* * * *
102914 ATAAATGTTTTTAAACATGTTTTCAAAACTATATATT
1 ATATATATTTTCAAA-A-GTTTTTAAAACTATATATT
* *
102951 ATACATATGTTTTAAAAATGTTTTT-AAACTATAATATAT
1 AT--ATATATTTTCAAAA-GTTTTTAAAACTAT-ATAT-T
102990 ATATATAT
1 ATATATAT
102998 ATATAATAAT
Statistics
Matches: 332, Mismatches: 35, Indels: 63
0.77 0.08 0.15
Matches are distributed among these distances:
28 7 0.02
29 9 0.03
30 8 0.02
31 15 0.05
32 3 0.01
33 14 0.04
34 28 0.08
35 11 0.03
36 72 0.22
37 100 0.30
38 34 0.10
39 31 0.09
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (35 bp):
ATATATATTTTCAAAAGTTTTTAAAACTATATATT
Found at i:102647 original size:29 final size:28
Alignment explanation
Indices: 102608--102697 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
102598 TATATATATT
*
102608 TTTTTAAAATGTTTTCAAAATTATATAG
1 TTTTCAAAATGTTTTCAAAATTATATAG
*
102636 TTTTCAATAATGTTTTTAAAACTTTATATTATAAG
1 TTTTCAA-AATGTTTTCAAAA---T-TA-TAT-AG
* *
102671 TTTTCAAAATGATTTCAAAACTATATA
1 TTTTCAAAATGTTTTCAAAATTATATA
102698 ATATATATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
28 7 0.14
29 15 0.30
30 2 0.04
32 1 0.02
33 2 0.04
34 14 0.28
35 9 0.18
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.48
Consensus pattern (28 bp):
TTTTCAAAATGTTTTCAAAATTATATAG
Found at i:102712 original size:37 final size:37
Alignment explanation
Indices: 102629--102995 Score: 321
Period size: 36 Copynumber: 10.2 Consensus size: 37
102619 TTTTCAAAAT
* *
102629 TATATA-G-TTTTCAATAATGTTTTTAAAACTTTAT-A
1 TATATATGTTTTTCAA-AATGTTTTAAAAACTATATAA
* * *
102664 T-TATAAG-TTTTCAAAATGATTTCAAAACTATATAA
1 TATATATGTTTTTCAAAATGTTTTAAAAACTATATAA
102699 TATATATGTTTTTCAAAATGTTTTTAAAAAC----T-A
1 TATATATGTTTTTCAAAATG-TTTTAAAAACTATATAA
* *
102732 TATATA--TTTTT-AAAATGTTTAAAAAC-TATATAA
1 TATATATGTTTTTCAAAATGTTTTAAAAACTATATAA
*
102765 TATATAT-ATTTTCAAAAATGTTTTAAAAACTATAT-A
1 TATATATGTTTTTC-AAAATGTTTTAAAAACTATATAA
* *
102801 T-TTTATTTATTTTCAAAATGTTTTAAAAACTATATAA
1 TATATATGT-TTTTCAAAATGTTTTAAAAACTATATAA
*
102838 TATATAT-ATTTTCAAAAATGTTTTAAAAACTATATAA
1 TATATATGTTTTTC-AAAATGTTTTAAAAACTATATAA
102875 TATAT-T-TATTTTCAAAATGTTTTAAAAACTATATAA
1 TATATATGT-TTTTCAAAATGTTTTAAAAACTATATAA
*
102911 TATATAAATGTTTTT-AAACATGTTTTCAAAACTATATATTA
1 TATAT--ATGTTTTTCAAA-ATGTTTTAAAAACTATATA--A
* * *
102952 TACATATG-TTTTAAAAATGTTTT-TAAACTATAATATA
1 TATATATGTTTTTCAAAATGTTTTAAAAACTAT-ATA-A
102989 TATATAT
1 TATATAT
102996 ATATATAATA
Statistics
Matches: 283, Mismatches: 20, Indels: 56
0.79 0.06 0.16
Matches are distributed among these distances:
29 7 0.02
30 6 0.02
31 5 0.02
32 1 0.00
33 14 0.05
34 25 0.09
35 15 0.05
36 75 0.27
37 71 0.25
38 29 0.10
39 29 0.10
40 1 0.00
41 5 0.02
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.47
Consensus pattern (37 bp):
TATATATGTTTTTCAAAATGTTTTAAAAACTATATAA
Found at i:102830 original size:73 final size:73
Alignment explanation
Indices: 102629--102997 Score: 395
Period size: 73 Copynumber: 5.1 Consensus size: 73
102619 TTTTCAAAAT
* * * * * *
102629 TATATAGTTTTCAATAATGTTTTTAAAACT-T-TATATTA-TAAGTTTTCAAAATGATTTCAAAA
1 TATATA-TTTTCAAAAATGTTTTAAAAACTATATATTTTATTTA-TTTTCAAAATGTTTTAAAAA
102691 CTATATAATA
64 CTATATAATA
*
102701 TATATGTTTTTC-AAAATGTTTTTAAAAACTATATA---TA--T-TTTT-AAAATG-TTTAAAAA
1 TATAT-ATTTTCAAAAATG-TTTTAAAAACTATATATTTTATTTATTTTCAAAATGTTTTAAAAA
102757 CTATATAATA
64 CTATATAATA
102767 TATATATTTTCAAAAATGTTTTAAAAACTATATATTTTATTTATTTTCAAAATGTTTTAAAAACT
1 TATATATTTTCAAAAATGTTTTAAAAACTATATATTTTATTTATTTTCAAAATGTTTTAAAAACT
102832 ATATAATA
66 ATATAATA
* *
102840 TATATATTTTCAAAAATGTTTTAAAAACTATATAATATATTTATTTTCAAAATGTTTTAAAAACT
1 TATATATTTTCAAAAATGTTTTAAAAACTATATATTTTATTTATTTTCAAAATGTTTTAAAAACT
102905 ATATAATA
66 ATATAATA
* * * * * * * * *
102913 TATAAATGTTTTTAAACATGTTTTCAAAACTATATATTATACATATGTTTTAAAAATGTTTT-TA
1 TAT--ATATTTTCAAAAATGTTTTAAAAACTATATATT-T-TATTTATTTTCAAAATGTTTTAAA
102977 AACTATAATATATA
62 AACTAT-ATA-ATA
102991 TATATAT
1 TATATAT
102998 ATATAATAAT
Statistics
Matches: 258, Mismatches: 20, Indels: 34
0.83 0.06 0.11
Matches are distributed among these distances:
65 21 0.08
66 28 0.11
67 6 0.02
68 6 0.02
70 1 0.00
71 11 0.04
72 26 0.10
73 93 0.36
74 2 0.01
75 28 0.11
76 10 0.04
77 20 0.08
78 6 0.02
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.47
Consensus pattern (73 bp):
TATATATTTTCAAAAATGTTTTAAAAACTATATATTTTATTTATTTTCAAAATGTTTTAAAAACT
ATATAATA
Found at i:103795 original size:164 final size:164
Alignment explanation
Indices: 103564--104287 Score: 534
Period size: 164 Copynumber: 4.3 Consensus size: 164
103554 TATTTCCTTG
* * * * * *
103564 AGCTATACTGCAAATGATGGTG-CGTAGGAGTTGAGCATAGTCGTACTCGAAGGTATTTGATGAC
1 AGCTATGCTGCAAATGAT-GTGCCTTA-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATGAC
* * * * * ** *
103628 AGATAGCCCTTCTCGACTTAAGCTATACAGTAAATGATGGTGCCTTTGAGCTGAGTATAATCGAA
64 AGATAACCCTTCTAGACTTAAGCTATACTGCAAATGAT-ATGCCTTTGAGCTGAGCGTAGTCGAA
* * *
103693 CTCGAACGTC-TTTGGCATATAGCCCTTCTCGACTTA
128 CTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTA
*
103729 AGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT-AGTGACA
1 AGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGA-TGACA
* * * * ** * * * *
103793 GATAACCCGTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGCGTAGTCTAAC
65 GATAACCCTTCTAGACTTAAGCTATACTGCAAATGATATGCCTTTG-AGCTGAGCGTAGTCGAAC
* *
103858 TCGAAGGTCTTTGGTTGGCAGATAACCTTTATCGACTTA
129 TCGAAGGTC-TT--TTGGCAGATAACCCTTCTCGACTTA
* * * * * *
103897 AGTTATGATGCAAAT-ATTGGTACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-C
1 AGCTATGCTGCAAATGA-T-GTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATGAC
* * * *
103958 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCT-ACGCGTAGTCGAA
64 AGATAACCCTTCTAGACTTAAGCTATACTGCAAATGATATGCCTTTGAGCTGA-GCGTAGTCGAA
* * * * * *
104022 CCCGAGGGTCTTTGGTGACAGATAACCCTTCTAGCCTTG
128 CTCGAAGGTCTTT--TGGCAGATAACCCTTCTCGACTTA
* ** * * * * * * * * *
104061 AGTTATGCTGTGAATGAAGTACCCTCGAAACTGAGCGTAGTTGAACTCGAAGGTTTTTGGTTGGC
