Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_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: 2324158
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:415 original size:23 final size:23
Alignment explanation
Indices: 384--443 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 23
374 ATATGTAAAA
*
384 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
407 ATATAATGTAATA--T--CGTTT
1 ATATAATGTAATAGGTAGCGCTT
426 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
444 TGGTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 17 0.55
21 2 0.06
23 12 0.39
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:476 original size:19 final size:20
Alignment explanation
Indices: 452--492 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
442 AGTGGTTTTA
*
452 TTAT-AAAGTATCTATCCTT
1 TTATAAAAGTATCTATACTT
*
471 TTATAAAAGTGTCTATACTT
1 TTATAAAAGTATCTATACTT
491 TT
1 TT
493 TTCACTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (20 bp):
TTATAAAAGTATCTATACTT
Found at i:871 original size:23 final size:23
Alignment explanation
Indices: 804--871 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
794 AGGTAAAAAT
*
804 ATGTAATAGGTAG-GGCTTATACA
1 ATGTAATAGGTAGTGG-TTATATA
* *
827 ATGTAATATGTA-TCGTTTATATA
1 ATGTAATAGGTAGT-GGTTATATA
850 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGTGGTTATAT
872 TGTAAAGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
23 35 0.95
24 2 0.05
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGTGGTTATATA
Found at i:902 original size:18 final size:18
Alignment explanation
Indices: 875--909 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
865 GTTATATTGT
*
875 AAAGTATCTATCCTTTTA
1 AAAGTATCTATACTTTTA
*
893 AAAGTGTCTATACTTTT
1 AAAGTATCTATACTTTT
910 TTCACTGTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (18 bp):
AAAGTATCTATACTTTTA
Found at i:1248 original size:21 final size:21
Alignment explanation
Indices: 1222--1291 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
1212 TAAAAATATG
1222 ATGTAATAGGTAGCGCTTATA
1 ATGTAATAGGTAGCGCTTATA
* *
1243 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCG-CT-TATA
* *
1266 ATGTAATAGGTAGTGGTTAT-
1 ATGTAATAGGTAGCGCTTATA
1286 ATGTAA
1 ATGTAA
1292 AGTATCTATC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.14
21 17 0.40
22 2 0.05
23 17 0.40
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (21 bp):
ATGTAATAGGTAGCGCTTATA
Found at i:1269 original size:23 final size:22
Alignment explanation
Indices: 1217--1278 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
1207 ATAGGTAAAA
*
1217 ATATGATGTAATAGGTAGCGCT
1 ATATAATGTAATAGGTAGCGCT
* *
1239 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCG-CT
1261 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1279 TGGTTATATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.50
22 1 0.03
23 16 0.47
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGCT
Found at i:1285 original size:23 final size:23
Alignment explanation
Indices: 1217--1287 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
1207 ATAGGTAAAA
* * *
1217 ATATGATGTAATAGGTAG-CGCT
1 ATATAATGTAATAGGTAGTGGTT
*
1239 -TATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GGTT
1261 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGGTT
1284 ATAT
1 ATAT
1288 GTAAAGTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
21 15 0.38
22 1 0.03
23 23 0.57
24 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGGTT
Found at i:1310 original size:44 final size:44
Alignment explanation
Indices: 1217--1310 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 44
1207 ATAGGTAAAA
* * *
1217 ATATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAATGTAATAGCTATCCTTT
* * *
1261 ATATAATGTAATAGGTAGTGGTTAT-ATGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATAATGT-AA-TAGCTATCCTTT
1306 -TATAA
1 ATATAA
1311 AATGTCTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
43 4 0.10
44 29 0.69
45 9 0.21
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (44 bp):
ATATAATGTAATAGGTAGCGCTTATAATGTAATAGCTATCCTTT
Found at i:1425 original size:415 final size:420
Alignment explanation
Indices: 102--2274 Score: 3395
Period size: 414 Copynumber: 5.2 Consensus size: 420
92 TTTAGGTATA
*
102 TATCTTTTGAGTGAGTTTT-AGATA-TAA-TTAGTAATTATAGGCGTCTAATGATTT-CTTTTTA
1 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
163 CGTTACGATATATATTATTATTAAATT-AAAATTCTAAATATTATTTTATAAAATATC-AAACAA
66 CGTTACGATATATATTATTATTAAATTAAAAATTCTAAA-ATTATTTTATAAAATATCAAAACAA
*
226 TCAAATAA-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACT
130 TCAAATAATTTTTTGTGCAAATGAAATTATT--A--AATATTGTAGGTG-AAAACATGAAACA-T
290 A-TTAAAAAAAATTGAAACATAAATTACATAACTTTAAACA-AAGTATCGATCCTTTTTATAAAA
189 ACTT-AAAAAAATTGAAACATAAATTACATAACTTTAAA-AGAAGTATCGATCCTTTTTATAAAA
* *
353 AGTATTGACACTTTCAATATAATATGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT-A
252 AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGC-T-TATAATGTAA
* *
417 -A--TATCGTTTATATAATGTAATAGGTAGTGGTTTTATTATAAAGTATCTATCCTTTTATAAAA
315 TAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATA-TGTAAAGTATCTATCCTTTTATAAAA
479 GTGTCTATACTTTTTTCACTGTGGAAAACATTAA-TTAAGGT
379 GTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGT
520 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
1 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
*
585 CGTTACGATATTTATTA-T-TTAAATTAAAAA-TCTAAATATTATTTTATAAAATATCAAAACAA
66 CGTTACGATATATATTATTATTAAATTAAAAATTCTAAA-ATTATTTTATAAAATATCAAAACAA
647 TCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAACATGAAACAT
130 TCAAATAATTTTTTGTGCAAATGAAATTATT--A--AATATTGTAGGT-G-AAAACATGAAACAT
*
712 ACTTAAAAAAATTGAAACATAAATTACAAAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAG
189 ACTTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAG
*
777 TATGGACAC-TTC-A-AT-ATAGGT-AAAA-AT-ATGTAATAGGTAGGGCTTATACAATGTAATA
254 TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTAT--AATGTAATA
*
835 TGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCC-TTT-TAAAAGT
317 GGTATCGTTTATATAATGTAATAGGTAGTGGTTATA-TGTAAAGTATCTATCCTTTTATAAAAGT
*
898 GTCTATACTTTTTTCACTGTGGAAAACATTAATTTAATGT
381 GTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGT
938 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
1 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
* *
1003 -TTTACGATATATATTATTA-TAAATTAAAAATTCTAAAATTATTTTTTAAAATATCAAAACAAT
66 CGTTACGATATATATTATTATTAAATTAAAAATTCTAAAATTATTTTATAAAATATCAAAACAAT
1066 CAAATAATTTTTTGTGCAAATGAAATTATTAAATATTGTAGGTGAAAACATGAAACATACTTAAA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATATTGTAGGTGAAAACATGAAACATACTTAAA
1131 AAAATTGAAACATAAATTACATAACTTT-AAAGAAGTATCGATCC-TTTTATAAAAAAGTATGGA
196 AAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAT-AAAAAGTATGGA
1194 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGT
260 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGT
1259 TTATATAATGTAATAGGTAGTGGTTATATGTAAAGTATCTATCCTTTTATAAAA-TGTCTATAC-
325 TTATATAATGTAATAGGTAGTGGTTATATGTAAAGTATCTATCCTTTTATAAAAGTGTCTATACT
*
1322 TTTTTCACTGTGAAAAACATTAATTTAAGGT
390 TTTTTCACTGTGGAAAACATTAATTTAAGGT
1353 TATCTTTTGAGTGAGGTTTTAAGATATTAATTTAGTAATTATA-GCGTCTAATGA-TTATTTTTT
1 TATCTTTTGAGTGA-GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
1416 ACGTTACGATATATATTATTATTAAATTAAAAATTCT-AAA-TATTTTATAAAATATC-AAACAA
65 ACGTTACGATATATATTATTATTAAATTAAAAATTCTAAAATTATTTTATAAAATATCAAAACAA
* *
1478 TCAAATAATTTTTTGTGCAAGTGAAATTAAATT-AATATTGTAGGTGGAAACATGAAACATACTT
130 TCAAATAATTTTTTGTGCAAATGAAATT--ATTAAATATTGTAGGTGAAAACATGAAACATACTT
1542 AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCC-TTTTATAAAAA-TATG
193 AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATG
1605 GACACTTTC-ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTA
258 GACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGC-T-TATAATGTAATAGGTA
*
1669 TCGTTTATATAATGTAATAGGTAGTGGTTAT-TATAAAGTATCTATCCTTTTTATAAAAGTGTCT
321 TCGTTTATATAATGTAATAGGTAGTGGTTATATGTAAAGTATCTATCC-TTTTATAAAAGTGTCT
1733 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGG-
385 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGT
*
1768 TATC-TTTGAGTGAGTTTTAAGATATTAA-TTAGTAATTATAGGCGTCTAATGATTTCTTTTTTA
1 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
*
1831 CGTTACG--ATATATTATTATTAAATTAAAAATTCTAATATTA-TTTATAAAATATCAAAAAACA
66 CGTTACGATATATATTATTATTAAATTAAAAATTCTAAAATTATTTTATAAAATATC--AAAACA
*
1893 ATCAAATAA-TTTTTGTGTAAATGAAATTATTAAATTATATGTAGGTGAAAA-ATGAAAACACTA
129 ATCAAATAATTTTTTGTGCAAATGAAATTATTAAA-TAT-TGTAGGTGAAAACATG-AAACA-TA
*
1956 -TTAAAAAAA-TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGT
190 CTTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGT
2019 ATGGACACTTTCAA-ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAA-GTAATAGGT
255 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAATGTAATAGGT
*
2082 ATCGTTTATATAA-GTAATAGG-AGTGATTATATGTAAAGTATCTATCCTTTTTATAAAAGTGTC
320 ATCGTTTATATAATGTAATAGGTAGTGGTTATATGTAAAGTATCTATCC-TTTTATAAAAGTGTC
2145 TATAC-TTTTTCACTGT-GAAAACATTAATTTAAGGT
384 TATACTTTTTTCACTGTGGAAAACATTAATTTAAGGT
*
2180 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTA
1 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
2245 CG-TACGATATATATTA-TATTAAATTAAAAA
66 CGTTACGATATATATTATTATTAAATTAAAAA
2275 CATAAACATA
Statistics
Matches: 1659, Mismatches: 34, Indels: 128
0.91 0.02 0.07
Matches are distributed among these distances:
410 6 0.00
411 49 0.03
412 149 0.09
413 183 0.11
414 263 0.16
415 230 0.14
416 187 0.11
417 114 0.07
418 185 0.11
419 62 0.04
420 36 0.02
421 50 0.03
422 128 0.08
423 17 0.01
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.39
Consensus pattern (420 bp):
TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
CGTTACGATATATATTATTATTAAATTAAAAATTCTAAAATTATTTTATAAAATATCAAAACAAT
CAAATAATTTTTTGTGCAAATGAAATTATTAAATATTGTAGGTGAAAACATGAAACATACTTAAA
AAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGAC
ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTT
TATATAATGTAATAGGTAGTGGTTATATGTAAAGTATCTATCCTTTTATAAAAGTGTCTATACTT
TTTTCACTGTGGAAAACATTAATTTAAGGT
Found at i:1660 original size:23 final size:23
Alignment explanation
Indices: 1629--1692 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
1619 ATAGGTAAAA
*
1629 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1652 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1675 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1693 TGGTTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1699 original size:23 final size:23
Alignment explanation
Indices: 1629--1704 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
1619 ATAGGTAAAA
* *
1629 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1652 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1675 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1698 ATTATAA
1 A-TATAA
1705 AGTATCTATC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
23 40 0.87
24 6 0.13
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1724 original size:20 final size:21
Alignment explanation
Indices: 1699--1741 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1689 GTAGTGGTTA
*
1699 TTAT-AAAGTATCTATCCTTT
1 TTATAAAAGTATCTATACTTT
*
1719 TTATAAAAGTGTCTATACTTT
1 TTATAAAAGTATCTATACTTT
1740 TT
1 TT
1742 TCACTGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (21 bp):
TTATAAAAGTATCTATACTTT
Found at i:2076 original size:20 final size:22
Alignment explanation
Indices: 2053--2102 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
2043 AAAATATGAT
2053 GTAATAGGTAGCG-CT-TATAA
1 GTAATAGGTAGCGTCTATATAA
* *
2073 GTAATAGGTATCGTTTATATAA
1 GTAATAGGTAGCGTCTATATAA
2095 GTAATAGG
1 GTAATAGG
2103 AGTGATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 12 0.46
21 1 0.04
22 13 0.50
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (22 bp):
GTAATAGGTAGCGTCTATATAA
Found at i:2602 original size:23 final size:23
Alignment explanation
Indices: 2576--2623 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2566 AATTAGGTAA
*
2576 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAGTATATT
*
2599 ATATAAGCGCTACCTAGTATGTT
1 ATATAAGCGCTACCTAGTATATT
2622 AT
1 AT
2624 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTATATT
Found at i:4947 original size:20 final size:20
Alignment explanation
Indices: 4922--5014 Score: 87
Period size: 21 Copynumber: 4.5 Consensus size: 20
4912 TTTTCCCAAT
*
4922 TCGCAATGTGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
4942 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
4963 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
4983 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
5004 TCGCAATGCGA
1 TCGCAATGCGA
5015 TACTGACTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 26 0.46
21 31 0.54
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:4965 original size:21 final size:21
Alignment explanation
Indices: 4939--5014 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4929 GTGAATAAGT
4939 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
4960 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
4980 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
5001 AAATCGCAATGCGA
1 AAATCGCAACGCGA
5015 TACTGACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:5029 original size:41 final size:41
Alignment explanation
Indices: 4922--5014 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
4912 TTTTCCCAAT
*
4922 TCGCAATGTGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
4963 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
5004 TCGCAATGCGA
1 TCGCAATGCGA
5015 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:5049 original size:21 final size:20
Alignment explanation
Indices: 5000--5050 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
4990 GCGAATTGGG
* *
5000 AAAATCGCAATGCGATACTG
1 AAAATCGCAATGCGATAATA
**
5020 ACTATCGCAATGCGATAATAA
1 AAAATCGCAATGCGATAAT-A
5041 AAAATCGCAA
1 AAAATCGCAA
5051 CGAGATACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.20
Consensus pattern (20 bp):
AAAATCGCAATGCGATAATA
Found at i:5083 original size:19 final size:20
Alignment explanation
Indices: 5045--5091 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
5035 TAATAAAAAA
5045 TCGCAACGAGATACTTACTT
1 TCGCAACGAGATACTTACTT
5065 TCGCAACGAGATA-TTACTT
1 TCGCAACGAGATACTTACTT
5084 TCGCAACG
1 TCGCAACG
5092 CGAAATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
TCGCAACGAGATACTTACTT
Found at i:5303 original size:21 final size:21
Alignment explanation
Indices: 5277--5316 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5267 TACTCTCACA
5277 ATCTCCGACGAAATCCGTCCC
1 ATCTCCGACGAAATCCGTCCC
*
5298 ATCTCCGGCGAAATCCGTC
1 ATCTCCGACGAAATCCGTC
5317 TATCTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCTCCGACGAAATCCGTCCC
Found at i:6935 original size:17 final size:18
Alignment explanation
Indices: 6898--6941 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6888 TCCACTTCGG
*
6898 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCGACCA
*
6916 GAGCTATCACCTC-ACCA
1 GAGCCATCACCTCGACCA
6933 GAGCCATCA
1 GAGCCATCA
6942 TTGATCGACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.27, C:0.43, G:0.16, T:0.14
Consensus pattern (18 bp):
GAGCCATCACCTCGACCA
Found at i:7459 original size:19 final size:17
Alignment explanation
Indices: 7411--7475 Score: 76
Period size: 17 Copynumber: 3.6 Consensus size: 17
7401 TAGTTTACTT
7411 TCGCAACGAAAATGACTA
1 TCGCAACG-AAATGACTA
*
7429 TCGCAACGAAATGGCTA
1 TCGCAACGAAATGACTA
**
7446 TCGCAATGCGAAATGAAAA
1 TCGCAA--CGAAATGACTA
7465 TCGCAACGAAA
1 TCGCAACGAAA
7476 ATCGCAATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 19 0.46
18 8 0.20
19 14 0.34
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.15
Consensus pattern (17 bp):
TCGCAACGAAATGACTA
Found at i:7481 original size:31 final size:32
Alignment explanation
Indices: 7445--7531 Score: 119
Period size: 30 Copynumber: 2.8 Consensus size: 32
7435 CGAAATGGCT
7445 ATCGCAATGCGAAATGAAAATCGCAACG-AAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAA
*
7476 ATCGCAATGCGAAATG-AAAT--CAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGA-AAA
*
7506 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
7532 TGCGATTTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.08
30 22 0.45
31 20 0.41
33 3 0.06
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAA
Found at i:7577 original size:19 final size:19
Alignment explanation
Indices: 7564--7649 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
7554 GATTTTGTCG
7564 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7582 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*** *
7601 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
** **
7621 TTGCGATAGTCATTTCGGG
1 TTGCGATTTTCATTTCGCA
7640 TTGCGATTTT
1 TTGCGATTTT
7650 AAGTTTTGTG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.10
19 35 0.60
20 17 0.29
ACGTcount: A:0.15, C:0.21, G:0.22, T:0.42
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:7627 original size:39 final size:38
Alignment explanation
Indices: 7573--7646 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 38
7563 GTTGCGATTT
**
7573 CATTTCGCATTGCGATTTTCATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGTCATTTCGCATTGCGATAGC
* **
7611 CATTTCCGCGTTGCGATAGTCATTTCGGGTTGCGAT
1 CATTT-CGCATTGCGATAGTCATTTCGCATTGCGAT
7647 TTTAAGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 5 0.17
39 25 0.83
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (38 bp):
CATTTCGCATTGCGATAGTCATTTCGCATTGCGATAGC
Found at i:9647 original size:19 final size:19
Alignment explanation
Indices: 9625--9665 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9615 ATCGCAACGA
9625 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
9644 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
9663 GAA
1 GAA
9666 TCGCATTGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.15, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:9669 original size:17 final size:18
Alignment explanation
Indices: 9627--9676 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
9617 CGCAACGAGA
9627 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
9645 AAAATCGCAATGCGAAATG
1 -AAATCGCAATGCGAAATG
*
9664 -AATCGCATTGCGA
1 AAATCGCAATGCGA
9677 TTTTCTCGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 12 0.40
19 18 0.60
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (18 bp):
AAATCGCAATGCGAAATG
Found at i:9722 original size:19 final size:20
Alignment explanation
Indices: 9676--9732 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
9666 TCGCATTGCG
* *
9676 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
9696 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
9716 A-TTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
9733 TCAAATGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:10808 original size:23 final size:22
Alignment explanation
Indices: 10782--10825 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
10772 AAATTGATCT
*
10782 TGGTCAATACCCGGACTTTGATA
1 TGGTCAATACACGGA-TTTGATA
10805 TGGTCAATACACGGATTTGAT
1 TGGTCAATACACGGATTTGAT
10826 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (22 bp):
TGGTCAATACACGGATTTGATA
Found at i:11014 original size:12 final size:12
Alignment explanation
Indices: 10997--11021 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10987 TCATAATCCT
10997 GAAGAAGAAAAA
1 GAAGAAGAAAAA
11009 GAAGAAGAAAAA
1 GAAGAAGAAAAA
11021 G
1 G
11022 TCCCCAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:13292 original size:19 final size:19
Alignment explanation
Indices: 13270--13400 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
13260 GGAAATTACT
13270 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
13289 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
