Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold405
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: 752937
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.30
Warning! 86412 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:3564 original size:17 final size:16
Alignment explanation
Indices: 3538--3571 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3528 AGAAAAGTGT
*
3538 GAAGAGAGAGAGGAAAA
1 GAAGAAAGAGA-GAAAA
3555 GAAGAAAGAGAGAAAA
1 GAAGAAAGAGAGAAAA
3571 G
1 G
3572 GAGCAGTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAAGAAAGAGAGAAAA
Found at i:6744 original size:28 final size:27
Alignment explanation
Indices: 6702--6761 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
6692 AATCTCATGA
*
6702 TATTTAAGTAAATTATCAAAATAATAT
1 TATTTAAATAAATTATCAAAATAATAT
** *
6729 TATTTAAAATAAATTATTGAAATATTAT
1 TATTT-AAATAAATTATCAAAATAATAT
6757 TATTT
1 TATTT
6762 TGATATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (27 bp):
TATTTAAATAAATTATCAAAATAATAT
Found at i:7157 original size:13 final size:14
Alignment explanation
Indices: 7125--7162 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
7115 TTTTAAAATA
**
7125 TTTAATTTAATTTG
1 TTTAATTTAAGATG
7139 TTTAATTTAAGAT-
1 TTTAATTTAAGATG
7152 TTTAATTTAAG
1 TTTAATTTAAG
7163 TTGTAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (14 bp):
TTTAATTTAAGATG
Found at i:7213 original size:24 final size:23
Alignment explanation
Indices: 7156--7213 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
7146 TAAGATTTTA
* *
7156 ATTTAAGTTGTAATCATCTAATT
1 ATTTAAATTATAATCATCTAATT
* *
7179 ATTAAATATTATAATCATCTACTT
1 ATTTAA-ATTATAATCATCTAATT
7203 ATTTTAAATTA
1 A-TTTAAATTA
7214 AGAGTTGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 5 0.18
24 19 0.68
25 4 0.14
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (23 bp):
ATTTAAATTATAATCATCTAATT
Found at i:7270 original size:37 final size:38
Alignment explanation
Indices: 7216--7288 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
7206 TTAAATTAAG
* *
7216 AGTTGTAATCATTTAATTA-TTTTAAAATTTTAATTTA
1 AGTTATAATCATTTAATTATTTTTAAAATTATAATTTA
*
7253 AGTTATAATCTTTTAATTATTTTTAAAATTATAATT
1 AGTTATAATCATTTAATTATTTTTAAAATTATAATT
7289 ATTTTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (38 bp):
AGTTATAATCATTTAATTATTTTTAAAATTATAATTTA
Found at i:7477 original size:30 final size:29
Alignment explanation
Indices: 7437--7493 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
7427 TTTAAAATAA
7437 TTACATCATTACAATC-TAAAT-AAATAAAT
1 TTACATCATT--AATCATAAATGAAATAAAT
7466 TTACTATCATTAATCATAAATGAAATAA
1 TTAC-ATCATTAATCATAAATGAAATAA
7494 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 4 0.16
29 9 0.36
30 12 0.48
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (29 bp):
TTACATCATTAATCATAAATGAAATAAAT
Found at i:7495 original size:29 final size:27
Alignment explanation
Indices: 7431--7496 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 27
7421 AAATATTTTA
7431 AAATAA-TTACATCATTACAATCTAAAT
1 AAATAATTTACATCATTA-AATCTAAAT
7458 AAATAAATTTACTATCATT-AATCATAAAT
1 AAAT-AATTTAC-ATCATTAAATC-TAAAT
7487 GAAATAATTT
1 -AAATAATTT
7497 TTTAATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
27 4 0.12
28 6 0.18
29 14 0.41
30 10 0.29
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (27 bp):
AAATAATTTACATCATTAAATCTAAAT
Found at i:8196 original size:25 final size:23
Alignment explanation
Indices: 8168--8225 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
8158 TGAAAATTTT
*
8168 AATATAAATTGATCCAATTAAATCA
1 AATATAAATT-ACCCAATTAAAT-A
*
8193 AATAAAAAATTACCCAATTAAATA
1 AAT-ATAAATTACCCAATTAAATA
8217 AAT-TAAATT
1 AATATAAATT
8226 CTTACATGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 5 0.17
24 4 0.14
25 14 0.48
26 6 0.21
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (23 bp):
AATATAAATTACCCAATTAAATA
Found at i:13356 original size:24 final size:24
Alignment explanation
Indices: 13323--13371 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
13313 TTTTTAAATA
13323 ACTTTAAATTTCATAAAAATTATT
1 ACTTTAAATTTCATAAAAATTATT
*
13347 ACTTTGAATTTCATAAAAATTATT
1 ACTTTAAATTTCATAAAAATTATT
13371 A
1 A
13372 TATAATAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (24 bp):
ACTTTAAATTTCATAAAAATTATT
Found at i:20255 original size:39 final size:37
Alignment explanation
Indices: 20178--20270 Score: 96
Period size: 39 Copynumber: 2.4 Consensus size: 37
20168 TGCCACTAGT
* *
20178 TTAAAATAGTGATTTTTCTTTTGAACTGTGTTACCAG
1 TTAAAATAGTGTTTTTTCTTTTGAACTGTGCTACCAG
* ** *
20215 TTAAGAATAGTAGTTTTTTGTTTTGATTTGTGCTATCAG
1 TTAA-AATAGT-GTTTTTTCTTTTGAACTGTGCTACCAG
*
20254 TTGAAAATAGTGGTTTT
1 TT-AAAATAGTGTTTTT
20271 CATTCTAACT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 4 0.09
38 11 0.24
39 29 0.63
40 2 0.04
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (37 bp):
TTAAAATAGTGTTTTTTCTTTTGAACTGTGCTACCAG
Found at i:21031 original size:13 final size:13
Alignment explanation
Indices: 21013--21046 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21003 ATTTTTCACT
21013 ATGTATCGATACA
1 ATGTATCGATACA
*
21026 ATGTATCAATACA
1 ATGTATCGATACA
*
21039 ATATATCG
1 ATGTATCG
21047 TGTATCGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:21254 original size:26 final size:26
Alignment explanation
Indices: 21218--21284 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
21208 TGCAAATACC
21218 TATGTATTGATACTTCAGATTATTTT
1 TATGTATTGATACTTCAGATTATTTT
**
21244 TATGTATTGATACTTTGGATTATTTT
1 TATGTATTGATACTTCAGATTATTTT
21270 TATGTATTGATACTT
1 TATGTATTGATACTT
21285 AAACATCCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.06, G:0.13, T:0.55
Consensus pattern (26 bp):
TATGTATTGATACTTCAGATTATTTT
Found at i:23458 original size:2 final size:2
Alignment explanation
Indices: 23451--23494 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
23441 TTGATCATAA
*
23451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT CT 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
23494 A
1 A
23495 AATAAGCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27352 original size:52 final size:52
Alignment explanation
Indices: 27277--27402 Score: 225
Period size: 52 Copynumber: 2.4 Consensus size: 52
27267 AATATGAAAT
*
27277 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
*
27329 TTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
*
27381 TTTGCCTACATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
27403 AAGAGCAGTG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
Found at i:27413 original size:52 final size:52
Alignment explanation
Indices: 27277--27422 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 52
27267 AATATGAAAT
* ** * *
27277 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTACATGTATCGATACATAACACAGTGTATCGATACATCTAGGCAAA
* * ** *
27329 TTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
1 TTTGCCTACATGTATCGATACATAACACAGTGTATCGATACATCTAGGCAAA
*
27381 TTTGCCTACATGTATCGATACA-AAGAGCAGTGTATCGATACA
1 TTTGCCTACATGTATCGATACATAACA-CAGTGTATCGATACA
27423 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
51 1 0.01
52 84 0.99
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
TTTGCCTACATGTATCGATACATAACACAGTGTATCGATACATCTAGGCAAA
Found at i:27429 original size:13 final size:13
Alignment explanation
Indices: 27411--27435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27401 CAAAGAGCAG
27411 TGTATCGATACAA
1 TGTATCGATACAA
27424 TGTATCGATACA
1 TGTATCGATACA
27436 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:30954 original size:49 final size:49
Alignment explanation
Indices: 30889--32187 Score: 1568
Period size: 49 Copynumber: 26.5 Consensus size: 49
30879 ATGTTAAAGA
** * * * * * *
30889 TGCCAATACGCTGATTCAAGGCCAACGATATCGGATTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
*
30938 CGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG---AAGG
* ** *
30990 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* *
31039 TGGCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * * *
31088 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * * * *
31137 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTG-AGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* *
31185 TGCCAATGTGCTGATTCAAGGCTAGCAACATTGGATTTAAAGATGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG---AAGG
* * *
31237 CGCCAATATGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG---AAGG
* * * * * *
31289 CGCCAATATGCTGATTCAAAGCCAGCGATATTAGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* *
31338 TGGCAATGTGCTGATTTAAGGCCAGCAACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * *
31387 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* ** * *
31436 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGT-AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
*
31484 TGCCAATGTGCTGATTCATGGCCAGCAACATTGGACTTAAAGATGGCAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGAT-G--AAGG
* * * * *
31536 CGCCAATATGCTGATTGAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * *
31585 TACCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * *
31634 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * *
31683 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTG-AGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
31731 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG---AAGG
* * * * *
31783 CGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
*
31832 TGCCAATGTGCTGATTCAAGGCCGGCAACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * *
31881 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * * *
31930 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG-AGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* *