1 AGCTATGCTGCAAATGATGTGCCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GATGAC
* * * * *
104126 AGATAACCCTTCTAGCCTTGAGTTATACTGCAAAT-ATTGGTGCCTTTGAGCTGAGCGTAGTCAA
64 AGATAACCCTTCTAGACTTAAGCTATACTGCAAATGA-T-ATGCCTTTGAGCTGAGCGTAGTCGA
* * * * * *
104190 ACTCGAAGATCTTTTAGTGGAAAATAGCCCTTCT-TACCTTG
127 ACTCGAAGGTC-TTT--TGGCAGATAACCCTTCTCGA-CTTA
* *
104231 ATCTATGTTGCAAATGATGTGCCTT-GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
1 AGCTATGCTGCAAATGATGTGCCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTT
104288 TGTTGGAAAA
Statistics
Matches: 440, Mismatches: 95, Indels: 44
0.76 0.16 0.08
Matches are distributed among these distances:
162 1 0.00
163 14 0.03
164 142 0.32
165 44 0.10
166 39 0.09
167 4 0.01
168 66 0.15
169 91 0.21
170 39 0.09
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (164 bp):
AGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATGACAG
ATAACCCTTCTAGACTTAAGCTATACTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTTGGCAGATAACCCTTCTCGACTTA
Found at i:103944 original size:85 final size:85
Alignment explanation
Indices: 103571--104307 Score: 521
Period size: 85 Copynumber: 8.8 Consensus size: 85
103561 TTGAGCTATA
* * ** * * * * * * *
103571 CTGCAAATGATGGTGCGTAGGAGTTGAGCATAGTCGTACTCGAAGGTATTT-GATGACAGATAGC
1 CTGCAAATGATTGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAAC
* * *
103635 CCTTCTCGACTTAAGCTATA
66 CCTTCTAGACTTAAGTTATG
* * * ** * * * *
103655 CAGTAAATGATGGTGCCTTTGAGCTGAGTATAATCGAACTCGAACGTC--T--TTGGCATATAGC
1 CTGCAAATGATTGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAAC
* *
103716 CCTTCTCGACTTAAGCTATG
66 CCTTCTAGACTTAAGTTATG
* * * *
103736 CTGCAAATGA-TGTGCCTTAGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTAG-TGACAGATAAC
1 CTGCAAATGATTGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAAC
* * *
103799 CCGTCTAGCCTTGAGTTATG
66 CCTTCTAGACTTAAGTTATG
* * * * * *
103819 TTGTAAATGA-TATGCCCTCGAAGCTGAGCGTAGTCTAACTCGAAGGTCTTTGGTTGGCAGATAA
1 CTGCAAATGATTGTGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
* * *
103883 CCTTTATCGACTTAAGTTATG
65 CCCTTCTAGACTTAAGTTATG
* * * * *
103904 ATGCAAAT-ATTGGTACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGCAGATAG
1 CTGCAAATGATT-GTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
* *
103964 CCCTTCTCGACTTAAGCTATG
65 CCCTTCTAGACTTAAGTTATG
* * * * *
103985 CTGCAAATGA-TATGCCTTGGAGCT-ACGCGTAGTCGAACCCGAGGGTCTTTGG-TGACAGATAA
1 CTGCAAATGATTGTGCCTTTGAGCTGA-GCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
* *
104047 CCCTTCTAGCCTTGAGTTATG
65 CCCTTCTAGACTTAAGTTATG
** * * * * * * *
104068 CTGTGAATGA-AGTACCCTCGAAACTGAGCGTAGTTGAACTCGAAGGTTTTTGGTTGGCAGATAA
1 CTGCAAATGATTGTGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
* * *
104132 CCCTTCTAGCCTTGAGTTATA
65 CCCTTCTAGACTTAAGTTATG
* * * * *
104153 CTGCAAAT-ATTGGTGCCTTTGAGCTGAGCGTAGTCAAACTCGAAGATCTTTTAG-TGGAAAATA
1 CTGCAAATGATT-GTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATA
* * *
104216 GCCCTTCTTA-CCTTGA-TCTATG
64 ACCCTTC-TAGACTTAAGT-TATG
* * * *
104238 TTGCAAATGA-TGTGCC-TTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGAAAATAA
1 CTGCAAATGATTGTGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
104301 CCCTTCT
65 CCCTTCT
104308 TGTCTTGAGC
Statistics
Matches: 520, Mismatches: 108, Indels: 51
0.77 0.16 0.08
Matches are distributed among these distances:
79 1 0.00
80 57 0.11
81 72 0.14
82 4 0.01
83 85 0.16
84 140 0.27
85 143 0.28
86 18 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (85 bp):
CTGCAAATGATTGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAAC
CCTTCTAGACTTAAGTTATG
Found at i:103944 original size:249 final size:247
Alignment explanation
Indices: 103608--104287 Score: 834
Period size: 249 Copynumber: 2.7 Consensus size: 247
103598 GCATAGTCGT
* * * * * * * * *
103608 ACTCGAAGGTATTT-GATGACAGATAGCCCTTCTCGACTTAAGCTATACAGTAAATGA-TGGTGC
1 ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGACTTAAGTTATACTGCAAAT-ATTGGTGC
* *
103671 CTTTGAGCTGAGTATAATCGAACTCGAACGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATG
65 CTTTGAGCTGAGTGTAATCGAACTCGAA-GTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATG
*
103736 CTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTAGTGACAGATAACCC
129 CTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTGACAGATAACCC
* * *
103801 GTCTAGCCTTGAGTTATGTTGTAAATGATA-TGCCCTCGAAGCTGAGCGTAGTCT-A
193 GTCTAGCCTTGAGTTATGCTGTAAATGA-AGTACCCTCGAAACTGAGCGTAGT-TGA
* * *
103856 ACTCGAAGGTCTTTGGTTGGCAGATAACCTTTATCGACTTAAGTTATGA-TGCAAATATTGGTAC
1 ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGACTTAAGTTAT-ACTGCAAATATTGGTGC
*
103920 CTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
65 CTTTGAGCTGAGTGTAATCGAACTCGAA-GTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATG
* * * *
103985 CTGCAAATGATATGCCTTGGAGCT-ACGCGTAGTCGAACCCGAGGGTCTTTGGTGACAGATAACC
129 CTGCAAATGATGTGCCTT-GAGCTGA-GCGTAGTCGAACTCGAAGGTCTTTAGTGACAGATAACC
* *
104049 CTTCTAGCCTTGAGTTATGCTGTGAATGAAGTACCCTCGAAACTGAGCGTAGTTGA
192 CGTCTAGCCTTGAGTTATGCTGTAAATGAAGTACCCTCGAAACTGAGCGTAGTTGA
* * * *
104105 ACTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATATTGGTGCC
1 ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGACTTAAGTTATACTGCAAATATTGGTGCC
* * * * * * *
104170 TTTGAGCTGAGCGTAGTCAAACTCGAAGATCTTTTAGTGGAAAATAGCCCTTCT-TACCTTGATC
66 TTTGAGCTGAGTGTAATCGAACTCGAAG-TC--TT--TGGCAAATAGCCCTTCTCGA-CTTAAGC
*
104234 TATGTTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
125 TATGCTGCAAATGATGTGCCTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTT
104288 TGTTGGAAAA
Statistics
Matches: 374, Mismatches: 43, Indels: 25
0.85 0.10 0.06
Matches are distributed among these distances:
248 19 0.05
249 283 0.76
250 1 0.00
251 2 0.01
252 2 0.01
253 66 0.18
254 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (247 bp):
ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGACTTAAGTTATACTGCAAATATTGGTGCC
TTTGAGCTGAGTGTAATCGAACTCGAAGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCT
GCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTGACAGATAACCCGTC
TAGCCTTGAGTTATGCTGTAAATGAAGTACCCTCGAAACTGAGCGTAGTTGA
Found at i:105512 original size:83 final size:87
Alignment explanation
Indices: 105415--105641 Score: 275
Period size: 95 Copynumber: 2.6 Consensus size: 87
105405 GGCTAGCTGA
* * *
105415 ATCCATAAAGCCGGGGCATTTAACCAATTACTCTAGAGGGACATCTCAA-TAT-GTA-AA-CACC
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATAGTATAATCACC
* *
105476 TTTATCAGGTTAGCTGAATCTT
66 TTTATCAGGCTAGCTGAATATT
105498 ATCCATAAAGCCGGGGCGTTTAACCAATTGC-CTTAGAGGGACAACTCAAGTTTTATTGTATAGT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTC-TAGAGGGACAACTC-A-----A-T-TATAGT
*
105562 ATAATTACCTTTATCAGGCTAGCTGAATATT
57 ATAATCACCTTTATCAGGCTAGCTGAATATT
*
105593 ATCCATAGAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAA
105642 GCTTTATTGT
Statistics
Matches: 123, Mismatches: 7, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
82 1 0.01
83 42 0.34
84 1 0.01
89 2 0.02
92 3 0.02
93 3 0.02
94 3 0.02
95 67 0.54
96 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (87 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATAGTATAATCACC
TTTATCAGGCTAGCTGAATATT
Found at i:105636 original size:95 final size:94
Alignment explanation
Indices: 105473--105658 Score: 311
Period size: 95 Copynumber: 2.0 Consensus size: 94
105463 ATATGTAAAC
* *
105473 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
*
105538 ACAACTCAAGTTTTATTGTATAGTATAATT
66 ACAACTCAAGCTTTATTGTATA-TATAATT
*
105568 ACCTTTATCAGGCTAGCTGAATATTATCCATAGAGCCGGGGCGTTTAACCAATTG-CTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCT-TAGAGG
105632 GACAACTCAAGCTTTATTGTATATATA
65 GACAACTCAAGCTTTATTGTATATATA
105659 TAATATTATA
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
94 6 0.07
95 80 0.93
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (94 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATATATAATT
Found at i:109526 original size:10 final size:10
Alignment explanation
Indices: 109512--109569 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
109502 AGTCAAAAGA
109512 AAAAATAAAT
1 AAAAATAAAT
*
109522 GAAAA-AAAT
1 AAAAATAAAT
109531 AAAGAATAAA-
1 AAA-AATAAAT
109541 AAAATATAAAT
1 AAAA-ATAAAT
* *
109552 AAATA-AAAG
1 AAAAATAAAT
109561 AAAAATAAA
1 AAAAATAAA
109570 AAATGAACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
9 14 0.37
10 18 0.47
11 6 0.16
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:109541 original size:26 final size:25
Alignment explanation
Indices: 109496--109576 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 25
109486 TAGATAATTT
*
109496 AAAAAAAGTCAAAAGAAAAAATAAATG
1 AAAAAAA-T-AAAAGAAAAAAAAAATG
109523 AAAAAAAT-AAAGAATAAAAAAATAT-
1 AAAAAAATAAAAGAA-AAAAAAA-ATG
*
109548 AAATAAATAAAAGAAAAATAAAAAATG
1 AAAAAAATAAAAG-AAAA-AAAAAATG
109575 AA
1 AA
109577 CATAGGTACA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
24 6 0.13
25 13 0.28
26 11 0.24
27 16 0.35
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (25 bp):
AAAAAAATAAAAGAAAAAAAAAATG
Found at i:109553 original size:21 final size:21
Alignment explanation
Indices: 109527--109567 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
109517 TAAATGAAAA
109527 AAATAAAGAATAA-AAAAATAT
1 AAATAAAGAA-AAGAAAAATAT
*
109548 AAATAAATAAAAGAAAAATA
1 AAATAAAGAAAAGAAAAATA
109568 AAAAATGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (21 bp):
AAATAAAGAAAAGAAAAATAT
Found at i:110709 original size:23 final size:24
Alignment explanation
Indices: 110683--110727 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
110673 AATATTATTA
110683 TATATAA-A-ATATTTTCCAAAACC
1 TATATAATATATATTTT-CAAAACC
110706 TATATAATATATATTTTCAAAA
1 TATATAATATATATTTTCAAAA
110728 GTATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (24 bp):
TATATAATATATATTTTCAAAACC
Found at i:110753 original size:36 final size:36
Alignment explanation
Indices: 110706--111116 Score: 319
Period size: 36 Copynumber: 11.3 Consensus size: 36
110696 TTCCAAAACC
* *
110706 TATATAATATATATTTTCAAAA-GTATTTTAAAATTA
1 TATATTATATATATTTTCAAAATGT-TTTTAAAACTA
* *
110742 TATATTATATATATTTTTAAAAATG-TTTTCAAA--A
1 TATATTATATATA-TTTTCAAAATGTTTTTAAAACTA
* *
110776 T-TA-TATA-GT-TTTTAAAAATGTTTTTAAAACTA
1 TATATTATATATATTTTCAAAATGTTTTTAAAACTA
* *
110808 TATATTATA-AGT-TTTT-AAAATGATTTCAAAACTA
1 TATATTATATA-TATTTTCAAAATGTTTTTAAAACTA
* *
110842 TATAATATATATGTTTTTCAAAATGTTTTTAAAAAGTAAAACTA
1 TATATTATATAT-ATTTTCAAAATG-TTTT------TAAAACTA
* *
110886 TATAATATATATATTTTTTCAAAAATGTTTTAAAAACTA
1 TAT-AT-TATATATATTTTC-AAAATGTTTTTAAAACTA
* *
110925 TATATTATATTTATTTTCAAAATGTTTTAAAAACTA
1 TATATTATATATATTTTCAAAATGTTTTTAAAACTA
* * * *
110961 TATAATATATATATTTTCAAAAATGTTATAAAAATTA
1 TATATTATATATATTTTC-AAAATGTTTTTAAAACTA
* *
110998 TATATTATATTTATTTTCAAAATGTTTTAAAAACTA
1 TATATTATATATATTTTCAAAATGTTTTTAAAACTA
* * *
111034 TATAATATATAAATGTTTTCAAACATGTTTTCAAAACTA
1 TAT-AT-TATATATATTTTCAAA-ATGTTTTTAAAACTA
* *
111073 TATATTATATATATGTTT--TAAT-TTTTTTAAACTA
1 TATATTATATATAT-TTTCAAAATGTTTTTAAAACTA
*
111107 TATAATATAT
1 TATATTATAT
111117 GTATATATAT
Statistics
Matches: 315, Mismatches: 33, Indels: 56
0.78 0.08 0.14
Matches are distributed among these distances:
29 11 0.03
30 7 0.02
31 1 0.00
32 6 0.02
33 4 0.01
34 50 0.16
35 8 0.03
36 77 0.24
37 66 0.21
38 24 0.08
39 27 0.09
44 10 0.03
45 11 0.03
46 13 0.04
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (36 bp):
TATATTATATATATTTTCAAAATGTTTTTAAAACTA
Found at i:110771 original size:73 final size:71
Alignment explanation
Indices: 110688--111116 Score: 371
Period size: 73 Copynumber: 5.9 Consensus size: 71
110678 TATTATATAT
* * *
110688 AAAATATTTTCCAAAACCTATATAATATATATTTTCAAAA-GTATTTTAAAATTATATATTATAT
1 AAAATGTTTT-CAAAA-CTATATAATATATATTTTCAAAATGT-TTTTAAAACTATATAATATAT
110752 ATATTTTTA
63 ATATTTTTA
* *
110761 AAAATGTTTTCAAAA-T-TAT-ATA-GT-TTTTAAAAATGTTTTTAAAACTATAT-AT-TATA-A
1 AAAATGTTTTCAAAACTATATAATATATATTTTCAAAATGTTTTTAAAACTATATAATATATATA
110818 GTTTTT-
66 -TTTTTA
