Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold197
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: 573162
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.31
Warning! 46325 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:254052 original size:79 final size:79
Alignment explanation
Indices: 253915--254405 Score: 664
Period size: 79 Copynumber: 6.2 Consensus size: 79
253905 AAAATAAAAT
*
253915 CGGGGTT-AGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTA
1 CGGGGTTGA-AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA
* *
253979 TCCTCTCGAAAATAA
65 TCCCCTCGGAAATAA
* *
253994 CAGGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
254059 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
254073 CGGGGTTGGAGTATCTCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
254138 CCCCTCAGAAATAA
66 CCCCTCGGAAATAA
* * *
254152 CGGGATT-AGAGTATCCTCGATTATGAAAAATTGATGTTTTA-AAGATAAAACTGGGGTTGGAGT
1 CGGGGTTGA-AGTATCCCCGATTATGAAAAATTGATGTTTTAGAA-ATAAAACCGGGGTTGGAGT
* *
254215 ATCCCCGCGGAAACAA
64 ATCCCCTCGGAAATAA
* * * * *
254231 CGGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACTGGAGTTGGAGTAT
1 CGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
254296 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * * * **
254310 CAGGGTTGGAGTATCCTCGATTATGAAAAATTAATATTTTAGAAATAAAACCATGGTTGGAGTAT
1 CGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
254375 CCTCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
254389 TGGGGTTGGAGTATCCC
1 CGGGGTTGAAGTATCCC
254406 GATGATTAAT
Statistics
Matches: 365, Mismatches: 42, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
78 2 0.01
79 359 0.98
80 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
CGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:254335 original size:237 final size:236
Alignment explanation
Indices: 253915--254408 Score: 733
Period size: 237 Copynumber: 2.1 Consensus size: 236
253905 AAAATAAAAT
253915 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTAGAGTAT-CCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
* * * ** *
253980 CCTCTCGAAAATAACAGGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
65 CCCCGCGAAAACAACAGGGTTGAAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
* * * *
254045 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCTCTGATTATGAAAAATTGATGT
130 CGGAGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCTCTGATTATGAAAAATTAATAT
254110 TTTAGAAATAAAACCGA-GGTTGGAGTATCCCCTCAGAAATAA
195 TTTAGAAATAAAACC-ATGGTTGGAGTATCCCCTCAGAAATAA
* * *
254152 CGGGATTAGAGTATCCTCGATTATGAAAAATTGATGTTTTA-AAGATAAAACTGGGGTTGGAGTA
1 CGGGGTTAGAGTATCC-CGATTATGAAAAATTGATGTTTTAGAA-ATAAAACCGAGGTTGGAGTA
* * *
254216 TCCCCGCGGAAACAACGGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAA
64 TCCCCGCGAAAACAACAGGGTTGAAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAA
*
254281 CTGGAGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATC-CTCGATTATGAAAAATTAAT
129 CCGGAGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCTCT-GATTATGAAAAATTAAT
* *
254345 ATTTTAGAAATAAAACCATGGTTGGAGTATCCTCTCGGAAATAA
193 ATTTTAGAAATAAAACCATGGTTGGAGTATCCCCTCAGAAATAA
* *
254389 TGGGGTTGGAGTATCCCGAT
1 CGGGGTTAGAGTATCCCGAT
254409 GATTAATGGG
Statistics
Matches: 231, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
236 11 0.05
237 220 0.95
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (236 bp):
CGGGGTTAGAGTATCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATC
CCCGCGAAAACAACAGGGTTGAAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
GGAGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCTCTGATTATGAAAAATTAATATT
TTAGAAATAAAACCATGGTTGGAGTATCCCCTCAGAAATAA
Found at i:254398 original size:28 final size:26
Alignment explanation
Indices: 254364--254431 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