31978 TGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G-A--
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * * *
32021 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * * *
32070 TGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
* * *
32113 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTAAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
*
32162 TGCCAATATGCTGATTCAAGGCCAGC
1 TGCCAATGTGCTGATTCAAGGCCAGC
32188 GATATTGGGC
Statistics
Matches: 1085, Mismatches: 138, Indels: 54
0.85 0.11 0.04
Matches are distributed among these distances:
43 73 0.07
44 2 0.00
45 4 0.00
47 4 0.00
48 164 0.15
49 617 0.57
51 1 0.00
52 220 0.20
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGG
Found at i:31227 original size:247 final size:246
Alignment explanation
Indices: 30737--32200 Score: 1726
Period size: 247 Copynumber: 6.0 Consensus size: 246
30727 GGGAAAGATA
* * * * * * * *
30737 CCAATATGCTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCT
1 CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGAT--G--AAAGG-CGCCAATATGCT
* * * ** * * ** * *
30802 GATTCACGGTCAGCGGCATTAGACTTGGAGAAGAA--TGTCAATGTGCTGAGACAAGGCCAACGA
61 GATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAA
* * * * ** * * * * * *
30865 CATTGGGCTTAGGGATGTTAAAGATGCCAATACGCTGATTCAAGGCCAACGATATCGGATTTAAA
126 CATTGGACTTA---AAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* ** * *
30930 GATGAAGACGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGTG
188 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG---AAGGTG
** * * * * *
30992 CCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG-AAGGTGGCAATGTGCTAATTC
1 CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGATTC
* * * *
31056 AAGGCCAGCAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
66 AAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTG
* * * * * * * *
31121 GACTTAAAGATAAAGATGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGT-GAGG
131 GACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
* * * * *
31185 TGCCAATGTGCTGATTCAAGGCTAGCAACATTGGATTTAAAGATGACAAAGGCG
196 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG---AAGGTG
*
31239 CCAATATGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG--AAAGGCGCCAATATGCTGAT
* * * *
31304 TCAAAGCCAGCGATATTAGACTTAAAGATGAAGGTGGCAATGTGCTGATTTAAGGCCAGCAACAT
64 TCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACAT
*
31369 TGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAA
129 TGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAA
** *
31434 GGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGT-AAGGTG
194 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTG
* *
31486 CCAATGTGCTGATTCATGGCCAGCAACATTGGACTTAAAGATGGCAAAGGCGCCAATATGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGAT-G-AAAGGCGCCAATATGCTGAT
* * * * *
31551 TGAAGGCCAGCGATATTGGACTTAAAGATGAAGGTACCAATGTGCTGATTCAAGGCTAGCAACAT
64 TCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACAT
31616 TGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAA
129 TGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAA
*
31681 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTG-AGGTG
194 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTG
*
31733 CCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG--AAAGGCGCCAATATGCTGAT
* *
31798 TCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCGGCAACAT
64 TCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACAT
*
31863 TGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAA
129 TGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAA
* *
31928 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG-AGGTG
194 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTG
* * *
31980 CCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-------GCCAATATGCTGATTC
1 CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGATTC
* * * * * * * *
32038 AAGGCCAGCTACATTGGACTTAAAGATAAAGATGCTAATATGCTGATTCAAGGCCAGCTATATTG
66 AAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTG
* *
32103 GAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTAAAAGATAAAGG
131 GACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
* *
32162 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
196 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTA
32201 GAAGGGTTGC
Statistics
Matches: 1097, Mismatches: 103, Indels: 41
0.88 0.08 0.03
Matches are distributed among these distances:
232 90 0.08
237 1 0.00
238 74 0.07
246 1 0.00
247 604 0.55
248 47 0.04
249 37 0.03
250 130 0.12
251 74 0.07
253 1 0.00
255 38 0.03
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (246 bp):
CCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGATTC
AAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTG
GACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTG
Found at i:31424 original size:299 final size:296
Alignment explanation
Indices: 30889--32200 Score: 1671
Period size: 299 Copynumber: 4.5 Consensus size: 296
30879 ATGTTAAAGA
* * * * * *
30889 TGCCAATACGCTGATTCAAGGCCAACGATATCGGATTTAAAGATG-AAGACGCCAATGTGCTGAT
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAGGCGCCAATGTGCTGAT
*
30953 TCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGTGA
66 TCAAGGCCAGCAACATTGGACTTAAAGATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
* * *
31018 TATTGGACTTAAAGATGAAGGTGGCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGAT
130 TATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGAT
31083 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
195 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
* * * *
31148 TGATTTAAGGCCAGCGATATTGGACTTAAAGGTGAGG
260 TGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * * * *
31185 TGCCAATGTGCTGATTCAAGGCTAGCAACATTGGATTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG--AAAGGCGCCAATGTGCTG
* * *
31250 ATTCAAGGCTAGCAACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAAGCCAGC
64 ATTCAAGGCCAGCAACATTGGACTTAAAGATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGC
* * * *
31315 GATATTAGACTTAAAGATGAAGGTGGCAATGTGCTGATTTAAGGCCAGCAACATTGGACTTAAAG
128 GATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAG
*
31380 ATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
193 ATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATAT
* * *
31445 GCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTAAGG
258 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * * *
31484 TGCCAATGTGCTGATTCATGGCCAGCAACATTGGACTTAAAGATGGCAAAGGCGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGAT-G-AAAGGCGCCAATGTGCTG
* * * * * * *
31549 ATTGAAGGCCAGCGATATTGGACTTAAAGATG--AAGGTACCAATGTGCTGATTCAAGGCTAGCA
64 ATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* * *
31612 ACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGA
129 ATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* * * * * * * * *
31677 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGT-GAGGTGCCAATGTG
194 TGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATG
*
31741 CTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGG
259 CTGATTCAAGGCCAGCGACATTGGACTTAAAGAT----AAGG
* * * *
31783 CGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATG-AAGGTGCCAATGTGCTGAT
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAGGCGCCAATGTGCTGAT
* * * * *
31847 TCAAGGCCGGCAACATTGGACTTAAAGATG--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTAC
66 TCAAGGCCAGCAACATTGGACTTAAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
* * * *
31910 ATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
131 ATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG
* *
31975 -AGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAGATGCCAATATGCT
196 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCT
* *
32033 GATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGA
261 GATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGG
* * *
32070 TGCTAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T-AAAGGTGCCAATGTGCTGAT
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAGGCGCCAATGTGCTGAT
* *
32128 TCAAGGCCAGCTACATTGGACTAAAAGAT--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
66 TCAAGGCCAGCAACATTGGACTTAAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
*
32191 ATTGGGCTTA
131 ATTGGACTTA
32201 GAAGGGTTGC
Statistics
Matches: 910, Mismatches: 95, Indels: 37
0.87 0.09 0.04
Matches are distributed among these distances:
281 84 0.09
286 1 0.00
287 36 0.04
289 1 0.00
290 44 0.05
294 1 0.00
295 77 0.08
296 296 0.33
298 1 0.00
299 368 0.40
300 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (296 bp):
TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAGGCGCCAATGTGCTGAT
TCAAGGCCAGCAACATTGGACTTAAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
ATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG
AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCT
GATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
Found at i:32319 original size:31 final size:33
Alignment explanation
Indices: 32200--32300 Score: 184
Period size: 33 Copynumber: 3.1 Consensus size: 33
32190 TATTGGGCTT
*
32200 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
32233 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
*
32266 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
32299 AG
1 AG
32301 GAGGAGCCAC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.29
Consensus pattern (33 bp):
AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:32451 original size:34 final size:34
Alignment explanation
Indices: 32306--32501 Score: 257
