Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009176.1 Hibiscus syriacus cultivar Beakdansim tig00112740_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: 348284
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:4832 original size:23 final size:24
Alignment explanation
Indices: 4801--4855 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
4791 ATTTCGCTTG
4801 AAAA-AAAAATG-AA-AAAGACAAA
1 AAAAGAAAAATGAAAGAAAGA-AAA
*
4823 AAATGAAAAATGAAAGAAAGAAAA
1 AAAAGAAAAATGAAAGAAAGAAAA
4847 AAAAGAAAA
1 AAAAGAAAA
4856 GAAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.11
23 7 0.25
24 13 0.46
25 5 0.18
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (24 bp):
AAAAGAAAAATGAAAGAAAGAAAA
Found at i:4856 original size:18 final size:17
Alignment explanation
Indices: 4835--4868 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4825 ATGAAAAATG
4835 AAAGAAAGAAAAAAAAGA
1 AAAGAAA-AAAAAAAAGA
*
4853 AAAGAAAAAATAAAAG
1 AAAGAAAAAAAAAAAG
4869 GAGGGTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAAAAAAAGA
Found at i:6162 original size:48 final size:48
Alignment explanation
Indices: 6086--6429 Score: 391
Period size: 48 Copynumber: 7.3 Consensus size: 48
6076 TAAGTCTGCC
* *
6086 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
1 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
*
6134 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
1 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
* ** *
6182 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCA
1 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
* *
6230 AGATCTGATATTTCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
1 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
* * *
6278 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-T-ACC-
1 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
* * * * *
6319 AGATCTGACATTCCCTTCAGAGTAAGTGGAACATGTCTCT-TTTTCCA
1 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
* * ** * *
6366 TGATTTGATATTCCCTTCAGAAG-AAGCGGAATATATCTCTTTTTTCCA
1 AGATTTGATATTCCCTTCAG-AGTAAGCGGAACAGGTCTCTCTTCTCCA
* *
6414 AGGTTTGGTATTCCCT
1 AGATTTGATATTCCCT
6430 GTGACAGCGG
Statistics
Matches: 257, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
41 32 0.12
42 2 0.01
43 1 0.00
44 2 0.01
45 2 0.01
46 2 0.01
47 31 0.12
48 185 0.72
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (48 bp):
AGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
Found at i:6207 original size:96 final size:96
Alignment explanation
Indices: 5998--6386 Score: 468
Period size: 96 Copynumber: 4.2 Consensus size: 96
5988 ATCAACCCCC
* *
5998 AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGAT-TGATATTCCCTT
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCTTCTCCAAGATCTGATATTCCCTT
* * * * *
6062 TAGAGTAAGTGGAATAAG----TC-T-GCC-
66 CAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
* * * * *
6086 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCTT
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCTTCTCCAAGATCTGATATTCCCTT
*
6151 CAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
66 CAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
* * *
6182 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCAAGATCTGATATTTCCTT
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCTTCTCCAAGATCTGATATTCCCTT
6247 CAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
66 CAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
* *
6278 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-T-ACC-AGATCTGACATTCCCTT
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCTTCTCCAAGATCTGATATTCCCTT
* * *
6336 CAGAGTAAGTGGAACATGTCTCT-TTTTCCA
66 CAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
*
6366 TGATTTGATATTCCCTTCAGA
1 AGATTTGATATTCCCTTCAGA
6387 AGAAGCGGAA
Statistics
Matches: 268, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
88 76 0.28
89 62 0.23
90 2 0.01
91 1 0.00
92 2 0.01
93 2 0.01
94 1 0.00
95 1 0.00
96 121 0.45
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (96 bp):
AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCTTCTCCAAGATCTGATATTCCCTT
CAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
Found at i:6350 original size:41 final size:41
Alignment explanation
Indices: 6278--6356 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
6268 CTCTTCTCCA
* *
6278 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACC
1 AGATCTGACATTCCCTTCAGAGTAAGTGGAACAAGTCTACC
*
6319 AGATCTGACATTCCCTTCAGAGTAAGTGGAACATGTCT
1 AGATCTGACATTCCCTTCAGAGTAAGTGGAACAAGTCT
6357 CTTTTTCCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (41 bp):
AGATCTGACATTCCCTTCAGAGTAAGTGGAACAAGTCTACC
Found at i:6428 original size:232 final size:232
Alignment explanation
Indices: 5998--6429 Score: 661
Period size: 232 Copynumber: 1.9 Consensus size: 232
5988 ATCAACCCCC
* *
5998 AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTGATATTCCCTTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTGATATTCCCTTC
* * *
6063 AGAGTAAGTGGAATAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
66 AGAGTAAGTGGAACAAGTCTACCAGATCTGACATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
*
6128 TCTCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATAT
131 TCTCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAGATCTCTCTTCTCAAAGATTTGATAT
6193 TCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCA
196 TCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCA
*
6230 AGATCTGATATTTCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGA-TTGATATTCCCTT
* *
6295 CAGAGTAAGTGGAACAAGTCTACCAGATCTGACATTCCCTTCAGAGTAAGTGGAACATGTCTCT-
65 CAGAGTAAGTGGAACAAGTCTACCAGATCTGACATTCCCTTCAGAGTAAGCGGAACAGGTCTCTC
* * * * * * * * * *
6359 TTTTCCATGATTTGATATTCCCTTCAGAAG-AAGCGGAATATATCTCTTTTTTCCAAGGTTTGGT
130 TTCTCAAAGATTTGATATTCCCTTCAG-AGTAAGCGGAACAGATCTCTCTTCTCAAAGATTTGAT
6423 ATTCCCT
194 ATTCCCT
6430 GTGACAGCGG
Statistics
Matches: 179, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
232 106 0.59
233 73 0.41
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (232 bp):
AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTGATATTCCCTTC
AGAGTAAGTGGAACAAGTCTACCAGATCTGACATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
TCTCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAGATCTCTCTTCTCAAAGATTTGATAT
TCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCA
Found at i:8203 original size:13 final size:14
Alignment explanation
Indices: 8177--8205 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8167 ATCATAAATT
8177 TTATATGCTATATA
1 TTATATGCTATATA
8191 TTATATG-TATATA
1 TTATATGCTATATA
8204 TT
1 TT
8206 GTAGTATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATATGCTATATA
Found at i:14266 original size:18 final size:17
Alignment explanation
Indices: 14227--14274 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
14217 GTGGGGTCGT
14227 TTTTTTA-ATTTTAAAA
1 TTTTTTATATTTTAAAA
* *
14243 TCTTTTATATTTTAGATA
1 TTTTTTATATTTTA-AAA
14261 TTTTTTATATTTTA
1 TTTTTTATATTTTA
14275 TATTGAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 6 0.22
17 6 0.22
18 15 0.56
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTTATATTTTAAAA
Found at i:19005 original size:2 final size:2
Alignment explanation
Indices: 18998--19027 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18988 TAAAAAGTTA
*
18998 AT AT AT AT AT AC 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
19028 TTAATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22715 original size:321 final size:318
Alignment explanation
Indices: 22087--22725 Score: 944
Period size: 323 Copynumber: 2.0 Consensus size: 318
22077 ACATCGTCGT
* * * *** *
22087 TAAAAACTTAAAGACACTGCATTTTTATGGGTAAATTGTTCATTCATTACTCAACTATCTTCTCA
1 TAAAAACGTAAAGAAACTACATTTTTATGGGTAAATTCAACATTCATTACTCAACTATATTCTCA
*
22152 CTCCTATTTTGGTACTTAAGTTTAAAAAATTTCAATTTAACTATCAACTTTCAAATTTATCATAT
66 CTCCTATTTTGGTACTTAAGTTTAAAAAATTTCAATTTAACTATCAACTTTCAAATTGATCATAT
* * **
22217 TTTCATCACTCTAATTTTTTTTTATTAATTTTTGTGACATGATGTTTATTATTATCATTTTATTA
131 TTTAATCACTCTAATTTTTTTTTAATAATTTTTGTGACATGACATTTATTATTATCATTTTATTA
* *
22282 ATATATAGTTAAAAATAAAAAAATAAATTTGAAAGTTAGAGTGATTAAATTAGGAGGTATTTGAA
196 ATATATAATTAAAAATAAAAAAATAAATTTAAAAGTTAGAGTGATTAAATTAGGAGGTATTTGAA
* * *
22347 AGTTAAGTAATTGAATTAAAAAAAACTAAACTTTAGTGACCAAAATAGGAGTGAGAAGA
261 AATTAAGTAATTAAAGT-AAAAAAACTAAACTTTAGTGACCAAAATAGGAGTGAGAAGA
* *
22406 TAAAAACGTAACGAAACTACATTTTTATGGGTAAATTACAACATTC-TTCACTCAATTATATTCT
1 TAAAAACGTAAAGAAACTACATTTTTATGGGTAAATT-CAACATTCATT-ACTCAACTATATTCT
* * *
22470 TACTCCTATTTTGGTACTTAAGTTTAAAAAAATTTCAATTTAACTACTCAGCTTTCAAATTGCTC
64 CACTCCTATTTTGGTACTTAAGTTT-AAAAAATTTCAATTTAACTA-TCAACTTTCAAATTGATC
*
22535 ATATTTTAATCACTCTAATTTATTTTATTAATAATTTTTGTGACATGACATTTATTATTATTATT
127 ATATTTTAATCACTCTAATTT-TTTT-TTAATAATTTTTGTGACATGACATTTATTATTATCATT
22600 TTATTAATATATAATTAAAAAT-AAAAAATAAATTTAAAAGTTAGAGTGATTAAATTAGGA-GTA
190 TTATTAATATATAATTAAAAATAAAAAAATAAATTTAAAAGTTAGAGTGATTAAATTAGGAGGT-
** *
22663 ATTTGAAAATTAAGTAATTAAAGT-AAAAAGTTAAACTTTATTGACCAAAATAGGAGTGAGAAG
254 ATTTGAAAATTAAGTAATTAAAGTAAAAAAACTAAACTTTAGTGACCAAAATAGGAGTGAGAAG
22726 TTAGTTGAAT
Statistics
Matches: 287, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
319 35 0.12
320 42 0.15
321 56 0.20
322 37 0.13
323 62 0.22
324 55 0.19
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (318 bp):
TAAAAACGTAAAGAAACTACATTTTTATGGGTAAATTCAACATTCATTACTCAACTATATTCTCA
CTCCTATTTTGGTACTTAAGTTTAAAAAATTTCAATTTAACTATCAACTTTCAAATTGATCATAT
TTTAATCACTCTAATTTTTTTTTAATAATTTTTGTGACATGACATTTATTATTATCATTTTATTA
ATATATAATTAAAAATAAAAAAATAAATTTAAAAGTTAGAGTGATTAAATTAGGAGGTATTTGAA
AATTAAGTAATTAAAGTAAAAAAACTAAACTTTAGTGACCAAAATAGGAGTGAGAAGA
Found at i:23370 original size:2 final size:2
Alignment explanation