13303 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
13322 ATCGCAATGC----T-AAT
1 ATCGCAATGCGAAATGAAA
* *
13336 TTCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
13355 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
13369 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
13388 ATCGCAACGCGAA
1 ATCGCAATGCGAA
13401 TTTAATTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 29 0.34
15 3 0.04
16 4 0.05
17 4 0.05
18 3 0.04
19 42 0.49
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:13312 original size:33 final size:33
Alignment explanation
Indices: 13270--13396 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
13260 GGAAATTACT
13270 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
13303 ATCGCAATGCGAAATGAAAATCGCAATGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
13335 TTTCGTAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
13369 ATCGCAACGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
13397 CGAATTTAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
32 1 0.01
33 78 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:13381 original size:66 final size:66
Alignment explanation
Indices: 13275--13403 Score: 222
Period size: 66 Copynumber: 2.0 Consensus size: 66
13265 TTACTATCGC
* * *
13275 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCTAATTTCG
1 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGCGAATTTCG
13340 T
66 T
*
13341 AATGCGAAATGAAAATCGCAACGAGGGAATCGCAACGCGAAATGAAAATCGCAACGCGAATTT
1 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGCGAATTT
13404 AATTTCGTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (66 bp):
AATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGCGAATTTCG
T
Found at i:13592 original size:14 final size:14
Alignment explanation
Indices: 13573--13609 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
13563 CATCAATTAA
13573 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
13587 ACAAATCACCTTTT
1 ACAAATCAACTTTT
13601 ACAAATCAA
1 ACAAATCAA
13610 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:15005 original size:21 final size:21
Alignment explanation
Indices: 14939--15005 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
14929 GTGAATCGGG
*
14939 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
14959 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
14981 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
15002 CTCT
1 CTCT
15006 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:15024 original size:42 final size:41
Alignment explanation
Indices: 14939--15061 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
14929 GTGAATCGGG
* * * * *
14939 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
14981 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
15023 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
15062 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:17104 original size:33 final size:33
Alignment explanation
Indices: 17063--17146 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
17053 TCGCGCGGCG
* *
17063 GAAATGACTATCGCAACGAGAGAATCGCAACGC
1 GAAATGACTATCGCAACCAGACAATCGCAACGC
*
17096 GAAATGACTATCGCGACCAGACAATCGCAACGC
1 GAAATGACTATCGCAACCAGACAATCGCAACGC
**
17129 GAAATGAAAATCGCAACC
1 GAAATGACTATCGCAACC
17147 GCGAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.12
Consensus pattern (33 bp):
GAAATGACTATCGCAACCAGACAATCGCAACGC
Found at i:17140 original size:19 final size:19
Alignment explanation
Indices: 17118--17206 Score: 144
Period size: 19 Copynumber: 4.7 Consensus size: 19
17108 GCGACCAGAC
17118 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
17137 AATCGCAACCGCGAAA-AAA
1 AATCGCAA-CGCGAAATGAA
17156 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
17175 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
17194 AATCGCAATGCGA
1 AATCGCAACGCGA
17207 TTTGGTTTGC
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
18 7 0.11
19 51 0.78
20 7 0.11
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:17814 original size:20 final size:20
Alignment explanation
Indices: 17789--17861 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
17779 GCGCTATGTA
17789 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
17809 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
17829 TATCTCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
17849 TATCTCGTTGCGA
1 AATCGCGTTGCGA
17862 TTTTGTATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:17892 original size:61 final size:61
Alignment explanation
Indices: 17810--17926 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
17800 GAAAGTCAGA
* * * * * * *
17810 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTATT
* *
17871 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTAAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
17927 CCCAATTCGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTATT
Found at i:17895 original size:20 final size:20
Alignment explanation
Indices: 17870--17923 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
17860 GATTTTGTAT
17870 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
17890 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
17910 TATCGCATTGCGAT
1 TATCGCATTGCGAT
17924 TTTCCCAATT
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:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:17923 original size:40 final size:39
Alignment explanation
Indices: 17790--17922 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 39
17780 CGCTATGTAA
* * *
17790 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATAGT-AGT
* * * * *
17830 ATCTCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGA--TAGTAGT
* * *
17871 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATAGT-AGT
17911 ATCGCATTGCGA
1 ATCGCATTGCGA
17923 TTTTCCCAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 43 0.57
41 28 0.37
42 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (39 bp):
ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATAGTAGT
Found at i:17942 original size:61 final size:61
Alignment explanation
Indices: 17810--17944 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
17800 GAAAGTCAGA
* * * * * * * ** *
17810 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTCCAAT
* *
17871 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT-CCAAT
17933 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
17945 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:18034 original size:21 final size:21
Alignment explanation
Indices: 17994--18034 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17984 ATTGTATACC
**
17994 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
18015 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
18035 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:21349 original size:21 final size:21
Alignment explanation
Indices: 21325--21377 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
21315 AGATTTAGGT
*
21325 TTTAGGGTTTAAGGTTTATAG
1 TTTAGGGTTTAAGGTTTAGAG
* *
21346 TTTATGGTTTATGGTTTAGAG
1 TTTAGGGTTTAAGGTTTAGAG
*
21367 TTTAGAGTTTA
1 TTTAGGGTTTA
21378 TTACAAATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (21 bp):
TTTAGGGTTTAAGGTTTAGAG
Found at i:25467 original size:19 final size:19
Alignment explanation
Indices: 25443--25479 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25433 ATATTAATTA
25443 ATTTTAAAATGAAATTAAT
1 ATTTTAAAATGAAATTAAT
* *
25462 ATTTTAGAATGATATTAA
1 ATTTTAAAATGAAATTAA
25480 AGTTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (19 bp):
ATTTTAAAATGAAATTAAT
Found at i:26297 original size:2 final size:2
Alignment explanation
Indices: 26290--26318 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26280 TTATTTAAGG
26290 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 T
26319 TAATTATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:28696 original size:2 final size:2
Alignment explanation
Indices: 28689--28770 Score: 96
Period size: 2 Copynumber: 41.5 Consensus size: 2
28679 CTAAATAAAA
* * *
28689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AC GT A- AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* *
28731 A- AT AA AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28771 AAAAATGCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
1 2 0.03
2 63 0.94
3 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:30779 original size:84 final size:84
Alignment explanation
Indices: 30666--31376 Score: 755
Period size: 84 Copynumber: 8.4 Consensus size: 84
30656 AATGTCTTTA
* * * * * *
30666 GCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGGTGCCTTTGAGCTGAGTGTATTCG
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGAT-GTGCCTTCGAGCTGAGCGTAGTCG
* *
30731 TACTCAAAGGTCTTTGG-TG
65 AACTCGAAGGTCTTTGGTTG
* * * * * * * * * *
30750 ACATATAACCCTTATAGCCTTGATTTATACTGTAAATGATGTG-CTCTCGAAGCTGAGTGTAATC
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCT-TCG-AGCTGAGCGTAGTC
*
30814 GAACTTGAAGGTCTTTGGTTG
64 GAACTCGAAGGTCTTTGGTTG
* * * * *
30835 GCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTCGAGCTGAGCGTAGTCGA
30900 ACTCGAAGGTCTTT-GTTG
66 ACTCGAAGGTCTTTGGTTG
* * *
30918 GCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTAAGCGTAGTCG
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTCG-AGCTGAGCGTAGTCG
*
30983 AACTTGAAGGTCTTTGGTTG
65 AACTCGAAGGTCTTTGGTTG
* * * * * *
31003 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCAA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTCGAGCTGAGCGTAGTCGA
31068 ACTCGAAGGTCTTTTGG-TG
66 ACTCGAAGGTC-TTTGGTTG
* * * * * ** * * * *
31087 ACAAATAACCCTTCTAGCCTTGAGTTATGTTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTCG-AGCTGAGCGTAGTCG
*
31152 AACTTGAAGGTCTTTGGTTG
65 AACTCGAAGGTCTTTGGTTG
* * * *
31172 GCAGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTCGAGCTGAGCGTAGTCGA
* *
31237 ACTCGGAGGTCTTTGGATG
66 ACTCGAAGGTCTTTGGTTG
* * * * * * * *