Period size: 35 Copynumber: 5.7 Consensus size: 34
32296 TAGAGGAGGA
* * *
32306 GCCACGGAGTTGTGGACTTTTAAAAGGAAAAGAGT
1 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GT
* *
32341 GCCACGGAGTTGTGGACTTTAAAAAGAGAAAGAGT
1 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GT
*
32376 GCCACGGAGTGGTGGGCTTTAAAAAGAAAAAGGGT
1 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-GGT
* * *
32411 GCCACGGAATTATGGGCTTTGAAAAGAAAAAGGT
1 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGT
*
32445 GCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGT
1 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGT
* *
32479 GCTACAGAGTTGTGGGCTTTAAA
1 GCCACGGAGTTGTGGGCTTTAAA
32502 GAAAAGATAC
Statistics
Matches: 145, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
34 55 0.38
35 89 0.61
36 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (34 bp):
GCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGT
Found at i:32603 original size:30 final size:31
Alignment explanation
Indices: 32501--32626 Score: 134
Period size: 31 Copynumber: 4.1 Consensus size: 31
32491 TGGGCTTTAA
* * *
32501 AGAAAAGATACCACTGAGTCATGAACTTT-G
1 AGAAAAAATGCCACTGAGTCATGGACTTTGG
* *
32531 A-AAAGAGATTGCCACTGAGTTATGGACTTTGG
1 AGAAA-A-AATGCCACTGAGTCATGGACTTTGG
*
32563 AGAAAAAATGCCACTGAGTCATGGATTTTGG
1 AGAAAAAATGCCACTGAGTCATGGACTTTGG
* *
32594 -GACAAAATGCCACTGAGTCGTGGACTTT-G
1 AGAAAAAATGCCACTGAGTCATGGACTTTGG
32623 AGAA
1 AGAA
32627 GGTATTTGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
29 4 0.05
30 29 0.37
31 40 0.51
32 3 0.04
33 3 0.04
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (31 bp):
AGAAAAAATGCCACTGAGTCATGGACTTTGG
Found at i:33860 original size:14 final size:13
Alignment explanation
Indices: 33843--33880 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
33833 GCCTTTACAC
*
33843 TTTTTTGTGTGTTT
1 TTTTTTGTGT-TTG
33857 TTTTTTGT-TTTG
1 TTTTTTGTGTTTG
33869 TTTTTTGTGTTT
1 TTTTTTGTGTTT
33881 ACTTTTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 10 0.45
13 4 0.18
14 8 0.36
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (13 bp):
TTTTTTGTGTTTG
Found at i:33886 original size:24 final size:26
Alignment explanation
Indices: 33844--33892 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
33834 CCTTTACACT
**
33844 TTTTTGTGTGTTTTTTTTTG-TTTTG
1 TTTTTGTGTGTTTACTTTTGCTTTTG
33869 TTTTT-TGTGTTTACTTTTGCTTTT
1 TTTTTGTGTGTTTACTTTTGCTTTT
33893 TTATCATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.02, C:0.04, G:0.16, T:0.78
Consensus pattern (26 bp):
TTTTTGTGTGTTTACTTTTGCTTTTG
Found at i:40440 original size:19 final size:19
Alignment explanation
Indices: 40416--40481 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
40406 AGTAGCTTCA
40416 TATGTATCGATACAACACT
1 TATGTATCGATACAACACT
40435 TATGTATCGAT---ACA--
1 TATGTATCGATACAACACT
40449 T-TGTATCGATACAACACT
1 TATGTATCGATACAACACT
*
40467 TATGTATCAATACAA
1 TATGTATCGATACAA
40482 ATCGTTGACA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 9 0.22
14 1 0.03
16 6 0.15
18 1 0.03
19 23 0.57
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (19 bp):
TATGTATCGATACAACACT
Found at i:40455 original size:13 final size:13
Alignment explanation
Indices: 40437--40461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40427 ACAACACTTA
40437 TGTATCGATACAT
1 TGTATCGATACAT
40450 TGTATCGATACA
1 TGTATCGATACA
40462 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:40459 original size:32 final size:32
Alignment explanation
Indices: 40418--40480 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
40408 TAGCTTCATA
*
40418 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCAATACAT
40450 TGTATCGATACAACACTTATGTATCAATACA
1 TGTATCGATACAACACTTATGTATCAATACA
40481 AATCGTTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCAATACAT
Found at i:43289 original size:13 final size:13
Alignment explanation
Indices: 43271--43296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43261 TAATTTTTTG
43271 TGTATCGATACAT
1 TGTATCGATACAT
43284 TGTATCGATACAT
1 TGTATCGATACAT
43297 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:48993 original size:20 final size:20
Alignment explanation
Indices: 48968--49021 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
48958 TTTAATTAGT
48968 TGTATCGATACATTGAAGAA
1 TGTATCGATACATTGAAGAA
* *
48988 TGTATCGATACAATGAATAA
1 TGTATCGATACATTGAAGAA
49008 TGTATCGATACATT
1 TGTATCGATACATT
49022 TGGGTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATTGAAGAA
Found at i:49201 original size:20 final size:21
Alignment explanation
Indices: 49178--49228 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
49168 TTCAAACATG
49178 TATCGATACATTCACTT-ATA
1 TATCGATACATTCACTTGATA
*
49198 TATCGATACATTCACTTGTTA
1 TATCGATACATTCACTTGATA
*
49219 TATCAATACA
1 TATCGATACA
49229 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (21 bp):
TATCGATACATTCACTTGATA
Found at i:52629 original size:10 final size:10
Alignment explanation
Indices: 52614--52644 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
52604 TGATTTGAAA
52614 TTATAGCCGT
1 TTATAGCCGT
52624 TTATAGCCGT
1 TTATAGCCGT
52634 TTATAGCCGT
1 TTATAGCCGT
52644 T
1 T
52645 ACAAGCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (10 bp):
TTATAGCCGT
Found at i:52677 original size:20 final size:20
Alignment explanation
Indices: 52652--52705 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
52642 GTTACAAGCA
* *
52652 ATGTATCGATATAAT-TCATC
1 ATGTATCGATACAATGT-ACC
52672 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
52692 ATGTATCGATACAA
1 ATGTATCGATACAA
52706 ACTGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:62711 original size:20 final size:20
Alignment explanation
Indices: 62686--62736 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
62676 ACAAGCAATG
*
62686 TATCGATACAAT-TCATCATA
1 TATCGATACAATGT-ACCATA
*
62706 TATCGATACAATGTACCATG
1 TATCGATACAATGTACCATA
62726 TATCGATACAA
1 TATCGATACAA
62737 ACAGTGGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (20 bp):
TATCGATACAATGTACCATA
Found at i:70691 original size:13 final size:13
Alignment explanation
Indices: 70673--70712 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
70663 ATAGTAACCC
70673 ATGTATCGATACA
1 ATGTATCGATACA
*
70686 ATGTATCGTTACA
1 ATGTATCGATACA
*
70699 ATATATCGATACA
1 ATGTATCGATACA
70712 A
1 A
70713 AGAATGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:70724 original size:33 final size:33
Alignment explanation
Indices: 70687--70764 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
70677 ATCGATACAA
* *
70687 TGTATCGTTACAATATATCGATACAAAGAATGT
1 TGTATCGATACAATATATCAATACAAAGAATGT
* * *
70720 TGTATCAATACGATATATCAATACAAGGAATGT
1 TGTATCGATACAATATATCAATACAAAGAATGT
70753 TGTATCGATACA
1 TGTATCGATACA
70765 TTTGGTTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAATATATCAATACAAAGAATGT
Found at i:76947 original size:72 final size:72
Alignment explanation
Indices: 76830--77010 Score: 301
Period size: 72 Copynumber: 2.5 Consensus size: 72
76820 GCATTCCCGT
*
76830 AGCAATGTATCGATACAATTCATAATGTATCGATATATTGATTTGAAATTATAGCCGTTTATAGC
1 AGCAATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGC
*
76895 CGTTTTA
66 CGTTATA
*
76902 AGCAATGTA-CTGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGCTGTTTATAG
1 AGCAATGTATC-GATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAG
*
76966 CTGTTATA
65 CCGTTATA
*
76974 AGCAATGTATCGATACAATTCATCATGTATCGATACA
1 AGCAATGTATCGATACAATTCATAATGTATCGATACA
77011 ATGTCCTATG
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
71 1 0.01
72 100 0.98
73 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (72 bp):
AGCAATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGC
CGTTATA
Found at i:77003 original size:20 final size:20
Alignment explanation
Indices: 76978--77031 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
76968 GTTATAAGCA
76978 ATGTATCGATACAAT-TCAT
1 ATGTATCGATACAATGTCAT
*
76997 CATGTATCGATACAATGTCCT
1 -ATGTATCGATACAATGTCAT
77018 ATGTATCGATACAA
1 ATGTATCGATACAA
77032 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.91
21 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTCAT
Found at i:77104 original size:19 final size:19
Alignment explanation
Indices: 77060--77115 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
77050 CTGCCAATCT
**
77060 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
77080 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
77099 CATGTATCGATACAATG
1 CATGTATCGATACAATG
77116 TTTCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:79715 original size:20 final size:20
Alignment explanation
Indices: 79690--79743 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
79680 GTTACAAGCA
*
79690 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
* *
79710 ATGTATTGATATAATGTACC
1 ATGTATCGATACAATGTACC
79730 ATGTATCGATACAA
1 ATGTATCGATACAA
79744 ATAGTGGTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:79797 original size:20 final size:19
Alignment explanation
Indices: 79771--79844 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
79761 ACTACTAGTT
79771 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
79790 TCCATGTATCGATGCAATGA
1 T-CATGTATCGATACAATGA
* *
79810 TCATCTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
79830 TAATGTATCGATACA
1 TCATGTATCGATACA
79845 TCTGGGTGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
19 17 0.37
20 29 0.63
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:87286 original size:20 final size:20
Alignment explanation
Indices: 87263--87316 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
87253 GTTACAAGCA
* *
87263 ATGTATAGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
*
87283 ATGTTTCGATACAATGTACC