Indices: 23365--23411 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
23355 CATTATCTTT
*
23365 TA TA TA TA AA TA TA TA 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 TA TA TA TA TA TA TA TA
23407 TA TA T
1 TA TA T
23412 TATTTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:26556 original size:21 final size:20
Alignment explanation
Indices: 26530--26588 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
26520 ACATATGTAA
26530 TCCTTTGGAACATATATGCGG
1 TCCTTTGGAACATATAT-CGG
* *
26551 TTCTTTGAGACACATAT-TTGG
1 TCCTTTG-GA-ACATATATCGG
*
26572 TCCTTTGGAATATATAT
1 TCCTTTGGAACATATAT
26589 ATATATATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 5 0.16
20 3 0.10
21 14 0.45
22 3 0.10
23 6 0.19
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (20 bp):
TCCTTTGGAACATATATCGG
Found at i:26674 original size:23 final size:23
Alignment explanation
Indices: 26647--26704 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
26637 TATAAGACAT
*
26647 TTCAGTGCATTTCTACGCGGCAC
1 TTCAGTGCATTTCTACACGGCAC
* *
26670 TTCAGTGCATTTCTACATGGTAC
1 TTCAGTGCATTTCTACACGGCAC
26693 TTCAGTGCATTT
1 TTCAGTGCATTT
26705 TATACGAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (23 bp):
TTCAGTGCATTTCTACACGGCAC
Found at i:27567 original size:24 final size:25
Alignment explanation
Indices: 27530--27577 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
27520 TGCATGATTC
27530 AAAAATG-ATCTTTTAAATTTTGAA
1 AAAAATGTATCTTTTAAATTTTGAA
* *
27554 AAAAATGTTTTTTTTTAAATTTTG
1 AAAAATG-TATCTTTTAAATTTTG
27578 GTTATGGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
26 13 0.65
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (25 bp):
AAAAATGTATCTTTTAAATTTTGAA
Found at i:33711 original size:17 final size:18
Alignment explanation
Indices: 33679--33716 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
33669 AAATAATTAA
*
33679 AATAATATGTTTTATAAT
1 AATAATATGATTTATAAT
33697 AATAATAT-ATTTATAAT
1 AATAATATGATTTATAAT
33714 AAT
1 AAT
33717 TTATTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AATAATATGATTTATAAT
Found at i:33745 original size:42 final size:41
Alignment explanation
Indices: 33697--33792 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 41
33687 GTTTTATAAT
*
33697 AATAATATA-TTTATA-ATAATTTATTATATTTTAAACAATTA
1 AATAATATATTTTATATA-AACTT-TTATATTTTAAACAATTA
* *
33738 AATTAATATATTTTATATAAACTTTTATATTTTTAATAATTA
1 AA-TAATATATTTTATATAAACTTTTATATTTTAAACAATTA
33780 AATAATATATTTT
1 AATAATATATTTT
33793 TTAAATATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
41 13 0.27
42 25 0.51
43 10 0.20
44 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (41 bp):
AATAATATATTTTATATAAACTTTTATATTTTAAACAATTA
Found at i:33806 original size:2 final size:2
Alignment explanation
Indices: 33797--33839 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
33787 TATTTTTTAA
*
33797 AT AT -T AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33837 AT A
1 AT A
33840 AATTAATTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:34641 original size:29 final size:29
Alignment explanation
Indices: 34599--34666 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
34589 CCCTCTCTGG
*
34599 AATTTTATAAGTTC-AGATTCACCCCCTAA
1 AATTTTAAAAGTTCAAGATTC-CCCCCTAA
*
34628 AATTTTAAAAGTTCAAGTTTCCCCCCTAA
1 AATTTTAAAAGTTCAAGATTCCCCCCTAA
34657 AATTTTAAAA
1 AATTTTAAAA
34667 ATTTAAGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 31 0.86
30 5 0.14
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (29 bp):
AATTTTAAAAGTTCAAGATTCCCCCCTAA
Found at i:34674 original size:29 final size:29
Alignment explanation
Indices: 34620--34676 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
34610 TTCAGATTCA
*
34620 CCCCCTAAAATTTTAAAAGTTCAAGTTTC
1 CCCCCTAAAATTTTAAAAATTCAAGTTTC
*
34649 CCCCCTAAAATTTTAAAAATTTAAGTTT
1 CCCCCTAAAATTTTAAAAATTCAAGTTT
34677 GTTCTCCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (29 bp):
CCCCCTAAAATTTTAAAAATTCAAGTTTC
Found at i:42142 original size:6 final size:5
Alignment explanation
Indices: 42122--42167 Score: 56
Period size: 6 Copynumber: 8.4 Consensus size: 5
42112 CGTTAAGGTC
42122 TCGAG TCGAG CTCGAG TTCGAG TCGAG CTCGAG TTCGAG TCGAG TC
1 TCGAG TCGAG -TCGAG -TCGAG TCGAG -TCGAG -TCGAG TCGAG TC
42168 AACCTGAGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 17 0.46
6 20 0.54
ACGTcount: A:0.17, C:0.24, G:0.35, T:0.24
Consensus pattern (5 bp):
TCGAG
Found at i:42144 original size:17 final size:17
Alignment explanation
Indices: 42122--42165 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
42112 CGTTAAGGTC
42122 TCGAGTCGAGCTCGAGT
1 TCGAGTCGAGCTCGAGT
42139 TCGAGTCGAGCTCGAGT
1 TCGAGTCGAGCTCGAGT
42156 TCGAGTCGAG
1 TCGAGTCGAG
42166 TCAACCTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (17 bp):
TCGAGTCGAGCTCGAGT
Found at i:42166 original size:11 final size:12
Alignment explanation
Indices: 42121--42165 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
42111 TCGTTAAGGT
42121 CTCGAG-TCGAG
1 CTCGAGTTCGAG
42132 CTCGAGTTCGAG
1 CTCGAGTTCGAG
*
42144 -TCGAGCTCGAG
1 CTCGAGTTCGAG
*
42155 TTCGAG-TCGAG
1 CTCGAGTTCGAG
42166 TCAACCTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.18, C:0.24, G:0.36, T:0.22
Consensus pattern (12 bp):
CTCGAGTTCGAG
Found at i:50794 original size:39 final size:39
Alignment explanation
Indices: 50740--50834 Score: 172
Period size: 39 Copynumber: 2.4 Consensus size: 39
50730 TCCGCCCCCG
50740 GTTCCGGTCTACAAGCCTCCGGTTTATAAGCCTCATCCA
1 GTTCCGGTCTACAAGCCTCCGGTTTATAAGCCTCATCCA
50779 GTTCCGGTCTACAAGCCTCCGGTTTATAAGCCTCATCCA
1 GTTCCGGTCTACAAGCCTCCGGTTTATAAGCCTCATCCA
* *
50818 GTTCCGATTTACAAGCC
1 GTTCCGGTCTACAAGCC
50835 GAAACCTCAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.28
Consensus pattern (39 bp):
GTTCCGGTCTACAAGCCTCCGGTTTATAAGCCTCATCCA
Found at i:53073 original size:2 final size:2
Alignment explanation
Indices: 53066--53098 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
53056 ACTCGAGATA
53066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53099 ATAATACTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54822 original size:24 final size:25
Alignment explanation
Indices: 54772--54822 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
54762 TGTTCGTTTA
* *
54772 TATATTGTTCACGAACATTTTCGTT
1 TATATTGTTCACGAACATATTCATT
* *
54797 TATA-TGTTTACGAATATATTCATT
1 TATATTGTTCACGAACATATTCATT
54821 TA
1 TA
54823 GTGTTTATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (25 bp):
TATATTGTTCACGAACATATTCATT
Found at i:55886 original size:2 final size:2
Alignment explanation
Indices: 55879--55912 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
55869 TTACTATTCA
55879 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
55913 TACAACATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56205 original size:31 final size:31
Alignment explanation
Indices: 56167--56243 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
56157 AATAATTAAA
56167 AGTTTAGGTACTAAAACTGACCAAAACTAAT
1 AGTTTAGGTACTAAAACTGACCAAAACTAAT
* *
56198 AGTTTAGGTATTAAAATTGACCAAAACTAAT
1 AGTTTAGGTACTAAAACTGACCAAAACTAAT
56229 AGTTTAGGTACTAAA
1 AGTTTAGGTACTAAA
56244 TACGTTAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (31 bp):
AGTTTAGGTACTAAAACTGACCAAAACTAAT
Found at i:59516 original size:16 final size:16
Alignment explanation
Indices: 59492--59528 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
59482 AGAGTGAAAA
*
59492 AACCTCGACCCTACCT
1 AACCCCGACCCTACCT
59508 AACCCCGACCCTACCT
1 AACCCCGACCCTACCT
59524 AACCC
1 AACCC
59529 GAGGATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.54, G:0.05, T:0.14
Consensus pattern (16 bp):
AACCCCGACCCTACCT
Found at i:60012 original size:21 final size:21
Alignment explanation
Indices: 59988--60133 Score: 102
Period size: 21 Copynumber: 7.1 Consensus size: 21
59978 GCAAATTTGC
59988 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
60009 GTTGAAAATCGCATTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
60029 TTTCCATTTCGCGTTGCTATA
1 GTTGCATTTCGCGTTGCGATA
* **
60050 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
*
60070 -TTTCTATTTCGCGTTGCGATA
1 GTTGC-ATTTCGCGTTGCGATA
* **
60091 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
60111 TTTCCCTTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
60132 GT
1 GT
60134 CTACAATGTC
Statistics
Matches: 88, Mismatches: 32, Indels: 10
0.68 0.25 0.08
Matches are distributed among these distances:
19 2 0.02
20 40 0.45
21 44 0.50
22 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:60045 original size:20 final size:20
Alignment explanation
Indices: 59993--60130 Score: 87
Period size: 20 Copynumber: 6.8 Consensus size: 20
59983 TTTGCGTTGC
* *
59993 ATTTCGCGTTGCGATAGTTGA
1 ATTTCGCGTTGCGAT-TTTCA
** * *
60014 AAATCGCATTGCGATTTTCC
1 ATTTCGCGTTGCGATTTTCA
* * *
60034 ATTTCGCGTTGCTATAGTTGA
1 ATTTCGCGTTGCGAT-TTTCA
** *
60055 AAATCGCGTTGCGATTTTCT
1 ATTTCGCGTTGCGATTTTCA
* *
60075 ATTTCGCGTTGCGATAGTTGA
1 ATTTCGCGTTGCGAT-TTTCA
** *
60096 AAATCGCGTTGCGATTTTCC
1 ATTTCGCGTTGCGATTTTCA
*
60116 CTTTCGCGTTGCGAT
1 ATTTCGCGTTGCGAT
60131 AGTCTACAAT
Statistics
Matches: 83, Mismatches: 32, Indels: 5
0.69 0.27 0.04
Matches are distributed among these distances:
20 42 0.51
21 41 0.49
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTTCGCGTTGCGATTTTCA
Found at i:60147 original size:41 final size:41
Alignment explanation
Indices: 59992--60157 Score: 255
Period size: 41 Copynumber: 4.0 Consensus size: 41
59982 ATTTGCGTTG
*
59992 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
60033 CATTTCGCGTTGCTATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
60074 TATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
60115 CCTTTCGCGTTGCGATAGTCT-ACAAT-GTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTC
60156 CA