254354 ATAAAACCAT
**
254364 GGTTGGAGTATCCTCTCGGAAATAATGG
1 GGTTGGAGTATCC-CGAGG-AATAATGG
* *
254392 GGTTGGAGTATCCCGATGATTAATGG
1 GGTTGGAGTATCCCGAGGAATAATGG
254418 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
254432 CGATTATGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 21 0.58
27 2 0.06
28 13 0.36
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (26 bp):
GGTTGGAGTATCCCGAGGAATAATGG
Found at i:254446 original size:184 final size:183
Alignment explanation
Indices: 254232--254588 Score: 581
Period size: 184 Copynumber: 1.9 Consensus size: 183
254222 CGGAAACAAC
*
254232 GGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACTGGAGTTGGAGTATC
1 GGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATC
*
254297 CCCTCGGAAATAACAGGGTTGGAGTA-TCCTCGATTATGAAAAATTAATATTTTAGAAATAAAAC
66 CCCTCCGAAATAACAGGGTTGGAGTATTCC-CGATTATGAAAAATTAATATTTTAGAAATAAAAC
* * * *
254361 CATGGTTGGAGTATCCTCTCGGAAATAATGGGGTTGGAGTATCCCGATGATTAAT
130 CAGGGTCGG-GTATCCACTCGGAAATAACGGGGTTGGAGTATCCCGATGATTAAT
* * * *
254416 GGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTTTT
1 GGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATC
*
254481 CCTTCCGAAATAACAGGGTTGGAGTATTCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
66 CCCTCCGAAATAACAGGGTTGGAGTATTCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
*
254546 GGGGTCGGGTATCCACTCGGAAATAACGGGGTTGGAGTATCCC
131 AGGGTCGGGTATCCACTCGGAAATAACGGGGTTGGAGTATCCC
254589 CGACTATGAA
Statistics
Matches: 160, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
183 33 0.21
184 124 0.77
185 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (183 bp):
GGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATC
CCCTCCGAAATAACAGGGTTGGAGTATTCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
AGGGTCGGGTATCCACTCGGAAATAACGGGGTTGGAGTATCCCGATGATTAAT
Found at i:254477 original size:263 final size:262
Alignment explanation
Indices: 254160--254665 Score: 694
Period size: 263 Copynumber: 1.9 Consensus size: 262
254150 AACGGGATTA
* * * * *
254160 GAGTATCCTCGATTATGAAAAATTGATGTTTTAAAGATAAAACTGGGGTTGGAGTATCCCCGCGG
1 GAGTATCCCCGATTATGAAAAATTAATATTTTAAAGATAAAACCGGGGTTGGAGTATCCCCGCCG
* * * *
254225 AAACAACGGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACTGGAGTTG
66 AAACAACAGGGTTGAAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGAGTCG
* * *
254290 GAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCTCGATTATGAAAAATT-AATATTTTAGAA
131 G-GTATCCACTCGGAAATAACAGGGTTGGAGTATCCCCGACTATGAAAAATTGAA-ATTTTAGAA
* * * * *
254354 ATAAAACCATGGTTGGAGTATC-CTCTCGGAAATAATGGGGTTGGAGTATCCCGATGATTAATGG
194 ATAAAACCAGGGTTGGAGTATCAC-CGCAGAAACAACGGGGTTGGAGTATCCCGATGATTAATGG
254418 GGTTG
258 GGTTG
* * * **
254423 GAGTATCCCCGATTATGAGAAATTAATATTTTAGAA-ATAAAACCGGGGTTGGAGTTTTCCTTCC
1 GAGTATCCCCGATTATGAAAAATTAATATTTTA-AAGATAAAACCGGGGTTGGAGTATCCCCGCC
* * * *
254487 GAAATAACAGGGTTGGAGTATTCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTC
65 GAAACAACAGGGTTGAAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGAGTC
* *
254552 GGGTATCCACTCGGAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATTGAAGTTTTAGAAA
130 GGGTATCCACTCGGAAATAACAGGGTTGGAGTATCCCCGACTATGAAAAATTGAAATTTTAGAAA
*
254617 TAAAACCGGGGTTGGAGTATCACCGCAGAAACAACGGGGTTGGAGTATC
195 TAAAACCAGGGTTGGAGTATCACCGCAGAAACAACGGGGTTGGAGTATC
254666 TCCAATTATG
Statistics
Matches: 211, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
262 96 0.45
263 113 0.54
264 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (262 bp):
GAGTATCCCCGATTATGAAAAATTAATATTTTAAAGATAAAACCGGGGTTGGAGTATCCCCGCCG
AAACAACAGGGTTGAAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGAGTCG
GGTATCCACTCGGAAATAACAGGGTTGGAGTATCCCCGACTATGAAAAATTGAAATTTTAGAAAT
AAAACCAGGGTTGGAGTATCACCGCAGAAACAACGGGGTTGGAGTATCCCGATGATTAATGGGGT
TG