1 ATGTATCGATACAATGTACC
87303 ATGTATCGATACAA
1 ATGTATCGATACAA
87317 ACAGTGGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:87370 original size:20 final size:19
Alignment explanation
Indices: 87345--87382 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
87335 CTGCTAGTAT
87345 CATGTATCGATACAATTGTC
1 CATGTATCGATAC-ATTGTC
87365 CATGTATCGATACATTGT
1 CATGTATCGATACATTGT
87383 ATTGATACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (19 bp):
CATGTATCGATACATTGTC
Found at i:95624 original size:47 final size:47
Alignment explanation
Indices: 95555--95649 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
95545 TTTGTGATTC
95555 TTTTATTTAGGATGAACGGTCCATTTGTAATTATCTTCTAAACTTCA
1 TTTTATTTAGGATGAACGGTCCATTTGTAATTATCTTCTAAACTTCA
* *
95602 TTTTATTTAGGATGAATGGTCCATTTGTAATTATCTTCTATACTTCA
1 TTTTATTTAGGATGAACGGTCCATTTGTAATTATCTTCTAAACTTCA
95649 T
1 T
95650 AGTCATTAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (47 bp):
TTTTATTTAGGATGAACGGTCCATTTGTAATTATCTTCTAAACTTCA
Found at i:99576 original size:73 final size:73
Alignment explanation
Indices: 99457--99594 Score: 206
Period size: 73 Copynumber: 1.9 Consensus size: 73
99447 AATAGATGTG
* * * *
99457 TGTTTACAAGAATTTAAGCATAATGAATAATAGATATAAATGAAATGATAAATACAAATGTGTAT
1 TGTTTACAAGAATTTAAGCACAATGAATAAGAAATATAAATGAAATGATAAATACAAATATGTAT
99522 TAGGTGGA
66 TAGGTGGA
* *
99530 TGTTTACAAGAATTTAAGCACAATGAGTAAGAAATACT-AGTGAAATGATAAATACAAATATGTA
1 TGTTTACAAGAATTTAAGCACAATGAATAAGAAATA-TAAATGAAATGATAAATACAAATATGTA
99594 T
65 T
99595 AAGAAAGATG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 57 0.98
74 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (73 bp):
TGTTTACAAGAATTTAAGCACAATGAATAAGAAATATAAATGAAATGATAAATACAAATATGTAT
TAGGTGGA
Found at i:100223 original size:3 final size:3
Alignment explanation
Indices: 100215--100270 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
100205 TTAAGCTTAA
100215 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
100263 ATT ATT AT
1 ATT ATT AT
100271 ATCAAAATCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:102217 original size:38 final size:38
Alignment explanation
Indices: 102175--102251 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
102165 GATGAGAGAG
102175 AAAGTAACAACATCATAACTTTTGGTTAAGATTAAACA
1 AAAGTAACAACATCATAACTTTTGGTTAAGATTAAACA
102213 AAAGTAACAACATCATAACTTTTGGTTAAGATTAAACA
1 AAAGTAACAACATCATAACTTTTGGTTAAGATTAAACA
102251 A
1 A
102252 TCTTTTCAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (38 bp):
AAAGTAACAACATCATAACTTTTGGTTAAGATTAAACA
Found at i:103857 original size:2 final size:2
Alignment explanation
Indices: 103850--103886 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
103840 AAAATCCTAA
*
103850 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
103887 GACAATACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:105523 original size:2 final size:2
Alignment explanation
Indices: 105516--105548 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
105506 ATGGAAGAAA
105516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105549 GTTAAGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107512 original size:21 final size:23
Alignment explanation
Indices: 107482--107538 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 23
107472 AAATTATATA
*
107482 ATAATTTTATTTAT-ATTGTAGT
1 ATAATATTATTTATAATTGTAGT
*
107504 -TAATATTATTTATAATTTTAGT
1 ATAATATTATTTATAATTGTAGT
*
107526 ATAATATCATTTA
1 ATAATATTATTTA
107539 AGTTGAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.40
22 7 0.23
23 11 0.37
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (23 bp):
ATAATATTATTTATAATTGTAGT
Found at i:107512 original size:54 final size:58
Alignment explanation
Indices: 107402--107517 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 58
107392 TCGACATATT
* * *
107402 TATAAATATAAAATTATCTAGTAGTTTTATTTAAAACTTTAAGTAATTAATAATTATTTA
1 TATAAATATAAAATTATATAATAATTTTATTTAAAAC-TT-AGTAATTAATAATTATTTA
* *
107462 TATAAATATAAAATTATATAATAATTTTATTT-ATA-TT-GTAGTTAAT-ATTATTTA
1 TATAAATATAAAATTATATAATAATTTTATTTAAAACTTAGTAATTAATAATTATTTA
107516 TA
1 TA
107518 ATTTTAGTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 10 0.20
55 8 0.16
57 2 0.04
59 2 0.04
60 29 0.57
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (58 bp):
TATAAATATAAAATTATATAATAATTTTATTTAAAACTTAGTAATTAATAATTATTTA
Found at i:107537 original size:23 final size:21
Alignment explanation
Indices: 107490--107538 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
107480 TAATAATTTT
*
107490 ATTTATATTGTAGTTAATATT
1 ATTTATATTGTAGTTAATATC
*
107511 ATTTATAATTTTAGTATAATATC
1 ATTTAT-ATTGTAGT-TAATATC
107534 ATTTA
1 ATTTA
107539 AGTTGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTTATATTGTAGTTAATATC
Found at i:107647 original size:20 final size:20
Alignment explanation
Indices: 107622--107663 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
107612 TACTCCCTTT
*
107622 ATTATTATTTTTAATTA-TAA
1 ATTATTATTATT-ATTATTAA
107642 ATTATTATTATTATTATTAA
1 ATTATTATTATTATTATTAA
107662 AT
1 AT
107664 GAAAGTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTATTATTATTATTATTAA
Found at i:108012 original size:22 final size:22
Alignment explanation
Indices: 107987--108029 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
107977 GATTTAATTT
*
107987 AAATTATTATTATAATTTTATA
1 AAATTATTATTAAAATTTTATA
*
108009 AAATTTTTATTAAAATTTTAT
1 AAATTATTATTAAAATTTTAT
108030 TATAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATTATTATTAAAATTTTATA
Found at i:108022 original size:12 final size:11
Alignment explanation
Indices: 107987--108031 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
107977 GATTTAATTT
107987 AAATTATTATTA
1 AAATT-TTATTA
*
107999 TAATTTTA-TA
1 AAATTTTATTA
108009 AAATTTTTATTA
1 AAA-TTTTATTA
108021 AAATTTTATTA
1 AAATTTTATTA
108032 TAAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 4 0.14
11 16 0.55
12 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AAATTTTATTA
Found at i:108061 original size:19 final size:20
Alignment explanation
Indices: 108031--108072 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
108021 AAATTTTATT
108031 ATAAAAATATAAAAAATTTA
1 ATAAAAATATAAAAAATTTA
*
108051 ATAAAAA-ATAAAATATTTA
1 ATAAAAATATAAAAAATTTA
108070 ATA
1 ATA
108073 TATTAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAAATATAAAAAATTTA
Found at i:110293 original size:19 final size:18
Alignment explanation
Indices: 110247--110363 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 18
110237 TTTCAACAAT
110247 TTGTATCGATACA-AATAG
1 TTGTATCGATACATAAT-G
110265 TAACTGTATCGATACATAACTG
1 T---TGTATCGATACATAA-TG
*
110287 TTGTATCAATAC--AA--
1 TTGTATCGATACATAATG
110301 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAA-TG
110319 TTGTATCGATAC--AA--
1 TTGTATCGATACATAATG
*
110333 -TATATCGATACATAAGTG
1 TTGTATCGATACATAA-TG
110351 TTGTATCGATACA
1 TTGTATCGATACA
110364 ATGTATCGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 33
0.68 0.03 0.29
Matches are distributed among these distances:
13 20 0.26
15 4 0.05
17 4 0.05
18 1 0.01
19 32 0.41
21 12 0.15
22 4 0.05
23 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (18 bp):
TTGTATCGATACATAATG
Found at i:110310 original size:32 final size:32
Alignment explanation
Indices: 110269--110376 Score: 180
Period size: 32 Copynumber: 3.4 Consensus size: 32
110259 AAATAGTAAC
* *
110269 TGTATCGATACATAACTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
110301 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
110333 TATATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
110365 TGTATCGCTACA
1 TGTATCGATACA
110377 AAGCTACTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:113828 original size:13 final size:13
Alignment explanation
Indices: 113810--113834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113800 CATTATGCTT
113810 TGTATCGATACAA
1 TGTATCGATACAA
113823 TGTATCGATACA
1 TGTATCGATACA
113835 TGTTAATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:113864 original size:20 final size:19
Alignment explanation
Indices: 113819--113876 Score: 82
Period size: 20 Copynumber: 3.1 Consensus size: 19
113809 TTGTATCGAT
113819 ACAA-TGTATCGATACATG
1 ACAATTGTATCGATACATG
**
113837 TTAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
113856 CACAATTGTATCGATACATG
1 -ACAATTGTATCGATACATG
113876 A
1 A
113877 AACTGGAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 2 0.06
19 15 0.44
20 17 0.50
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (19 bp):
ACAATTGTATCGATACATG
Found at i:119196 original size:20 final size:21
Alignment explanation
Indices: 119171--119209 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
119161 TTTTTTTAGA
119171 ATGTATCGATACAT-TGAAGC
1 ATGTATCGATACATCTGAAGC
119191 ATGTATCGATACATCTGAA
1 ATGTATCGATACATCTGAA
119210 AAAACCCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (21 bp):
ATGTATCGATACATCTGAAGC
Found at i:119257 original size:13 final size:13
Alignment explanation
Indices: 119239--119263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119229 ACAATATTCT
119239 TTGTATCGATACA
1 TTGTATCGATACA
119252 TTGTATCGATAC
1 TTGTATCGATAC
119264 GTGGGTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:120504 original size:22 final size:21
Alignment explanation
Indices: 120476--120582 Score: 80
Period size: 22 Copynumber: 5.0 Consensus size: 21
120466 TTTTAAACGA
120476 TTATCAAGGGGGAGAAAATTTT
1 TTATCAAGGGGGAG-AAATTTT
120498 TTATCAAGGGGGAGAAA-TTT
1 TTATCAAGGGGGAGAAATTTT
* * *
120518 TTA--AA-TGAGAGCCTTAATTATT
1 TTATCAAGGGGGAG---AAATT-TT
*
120540 TTATTAAGGGGGAGAAAATTTT
1 TTATCAAGGGGGAG-AAATTTT
*
120562 TTATCAA-GAGGAGAAATTTT
1 TTATCAAGGGGGAGAAATTTT
