Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019366.1 Corchorus olitorius cultivar O-4 contig19399, 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: 121605
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:4359 original size:15 final size:16
Alignment explanation
Indices: 4341--4370 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4331 ATAAATAATA
4341 ATATTATAAT-TAAAT
1 ATATTATAATCTAAAT
4356 ATATTATAATCTAAA
1 ATATTATAATCTAAA
4371 AATAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTATAATCTAAAT
Found at i:7901 original size:337 final size:333
Alignment explanation
Indices: 6289--8446 Score: 1812
Period size: 337 Copynumber: 6.5 Consensus size: 333
6279 ATCCAAGCCA
* * * * *
6289 TTGTTTTTACAAGCA-TCTGAATCATGTTTCGTTTTAATTATAAATTAATTTCGAATAAAATATG
1 TTGTTTTTACGAGCATTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTT-GAAAAAAATA-G
* *
6353 --AAAACTGATATTAGAAGTGTGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATAATTTTT
64 AAAAAAC-GATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATAT-ATTTTT
* * * * *
6416 TATGAGTATTGTGGCTAAAAATTGAGAAAAACATATTTCGGGTCAATTTTTGCAAAATATTAGCC
127 TATGAGTATTTTGTCTAAAAATTGAGGAAAA-ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCC
* * * * * *
6481 GAAAGCG-CA-TAA-CATCACAGTTTTTTTTGGCTAAAAACACGTTCCGGGGCCACGGGTCAATT
191 GAAATCGTTACTAACCATCAC-G-GTTTTTTGGCTAAAAACGCGTTCC-GGGCCACGGCTCAGTT
* * * * *
6543 GTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATATATCTATATTTATTTAATCAAATCTCAG
253 TTGCATGATTTTTGGCGCCAAGACTCCTTG--A-ATATATCTATATTCATCTAACCAAATCTCAG
6608 CCACATTGGATTTAAGG-T
315 CCACATTGGATTTAAGGAT
6626 TT-TTTTTACGAGCATCTAAATCTTGAAAAAAAATCTTGTTTCGATTTAATTAGAAATTAATTTG
1 TTGTTTTTACGAGCA--T---TC-TG------AATCTTGTTTCGATTTAATTAGAAATTAATTTG
* * * * * ** *
6690 AAAAAAGTAGGAAAAATGATATTAGAAGTGTAAAAAACCCTTCAATAGTTTTGGTGTTGAATTAT
54 AAAAAAATAGAAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTAT
* * * ***
6755 ATATTTTTTATGAGTATTTT-ACACAAAAATTGAGGAAATATCTTTCTAATCAATTTTTGCAAAA
119 ATATTTTTTATGAGTATTTTGTC-TAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
* * * *
6819 TTTTAGCCGAAATCATGTAAT-A--ATAACGG-TTTTTGGCTAAAAACGCGTTCCAGGGCCTCGG
183 TTTTAGCCGAAATCGT-TACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCC-GGGCCACGG
* * * *
6880 GTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTTG-AGATATC------CA--T-----ATTC
246 CTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAATATATCTATATTCATCTAACCAAATC
* *
6931 TCAGCTATATTGGATTTAAGGAT
311 TCAGCCACATTGGATTTAAGGAT
* *
6954 TTGTTTTTACGAGCA-TCTGAATGTTGTTTCGATTTAATTAGAAATTAA-TTCAAAAAAATATGA
1 TTGTTTTTACGAGCATTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGAAAAAAATA-GA
* * * * * *
7017 AAAAA-GATATGA-AAGCGT-AAAAAGTCC-TCAAACCTTTTTGGCGTTAAATTATATATATTTC
65 AAAAACGATATTAGAAGCGTGAAAAA-CCCTTC-AATCTTTTTGGCGTTGAATTATATATTTTTT
* * ** * * *
7078 ATGAGTATTTTAGTC-AAAAATTGAGGGAAAATATTTTAGATCAATTTTTACAAAATTTTAGTC-
128 ATGAGTATTTT-GTCTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCG
* ** *
7141 AAA--GTT-GTATACCATCACTTTTTTTTTGGCT-AAAACTGTGTTCC-GG----GGC-CAGTTT
192 AAATCGTTACTA-ACCATCAC-GGTTTTTTGGCTAAAAAC-GCGTTCCGGGCCACGGCTCAGTTT
* * * * * * * *
7196 TGCATGATATTTGGTGGCAAAACTCCTTGAA-ATGTCTATATTCATCTGACCAAATCTTAGTCAC
254 TGCATGATTTTTGGCGCCAAGACTCCTTGAATATATCTATATTCATCTAACCAAATCTCAGCCAC
7260 ATTGGATTTAAGGAT
319 ATTGGATTTAAGGAT
* * *
7275 TTGTTTTTACGAGCATT-TGAAT-TATGTTTTGATTGAATTA-AAATTAAGTT-AAAAAATATAA
1 TTGTTTTTACGAGCATTCTGAATCT-TGTTTCGATTTAATTAGAAATTAATTTGAAAAAA-AT-A
* * * ** * *
7336 GCAAAAACGATATTAGATGCGTGAGAAGTCCTTCAGGT-TTTTTGGTGTTGAATTATATATTTTT
63 GAAAAAACGATATTAGAAGCGTGAAAAACCCTTCA-ATCTTTTTGGCGTTGAATTATATATTTTT
* * * * * * * *
7400 TATGAGTAATGTGACTGAAAATTGAGGAAAATAT-TTT-GGGCCTATTTTTGTAAAACTTTAGCC
127 TATGAGTATTTTGTCTAAAAATTGAGGAAAA-ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCC
* * * * * *
7463 GAAATCG-T-GT-ACCATCATGGTTTTTTTGGCTAAAAACGCATTCTGGGGCC-CTGGGTTAGTT
191 GAAATCGTTACTAACCATCACGG-TTTTTTGGCTAAAAACGCGTTC-CGGGCCAC-GGCTCAGTT
* * * * *
7524 TTGAATGATTTTTGACGCAAAGACTCCTTAAAATATATCTATATTAATCTAACCAAATCTCAGCC
253 TTGCATGATTTTTGGCGCCAAGACTCCTT-GAATATATCTATATTCATCTAACCAAATCTCAGCC
* *
7589 ACAATGTATTTAAGGAT
317 ACATTGGATTTAAGGAT
* * * *
7606 TTGTTTTTATGAG-TTTCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAATAAAATAG
1 TTGTTTTTACGAGCATTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTT-GAAA-AAAATAG
* * * *
7670 AAAAAAAAACCGATATTTGAAGCGTGAAAAACTCTTCAGTCTTTTTGGCATTGAATTATAT-TTT
64 ---AAAAAA-CGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTT
* *
7734 GTTTATGAGTATTTTCTCTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTACAAAATTTTAG
125 -TTTATGAGTATTTTGTCTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAG
* * ** * * *
7799 CCGAAATCGTATACTAACCTTCACAG-TTTTCAGCTAAAAGCGCGTTCCGGAGTC-CGGCTCAAT
189 CCGAAATCGT-TACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCCGG-GCCACGGCTCAGT
* * *
7862 TTTGCATGATTTTTTGTGCCAAGACTCATTGAA-ATATCTATATTCATCTAACCAAATCTCAGCC
252 TTTGCATGATTTTTGGCGCCAAGACTCCTTGAATATATCTATATTCATCTAACCAAATCTCAGCC
* * *
7926 ACAATAGATTTAAGAAT
317 ACATTGGATTTAAGGAT
* * *
7943 TTGTTTTTACGAGCATT-TGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGA
1 TTGTTTTTACGAGCATTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGAAAAAAATAGAA
* * * ** *
8007 AAAACAATATTAGAAGCGTTAAAAAGCCCTTCCATCTTTTTGATGTAGAATTATATATTTTTTAT
66 AAAACGATATTAGAAGCGTGAAAAA-CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTAT
* **
8072 GAGTATTTTAG-CCAAAAATTGAGGAATTATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAA
130 GAGTATTTT-GTCTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAA
* * *
8136 ATCGTGTACTAACCATCACGGTTTTTTTTGGCTAAAAACGTGTTTCTAGGGCCACGGCTCTGTTT
194 ATCGT-TACTAACCATCACGG--TTTTTTGGCTAAAAACGCG-TTC-CGGGCCACGGCTCAGTTT
* * * * *
8201 TGCATGATTTTTGGTGCCGAGACTCCTTGAAATATATCTTTATTCATCTAATCAAATCTTAGCCA
254 TGCATGATTTTTGGCGCCAAGACTCCTTG-AATATATCTATATTCATCTAACCAAATCTCAGCCA
8266 CATTGGATTTAAGGAT
318 CATTGGATTTAAGGAT
* * *
8282 TTGTTTTTAAGTGCA-TCTGAATCTTGTTTCGATTTAATTAGAAATTAATTT-AGAAAAATATG-
1 TTGTTTTTACGAGCATTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGAAAAAAATA-GA
* * * * * * * *
8344 AAAAGCGATAAATAAAAGCGTG-AAAATCCTCCAATTTTTTTGGCATTGAATTATATA--TATTA
65 AAAAACGAT-ATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTA
* * *
8406 TGAGTATTTTTTCCAAAAACTGA-GAAAAATCTTTCGGGTCA
129 TGAGTATTTTGTCTAAAAATTGAGGAAAAATCTTTCGGGTCA
8447 TTTATACCAT
Statistics
Matches: 1469, Mismatches: 244, Indels: 219
0.76 0.13 0.11
Matches are distributed among these distances:
308 34 0.02
309 4 0.00
310 1 0.00
311 2 0.00
313 16 0.01
314 89 0.06
315 31 0.02
316 36 0.02
320 14 0.01
321 66 0.04
322 51 0.03
323 67 0.05
324 12 0.01
325 1 0.00
327 22 0.01
328 5 0.00
329 38 0.03
330 4 0.00
331 88 0.06
332 120 0.08
333 5 0.00
334 22 0.01
335 48 0.03
336 31 0.02
337 220 0.15
338 53 0.04