1 CA
60158 AATTCGTTAC
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 113 0.98
42 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:60380 original size:21 final size:21
Alignment explanation
Indices: 60324--60405 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 21
60314 GAAGACACGT
60324 ATTTTCAACTATCGCAACGCG
1 ATTTTCAACTATCGCAACGCG
** ** * *
60345 AACTGGAA-AATCGCAACTCG
1 ATTTTCAACTATCGCAACGCG
60365 ATTTTCAACTATCGCAACGCG
1 ATTTTCAACTATCGCAACGCG
*
60386 ATTTTCAATTATCGCAACGC
1 ATTTTCAACTATCGCAACGC
60406 AAAATGCAAC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 14 0.30
21 33 0.70
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (21 bp):
ATTTTCAACTATCGCAACGCG
Found at i:60993 original size:15 final size:16
Alignment explanation
Indices: 60973--61002 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60963 TTTTAAAATG
60973 ATCATT-AAAATGAAA
1 ATCATTAAAAATGAAA
60988 ATCATTAAAAATGAA
1 ATCATTAAAAATGAA
61003 TTAAGAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (16 bp):
ATCATTAAAAATGAAA
Found at i:72406 original size:3 final size:3
Alignment explanation
Indices: 72398--72438 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
72388 CATATATCTA
* * *
72398 TAT TAT TAT TAA TAA TAT TAT TAA TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
72439 CAAAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:72437 original size:12 final size:12
Alignment explanation
Indices: 72397--72438 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
72387 ACATATATCT
72397 ATATTATTATTA
1 ATATTATTATTA
*
72409 ATAATATTATTA
1 ATATTATTATTA
72421 ATATTATTATTA
1 ATATTATTATTA
*
72433 TTATTA
1 ATATTA
72439 CAAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:85361 original size:24 final size:23
Alignment explanation
Indices: 85299--85388 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 23
85289 GGGAAAAATA
*
85299 AAAAAATAAGAAAATAAAGAAAATGG
1 AAAAAAT--GAAAATAAATAAAA-GG
*
85325 AAAAACAT-TAAATAAATAAAAGG
1 AAAAA-ATGAAAATAAATAAAAGG
**
85348 AAAGAAATGAAAATAAATAAAAATA
1 AAA-AAATGAAAATAAAT-AAAAGG
*
85373 AAAAAATAAAAATAAA
1 AAAAAATGAAAATAAA
85389 AAATGTTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
23 7 0.13
24 33 0.61
25 7 0.13
26 5 0.09
27 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.09, T:0.14
Consensus pattern (23 bp):
AAAAAATGAAAATAAATAAAAGG
Found at i:85381 original size:14 final size:14
Alignment explanation
Indices: 85352--85391 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 14
85342 AAAAGGAAAG
85352 AAATGAAAATAAATAA
1 AAAT-AAAA-AAATAA
85368 AAATAAAAAAATAA
1 AAATAAAAAAATAA
85382 AAATAAAAAA
1 AAATAAAAAA
85392 TGTTATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 16 0.67
15 4 0.17
16 4 0.17
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAATAAAAAAATAA
Found at i:85391 original size:8 final size:8
Alignment explanation
Indices: 85292--85384 Score: 60
Period size: 8 Copynumber: 10.4 Consensus size: 8
85282 ATAAAAGGGG
85292 AAAAATAA
1 AAAAATAA
85300 AAAAATAA
1 AAAAATAA
*
85308 GAAAATAA
1 AAAAATAA
85316 AGAAAATGGAA
1 A-AAAAT--AA
*
85327 AAACATTAA
1 AAA-AATAA
*
85336 ATAAATAA
1 AAAAATAA
*
85344 AAGGAAAGAA
1 AA--AAATAA
85354 ATGAAAATAAA
1 A--AAAAT-AA
85365 TAAAAATAA
1 -AAAAATAA
85374 AAAAATAA
1 AAAAATAA
85382 AAA
1 AAA
85385 TAAAAAATGT
Statistics
Matches: 67, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
8 31 0.46
9 11 0.16
10 16 0.24
11 7 0.10
12 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.09, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:86678 original size:38 final size:40
Alignment explanation
Indices: 86636--87158 Score: 357
Period size: 36 Copynumber: 13.5 Consensus size: 40
86626 AAAAAAATTC
* *
86636 AAAAAC-ATATAATATAT-TA-ATTTCTAAAATGTTATTTT
1 AAAAACTATATAATATATATATATTTCAAAAATGTT-TTTA
* * * * *
86674 AAAAACTTTATATTATATGTATTTTTCAAAAATGTTTTAA
1 AAAAACTATATAATATATATATATTTCAAAAATGTTTTTA
*
86714 AAAAATTATATAATATATATAT-TTTCAAAAATG--TTTA
1 AAAAACTATATAATATATATATATTTCAAAAATGTTTTTA
*
86751 AAATAACTATAT-AT-TATATATATTTCAAAAATGTTTTTC
1 AAA-AACTATATAATATATATATATTTCAAAAATGTTTTTA
* * *
86790 AAAAACTATATAATATATAAATGTTTTCAAAACTATATATATTTTCAAAA
1 AAAAACTATATAATATATATAT-ATTTC-AAA--A-ATGT-TTTT----A
* *
86840 TGTTTAAAAACTATATAATATATATAT-TTTTAAAAAT-ATTTT-
1 -----AAAAACTATATAATATATATATATTTCAAAAATGTTTTTA
* *
86882 AAAAACTATATATTATATTTAT-TTTC-AAAATG-TTTT-
1 AAAAACTATATAATATATATATATTTCAAAAATGTTTTTA
86918 AAAAAC--TATAA-ATATATAT-TTTCAAAAAT-TGTTTTA
1 AAAAACTATATAATATATATATATTTCAAAAATGT-TTTTA
* *
86954 AAAAACTATATATTATATTTAT-TTTC-AAAATG-TTTT-
1 AAAAACTATATAATATATATATATTTCAAAAATGTTTTTA
86990 AAAAACTATATAATATATATATA-TTCAAAAAATG-TTTT-
1 AAAAACTATATAATATATATATATTTC-AAAAATGTTTTTA
* *
87028 AAAAACTATATATTATATTTAT-TTTC-AAAATG-TTTT-
1 AAAAACTATATAATATATATATATTTCAAAAATGTTTTTA
* * * *
87064 AAAAACTGTATAATATATAAATGTTTTCAAACATG-TTTT-
1 AAAAACTATATAATATATATAT-ATTTCAAAAATGTTTTTA
* * *
87103 CAAAACTATAT-AT-TATATATGTTTTAAAAATGTTTTT-
1 AAAAACTATATAATATATATATATTTCAAAAATGTTTTTA
87140 --AAACTATATAATATATATA
1 AAAAACTATATAATATATATA
87159 CATAAATAAT
Statistics
Matches: 400, Mismatches: 42, Indels: 87
0.76 0.08 0.16
Matches are distributed among these distances:
33 11 0.03
34 9 0.02
35 13 0.03
36 90 0.22
37 62 0.16
38 69 0.17
39 57 0.14
40 28 0.07
41 16 0.04
42 3 0.01
44 1 0.00
45 3 0.01
46 4 0.01
47 4 0.01
49 2 0.00
50 1 0.00
52 3 0.01
53 3 0.01
55 21 0.05
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (40 bp):
AAAAACTATATAATATATATATATTTCAAAAATGTTTTTA
Found at i:86800 original size:36 final size:35
Alignment explanation
Indices: 86636--87157 Score: 190
Period size: 38 Copynumber: 13.6 Consensus size: 35
86626 AAAAAAATTC
* *
86636 AAAAAC-ATATAATATATTAATTTCTAAAATGTTATTTT
1 AAAAACTATATTATATA-T-ATTTCAAAAATG-T-TTTT
* *
86674 AAAAACTTTATATTATATGTATTTTTCAAAAATGTTTTAA
1 AAAAAC--TATATTATA--TATATTTCAAAAATGTTTT-T
* *
86714 AAAAATTATATAATATATATATTTTCAAAAATG-TTTA
1 AAAAACTATAT--TATATATA-TTTCAAAAATGTTTTT
86751 AAATAACTATATATTATATATATTTCAAAAATGTTTTT
1 AAA-AAC--TATATTATATATATTTCAAAAATGTTTTT
* *
86789 CAAAAACTATATAATATATAAATGTTTTCAAAACTATATATATTTTCAAAATGTTT
1 -AAAAACTATAT--TATAT--AT-ATTTC--AA--A-A-ATGTTTT---------T
** *
86845 AAAAACTATATAATATATATATTTTTAAAA-ATATTTT
1 AAAAACTATAT--TATATATATTTCAAAAATGT-TTTT
*
86882 AAAAACTATATATTATATTTATTTTC-AAAATG-TTTT
1 AAAAACTAT--ATTATATATA-TTTCAAAAATGTTTTT
* *
86918 AAAAACTATA-AATATATATTTTCAAAAATTGTTTTA
1 AAAAACTATATTATATATA-TTTCAAAAA-TGTTTTT
*
86954 AAAAACTATATATTATATTTATTTTC-AAAATG-TTTT
1 AAAAAC--TATATTATATATA-TTTCAAAAATGTTTTT
86990 AAAAACTATATAATATATATATATTCAAAAAATG-TTTT
1 AAAAACTATAT--TATATATAT-TTC-AAAAATGTTTTT
*
87028 AAAAACTATATATTATATTTATTTTC-AAAATG-TTTT
1 AAAAAC--TATATTATATATA-TTTCAAAAATGTTTTT
* * *
87064 AAAAACTGTATAATATATAAATGTTTTCAAACATG-TTTT
1 AAAAAC--TAT-AT-TATATAT-ATTTCAAAAATGTTTTT
* * *
87103 CAAAACTATATATTATATATGTTTTAAAAATGTTTTT
1 AAAAAC--TATATTATATATATTTCAAAAATGTTTTT
*
87140 --AAACTATATAATATATAT
1 AAAAACTATATTATATATAT
87158 ACATAAATAA
Statistics
Matches: 389, Mismatches: 37, Indels: 121
0.71 0.07 0.22
Matches are distributed among these distances:
33 23 0.06
34 10 0.03
35 7 0.02
36 75 0.19
37 50 0.13
38 86 0.22
39 49 0.13
40 22 0.06
41 21 0.05
42 1 0.00
43 4 0.01
45 3 0.01
46 5 0.01
47 7 0.02
48 1 0.00
50 1 0.00
52 3 0.01
53 2 0.01
55 18 0.05
56 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (35 bp):
AAAAACTATATTATATATATTTCAAAAATGTTTTT
Found at i:86811 original size:29 final size:28
Alignment explanation
Indices: 86779--86875 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 28
86769 TATATTTCAA
86779 AAATGTTTTTCAAAAACTATATAATATAT
1 AAATG-TTTTCAAAAACTATATAATATAT
*
86808 AAATGTTTTC-AAAACTATAT-ATATTTT
1 AAATGTTTTCAAAAACTATATAATA-TAT
86835 CAAAATG-TTT-AAAAACTATATAATATAT
1 --AAATGTTTTCAAAAACTATATAATATAT
*
86863 ATAT-TTTT-AAAAA
1 AAATGTTTTCAAAAA
86876 TATTTTAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
26 14 0.24
27 12 0.20
28 20 0.34
29 13 0.22
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (28 bp):
AAATGTTTTCAAAAACTATATAATATAT
Found at i:86883 original size:37 final size:37
Alignment explanation
Indices: 86823--87158 Score: 370
Period size: 36 Copynumber: 9.2 Consensus size: 37
86813 TTTTCAAAAC
*
86823 TATATATA-TTTTCAAAATG-TTTAAAAACTATATAA
1 TATATATATTTTTAAAAATGTTTTAAAAACTATATAA
* *
86858 TATATATATTTTTAAAAATATTTTAAAAACTATATAT
1 TATATATATTTTTAAAAATGTTTTAAAAACTATATAA
* *
86895 TATATTTA-TTTTCAAAATGTTTTAAAAAC--TATAA
1 TATATATATTTTTAAAAATGTTTTAAAAACTATATAA
* *
86929 -ATATATATTTTCAAAAATTGTTTTAAAAAACTATATAT
1 TATATATATTTTTAAAAA-TGTTTT-AAAAACTATATAA
* *
86967 TATATTTA-TTTTCAAAATGTTTTAAAAACTATATAA
1 TATATATATTTTTAAAAATGTTTTAAAAACTATATAA
** *
87003 TATATATATATTCAAAAAATGTTTTAAAAACTATATAT
1 TATATATAT-TTTTAAAAATGTTTTAAAAACTATATAA
* * *
87041 TATATTTA-TTTTCAAAATGTTTTAAAAACTGTATAA
1 TATATATATTTTTAAAAATGTTTTAAAAACTATATAA
* * *
87077 TATATAAATGTTTTCAAACATGTTTTCAAAACTATAT-A
1 TATATATAT-TTTT-AAAAATGTTTTAAAAACTATATAA
*
87115 T-TATATATGTTTTAAAAATGTTTT-TAAACTATATAA
1 TATATATAT-TTTTAAAAATGTTTTAAAAACTATATAA
87151 TATATATA
1 TATATATA
87159 CATAAATAAT
Statistics
Matches: 251, Mismatches: 35, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
33 6 0.02
34 11 0.04
35 23 0.09
36 94 0.37
37 45 0.18
38 48 0.19
39 24 0.10
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (37 bp):
TATATATATTTTTAAAAATGTTTTAAAAACTATATAA
Found at i:87048 original size:74 final size:73
Alignment explanation
Indices: 86823--87158 Score: 475
Period size: 72 Copynumber: 4.6 Consensus size: 73
86813 TTTTCAAAAC
* ** *
86823 TATATATATTTTCAAAATG-TTTAAAAACTATATAATATATATATTTTTAAAAATATTTTAAAAA
1 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATATTTCAAAAAATGTTTTAAAAA
86887 CTATATAT
66 CTATATAT
*
86895 TATATTTATTTTCAAAATGTTTTAAAAACTATA-AATATATAT-TTTCAAAAATTGTTTTAAAAA