*
110824 AAAATGATTTCAAAACTATATAATATATATGTTTTTCAAAATGTTTTTAAAAAGTAAAACTATAT
1 AAAATGTTTTCAAAACTATATAATATATA---TTTTCAAAATG-TTTT------TAAAACTATAT
110889 AATATATATATTTTTTCA
56 AATATATATA-TTTTT-A
* * *
110907 AAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATA
1 AAAATGTTTTCAAAACTATATA--ATATATATTTTCAAAATGTTTTTAAAACTATATAATATATA
*
110972 TATTTTCA
64 TATTTTTA
* * * * *
110980 AAAATGTTATAAAAATTATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATA
1 AAAATGTTTTCAAAACTATATA--ATATATATTTTCAAAATGTTTTTAAAACTATATAATATATA
*
111045 AATGTTTTCA
64 TAT-TTTT-A
* * *
111055 AACATGTTTTCAAAACTATATATTATATATATGTTT--TAAT-TTTTTTAAACTATATAATATAT
1 AAAATGTTTTCAAAACTATATA--ATATATAT-TTTCAAAATGTTTTTAAAACTATATAATATAT
111117 GTATATATAT
Statistics
Matches: 303, Mismatches: 26, Indels: 54
0.79 0.07 0.14
Matches are distributed among these distances:
63 15 0.05
64 10 0.03
65 4 0.01
66 24 0.08
67 4 0.01
68 3 0.01
69 3 0.01
70 1 0.00
71 10 0.03
72 9 0.03
73 95 0.31
74 10 0.03
75 48 0.16
76 3 0.01
78 11 0.04
79 2 0.01
80 4 0.01
81 10 0.03
82 11 0.04
83 20 0.07
85 6 0.02
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (71 bp):
AAAATGTTTTCAAAACTATATAATATATATTTTCAAAATGTTTTTAAAACTATATAATATATATA
TTTTTA
Found at i:110782 original size:64 final size:62
Alignment explanation
Indices: 110713--110845 Score: 162
Period size: 66 Copynumber: 2.1 Consensus size: 62
110703 ACCTATATAA
* * *
110713 TATATA-TTTTCAAAA-GTATTTTAAAATTATATATTATATATATTTTTAAAAATGTTTTCAAAA
1 TATATAGTTTTAAAAATGT-TTTTAAAACTATATATTATA-A-ATTTTT-AAAATGATTTCAAAA
*
110776 T
62 C
*
110777 TATATAGTTTTTAAAAATGTTTTTAAAACTATATATTATAAGTTTTTAAAATGATTTCAAAAC
1 TATATAG-TTTTAAAAATGTTTTTAAAACTATATATTATAAATTTTTAAAATGATTTCAAAAC
110840 TATATA
1 TATATA
110846 ATATATATGT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
63 20 0.33
64 11 0.18
65 1 0.02
66 27 0.44
67 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.48
Consensus pattern (62 bp):
TATATAGTTTTAAAAATGTTTTTAAAACTATATATTATAAATTTTTAAAATGATTTCAAAAC
Found at i:110797 original size:29 final size:28
Alignment explanation
Indices: 110749--110813 Score: 103
Period size: 29 Copynumber: 2.3 Consensus size: 28
110739 TTATATATTA
*
110749 TATATATTTTTAAAAATGTTTTCAAAAT
1 TATATATTTTTAAAAATGTTTTCAAAAC
*
110777 TATATAGTTTTTAAAAATGTTTTTAAAAC
1 TATATA-TTTTTAAAAATGTTTTCAAAAC
110806 TATATATT
1 TATATATT
110814 ATAAGTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 8 0.24
29 26 0.76
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (28 bp):
TATATATTTTTAAAAATGTTTTCAAAAC
Found at i:110913 original size:46 final size:43
Alignment explanation
Indices: 110835--110921 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
110825 AAATGATTTC
110835 AAAACTATATAATATATATGTTTTTCAAAATGTTTTTAAAAAGT
1 AAAACTATATAATATATATGTTTTTCAAAATG-TTTTAAAAAGT
*
110879 AAAACTATATAATATATATATTTTTTCAAAAATGTTTTAAAAA
1 AAAACTATATAATATATAT-GTTTTTC-AAAATGTTTTAAAAA
110922 CTATATATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
44 19 0.47
45 15 0.38
46 6 0.15
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (43 bp):
AAAACTATATAATATATATGTTTTTCAAAATGTTTTAAAAAGT
Found at i:110934 original size:46 final size:44
Alignment explanation
Indices: 110835--110960 Score: 137
Period size: 44 Copynumber: 3.0 Consensus size: 44
110825 AAATGATTTC
*
110835 AAAACTATATAATATATATGTTTTTCAAAATGTTTTTAAAAAGT
1 AAAACTATATAATATATATGTTTTTCAAAATGTTTTTAAAAACT
*
110879 AAAACTATATAATATATATATTTTTTCAAAAATG-TTTTAAAAACT
1 AAAACTATATAATATATAT-GTTTTTC-AAAATGTTTTTAAAAACT
110924 ---A-TATAT--TATAT-T-TATTTTCAAAATG-TTTTAAAAACT
1 AAAACTATATAATATATATGT-TTTTCAAAATGTTTTTAAAAACT
110960 A
1 A
110961 TATAATATAT
Statistics
Matches: 76, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
36 18 0.24
37 5 0.07
38 1 0.01
39 5 0.07
41 5 0.07
42 1 0.01
44 19 0.25
45 16 0.21
46 6 0.08
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (44 bp):
AAAACTATATAATATATATGTTTTTCAAAATGTTTTTAAAAACT
Found at i:111110 original size:2 final size:2
Alignment explanation
Indices: 111105--111141 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
111095 TTTTTTAAAC
*
111105 TA TA TA -A TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111142 AATAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:112592 original size:29 final size:30
Alignment explanation
Indices: 112532--112594 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 30
112522 GAGTTTTCAA
112532 GAAAGAATAGAAAGAGTAAAAACTTTTCATT
1 GAAAGAATAGAAAGAG-AAAAACTTTTCATT
112563 GAAAGAATAGAAAGAG-AAAACTTTTCATT
1 GAAAGAATAGAAAGAGAAAAACTTTTCATT
112592 GAA
1 GAA
112595 TTCATGCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 16 0.50
31 16 0.50
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.24
Consensus pattern (30 bp):
GAAAGAATAGAAAGAGAAAAACTTTTCATT
Found at i:113946 original size:12 final size:12
Alignment explanation
Indices: 113929--113954 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
113919 TCCATCGGGA
113929 TTCTTTTTAAGC
1 TTCTTTTTAAGC
113941 TTCTTTTTAAGC
1 TTCTTTTTAAGC
113953 TT
1 TT
113955 AAACAACCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (12 bp):
TTCTTTTTAAGC
Found at i:129074 original size:45 final size:45
Alignment explanation
Indices: 128996--129420 Score: 629
Period size: 45 Copynumber: 9.4 Consensus size: 45
128986 TTCATGTTTG
* * *
128996 TAATGCA-CCATTATGCATTTTCAACTATAGCATACTTTTATGTTAA
1 TAATGCACCCA-TATGCA-TTTCAACTGTCGCATACTTTTATGTTGA
* *
129042 TAATGCACCCATATGTATTTCAACTATCGCATACTTTTATGTTGA
1 TAATGCACCCATATGCATTTCAACTGTCGCATACTTTTATGTTGA
*
129087 TAATGCACCCATATGCATTTCAACTGTAGCATACTTTTATGTTGA
1 TAATGCACCCATATGCATTTCAACTGTCGCATACTTTTATGTTGA
* *
129132 TAATGCACCCATATGCATTTCAACTATCGCATACTTTTCTGTTGA
1 TAATGCACCCATATGCATTTCAACTGTCGCATACTTTTATGTTGA
* *
129177 TAATGCACCCATATGCATTTCAATTGTCGCATACTTTTCTGTTGA
1 TAATGCACCCATATGCATTTCAACTGTCGCATACTTTTATGTTGA
*
129222 TAATGCACCCATATGCATTTCAACTGTCGCATACTTTTCTGTTGA
1 TAATGCACCCATATGCATTTCAACTGTCGCATACTTTTATGTTGA
* *