339 129 0.09
340 27 0.02
341 1 0.00
342 9 0.01
343 2 0.00
344 62 0.04
346 35 0.02
347 35 0.02
348 55 0.04
349 34 0.02
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (333 bp):
TTGTTTTTACGAGCATTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGAAAAAAATAGAA
AAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATG
AGTATTTTGTCTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAAT
CGTTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCCGGGCCACGGCTCAGTTTTGCATGA
TTTTTGGCGCCAAGACTCCTTGAATATATCTATATTCATCTAACCAAATCTCAGCCACATTGGAT
TTAAGGAT
Found at i:12184 original size:27 final size:27
Alignment explanation
Indices: 12154--12208 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
12144 CTAAGTTTCC
*
12154 AAGAAATTATAAGGTTACTAGGGAACT
1 AAGAAATTATAAGGTTACGAGGGAACT
**
12181 AAGAAATTATAATTTTACGAGGGAACT
1 AAGAAATTATAAGGTTACGAGGGAACT
12208 A
1 A
12209 CGTACGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.27
Consensus pattern (27 bp):
AAGAAATTATAAGGTTACGAGGGAACT
Found at i:15374 original size:14 final size:14
Alignment explanation
Indices: 15357--15392 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
15347 GGTAGTTTAG
15357 TTTTGAAAAAGTGC
1 TTTTGAAAAAGTGC
15371 TTTTG-AAAAGTGC
1 TTTTGAAAAAGTGC
*
15384 TTTTTAAAA
1 TTTTGAAAA
15393 TTATGTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (14 bp):
TTTTGAAAAAGTGC
Found at i:16189 original size:2 final size:2
Alignment explanation
Indices: 16182--16207 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16172 TGAAGAACAT
16182 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
16208 CATTACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20029 original size:24 final size:24
Alignment explanation
Indices: 20002--20054 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
19992 TTAAATGAAG
20002 AAGGTTATACCAATCTTCTTATTC
1 AAGGTTATACCAATCTTCTTATTC
* *
20026 AAGG-T-TACCATTCTTTTTATTC
1 AAGGTTATACCAATCTTCTTATTC
*
20048 AATGTTA
1 AAGGTTA
20055 CTAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 18 0.75
23 2 0.08
24 4 0.17
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.45
Consensus pattern (24 bp):
AAGGTTATACCAATCTTCTTATTC
Found at i:20040 original size:22 final size:22
Alignment explanation
Indices: 20009--20055 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
19999 AAGAAGGTTA
20009 TACCAATCTTCTTATTCAAGGT
1 TACCAATCTTCTTATTCAAGGT
* * *
20031 TACCATTCTTTTTATTCAATGT
1 TACCAATCTTCTTATTCAAGGT
20053 TAC
1 TAC
20056 TAAAAATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (22 bp):
TACCAATCTTCTTATTCAAGGT
Found at i:22944 original size:5 final size:5
Alignment explanation
Indices: 22931--22967 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
22921 TAATATAAAG
22931 ATATAT ATATT ATATT ATATT ATATT ATATT ATATT A
1 ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT A
22968 AGAGTAGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:24540 original size:13 final size:13
Alignment explanation
Indices: 24522--24546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24512 GATTAGATTG
24522 CAAAAAAAAGAGC
1 CAAAAAAAAGAGC
24535 CAAAAAAAAGAG
1 CAAAAAAAAGAG
24547 TAACTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.12, G:0.16, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAGAGC
Found at i:25436 original size:22 final size:22
Alignment explanation
Indices: 25339--25535 Score: 104
Period size: 22 Copynumber: 9.1 Consensus size: 22
25329 CAAAAAATTG
* * *
25339 TAGGGAGATTAACAAAATCTCA
1 TAGGTAGATTATCAAAATTTCA
* * *
25361 CAGATAGATTATCAAAA-ATCA
1 TAGGTAGATTATCAAAATTTCA
*
25382 TAGG-AAAGTTA-CAAAATTT-A
1 TAGGTAGA-TTATCAAAATTTCA
* * *
25402 TAGGAAAGTTTATTAAAATTTCA
1 TAGG-TAGATTATCAAAATTTCA
* * *
25425 TAGTTAGGTTATCAAAGTTTCA
1 TAGGTAGATTATCAAAATTTCA
* * *
25447 TATGG-AGTTTATCACAATTTTA
1 TA-GGTAGATTATCAAAATTTCA
*
25469 TAGGTA-ATTATAAAAATTTCA
1 TAGGTAGATTATCAAAATTTCA
* *
25490 TATGGT-GGTTATCAAAATTTAA
1 TA-GGTAGATTATCAAAATTTCA
* *
25512 TAGAATA-ATTATTAAAATTTCA
1 TAG-GTAGATTATCAAAATTTCA
25534 TA
1 TA
25536 AAAATATTCA
Statistics
Matches: 130, Mismatches: 33, Indels: 24
0.70 0.18 0.13
Matches are distributed among these distances:
20 12 0.09
21 28 0.22
22 85 0.65
23 5 0.04
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (22 bp):
TAGGTAGATTATCAAAATTTCA
Found at i:25502 original size:43 final size:44
Alignment explanation
Indices: 25433--25535 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 44
25423 CATAGTTAGG
* * * * * *
25433 TTATCAAAGTTTCATATGGAGTTTATCACAATTTTATAG-GTAA
1 TTATAAAAATTTCATATGGAGGTTATCAAAATTTAATAGAATAA
*
25476 TTATAAAAATTTCATATGGTGGTTATCAAAATTTAATAGAATAA
1 TTATAAAAATTTCATATGGAGGTTATCAAAATTTAATAGAATAA
*
25520 TTATTAAAATTTCATA
1 TTATAAAAATTTCATA
25536 AAAATATTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 33 0.65
44 18 0.35
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.42
Consensus pattern (44 bp):
TTATAAAAATTTCATATGGAGGTTATCAAAATTTAATAGAATAA
Found at i:25601 original size:2 final size:2
Alignment explanation
Indices: 25594--25643 Score: 82
Period size: 2 Copynumber: 24.0 Consensus size: 2
25584 CTAAAACTAG
25594 TA TA TA TA TA TA TA CTA GTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
25638 TA TA TA
1 TA TA TA
25644 CCCATCGCAC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
2 42 0.91
3 4 0.09
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:25612 original size:18 final size:18
Alignment explanation
Indices: 25589--25641 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
25579 GAAAGCTAAA
25589 ACTAGTATATATATATAT
1 ACTAGTATATATATATAT
25607 ACTAGTATATATATATAT
1 ACTAGTATATATATATAT
25625 A-TA-TATATATATATAT
1 ACTAGTATATATATATAT
25641 A
1 A
25642 TACCCATCGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.40
17 2 0.06
18 19 0.54
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (18 bp):
ACTAGTATATATATATAT
Found at i:26535 original size:26 final size:26
Alignment explanation
Indices: 26506--26558 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
26496 GCACAAATGA
26506 ATTTAATTAGTGCAA-GATTTTGTAGT
1 ATTTAATTAGTG-AAGGATTTTGTAGT
26532 ATTTAATTAGTGAAGGATTTTGTAGT
1 ATTTAATTAGTGAAGGATTTTGTAGT
26558 A
1 A
26559 ATGACAGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (26 bp):
ATTTAATTAGTGAAGGATTTTGTAGT
Found at i:27343 original size:55 final size:55
Alignment explanation
Indices: 27259--27368 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
27249 TAGGAATATG
*
27259 GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGTAGTGGAAGTTTTGC
1 GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGAAGTGGAAGTTTTGC
27314 GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGAAGTGGAAGTTTTGC
1 GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGAAGTGGAAGTTTTGC
27369 AATTGTCTTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (55 bp):
GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGAAGTGGAAGTTTTGC
Found at i:28241 original size:55 final size:55
Alignment explanation
Indices: 28157--28266 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
28147 TAGGAATATG
*
28157 GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGTAGTGGAAGTTTTGC
1 GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGAAGTGGAAGTTTTGC
28212 GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGAAGTGGAAGTTTTGC
1 GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGAAGTGGAAGTTTTGC
28267 AATTGTCTTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (55 bp):
GAGCAAGAATAAAATTTACAAAGAATGAAATATCTATATGAAGTGGAAGTTTTGC
Found at i:29574 original size:660 final size:662
Alignment explanation
Indices: 28312--29635 Score: 2365
Period size: 660 Copynumber: 2.0 Consensus size: 662
28302 ACAATATTGA
28312 ACATTGAACAAGAATATATTTCATGAATATTATACTTGGTCATTTCCTTCTCATATCTTTGAGCT
1 ACATTGAACAAGAATATATTTCATGAATATTATACTTGGTCATTTCCTTCTCATATCTTTGAGCT
* *
28377 TCTCCTACTGTGAGGTCAGATGCAGTTCGGCTTAACTAATCGGGATTTAATGTGATTATCGAATA
66 TCCCCTACTGTGAGGTCAGATGCAGCTCGGCTTAACTAATCGGGATTTAATGTGATTATCGAATA
**
28442 TCGGAGGATTAGTACAGAAAAAAGGGCTAAATTACCTTTTCCCCTCTTGGGGTTTGGACGTTTTG
131 TCAAAGGATTAGTACAGAAAAAAGGGCTAAATTACCTTTTCCCCTCTTGGGGTTTGGACGTTTTG
*
28507 CTAAGTATGATTGTCGACATTTTGCCTCCTGAACTTTTATTTTAACGGCTCGTTGTCCCTTCTAT
196 CTAAGTATGATTGTCGACATTTTGCCTCCTGAACTTTTATTTTAACGGCTCGTTGTCCCTTCCAT
28572 CAACAAAGTGACTAACGGTGCTGACGTCGACATGCCATCTCAACACCGAGTGACACATAGACTGG
261 CAACAAAGTGACTAACGGTGCTGACGTCGACATGCCATCTCAACACCGAGTGACACATAGACTGG
* * * * *
28637 TCATGAGATGAGAATGTTACGTGAGCGGTGCGTTTTAGGCGTTGGGACATATGATTTAATCGAAT
326 TCATGAGATGAGAATATTACGTGAGCGATGCATTTTAGGAGTTGGGACATATGATTTAATCAAAT
28702 TTTAGATTTTATCGCTTCTCCTTTCACCCGAAAGATTTATATATAGTTCCTGCTAATTTAGGTCT
391 TTTAGATTTTATCGCTTCTCCTTTCACCCGAAAGATTTATATATAGTTCCTGCTAATTTAGGTCT
28767 TGTATTTTTTTTTCTTTGTTAACTTGTTTAGTATTCGAATTTTTTCAATCAAAGTTTTGGATTGG
456 TGTATTTTTTTTTCTTTGTTAACTTGTTTAGTATTCGAATTTTTTCAATCAAAGTTTTGGATTGG
*
28832 AAGATTTAGAGTTAAATTTATCATTTCTGATAAAACATAGAGAAAATAAATGGAGAAGTTGTTTA
521 AAGATTTAGAGTTAAATTTATCATCTCTGATAAAACATAGAGAAAATAAATGGAGAAGTTGTTTA
*
28897 TACAATCTTCTTAAGCCTGATTTGCTGTTCCAAAAATCTAAAAATACTAAAATCTTGTAGAGATA
586 TACAATCTTCTTAAGCCTGATTTGCTGTTCCAAAAATCTAAAAATACTAAAATCTTGTAAAGATA
28962 CTTTAATTACTT
651 CTTTAATTACTT
28974 ACATTGAACAAGAATATATTTCATGAATATTATACTTGGTCATTTCCTTCTCATATCTTTGAGCT
1 ACATTGAACAAGAATATATTTCATGAATATTATACTTGGTCATTTCCTTCTCATATCTTTGAGCT
* * *
29039 TCCCCTACTGTGAGGTTAGATGCTGCTCGGCTTAACTAATCGGGATTTAATGTGATTATCGGATA
66 TCCCCTACTGTGAGGTCAGATGCAGCTCGGCTTAACTAATCGGGATTTAATGTGATTATCGAATA
*
29104 TCAAAGGATTAGTATAGAAAAACAGGGCTAAATTACCTTTTCCCCTCTTGGGGTTTGGACGTTTT
131 TCAAAGGATTAGTACAGAAAAA-AGGGCTAAATTACCTTTTCCCCTCTTGGGGTTTGGACGTTTT
*
29169 GCTAAGTATGATTGTCGACATTTTGCCTCCTGAACTTTTA-TTTGAC-G-TCGTTGTCCCTTCCA
195 GCTAAGTATGATTGTCGACATTTTGCCTCCTGAACTTTTATTTTAACGGCTCGTTGTCCCTTCCA
29231 TCAACAAAGTGACTAACGGTGCTGACGTCGACATGCCATCTCAACACCGAGTGACACATAGACTG
260 TCAACAAAGTGACTAACGGTGCTGACGTCGACATGCCATCTCAACACCGAGTGACACATAGACTG
29296 GTCATGAGATGAGAATATTACGTGAGCGATGCATTTTAGGAGTTGGGACAATATGATTTAATCAA
325 GTCATGAGATGAGAATATTACGTGAGCGATGCATTTTAGGAGTTGGGAC-ATATGATTTAATCAA
*
29361 ATTTTAGA-TTTATCGCTTCTCTTTTCACCCGAAAGATTTATATATAGTTCCTGCTAATTTAGGT
389 ATTTTAGATTTTATCGCTTCTCCTTTCACCCGAAAGATTTATATATAGTTCCTGCTAATTTAGGT
29425 CTTGTAACTTCTTTTTTTCTTTGTTAACTTGTTTAGTATTCGAA-TTTTTCAATCAAAGTTTTGG
454 CTTGT-A-TT-TTTTTTTCTTTGTTAACTTGTTTAGTATTCGAATTTTTTCAATCAAAGTTTTGG
* * *
29489 ATT-GAAGATTTAGAGTTGATTTTATCATCTCTGATAAAACATAGGGAAAATAAATGGAGAA-TT
516 ATTGGAAGATTTAGAGTTAAATTTATCATCTCTGATAAAACATAGAGAAAATAAATGGAGAAGTT
29552 GTTTATACAATCTTCTTAAGCCTGATTTGCTGTTCCAAAAATCTAAAAATACTAAAATCTTGTAA
581 GTTTATACAATCTTCTTAAGCCTGATTTGCTGTTCCAAAAATCTAAAAATACTAAAATCTTGTAA
29617 AGATACTTTAATTACTT
646 AGATACTTTAATTACTT
29634 AC
1 AC
29636 TTTGTTGTTT
Statistics
Matches: 636, Mismatches: 21, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
660 269 0.42
661 78 0.12
662 174 0.27
663 115 0.18
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (662 bp):
ACATTGAACAAGAATATATTTCATGAATATTATACTTGGTCATTTCCTTCTCATATCTTTGAGCT
TCCCCTACTGTGAGGTCAGATGCAGCTCGGCTTAACTAATCGGGATTTAATGTGATTATCGAATA
TCAAAGGATTAGTACAGAAAAAAGGGCTAAATTACCTTTTCCCCTCTTGGGGTTTGGACGTTTTG
CTAAGTATGATTGTCGACATTTTGCCTCCTGAACTTTTATTTTAACGGCTCGTTGTCCCTTCCAT
CAACAAAGTGACTAACGGTGCTGACGTCGACATGCCATCTCAACACCGAGTGACACATAGACTGG
TCATGAGATGAGAATATTACGTGAGCGATGCATTTTAGGAGTTGGGACATATGATTTAATCAAAT
TTTAGATTTTATCGCTTCTCCTTTCACCCGAAAGATTTATATATAGTTCCTGCTAATTTAGGTCT
TGTATTTTTTTTTCTTTGTTAACTTGTTTAGTATTCGAATTTTTTCAATCAAAGTTTTGGATTGG
AAGATTTAGAGTTAAATTTATCATCTCTGATAAAACATAGAGAAAATAAATGGAGAAGTTGTTTA
TACAATCTTCTTAAGCCTGATTTGCTGTTCCAAAAATCTAAAAATACTAAAATCTTGTAAAGATA
CTTTAATTACTT
Found at i:29989 original size:132 final size:131
Alignment explanation
Indices: 29839--30101 Score: 454
Period size: 132 Copynumber: 2.0 Consensus size: 131
29829 TATCTAATTG
29839 GTCAAAATAATTAGCTAGTTTTATTTTTATTTCCCAAATTCAATCCAATTATTGTTTACAGAACA
1 GTCAAAATAATTAGCTAGTTTTATTTTTATTTCCCAAATTCAATCCAATTATTGTTTACAGAACA
* *
29904 ATTTTAAAAAAAATAAAAAAAAAGAAATCGATTGAATATCAAATGACTGATGAACATGATCATAT
66 ATTTTAAAAAAAAT-AAAAAAAAGAAATCGATTGAATATCAAATGACTGAAGAACATGACCATAT
29969 TT
130 TT
* *
29971 GTCAAAATAATTAGCTAGTTTTATTTTTATTTTCCAAATTCAATCCAATTTTTGTTTACAGAACA
1 GTCAAAATAATTAGCTAGTTTTATTTTTATTTCCCAAATTCAATCCAATTATTGTTTACAGAACA
* * *
30036 ATTTTAAAAAAAATACAAAAAAGAAATCGATTGAATATCAGATGACTGAAGAACATGGCCATATT
66 ATTTTAAAAAAAATAAAAAAAAGAAATCGATTGAATATCAAATGACTGAAGAACATGACCATATT
30101 T
131 T
30102 AATTTGTAAA
Statistics
Matches: 124, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
131 47 0.38
132 77 0.62
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (131 bp):
GTCAAAATAATTAGCTAGTTTTATTTTTATTTCCCAAATTCAATCCAATTATTGTTTACAGAACA
ATTTTAAAAAAAATAAAAAAAAGAAATCGATTGAATATCAAATGACTGAAGAACATGACCATATT
T
Found at i:35732 original size:72 final size:72
Alignment explanation
Indices: 35606--35749 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
35596 CGAGTTCTTA
35606 AAGGAGCAAGGACGATGTCATCATGAGGGGGTGGCTGAGAGGCAGAGACACCGGAAGAGTTAGAG
1 AAGGAGCAAGGACGATGTCATCATGAGGGGGTGGCTGAGAGGCAGAGACACCGGAAGAGTTAGAG
35671 GCAGAGG
66 GCAGAGG
* *
35678 AAGGGGCAAGGACGATGTCATCATGAGGGGGTGGCTGAGAGGCAGAGACGCCGGAAGAGTTAGAG
1 AAGGAGCAAGGACGATGTCATCATGAGGGGGTGGCTGAGAGGCAGAGACACCGGAAGAGTTAGAG
35743 GCAGAGG
66 GCAGAGG
35750 TGGCGGCAGG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.31, C:0.14, G:0.44, T:0.11
Consensus pattern (72 bp):
AAGGAGCAAGGACGATGTCATCATGAGGGGGTGGCTGAGAGGCAGAGACACCGGAAGAGTTAGAG
GCAGAGG
Found at i:36638 original size:22 final size:22
Alignment explanation
Indices: 36609--36794 Score: 115
Period size: 22 Copynumber: 8.5 Consensus size: 22
36599 TGAATATTTT
36609 TATGAAATTTTGATAACTATCC
1 TATGAAATTTTGATAACTATCC
* *
36631 TATTAAATTTTGATAA-TCA-CGT