1 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATATTTCAAAAAATGTTTT-AAAA
86958 ACTATATAT
65 ACTATATAT
86967 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATATATTCAAAAAATGTTTTAAAA
1 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATAT-TTCAAAAAATGTTTTAAAA
87032 ACTATATAT
65 ACTATATAT
* * * *
87041 TATATTTATTTTCAAAATGTTTTAAAAACTGTATAATATATAAATGTTTTC-AAACATGTTTTCA
1 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATAT--AT-ATTTCAAAAAATGTTTTAA
87105 AAACTATATAT
63 AAACTATATAT
* * * *
87116 TATATATGTTTTAAAAATGTTTT-TAAACTATATAATATATATA
1 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATA
87159 CATAAATAAT
Statistics
Matches: 240, Mismatches: 16, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
71 12 0.05
72 75 0.31
73 22 0.09
74 69 0.29
75 56 0.23
76 5 0.02
77 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (73 bp):
TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATATTTCAAAAAATGTTTTAAAAA
CTATATAT
Found at i:90294 original size:60 final size:60
Alignment explanation
Indices: 90229--90342 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 60
90219 AAAGACTCCC
* * * * *
90229 ATTTTAAATTAGTCTTTAAATTTTTAAATATTCTAATTTCATCCCTAAATTATGATTCTT
1 ATTTTAAATTAGTCCTTAAATTTTCAAAAATTCTAATTTCATCACTAAACTATGATTCTT
90289 ATTTTAAATTAGTCCTTAAATTTTCAAAAATTCTAATTTCATCACTAAACTATG
1 ATTTTAAATTAGTCCTTAAATTTTCAAAAATTCTAATTTCATCACTAAACTATG
90343 TCCCTCTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (60 bp):
ATTTTAAATTAGTCCTTAAATTTTCAAAAATTCTAATTTCATCACTAAACTATGATTCTT
Found at i:91693 original size:34 final size:34
Alignment explanation
Indices: 91650--91718 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
91640 CTCCTATAAA
*
91650 AGGGATGGATCGAGAAATACTGAGATATGTTCAT
1 AGGGATGGATCGAGAAATACTGAGATACGTTCAT
* *
91684 AGGGATGGATCGAGAAGTATTGAGATACGTTCAT
1 AGGGATGGATCGAGAAATACTGAGATACGTTCAT
91718 A
1 A
91719 CTTTAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.26
Consensus pattern (34 bp):
AGGGATGGATCGAGAAATACTGAGATACGTTCAT
Found at i:97447 original size:2 final size:2
Alignment explanation
Indices: 97440--97470 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
97430 TAGGTCATAA
*
97440 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
97471 AATTAGCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:97730 original size:24 final size:23
Alignment explanation
Indices: 97700--97744 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
97690 TTTATATATA
97700 TAATAATATTACATATTTAATTAT
1 TAATAATATTACATA-TTAATTAT
* *
97724 TAATAATTTTATATATTAATT
1 TAATAATATTACATATTAATT
97745 TAACTACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATAATATTACATATTAATTAT
Found at i:100174 original size:15 final size:16
Alignment explanation
Indices: 100154--100184 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
100144 TATTACGGTC
100154 ATTAGGTGAAT-TTTT
1 ATTAGGTGAATATTTT
100169 ATTAGGTGAATATTTT
1 ATTAGGTGAATATTTT
100185 TAGATGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (16 bp):
ATTAGGTGAATATTTT
Found at i:100732 original size:60 final size:60
Alignment explanation
Indices: 100654--100779 Score: 180
Period size: 60 Copynumber: 2.1 Consensus size: 60
100644 GAGTAAAGAC
* * * * *
100654 AAATAGTCCCTCGACTATAGGGCATTGTTTTACTGAGTCCCTCAACTATTAAAAGTTATA
1 AAATGGTCCCTCGACTATAGGACATTGCTTTACTGAGTCCATCAACTATTAAAAGTTACA
* **
100714 AAATGGTCCCTCGACTATAGGACTTTGCTTTGTTGAGTCCATCAACTATTAAAAGTTACA
1 AAATGGTCCCTCGACTATAGGACATTGCTTTACTGAGTCCATCAACTATTAAAAGTTACA
100774 AAATGG
1 AAATGG
100780 CCACCCTGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (60 bp):
AAATGGTCCCTCGACTATAGGACATTGCTTTACTGAGTCCATCAACTATTAAAAGTTACA
Found at i:103115 original size:43 final size:43
Alignment explanation
Indices: 103051--103135 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
103041 ATCAATCTCA
* *
103051 CCTAAAACCCGAACCCGAAATGATTCTAATCCGAAATGATTCG
1 CCTAAAACCCGAACCCAAAATGATTCTAATCCGAAATAATTCG
*
103094 CCTAAAACCCGAACCTAAAATGATTCTAATCCGAAATAATTC
1 CCTAAAACCCGAACCCAAAATGATTCTAATCCGAAATAATTC
103136 AATAATATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (43 bp):
CCTAAAACCCGAACCCAAAATGATTCTAATCCGAAATAATTCG
Found at i:104745 original size:14 final size:15
Alignment explanation
Indices: 104724--104759 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
104714 TCTAGTAAAA
104724 ATAATTTAAATTTTT
1 ATAATTTAAATTTTT
104739 A-AATTTAAATTTTT
1 ATAATTTAAATTTTT
104753 ATAATTT
1 ATAATTT
104760 TTAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATAATTTAAATTTTT
Found at i:104760 original size:9 final size:8
Alignment explanation
Indices: 104728--104782 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
104718 GTAAAAATAA
104728 TTTAAATT
1 TTTAAATT
104736 TTTAAA--
1 TTTAAATT
104742 TTTAAATT
1 TTTAAATT
104750 TTTATAATT
1 TTTA-AATT
104759 TTT-AATAT
1 TTTAAAT-T
104767 TTTAGAATAT
1 TTTA-AAT-T
104777 TTTAAA
1 TTTAAA
104783 ATTTCAATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
6 6 0.15
7 3 0.07
8 14 0.34
9 9 0.22
10 9 0.22
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
TTTAAATT
Found at i:108650 original size:31 final size:31
Alignment explanation
Indices: 108612--108671 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
108602 TCTTTAGTGG
*
108612 TTTAATTTAGTAT-TTGATTTTAGTTTCAAGA
1 TTTAATTTAGTATCTAG-TTTTAGTTTCAAGA
108643 TTTAATTTAGTATCTAGTTTTAGTTTCAA
1 TTTAATTTAGTATCTAGTTTTAGTTTCAA
108672 AGTCTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (31 bp):
TTTAATTTAGTATCTAGTTTTAGTTTCAAGA
Found at i:108680 original size:31 final size:31
Alignment explanation
Indices: 108614--108693 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
108604 TTTAGTGGTT
* *
108614 TAATTTAGTATTTGATTTTAGTTTCAAGATT
1 TAATTTAGTATTAGATTTTAGTTTCAAGATC
108645 TAATTTAGTATCTAG-TTTTAGTTTCAA-AGTC
1 TAATTTAGTAT-TAGATTTTAGTTTCAAGA-TC
*
108676 TAA-TTAGTACTTAAATTT
1 TAATTTAGTA-TTAGATTT
108694 GATTCGTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 9 0.21
31 31 0.74
32 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (31 bp):
TAATTTAGTATTAGATTTTAGTTTCAAGATC
Found at i:110874 original size:54 final size:54
Alignment explanation
Indices: 110802--110976 Score: 160
Period size: 54 Copynumber: 3.3 Consensus size: 54
110792 TGCATGCATA
* * * * *
110802 TTTTAATGTTTTGGGGGATATTTAACTAGCTGATTACTTCTGTAGCATATAATT
1 TTTTAATGTTATAGGGGATATTTAATTAGCTGATTACTTCTGTTGCATATAAAT
** * ** **
110856 TTTTAATGTTATAGGGGAT-TATTCGTTAGCTGATTACTTCCGTTGTGTAT-AGG
1 TTTTAATGTTATAGGGGATAT-TTAATTAGCTGATTACTTCTGTTGCATATAAAT
* * * *
110909 TATTAATGTTGTA-GGGAGTA-TTAATTAGCTGACTATTTCTGTTGCATATAAAT
1 TTTTAATGTTATAGGGGA-TATTTAATTAGCTGATTACTTCTGTTGCATATAAAT
110962 TTTTAATGTTATAGG
1 TTTTAATGTTATAGG
110977 AGATTATTCG
Statistics
Matches: 92, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
52 26 0.28
53 26 0.28
54 40 0.43
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.46
Consensus pattern (54 bp):
TTTTAATGTTATAGGGGATATTTAATTAGCTGATTACTTCTGTTGCATATAAAT
Found at i:122263 original size:6 final size:6
Alignment explanation
Indices: 122238--122292 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
122228 ATCTATTTAT
* * * * *
122238 ATATAG ATAGAT AGATAG ATATAG ATATAG ATATAG GTGGTAG ATATAG
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG AT-ATAG ATATAG
122287 ATATAG
1 ATATAG
122293 GATGAGAATG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (6 bp):
ATATAG
Found at i:124828 original size:3 final size:3
Alignment explanation
Indices: 124815--124859 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
124805 CAAACCTGCT
124815 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATAA ATA A-A ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
124858 AT
1 AT
124860 TCGACAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.16
3 29 0.76
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:131446 original size:17 final size:18
Alignment explanation
Indices: 131414--131453 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
131404 AGACAGCAAA
131414 GGAGTTGGATTTTTTTTG
1 GGAGTTGGATTTTTTTTG
131432 GGAGTTGGATTTTTTTTG
1 GGAGTTGGATTTTTTTTG
131450 GGAG
1 GGAG
131454 CTGGCTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (18 bp):
GGAGTTGGATTTTTTTTG
Found at i:137862 original size:14 final size:16
Alignment explanation
Indices: 137833--137864 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
137823 CGTTGGTGAA
137833 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
137849 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
137863 CG
1 CG
137865 AACAGAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:138137 original size:13 final size:13
Alignment explanation
Indices: 138115--138173 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
138105 AATAAGTTTT
* *
138115 TTGTTTGTTTGTG
1 TTGTTCGTTTATG
138128 TTGTTCGTTTA--
1 TTGTTCGTTTATG
138139 -TGTTCGTTTAT-
1 TTGTTCGTTTATG
138150 TGTGTTCGTTTATG
1 T-TGTTCGTTTATG
138164 TTCGTTCGTT
1 TT-GTTCGTT
138174 CGTGTTCGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 10 0.26
13 21 0.54
14 8 0.21
ACGTcount: A:0.05, C:0.08, G:0.24, T:0.63
Consensus pattern (13 bp):
TTGTTCGTTTATG
Found at i:138142 original size:10 final size:10
Alignment explanation
Indices: 138129--138169 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
138119 TTGTTTGTGT
138129 TGTTCGTTTA
1 TGTTCGTTTA
138139 TGTTCGTTTA
1 TGTTCGTTTA
138149 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
138162 TGTTCGTT
1 TGTTCGTT
138170 CGTTCGTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 18 0.64
13 10 0.36
ACGTcount: A:0.07, C:0.10, G:0.22, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:138142 original size:23 final size:23
Alignment explanation
Indices: 138129--138186 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