120582 T
1 T
120583 AAATGAACCT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
17 4 0.06
18 2 0.03
20 16 0.24
21 9 0.13
22 27 0.40
23 4 0.06
24 2 0.03
25 4 0.06
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (21 bp):
TTATCAAGGGGGAGAAATTTT
Found at i:121042 original size:21 final size:21
Alignment explanation
Indices: 120976--121042 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
120966 TTTCTATATC
120976 AATCAAATG-TTTTAGAGTTATA
1 AATCAAATGTTTTTA-AG-TATA
*
120998 AA-CAAATGTTTTTGAACCT-TA
1 AATCAAATGTTTTT-AA-GTATA
*
121019 AATCAAATGTTTTTAAGTAAA
1 AATCAAATGTTTTTAAGTATA
121040 AAT
1 AAT
121043 ACTTCAAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
20 1 0.03
21 16 0.43
22 19 0.51
23 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.39
Consensus pattern (21 bp):
AATCAAATGTTTTTAAGTATA
Found at i:122137 original size:20 final size:21
Alignment explanation
Indices: 122112--122164 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
122102 ATCGATAAAT
*
122112 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
122132 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
122153 TGTATCGATACA
1 TGTATCGATACA
122165 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:122242 original size:13 final size:13
Alignment explanation
Indices: 122224--122249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122214 TACACACAAG
122224 ATGTATCGATACA
1 ATGTATCGATACA
122237 ATGTATCGATACA
1 ATGTATCGATACA
122250 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:122266 original size:33 final size:32
Alignment explanation
Indices: 122206--122269 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
122196 CTTAACTGTT
*
122206 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
122238 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
122270 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:128196 original size:8 final size:8
Alignment explanation
Indices: 128183--128213 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
128173 ATTTGATTAA
128183 ATTTTGTG
1 ATTTTGTG
128191 ATTTTGTG
1 ATTTTGTG
128199 ATTTTGTG
1 ATTTTGTG
128207 ATGTTTG
1 AT-TTTG
128214 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:128862 original size:20 final size:21
Alignment explanation
Indices: 128837--128880 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
128827 GCAGCACTCA
**
128837 CCAGGTCGTGACCGGCA-CCC
1 CCAGGTCGCAACCGGCAGCCC
128857 CCAGGTCGCAACCGGCAGCCC
1 CCAGGTCGCAACCGGCAGCCC
128878 CCA
1 CCA
128881 CACTAGCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.18, C:0.48, G:0.27, T:0.07
Consensus pattern (21 bp):
CCAGGTCGCAACCGGCAGCCC
Found at i:130813 original size:13 final size:13
Alignment explanation
Indices: 130795--130819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
130785 AGAATGCACA
130795 GTATCGATACATT
1 GTATCGATACATT
130808 GTATCGATACAT
1 GTATCGATACAT
130820 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:130832 original size:20 final size:21
Alignment explanation
Indices: 130807--130859 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
130797 ATCGATACAT
*
130807 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
130827 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
130848 TGTATCGATACA
1 TGTATCGATACA
130860 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:130937 original size:13 final size:13
Alignment explanation
Indices: 130919--130944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
130909 TACACACAAG
130919 ATGTATCGATACA
1 ATGTATCGATACA
130932 ATGTATCGATACA
1 ATGTATCGATACA
130945 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:130961 original size:33 final size:32
Alignment explanation
Indices: 130901--130964 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
130891 CTTAACTGTT
*
130901 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
130933 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
130965 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:131031 original size:20 final size:20
Alignment explanation
Indices: 131006--131059 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
130996 TTCAAACGCA
131006 TGTATCGATACATTCCAAAT
1 TGTATCGATACATTCCAAAT
131026 TGTATCGATACATTCCAAAT
1 TGTATCGATACATTCCAAAT
131046 TGTATCGATACATT
1 TGTATCGATACATT
131060 TACACGGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTCCAAAT
Found at i:133546 original size:55 final size:55
Alignment explanation
Indices: 133333--133711 Score: 487
Period size: 55 Copynumber: 6.7 Consensus size: 55
133323 GCCTTTTTCT
* *
133333 TTTCAAAGCCCACACGAGTTGGTGGCACCTTT--AGTCCTCAAAGAGCAGGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCC
*
133387 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGATGCCTTT
1 -TTT-C----AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA---C---
*
133451 TCC
53 GCC
* * *
133454 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAAAGCAGGACGTC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCC
* *
133509 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTGAAAGAGCAGGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC
*
133564 TTTGAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC
133619 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC
* *
133674 TTTTAAAGCCAACACAAGTTGGTGGCATTTTCCAGTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
133712 CCTGTCAAAG
Statistics
Matches: 295, Mismatches: 16, Indels: 26
0.88 0.05 0.08
Matches are distributed among these distances:
54 3 0.01
55 192 0.65
56 1 0.00
58 1 0.00
60 27 0.09
61 64 0.22
64 1 0.00
65 1 0.00
66 3 0.01
67 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC
Found at i:133898 original size:60 final size:61
Alignment explanation
Indices: 133716--133898 Score: 221
Period size: 61 Copynumber: 3.0 Consensus size: 61
133706 CAGTCCCCTG
* ** * * * * *
133716 TCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGAAGGATGCTTTTTCTTT
1 TCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTCTCTCCTT
*
133777 TCAAAGCCCACACAAGTTGGTGGGACCTT-CAGTCCTCAAAGAGCAGGACGC-CTTCTCCCTT
1 TCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTC-TCT-CCTT
*
133838 T-AAAGCCCACACAAGTTGATGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTT
1 TCAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGACGCTCTCTCCTT
133898 T
1 T
133899 TGCCTTTTTG
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
59 3 0.03
60 49 0.46
61 53 0.50
62 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (61 bp):
TCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTCTCTCCTT
Found at i:133973 original size:154 final size:154
Alignment explanation
Indices: 133773--134193 Score: 673
Period size: 154 Copynumber: 2.7 Consensus size: 154
133763 GATGCTTTTT
* * *
133773 CTTTTCAAAGCCCACACAAGTTGGTGGGACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCCTT
1 CTTTT-AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
* * *
133838 TAAAGCCCACACAAGTTGATGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTTGCC
65 TAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCGCC
* *
133903 TTTTTGTCCTCAAAGAGTAGGATGC
130 TTTTTGTCCTCAAAAAGCAGGATGC
* * * * *
133928 CTTTTAAAGCCCATATAAGCTGGTGGCACATTCAGTCCTCAAAGAGCAAGACGCCTTCTACTTTT
1 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
133993 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCGCCT
66 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCGCCT
134058 TTTTGTCCTCAAAAAGCAGGATGC
131 TTTTGTCCTCAAAAAGCAGGATGC
* *
134082 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
1 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
*
134147 AAAGCCCACACAAGTTGGTGGCACTT-TTCAGTCCTCAAAGAGCAGGA
66 AAAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAGAGCAGGA
134194 TGCTTTTTTT
Statistics
Matches: 244, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
153 1 0.00
154 238 0.98
155 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (154 bp):
CTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCGCCT
TTTTGTCCTCAAAAAGCAGGATGC
Found at i:134200 original size:60 final size:61
Alignment explanation
Indices: 134082--134314 Score: 314
Period size: 60 Copynumber: 3.9 Consensus size: 61
134072 AGCAGGATGC
* *
134082 CTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
134141 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-CTTTT
1 -CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * *
134201 TTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAGGACGCCTTTT
1 CTTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
** * *
134263 -TTTTCAAAGCCCACATGAGTTGTTGGCACTTTTCAGTCCTCAAAGAGTAGGA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
134315 CACACTTCCT
Statistics
Matches: 155, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
59 4 0.03
60 74 0.48
61 72 0.46
62 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (61 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:134272 original size:121 final size:120
Alignment explanation
Indices: 134087--134314 Score: 359
Period size: 121 Copynumber: 1.9 Consensus size: 120
134077 GATGCCTTTT
*
134087 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGC
134152 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTTGC
65 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTTGC
* *
134208 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAGGACGCCTTTT-TTTTCAAAG
1 AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAG
** * *
134272 CCCACATGAGTTGTTGGCACTTTTCAGTCCTCAAAGAGTAGGA
64 CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
134315 CACACTTCCT
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
120 4 0.04
121 69 0.70
122 25 0.26