31256 GCAAATAACCCTTCTCGATTTAAGTTATGCTGTAAATGTTGTGCTTTTGAGCAGAGCGTAGTCGA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTCGAGCTGAGCGTAGTCGA
**
31321 ACTCGAAGGTCTTTTATTG
66 ACTCGAAGGTCTTTGGTTG
* * *
31340 GCAGATAACCCTTCTAGCCTTGAGTCATGCTGCAAAT
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAAT
31377 AGTTTCTTTA
Statistics
Matches: 519, Mismatches: 99, Indels: 18
0.82 0.16 0.03
Matches are distributed among these distances:
82 2 0.00
83 52 0.10
84 311 0.60
85 152 0.29
86 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (84 bp):
GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTCGAGCTGAGCGTAGTCGA
ACTCGAAGGTCTTTGGTTG
Found at i:30846 original size:169 final size:168
Alignment explanation
Indices: 30666--31376 Score: 922
Period size: 168 Copynumber: 4.2 Consensus size: 168
30656 AATGTCTTTA
* * * *
30666 GCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGGTGCCTTTGAGCTGAGTGTATTCG
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCG
* * * * * * * *
30731 TACTCAAAGGTCTTTGGTGACATATAACCCTTATAGCCTTGATTTATACTGTAAATGATGTGCTC
65 AACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTAAGTTATGCTGTAAATGATGTGCCC
*
30796 TCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGTTG
130 TCGAAGCTGAGCGTAATCGAACTTGAAGGTCTTTGGTTG
* *
30835 GCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
* * * *
30900 ACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTGCCCT
66 ACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTAAGTTATGCTGTAAATGATGTGCCCT
* *
30965 CGAAGCTAAGCGTAGTCGAACTTGAAGGTCTTTGGTTG
131 CGAAGCTGAGCGTAATCGAACTTGAAGGTCTTTGGTTG
* * * *
31003 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCAA
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
* * *
31068 ACTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGTTATAAATGATGTGCCC
66 ACTCGAAGGTC-TTTGGTGACAAATAACCCTTCTAGCCTTAAGTTATGCTGTAAATGATGTGCCC
* *
31133 TCGAAGCTGAGTGTAATCAAACTTGAAGGTCTTTGGTTG
130 TCGAAGCTGAGCGTAATCGAACTTGAAGGTCTTTGGTTG
* * *
31172 GCAGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
* * * ** * **
31237 ACTCGGAGGTCTTTGGATGGCAAATAACCCTTCTCGATTTAAGTTATGCTGTAAATGTTGTGCTT
66 ACTCGAAGGTCTTTGG-TGACAAATAACCCTTCTAGCCTTAAGTTATGCTGTAAATGATGTGCCC
* * * * **
31302 TTG-AGCAGAGCGTAGTCGAACTCGAAGGTCTTTTATTG
130 TCGAAGCTGAGCGTAATCGAACTTGAAGGTCTTTGGTTG
* * *
31340 GCAGATAACCCTTCTAGCCTTGAG-TCATGCTGCAAAT
1 GCAGATAACCCTTCTCGACTTAAGCT-ATGCTGCAAAT
31377 AGTTTCTTTA
Statistics
Matches: 472, Mismatches: 67, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
167 1 0.00
168 244 0.52
169 227 0.48
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (168 bp):
GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
ACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTAAGTTATGCTGTAAATGATGTGCCCT
CGAAGCTGAGCGTAATCGAACTTGAAGGTCTTTGGTTG
Found at i:31316 original size:337 final size:337
Alignment explanation
Indices: 30647--31354 Score: 1034
Period size: 337 Copynumber: 2.1 Consensus size: 337
30637 TTGAATGTAA
*
30647 TCGAACTCGAATGTCTTT-A---GCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGG
1 TCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGG
* * ** *
30708 TGCCTTTGAGCTGAGTGTATTCGTACTCAAAGGTCTTTGGTGACATATAACCCTTATAGCCTTGA
66 TGCCTTTGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGGTGACAAATAACCCTTATAGCCTTGA
* * * *
30773 TTTATACTGTAAATGATGTGCTCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGTTGGCA
131 GTTATACTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTTGAAGGTCTTTGGTTGGCA
*
30838 GATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGAACT
196 GATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACT
* * *
30903 CGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTAAGTTATGCTGCAAATGATGTGCCCTCGA
261 CGAAGGTCTTTGATGGCAAATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGA
30968 AGCTAAGCGTAG
326 AGCTAAGCGTAG
* * * * *
30980 TCGAACTTGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGAT-G
1 TCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGG
* *
31044 TGCCTTTGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTG
66 TGCCTTTGAGCTGAGCGTAGTCAAACTCAAAGGTC-TTTGGTGACAAATAACCCTTATAGCCTTG
**
31109 AGTTATGTTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTTGAAGGTCTTTGGTTGGC
130 AGTTATACTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTTGAAGGTCTTTGGTTGGC
* *
31174 AGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
195 AGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAAC
* * * * * ** *
31239 TCGGAGGTCTTTGGATGGCAAATAACCCTTCTCGATTTAAGTTATGCTGTAAATGTTGTGCTTTT
260 TCGAAGGTCTTT-GATGGCAAATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTC
31304 G-AGC-AGAGCGTAG
324 GAAGCTA-AGCGTAG
*
31317 TCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCT
1 TCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTCT
31355 AGCCTTGAGT
Statistics
Matches: 331, Mismatches: 37, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
333 16 0.05
336 32 0.10
337 240 0.73
338 43 0.13
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (337 bp):
TCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGG
TGCCTTTGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGGTGACAAATAACCCTTATAGCCTTGA
GTTATACTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTTGAAGGTCTTTGGTTGGCA
GATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACT
CGAAGGTCTTTGATGGCAAATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGA
AGCTAAGCGTAG
Found at i:32395 original size:95 final size:95
Alignment explanation
Indices: 32232--32486 Score: 415
Period size: 95 Copynumber: 2.7 Consensus size: 95
32222 GGCTAGCTGA
* * *
32232 ATCCATAAAGCCAGGGCATTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATAGTA
1 ATCCATAGAGCCAGGGCATTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTGTATAGTA
*
32297 TAATTACCTTTATCATGCTAGCTGAATATT
66 TAATTACCTTTATCAGGCTAGCTGAATATT
* * *
32327 ATCCATAGAGCCAGGGCGTTTAACCAATTTCTCTAGAGGGACAACTCAAGCTTTATTATATAGTA
1 ATCCATAGAGCCAGGGCATTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTGTATAGTA
*
32392 TAATTACCTTTGTCAGGCTAGCTGAATATT
66 TAATTACCTTTATCAGGCTAGCTGAATATT
*
32422 ATCCATAGAGCC-GGGCTTTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTGTATA-TA
1 ATCCATAGAGCCAGGGCATTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTGTATAGTA
32485 TA
66 TA
32487 TAATATTATA
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
93 4 0.03
94 46 0.31
95 100 0.67
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (95 bp):
ATCCATAGAGCCAGGGCATTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTGTATAGTA
TAATTACCTTTATCAGGCTAGCTGAATATT
Found at i:36433 original size:2 final size:2
Alignment explanation
Indices: 36428--36458 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36418 AAAAAGTAGA
36428 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 A
36459 AAAGTAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36506 original size:15 final size:15
Alignment explanation
Indices: 36473--36518 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
36463 TAGAATAAAA
36473 AATAATAATAATA-T
1 AATAATAATAATAGT
36487 GAATAATAATAATAGT
1 -AATAATAATAATAGT
*
36503 AATATTAA-AA-AGT
1 AATAATAATAATAGT
36516 AAT
1 AAT
36519 CTAATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.21
14 2 0.07
15 20 0.69
16 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
AATAATAATAATAGT
Found at i:36808 original size:11 final size:11
Alignment explanation
Indices: 36772--36813 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
36762 AACATAACAG
36772 AAATAA-AATAA
1 AAATAATAAT-A
* *
36783 AAATAAAAAGA
1 AAATAATAATA
36794 AAATAATAATA
1 AAATAATAATA
36805 AAATAATAA
1 AAATAATAA
36814 AAGGATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 25 0.93
12 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (11 bp):
AAATAATAATA
Found at i:39176 original size:50 final size:49
Alignment explanation
Indices: 39081--39227 Score: 188
Period size: 50 Copynumber: 2.9 Consensus size: 49
39071 TTTTGTATCG
*
39081 CTTAGATATG-GTTGAATCGAAAAAAATAATTATGCTAGCATTGGTTGAATCA
1 CTTAGATA-GAGTTGAAT-TAAAAAAA-AATTATGCTAGCATTGGTT-AATCA
*
39133 CTTAGATAGAGTTGAATTAAAAAAAAATTATGCTAGCACTGGTTAATCA
1 CTTAGATAGAGTTGAATTAAAAAAAAATTATGCTAGCATTGGTTAATCA
* * * *
39182 ATTAGATATAGTTGAATTGAATAAAAAATTATGCTATCATTGGTTA
1 CTTAGATAGAGTTGAATT-AAAAAAAAATTATGCTAGCATTGGTTA
39228 CACAGGCTTG
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
49 21 0.24
50 42 0.49
51 8 0.09
52 15 0.17
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (49 bp):
CTTAGATAGAGTTGAATTAAAAAAAAATTATGCTAGCATTGGTTAATCA
Found at i:40140 original size:70 final size:70
Alignment explanation
Indices: 40027--40159 Score: 221
Period size: 70 Copynumber: 1.9 Consensus size: 70
40017 AAGAGCATAG
* * *
40027 AAGAGCAAAAATAGGAGAACAAAACAATCTCACATGACTAAGAAACATAGAAGAGCATCCCAAAA
1 AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGACTAAGAAACATAAAAGAACATCCCAAAA
40092 GTCTA
66 GTCTA
* *
40097 AAGAGTAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAAAAGAACATCCCAA
1 AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGACTAAGAAACATAAAAGAACATCCCAA
40160 TTGACTTCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.54, C:0.19, G:0.15, T:0.12
Consensus pattern (70 bp):
AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGACTAAGAAACATAAAAGAACATCCCAAAA
GTCTA
Found at i:42878 original size:2 final size:2
Alignment explanation
Indices: 42871--42895 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
42861 CTCCGGTCTT
42871 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
42896 TTTTTCTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49396 original size:2 final size:2
Alignment explanation
Indices: 49389--49424 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49379 TTATTTAATC
49389 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
49425 GATTAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50787 original size:22 final size:23
Alignment explanation