129267 CAATGCACCCATATGCATTTCAACTGTCGCATACTTTTCTGTTGA
1 TAATGCACCCATATGCATTTCAACTGTCGCATACTTTTATGTTGA
*
129312 CAATGCACCCATATGCATTTCAACTGTAC-CATACTTTTATGTTGA
1 TAATGCACCCATATGCATTTCAACTGT-CGCATACTTTTATGTTGA
* * * * **
129357 TAATGCACCCATATGCATTTCATCTGTGGCATTCTTTCATACTGA
1 TAATGCACCCATATGCATTTCAACTGTCGCATACTTTTATGTTGA
129402 TAATGCACCCATATGCATT
1 TAATGCACCCATATGCATT
129421 ATTATTTTCA
Statistics
Matches: 355, Mismatches: 21, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
45 339 0.95
46 13 0.04
47 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (45 bp):
TAATGCACCCATATGCATTTCAACTGTCGCATACTTTTATGTTGA
Found at i:129958 original size:20 final size:20
Alignment explanation
Indices: 129933--129982 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
129923 TTTTAAAATT
129933 GTATCAATACCTTCACTTCG
1 GTATCAATACCTTCACTTCG
129953 GTATCAATACCTTCACTTCG
1 GTATCAATACCTTCACTTCG
129973 GTATCAATAC
1 GTATCAATAC
129983 TGATTGAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (20 bp):
GTATCAATACCTTCACTTCG
Found at i:135610 original size:45 final size:45
Alignment explanation
Indices: 135532--135776 Score: 271
Period size: 45 Copynumber: 5.4 Consensus size: 45
135522 TTCATGTTTG
* * * * *
135532 TAATGCA-CCATTATGTATTTTTAACTATAGCATACTTTTATGTAGA
1 TAATGCACCCA-TATGCA-TTTCAACTATCGCATACTTTTCTGTTGA
*
135578 TAATGCACCTATATGCATTTCAACTATCGCATACTTTTCTGTTGA
1 TAATGCACCCATATGCATTTCAACTATCGCATACTTTTCTGTTGA
* * *
135623 TAATGCACCCATATGCATTTCAATTGTCGTATACTTTTCTGTTGA
1 TAATGCACCCATATGCATTTCAACTATCGCATACTTTTCTGTTGA
* *
135668 TAATGCACCCATATGCATTTTAAAC-ATCGTATACTTTTCTGTTGA
1 TAATGCACCCATATGCA-TTTCAACTATCGCATACTTTTCTGTTGA
* * * * ***
135713 TAATGCACCTATATGCATTTCAACTGTGGCAT-CCTTTCATACCGA
1 TAATGCACCCATATGCATTTCAACTATCGCATACTTTTC-TGTTGA
135758 TAATGCACCCATATGCATT
1 TAATGCACCCATATGCATT
135777 ATTATTTTCA
Statistics
Matches: 172, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
44 11 0.06
45 142 0.83
46 17 0.10
47 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (45 bp):
TAATGCACCCATATGCATTTCAACTATCGCATACTTTTCTGTTGA
Found at i:137646 original size:11 final size:11
Alignment explanation
Indices: 137630--137702 Score: 76
Period size: 11 Copynumber: 6.5 Consensus size: 11
137620 TAACCCATCC
137630 TCGAGCTTGAA
1 TCGAGCTTGAA
137641 TCGAGCTTGAA
1 TCGAGCTTGAA
* *
137652 TTGAGC-TCACTA
1 TCGAGCTTGA--A
137664 TCGAGCTTGAA
1 TCGAGCTTGAA
**
137675 TCGAGCTCACAA
1 TCGAGCT-TGAA
137687 TCGAGCTTGAA
1 TCGAGCTTGAA
137698 TCGAG
1 TCGAG
137703 TTCAAAATCG
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
10 2 0.04
11 31 0.62
12 15 0.30
13 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:137667 original size:23 final size:23
Alignment explanation
Indices: 137639--137716 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
137629 CTCGAGCTTG
*
137639 AATCGAGCTTGAATTGAGCTCAC
1 AATCGAGCTTGAATCGAGCTCAC
*
137662 TATCGAGCTTGAATCGAGCTCAC
1 AATCGAGCTTGAATCGAGCTCAC
* *
137685 AATCGAGCTTGAATCGAGTTCAA
1 AATCGAGCTTGAATCGAGCTCAC
137708 AATCGAGCT
1 AATCGAGCT
137717 CAAAATTGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
AATCGAGCTTGAATCGAGCTCAC
Found at i:137688 original size:12 final size:12
Alignment explanation
Indices: 137654--137737 Score: 57
Period size: 12 Copynumber: 7.2 Consensus size: 12
137644 AGCTTGAATT
*
137654 GAGCTCACTATC
1 GAGCTCACAATC
**
137666 GAGCT-TGAATC
1 GAGCTCACAATC
137677 GAGCTCACAATC
1 GAGCTCACAATC
**
137689 GAGCT-TGAATC
1 GAGCTCACAATC
* *
137700 GAGTTCAAAATC
1 GAGCTCACAATC
* *
137712 GAGCTCAAAATT
1 GAGCTCACAATC
*
137724 GAGCT-TCAATC
1 GAGCTCACAATC
137735 GAG
1 GAG
137738 TCTCGAGCTT
Statistics
Matches: 55, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
11 22 0.40
12 33 0.60
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (12 bp):
GAGCTCACAATC
Found at i:137734 original size:46 final size:45
Alignment explanation
Indices: 137630--137737 Score: 117
Period size: 46 Copynumber: 2.4 Consensus size: 45
137620 TAACCCATCC
* * ** **
137630 TCGAGCTTGAATCGAGCTTGAATTGAGCTCACTATCGAGCTTGAA
1 TCGAGCTTCAATCGAGCTTGAATCGAGCTCAAAATCGAGCTAAAA
* *
137675 TCGAGCTCACAATCGAGCTTGAATCGAGTTCAAAATCGAGCTCAAAA
1 TCGAGCT-TCAATCGAGCTTGAATCGAGCTCAAAATCGAGCT-AAAA
*
137722 TTGAGCTTCAATCGAG
1 TCGAGCTTCAATCGAG
137738 TCTCGAGCTT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
45 7 0.14
46 36 0.71
47 8 0.16
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
TCGAGCTTCAATCGAGCTTGAATCGAGCTCAAAATCGAGCTAAAA
Found at i:138434 original size:3 final size:3
Alignment explanation
Indices: 138420--138479 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
138410 TTTAGAATCC
*
138420 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
138468 ATA ATA ATA ATA
1 ATA ATA ATA ATA
138480 CCGTCTATGC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:142987 original size:67 final size:67
Alignment explanation
Indices: 142874--143006 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
142864 GAAGAAGACA
** *
142874 AAGTAAGGAGAAGTGTGGTCATTTGAAACAAGATCTAAAGAGGGTTTCTACGAAGTAAATTATGA
1 AAGTAAGGAGAAGAATGGTAATTTGAAACAAGATCTAAAGAGGGTTTCTACGAAGTAAATTATGA
142939 CG
66 CG
*
142941 AAGTAAGGAGAAGAATGGTAATTTGAAACAAGATCTAAAGATGGTTTCTACGAAGTAAATTATGA
1 AAGTAAGGAGAAGAATGGTAATTTGAAACAAGATCTAAAGAGGGTTTCTACGAAGTAAATTATGA
143006 C
66 C
143007 TCTGAACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (67 bp):
AAGTAAGGAGAAGAATGGTAATTTGAAACAAGATCTAAAGAGGGTTTCTACGAAGTAAATTATGA
CG
Found at i:152692 original size:6 final size:6
Alignment explanation
Indices: 152681--152706 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
152671 AGATAAACAG
152681 AAAGAA AAAGAA AAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA
152707 TCCACTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:153766 original size:21 final size:21
Alignment explanation
Indices: 153740--153784 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
153730 TCGGAAACAT
153740 TAACGGCTTTAAATTATTACC
1 TAACGGCTTTAAATTATTACC
153761 TAACGGCTTTAAATTATTACC
1 TAACGGCTTTAAATTATTACC