1 TATGAAATTTTGATAACT-ATC-C
* *
36653 TATGAAATTCTGATAATTA-CC
1 TATGAAATTTTGATAACTATCC
*
36674 TATGAAATTGTGATAA--ACTCC
1 TATGAAATTTTGATAACTA-TCC
*
36695 ATATGAAATTTTGATAACCTA-AC
1 -TATGAAATTTTGATAA-CTATCC
* *
36718 TATTAAATTTTAATAAACCT-TCC
1 TATGAAATTTTGAT-AA-CTATCC
36741 TATGAAATTTTG-TAACCT-TCC
1 TATGAAATTTTGATAA-CTATCC
* *
36762 TATG-ATTTTTGATAACCT-CCC
1 TATGAAATTTTGATAA-CTATCC
*
36783 TATGAGATTTTG
1 TATGAAATTTTG
36795 TTAATCTCCC
Statistics
Matches: 134, Mismatches: 17, Indels: 26
0.76 0.10 0.15
Matches are distributed among these distances:
19 1 0.01
20 6 0.04
21 43 0.32
22 65 0.49
23 18 0.13
25 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.41
Consensus pattern (22 bp):
TATGAAATTTTGATAACTATCC
Found at i:36700 original size:43 final size:44
Alignment explanation
Indices: 36609--36712 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 44
36599 TGAATATTTT
* * * **
36609 TATGAAATTTTGATAACTATCCTATTAAATTTTGATAATCACGT
1 TATGAAATTTTGATAACTATCCTATGAAATTGTGATAAACACCA
* * *
36653 TATGAAATTCTGATAATTA-CCTATGAAATTGTGATAAACTCCA
1 TATGAAATTTTGATAACTATCCTATGAAATTGTGATAAACACCA
36696 TATGAAATTTTGATAAC
1 TATGAAATTTTGATAAC
36713 CTAACTATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 33 0.66
44 17 0.34
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (44 bp):
TATGAAATTTTGATAACTATCCTATGAAATTGTGATAAACACCA
Found at i:36803 original size:22 final size:20
Alignment explanation
Indices: 36733--36813 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 20
36723 AATTTTAATA
*
36733 AACCTTCCTATGAAATTTTGT
1 AACCTCCCTATG-AATTTTGT
* *
36754 AACCTTCCTATGATTTTTGAT
1 AACCTCCCTATGAATTTTG-T
36775 AACCTCCCTATGAGATTTTGTT
1 AACCTCCCTATGA-ATTTTG-T
*
36797 AATCTCCCTAT-AATTTT
1 AACCTCCCTATGAATTTT
36814 TTGATACTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.21
21 26 0.49
22 16 0.30
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (20 bp):
AACCTCCCTATGAATTTTGT
Found at i:36815 original size:22 final size:22
Alignment explanation
Indices: 36748--36819 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
36738 TCCTATGAAA
* *
36748 TTTTG-TAACCTTCCTATGA-T
1 TTTTGATAACCTCCCTATAAGT
* *
36768 TTTTGATAACCTCCCTATGAGA
1 TTTTGATAACCTCCCTATAAGT
* * *
36790 TTTTGTTAATCTCCCTATAATT
1 TTTTGATAACCTCCCTATAAGT
36812 TTTTGATA
1 TTTTGATA
36820 CTATAGTATG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 5 0.12
21 13 0.31
22 24 0.57
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.49
Consensus pattern (22 bp):
TTTTGATAACCTCCCTATAAGT
Found at i:37121 original size:45 final size:45
Alignment explanation
Indices: 37053--37138 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
37043 GGCAATCTAA
*
37053 TCCGGTTTAGCTCTTATAATATGATTATACGTTTAAAAATTCAAC
1 TCCGGTTTAGCTCTTATAATATGATTATACATTTAAAAATTCAAC
* * *
37098 TCCGGTTTAGTTCTTATAGTATGATTATACATTTACAAATT
1 TCCGGTTTAGCTCTTATAATATGATTATACATTTAAAAATT
37139 TAAATCCTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (45 bp):
TCCGGTTTAGCTCTTATAATATGATTATACATTTAAAAATTCAAC
Found at i:44545 original size:27 final size:26
Alignment explanation
Indices: 44490--44551 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
44480 TCTAAATTTC
44490 TATTATTTTAATAATGGAATAATTAAAA
1 TATTA-TTTAATAATGGAAT-ATTAAAA
*
44518 TATTATTTAGTAATGGCAAT-TTAGAAA
1 TATTATTTAATAATGG-AATATTA-AAA
44545 TA-TATTT
1 TATTATTT
44552 GAAAAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 8 0.26
27 15 0.48
28 8 0.26
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (26 bp):
TATTATTTAATAATGGAATATTAAAA
Found at i:44610 original size:2 final size:2
Alignment explanation
Indices: 44603--44632 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
44593 TTCGTATTTT
44603 TA TA TA TA GTA 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
44633 TGTTTTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49691 original size:51 final size:51
Alignment explanation
Indices: 49631--49729 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
49621 GCGGTTTCTA
49631 CTGAAGCCTATACATAGAGGCGGCTTATATTATTACTAGTAAAGGTACGTG
1 CTGAAGCCTATACATAGAGGCGGCTTATATTATTACTAGTAAAGGTACGTG
* *
49682 CTGAAGCCTATATATAGAGGCGGCTTATATTATTATTAGTAAAGGTAC
1 CTGAAGCCTATACATAGAGGCGGCTTATATTATTACTAGTAAAGGTAC
49730 AGGTACGTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (51 bp):
CTGAAGCCTATACATAGAGGCGGCTTATATTATTACTAGTAAAGGTACGTG
Found at i:50770 original size:31 final size:31
Alignment explanation
Indices: 50713--50771 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
50703 TTCGGCTCAT
* *
50713 CTGGATTCAGGTCATTCGGGTCTCGGGTCTG
1 CTGGATTCAGGTCATGCAGGTCTCGGGTCTG
*
50744 CTGGATTTAGGGTCATGCAGGT-TCGGGT
1 CTGGATTCA-GGTCATGCAGGTCTCGGGT
50772 TTTGGCCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 14 0.58
32 10 0.42
ACGTcount: A:0.12, C:0.19, G:0.37, T:0.32
Consensus pattern (31 bp):
CTGGATTCAGGTCATGCAGGTCTCGGGTCTG
Found at i:53096 original size:28 final size:28
Alignment explanation
Indices: 53043--53097 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
53033 TAATAACTTC
**
53043 TAAAGCTTTTTAATTTATTTTTTTTAAA
1 TAAAGCTTTTTAATTTATTTAGTTTAAA
53071 TAAAGCTTTTTAATTT-TATTAGTTTAA
1 TAAAGCTTTTTAATTTAT-TTAGTTTAA
53098 TATTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (28 bp):
TAAAGCTTTTTAATTTATTTAGTTTAAA
Found at i:53838 original size:31 final size:30
Alignment explanation
Indices: 53800--53906 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 30
53790 TTAGGCTAAT
53800 TGCTCAAATAAGGGCCTAACGTTTGGTAAAA
1 TGCTCAAATAAGGGCCTAACGTTT-GTAAAA
* * **
53831 TGCTCAAATAAGGGCATGATC-TTT-TAATT
1 TGCTCAAATAAGGGCCT-AACGTTTGTAAAA
*
53860 TGGC-CAAATAAGGGCCTAACGTTTGCCAAAA
1 T-GCTCAAATAAGGGCCTAACGTTTG-TAAAA
* *
53891 TACTCAGATAAGGGCC
1 TGCTCAAATAAGGGCC
53907 CGATCTTTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
28 2 0.03
29 19 0.32
30 3 0.05
31 33 0.56
32 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (30 bp):
TGCTCAAATAAGGGCCTAACGTTTGTAAAA
Found at i:53902 original size:60 final size:60
Alignment explanation
Indices: 53804--53929 Score: 198
Period size: 60 Copynumber: 2.1 Consensus size: 60
53794 GCTAATTGCT
** * *
53804 CAAATAAGGGCCTAACGTTTGGTAAAATGCTCAAATAAGGGCATGATCTTTTAATTTGGC
1 CAAATAAGGGCCTAACGTTTGCCAAAATACTCAAATAAGGGCACGATCTTTTAATTTGGC
* *
53864 CAAATAAGGGCCTAACGTTTGCCAAAATACTCAGATAAGGGCCCGATCTTTTAATTTGGC
1 CAAATAAGGGCCTAACGTTTGCCAAAATACTCAAATAAGGGCACGATCTTTTAATTTGGC
53924 CAAATA
1 CAAATA
53930 GTCTCCTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (60 bp):
CAAATAAGGGCCTAACGTTTGCCAAAATACTCAAATAAGGGCACGATCTTTTAATTTGGC
Found at i:54069 original size:31 final size:31
Alignment explanation
Indices: 54028--54191 Score: 221
Period size: 31 Copynumber: 5.4 Consensus size: 31
54018 TTGATGCCAT
54028 GCCCTTATTTGAGCATTTTCGATAACGTTAG
1 GCCCTTATTTGAGCATTTTCGATAACGTTAG
*
54059 GCTCTTATTTGAGCATTTTCGATAACGTTAG
1 GCCCTTATTTGAGCATTTTCGATAACGTTAG
54090 GCCCTTATTTGAGCATTTTCGATAACGTTAG