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (120 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCC
CACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTTGC
Found at i:134315 original size:60 final size:60
Alignment explanation
Indices: 134083--134315 Score: 310
Period size: 61 Copynumber: 3.9 Consensus size: 60
134073 GCAGGATGCC
* * *
134083 TTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
134141 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTTT
1 --TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
134202 TTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAGGACGCCTTTT
1 TTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
** * *
134263 TTTTCAAAGCCCACATGAGTTGTTGGCACTTTTCAGTCCTCAAAGAGTAGGAC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAC
134316 ACACTTCCTT
Statistics
Matches: 155, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
59 4 0.03
60 69 0.45
61 82 0.53
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (60 bp):
TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:134360 original size:45 final size:42
Alignment explanation
Indices: 134299--134402 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
134289 CACTTTTCAG
* *
134299 TCCTCAAAGAGTAGGACACACTTCCTTCCCTTCTTTTCTCTTTTA
1 TCCTCAAAGAGCAGGACACACTTCATT---TTCTTTTCTCTTTTA
* * *
134344 TCCTCAAAGAGCAGGACGCACTTTATTTTCTTTTTTCTTTTA
1 TCCTCAAAGAGCAGGACACACTTCATTTTCTTTTCTCTTTTA
*
134386 TCCTCAGAGAGCAGGAC
1 TCCTCAAAGAGCAGGAC
134403 GTATTTCGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.57
45 23 0.43
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (42 bp):
TCCTCAAAGAGCAGGACACACTTCATTTTCTTTTCTCTTTTA
Found at i:134426 original size:42 final size:42
Alignment explanation
Indices: 134299--134435 Score: 123
Period size: 42 Copynumber: 3.2 Consensus size: 42
134289 CACTTTTCAG
* * ** *
134299 TCCTCAAAGAGTAGGACACACTTCCTTCCCTTCTTTTCTCTTTTA
1 TCCTCAAAGAGCAGGACGCACTTTATTTCC--CTTTTC-CTTTTA
* * *
134344 TCCTCAAAGAGCAGGACGCACTTTATTTTCTTTTTTCTTTTA
1 TCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTCCTTTTA
* * * *
134386 TCCTCAGAGAGCAGGACGTA-TTTCGTTTCCCTTTTCCTTTTG
1 TCCTCAAAGAGCAGGACGCACTTT-ATTTCCCTTTTCCTTTTA
134428 TCCTCAAA
1 TCCTCAAA
134436 AAATGGGACG
Statistics
Matches: 75, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.04
42 44 0.59
43 4 0.05
45 24 0.32
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (42 bp):
TCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTCCTTTTA
Found at i:135307 original size:20 final size:20
Alignment explanation
Indices: 135284--135436 Score: 90
Period size: 20 Copynumber: 7.7 Consensus size: 20
135274 GCCAAGGAAA
*
135284 TGTATCGATACATTATTCAA
1 TGTATCGATACATTATTCAT
135304 TGTATCG----A-TA--CAT
1 TGTATCGATACATTATTCAT
*
135317 TGTATCAATACATT-TTGCAT
1 TGTATCGATACATTATT-CAT
* * **
135337 TATATTGATACATTGCTCAT
1 TGTATCGATACATTATTCAT
135357 TGTATCGATACATTGTATCGATACAT
1 TGTATCGATACA-T-TAT---T-CAT
**
135383 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTATTCAT
*
135403 TGTATCGATACATT-TTACAA
1 TGTATCGATACATTATT-CAT
135423 TGTATCGATACATT
1 TGTATCGATACATT
135437 CAGGCATTTT
Statistics
Matches: 103, Mismatches: 14, Indels: 32
0.69 0.09 0.21
Matches are distributed among these distances:
13 8 0.08
15 2 0.02
16 1 0.01
17 1 0.01
18 1 0.01
19 1 0.01
20 67 0.65
21 3 0.03
22 1 0.01
24 1 0.01
25 2 0.02
26 15 0.15
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTATTCAT
Found at i:135328 original size:33 final size:33
Alignment explanation
Indices: 135284--135416 Score: 117
Period size: 33 Copynumber: 4.0 Consensus size: 33
135274 GCCAAGGAAA
* *
135284 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCAATACATTATTCATTGTATCGATACAT
* *
135317 TGTATCAATACATT-TTGCATTATATTGATACAT
1 TGTATCAATACATTATT-CATTGTATCGATACAT
* * ** * *
135350 TG-CTCATTGTATCGATACATTGTATCGATACAT
1 TGTATCAATACAT-TATTCATTGTATCGATACAT
* **
135383 TGTATCGATACATTGCTCATTGTATCGATACAT
1 TGTATCAATACATTATTCATTGTATCGATACAT
135416 T
1 T
135417 TTACAATGTA
Statistics
Matches: 75, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
32 8 0.11
33 61 0.81
34 6 0.08
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TGTATCAATACATTATTCATTGTATCGATACAT
Found at i:135384 original size:66 final size:66
Alignment explanation
Indices: 135304--135436 Score: 180
Period size: 66 Copynumber: 2.0 Consensus size: 66
135294 CATTATTCAA
* * *
135304 TGTATCGATACATTGTATCAATACATT-TTGCATTATATTGATACATTGCT-CATTGTATCGATA
1 TGTATCGATACATTGTATCAATACATTGCT-CATTATATCGATACATT-CTACAATGTATCGATA
135367 CAT
64 CAT
* * *
135370 TGTATCGATACATTGTATCGATACATTGCTCATTGTATCGATACATTTTACAATGTATCGATACA
1 TGTATCGATACATTGTATCAATACATTGCTCATTATATCGATACATTCTACAATGTATCGATACA
135435 T
66 T
135436 T
1 T
135437 CAGGCATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
65 1 0.02
66 57 0.97
67 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (66 bp):
TGTATCGATACATTGTATCAATACATTGCTCATTATATCGATACATTCTACAATGTATCGATACA
T
Found at i:135416 original size:13 final size:13
Alignment explanation
Indices: 135354--135397 Score: 88
Period size: 13 Copynumber: 3.4 Consensus size: 13
135344 ATACATTGCT
135354 CATTGTATCGATA
1 CATTGTATCGATA
135367 CATTGTATCGATA
1 CATTGTATCGATA
135380 CATTGTATCGATA
1 CATTGTATCGATA
135393 CATTG
1 CATTG
135398 CTCATTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:137389 original size:7 final size:7
Alignment explanation
Indices: 137352--137386 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
137342 TTATATTATA
137352 TGGCACT
1 TGGCACT
137359 TGGCACT
1 TGGCACT
137366 TGGCACT
1 TGGCACT
*
137373 TGGACACG
1 TGG-CACT
137381 TGGCAC
1 TGGCAC
137387 GTGCAGGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (7 bp):
TGGCACT
Found at i:143979 original size:51 final size:50
Alignment explanation
Indices: 143924--144169 Score: 280
Period size: 51 Copynumber: 4.8 Consensus size: 50
143914 TCCCGGTTTC
** *
143924 ATTTCCAAAACA-TCAATTTCTCTTAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACACT-AATTT-TCACAATCGAGGATACTCCAACTCCGATTTT
* * * *
143975 ATTTCTAAAATACCT-ATTTTCCATAATCGAGGATATTCCAACTCCGATTTT
1 ATTTCCAAAACA-CTAATTTT-CACAATCGAGGATACTCCAACTCCGATTTT
*
144026 ATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACTCCGATTGT
1 ATTTCCAAAACACTAA-TTTTCACAATCGAGGATACTCCAACTCCGATTTT
* **
144077 ATTTTCAAAACACTAATTTTTCACAATCGAGGATACTCCAACTTTGATTTT
1 ATTTCCAAAACACTAA-TTTTCACAATCGAGGATACTCCAACTCCGATTTT
* * * *
144128 ATTTCCAAAATATCGACTTTTCACAATCGGGGATACTCCAAC
1 ATTTCCAAAACA-CTAATTTTCACAATCGAGGATACTCCAAC
144170 CCCGTTATTT
Statistics
Matches: 170, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
50 3 0.02
51 160 0.94
52 6 0.04
53 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (50 bp):
ATTTCCAAAACACTAATTTTCACAATCGAGGATACTCCAACTCCGATTTT
Found at i:144282 original size:51 final size:51
Alignment explanation
Indices: 144222--144348 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 51
144212 AAAACACCAA
* *
144222 TTCTCCACAATCGGGGATACTCCAACCCTGACTTTATTT-TCAAAATATTGAT
1 TTCT-CACAATCGGGGATACTCCAACCCCGACCTTATTTCT-AAAATATTGAT
* *
144274 TTCTCACAATCAGGGATACTTCAACCCCGACCTTATTTCTAAAATATTGAT
1 TTCTCACAATCGGGGATACTCCAACCCCGACCTTATTTCTAAAATATTGAT
* * *
144325 TTCTCATAATTGGGGATGCTCCAA
1 TTCTCACAATCGGGGATACTCCAA
144349 TCCCATTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 60 0.92
52 5 0.08
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
TTCTCACAATCGGGGATACTCCAACCCCGACCTTATTTCTAAAATATTGAT
Found at i:144290 original size:129 final size:129
Alignment explanation
Indices: 144055--144302 Score: 345
Period size: 129 Copynumber: 1.9 Consensus size: 129
144045 TTCACAATCG
* * * * *
144055 AGGATACTCCAACTCCGATTGTATTTTCAAAACACTAATTTTTCACAATCGAGGATACTCCAACT
1 AGGACACTCCAACTCCGATTGTATTTTCAAAACACCAATTCTCCACAATCGAGGATACTCCAACC
* * *
144120 TTGATTTTATTTCCAAAATATCGACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGA
66 CTGACTTTATTTCCAAAATATCGACTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCGA
* * * *
144184 AGGACACTCCAACTCCGGTTTTATTTTTAAAACACCAATTCTCCACAATCGGGGATACTCCAACC
1 AGGACACTCCAACTCCGATTGTATTTTCAAAACACCAATTCTCCACAATCGAGGATACTCCAACC
* * *
144249 CTGACTTTATTTTCAAAATATTGA-TTTCTCACAATCAGGGATACTTCAACCCCG
66 CTGACTTTATTTCCAAAATATCGACTTT-TCACAATCAGGGATACTCCAACCCCG
144303 ACCTTATTTC
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 3 0.03
129 100 0.97
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (129 bp):
AGGACACTCCAACTCCGATTGTATTTTCAAAACACCAATTCTCCACAATCGAGGATACTCCAACC
CTGACTTTATTTCCAAAATATCGACTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCGA
Found at i:144320 original size:180 final size:179
Alignment explanation
Indices: 144002--144525 Score: 513
Period size: 180 Copynumber: 2.9 Consensus size: 179
143992 TTTCCATAAT
* * ** * * *
144002 CGAGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAA
1 CGAGGACACTCCAACTCCGATTTTATTTTTAAAACACCAATTTTCCACAATCGGGGATACTCCAA
* * * ***
144067 CTCC-GA-TTGTATTTTCAAAACACTAATTTTTCACAATCGAGGATACTCCAACTTTGATTTTAT
66 C-CCTGACTT-TATTTTCAAAATATTGATTTTTCACAATCG-GGATACTCCAACCCCGATTTTAT
* * *
144130 TTCCAAAATATCGACTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTC-
128 TTCTAAAATATCGA-TTTTCATAATCGGGGATACTCCAACCCCATTATTTTCA
* *
144181 CGAAGGACACTCCAACTCCGGTTTTATTTTTAAAACACCAATTCTCCACAATCGGGGATACTCCA
1 CG-AGGACACTCCAACTCCGATTTTATTTTTAAAACACCAATTTTCCACAATCGGGGATACTCCA
* * **
144246 ACCCTGACTTTATTTTCAAAATATTGATTTCTCACAATCAGGGATACTTCAACCCCGACCTTATT
65 ACCCTGACTTTATTTTCAAAATATTGATTTTTCACAATC-GGGATACTCCAACCCCGATTTTATT
* * * *
144311 TCTAAAATATTGATTTCTCATAATTGGGGATGCTCCAATCCCATTATTTTCA
129 TCTAAAATATCGATTT-TCATAATCGGGGATACTCCAACCCCATTATTTTCA
* * * * * * * * *
144363 CGAGGATACTCCAA-TCTCAATTTTATTTTTGAAACATCTATTTTCTATAATCGGGGACACTTCA