Found at i:254500 original size:105 final size:106
Alignment explanation
Indices: 254312--254514 Score: 311
Period size: 105 Copynumber: 1.9 Consensus size: 106
254302 GGAAATAACA
* *
254312 GGGTTGGAGTATCCTCGATTATGAAAAATTAATATTTTAGAAATAAAACCATGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTGGAGTATCC
* **
254377 TCTCGGAAATAATGGGGTTGGAGTA-TCCCGATGATTAATG
66 TCTCCGAAATAACAGGGTTGGAGTATTCCCGATGATTAATG
* * *
254417 GGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTTTTC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTGGAG-TATC
254482 CT-TCCGAAATAACAGGGTTGGAGTATTCCCGAT
65 CTCTCCGAAATAACAGGGTTGGAGTATTCCCGAT
254515 TATGAAAAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 76 0.86
106 12 0.14
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (106 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTGGAGTATCC
TCTCCGAAATAACAGGGTTGGAGTATTCCCGATGATTAATG
Found at i:254513 original size:79 final size:78
Alignment explanation
Indices: 254390--254750 Score: 458
Period size: 79 Copynumber: 4.6 Consensus size: 78
254380 CGGAAATAAT
*** * * *
254390 GGGGTTGGAGTATCCCGATG-ATTAATGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTT
1 GGGGTTGGAGTATCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTT
254454 TAGAAATAAAACC
66 TAGAAATAAAACC
* * * * *
254467 GGGGTTGGAGTTTTCCTTCCGAAATAACAGGGTTGGAGTATTCCCGATTATGAAAAATTAATATT
1 GGGGTTGGAG-TATCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATT
254532 TTAGAAATAAAACC
65 TTAGAAATAAAACC
* * *
254546 GGGGTCGG-GTATCCACTCGGAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATTGAA-GT
1 GGGGTTGGAGTATCC-CTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AATAT
254609 TTTAGAAATAAAACC
64 TTTAGAAATAAAACC
* * * * * *
254624 GGGGTTGGAGTATCACCGCAGAAACAACGGGGTTGGAGTATCTCCAATTATGAGAAATTAATATT
1 GGGGTTGGAGTATC-CCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATT
254689 TTAGAAATAAAACC
65 TTAGAAATAAAACC
* *
254703 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGATAGAGTATCCCCGAT
1 GGGGTTGGAGTAT-CCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
254751 GATTAACGGG
Statistics
Matches: 242, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
77 14 0.06
78 69 0.29
79 157 0.65
80 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTT
TAGAAATAAAACC
Found at i:254612 original size:157 final size:158
Alignment explanation
Indices: 254416--254749 Score: 478
Period size: 157 Copynumber: 2.1 Consensus size: 158
254406 GATGATTAAT
* * *
254416 GGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTTTT
1 GGGGTTGGAGTATCCCCGACTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAG-TAT
** * * *
254481 C-CTTCCGAAATAACAGGGTTGGAGTAT-TCCCGATTATGAAAAATTAATATTTTAGAAATAAAA
65 CACCGCAGAAACAACAGGGTTGGAGTATCT-CCAATTATGAAAAATTAATATTTTAGAAATAAAA
254544 CCGGGGTCGG-GTATCCACTCGGAAATAAC
129 CCGGGGTCGGAGTATCCACTCGGAAATAAC
*
254573 GGGGTTGGAGTATCCCCGACTATGAAAAATTGAA-GTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCGACTATGAAAAATT-AATATTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
254637 CACCGCAGAAACAACGGGGTTGGAGTATCTCCAATTATGAGAAATTAATATTTTAGAAATAAAAC
65 CACCGCAGAAACAACAGGGTTGGAGTATCTCCAATTATGAAAAATTAATATTTTAGAAATAAAAC
* *
254702 CGGGGTTGGAGTATCCCCTCGGAAATAAC
130 CGGGGTCGGAGTATCCACTCGGAAATAAC
* *
254731 GGGGATAGAGTATCCCCGA
1 GGGGTTGGAGTATCCCCGA
254750 TGATTAACGG
Statistics
Matches: 158, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
156 3 0.02
157 117 0.74
158 38 0.24
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (158 bp):
GGGGTTGGAGTATCCCCGACTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
ACCGCAGAAACAACAGGGTTGGAGTATCTCCAATTATGAAAAATTAATATTTTAGAAATAAAACC
GGGGTCGGAGTATCCACTCGGAAATAAC
Found at i:254768 original size:27 final size:28
Alignment explanation
Indices: 254702--254777 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