138119 TTGTTTGTGT
138129 TGTTCGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
**
138152 TGTTCGTTTATGTTCGTTCGTTCG
1 TGTTCGTTTATGTTCGTTTATT-G
138176 TGTTCGTTTAT
1 TGTTCGTTTAT
138187 TTATTAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.07, C:0.12, G:0.22, T:0.59
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:138268 original size:31 final size:31
Alignment explanation
Indices: 138193--138270 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
138183 TTATTTATTA
* *
138193 AATGAACGAATATAAAAAAGCTATATTCCTT
1 AATGAACGAACATGAAAAAGCTATATTCCTT
* *
138224 AATGAATGAACATGAACAAGCTATATTCCTT
1 AATGAACGAACATGAAAAAGCTATATTCCTT
138255 AATGAACGAACATGAA
1 AATGAACGAACATGAA
138271 TAAAAAAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (31 bp):
AATGAACGAACATGAAAAAGCTATATTCCTT
Found at i:138392 original size:2 final size:2
Alignment explanation
Indices: 138387--138415 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
138377 TTTTTTAATC
138387 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 A
138416 CAATTTAACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:140086 original size:21 final size:21
Alignment explanation
Indices: 140045--140101 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
140035 TAATTATTAA
*
140045 AATATTTAAAATACATTTATT
1 AATATTTAAAATACATATATT
*
140066 AATATTTATTAATA-ATATATT
1 AATATTTA-AAATACATATATT
* *
140087 ATTATAATAAAATAC
1 AATAT-TTAAAATAC
140102 TCAATTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTTAAAATACATATATT
Found at i:140113 original size:5 final size:5
Alignment explanation
Indices: 140105--140192 Score: 53
Period size: 5 Copynumber: 18.0 Consensus size: 5
140095 AAAATACTCA
** * *
140105 ATTAT ATTAT A--AT ATTAT AAGAT ATTAT ATT-T -TTAT TTTAAT AATAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT-AT ATTAT
*
140152 ATAAT AATT-T ATTAAT AATT-T ATTAT ATTAT ATTAT ATTAT
1 ATTAT -ATTAT ATT-AT -ATTAT ATTAT ATTAT ATTAT ATTAT
140193 TAAAATAATA
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
3 5 0.08
4 8 0.12
5 42 0.66
6 6 0.09
7 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:140153 original size:24 final size:22
Alignment explanation
Indices: 140117--140180 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
140107 TATATTATAA
*
140117 TATT-ATAAGATATTATATTTT
1 TATTAATAATATATTATATTTT
* *
140138 TATTTTAATAATATATAATA-ATT
1 TA--TTAATAATATATTATATTTT
*
140161 TATTAATAATTTATTATATT
1 TATTAATAATATATTATATT
140181 ATATTATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
21 16 0.48
23 6 0.18
24 11 0.33
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTAATAATATATTATATTTT
Found at i:140169 original size:11 final size:11
Alignment explanation
Indices: 140142--140176 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
140132 TATTTTTATT
*
140142 TTAATAATATA
1 TTAATAATTTA
140153 -TAATAATTTA
1 TTAATAATTTA
140163 TTAATAATTTA
1 TTAATAATTTA
140174 TTA
1 TTA
140177 TATTATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAATAATTTA
Found at i:140176 original size:55 final size:55
Alignment explanation
Indices: 140117--140224 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 55
140107 TATATTATAA
* *** *
140117 TATTATAAGATATTATATTTTTATTTTAATA-ATATATAATAATTTATTAATAATT
1 TATTATAAGATATTATATTATTAAAATAATATA-ATATAATAAATTATTAATAATT
**
140172 TATTATATTATATTATATTATTAAAATAATATAATATAATAAATTATTAATAA
1 TATTATAAGATATTATATTATTAAAATAATATAATATAATAAATTATTAATAA
140225 AATTTATATT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 44 0.98
56 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (55 bp):
TATTATAAGATATTATATTATTAAAATAATATAATATAATAAATTATTAATAATT
Found at i:140185 original size:21 final size:22
Alignment explanation
Indices: 140137--140186 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
140127 TATTATATTT
*
140137 TTATTTTAATAATATATAATAA
1 TTATATTAATAATATATAATAA
* *
140159 TT-TATTAATAATTTATTAT-A
1 TTATATTAATAATATATAATAA
140179 TTATATTA
1 TTATATTA
140187 TATTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.79
22 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATATTAATAATATATAATAA
Found at i:140670 original size:20 final size:20
Alignment explanation
Indices: 140647--140698 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
140637 AACGCGATCC
140647 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
140667 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
140687 CCAAAATCGCAA
1 CCAGAATCGCAA
140699 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:140715 original size:21 final size:20
Alignment explanation
Indices: 140688--140786 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
140678 AATCAGTTTC
140688 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
140709 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
140730 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
140750 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
140771 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
140787 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:140815 original size:20 final size:20
Alignment explanation
Indices: 140753--140946 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
140743 CGATTTTCCA
* ** *
140753 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
140773 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
140793 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
140813 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
140833 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
140853 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
140873 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
140893 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
140913 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
140934 AAATCGCAACGCG
1 AAATCGCAACGCG
140947 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:140837 original size:60 final size:60
Alignment explanation
Indices: 140753--140946 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
140743 CGATTTTCCA
* ** * *
140753 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
140813 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
140873 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
140934 AAATCGCAACGCG
1 AAATCGCAACGCG
140947 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:141366 original size:33 final size:33
Alignment explanation
Indices: 141327--141397 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
141317 TTCACTTAGA
*
141327 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
141360 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
141393 TTTCA
1 TTTCA
141398 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:141537 original size:14 final size:14
Alignment explanation
Indices: 141518--141572 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
141508 AGAATGACTG
141518 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
141532 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
141551 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
141565 TCGCAACG
1 TCGCAACG
141573 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:141585 original size:33 final size:33
Alignment explanation
Indices: 141518--141588 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
141508 AGAATGACTG
***
141518 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
141551 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
141584 TCGCA
1 TCGCA
141589 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:141606 original size:19 final size:18
Alignment explanation
Indices: 141584--141703 Score: 66
Period size: 16 Copynumber: 7.1 Consensus size: 18
141574 GAAACCAAAA
141584 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
*
141603 TCGCGTTGCGA--TTC-TC
1 TCGC-TTGCGATTTTCATT
141619 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
* *
141636 TCGCGTTGTGA--TTC-TC
1 TCGC-TTGCGATTTTCATT
* *
141652 TCG-TTGCGATTGTCATC
1 TCGCTTGCGATTTTCATT
*
141669 TCGCGTTGCGA--TTC-TC
1 TCGC-TTGCGATTTTCATT
141685 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
141702 TC
1 TC
141704 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 9, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
14 17 0.22
16 21 0.27
17 20 0.25
19 21 0.27
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:141625 original size:14 final size:14
Alignment explanation
Indices: 141606--141695 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
141596 TTTCATTTCG
141606 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
141620 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
141639 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
141653 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
141670 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
141686 CGTTGCGATT
1 CGTTGCGATT
141696 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 27 0.44
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 17 0.27
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:141631 original size:33 final size:33
Alignment explanation
Indices: 141589--141703 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
141579 CAAAATCGCA
141589 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
141622 TTGCGATTTTCATTTCGCGTTGTGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
141655 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
141688 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
141704 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:143632 original size:185 final size:186
Alignment explanation
Indices: 143402--143783 Score: 748
Period size: 185 Copynumber: 2.1 Consensus size: 186
143392 TAGATTGCTT
143402 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