Indices: 50744--50789 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
50734 GGCTTCGGTT
50744 TGTAATTATTTATTAAATAATAA
1 TGTAATTATTTATTAAATAATAA
50767 TGTATATTA-TTATT-AATAATAA
1 TGTA-ATTATTTATTAAATAATAA
50789 T
1 T
50790 AAAACGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.41
23 9 0.41
24 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TGTAATTATTTATTAAATAATAA
Found at i:50969 original size:45 final size:45
Alignment explanation
Indices: 50918--51041 Score: 239
Period size: 45 Copynumber: 2.8 Consensus size: 45
50908 GATGGAAATG
*
50918 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
50963 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
51008 TTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATG
51042 TGGGAAATAG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
Found at i:52214 original size:55 final size:55
Alignment explanation
Indices: 52124--52227 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
52114 CACTGGTTCA
* *
52124 TAAAACATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCACAGATGTTCCG
1 TAAAACATTTGACAATACATTAATACTTTCCTGTGGCTTCTGCACAGATGTTCCG
* * *
52179 TAAAACATTTGACAATACATTAATATTTTCTTGTGGCTTCTGCCCAGAT
1 TAAAACATTTGACAATACATTAATACTTTCCTGTGGCTTCTGCACAGAT
52228 TTCTCATCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (55 bp):
TAAAACATTTGACAATACATTAATACTTTCCTGTGGCTTCTGCACAGATGTTCCG
Found at i:55734 original size:32 final size:32
Alignment explanation
Indices: 55695--55761 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
55685 TGAAAAAATG
* * *
55695 GTTGTTATGCTTATCTGGTAGAGATACTTCTT
1 GTTGTTATGCTCATCTCGTAGAAATACTTCTT
*
55727 GTTGTTATGCTCATTTCGTAGAAATACTTCTT
1 GTTGTTATGCTCATCTCGTAGAAATACTTCTT
55759 GTT
1 GTT
55762 TCCAGACTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (32 bp):
GTTGTTATGCTCATCTCGTAGAAATACTTCTT
Found at i:59152 original size:15 final size:15
Alignment explanation
Indices: 59119--59156 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
59109 ATAAAAGTAT
59119 AAATG-AAAAATGAA
1 AAATGCAAAAATGAA
* *
59133 AAATGCAAAGATGCA
1 AAATGCAAAAATGAA
59148 AAATGCAAA
1 AAATGCAAA
59157 TGCATGCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.63, C:0.08, G:0.16, T:0.13
Consensus pattern (15 bp):
AAATGCAAAAATGAA
Found at i:59159 original size:6 final size:7
Alignment explanation
Indices: 59119--59160 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
59109 ATAAAAGTAT
*
59119 AAATGAA
1 AAATGCA
*
59126 AAATGAA
1 AAATGCA
59133 AAATGCA
1 AAATGCA
59140 AAGATGCA
1 AA-ATGCA
59148 AAATGC-
1 AAATGCA
59154 AAATGCA
1 AAATGCA
59161 TGCATGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.19
7 19 0.59
8 7 0.22
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:59329 original size:43 final size:42
Alignment explanation
Indices: 59236--59319 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
59226 TGTGCATCAA
* * *
59236 ACAAAACTTTACATATAGGGGATATCTTTCAGTCCTATCTTT
1 ACAAAACTTTACATATAGGGGATAACTTTCACTCCTAACTTT
* *
59278 AACAAAACTTTACATATAGGGGATAACTTTCCCTCTTAACTT
1 -ACAAAACTTTACATATAGGGGATAACTTTCACTCCTAACTT
59320 CTCTAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (42 bp):
ACAAAACTTTACATATAGGGGATAACTTTCACTCCTAACTTT
Found at i:62803 original size:3 final size:3
Alignment explanation
Indices: 62795--62852 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
62785 TTATTTATTA
* * * **
62795 AAT AAT AAT GTAT AAT ATAT AAT ATT AAT AAG AAT AAT AAT TTT AAT
1 AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
62842 AAT AAT AAT AA
1 AAT AAT AAT AA
62853 AACGAAATGA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
3 38 0.88
4 5 0.12
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:63125 original size:35 final size:35
Alignment explanation
Indices: 63084--63185 Score: 186
Period size: 35 Copynumber: 2.9 Consensus size: 35
63074 CATGTTCAAT
*
63084 ATTCCAAAACACTTCAATTACATTCTAAACCCGAA
1 ATTCCAAAATACTTCAATTACATTCTAAACCCGAA
63119 ATTCCAAAATACTTCAATTACATTCTAAACCCGAA
1 ATTCCAAAATACTTCAATTACATTCTAAACCCGAA
*
63154 ATTCCAAAATAATTCAATTACATTCTAAACCC
1 ATTCCAAAATACTTCAATTACATTCTAAACCC
63186 TAATGAAGTA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.28
Consensus pattern (35 bp):
ATTCCAAAATACTTCAATTACATTCTAAACCCGAA
Found at i:63240 original size:35 final size:35
Alignment explanation
Indices: 63189--63261 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
63179 TAAACCCTAA
* *
63189 TGAAGTATTTTAGAATTTGGGGTTTAAAATGTAAT
1 TGAAGTATTTTAGAATTTAGGGTTTAAAATGAAAT
* * *
63224 TGAATTATTTTGGAATTTAGGGTTTAGAATGAAAT
1 TGAAGTATTTTAGAATTTAGGGTTTAAAATGAAAT
63259 TGA
1 TGA
63262 GGATTGTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.42
Consensus pattern (35 bp):
TGAAGTATTTTAGAATTTAGGGTTTAAAATGAAAT
Found at i:64385 original size:14 final size:14
Alignment explanation
Indices: 64349--64386 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
64339 CGATGAAGCC
64349 AAAGATTCCAAACA
1 AAAGATTCCAAACA
* *
64363 ATA-ATTCCAAATA
1 AAAGATTCCAAACA
64376 AAAGATTCCAA
1 AAAGATTCCAA
64387 TGCTCAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.55, C:0.18, G:0.05, T:0.21
Consensus pattern (14 bp):
AAAGATTCCAAACA
Found at i:66873 original size:15 final size:15
Alignment explanation
Indices: 66855--66933 Score: 149
Period size: 15 Copynumber: 5.3 Consensus size: 15
66845 TCAAGGATTC
66855 GATTTATCAAAATTT
1 GATTTATCAAAATTT
66870 GATTTATCAAAATTT
1 GATTTATCAAAATTT
66885 GATTTATCAAAATTT
1 GATTTATCAAAATTT
66900 GATTTATCAAAATTT
1 GATTTATCAAAATTT
*
66915 GATTTATCAAAATTC
1 GATTTATCAAAATTT
66930 GATT
1 GATT
66934 CCTCTTACCA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 63 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (15 bp):
GATTTATCAAAATTT
Found at i:75200 original size:21 final size:21
Alignment explanation
Indices: 75174--75221 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
75164 GCATTGAGGA
* *
75174 GTGACTGACAGTGTGACGGTG
1 GTGACTGACAGCGCGACGGTG
* *
75195 GTGACTGGCGGCGCGACGGTG
1 GTGACTGACAGCGCGACGGTG
75216 GTGACT
1 GTGACT
75222 AGCGTGCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.19, G:0.46, T:0.21
Consensus pattern (21 bp):
GTGACTGACAGCGCGACGGTG
Found at i:75473 original size:42 final size:42
Alignment explanation
Indices: 75333--75809 Score: 230
Period size: 42 Copynumber: 11.5 Consensus size: 42
75323 CAAGGTGGCG
* * * *
75333 TTTTAATAATAAACGCCACTAACGTGCACCTCTATTGCGGCA
1 TTTTTATAACAAACGCCACTAACGTTCACCTCTATTACGGCA
** * * * * * * *
75375 TTTGAACAACAAACACCACTAAGGTACGA-ATCTATTACAG-T
1 TTTTTATAACAAACGCCACTAACGTTC-ACCTCTATTACGGCA
** * *
75416 TTTTTA-ATACAAAACGCCACTAATATTCACCTCTATTATGACA
1 TTTTTATA-AC-AAACGCCACTAACGTTCACCTCTATTACGGCA
* * * ** *
75459 TTTTTATAACAAACGCCACGAACATTGAGATCTATAACGGC-
1 TTTTTATAACAAACGCCACTAACGTTCACCTCTATTACGGCA
* * * * ** *
75500 GTTTTAGTGACAAACGTCACTAAGGTTTGCCTCTATTACGGTA
1 TTTTTA-TAACAAACGCCACTAACGTTCACCTCTATTACGGCA
* **
75543 TTTTTATAACAAACGCCACTAACGTACGGCTCTA-TAGCGGCA
1 TTTTTATAACAAACGCCACTAACGTTCACCTCTATTA-CGGCA
* * * **
75585 -TTTTAGTGACAAACGCCACTAAGGTTGACCTCTATTGTGGCA
1 TTTTTA-TAACAAACGCCACTAACGTTCACCTCTATTACGGCA
* * * * * *
75627 TTTTCATAATAAACGCCACTAA-GTT-GCTTCTATTGCGGCG
1 TTTTTATAACAAACGCCACTAACGTTCACCTCTATTACGGCA
* * * *
75667 TTTTTATAACAAACGCCACTAAGGTACGA-CTCTA-TAGTGGCG
1 TTTTTATAACAAACGCCACTAACGTTC-ACCTCTATTA-CGGCA
* * * * *
75709 TTTTAATGACAAACACCACTAAGGTTCACCTCTATTGCGGC-
1 TTTTTATAACAAACGCCACTAACGTTCACCTCTATTACGGCA
* * *
75750 CTTTTAGTAACAAA--CCACTGA-GTT-TCCTCTATTACGG-A
1 TTTTTA-TAACAAACGCCACTAACGTTCACCTCTATTACGGCA
75788 GTTTTTTTATAACAAACGCCAC
1 ---TTTTTATAACAAACGCCAC
75810 CAAGGTACGG
Statistics
Matches: 326, Mismatches: 84, Indels: 50
0.71 0.18 0.11
Matches are distributed among these distances:
38 11 0.03
39 3 0.01
40 45 0.14
41 35 0.11
42 211 0.65
43 20 0.06
44 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (42 bp):
TTTTTATAACAAACGCCACTAACGTTCACCTCTATTACGGCA
Found at i:75646 original size:84 final size:83
Alignment explanation
Indices: 75427--75809 Score: 284
Period size: 84 Copynumber: 4.6 Consensus size: 83
75417 TTTTAATACA
** * * * * * *
75427 AAACGCCACTAATATTCACCTCTATTATGACATTTTTATAACAAACGCCACGAACATTGAGATCT
1 AAACGCCACTAAGGTTGACCTCTATTATGGCATTTTTATAACAAACGCCACTAACGTCG-GCTCT
* * *
75492 ATAACGGCGTTTTAGTGAC
65 ATAGCGGCATTTTAGTAAC
* * *
75511 AAACGTCACTAAGGTTTG-CCTCTATTACGGTATTTTTATAACAAACGCCACTAACGTACGGCTC
1 AAACGCCACTAAGG-TTGACCTCTATTATGGCATTTTTATAACAAACGCCACTAACGT-CGGCTC
*
75575 TATAGCGGCATTTTAGTGAC
64 TATAGCGGCATTTTAGTAAC
* * * *
75595 AAACGCCACTAAGGTTGACCTCTATTGTGGCATTTTCATAATAAACGCCACTAA-GT-TGCTTCT
1 AAACGCCACTAAGGTTGACCTCTATTATGGCATTTTTATAACAAACGCCACTAACGTCGGC-TCT
* *
75658 ATTGCGGCGTTTTTA-TAAC
65 ATAGCGGC-ATTTTAGTAAC
* * * * * * **
75677 AAACGCCACTAAGGTACGA-CTCTA-TAGTGGCGTTTTAATGACAAACACCACTAAGGTTCACCT
1 AAACGCCACTAAGGT-TGACCTCTATTA-TGGCATTTTTATAACAAACGCCACTAACG-TCGGCT
* *
75740 CTATTGCGGCCTTTTAGTAAC
63 CTATAGCGGCATTTTAGTAAC
* * *
75761 AAA--CCACTGA-GTT-TCCTCTATTACGG-AGTTTTTTTATAACAAACGCCAC
1 AAACGCCACTAAGGTTGACCTCTATTATGGCA---TTTTTATAACAAACGCCAC
75810 CAAGGTACGG
Statistics
Matches: 242, Mismatches: 41, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
80 7 0.03
81 7 0.03
82 77 0.32
83 18 0.07
84 129 0.53
85 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (83 bp):
AAACGCCACTAAGGTTGACCTCTATTATGGCATTTTTATAACAAACGCCACTAACGTCGGCTCTA
TAGCGGCATTTTAGTAAC
Found at i:75702 original size:124 final size:124
Alignment explanation
Indices: 75496--75849 Score: 403
Period size: 124 Copynumber: 2.8 Consensus size: 124
75486 AGATCTATAA
* * *
75496 CGGCGTTTTAGTGACAAACGTCACTAAGGTTTGCCTCTATTACGGTA-TTTTTATAACAAACGCC
1 CGGCATTTTAGTAACAAACGCCACTAA-G-TTGCCTCTATTACGG-AGTTTTTATAACAAACGCC
* * * * *
75560 ACTAACGTACGGCTCTATAGCGGCATTTTAGTGACAAACGCCACTAAGGTTGACCTCTATTG
63 ACTAAGGTACGACTCTATAGCGGCGTTTTAATGACAAACGCCACTAAGGTTCACCTCTATTG
* * * * *
75622 TGGCATTTTCA-TAATAAACGCCACTAAGTTGCTTCTATTGCGGCGTTTTTATAACAAACGCCAC