254692 GAAATAAAAC
***
254702 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
254730 CGGGGATAGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
254757 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
254778 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:256077 original size:41 final size:41
Alignment explanation
Indices: 256020--256101 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
256010 TGTCTCCCAT
256020 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
1 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
256061 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
1 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
256102 AGTTCCCACC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.15, C:0.22, G:0.12, T:0.51
Consensus pattern (41 bp):
TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
Found at i:256269 original size:12 final size:13
Alignment explanation
Indices: 256249--256291 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
256239 TTTATTATTT
256249 TTTTGAATTTTAA
1 TTTTGAATTTTAA
256262 TTTT-AATTTTAA
1 TTTTGAATTTTAA
* *
256274 TTTTTGATTTTTGA
1 -TTTTGAATTTTAA
256288 TTTT
1 TTTT
256292 TACTTATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 8 0.31
13 12 0.46
14 6 0.23
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:256760 original size:40 final size:41
Alignment explanation
Indices: 256716--256819 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 41
256706 CCCACTTTTT
*
256716 TTGAGGACAAAGAAAAAGAG-AATGAAATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAGAAAAGAAA-AGTGTCCTGCTCC
* * *
256756 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAG-AGAAAAGAAAAGTGTCCTGCTCC
256798 TTGAGGACAAAGTGAAAAAGAG
1 TTGAGGACAAA--GAAAAAGAG
256820 TACATCTCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
40 17 0.31
41 4 0.07
42 25 0.46
43 2 0.04
44 6 0.11
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAAGAGAAAAGAAAAGTGTCCTGCTCC
Found at i:256912 original size:41 final size:43
Alignment explanation
Indices: 256867--256969 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 43
256857 ACGAAATACT
256867 TCCTGCT-TTCTAAGGACAAAAGA-AAAAGGAA-AAA-AAGTGTG
1 TCCTGCTCTT-TAAGGACAAAAGAGAAAA-GAAGAAATAAGTGTG
*
256908 TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAATAAGTGTG
1 TCCTGCTCTTTAAGGACAAAAGAGAAAAGAA--GAAATAAGTGTG
*
256953 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTAAGGAC
256970 TGAAAAGTGC
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
41 22 0.40
42 6 0.11
44 3 0.05
45 24 0.44
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (43 bp):
TCCTGCTCTTTAAGGACAAAAGAGAAAAGAAGAAATAAGTGTG
Found at i:257054 original size:61 final size:61
Alignment explanation
Indices: 256952--257328 Score: 440
Period size: 61 Copynumber: 6.3 Consensus size: 61
256942 AAATAAGTGT
*
256952 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTGAAAAGAAAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * *
257013 GTCCTGCTCTTTGAGGACTG-GAAGATGCCACCAA-TTAGTGTGGGATTTGCAAAA-AGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTT-GTGTGGGCTTTG-AAAAGAAAAAGC
* * * *
257074 ATCATGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTT-AAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGC
* * * *
257135 GTCCTACTTTTTGAGGACTG-AAGGTACCACCAACTTGTGTGGGCTTTGAAAA-AAGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA-AAAGC
* * *
257195 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGCAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAAGC
* * *
257256 GTCCTGATCTCTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
257310 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
257329 AAAGGCTGAA
Statistics
Matches: 271, Mismatches: 32, Indels: 33
0.81 0.10 0.10
Matches are distributed among these distances:
54 19 0.07
59 6 0.02
60 84 0.31
61 152 0.56
62 10 0.04
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
Found at i:257215 original size:121 final size:121
Alignment explanation
Indices: 256953--257306 Score: 534
Period size: 121 Copynumber: 2.9 Consensus size: 121
256943 AATAAGTGTG
* *
256953 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTGAAAA-GAAAAAGCGTCC
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCC
* * * *
257017 TGCTCTTTGAGGACTGGAAGATGCCACCAA-TTAGTGTGGGATTTGCAAAAAGAAAGCA
65 TACTCTTTGAGGACT-GAAGGTGCCACCAACTT-GTGTGGGCTTTGAAAAAAGAAAGCA
* *
257075 TCATGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
* *
257140 ACTTTTTGAGGACTGAAGGTACCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCA
66 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCA
* *
257196 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGCAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
*
257261 GA-TCTCTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
66 -ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
257307 GGCGTCCTGC
Statistics
Matches: 212, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
121 141 0.67
122 71 0.33
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (121 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCA
Found at i:257387 original size:94 final size:94
Alignment explanation
Indices: 257254--257428 Score: 266
Period size: 94 Copynumber: 1.9 Consensus size: 94
257244 AAAGCAGAAG
* *
257254 GCGTCCTGATCTCTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
1 GCGTCCTGATCTCTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTC
257319 TTTGAGGACT-AAAGGCTGAAAGGAGAGA
66 TTTGAGGACTGAAAGGCTGAAAGGAGAGA
*
257347 GCGTCCT-ACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
1 GCGTCCTGA-TCTCTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
*
257410 TTCTTTGAGGACTGAAAGG
63 CTCTTTGAGGACTGAAAGG
257429 TGCCACCAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 1 0.01
93 18 0.24
94 47 0.64
95 8 0.11
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (94 bp):
GCGTCCTGATCTCTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTC
TTTGAGGACTGAAAGGCTGAAAGGAGAGA
Found at i:257556 original size:61 final size:56
Alignment explanation
Indices: 257347--257604 Score: 288
Period size: 55 Copynumber: 4.4 Consensus size: 56
257337 AAAGGAGAGA
* * *
257347 GCGTCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAG
* * *
257402 GAGTCCTGTTCTTTGAGGACTGAAAGGTGCCACCAATTTGTATGGGCTTTG-AAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAG
* * *
257457 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTG-AA----AAG
* *
257518 GCGTCCTGCTCTTTGAAGACTGAAAGGTACCACCAACTTGTATGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTT-----GAAAAG
257579 GCGTCCTGCTCTTTGAGGACTAGAAA
1 GCGTCCTGCTCTTTGAGGACT-GAAA
257605 AGTGGAAGAA
Statistics
Matches: 173, Mismatches: 16, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
54 3 0.02
55 89 0.51
57 1 0.01
61 73 0.42
62 4 0.02
65 2 0.01
66 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (56 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAG
Found at i:257559 original size:116 final size:110
Alignment explanation
Indices: 257347--257573 Score: 303
Period size: 116 Copynumber: 2.0 Consensus size: 110
257337 AAAGGAGAGA
* * *
257347 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGTT
1 GCGTCCTACTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* * *
257412 CTTTGAGGACTGAAAGGTGCCACCAATTTGTATGGGCTTTGAAAG
66 CTTTGAAGACTGAAAGGTACCACCAACTTGTATGGGCTTTGAAAG
* * *
257457 GCGTCCTGCTCTTTGAAGACT-GAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGCGAAGGCG
1 GCGTCCTACTCTTTGAAGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTT--AA----AAGGAG
257521 TCCTGCTCTTTGAAGACTGAAAGGTACCACCAACTTGTATGGGCTTTGAAAG