153782 TAA
1 TAA
153785 TATAAAGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (21 bp):
TAACGGCTTTAAATTATTACC
Found at i:156735 original size:29 final size:29
Alignment explanation
Indices: 156655--156736 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
156645 CTTCCCAGCA
* * * *
156655 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACGCCGGGCGACATGG
* *
156684 TAAGTCGCCATGCACGCCAGGCGACATGG
1 TAGGTCGCCATGCACGCCGGGCGACATGG
*
156713 TAGGTCGCCATGCACGCTGGGCGA
1 TAGGTCGCCATGCACGCCGGGCGA
156737 TCTTGTCCTG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCGGGCGACATGG
Found at i:156819 original size:22 final size:22
Alignment explanation
Indices: 156788--156839 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
156778 CCCCACTGCA
156788 TGCA-GGCGACCTCTTCCGACG
1 TGCATGGCGACCTCTTCCGACG
156809 TGCATGGCGACCTCTTCCGACG
1 TGCATGGCGACCTCTTCCGACG
156831 TGCATGGCG
1 TGCATGGCG
156840 CATGCAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.13, C:0.35, G:0.31, T:0.21
Consensus pattern (22 bp):
TGCATGGCGACCTCTTCCGACG
Found at i:156878 original size:31 final size:31
Alignment explanation
Indices: 156843--156904 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
156833 CATGGCGCAT
156843 GCAAAGCTTCATCCTCTCACCACAGCTCGTA
1 GCAAAGCTTCATCCTCTCACCACAGCTCGTA
*
156874 GCAAAGCTTCATCCTCTCGCCACAGCTCGTA
1 GCAAAGCTTCATCCTCTCACCACAGCTCGTA
156905 TAGAACACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.23
Consensus pattern (31 bp):
GCAAAGCTTCATCCTCTCACCACAGCTCGTA
Found at i:160170 original size:2 final size:2
Alignment explanation
Indices: 160159--160194 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
160149 CAAAATATGT
160159 TA TA -A 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
160195 GATAATTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:160734 original size:9 final size:8
Alignment explanation
Indices: 160712--160777 Score: 53
Period size: 9 Copynumber: 7.6 Consensus size: 8
160702 AAAAAATATT
*
160712 TTCTTTTT
1 TTCTTTTC
160720 TTCTTTTAC
1 TTCTTTT-C
160729 TTCTTTT-
1 TTCTTTTC
160736 TCTCTTCTTC
1 T-TCTT-TTC
160746 TTCTTCTTC
1 TTCTT-TTC
*
160755 TTCTTTTTA
1 TTC-TTTTC
160764 TTCTTCTTC
1 TTCTT-TTC
160773 TTCTT
1 TTCTT
160778 CTATCTCTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
7 1 0.02
8 13 0.27
9 32 0.65
10 3 0.06
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (8 bp):
TTCTTTTC
Found at i:160746 original size:3 final size:3
Alignment explanation
Indices: 160728--160779 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
160718 TTTTCTTTTA
* * *
160728 CTT CTT TTT C-T CTT CTT CTT CTT CTT CTT CTT TTT ATT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
160775 CTT CT
1 CTT CT
160780 ATCTCTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (3 bp):
CTT
Found at i:162389 original size:20 final size:20
Alignment explanation
Indices: 162364--162401 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
162354 CATTGCAGCC
*
162364 AGGGTGTATGGATACACTTT
1 AGGGTGTATCGATACACTTT
162384 AGGGTGTATCGATACACT
1 AGGGTGTATCGATACACT
162402 AGTGTGTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (20 bp):
AGGGTGTATCGATACACTTT
Found at i:162426 original size:36 final size:36
Alignment explanation
Indices: 162367--162438 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
162357 TGCAGCCAGG
*
162367 GTGTATGGATACACTTTAGGGTGTATCGATACACTA
1 GTGTATGGATACACTATAGGGTGTATCGATACACTA
* *
162403 GTGTGTGGATACACTCATA-GGTGTATCGGTACACTA
1 GTGTATGGATACACT-ATAGGGTGTATCGATACACTA
162439 TTTACATTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 30 0.94
37 2 0.06
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (36 bp):
GTGTATGGATACACTATAGGGTGTATCGATACACTA
Found at i:162541 original size:20 final size:20
Alignment explanation
Indices: 162466--162575 Score: 102
Period size: 20 Copynumber: 5.7 Consensus size: 20
162456 AGCAGTCATA
*
162466 GGTGTATGGATACACCTGCAG
1 GGTGTATGGATACA-CTACAG
* *
162487 GCTGTATCGATACAC--CA-
1 GGTGTATGGATACACTACAG
**
162504 -GTGTATAAATACACTACAG
1 GGTGTATGGATACACTACAG
* *
162523 GGTTTATGGATATACTACAG
1 GGTGTATGGATACACTACAG
* *
162543 GGTGTATGGATACACTGCAT
1 GGTGTATGGATACACTACAG
162563 GGTGTATGGATAC
1 GGTGTATGGATAC
162576 CCTTTGACCC
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
16 11 0.15
18 4 0.06
20 45 0.62
21 12 0.17
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (20 bp):
GGTGTATGGATACACTACAG
Found at i:162846 original size:18 final size:18
Alignment explanation
Indices: 162799--162856 Score: 80
Period size: 18 Copynumber: 3.1 Consensus size: 18
162789 ATGTTTAATG
162799 AAAAAGATACCAATTGTTT
1 AAAAAGATACCAATTG-TT
*
162818 ACAAAAGGATATCAATTGTT
1 A-AAAA-GATACCAATTGTT
162838 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
162856 A
1 A
162857 CCAATTGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 13 0.37
19 5 0.14
20 7 0.20
21 10 0.29
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (18 bp):
AAAAAGATACCAATTGTT
Found at i:162942 original size:20 final size:21
Alignment explanation
Indices: 162895--162943 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
162885 TAAGCTCACT
162895 CTTTTTCATTAAGAAGTTGAA
1 CTTTTTCATTAAGAAGTTGAA
162916 CTTTTTCATTAAGAAGTTGAA
1 CTTTTTCATTAAGAAGTTGAA
162937 -TTTTTCA
1 CTTTTTCA
162944 AACCAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
CTTTTTCATTAAGAAGTTGAA
Found at i:164847 original size:20 final size:20
Alignment explanation
Indices: 164822--164863 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
164812 CTCATAGCTA
164822 TGGTTGAGAAAACTTATCTT
1 TGGTTGAGAAAACTTATCTT
164842 TGGTTGAGAAAACTTATCTT
1 TGGTTGAGAAAACTTATCTT
164862 TG
1 TG
164864 ATTCCCTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (20 bp):
TGGTTGAGAAAACTTATCTT
Found at i:166027 original size:36 final size:36
Alignment explanation
Indices: 165970--166039 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
165960 CAGCCAAGGT
*
165970 GTATGGATACACTGTAGGGTGTATCGATACACTAGA