1 CGGCATTTT-AGTAACAAACGCCACTAAGTTGCCTCTATTACGGAGTTTTTATAACAAACGCCAC
* *
75686 TAAGGTACGACTCTATAGTGGCGTTTTAATGACAAACACCACTAAGGTTCACCTCTATTG
65 TAAGGTACGACTCTATAGCGGCGTTTTAATGACAAACGCCACTAAGGTTCACCTCTATTG
* * *
75746 CGGCCTTTTAGTAACAAA--CCACTGAGTTTCCTCTATTACGGAGTTTTTTTATAACAAACGCCA
1 CGGCATTTTAGTAACAAACGCCACTAAGTTGCCTCTATTACGGAG--TTTTTATAACAAACGCCA
* * * * *
75809 CCAAGGTACGGA-TTTTTAACGGCGTTTTATTGACAAACGCC
64 CTAAGGTAC-GACTCTATAGCGGCGTTTTAATGACAAACGCC
75850 GCCAATTTTG
Statistics
Matches: 192, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
122 20 0.10
123 1 0.01
124 147 0.77
125 3 0.02
126 20 0.10
127 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (124 bp):
CGGCATTTTAGTAACAAACGCCACTAAGTTGCCTCTATTACGGAGTTTTTATAACAAACGCCACT
AAGGTACGACTCTATAGCGGCGTTTTAATGACAAACGCCACTAAGGTTCACCTCTATTG
Found at i:75768 original size:82 final size:81
Alignment explanation
Indices: 75542--75765 Score: 211
Period size: 82 Copynumber: 2.7 Consensus size: 81
75532 CTATTACGGT
* * * *
75542 ATTTTTATAACAAACGCCACTAACG-TACGGCTCTATAGCGGCATTTTAGTGACAAACGCCACTA
1 ATTTTAATAACAAACACCACTAA-GTTAC--CTCTATTGCGGCATTTTAGTAACAAAC-CCACTA
* *
75606 AGGTTGACCTCTATTGTGGC
62 AGGTCGACCTCTATAGTGGC
* * * * * *
75626 ATTTTCATAATAAACGCCACTAAGTTGCTTCTATTGCGGCGTTTTTA-TAACAAACGCCACTAAG
1 ATTTTAATAACAAACACCACTAAGTTACCTCTATTGCGGC-ATTTTAGTAACAAAC-CCACTAAG
75690 GTACGA-CTCTATAGTGGC
64 GT-CGACCTCTATAGTGGC
* * *
75708 GTTTTAATGACAAACACCACTAAGGTTCACCTCTATTGCGGCCTTTTAGTAACAAACC
1 ATTTTAATAACAAACACCACTAA-GTT-ACCTCTATTGCGGCATTTTAGTAACAAACC
75766 ACTGAGTTTC
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
82 57 0.49
83 17 0.15
84 43 0.37
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (81 bp):
ATTTTAATAACAAACACCACTAAGTTACCTCTATTGCGGCATTTTAGTAACAAACCCACTAAGGT
CGACCTCTATAGTGGC
Found at i:86044 original size:36 final size:36
Alignment explanation
Indices: 85983--86057 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
85973 TTTTTATATT
85983 TTTAATTTTGTAAAAAAATATATAAATATTATA-AA
1 TTTAATTTTGTAAAAAAATATATAAATATTATACAA
* *
86018 TTTAATTTTTTAAAGAAAATATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATATATAAATATTATACAA
86055 TTT
1 TTT
86058 GTAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 13 0.36
36 18 0.50
37 5 0.14
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATATATAAATATTATACAA
Found at i:86987 original size:24 final size:24
Alignment explanation
Indices: 86933--86988 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
86923 AGAGTTTATT
*
86933 TTTTAAAATAAAAGTTATTTTAAA
1 TTTTAAAATAAAAGTTATTTCAAA
*
86957 TTATAAATATAAAA-TTA-TTCAAA
1 TTTTAAA-ATAAAAGTTATTTCAAA
86980 TATTTAAAA
1 T-TTTAAAA
86989 AAATAAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 7 0.26
24 14 0.52
25 6 0.22
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTTAAAATAAAAGTTATTTCAAA
Found at i:88038 original size:18 final size:18
Alignment explanation
Indices: 88012--88063 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
88002 ACGTAGGATT
*
88012 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
88030 TGTCCCGAAGAACCACTA
1 TGTCCCGAAGGACCACTA
*
88048 TGTCCTGAAGGACCAC
1 TGTCCCGAAGGACCAC
88064 ATATCACATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:88158 original size:21 final size:21
Alignment explanation
Indices: 88111--88187 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
88101 CATATACACA
* *
88111 TTCCAATGGACCAAATA-AGTG
1 TTCCAAAGGACCACATATA-TG
* *
88132 TACCAAAGTACCACATATATG
1 TTCCAAAGGACCACATATATG
**
88153 TTCCAAAGGATTACATATATG
1 TTCCAAAGGACCACATATATG
*
88174 -TCCTGAAGGACCAC
1 TTCC-AAAGGACCAC
88188 GTAGAACCAT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 3 0.07
21 39 0.91
22 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (21 bp):
TTCCAAAGGACCACATATATG
Found at i:89118 original size:20 final size:20
Alignment explanation
Indices: 89077--89115 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89067 ATTGCCTTGT
*
89077 AGTATCGGTACCTACTAACC
1 AGTATCGGTACCTACCAACC
*
89097 AGTATCGTTA-CTACCAACC
1 AGTATCGGTACCTACCAACC
89116 CAGAATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (20 bp):
AGTATCGGTACCTACCAACC
Found at i:98157 original size:3 final size:3
Alignment explanation
Indices: 98151--98213 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
98141 AATAATTATT
* *
98151 TAA TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
98196 -ATT TAA TAA TAA TAA TAA
1 TA-A TAA TAA TAA TAA TAA
98214 ATTTAAATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 3 0.06
3 44 0.88
4 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:98159 original size:14 final size:13
Alignment explanation
Indices: 98140--98209 Score: 78
Period size: 14 Copynumber: 5.6 Consensus size: 13
98130 TTTGGGCTTG
98140 TAATAATTATTTAA
1 TAATAA-TATTTAA
*
98154 TAATAATATACTAA
1 TAATAATAT-TTAA
98168 TAATAATATTTAA
1 TAATAATATTTAA
98181 TAAT-A-A--TAA
1 TAATAATATTTAA
98190 TAATAA-ATTTAA
1 TAATAATATTTAA
98202 TAATAATA
1 TAATAATA
98210 ATAAATTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
9 7 0.14
10 2 0.04
11 1 0.02
12 10 0.20
13 11 0.22
14 18 0.37
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:98180 original size:27 final size:25
Alignment explanation
Indices: 98140--98213 Score: 93
Period size: 24 Copynumber: 3.0 Consensus size: 25
98130 TTTGGGCTTG
98140 TAATAATTATTTAATAATAATATACTAA
1 TAATAA-TATTTAATAATAATA-A-TAA
98168 TAATAATA-TT--TAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
98190 TAATAA-ATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
98214 ATTTAAATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
21 1 0.02
22 11 0.26
23 1 0.02
24 20 0.47
26 2 0.05
27 2 0.05
28 6 0.14
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (25 bp):
TAATAATATTTAATAATAATAATAA
Found at i:98182 original size:21 final size:19
Alignment explanation
Indices: 98157--98219 Score: 83
Period size: 18 Copynumber: 3.2 Consensus size: 19
98147 TATTTAATAA
98157 TAATATACTAATAATAATATT
1 TAATATA-TAATAATAA-ATT
98178 TAATAATAATAATAATAAATT
1 TAAT-AT-ATAATAATAAATT
98199 TAATA-ATAATAATAAATT
1 TAATATATAATAATAAATT
98217 TAA
1 TAA
98220 ATGAAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
18 16 0.40
20 1 0.03
21 11 0.28
22 11 0.28
23 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATATATAATAATAAATT
Found at i:98205 original size:31 final size:27
Alignment explanation
Indices: 98140--98195 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
98130 TTTGGGCTTG
*
98140 TAATAATTATTTAATAATAATATACTAA
1 TAATAA-TATTTAATAATAATATAATAA
98168 TAATAATATTTAATAATAATAATAATAA
1 TAATAATATTTAATAATAAT-ATAATAA
98196 ATTTAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
TAATAATATTTAATAATAATATAATAA
Found at i:98890 original size:302 final size:304
Alignment explanation
Indices: 98338--99361 Score: 1919
Period size: 302 Copynumber: 3.4 Consensus size: 304
98328 GATGGAAATG
* *
98338 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
98403 CCAGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
98468 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
131 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
98533 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
196 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
98598 TGACCCGAAGGTTTTTG-AAACATCAAAAAGCTCCCGAAGGCTT
261 TGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
98641 TTTTGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
98705 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
*
98770 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTGAAGG
131 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
98835 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
196 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
*
98900 TGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
261 TGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
98943 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTTGAAAACATCAAAAAGC
99008 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
65 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAA
* *
99073 CATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAA
129 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
*
99138 GGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTAC
194 GG-CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTAC
99203 AGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
258 AGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
99250 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
99315 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
99362 GGGAAATAGT
Statistics
Matches: 703, Mismatches: 12, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
301 4 0.01
302 289 0.41
303 50 0.07
304 75 0.11
305 67 0.10
306 142 0.20
307 76 0.11
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (304 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
TGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
Found at i:99066 original size:153 final size:151
Alignment explanation
Indices: 98338--99361 Score: 1888
Period size: 153 Copynumber: 6.7 Consensus size: 151
98328 GATGGAAATG
* *
98338 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
98403 CCAGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
98468 TCAAAAAGCTCCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
98489 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
98554 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAC
98619 ATCAAAAAGCTCCCGAAGGCTT
130 ATCAAAAAGCTCCCGAAGGCTT
*
98641 TTTTGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
98705 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
98770 TCAAAAAGCTCCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
*
98791 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
98856 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAAC
98921 ATCAAAAAGCTCCCGAAGGCTT
130 ATCAAAAAGCTCCCGAAGGCTT