1 CGAGGACACTCCAACTC-CGATTTTATTTTTAAAACACCAATTTTCCACAATCGGGGATACTCCA
* * *
144427 ACCCTTG-CCTTA-TTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAACCCCGATTTTA
65 ACCC-TGACTTTATTTTCAAAAT-ATTGATTTTTCACAATC-GGGATACTCCAACCCCGATTTTA
* * * *
144490 CTTCTAAAACACCGATTTTCCATAATCAGGGATACT
127 TTTCTAAAATATCGATTTT-CATAATCGGGGATACT
144526 TTAGCCCCGT
Statistics
Matches: 282, Mismatches: 52, Indels: 20
0.80 0.15 0.06
Matches are distributed among these distances:
179 7 0.02
180 146 0.52
181 125 0.44
182 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (179 bp):
CGAGGACACTCCAACTCCGATTTTATTTTTAAAACACCAATTTTCCACAATCGGGGATACTCCAA
CCCTGACTTTATTTTCAAAATATTGATTTTTCACAATCGGGATACTCCAACCCCGATTTTATTTC
TAAAATATCGATTTTCATAATCGGGGATACTCCAACCCCATTATTTTCA
Found at i:147662 original size:3 final size:3
Alignment explanation
Indices: 147654--147681 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
147644 TATGTATTAT
147654 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
147682 ATCTAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:148198 original size:39 final size:37
Alignment explanation
Indices: 148155--148231 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 37
148145 TATCACTATT
*
148155 ATTTATAAAAAA-TTAATAAAATTATTTATAAAAAAATTA
1 ATTTATAAAAAAGTTAACAAAA--ATTTAT-AAAAAATTA
*
148194 ATTTATAAAAAAGTTAACAAAAGTTTATAAAAAATTA
1 ATTTATAAAAAAGTTAACAAAAATTTATAAAAAATTA
148231 A
1 A
148232 AAATTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 10 0.29
38 5 0.14
39 12 0.34
40 8 0.23
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (37 bp):
ATTTATAAAAAAGTTAACAAAAATTTATAAAAAATTA
Found at i:148199 original size:16 final size:16
Alignment explanation
Indices: 148172--148210 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
148162 AAAAATTAAT
148172 AAAATT-ATTTATAAA
1 AAAATTAATTTATAAA
148187 AAAATTAATTTATAAA
1 AAAATTAATTTATAAA
*
148203 AAAGTTAA
1 AAAATTAA
148211 CAAAAGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AAAATTAATTTATAAA
Found at i:154237 original size:15 final size:15
Alignment explanation
Indices: 154217--154248 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
154207 GGATTGAATC
154217 TATGATTTAATTAAA
1 TATGATTTAATTAAA
154232 TATGATTTAATTAAA
1 TATGATTTAATTAAA
154247 TA
1 TA
154249 AAAGGTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TATGATTTAATTAAA
Found at i:156629 original size:97 final size:97
Alignment explanation
Indices: 156522--156718 Score: 349
Period size: 97 Copynumber: 2.0 Consensus size: 97
156512 CCTCTTGAAT
* * *
156522 AATGGGGTTGGAGTATCCACGATGATGATAATTTAAGCAAGAAGAAGATTTACACTTTGATGAGT
1 AATGGGGTTGGAGTATCCACGATGATGACAATTTAAGCAAGAAGAAAATTTAAACTTTGATGAGT
*
156587 TTAAAAGTGGGGTTGGAGTATCCCCTCGGAGG
66 TTAAAAGCGGGGTTGGAGTATCCCCTCGGAGG
*
156619 AATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGCAAGAAGAAAATTTAAACTTTGATGAGT
1 AATGGGGTTGGAGTATCCACGATGATGACAATTTAAGCAAGAAGAAAATTTAAACTTTGATGAGT
156684 TTAAAAGCGGGGTTGGAGTATCCCCTCGGAGG
66 TTAAAAGCGGGGTTGGAGTATCCCCTCGGAGG
156716 AAT
1 AAT
156719 AAGGTTGAGG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (97 bp):
AATGGGGTTGGAGTATCCACGATGATGACAATTTAAGCAAGAAGAAAATTTAAACTTTGATGAGT
TTAAAAGCGGGGTTGGAGTATCCCCTCGGAGG
Found at i:156749 original size:97 final size:97
Alignment explanation
Indices: 156527--156749 Score: 324
Period size: 97 Copynumber: 2.3 Consensus size: 97
156517 TGAATAATGG
* * * * *
156527 GGTTGGAGTATCCACGATGATGATAATTTAAGCAAGAAGAAGATTTACACTTTGATGAGTTTAAA
1 GGTTGGAGTATCCCCGATAATGAAAATTTAAGCAAGAAGAAAATTTAAACTTTGATGAGTTTAAA
* **
156592 AGTGGGGTTGGAGTATCCCCTCGGAGGAATGG
66 AGCGGGGTTGGAGTATCCCCTCGGAGGAATAA
* *
156624 GGTTGGAGTATCCCCGATGATGACAATTTAAGCAAGAAGAAAATTTAAACTTTGATGAGTTTAAA
1 GGTTGGAGTATCCCCGATAATGAAAATTTAAGCAAGAAGAAAATTTAAACTTTGATGAGTTTAAA
156689 AGCGGGGTTGGAGTATCCCCTCGGAGGAATAA
66 AGCGGGGTTGGAGTATCCCCTCGGAGGAATAA
156721 GGTT-GAGGTATCCCCGATAAAT-AAAATTT
1 GGTTGGA-GTATCCCCGAT-AATGAAAATTT
156750 TTGATATTTT
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 2 0.02
97 111 0.97
98 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (97 bp):
GGTTGGAGTATCCCCGATAATGAAAATTTAAGCAAGAAGAAAATTTAAACTTTGATGAGTTTAAA
AGCGGGGTTGGAGTATCCCCTCGGAGGAATAA
Found at i:158967 original size:20 final size:20
Alignment explanation
Indices: 158942--158992 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
158932 AGACAGAATG
* *
158942 TATCGATACATTCATACATA
1 TATCGATACATTCAAAAATA
* *
158962 TATCGATATATTGAAAAATA
1 TATCGATACATTCAAAAATA
*
158982 TATCAATACAT
1 TATCGATACAT
158993 CTGGATAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (20 bp):
TATCGATACATTCAAAAATA
Found at i:159032 original size:20 final size:20
Alignment explanation
Indices: 159007--159083 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
158997 ATAAAAAAAC
* *
159007 AGAATGTATCGATAAATTGA
1 AGAATGTATCGATACATTAA
*
159027 AGAATGTATCGATACATTCAT
1 AGAATGTATCGATACATT-AA
*
159048 A-CATGTATCGATACATTAA
1 AGAATGTATCGATACATTAA
*
159067 ACAATGTATCGATACAT
1 AGAATGTATCGATACAT
159084 CTGGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.04
20 46 0.94
21 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:159062 original size:71 final size:71
Alignment explanation
Indices: 158888--159063 Score: 205
Period size: 71 Copynumber: 2.5 Consensus size: 71
158878 TTTTAACTAG
* * *
158888 ATGTATCGATACATTGAATAC-TGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACA
1 ATGTATCGATACATT-AATACATGTATCGATACATCTGGATAAAAAAACAGAATGTATCGATAAA
*
158952 TTCATAC
65 TTCATAA
* * * * *
158959 ATATATCGATATATTGAA-AAATATATCAATACATCTGGATAAAAAAACAGAATGTATCGATAAA
1 ATGTATCGATACATT-AATACATGTATCGATACATCTGGATAAAAAAACAGAATGTATCGATAAA
*
159023 TTGA-AGA
65 TTCATA-A
*
159030 ATGTATCGATACATTCATACATGTATCGATACAT
1 ATGTATCGATACATTAATACATGTATCGATACAT
159064 TAAACAATGT
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
70 3 0.03
71 83 0.97
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (71 bp):
ATGTATCGATACATTAATACATGTATCGATACATCTGGATAAAAAAACAGAATGTATCGATAAAT
TCATAA
Found at i:162614 original size:61 final size:61
Alignment explanation
Indices: 162513--162632 Score: 177
Period size: 61 Copynumber: 2.0 Consensus size: 61
162503 TTTAAGGTAG
162513 GATAAAAGATATATTTCAATTTAATCCACCCATAAACACTTTTAAGTGTTTTGAATCTTAA
1 GATAAAAGATATATTTCAATTTAATCCACCCATAAACACTTTTAAGTGTTTTGAATCTTAA
* * * * * * *
162574 GATAAAGGATATATTTCAATTTAATTCACCTATAAGCACTTTTCATTGTTTTGGATCTT
1 GATAAAAGATATATTTCAATTTAATCCACCCATAAACACTTTTAAGTGTTTTGAATCTT
162633 CTGAAGAGCC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (61 bp):
GATAAAAGATATATTTCAATTTAATCCACCCATAAACACTTTTAAGTGTTTTGAATCTTAA
Found at i:162762 original size:20 final size:20
Alignment explanation
Indices: 162734--162775 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
162724 CTTTTTTTTC
162734 TTTTTTTTTTCA-TTATTAT
1 TTTTTTTTTTCAGTTATTAT
*
162753 TTTTTCTTTTTCAGTTTTTAT
1 TTTTT-TTTTTCAGTTATTAT
162774 TT
1 TT
162776 GATAATCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
21 8 0.40
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTTTTTCAGTTATTAT
Found at i:169710 original size:28 final size:28
Alignment explanation
Indices: 169659--169713 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
169649 AGATAACAAC
*
169659 GGGGCTGGAGTATCCCCTTAGAAATAAT
1 GGGGCTGGAGTATCCCCTGAGAAATAAT
*
169687 GGGGTTGGAGTAT-CCCTGATGAAATAA
1 GGGGCTGGAGTATCCCCTGA-GAAATAA
169714 CAGGGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (28 bp):
GGGGCTGGAGTATCCCCTGAGAAATAAT
Found at i:169719 original size:28 final size:28
Alignment explanation
Indices: 169664--169720 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
169654 ACAACGGGGC
* **
169664 TGGAGTATCCCCTTAGAAATAATGGGGT
1 TGGAGTATCCCCTGAGAAATAACAGGGT
169692 TGGAGTAT-CCCTGATGAAATAACAGGGT
1 TGGAGTATCCCCTGA-GAAATAACAGGGT
169720 T
1 T
169721 TGAGCACCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (28 bp):
TGGAGTATCCCCTGAGAAATAACAGGGT
Found at i:169833 original size:51 final size:51
Alignment explanation
Indices: 169728--169833 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 51
169718 GTTTGAGCAC
* *
169728 CCCCGATTGTGAAAAATTAATGTTTTGAAAATAAAATCGGAGTTAGAATTT
1 CCCCGATTATGAAAAATTAATGTTTTGAAAATAAAATCGGAGTTAGAATAT
* * * * *
169779 CCCCGATTATGGAAAATTGATGTTTT-AGAAATAAAATCGGGGTTGGAGTAT
1 CCCCGATTATGAAAAATTAATGTTTTGA-AAATAAAATCGGAGTTAGAATAT
169830 CCCC
1 CCCC
169834 TTGGAAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.02
51 46 0.98
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (51 bp):
CCCCGATTATGAAAAATTAATGTTTTGAAAATAAAATCGGAGTTAGAATAT
Found at i:170068 original size:157 final size:157
Alignment explanation
Indices: 169780--170068 Score: 388
Period size: 157 Copynumber: 1.8 Consensus size: 157
169770 TTAGAATTTC
* * *
169780 CCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGGAAATAAC
1 CCCGATTATGGAAAATCGATGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAAC
*
169845 CGAGTTAGAGTATCCCCGATTAGAGAAAATTGGTGTTTTGAAAATAAAATCAGGCTTGGAGTATC
66 CGAGTTAGAGTATCCCCGATTAGAGAAAATTGGTGTTTTGAAAATAAAATCAGGCTTGGAGCATC
169910 CCCTCGAAAGTAATAGGGTTAGAGTAT
131 CCCTCGAAAGTAATAGGGTTAGAGTAT
* ** *
169937 CCCGATTGTGGAAAATCGATGCTTTAGAAAT-AAGGCTGGGGTTGGAGTGT-CCCTGTGAAAATA
1 CCCGATTATGGAAAATCGATGCTTTAGAAATAAAATC-GGGGTTGGAGTATCCCCT-TGAAAATA
* * * * * *
170000 ACGGGGTTAGAGTATCCCTGATT-GTGAGAAATTGGTGTTTTGGAAATAAAATC-GGAGTTGGAG
64 ACCGAGTTAGAGTATCCCCGATTAGAGA-AAATTGGTGTTTTGAAAATAAAATCAGG-CTTGGAG
170063 CATCCC
127 CATCCC
170069 TAATTGTGAA
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
156 12 0.11
157 102 0.89
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (157 bp):
CCCGATTATGGAAAATCGATGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAAC
CGAGTTAGAGTATCCCCGATTAGAGAAAATTGGTGTTTTGAAAATAAAATCAGGCTTGGAGCATC
CCCTCGAAAGTAATAGGGTTAGAGTAT
Found at i:170069 original size:79 final size:80
Alignment explanation
Indices: 169780--170068 Score: 283
Period size: 79 Copynumber: 3.7 Consensus size: 80
169770 TTAGAATTTC
* *
169780 CCCGATTATG-GAAAATTGATGTTTTAGAAATAAAATC-GGGGTTGGAGTATCCCCTTGGAAATA
1 CCCGATTGTGAGAAAATTGATGTTTTAGAAATAAAATCAGGGGTTGGAGTATCCCCTTGAAAATA
* *
169843 ACCGAGTTAGAGTAT
66 ACAGGGTTAGAGTAT
* * * * *
169858 CCCCGATT-AGAGAAAATTGGTGTTTT-GAAAATAAAATCA-GGCTTGGAGTATCCCCTCGAAAG
1 -CCCGATTGTGAGAAAATTGATGTTTTAG-AAATAAAATCAGGGGTTGGAGTATCCCCTTGAAAA
*
169920 TAATAGGGTTAGAGTAT
64 TAACAGGGTTAGAGTAT
* * ** * *
169937 CCCGATTGTG-GAAAATCGATGCTTTAGAAAT-AAGGCTGGGGTTGGAGTGT-CCCTGTGAAAAT
1 CCCGATTGTGAGAAAATTGATGTTTTAGAAATAAAATCAGGGGTTGGAGTATCCCCT-TGAAAAT
*
169999 AACGGGGTTAGAGTAT
65 AACAGGGTTAGAGTAT
* * * *
170015 CCCTGATTGTGAG-AAATTGGTGTTTTGGAAATAAAATC-GGAGTTGGAGCATCCC
1 CCC-GATTGTGAGAAAATTGATGTTTTAGAAATAAAATCAGGGGTTGGAGTATCCC
170069 TAATTGTGAA
Statistics
Matches: 168, Mismatches: 31, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
77 7 0.04
78 57 0.34
79 98 0.58
80 6 0.04
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (80 bp):
CCCGATTGTGAGAAAATTGATGTTTTAGAAATAAAATCAGGGGTTGGAGTATCCCCTTGAAAATA
ACAGGGTTAGAGTAT
Found at i:170113 original size:51 final size:51
Alignment explanation
Indices: 170013--170119 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
170003 GGGTTAGAGT
* * ** * *
170013 ATCCCTGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGC
1 ATCCCTAATTGTGAAAAATTGGAATTTTAGAAATAAAATCGGAGCTGGAGC
* *
170064 ATCCCTAATTGTGAAAAATTGGAATTTTAGAAATAAAATTGG-GACTGGAGT
1 ATCCCTAATTGTGAAAAATTGGAATTTTAGAAATAAAATCGGAG-CTGGAGC
170115 ATCCC
1 ATCCC
170120 CTCGAAAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.02
51 46 0.98
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (51 bp):
ATCCCTAATTGTGAAAAATTGGAATTTTAGAAATAAAATCGGAGCTGGAGC
Found at i:172655 original size:20 final size:19
Alignment explanation
Indices: 172608--172714 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 19
172598 AAAATGCCTG
* *
172608 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
*
172628 AATTTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
172648 AATGTATCG-----AT-AC
1 AATGTATCGATACAATGAC
*
172661 AATGTATCGATACAATAAGC
1 AATGTATCGATACAATGA-C
*
172681 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AC
172701 AATGTATCGATACA
1 AATGTATCGATACA
172715 TCTGGGTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
13 10 0.14
14 1 0.01
15 2 0.03
18 2 0.03
19 2 0.03
20 54 0.75
21 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:172665 original size:13 final size:13
Alignment explanation
Indices: 172647--172676 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
172637 ATACAATGAG
172647 CAATGTATCGATA
1 CAATGTATCGATA
172660 CAATGTATCGATA
1 CAATGTATCGATA
172673 CAAT
1 CAAT
172677 AAGCAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:172671 original size:53 final size:52
Alignment explanation
Indices: 172608--172714 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 52
172598 AAAATGCCTG
* * *
172608 AATGTATCGATACATTGTAA-AATTTATCGATACAATG-AGCAATGTATCGATAC
1 AATGTATCGATACA--ATAACAATGTATCGATACAATGCA-AAATGTATCGATAC
172661 AATGTATCGATACAATAAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATAA-CAATGTATCGATACAATGCAAAATGTATCGATAC
172714 A
1 A
172715 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
51 3 0.06
53 44 0.92
54 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (52 bp):
AATGTATCGATACAATAACAATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:172674 original size:33 final size:33
Alignment explanation
Indices: 172632--172697 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
172622 TTGTAAAATT
*
172632 TATCGATACAATGAGCAATGTATCGATACAATG
1 TATCGATACAATAAGCAATGTATCGATACAATG
172665 TATCGATACAATAAGCAATGTATCGATACAATG
1 TATCGATACAATAAGCAATGTATCGATACAATG
172698 CAAAATGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (33 bp):
TATCGATACAATAAGCAATGTATCGATACAATG
Found at i:176970 original size:20 final size:20
Alignment explanation
Indices: 176945--177013 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
176935 GTAAAAAGAT
176945 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
176965 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
176985 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
177005 AAAATGTAT
1 AGAATGTAT
177014 GGATGCATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:177898 original size:28 final size:28
Alignment explanation
Indices: 177832--178156 Score: 425
Period size: 28 Copynumber: 11.5 Consensus size: 28
177822 CACCAACTCG
* * *
177832 TGTGGGCTTTGAAAAGAGTTACCACTGGCT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
177862 CGTGAGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
177890 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
177918 TATGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
** *
177948 CATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
177976 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
178004 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
178032 TGTGGGCTTTGAAAGGATACCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
178060 TGTGGGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
178088 TGTGGGCTTTGAAAAGATGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
178116 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
178144 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
178157 GAGATGAACG
Statistics
Matches: 260, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
28 217 0.83
29 12 0.05
30 31 0.12
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:179393 original size:8 final size:7
Alignment explanation
Indices: 179376--179445 Score: 74
Period size: 7 Copynumber: 10.1 Consensus size: 7
179366 GATCCCTTTC
179376 TGTTTTT
1 TGTTTTT
179383 TGTTATTT
1 TGTT-TTT
179391 TGTTTCTT
1 TGTTT-TT
*
179399 GGTTTTT
1 TGTTTTT
179406 TGTTTTT
1 TGTTTTT
179413 T-TTTTT
1 TGTTTTT
179419 TGTTTTT
1 TGTTTTT
*
179426 T-TTGTT
1 TGTTTTT
179432 T-TTTTT
1 TGTTTTT
*
179438 GGTTTTT
1 TGTTTTT
179445 T
1 T
179446 TCTATTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
6 15 0.28
7 25 0.47
8 13 0.25
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.83
Consensus pattern (7 bp):
TGTTTTT
Found at i:179412 original size:1 final size:1
Alignment explanation
Indices: 179401--179466 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
179391 TGTTTCTTGG
* * * ** * * *
179401 TTTTTTGTTTTTTTTTTTTGTTTTTTTTGTTTTTTTTGGTTTTTTTCTATTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
179466 T
1 T
179467 GTATGAAGGA
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:179415 original size:9 final size:9
Alignment explanation
Indices: 179402--179465 Score: 83
Period size: 9 Copynumber: 6.9 Consensus size: 9
179392 GTTTCTTGGT
*
179402 TTTTTGTTTT
1 TTTTT-TTTG
179412 TTTTTTTTG
1 TTTTTTTTG
179421 TTTTTTTTG
1 TTTTTTTTG
179430 TTTTTTTTG
1 TTTTTTTTG
* *
179439 GTTTTTTTC
1 TTTTTTTTG
179448 TATTTTTTTG
1 T-TTTTTTTG
179458 TTTTTTTT
1 TTTTTTTT
179466 TGTATGAAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
9 35 0.73
10 13 0.27
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:179419 original size:28 final size:26
Alignment explanation
Indices: 179376--179466 Score: 89
Period size: 24 Copynumber: 3.4 Consensus size: 26
179366 GATCCCTTTC
179376 TGTTTTTTGTTATTTTGTTTCTTGGTTTTT
1 TGTTTTTT-TT-TTTTGTTTCTT--TTTTT
*
179406 TGTTTTTTTTTTTTGTTT-TTTTTGT
1 TGTTTTTTTTTTTTGTTTCTTTTTTT
**
179431 T-TTTTTTGGTTTT-TTTCTATTTTTT
1 TGTTTTTTTTTTTTGTTTCT-TTTTTT
179456 TGTTTTTTTTT
1 TGTTTTTTTTT
179467 GTATGAAGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 3 0.06
24 11 0.21
25 11 0.21
26 7 0.13
27 2 0.04
28 8 0.15
29 2 0.04
30 8 0.15
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (26 bp):
TGTTTTTTTTTTTTGTTTCTTTTTTT
Found at i:179461 original size:8 final size:8
Alignment explanation
Indices: 179378--179464 Score: 72
Period size: 8 Copynumber: 10.8 Consensus size: 8
179368 TCCCTTTCTG
179378 TTTTTTGT
1 TTTTTTGT
*
179386 TATTTTG-
1 TTTTTTGT
* *
179393 TTTCTTGG
1 TTTTTTGT
179401 TTTTTTGT
1 TTTTTTGT
179409 TTTTTT-T
1 TTTTTTGT
*
179416 TTTTGT-T
1 TTTTTTGT
179423 TTTTTTGTT
1 TTTTTTG-T
179432 TTTTTTGGTT
1 TTTTTT-G-T
*
179442 TTTTTCTAT
1 TTTTT-TGT
179451 TTTTTTGT
1 TTTTTTGT
179459 TTTTTT
1 TTTTTT
179465 TTGTATGAAG
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
7 17 0.26
8 26 0.40
9 13 0.20
10 8 0.12
11 1 0.02
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.84
Consensus pattern (8 bp):
TTTTTTGT
Found at i:192329 original size:22 final size:23
Alignment explanation
Indices: 192293--192339 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
192283 TGGAAAATGT
192293 GATAATCATACAATGA-ACTGATG
1 GATAATCATACAATGAGA-TGATG
*
192316 GATAA-CATTCAATGAGATGATG
1 GATAATCATACAATGAGATGATG
192338 GA
1 GA
192340 CATATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (23 bp):
GATAATCATACAATGAGATGATG
Found at i:193311 original size:20 final size:19
Alignment explanation
Indices: 193288--193357 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 19
193278 AGACAGAATA
*
193288 TATCGATACATTGAAGAATG
1 TATCGATACATTCAA-AATG
*
193308 TATCGATACATTCATACATG
1 TATCGATACATTCA-AAATG
*
193328 TATCGATACATTCATACATG
1 TATCGATACATTCA-AAATG
193348 TATCGATACA
1 TATCGATACA
193358 AATGCATCGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 46 0.98
21 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (19 bp):
TATCGATACATTCAAAATG
Done.