1 GCCCTTATTTGAGCATTTTCGATAACGTTAG
** *
54121 GCCCTTATTTG-GCTAAATT--A-AAAGATT-G
1 GCCCTTATTTGAGC-ATTTTCGATAACG-TTAG
*
54149 ACCCCTTATTTGAGCATTTTCGATAACGTTAG
1 -GCCCTTATTTGAGCATTTTCGATAACGTTAG
54181 GCCCTTATTTG
1 GCCCTTATTTG
54192 GCCAAATTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.03
29 16 0.14
30 4 0.03
31 87 0.76
32 4 0.03
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (31 bp):
GCCCTTATTTGAGCATTTTCGATAACGTTAG
Found at i:54184 original size:60 final size:59
Alignment explanation
Indices: 54029--54256 Score: 255
Period size: 60 Copynumber: 3.8 Consensus size: 59
54019 TGATGCCATG
* ** * *
54029 CCCTTATTTGAGCATTTTCGATAACGTTAGGCTCTTATTTGAGCATTTTCGATAACG-TT-AGG
1 CCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTG-GCAAATT--A-AAAGATTGA-C
54091 CCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCTAAATTAAAAGATTGAC
1 CCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGC-AAATTAAAAGATTGAC
* **
54151 CCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAGATCGGT
1 CCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGG-CAAATTAAAAGATTGAC
* * *
54211 CCCTTATTTGAGCATTTTGGCA-AATGTTAGACCCTTATTTGAGCAA
1 CCCTTATTTGAGCATTTTCG-ATAACGTTAGGCCCTTATTTG-GCAA
54257 TTAGCCAGAA
Statistics
Matches: 149, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
59 3 0.02
60 97 0.65
61 6 0.04
62 43 0.29
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (59 bp):
CCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCAAATTAAAAGATTGAC
Found at i:54246 original size:91 final size:90
Alignment explanation
Indices: 54028--54255 Score: 225
Period size: 91 Copynumber: 2.5 Consensus size: 90
54018 TTGATGCCAT
* * *
54028 GCCCTTATTTGAGCATTTTCGATAACGTTAGGCTCTTATTTGAGCATTTTCGATAACGTTAGGCC
1 GCCCTTATTTGAGCATTTT-GA-AAAGTTAGACCCTTATTTGAGCATTTTCGATAACGTTAGGCC
** * *
54093 CTTATTTGAGCATTTTCGATAACGTTAG
64 CTTATTTGAGCAAATTC-ATAAAGATAG
**
54121 GCCCTTATTTG-GCTAAATT-AAAAGATT-GACCCCTTATTTGAGCATTTTCGATAACGTTAGGC
1 GCCCTTATTTGAGC-ATTTTGAAAAG-TTAGA-CCCTTATTTGAGCATTTTCGATAACGTTAGGC
*
54183 CCTTATTTG-GCCAAATT-A-AAAGATCG
63 CCTTATTTGAG-CAAATTCATAAAGATAG
*
54209 GTCCCTTATTTGAGCATTTTGGCAAATGTTAGACCCTTATTTGAGCA
1 G-CCCTTATTTGAGCATTTT-G-AAAAGTTAGACCCTTATTTGAGCA
54256 ATTAGCCAGA
Statistics
Matches: 112, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
88 6 0.05
89 14 0.12
90 7 0.06
91 63 0.56
92 8 0.07
93 14 0.12
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (90 bp):
GCCCTTATTTGAGCATTTTGAAAAGTTAGACCCTTATTTGAGCATTTTCGATAACGTTAGGCCCT
TATTTGAGCAAATTCATAAAGATAG
Found at i:55174 original size:31 final size:30
Alignment explanation
Indices: 55123--55208 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 30
55113 TTCTTGGCTG
* * *
55123 AAATCTCAAAT-AGGTCCCCAAACTTTGCCAT
1 AAATCTCAAATAAGG-GCCCAAACTTT-CAAA
*
55154 AAATCTCAAATAAGGGCCCAAA-TTTTAAA
1 AAATCTCAAATAAGGGCCCAAACTTTCAAA
*
55183 AAATGTCAAATAAGGGCCGC-AACTTT
1 AAATCTCAAATAAGGGCC-CAAACTTT
55209 TAGGGAATGC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 20 0.43
30 7 0.15
31 17 0.36
32 3 0.06
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (30 bp):
AAATCTCAAATAAGGGCCCAAACTTTCAAA
Found at i:55196 original size:29 final size:30
Alignment explanation
Indices: 55154--55210 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
55144 ACTTTGCCAT
55154 AAATCTCAAATAAGGGCC-CAAATTTTAAA
1 AAATCTCAAATAAGGGCCGCAAATTTTAAA
* *
55183 AAATGTCAAATAAGGGCCGCAACTTTTA
1 AAATCTCAAATAAGGGCCGCAAATTTTA
55211 GGGAATGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (30 bp):
AAATCTCAAATAAGGGCCGCAAATTTTAAA
Found at i:55358 original size:19 final size:20
Alignment explanation
Indices: 55334--55371 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55324 GAGAGGGAGA
55334 TAATTAA-GGGTTTTTTATG
1 TAATTAATGGGTTTTTTATG
*
55353 TAATTAATGTGTTTTTTAT
1 TAATTAATGGGTTTTTTAT
55372 TTTTAATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (20 bp):
TAATTAATGGGTTTTTTATG
Found at i:56574 original size:22 final size:21
Alignment explanation
Indices: 56549--56618 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
56539 AAAATTCCGA
56549 TAACCTTACCTTAAAATTTTGG
1 TAACCTT-CCTTAAAATTTTGG
*
56571 TAACC-TCCTTATGAAATTTTCG
1 TAACCTTCCTTA--AAATTTTGG
* *
56593 TAA-CTTGCCTTGAAATTCTGG
1 TAACCTT-CCTTAAAATTTTGG
56614 TAACC
1 TAACC
56619 CACCAATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
20 5 0.13
21 12 0.31
22 18 0.46
23 4 0.10
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (21 bp):
TAACCTTCCTTAAAATTTTGG
Found at i:56576 original size:44 final size:43
Alignment explanation
Indices: 56518--56618 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
56508 CCTCCCTATG
** *
56518 AAATTCTCATAACCTCTTTAT-AAAATTCCGATAACCTTACCTTA
1 AAATTCTGGTAACCTCCTTATGAAAATTCCG-TAA-CTTACCTTA
* * * * *
56562 AAATTTTGGTAACCTCCTTATGAAATTTTCGTAACTTGCCTTG
1 AAATTCTGGTAACCTCCTTATGAAAATTCCGTAACTTACCTTA
56605 AAATTCTGGTAACC
1 AAATTCTGGTAACC
56619 CACCAATTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 20 0.43
44 20 0.43
45 7 0.15
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (43 bp):
AAATTCTGGTAACCTCCTTATGAAAATTCCGTAACTTACCTTA
Found at i:56617 original size:43 final size:44
Alignment explanation
Indices: 56516--56618 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
56506 ATCCTCCCTA
** *
56516 TGAAATTCTCATAACCTCTTTATAAAATTCCGATAACCTTACCT
1 TGAAATTCTGGTAACCTCCTTATAAAATTCCGATAACCTTACCT
* * * * *
56560 TAAAATTTTGGTAACCTCCTTATGAAATTTTCG-TAA-CTTGCCT
1 TGAAATTCTGGTAACCTCCTTAT-AAAATTCCGATAACCTTACCT
56603 TGAAATTCTGGTAACC
1 TGAAATTCTGGTAACC
56619 CACCAATTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
43 20 0.42
44 21 0.44
45 7 0.15
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (44 bp):
TGAAATTCTGGTAACCTCCTTATAAAATTCCGATAACCTTACCT
Found at i:56682 original size:22 final size:22
Alignment explanation
Indices: 56650--56834 Score: 98
Period size: 22 Copynumber: 8.5 Consensus size: 22
56640 CTCCATGTGG
56650 AATTTTGGTAATTTCACTATGA
1 AATTTTGGTAATTTCACTATGA
*
56672 AATTTTAGTAATCTTC-C-ATG-
1 AATTTTGGTAAT-TTCACTATGA
* *
56692 AATTCCTT-CTAATTTAACTATG-
1 AATT--TTGGTAATTTCACTATGA
** ** * *
56714 AATTCCGGTAACCTC-CATGTGG
1 AATTTTGGTAATTTCAC-TATGA
56736 AATTTTGGTAATTTCACTATGA
1 AATTTTGGTAATTTCACTATGA
* *
56758 AATTTTAGTAATTT-TCTATGA
1 AATTTTGGTAATTTCACTATGA
* ** *
56779 AATGTTGGTAACCTCCCTATG-
1 AATTTTGGTAATTTCACTATGA
* ** *
56800 AATTTTCGATAACCTCACTATTA
1 AATTTT-GGTAATTTCACTATGA
56823 AATTTTGGTAAT
1 AATTTTGGTAAT
56835 GTAGCAATGA
Statistics
Matches: 122, Mismatches: 29, Indels: 24
0.70 0.17 0.14
Matches are distributed among these distances:
20 7 0.06
21 36 0.30
22 69 0.57
23 10 0.08
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (22 bp):
AATTTTGGTAATTTCACTATGA
Found at i:56706 original size:43 final size:42
Alignment explanation
Indices: 56649--56779 Score: 115
Period size: 43 Copynumber: 3.1 Consensus size: 42