1 GTATGGATACACTATAGGGTGTATCGATACACTAGA
* *
166006 GTATGGATACACTCATA-GGTGTATTGGTACACTA
1 GTATGGATACACT-ATAGGGTGTATCGATACACTA
166040 TTTACATTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 28 0.93
37 2 0.07
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (36 bp):
GTATGGATACACTATAGGGTGTATCGATACACTAGA
Found at i:166130 original size:20 final size:20
Alignment explanation
Indices: 166067--166176 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
166057 AGCAGTCATA
166067 GGTGTATGGATACACCTGCAG
1 GGTGTATGGATACA-CTGCAG
** *
166088 ACTGTATCGATACAC--CA-
1 GGTGTATGGATACACTGCAG
*
166105 -GTGTATGAATACACTGCAG
1 GGTGTATGGATACACTGCAG
*
166124 GGTGTATGGATACACTGCAA
1 GGTGTATGGATACACTGCAG
166144 GGTGTATGGATACACTGCAG
1 GGTGTATGGATACACTGCAG
166164 GGTGTATGGATAC
1 GGTGTATGGATAC
166177 CCCTTTAGCA
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.14
18 4 0.05
20 50 0.66
21 11 0.14
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (20 bp):
GGTGTATGGATACACTGCAG
Found at i:172430 original size:32 final size:32
Alignment explanation
Indices: 172394--172463 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
172384 GTTGTACACA
* *
172394 TCATCTTCAATCTCTTACATAACACACTCCTT
1 TCATCTTCAATCTCTTACACAACAAACTCCTT
172426 TCATCTTCAATCTCTTACACAACAAACTCCTT
1 TCATCTTCAATCTCTTACACAACAAACTCCTT
172458 TCATCT
1 TCATCT
172464 AACCAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (32 bp):
TCATCTTCAATCTCTTACACAACAAACTCCTT
Found at i:175801 original size:13 final size:13
Alignment explanation
Indices: 175768--175804 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
175758 TGGAGAAGAC
*
175768 AAATTTATAATTT
1 AAATTTAAAATTT
175781 ACAATTTAAAATTT
1 A-AATTTAAAATTT
175795 AAATTTAAAA
1 AAATTTAAAA
175805 CTTCATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:176122 original size:7 final size:7
Alignment explanation
Indices: 176110--176134 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
176100 TTCGGTAAAT
176110 CTTCATA
1 CTTCATA
176117 CTTCATA
1 CTTCATA
176124 CTTCATA
1 CTTCATA
176131 CTTC
1 CTTC
176135 TTCTTCTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (7 bp):
CTTCATA
Found at i:176636 original size:9 final size:8
Alignment explanation
Indices: 176606--176638 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
176596 TTTTAGCTTC
176606 AAAATTTT
1 AAAATTTT
176614 AAAATTTT
1 AAAATTTT
176622 AAAATTTT
1 AAAATTTT
*
176630 AAAAATTT
1 AAAATTTT
176638 A
1 A
176639 CATATTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
AAAATTTT
Found at i:179743 original size:69 final size:71
Alignment explanation
Indices: 179650--179784 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 71
179640 AAGGAAATTC
* * *
179650 AATTCTCTCAAATCCTTCCTAAGATCATAAT-AA-AGATAAAATACGTGGAACAAACAGAAGATC
1 AATTCTCTCAAATCCTTCCCAAGATCATAATAAAGAGAGAAAATAAGTGGAACAAACAGAAGATC
179713 AACTGG
66 AACTGG
* *
179719 AATTTTCTCTAATCCTTCCCAAGATCATAATAAAGAGAGAAAATAAGTGGAACAAACAGAAGATC
1 AATTCTCTCAAATCCTTCCCAAGATCATAATAAAGAGAGAAAATAAGTGGAACAAACAGAAGATC
179784 A
66 A
179785 CCTGTAAAGG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 28 0.47
70 2 0.03
71 29 0.49
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (71 bp):
AATTCTCTCAAATCCTTCCCAAGATCATAATAAAGAGAGAAAATAAGTGGAACAAACAGAAGATC
AACTGG
Found at i:180264 original size:18 final size:18
Alignment explanation
Indices: 180241--180291 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
180231 TGACCAAAAG
* **
180241 CCCAACTGTATTGTAGAA
1 CCCAACTCTATTCCAGAA
180259 CCCAACTCTATTCCAGAA
1 CCCAACTCTATTCCAGAA
180277 CCCAACTCTATTCCA
1 CCCAACTCTATTCCA
180292 ACATGTTACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.25
Consensus pattern (18 bp):
CCCAACTCTATTCCAGAA
Found at i:185734 original size:24 final size:24
Alignment explanation
Indices: 185706--185758 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
185696 ATTAAAACAC
185706 AATTTTACACTTAAGTAAGGATTG
1 AATTTTACACTTAAGTAAGGATTG
185730 AATTTTACACTTAAGTAAGGATTG
1 AATTTTACACTTAAGTAAGGATTG
185754 AATTT
1 AATTT
185759 GACATTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (24 bp):
AATTTTACACTTAAGTAAGGATTG
Found at i:186547 original size:20 final size:20
Alignment explanation
Indices: 186518--186555 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
186508 TAGGTTCGAG
* *
186518 TATCGGTACTGGATGAATAA
1 TATCGATACTAGATGAATAA
186538 TATCGATACTAGATGAAT
1 TATCGATACTAGATGAAT
186556 TGGGATGAAA
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:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
TATCGATACTAGATGAATAA
Found at i:188787 original size:20 final size:22
Alignment explanation
Indices: 188737--188789 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
188727 TTCAAGGATC
**
188737 GGTATCGATACTGATTGAGGGA
1 GGTATCGATACTGAAAGAGGGA
*
188759 GGTACCGATACTGAAAG-GGGA
1 GGTATCGATACTGAAAGAGGGA
188780 -GTATCGATAC
1 GGTATCGATAC
188790 CAAGAGTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.33
21 4 0.15
22 14 0.52
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (22 bp):
GGTATCGATACTGAAAGAGGGA
Found at i:192416 original size:36 final size:36
Alignment explanation
Indices: 192370--192550 Score: 326
Period size: 36 Copynumber: 5.0 Consensus size: 36
192360 GTAAGACACA
192370 TCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCT
1 TCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCT
* *
192406 TCCTTTCGTTCGACTTAAATCGGAAGTGCCGATGCT
1 TCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCT
192442 TCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCT
1 TCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCT
*
192478 TCCTTCCGTTCAACTTGAATCGGAAGTGCCGATGCT
1 TCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCT
*
192514 TCCCTCCGTTCGACTTGAATCGGAAGTGCCGATGCT
1 TCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCT
192550 T
1 T
192551 ACAAATATTA
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 138 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.31