143467 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
143532 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
143587 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
143652 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
143717 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
143773 AGTAAATTTAT
1 AGTAAATTTAT
143784 CCATTCAAGT
Statistics
Matches: 194, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
185 154 0.79
186 40 0.21
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:143716 original size:93 final size:93
Alignment explanation
Indices: 143402--143781 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
143392 TAGATTGCTT
*
143402 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
143467 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
143495 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
143559 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
143587 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
143652 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
143680 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
143745 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
143773 AGTAAATTT
1 AGTAAATTT
143782 ATCCATTCAA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:143865 original size:19 final size:19
Alignment explanation
Indices: 143825--143953 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
143815 TAGTTTACTT
* *
143825 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
143845 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
143864 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
143883 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
143897 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
143916 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
143930 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
143949 TCGCA
1 TCGCA
143954 TTGCGATTTC
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:143904 original size:33 final size:32
Alignment explanation
Indices: 143861--143953 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
143851 CGCGAAACCA
**
143861 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
143893 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
143926 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
143954 TTGCGATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:143951 original size:52 final size:52
Alignment explanation
Indices: 143825--143953 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
143815 TAGTTTACTT
**
143825 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
143877 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
143930 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
143954 TTGCGATTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:143989 original size:14 final size:14
Alignment explanation
Indices: 143970--144026 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
143960 TTTCATTTCG
143970 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
143984 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
144001 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
144017 CGTTGCGATT
1 CGTTGCGATT
144027 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:144001 original size:33 final size:33
Alignment explanation
Indices: 143954--144045 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
143944 CAAAATCGCA
*
143954 TTGCGA-TTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
143986 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
144019 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
144046 TTGGTTTCGC
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 6 0.10
33 52 0.90
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:144008 original size:19 final size:19
Alignment explanation
Indices: 143949--144082 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
143939 GAAACCAAAA
*
143949 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
143967 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
143983 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
144000 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
144016 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
144033 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
144052 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
144072 TCGTGTTGCGA
1 TCGCGTTGCGA
144083 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
18 10 0.10
19 37 0.38
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:145943 original size:38 final size:38
Alignment explanation
Indices: 145900--145972 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
145890 AATTGATTGT
*
145900 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
145938 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
145973 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:145959 original size:19 final size:19
Alignment explanation
Indices: 145895--145959 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
145885 AGTTTAATTG
*
145895 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
145914 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
145932 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
145952 ATTGATTT
1 ATTGATTT
145960 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:145973 original size:14 final size:14
Alignment explanation
Indices: 145954--145989 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
145944 ATTGTTTAAT
145954 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
145968 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
145982 TGATTTGT
1 TGATTTGT
145990 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:146112 original size:19 final size:19
Alignment explanation
Indices: 146096--146197 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
146086 AAAAATGACT
146096 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
146115 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
146134 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
146148 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
146167 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
146187 ATCGCAATGCG
1 ATCGCAATGCG
146198 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:146250 original size:19 final size:19
Alignment explanation
Indices: 146226--146551 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
146216 GATTATCTCG
146226 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
146245 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
146264 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
146278 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
146297 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
146316 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
146335 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
146354 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
146373 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
146387 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
146406 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
146425 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
146439 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
146458 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
146477 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
146491 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
146511 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
146525 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
146544 TTGCGATT
1 TTGCGATT
146552 GTATTTTCCG
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 35 0.13
16 31 0.12
17 28 0.10
18 3 0.01
19 160 0.59
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:146266 original size:52 final size:52
Alignment explanation
Indices: 146204--146523 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
146194 TGCGTTTATA
*
146204 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
146256 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
146308 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
146365 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
146417 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
146469 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
146522 AT
1 AT
146524 GTTGGGATTT
Statistics
Matches: 257, Mismatches: 5, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
52 182 0.71
53 17 0.07
54 7 0.03
55 8 0.03
57 43 0.17
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:146301 original size:71 final size:72
Alignment explanation
Indices: 146226--146551 Score: 389
Period size: 71 Copynumber: 4.6 Consensus size: 72
146216 GATTATCTCG
146226 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCG-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
146290 TTTCGCA
66 TTTCGCA
* *
146297 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG-ATTGCGATT
146362 TTCATTTCGCA
62 TTCATTTCGCA
*
146373 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG-ATTGCGATT
*
146431 TTC-TCTCG--
62 TTCATTTCGCA
*
146439 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
146503 TTTCCGCA
66 TTT-CGCA
* *
146511 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
146552 GTATTTTCCG
Statistics
Matches: 227, Mismatches: 11, Indels: 38
0.82 0.04 0.14
Matches are distributed among these distances:
66 12 0.05
67 25 0.11
68 14 0.06
69 13 0.06
70 3 0.01
71 109 0.48
72 12 0.05
73 6 0.03
74 8 0.04
76 25 0.11
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (72 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
TTTCGCA
Found at i:146469 original size:161 final size:157
Alignment explanation
Indices: 146204--146523 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