56639 CCTCCATGTG
*
56649 GAATTTTGGTAATTTCACTATGAAATTTTAGTAATCTTCCAT
1 GAATTTTGCTAATTTCACTATGAAATTTTAGTAATCTTCCAT
* *** *
56691 GAATTCCTT-CTAATTTAACTATG-AATTCCGGTAA-CCTCCATGT
1 GAATT--TTGCTAATTTCACTATGAAATTTTAGTAATCTTCCA--T
* * *
56734 GGAATTTTGGTAATTTCACTATGAAATTTTAGTAATTTTCTAT
1 -GAATTTTGCTAATTTCACTATGAAATTTTAGTAATCTTCCAT
56777 GAA
1 GAA
56780 ATGTTGGTAA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
41 5 0.07
42 18 0.27
43 26 0.39
44 15 0.22
45 3 0.04
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.43
Consensus pattern (42 bp):
GAATTTTGCTAATTTCACTATGAAATTTTAGTAATCTTCCAT
Found at i:56891 original size:22 final size:22
Alignment explanation
Indices: 56773--56895 Score: 63
Period size: 22 Copynumber: 5.6 Consensus size: 22
56763 TAGTAATTTT
* * *
56773 CTATGAAATGTTGGTAACCTCC
1 CTATAAAATTTTGATAACCTCC
* *
56795 CTAT-GAATTTTCGATAACCTCA
1 CTATAAAATTTT-GATAACCTCC
* * ** **
56817 CTATTAAATTTTGGTAATGTAG
1 CTATAAAATTTTGATAACCTCC
* * *
56839 CAATGAAATTATCG-TAACCTCC
1 CTATAAAATT-TTGATAACCTCC
*
56861 C-AAAGAAATTTTGATAACCTCC
1 CTATA-AAATTTTGATAACCTCC
56883 CTATAAAATTTTG
1 CTATAAAATTTTG
56896 GTAAATGCTG
Statistics
Matches: 74, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
21 8 0.11
22 56 0.76
23 10 0.14
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (22 bp):
CTATAAAATTTTGATAACCTCC
Found at i:56961 original size:22 final size:22
Alignment explanation
Indices: 56936--56978 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
56926 AGGTTACCCG
* *
56936 CCTATGAAATTTTAGTAACCTC
1 CCTATCAAATTATAGTAACCTC
*
56958 CCTATCAAATTATGGTAACCT
1 CCTATCAAATTATAGTAACCT
56979 TCATGTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (22 bp):
CCTATCAAATTATAGTAACCTC
Found at i:57179 original size:22 final size:22
Alignment explanation
Indices: 57045--57610 Score: 174
Period size: 22 Copynumber: 25.5 Consensus size: 22
57035 CTAGTATCTC
* ***
57045 ACCTCCTTATGAAATTCAAGTA
1 ACCTCCCTATGAAATTTTGGTA
* * * *
57067 ACCACTCTATGAAATTCTGTTA
1 ACCTCCCTATGAAATTTTGGTA
* *
57089 AACTCCCTATG-AATTTCTGATA
1 ACCTCCCTATGAAATTT-TGGTA
*
57111 ACCTCACTATG-AATTTTGGT-
1 ACCTCCCTATGAAATTTTGGTA
**** * * **
57131 AGGAACCAATGAAATTGTCATA
1 ACCTCCCTATGAAATTTTGGTA
* *
57153 GCCTCCCTACGAAATTTTGGTA
1 ACCTCCCTATGAAATTTTGGTA
**
57175 ACCTCTTTATGAAATTTTGGTA
1 ACCTCCCTATGAAATTTTGGTA
** *
57197 ACCTCTTTATGGAA-TTTGGTA
1 ACCTCCCTATGAAATTTTGGTA
*
57218 ACCTCCCTATGAAATTTCGGTA
1 ACCTCCCTATGAAATTTTGGTA
** *
57240 A--TCGTTATAAAATTCTT-GTA
1 ACCTCCCTATGAAATT-TTGGTA
* * *
57260 ATCC-ACCTATGAACTTTTAGTA
1 A-CCTCCCTATGAAATTTTGGTA
57282 ACCTCTCCATATGATATATTTTTGGTA
1 ACCTC-CC-TATGA-A-A-TTTTGGTA
** *
57309 ACCTCTTTATGAAATTCTGGTA
1 ACCTCCCTATGAAATTTTGGTA
57331 ACC-CACCTAT-AGAATTTTGGTA
1 ACCTC-CCTATGA-AATTTTGGTA
* * * **
57353 ACCTACTTATAAAATTCCGGTA
1 ACCTCCCTATGAAATTTTGGTA
* * * *
57375 ACCTCCCAATGAAACTCTGGCA
1 ACCTCCCTATGAAATTTTGGTA
* *
57397 ACCTCCCAAGTCGCAATGAAATTCTAGTA
1 ACCTCCC---T----ATGAAATTTTGGTA
* * *
57426 TCCTTCTTATGAAATTCTT-GTA
1 ACCTCCCTATGAAATT-TTGGTA
* * * *
57448 ACC-CGCCTATGAAACTCTAGCA
1 ACCTC-CCTATGAAATTTTGGTA
* * *
57470 ACCTCCATATGATATTTATGTTA
1 ACCTCCCTATGAAATTT-TGGTA
* ** *
57493 ATCTCTTTATGAAATTTTGGTT
1 ACCTCCCTATGAAATTTTGGTA
* *
57515 ATCTCCGTATGAAA-TTT-GTA
1 ACCTCCCTATGAAATTTTGGTA
57535 A--TGCCGCTATGAAATTTTGGTA
1 ACCT-CC-CTATGAAATTTTGGTA
* * *
57557 ATCTCCTTATGAAATTTTGATA
1 ACCTCCCTATGAAATTTTGGTA
** * * *
57579 ATATCCATATGAAATTCTAGTA
1 ACCTCCCTATGAAATTTTGGTA
*
57601 ACATCCCTAT
1 ACCTCCCTAT
57611 CACTTCCTTA
Statistics
Matches: 396, Mismatches: 111, Indels: 74
0.68 0.19 0.13
Matches are distributed among these distances:
18 1 0.00
19 2 0.01
20 29 0.07
21 45 0.11
22 255 0.64
23 23 0.06
24 7 0.02
25 6 0.02
26 1 0.00
27 12 0.03
29 15 0.04
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (22 bp):
ACCTCCCTATGAAATTTTGGTA
Found at i:57339 original size:71 final size:66
Alignment explanation
Indices: 57154--57379 Score: 210
Period size: 71 Copynumber: 3.4 Consensus size: 66
57144 ATTGTCATAG
* * ** *
57154 CCTCCCTACGAAATTTTGGTAACCTCTTTATGAAATTTTGGTAACCTC-TTTATGGAA-TTTGGT
1 CCTCCCTATGAAATTTTGGTAACCTCTTTATGAAATTCTGGTAACC-CACCTATAGAATTTTGGT
57217 AA
65 AA
* * * * * *
57219 CCTCCCTATGAAATTTCGGTAA--TCGTTATAAAATTCTTGTAATCCACCTAT-GAACTTTTAGT
1 CCTCCCTATGAAATTTTGGTAACCTCTTTATGAAATTCTGGTAACCCACCTATAGAA-TTTTGGT
57281 AA
65 AA
57283 CCTCTCCATATGATATATTTTTGGTAACCTCTTTATGAAATTCTGGTAACCCACCTATAGAATTT
1 CCTC-CC-TATGA-A-A-TTTTGGTAACCTCTTTATGAAATTCTGGTAACCCACCTATAGAATTT
57348 TGGTAA
61 TGGTAA
* * * **
57354 CCTACTTATAAAATTCCGGTAACCTC
1 CCTCCCTATGAAATTTTGGTAACCTC
57380 CCAATGAAAC
Statistics
Matches: 129, Mismatches: 21, Indels: 21
0.75 0.12 0.12
Matches are distributed among these distances:
62 4 0.03
63 20 0.16
64 11 0.09
65 22 0.17
66 16 0.12
67 2 0.02
68 2 0.02
69 12 0.09
70 1 0.01
71 36 0.28
72 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (66 bp):
CCTCCCTATGAAATTTTGGTAACCTCTTTATGAAATTCTGGTAACCCACCTATAGAATTTTGGTA
A
Found at i:60528 original size:32 final size:31
Alignment explanation
Indices: 60487--60548 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
60477 TATTGCTGGT
* *
60487 GTGGCAATGCCACGTGGGACTAAAAATGCCAC
1 GTGGCAATGCCAAGTCGGAC-AAAAATGCCAC
*
60519 GTGGCAATGCCAAGTCGGACCAAAATGCCA
1 GTGGCAATGCCAAGTCGGACAAAAATGCCA
60549 TTTGACATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.32, C:0.26, G:0.27, T:0.15
Consensus pattern (31 bp):
GTGGCAATGCCAAGTCGGACAAAAATGCCAC
Found at i:67341 original size:86 final size:87
Alignment explanation
Indices: 67180--67341 Score: 213
Period size: 88 Copynumber: 1.9 Consensus size: 87
67170 TTCGCTGCAG
* * *
67180 GTGATATATTTTTAGTCCTAAGAATTAAGTTGGGAATCATGTTAGGAATTTAATAATAGTCACTT
1 GTGATATATTTTTAGTCATAAGAATTAAGGTGGGAATAATGTTAGGAATTT-ATAATAGTCACTT
*
67245 TAATTATAAATAAGAAGGTGCGA
65 TAATCATAAATAAGAAGGTGCGA
* * *
67268 GTGATATATTTTTAGTCATAGGACTTTAAGGTGGGAACTAAT-TTGGGAA-TT-TAATAGTCACT
1 GTGATATATTTTTAGTCATAAGA-ATTAAGGTGGGAA-TAATGTTAGGAATTTATAATAGTCACT
67330 TTAATCATAAAT
64 TTAATCATAAAT
67342 GAATTGATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
86 22 0.34
88 23 0.35
89 17 0.26
90 3 0.05
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (87 bp):
GTGATATATTTTTAGTCATAAGAATTAAGGTGGGAATAATGTTAGGAATTTATAATAGTCACTTT
AATCATAAATAAGAAGGTGCGA
Found at i:69338 original size:13 final size:13
Alignment explanation
Indices: 69320--69346 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69310 TATTTTTCTG
69320 ATTTTTCTGATTA
1 ATTTTTCTGATTA
69333 ATTTTTCTGATTA
1 ATTTTTCTGATTA
69346 A
1 A
69347 ACATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (13 bp):
ATTTTTCTGATTA
Found at i:69646 original size:221 final size:209
Alignment explanation
Indices: 69233--69672 Score: 718
Period size: 221 Copynumber: 2.0 Consensus size: 209
69223 CATGTTTTCT
69233 GATTTTTCTGAGCATTTTATTAATTTTTTGACATAATCATGTTATGGATGTGCACTTATGTATGA