Consensus pattern (36 bp):
TCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCT
Found at i:194309 original size:16 final size:16
Alignment explanation
Indices: 194284--194341 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
194274 GAAAAAATTA
* *
194284 GCAAAGTTGAAAGTTT
1 GCAAAATTGAAAGTTG
194300 GCAAAATTGAAAGTTG
1 GCAAAATTGAAAGTTG
194316 GCAAAATTGAAAGTTG
1 GCAAAATTGAAAGTTG
*
194332 GCAAAGTTGA
1 GCAAAATTGA
194342 CATCTTTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (16 bp):
GCAAAATTGAAAGTTG
Found at i:195262 original size:30 final size:30
Alignment explanation
Indices: 195228--195287 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
195218 ATGGAAAGCA
195228 TTAGAGGAAAAATTCCTAAAGAAAATCTCT
1 TTAGAGGAAAAATTCCTAAAGAAAATCTCT
195258 TTAGAGGAAAAATTCCTAAAGAAAATCTCT
1 TTAGAGGAAAAATTCCTAAAGAAAATCTCT
195288 CAGAATCGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (30 bp):
TTAGAGGAAAAATTCCTAAAGAAAATCTCT
Found at i:198980 original size:16 final size:16
Alignment explanation
Indices: 198955--198996 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
198945 GAAAAAATTA
198955 GCAAAGTTGAAAGTTG
1 GCAAAGTTGAAAGTTG
*
198971 GCAAAATTGAAAGTTG
1 GCAAAGTTGAAAGTTG
198987 GCAAAGTTGA
1 GCAAAGTTGA
198997 CATCTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.29, T:0.24
Consensus pattern (16 bp):
GCAAAGTTGAAAGTTG
Found at i:201842 original size:15 final size:15
Alignment explanation
Indices: 201822--201857 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
201812 CAAATATAGA
* *
201822 AAAAATATTAAATAT
1 AAAAATACTAAAAAT
201837 AAAAATACTAAAAAT
1 AAAAATACTAAAAAT
201852 AAAAAT
1 AAAAAT
201858 TAAATTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAATACTAAAAAT
Found at i:201877 original size:2 final size:2
Alignment explanation
Indices: 201870--201901 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
201860 AATTACAAAA
201870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
201902 TAAGGTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:202463 original size:7 final size:7
Alignment explanation
Indices: 202451--202498 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
202441 ATAATGACAT
202451 ATTTTTA
1 ATTTTTA
202458 ATTTTTA
1 ATTTTTA
* *
202465 GTAATTTA
1 AT-TTTTA
202473 ATTTTTA
1 ATTTTTA
202480 ATTTTT-
1 ATTTTTA
*
202486 ATATTTA
1 ATTTTTA
202493 ATTTTT
1 ATTTTT
202499 TGAATAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 5 0.15
7 23 0.70
8 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
ATTTTTA
Found at i:202499 original size:22 final size:22
Alignment explanation
Indices: 202451--202498 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
202441 ATAATGACAT
202451 ATTTTTAATTTTTAGTAATTTA
1 ATTTTTAATTTTTAGTAATTTA
202473 ATTTTTAATTTTTA-T-ATTTA
1 ATTTTTAATTTTTAGTAATTTA
202493 ATTTTT
1 ATTTTT
202499 TGAATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 11 0.42
21 1 0.04
22 14 0.54
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTTTAATTTTTAGTAATTTA
Found at i:202550 original size:23 final size:21
Alignment explanation
Indices: 202508--202551 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
202498 TTGAATAATT
* *
202508 TTTTATTTTAAATTAGAAATA
1 TTTTATTTTAAAATACAAATA
202529 TTTTATTTTTAAAATATCAAATA
1 TTTTA-TTTTAAAATA-CAAATA
202552 AGTCCATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTTATTTTAAAATACAAATA
Found at i:203661 original size:92 final size:93
Alignment explanation
Indices: 203492--203684 Score: 253
Period size: 92 Copynumber: 2.1 Consensus size: 93
203482 TCATTTATAT
* * * **
203492 ATATTTATTTTTTGTCTTTATTCTTTAACAAAAAGTAGTTTCATTTAAGTTTCATATTTTGTATG
1 ATATATATTTATTGTCTTTATTCTTCAACAAAAAGTAGTTTCATTTAAGTTTCATATTTTGTACA
** *
203557 TGGATTAAATTTCATCTTTCACACACGC
66 TAAATTAAATTTCATCTTTCACACACAC
* * * * *
203585 ATATATATTTATTGTTTTTCTTCTTCAACAAAGAGTAGTTT-GTTTAAGTTTTATATTTTGTACA
1 ATATATATTTATTGTCTTTATTCTTCAACAAAAAGTAGTTTCATTTAAGTTTCATATTTTGTACA
*
203649 TAAATTAAATTTCATCTTTTACACACAC
66 TAAATTAAATTTCATCTTTCACACACAC
203677 ATATATAT
1 ATATATAT
203685 ATATATATAT
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
92 51 0.59
93 35 0.41
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (93 bp):
ATATATATTTATTGTCTTTATTCTTCAACAAAAAGTAGTTTCATTTAAGTTTCATATTTTGTACA
TAAATTAAATTTCATCTTTCACACACAC
Found at i:203682 original size:2 final size:2
Alignment explanation
Indices: 203677--203708 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
203667 TTACACACAC
203677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
203709 TTACGTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:203879 original size:88 final size:88
Alignment explanation
Indices: 203730--204052 Score: 358
Period size: 88 Copynumber: 3.5 Consensus size: 88
203720 ATAAATTAAA
* ** * * *
203730 TTTTTATCTTTCTTCTTCAACAAACTGTAGTTTCGTTTAAGTTTCATATTTTTTACGTGGATTAA
1 TTTTTGTCTTTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAA
* *
203795 ATTTCATCTTTCACATATATATT
66 ATTTCATCTTTCATATATATTTT
* * *
203818 TTTTTGTCTTTCTTCTTCAACAAAGAGCAGTTTCATTTAAGTTTCCTCTTTTGTGCGTGGATTAA
1 TTTTTGTCTTTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAA
*
203883 ATTTCATCTTTAATATATATTTCTTT
66 ATTTCATCTTTCATATATA--T-TTT
* *
203909 TTTATATTTCTTTTCTATATTTCTTTTCAACAAAGAGTAGTTTCCTTTAAGTTTCATCTTTTGTA
1 TTT-T-TGTC-TTTC-----TTC--TTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTA
* *
203974 CGTTGATTAAATTTTATCTTTCATATATATTTAT
56 CGTGGATTAAATTTCATCTTTCATATATATTT-T
* *
204008 TTTTTGTCATTCTTCTTCAACAAAGAGTAGTTTTATTTAAGTTTC
1 TTTTTGTCTTTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTC
204053 CTTTTTTTAT
Statistics
Matches: 197, Mismatches: 24, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
88 73 0.37
89 28 0.14
90 1 0.01
91 8 0.04
92 1 0.01
93 3 0.02
94 4 0.02
96 3 0.02
97 3 0.02
98 3 0.02
99 8 0.04
101 62 0.31
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (88 bp):
TTTTTGTCTTTCTTCTTCAACAAAGAGTAGTTTCATTTAAGTTTCATCTTTTGTACGTGGATTAA
ATTTCATCTTTCATATATATTTT
Done.