146194 TGCGTTTATA
146204 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
* *
146269 ATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG-
146334 ATTGCGATTTTAATTT-CGCATTGCGATTTTC
127 -TTGCGATTTTAATTTCCGCATTGCGATTTTC
*
146365 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
146430 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
*
146495 GATTTTCATTTCCGCATTGCGATTTTC
131 GATTTTAATTTCCGCATTGCGATTTTC
146522 AT
1 AT
146524 GTTGGGATTT
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 14 0.09
157 17 0.11
158 4 0.03
159 3 0.02
161 116 0.75
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (157 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
GATTTTAATTTCCGCATTGCGATTTTC
Found at i:146495 original size:33 final size:33
Alignment explanation
Indices: 146245--146551 Score: 280
Period size: 33 Copynumber: 8.8 Consensus size: 33
146235 TCATTTCGCA
*
146245 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
146278 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * *
146314 CATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
146352 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
146387 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
146423 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
146458 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
146491 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
146525 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
146552 GTATTTTCCG
Statistics
Matches: 235, Mismatches: 20, Indels: 38
0.80 0.07 0.13
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 87 0.37
34 29 0.12
35 13 0.06
36 11 0.05
37 2 0.01
38 67 0.29
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:149086 original size:24 final size:24
Alignment explanation
Indices: 149052--149098 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
149042 CTGAAACATC
149052 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
149076 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
149099 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:149800 original size:20 final size:20
Alignment explanation
Indices: 149772--150140 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
149762 AAATTTCAGT
* * * *
149772 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
149792 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
149812 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
149832 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
149852 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
149872 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
149892 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
149912 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
149932 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
149952 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
149972 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
149992 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
150012 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
150032 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
150052 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
150072 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
150092 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
150112 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
150132 GTTGCGATT
1 GTTGCGATT
150141 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:150782 original size:20 final size:20
Alignment explanation
Indices: 150757--150816 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
150747 AAAATAGTTT
*
150757 TGTCTTTGTGACATGTTCTC
1 TGTCTTTGTGACATGTTCTA
** *
150777 TGTCTTCATGACACGTTTATCTA
1 TGTCTTTGTGACA--TGT-TCTA
150800 TGTCTTTGTGACATGTT
1 TGTCTTTGTGACATGTT
150817 TTTCTCTACC
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 12 0.40
21 2 0.07
22 2 0.07
23 14 0.47
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.48
Consensus pattern (20 bp):
TGTCTTTGTGACATGTTCTA
Found at i:152688 original size:2 final size:2
Alignment explanation
Indices: 152681--152743 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
152671 TCCGCTTTTC
152681 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
152723 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
152744 TAAGAGTGCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:152833 original size:16 final size:16
Alignment explanation
Indices: 152812--152843 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
152802 GTTGCTCGAC
152812 TTCGTTGCTCATTAAG
1 TTCGTTGCTCATTAAG
*
152828 TTCGTTGCTCGTTAAG
1 TTCGTTGCTCATTAAG
152844 CTCGATGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (16 bp):
TTCGTTGCTCATTAAG
Found at i:153063 original size:60 final size:60
Alignment explanation
Indices: 152994--153129 Score: 148
Period size: 60 Copynumber: 2.3 Consensus size: 60
152984 TATGTCAAGG
* * * * * * * *
152994 GTCATAGTTTGAGGTTGAATTTGAGATGTTCAAAATTTTGGGAACTAATTTAGAATGAGA
1 GTCATAGTTTGAGGTTGAAATTAAAATGTTCAAAATTTTAGGAACCAATTTAAAATAAAA
* * *
153054 GTCGTAGTTT-AGGGATGAAATTAAAATGTTCAAAATTTTAGGCACCAATTTAAAATAAAA
1 GTCATAGTTTGA-GGTTGAAATTAAAATGTTCAAAATTTTAGGAACCAATTTAAAATAAAA
*
153114 GTCATAGTTTGGGGTT
1 GTCATAGTTTGAGGTT
153130 ATATGTTGCA
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
59 1 0.02
60 59 0.98
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (60 bp):
GTCATAGTTTGAGGTTGAAATTAAAATGTTCAAAATTTTAGGAACCAATTTAAAATAAAA
Found at i:155794 original size:17 final size:16
Alignment explanation
Indices: 155773--155803 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
155763 GCTTCTAATT
155773 TTTTTTGAGTTCAAGC
1 TTTTTTGAGTTCAAGC
155789 TTTTTTGAGTTCAAG
1 TTTTTTGAGTTCAAG
155804 TTTCAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
TTTTTTGAGTTCAAGC
Found at i:157625 original size:18 final size:16
Alignment explanation
Indices: 157602--157648 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
157592 AATAAAATTT
157602 TAAAATAAATATTATTAA
1 TAAAATAAATA--ATTAA
*
157620 TAAAATAAGTAATTAA
1 TAAAATAAATAATTAA
157636 TAAAA-AAA-AATTA
1 TAAAATAAATAATTA
157649 GATTTTAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 5 0.19
15 2 0.07
16 10 0.37
18 10 0.37
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
TAAAATAAATAATTAA
Found at i:159940 original size:33 final size:33
Alignment explanation
Indices: 159898--159970 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
159888 CGTTAACATA
159898 TTTGTGCCATCTGGTACGAGATGACTCACTCTT
1 TTTGTGCCATCTGGTACGAGATGACTCACTCTT
159931 TTTGTGCCATCTGGTACGAGATGACTCACTCTT
1 TTTGTGCCATCTGGTACGAGATGACTCACTCTT
159964 TTTGTGC
1 TTTGTGC
159971 GATAAAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (33 bp):
TTTGTGCCATCTGGTACGAGATGACTCACTCTT
Found at i:164537 original size:120 final size:119
Alignment explanation
Indices: 164380--164790 Score: 470
Period size: 120 Copynumber: 3.5 Consensus size: 119
164370 AATTTTTGAA
* *
164380 AAAAAATTGAAAGTTTAGATACTAAAACTGACCAAAACTAATAGTTTAGGTACTAAATGAATTAA
1 AAAAAATTGAAAGTTTAG-TACTAAAACGGACCAAAACTGATAGTTTAGGTACTAAATG-ATTAA
* * * *
164445 GTTTTTAACGATGGGTGCTAAAATGAAACAAAAACTAAATGTTAGGTATGATTTTG
64 ATTTTTAACGATGGGTACTAAAATGAAACAAAAACCAAACGTTAGGTATGATTTTG
* * *
164501 AAAAAA-TGAAAGTTTAAGTTCTAAAACGGACCAAAACTGATAGTTTATGTACTAAACGCATTAA
1 AAAAAATTGAAAGTTT-AGTACTAAAACGGACCAAAACTGATAGTTTAGGTACTAAATG-ATTAA
* * * *
164565 ATTTTTAACGGTGGGTACTAAAATGAAACAAAAACCAAACATTTGGTATGATTTTT
64 ATTTTTAACGATGGGTACTAAAATGAAACAAAAACCAAACGTTAGGTATGATTTTG
* *
164621 AAAAAATTAAAAGTTTAGGTACT---A---A--AAAA--GATAATTTAGGTACTAAGCATG-TTA
1 AAAAAATTGAAAGTTTA-GTACTAAAACGGACCAAAACTGATAGTTTAGGTACTAA--ATGATTA
* * * *
164675 AATTTATAACGATGAGTACTAAAATGAAATAAAAACCAAACGTTAGATATGA-TTTG
63 AATTTTTAACGATGGGTACTAAAATGAAACAAAAACCAAACGTTAGGTATGATTTTG
*
164731 AAAAAAATTGAAAGTTTAGTTACTAAAATGGACCAAAACTGATAGTTTAGGTACTAAATG
1 -AAAAAATTGAAAGTTTAG-TACTAAAACGGACCAAAACTGATAGTTTAGGTACTAAATG
164791 CAAAGTTTAA
Statistics
Matches: 244, Mismatches: 29, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
110 4 0.02
111 83 0.34
113 6 0.02
114 1 0.00
115 1 0.00
117 1 0.00
118 1 0.00
119 7 0.03
120 104 0.43
121 36 0.15
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.30
Consensus pattern (119 bp):
AAAAAATTGAAAGTTTAGTACTAAAACGGACCAAAACTGATAGTTTAGGTACTAAATGATTAAAT
TTTTAACGATGGGTACTAAAATGAAACAAAAACCAAACGTTAGGTATGATTTTG
Found at i:165603 original size:30 final size:29
Alignment explanation
Indices: 165533--165628 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 29
165523 GAAAAAGTTT
* * *
165533 AAATAA-TTTAAATATTTATTTTAA-CAT
1 AAATAATTTTAAGTATTTATTTTAATAAA
* * *
165560 AAATTACTTTAAGTATTTATTTTAATTTAA
1 AAATAATTTTAAGTATTTATTTTAA-TAAA
*
165590 AAATAATTTTAAGTATTTATTTTGATAAAA
1 AAATAATTTTAAGTATTTATTTTAAT-AAA
165620 AAATAATTT
1 AAATAATTT
165629 AGTTAGTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.09
28 17 0.30
29 1 0.02
30 34 0.60
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (29 bp):
AAATAATTTTAAGTATTTATTTTAATAAA
Found at i:168345 original size:14 final size:14
Alignment explanation
Indices: 168316--168371 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
168306 CTTTCGTGAA
168316 CGTTCGATTGTATGTT
1 CGTTC-ATT-TATGTT
168332 CGTTCATTTA---T
1 CGTTCATTTATGTT
168343 -GTTCATTTATGTT
1 CGTTCATTTATGTT
*
168356 CGTTCATTTATTTT
1 CGTTCATTTATGTT
168370 CG
1 CG
168372 AACATAAGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
13 1 0.03
14 16 0.46
15 3 0.09
16 5 0.14
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.55
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:168354 original size:24 final size:26
Alignment explanation
Indices: 168317--168372 Score: 89
Period size: 24 Copynumber: 2.2 Consensus size: 26
168307 TTTCGTGAAC
168317 GTTCGATTGTATGTTCGTTCATTTAT