1 GATTTTTCTGAGCATTTTATTAATTTTTTGACATAATCATGTTATGGATGTGCACTTATGTATGA
*
69298 TTTAAACATATATATTTTTCTGATTTTTCTGATTAATTTTTCTGATTAAACATATATATGTTTTA
66 TTTAAACATATATATTTTTCTGATTTTTCAGATTAATTTTTCTGATTAAACATATATATGTTTTA
* *
69363 ATCATATTATTAATTTTCTTGGTATGTTTTTTACAAGTATTATGGATGTGTATGTTTTAAACATA
131 ATCATATTATTAATTTTCCTGGTATGTTTTTGACAAGTATTATGGATGTGTATGTTTTAAACATA
69428 TATATAGACATAATCC
196 TATATAGAC--AATCC
*
69444 GATTTTTCTGAGCATTTTATTAATTTTTTGACATAATCATGTTATGGATGTGCACTTATGTATGC
1 GATTTTTCTGAGCATTTTATTAATTTTTTGACATAATCATGTTATGGATGTGCACTTATGTATGA
*
69509 TTTAAACATATGGTTATTTTTCTGATTTTTCAGATTAATTTTTCTGATTAAACATATATATATAT
66 TTTAAACATAT--ATATTTTTCTGATTTTTCAGATTAATTTTTCTGATTAAAC--------ATAT
69574 ATATGTTTTAATCATATTATTAATTTTCCTGGTATGTTTTTGACAAGTATTATGGATGTGTATGT
121 ATATGTTTTAATCATATTATTAATTTTCCTGGTATGTTTTTGACAAGTATTATGGATGTGTATGT
*
69639 TTTAAACATATATATAGACAATCT
186 TTTAAACATATATATAGACAATCC
69663 GATTTTTCTG
1 GATTTTTCTG
69673 GTTTTTAGTA
Statistics
Matches: 213, Mismatches: 6, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
211 75 0.35
213 38 0.18
219 14 0.07
221 86 0.40
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (209 bp):
GATTTTTCTGAGCATTTTATTAATTTTTTGACATAATCATGTTATGGATGTGCACTTATGTATGA
TTTAAACATATATATTTTTCTGATTTTTCAGATTAATTTTTCTGATTAAACATATATATGTTTTA
ATCATATTATTAATTTTCCTGGTATGTTTTTGACAAGTATTATGGATGTGTATGTTTTAAACATA
TATATAGACAATCC
Found at i:71170 original size:22 final size:22
Alignment explanation
Indices: 71145--71189 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
71135 GTGCTTTAAA
71145 TACATGATTGCAGCACATTTAT
1 TACATGATTGCAGCACATTTAT
*
71167 TACATGATTGCAGCATATTTAT
1 TACATGATTGCAGCACATTTAT
71189 T
1 T
71190 CCATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (22 bp):
TACATGATTGCAGCACATTTAT
Found at i:71477 original size:24 final size:24
Alignment explanation
Indices: 71449--71499 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
71439 AGCAGCAGCA
71449 TTGTCAAATATTCTCCCTGGTATG
1 TTGTCAAATATTCTCCCTGGTATG
71473 TTGTCAAATATTCTCCCTGGTATG
1 TTGTCAAATATTCTCCCTGGTATG
71497 TTG
1 TTG
71500 GCTTCTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (24 bp):
TTGTCAAATATTCTCCCTGGTATG
Found at i:72124 original size:22 final size:21
Alignment explanation
Indices: 72099--72147 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
72089 TCTACCAGCA
* *
72099 GCGACATAATACAAACCCATCT
1 GCGACAT-ATAAAAACCAATCT
* *
72121 GCGACGTATAAAAACTAATCT
1 GCGACATATAAAAACCAATCT
72142 GCGACA
1 GCGACA
72148 GACTTACATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.18
Consensus pattern (21 bp):
GCGACATATAAAAACCAATCT
Found at i:72863 original size:219 final size:222
Alignment explanation
Indices: 72482--72979 Score: 939
Period size: 219 Copynumber: 2.3 Consensus size: 222
72472 TCTTGTAGTG
72482 TTAGAATGATTGAGATAGGATATATATAGTCATCAATTACTTCGTTATTAATTCTCATGTGGTAA
1 TTAGAATGATTGAGATAGGATATATATAGTCATCAATTACTTCGTTATTAATTCTCATGTGGTAA
*
72547 CTAAAATAGTTAACTCTATTTTCTAACTTTTATTTAGTCATACTTATCAAAAAATATCAAACATT
66 CTAAAATAGTCAACTCTATTTTCTAACTTTTATTTAGTCATACTTATCAAAAAATATCAAACATT
*
72612 TATTAGCAGTGTAAATGTGAGGGTTGATAATATGAGCTTGAAAGTAGTACTATATACCTAATAGG
131 TATTAGCAGTGTAAATATGAGGGTTGATAATATGAGCTTGAAAGTAGTACTATATACCTAATAGG
72677 AATGCT-AAAAGTCTTGAGTTAGTTCA
196 AATGCTGAAAAGTCTTGAGTTAGTTCA
72703 TTAGAATGATTGAGATAGGATATATATAGTCATCAATTACTTCGTTATT-ATTCTCATGTGGTAA
1 TTAGAATGATTGAGATAGGATATATATAGTCATCAATTACTTCGTTATTAATTCTCATGTGGTAA
* *
72767 CTAAAA-AGTCAACTCTATTTTCTAACTTTTATTTAGTCATACTTATCAAAAAATATTAAAGATT
66 CTAAAATAGTCAACTCTATTTTCTAACTTTTATTTAGTCATACTTATCAAAAAATATCAAACATT
72831 TATTAGCAGTGTAAATATGAGGGTTGATAATATGAGCTTGAAAGTAGTACTATATACCTAATAGG
131 TATTAGCAGTGTAAATATGAGGGTTGATAATATGAGCTTGAAAGTAGTACTATATACCTAATAGG
72896 AATGCTGAAAAGTCTTGAGTTAGTTCA
196 AATGCTGAAAAGTCTTGAGTTAGTTCA
72923 TTAGAATGATTGAGATAGGATATATATAGTCATCAATTACTTCGTTATTAATTCTCA
1 TTAGAATGATTGAGATAGGATATATATAGTCATCAATTACTTCGTTATTAATTCTCA
72980 CAAGCAGGGT
Statistics
Matches: 271, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
219 125 0.46
220 90 0.33
221 56 0.21
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (222 bp):
TTAGAATGATTGAGATAGGATATATATAGTCATCAATTACTTCGTTATTAATTCTCATGTGGTAA
CTAAAATAGTCAACTCTATTTTCTAACTTTTATTTAGTCATACTTATCAAAAAATATCAAACATT
TATTAGCAGTGTAAATATGAGGGTTGATAATATGAGCTTGAAAGTAGTACTATATACCTAATAGG
AATGCTGAAAAGTCTTGAGTTAGTTCA
Found at i:85496 original size:19 final size:19
Alignment explanation
Indices: 85472--85509 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
85462 TCGCCCGCAA
85472 TTAAAAACACTTGTAACCC
1 TTAAAAACACTTGTAACCC
85491 TTAAAAACACTTGTAACCC
1 TTAAAAACACTTGTAACCC
85510 CTATGAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
TTAAAAACACTTGTAACCC
Found at i:86197 original size:107 final size:106
Alignment explanation
Indices: 86019--86231 Score: 311
Period size: 107 Copynumber: 2.0 Consensus size: 106
86009 TAAGTTATAT
* * *
86019 ATGGTTGTTTATCTTGAATTATTATATAATGTTTCTGATTATGTTTCTTTGTCTAATATAATATT
1 ATGGTAGTTTATCTCGAATTATTATATAATGTTTCTGATTATGTTCCTTTGTCTAATATAATATT
* *
86084 TATGAAATAGTTATTTGTAAGTTGAAATAATATATATGTGA
66 TATGAAATAGTTATTTGCAACTTGAAATAATATATATGTGA
* * *
86125 ATGGTAGTTTAT-TCGAATTATTATATAATGTGTTTCTGTTTATGTTCCTTTGTCTTATTTAATA
1 ATGGTAGTTTATCTCGAATTATTATATAA--TGTTTCTGATTATGTTCCTTTGTCTAATATAATA
* *
86189 TTTCTGAAATAGTTATTTGCAACTTGAAATAATGTATATGTGA
64 TTTATGAAATAGTTATTTGCAACTTGAAATAATATATATGTGA
86232 TCTAATTGAC
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
105 15 0.16
106 11 0.12
107 69 0.73
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.50
Consensus pattern (106 bp):
ATGGTAGTTTATCTCGAATTATTATATAATGTTTCTGATTATGTTCCTTTGTCTAATATAATATT
TATGAAATAGTTATTTGCAACTTGAAATAATATATATGTGA
Found at i:90574 original size:65 final size:64
Alignment explanation
Indices: 90446--90574 Score: 170
Period size: 65 Copynumber: 2.0 Consensus size: 64
90436 GGAAAAACTG
* * * *
90446 GTCCTACCCATGCATGGGGTACCCTAGCCAACCCACGCCTAGGCTAGTGCAGAAAGTTTGAATC
1 GTCCAACCCATGCATGGGGTACCCTAGCCAACCCACGCCAAGGCTAGTGCAGAAAATTGGAATC
* * *
90510 GTCCAACCCATGCATGGGGTACCCTTGGCCTACCCATG-CAAGGGCTAGTGCAGAAAATTGGAAT
1 GTCCAACCCATGCATGGGGTACCC-TAGCCAACCCACGCCAA-GGCTAGTGCAGAAAATTGGAAT
90574 C
64 C
90575 AATAACAAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
64 25 0.45
65 31 0.55
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (64 bp):
GTCCAACCCATGCATGGGGTACCCTAGCCAACCCACGCCAAGGCTAGTGCAGAAAATTGGAATC
Found at i:95507 original size:121 final size:127
Alignment explanation
Indices: 95266--95515 Score: 377
Period size: 121 Copynumber: 2.0 Consensus size: 127
95256 TAAGAAATAA
*
95266 ATTTAAAAAATTCTTATATATATAAGTTTTTTAATTAAAATATTAAAATGGTAAAAATAAAATAG
1 ATTTAAAAAATTCTTATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAAT---ATA-
*
95331 GTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAATAAAACTGTAAAAGTA
62 GTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAATAAAACTATAAAAGTA
95396 T
127 T
*
95397 ATTTAAAAAATTC-TA-ATATATGAGTTTTTTAATTAAAATAGTAAAATGGTAAAAAT-TA-TA-
1 ATTTAAAAAATTCTTATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATATAGTAT
* *
95457 AA-GATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTGAAACTATAAAAGT
66 AAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAATAAAACTATAAAAGT
95516 TTAAACAATG
Statistics
Matches: 114, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
121 54 0.47
122 2 0.02
123 2 0.02
125 2 0.02
129 39 0.34
130 2 0.02
131 13 0.11
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (127 bp):
ATTTAAAAAATTCTTATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATATAGTAT
AAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAATAAAACTATAAAAGTAT
Found at i:99017 original size:12 final size:12
Alignment explanation
Indices: 99000--99030 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
98990 GCTGGCAATC
99000 CGTGTTTCGTGT
1 CGTGTTTCGTGT
99012 CGTGTTTCGTGT
1 CGTGTTTCGTGT
*
99024 TGTGTTT
1 CGTGTTT
99031 ACATAGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.32, T:0.55
Consensus pattern (12 bp):
CGTGTTTCGTGT
Found at i:102250 original size:23 final size:23
Alignment explanation
Indices: 102224--102270 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
102214 CAAATAATTA
102224 TCTACTGCTAAAAGAAAATGAAG
1 TCTACTGCTAAAAGAAAATGAAG
102247 TCTACTGCTAAAAGAAAATGAAG
1 TCTACTGCTAAAAGAAAATGAAG
102270 T
1 T
102271 TTTACTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (23 bp):
TCTACTGCTAAAAGAAAATGAAG
Found at i:103697 original size:31 final size:31
Alignment explanation
Indices: 103628--103697 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
103618 AGGGGAAACT
* * *
103628 TTACGTTTTCAAAAATATTTCTGATTGTACCC
1 TTACTTTTTCAAAAATATTTCTAATTGTA-CA
103660 TT--TTTTTCAAAAATATTTCTAAATTGT-CA
1 TTACTTTTTCAAAAATATTTCT-AATTGTACA
103689 TTACTTTTT
1 TTACTTTTT
103698 TTTAATTCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
29 3 0.09
30 17 0.53
31 10 0.31
32 2 0.06
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (31 bp):
TTACTTTTTCAAAAATATTTCTAATTGTACA
Found at i:108957 original size:22 final size:22
Alignment explanation
Indices: 108932--109091 Score: 114
Period size: 22 Copynumber: 7.4 Consensus size: 22
108922 GGGAGATTAA
*
108932 CAAAATCTCATAGGAAGGTTAT
1 CAAAATTTCATAGGAAGGTTAT
* *
108954 CAAAA-ATCATAAGAAGGTTA-
1 CAAAATTTCATAGGAAGGTTAT
*
108974 CAAAATTTTATAGGAAGGTTTAT
1 CAAAATTTCATAGGAAGG-TTAT
* ***
108997 TAAAATTTCATATTTAGGTTAT
1 CAAAATTTCATAGGAAGGTTAT
* * *
109019 CAAAGTTTCATATGAAGTTTAT
1 CAAAATTTCATAGGAAGGTTAT
* *
109041 CACAATTTCAT-GGATA-ATTAT
1 CAAAATTTCATAGGA-AGGTTAT
* **
109062 CAAAATTTGAT-GGCGTGGTTAT
1 CAAAATTTCATAGG-AAGGTTAT
109084 CAAAATTT
1 CAAAATTT
109092 AACAGGGTAG
Statistics
Matches: 108, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.05
21 39 0.36
22 51 0.47
23 13 0.12
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (22 bp):
CAAAATTTCATAGGAAGGTTAT
Found at i:108990 original size:21 final size:21
Alignment explanation
Indices: 108931--108993 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
108921 AGGGAGATTA
*
108931 ACAAAATCTCATAGGAAGGTT
1 ACAAAATATCATAGGAAGGTT
*
108952 ATCAAAA-ATCATAAGAAGGTT
1 A-CAAAATATCATAGGAAGGTT
* *
108973 ACAAAATTTTATAGGAAGGTT
1 ACAAAATATCATAGGAAGGTT
108994 TATTAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.14
21 25 0.71
22 5 0.14
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (21 bp):
ACAAAATATCATAGGAAGGTT
Found at i:109465 original size:17 final size:17
Alignment explanation
Indices: 109443--109475 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
109433 ATATATATAC
109443 TAGGCTTTATCAACAAT
1 TAGGCTTTATCAACAAT
109460 TAGGCTTTATCAACAA
1 TAGGCTTTATCAACAA
109476 AATAAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (17 bp):
TAGGCTTTATCAACAAT
Found at i:118726 original size:45 final size:42
Alignment explanation
Indices: 118677--118770 Score: 136
Period size: 45 Copynumber: 2.2 Consensus size: 42
118667 AGCAAAAATT
*
118677 AATATTAGCTTTATTTTGATGAATTATCTAGAGATGGAGGAGTAG
1 AATATTAGCTTTATTTTGATGAATTACCTAGAGAT--A-GAGTAG
*
118722 AATATCAGCTTTATTTTGATGAATTACCTAGAGATAGAGTAG
1 AATATTAGCTTTATTTTGATGAATTACCTAGAGATAGAGTAG
118764 AAT-TTAG
1 AATATTAG
118771 ATAATGCACT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
41 3 0.07
42 9 0.20
43 1 0.02
45 33 0.72
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (42 bp):
AATATTAGCTTTATTTTGATGAATTACCTAGAGATAGAGTAG
Found at i:120022 original size:237 final size:234
Alignment explanation
Indices: 119609--120077 Score: 841
Period size: 237 Copynumber: 2.0 Consensus size: 234
119599 GGTAAACATG
*
119609 TATTTTTATTTCATTTAGATTAATTAATTATGTTTTCTTCAATCTCTTAATATCTAAAATACAAT
1 TATTTTTATTTCATTTAGATTAATTAATTATGTTATCTTCAATCTCTTAATATCTAAAATACAAT
*
119674 TTAATATTTTCCTTGAAGTCAATTGTCAAATAATTTTGAGCAAAAACCAATTCGGAATTCAAGTT
66 TTAATATTTTCCTTGAAGTCAATTGTCAAATAATTTTGAGCAAAAACCAATTCGGAAATCAAGTT
119739 TCAACAAAAGTAAGTTTCATGACGTCATATATGTTCCATTTCTCTTTTTTCTTTTCTGCTTTATT
131 TCAACAAAAGTAAGTTTCATGACGTCATATATGTTCCATTTCTCTTTTTT-TTTTCTGCTTTATT
119804 CAATTGTCAAATAATTTTGAGCAAAAACCAATTCGGAAAA
195 CAATTGTCAAATAATTTTGAGCAAAAACCAATTCGGAAAA
*
119844 TATTTTTATTTCATTTAGATTAATTAATTATGTTATCTTCAATCTCTTAATATTTAAAATACTAC
1 TATTTTTATTTCATTTAGATTAATTAATTATGTTATCTTCAATCTCTTAATATCT-AAA-A-TAC
*
119909 AATTTAATATTTTCCTTGAAGTCAATTGTCAAATAATTTTGAG-AAAAACCAATTCGGAAATCAG
63 AATTTAATATTTTCCTTGAAGTCAATTGTCAAATAATTTTGAGCAAAAACCAATTCGGAAATCAA
*
119973 GTTTCAACAAAAGTAAGTTTCATGACGTCATATATGTTCCATTTCTCTTTTTTTTTTCTGCTTTG
128 GTTTCAACAAAAGTAAGTTTCATGACGTCATATATGTTCCATTTCTCTTTTTTTTTTCTGCTTTA
*
120038 TTCAATTGTCAAATAATTTTGAGCAAAAACTAATTCGGAA
193 TTCAATTGTCAAATAATTTTGAGCAAAAACCAATTCGGAA
120078 TTCAAGTTTC
Statistics
Matches: 225, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
235 53 0.24
236 53 0.24
237 73 0.32
238 46 0.20
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (234 bp):
TATTTTTATTTCATTTAGATTAATTAATTATGTTATCTTCAATCTCTTAATATCTAAAATACAAT
TTAATATTTTCCTTGAAGTCAATTGTCAAATAATTTTGAGCAAAAACCAATTCGGAAATCAAGTT
TCAACAAAAGTAAGTTTCATGACGTCATATATGTTCCATTTCTCTTTTTTTTTTCTGCTTTATTC
AATTGTCAAATAATTTTGAGCAAAAACCAATTCGGAAAA
Found at i:120115 original size:2 final size:2
Alignment explanation
Indices: 120108--120141 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
120098 AGTTTCACGT
*
120108 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
120142 CATCTATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120262 original size:19 final size:20
Alignment explanation
Indices: 120233--120270 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
120223 ATTCAAAACA
120233 AAATAAAAACTACCCATTTT
1 AAATAAAAACTACCCATTTT
*
120253 AAAT-AAAACTACTCATTT
1 AAATAAAAACTACCCATTT
120271 GAGGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATAAAAACTACCCATTTT
Done.