98943 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTTGAAAACATCAAAAAGC
99008 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
65 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAA
*
99073 CATCAAAAAGCTCCTGAAGGCTT
129 CATCAAAAAGCTCCCGAAGGCTT
* *
99096 TTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGC
*
99161 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAA
65 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTG-AA
99226 ACATCAAAAAGCTCCCGAAGGCTT
128 ACATCAAAAAGCTCCCGAAGGCTT
99250 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
99315 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
99362 GGGAAATAGT
Statistics
Matches: 851, Mismatches: 16, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
150 77 0.09
151 262 0.31
152 148 0.17
153 291 0.34
154 73 0.09
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (151 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACA
TCAAAAAGCTCCCGAAGGCTT
Found at i:99387 original size:76 final size:76
Alignment explanation
Indices: 98338--99361 Score: 1894
Period size: 76 Copynumber: 13.5 Consensus size: 76
98328 GATGGAAATG
* *
98338 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
98403 CCAGAAGGCTT
66 CCCGAAGGCTT
98414 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
98478 CCCGAAGGCTT
66 CCCGAAGGCTT
98489 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
98554 CCCGAAGGCTT
66 CCCGAAGGCTT
*
98565 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTG-AAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGC
98629 TCCCGAAGGCTT
65 TCCCGAAGGCTT
*
98641 TTTTGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
98705 CCCGAAGGCTT
66 CCCGAAGGCTT
98716 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
98780 CCCGAAGGCTT
66 CCCGAAGGCTT
*
98791 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
98856 CCCGAAGGCTT
66 CCCGAAGGCTT
98867 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
98932 CCCGAAGGCTT
66 CCCGAAGGCTT
98943 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTTGAAAACATCAAAAAGC
99008 TCCCGAAGGCTT
65 TCCCGAAGGCTT
99020 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
99085 CCTGAAGGCTT
66 CCCGAAGGCTT
* *
99096 TTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGC
99161 TCCCGAAGGCTT
65 TCCCGAAGGCTT
*
99173 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGC
99238 TCCCGAAGGCTT
65 TCCCGAAGGCTT
99250 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
99315 CCCGAAGGCTT
66 CCCGAAGGCTT
99326 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
99362 GGGAAATAGT
Statistics
Matches: 928, Mismatches: 15, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
75 226 0.24
76 472 0.51
77 230 0.25
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:100061 original size:22 final size:22
Alignment explanation
Indices: 100036--100090 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
100026 CATAAAGCTT
100036 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
100058 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
100080 TCATCTTTGAA
1 TCATCTTTGAA
100091 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:111084 original size:3 final size:3
Alignment explanation
Indices: 111078--111143 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
111068 AATAATTATT
* *
111078 TAA TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
111123 TAA -ATT TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA
111144 ATTTAAATGA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 3 0.06
3 47 0.89
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:111107 original size:27 final size:25
Alignment explanation
Indices: 111067--111143 Score: 120
Period size: 24 Copynumber: 3.0 Consensus size: 25
111057 TTTGGGCTTG
111067 TAATAATTATTTAATAATAATATACTAA
1 TAATAA-TATTTAATAATAATA-A-TAA
111095 TAATAATATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
111120 TAATAA-ATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
111144 ATTTAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 18 0.37
25 9 0.18
26 1 0.02
27 15 0.31
28 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
TAATAATATTTAATAATAATAATAA
Found at i:115219 original size:25 final size:25
Alignment explanation
Indices: 115191--115243 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
115181 TTTCAATTAA
115191 TTTAAAAGAAAATCATATAATAAGT
1 TTTAAAAGAAAATCATATAATAAGT
* * *
115216 TTTAAAAGATAATTATATGATAAGT
1 TTTAAAAGAAAATCATATAATAAGT
115241 TTT
1 TTT
115244 GACATAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (25 bp):
TTTAAAAGAAAATCATATAATAAGT
Found at i:116593 original size:12 final size:10
Alignment explanation
Indices: 116551--116592 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
116541 TTTTATCACA
116551 TCAAATTCTC
1 TCAAATTCTC
116561 TCAAATTCTC
1 TCAAATTCTC
116571 T-AAATTTCTC
1 TCAAA-TTCTC
*
116581 TCAAATACTC
1 TCAAATTCTC
116591 TC
1 TC
116593 TTTTTAAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.10
10 23 0.79
11 3 0.10
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:116926 original size:110 final size:110
Alignment explanation
Indices: 116716--116935 Score: 379
Period size: 110 Copynumber: 2.0 Consensus size: 110
116706 TGGAAATCAT
*
116716 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCTACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
116781 TATTTAGTTATTTATTTAATGCATGATTATTAGATTAAAAATTAA
66 TAATTAGTTATTCATTTAATGCATGATTATTAGATTAAAAATTAA
116826 ATATCTCTACACTTTGCTGATA-GATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCTACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
116890 TAATTAGTTGATTCATTTAATGTATGATTATTAGATTAAGAATTAA
66 TAATTAGTT-ATTCATTTAATGCATGATTATTAGATTAAAAATTAA
116936 TTTTTGTAAT
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
109 49 0.47
110 55 0.53
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (110 bp):
ATATCTCTACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTATTCATTTAATGCATGATTATTAGATTAAAAATTAA
Found at i:118795 original size:3 final size:3
Alignment explanation
Indices: 118787--118821 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
118777 ACCTGCGTAA
* *
118787 GAC GAC GAC GAC AAC GAC GAC GAC GAT GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
118822 TGGTGATGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.37, C:0.29, G:0.31, T:0.03
Consensus pattern (3 bp):
GAC
Found at i:122907 original size:2 final size:2
Alignment explanation
Indices: 122900--122940 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
122890 TTGGCATCTA
122900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122941 CACACACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123223 original size:23 final size:23
Alignment explanation
Indices: 123197--123253 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
123187 ATCAAGTAAA
*
123197 ATAA-CAAATTAGGTAGCGCTTAT
1 ATAATCAAA-TAGGTAACGCTTAT
**
123220 ATAATGTAATAGGTAACGCTTAT
1 ATAATCAAATAGGTAACGCTTAT
*
123243 ATAATAAAATA
1 ATAATCAAATA
123254 AGTTAATTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.32
Consensus pattern (23 bp):
ATAATCAAATAGGTAACGCTTAT
Found at i:123322 original size:23 final size:23
Alignment explanation
Indices: 123296--123343 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
123286 AACATATTAT
* **
123296 GTAGCGTTTATATAATGTAATAG
1 GTAGCGCTTATATAATAAAATAG
123319 GTAGCGCTTATATAATAAAATAG
1 GTAGCGCTTATATAATAAAATAG
123342 GT
1 GT
123344 TAATTACTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAG
Found at i:123330 original size:87 final size:87
Alignment explanation
Indices: 123179--123418 Score: 390
Period size: 87 Copynumber: 2.8 Consensus size: 87
123169 CATTTAACCG
* * *
123179 GAAATATTATCAAGTAAAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGTAACGCTTATA
1 GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
*
123244 TAATAAAATAAGTTAATTACTC
66 TAATAAAATAAGTTAATTACTA
* * * *
123266 GAAACATTATCAAGCACAATAACATATTATGTAGCGTTTATATAATGTAATAGGTAGCGCTTATA
1 GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
*
123331 TAATAAAATAGGTTAATTACTA
66 TAATAAAATAAGTTAATTACTA
*
123353 GAAATATTATCAAGTACAATAACATATCAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
1 GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
123418 T
66 T
123419 TAACCTATTC
Statistics
Matches: 139, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 139 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (87 bp):
GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
TAATAAAATAAGTTAATTACTA
Found at i:123397 original size:23 final size:23
Alignment explanation
Indices: 123371--123418 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
123361 ATCAAGTACA
123371 ATAACAT-ATCAGGTAGCGCTTAT
1 ATAACATAAT-AGGTAGCGCTTAT
**
123394 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
123417 AT
1 AT
123419 TAACCTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:123770 original size:198 final size:198
Alignment explanation
Indices: 123459--124093 Score: 875
Period size: 198 Copynumber: 3.2 Consensus size: 198
123449 TATACCAGTA
* * *
123459 ACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATAC-TTTT
* *
123524 --TAAATGTATTGACACTTTATGCGTGCACCTCGTTGGGCATTTATTCTGGAAAAAAGTATCGAC
65 AATAAATGTATCGACACTTTATGCGTGCACCTCGTT-GGCATTCATTCTGGAAAAAAGTATCGAC
** *
123587 ACAAACTTAAAACATGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGATATATTTCTAC
129 ACAAACTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAATCGATATATTTCTAC
123652 CGGGT
194 CGGGT
* * *
123657 ACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTGGAT-TTTATGGGATCGATACTTTTA
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTA
* *
123721 ATAAATGTATCAACACTTTATGTGTGCACCTCGTTGGACATTCATTCTGGAAAAAAGTATCGACA
66 ATAAATGTATCGACACTTTATGCGTGCACCTCGTTGG-CATTCATTCTGGAAAAAAGTATCGACA
* * * *
123786 CAAACTTAAAATGTATCGATACATTATGTAGATCTATTTTATCATAAAATCAATATATTTCTACC
130 CAAACTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAATCGATATATTTCTACC
*
123851 GAGT
195 GGGT
* *
123855 ACATTGTAAATTTACGTATTACATTGTAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTA
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTA
*
123920 ATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAATGTATCGAC
66 ATAAATGTATCGACACTTTATGCGTGCACCTCG-TTGGCATTCATTCTGGA-AAAAAGTATCGAC
*** * ** * * *
123985 AC-TTTTTAAATTTGTGTCGATACATTACATA-AGCCTATTCTCTCATAAAATCGGTATATTTAT
129 ACAAACTTAAA-ATGTGTCGATACATTATGTAGA-CCTATTTTCTCATAAAATCGATATATTTCT
* *
124048 ACTGGTT
192 ACCGGGT
*
124055 ACATTGTAAATTTATCTATTACATTATAATTATCGGTTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTT
124094 TGAAGTAACA
Statistics
Matches: 387, Mismatches: 42, Indels: 14
0.87 0.09 0.03
Matches are distributed among these distances:
196 3 0.01
197 17 0.04
198 199 0.51
199 70 0.18
200 98 0.25
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTA
ATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGCATTCATTCTGGAAAAAAGTATCGACAC
AAACTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAATCGATATATTTCTACCG
GGT
Found at i:124235 original size:14 final size:16
Alignment explanation
Indices: 124199--124243 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
124189 ATTATAATAA
124199 ATAATAAATATAATTT
1 ATAATAAATATAATTT
*
124215 ATAATAAAT-TTATTT
1 ATAATAAATATAATTT
124230 -TAATAAAATATAAT
1 ATAAT-AAATATAAT
124244 AATCATAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 4 0.16
15 9 0.36
16 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATAAATATAATTT
Found at i:126466 original size:18 final size:18
Alignment explanation
Indices: 126443--126488 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
126433 ATCGGTCAAC
126443 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
126461 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
126479 GGTCAACGGG
1 GGTCAACGGG
126489 GGGTAAACGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.22, G:0.50, T:0.15
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:126535 original size:10 final size:10
Alignment explanation
Indices: 126513--126588 Score: 111
Period size: 10 Copynumber: 7.6 Consensus size: 10
126503 ACGGGTTGTG
126513 ACCGGTC-AA
1 ACCGGTCAAA
126522 ACCGGTCAAA
1 ACCGGTCAAA
126532 ACCGGTTCAAA
1 ACCGG-TCAAA
126543 ACCGGTCAAA
1 ACCGGTCAAA
126553 ACCGGTTCAAA
1 ACCGG-TCAAA
*
126564 ACCGGT-TAA
1 ACCGGTCAAA
126573 ACCGGTCAAA
1 ACCGGTCAAA
126583 ACCGGT
1 ACCGGT
126589 TTCCAGCGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
9 15 0.25
10 26 0.43
11 20 0.33
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:126546 original size:21 final size:20
Alignment explanation
Indices: 126513--126588 Score: 111
Period size: 21 Copynumber: 3.8 Consensus size: 20
126503 ACGGGTTGTG
126513 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGTCAAA
126532 ACCGGTTCAAAACCGGTCAAA
1 ACCGG-TCAAAACCGGTCAAA
*
126553 ACCGGTTCAAAACCGGT-TAA
1 ACCGG-TCAAAACCGGTCAAA
126573 ACCGGTCAAAACCGGT
1 ACCGGTCAAAACCGGT
126589 TTCCAGCGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
19 16 0.30
20 9 0.17
21 29 0.54
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (20 bp):
ACCGGTCAAAACCGGTCAAA
Found at i:132285 original size:8 final size:8
Alignment explanation
Indices: 132272--132296 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
132262 TCAGAGGTTT
132272 TTTTTTTA
1 TTTTTTTA
132280 TTTTTTTA
1 TTTTTTTA
132288 TTTTTTTA
1 TTTTTTTA
132296 T
1 T
132297 ATATATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:133743 original size:8 final size:8
Alignment explanation
Indices: 133723--133788 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
133713 TAATAGCATC
133723 GGTCAAC-
1 GGTCAACG
133730 GGTCAACG
1 GGTCAACG
133738 GGTCAACG
1 GGTCAACG
**
133746 GGTCGGGTCG
1 GGTC--AACG
133756 GGTCAACG
1 GGTCAACG
133764 GGT---CG
1 GGTCAACG
*
133769 GGTAAACG
1 GGTCAACG
*
133777 GGTAAACG
1 GGTCAACG
133785 GGTC
1 GGTC
133789 GTGACCGGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.10
7 7 0.15
8 30 0.62
10 6 0.12
ACGTcount: A:0.21, C:0.21, G:0.42, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:133754 original size:13 final size:13
Alignment explanation
Indices: 133749--133779 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
133739 GTCAACGGGT
*
133749 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
133762 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
133775 CGGGT
1 CGGGT
133780 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:133759 original size:18 final size:18
Alignment explanation
Indices: 133736--133771 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
133726 CAACGGTCAA
133736 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
133754 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
133772 AAACGGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:133805 original size:10 final size:10
Alignment explanation
Indices: 133792--133858 Score: 91
Period size: 10 Copynumber: 6.6 Consensus size: 10
133782 ACGGGTCGTG
133792 ACCGGTCAAA
1 ACCGGTCAAA
133802 ACCGGTTCAAA
1 ACCGG-TCAAA
133813 ACCGGTCAAA
1 ACCGGTCAAA
133823 ACCGGTTCAAA
1 ACCGG-TCAAA
*
133834 ACCGGT-TAA
1 ACCGGTCAAA
*
133843 ACCAGTCAAA
1 ACCGGTCAAA
133853 ACCGGT
1 ACCGGT
133859 TTCCAGCATT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
9 7 0.14
10 23 0.46
11 20 0.40
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:133813 original size:11 final size:11
Alignment explanation
Indices: 133792--133859 Score: 92
Period size: 11 Copynumber: 6.6 Consensus size: 11
133782 ACGGGTCGTG
133792 ACCGG-TCAAA
1 ACCGGTTCAAA
133802 ACCGGTTCAAA
1 ACCGGTTCAAA
133813 ACCGG-TCAAA
1 ACCGGTTCAAA
133823 ACCGGTTCAAA
1 ACCGGTTCAAA
133834 ACCGGTT--AA
1 ACCGGTTCAAA
*
133843 ACCAG-TCAAA
1 ACCGGTTCAAA
133853 ACCGGTT
1 ACCGGTT
133860 TCCAGCATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
8 1 0.02
9 6 0.12
10 21 0.41
11 23 0.45
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.16
Consensus pattern (11 bp):
ACCGGTTCAAA
Found at i:133816 original size:21 final size:21
Alignment explanation
Indices: 133792--133858 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
133782 ACGGGTCGTG
133792 ACCGGTCAAAACCGGTTCAAA
1 ACCGGTCAAAACCGGTTCAAA
133813 ACCGGTCAAAACCGGTTCAAA
1 ACCGGTCAAAACCGGTTCAAA
* *
133834 ACCGGT-TAAACCAG-TCAAA
1 ACCGGTCAAAACCGGTTCAAA
133853 ACCGGT
1 ACCGGT
133859 TTCCAGCATT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.25
20 6 0.14
21 27 0.61
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.15
Consensus pattern (21 bp):
ACCGGTCAAAACCGGTTCAAA
Found at i:134732 original size:28 final size:31
Alignment explanation
Indices: 134651--134733 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 31
134641 ATAAAAATAA
* *
134651 AAAATATAAT-TTATAATAATTTATTTTAAT
1 AAAATATAATAATATAATATTTTATTTTAAT
*
134681 AAAATATAATAATCATAATTTTTTA-TTT-AT
1 AAAATATAATAAT-ATAATATTTTATTTTAAT
134711 AAAAT-T-ATAGATATAATATTTTA
1 AAAATATAATA-ATATAATATTTTA
134734 ATAATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 13 0.28
29 3 0.07
30 17 0.37
31 4 0.09
32 9 0.20
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
AAAATATAATAATATAATATTTTATTTTAAT
Found at i:134740 original size:14 final size:14
Alignment explanation
Indices: 134659--134759 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
134649 AAAAAATATA
*
134659 ATTTATAATAAT-TT
1 ATTT-TAATAATAAT
134673 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
134686 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
134700 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
134714 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
134728 ATTTTAATAATAAT
1 ATTTTAATAATAAT
134742 A-TTTACATAAATAAT
1 ATTTTA-AT-AATAAT
134757 ATT
1 ATT
134760 AAATAAATTA
Statistics
Matches: 65, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
13 20 0.31
14 36 0.55
15 8 0.12
16 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:134740 original size:28 final size:28
Alignment explanation
Indices: 134672--134740 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
134662 TATAATAATT
*
134672 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
134699 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
134727 TATTTTAATAATAA
1 TATTTTAATAATAA
134741 TATTTACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:134765 original size:14 final size:15
Alignment explanation
Indices: 134723--134767 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
134713 AATTATAGAT
*
134723 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
*
134737 ATAATATTTACATAA
1 ATAATATTTAAATAA
134752 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
134766 AT
1 AT
134768 TATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:134827 original size:24 final size:24
Alignment explanation
Indices: 134776--134827 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
134766 ATTATTCTAA
134776 TATT-TTAAAAATAATAATATTAT
1 TATTGTTAAAAATAATAATATTAT
*
134799 T-TTGTTAATAAATAATAATGTT-T
1 TATTGTTAA-AAATAATAATATTAT
134822 TATTGT
1 TATTGT
134828 ATTTGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (24 bp):
TATTGTTAAAAATAATAATATTAT
Found at i:135107 original size:23 final size:23
Alignment explanation
Indices: 135081--135130 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
135071 ATCTATTTTA
*
135081 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
* *
135104 TTATATAAGCGTTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
135127 TTAT
1 TTAT
135131 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:135193 original size:23 final size:23
Alignment explanation
Indices: 135158--135208 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
135148 CCAGTAATTA
**
135158 ACCTATTTTATTATAAAAGCGCT
1 ACCTATTACATTATAAAAGCGCT
* *
135181 ACCTATTACATTATATAAGCGGT
1 ACCTATTACATTATAAAAGCGCT
135204 ACCTA
1 ACCTA
135209 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (23 bp):
ACCTATTACATTATAAAAGCGCT
Done.