1 GTTCGATTGTATGTTCGTTCATTTAT
168343 GTTC-ATT-TATGTTCGTTCATTTAT
1 GTTCGATTGTATGTTCGTTCATTTAT
*
168367 TTTCGA
1 GTTCGA
168373 ACATAAGGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 20 0.71
25 4 0.14
26 4 0.14
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.55
Consensus pattern (26 bp):
GTTCGATTGTATGTTCGTTCATTTAT
Found at i:180353 original size:16 final size:16
Alignment explanation
Indices: 180332--180363 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
180322 TGAATATTTC
180332 AAATTAAATTAATATT
1 AAATTAAATTAATATT
*
180348 AAATTAAATTTATATT
1 AAATTAAATTAATATT
180364 CCTTTTGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTAAATTAATATT
Found at i:180458 original size:173 final size:174
Alignment explanation
Indices: 180161--180692 Score: 926
Period size: 173 Copynumber: 3.1 Consensus size: 174
180151 ATTTCATTGA
180161 TAAATTTAATATTAAATTAAATTTATATTCCTTTTGACTATTACAAATTAAAAGATATTTTTAAT
1 TAAA-TTAATATTAAATTAAATTTATATTCCTTTTGACTATTACAAATTAAAAGATATTTTTAAT
* *
180226 TTGAATATTAGCAAGTTAATTAATCTTTGAATATGTCAAATTAAAAGGTATTTATTATCTATTTA
65 TTGAATATTAGTAAGTTAATTAATCTTTGAATATGTCAAATTAAAATGTATTTATTATCTATTTA
180291 A-TATTGAATATTAAAGATAATTGTATATTTTTGAATATTTCAAAT
130 ACT-TTGAATATTAAAGATAATTGTATATTTTTGAATATTTCAAAT
*
180336 TAAATTAATATTAAATTAAATTTATATTCCTTTTGACTATTACAAATTAAAAAATA-TTTTAATT
1 TAAATTAATATTAAATTAAATTTATATTCCTTTTGACTATTACAAATTAAAAGATATTTTTAATT
* *
180400 TGAATATTAGTAAGTTAATTACTCTTTGAATATGTCAAATTAAAATGTATTAATTATCTATTTAA
66 TGAATATTAGTAAGTTAATTAATCTTTGAATATGTCAAATTAAAATGTATTTATTATCTATTTAA
180465 CTTTGAATATTAAAGATAATTGTATATTTTTGAATATTTCAAAT
131 CTTTGAATATTAAAGATAATTGTATATTTTTGAATATTTCAAAT
**
180509 TAAA-TAATATTAAATTAAATTTATATTATTTTTGACTATTACAAATTAAAAGATATTTTTAATT
1 TAAATTAATATTAAATTAAATTTATATTCCTTTTGACTATTACAAATTAAAAGATATTTTTAATT
*
180573 TGAATATTAGTAACTTAATTAATCTTTGAATATGTCAAATTAAAATGTATTTATTATCTATTTAA
66 TGAATATTAGTAAGTTAATTAATCTTTGAATATGTCAAATTAAAATGTATTTATTATCTATTTAA
* *
180638 CTTTGAATATTAAAGATAATTGTATATTTTTTAATATTTTAAAT
131 CTTTGAATATTAAAGATAATTGTATATTTTTGAATATTTCAAAT
*
180682 TAAAATAATAT
1 TAAATTAATAT
180693 ATTTTTAAGT
Statistics
Matches: 341, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
172 48 0.14
173 231 0.68
174 58 0.17
175 4 0.01
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (174 bp):
TAAATTAATATTAAATTAAATTTATATTCCTTTTGACTATTACAAATTAAAAGATATTTTTAATT
TGAATATTAGTAAGTTAATTAATCTTTGAATATGTCAAATTAAAATGTATTTATTATCTATTTAA
CTTTGAATATTAAAGATAATTGTATATTTTTGAATATTTCAAAT
Found at i:180747 original size:26 final size:26
Alignment explanation
Indices: 180726--180777 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
180716 AGTATTTTGA
180726 ATATTTCAA-ATTAAAAGATATTATT
1 ATATTTCAATATTAAAAGATATTATT
*
180751 ATATTTGAATATTAAAAGATA-TATT
1 ATATTTCAATATTAAAAGATATTATT
180776 AT
1 AT
180778 TAGAGTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (26 bp):
ATATTTCAATATTAAAAGATATTATT
Found at i:184050 original size:21 final size:21
Alignment explanation
Indices: 184024--184065 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
184014 CTCATACAAG
*
184024 TTTTAT-TTATTTCATATATAT
1 TTTTATCTTATAT-ATATATAT
184045 TTTTATCTTATATATATATAT
1 TTTTATCTTATATATATATAT
184066 ATATTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTATCTTATATATATATAT
Found at i:184965 original size:29 final size:30
Alignment explanation
Indices: 184906--185016 Score: 100
Period size: 30 Copynumber: 3.7 Consensus size: 30
184896 ATTTGCAATT
* * ** *
184906 AAATGAATACTTGTTTAAAAATCATGGATC
1 AAATGAGTCCTTGTTTAAAAAAAATAGATC
184936 AAATGAGTCCTTGTTTAAAAAAAAT-GATC
1 AAATGAGTCCTTGTTTAAAAAAAATAGATC
* * * *
184965 AAATGGGCCCTTATTTAAAAATAATAGATC
1 AAATGAGTCCTTGTTTAAAAAAAATAGATC
* *
184995 AAATCA-ACCTTTGTTTAAAAAA
1 AAATGAGTCC-TTGTTTAAAAAA
185017 GGGTTTAAGG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
29 27 0.41
30 39 0.59
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (30 bp):
AAATGAGTCCTTGTTTAAAAAAAATAGATC
Found at i:184997 original size:30 final size:29
Alignment explanation
Indices: 184919--184998 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
184909 TGAATACTTG
* * *
184919 TTTAAAAATCATGGATCAAATGAGTCCTTG
1 TTTAAAAATAAT-GATCAAATGAGCCCTTA
* *
184949 TTTAAAAAAAATGATCAAATGGGCCCTTA
1 TTTAAAAATAATGATCAAATGAGCCCTTA
184978 TTTAAAAATAATAGATCAAAT
1 TTTAAAAATAAT-GATCAAAT
184999 CAACCTTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 25 0.58
30 18 0.42
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (29 bp):
TTTAAAAATAATGATCAAATGAGCCCTTA
Found at i:185218 original size:48 final size:48
Alignment explanation
Indices: 185160--185273 Score: 201
Period size: 48 Copynumber: 2.4 Consensus size: 48
185150 TTAAGTTGGA
* *
185160 GTTTAGGGTTTAGGGTTTATAGTTTAGGAGTTACGATTGATGTCTAGG
1 GTTTAAGGTTTAGGGTTTATAGTTTAGGAGTTAAGATTGATGTCTAGG
*
185208 GTTTAAGGTTTAGGATTTATAGTTTAGGAGTTAAGATTGATGTCTAGG
1 GTTTAAGGTTTAGGGTTTATAGTTTAGGAGTTAAGATTGATGTCTAGG
185256 GTTTAAGGTTTAGGGTTT
1 GTTTAAGGTTTAGGGTTT
185274 TAAGTCAGGG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.23, C:0.03, G:0.32, T:0.43
Consensus pattern (48 bp):
GTTTAAGGTTTAGGGTTTATAGTTTAGGAGTTAAGATTGATGTCTAGG
Found at i:187478 original size:20 final size:20
Alignment explanation
Indices: 187453--187491 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
187443 TGAAGACGAC
187453 TGGTTGAAAATGTATAAGTG
1 TGGTTGAAAATGTATAAGTG
187473 TGGTTGAAAATGTATAAGT
1 TGGTTGAAAATGTATAAGT
187492 TTCATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (20 bp):
TGGTTGAAAATGTATAAGTG
Found at i:187684 original size:212 final size:213
Alignment explanation
Indices: 187259--188500 Score: 1939
Period size: 212 Copynumber: 5.9 Consensus size: 213
187249 AGACGAGTGA
*
187259 TTGAAAATGTACAAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTTT
1 TTGAAAATGTATAAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTTT
187324 CAGTAGCCATAGAACTTTGAGTGTGGAACTTTGTTTTTTTTTTTTGGGTTTATTTTGATCCCAAT
66 CAGTAGCCATAGAACTTTGAGTGTGGAACTTTG---TTTTTTTTT-GGTTTATTTTGATCCCAAT
187389 TCATGATTATTGATGAGGGTTTCTGCCCAAAATTTTCGATGCTTATATCCGGCTTGAAGACGACT
127 TCATGATTATTGATGAGGGTTTCTGCCCAAAATTTTCGATGCTTATATCCGGCTTGAAGACGACT
187454 GGTTGAAAATGTATAAGTGTGG
192 GGTTGAAAATGTATAAGTGTGG
*
187476 TTGAAAATGTATAAGTTTCATGTTTTAATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTTT
1 TTGAAAATGTATAAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTTT
187541 CAGTAGCCATAGAACTTTGAGTGTGGAACTTTG-TTTTTTTTGGTTTATTTTGATCCCAATTCAT
66 CAGTAGCCATAGAACTTTGAGTGTGGAACTTTGTTTTTTTTTGGTTTATTTTGATCCCAATTCAT
* *
187605 GATTATTGATGAGGGTTTCTGCCCAAAATTGTT-GATGCTTATATCCGGCTTGAAGACTAGTGGT
131 GATTATTGATGAGGGTTTCTGCCCAAAATT-TTCGATGCTTATATCCGGCTTGAAGACGACTGGT
187669 TGAAAATGTATAAGTGTGG
195 TGAAAATGTATAAGTGTGG
187688 TTGAAAATGTATAAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTTT
1 TTGAAAATGTATAAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTTT
187753 CAGTAGCCATAGAACTTTGAGTGTGGAACTTTG-TTTTTTTTGGTTTATTTTGATCCCAATTCAT
66 CAGTAGCCATAGAACTTTGAGTGTGGAACTTTGTTTTTTTTTGGTTTATTTTGATCCCAATTCAT
* *
187817 GATTATTGATGAGGGTTTCTGCCCAAAATTGTT-GATGCTTATATCCGGCTTGAAGACTAGTGGT
131 GATTATTGATGAGGGTTTCTGCCCAAAATT-TTCGATGCTTATATCCGGCTTGAAGACGACTGGT
187881 TGAAAATGTATAAGTGTGG
195 TGAAAATGTATAAGTGTGG
187900 TTGAAAATGTA-AGAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTT
1 TTGAAAATGTATA-AGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTT
187964 TCAGTAGCCATAGAACTTTGAGTGTGGAACTTTGTTTTTTTTTGGTTTATTTTGATCCCAATTCA
65 TCAGTAGCCATAGAACTTTGAGTGTGGAACTTTGTTTTTTTTTGGTTTATTTTGATCCCAATTCA
188029 TGATTATTGATGAGGGTTTCTGCCCAAAATTTTCGATGCTTATATCCGGCTTG-A-A-GAC----
130 TGATTATTGATGAGGGTTTCTGCCCAAAATTTTCGATGCTTATATCCGGCTTGAAGACGACTGGT
188087 -------G----A--GTGG
195 TGAAAATGTATAAGTGTGG
188093 TTGAAAATGTATAAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTTT
1 TTGAAAATGTATAAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTTT
188158 CAGTAGCCATAGAACTTTGAGTGTGGAACTTTGCTTTTTTTTTTTTGGTTTATTTTGATCCCAAT
66 CAGTAGCCATAGAACTTTGAGTGTGGAACTTTG----TTTTTTTTTGGTTTATTTTGATCCCAAT
*
188223 TCATGATTATTGATTAGGGTTTCTGCCCAAAATTTTCGATGCTTATATCCGGCTTGAAGACGACT
127 TCATGATTATTGATGAGGGTTTCTGCCCAAAATTTTCGATGCTTATATCCGGCTTGAAGACGACT
188288 GGTTGAAAATGTATAAGTGTGG
192 GGTTGAAAATGTATAAGTGTGG
*
188310 TTGAAAATGTATAAGTTTCATGTTTTCATGGAGAAAATGGGTGAATAAGAAGAGTTTCATGTTTT
1 TTGAAAATGTATAAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAG-A-AG----A-G-TTT
* * *
188375 CATGTTTTCAGTAGCGATAGAACTTTGAGTGTGGAACTTTG---ATTTTTGGTTTATTTTTATCC
58 CATGTTTTCAGTAGCCATAGAACTTTGAGTGTGGAACTTTGTTTTTTTTTGGTTTATTTTGATCC
* * * * * * *
188437 CGATTCATGACTATTGATGAGGGTTTCTGTCCAAAGTTTTTGATGTTTATAACCGG-TTCGAAGA
123 CAATTCATGATTATTGATGAGGGTTTCTGCCCAAAATTTTCGATGCTTATATCCGGCTT-GAAGA
188501 TGAGTGATTG
Statistics
Matches: 967, Mismatches: 20, Indels: 75
0.91 0.02 0.07
Matches are distributed among these distances:
193 100 0.10
194 1 0.00
195 1 0.00
197 83 0.09
198 1 0.00
199 2 0.00
200 3 0.00
210 1 0.00
211 3 0.00
212 411 0.43
213 90 0.09
215 1 0.00
217 150 0.16
218 73 0.08
219 2 0.00
223 1 0.00
224 1 0.00
225 43 0.04
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.39
Consensus pattern (213 bp):
TTGAAAATGTATAAGTTTCATGTTTTCATGGAGAAAATGGGTGAAGAAGAAGAGTTTCATGTTTT
CAGTAGCCATAGAACTTTGAGTGTGGAACTTTGTTTTTTTTTGGTTTATTTTGATCCCAATTCAT
GATTATTGATGAGGGTTTCTGCCCAAAATTTTCGATGCTTATATCCGGCTTGAAGACGACTGGTT
GAAAATGTATAAGTGTGG
Found at i:187689 original size:20 final size:20
Alignment explanation
Indices: 187664--187703 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
187654 TTGAAGACTA
187664 GTGGTTGAAAATGTATAAGT
1 GTGGTTGAAAATGTATAAGT
187684 GTGGTTGAAAATGTATAAGT
1 GTGGTTGAAAATGTATAAGT
187704 TTCATGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (20 bp):
GTGGTTGAAAATGTATAAGT
Done.