59 TCCTGCTCTTTGAAGACTGAAAGGTACCACCAACTTGTATGGGCTTTGAAAG
257573 G
1 G
257574 AAAAGGCGTC
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
109 3 0.03
110 42 0.42
112 2 0.02
116 54 0.53
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (110 bp):
GCGTCCTACTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTGAAGACTGAAAGGTACCACCAACTTGTATGGGCTTTGAAAG
Found at i:258595 original size:23 final size:23
Alignment explanation
Indices: 258555--258619 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
258545 AAGTAGATTC
*
258555 TTTTCTTTTCTATCTTTTTCGTTG
1 TTTTCTTTTCTAT-TTTTTTGTTG
* *
258579 TTTT-TTTTGTATTTTTTTGTTT
1 TTTTCTTTTCTATTTTTTTGTTG
* * *
258601 TTTTGTTTTTTGTTTTTTT
1 TTTTCTTTTCTATTTTTTT
258620 AGAAGAGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 12 0.34
23 19 0.54
24 4 0.11
ACGTcount: A:0.03, C:0.06, G:0.09, T:0.82
Consensus pattern (23 bp):
TTTTCTTTTCTATTTTTTTGTTG
Found at i:258601 original size:8 final size:8
Alignment explanation
Indices: 258580--258619 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
258570 TTTTCGTTGT
258580 TTTTTTTG
1 TTTTTTTG
258588 TATTTTTTTG
1 --TTTTTTTG
258598 TTTTTTTG
1 TTTTTTTG
258606 -TTTTTTG
1 TTTTTTTG
258613 TTTTTTT
1 TTTTTTT
258620 AGAAGAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.24
8 14 0.48
10 8 0.28
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:258609 original size:15 final size:15
Alignment explanation
Indices: 258591--258619 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
258581 TTTTTTGTAT
258591 TTTTTTGTTTTTTTG
1 TTTTTTGTTTTTTTG
258606 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
258620 AGAAGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTTGTTTTTTTG
Found at i:263492 original size:33 final size:33
Alignment explanation
Indices: 263455--263521 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
263445 TTCAACGATT
263455 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
263488 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
263521 T
1 T
263522 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:263493 original size:13 final size:13
Alignment explanation
Indices: 263475--263499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
263465 CATAAAATGT
263475 TGTATCGATACAA
1 TGTATCGATACAA
263488 TGTATCGATACA
1 TGTATCGATACA
263500 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:263582 original size:13 final size:13
Alignment explanation
Indices: 263564--263588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
263554 ATTACTCACA
263564 TGTATCGATACAT
1 TGTATCGATACAT
263577 TGTATCGATACA
1 TGTATCGATACA
263589 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:263653 original size:52 final size:52
Alignment explanation
Indices: 263597--263721 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
263587 CACTGATCTT
*
263597 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
263649 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
263701 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
263722 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:270647 original size:18 final size:20
Alignment explanation
Indices: 270618--270663 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
270608 AGTCAAAAGT
270618 AAACACAAAAAACAA-AAA-A
1 AAACA-AAAAAACAACAAACA
270637 AAACAAAAAAACAACAAACA
1 AAACAAAAAAACAACAAACA
270657 AAA-AAAA
1 AAACAAAA
270664 GTGCAAAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.36
19 12 0.48
20 4 0.16
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (20 bp):
AAACAAAAAAACAACAAACA
Found at i:270931 original size:16 final size:16
Alignment explanation
Indices: 270900--270931 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
270890 TATTCTTTTC
*
270900 CAAAAAAGAAACAAAA
1 CAAAAAAGAAAAAAAA
270916 CAAAAAAGAAAAAAAA
1 CAAAAAAGAAAAAAAA
270932 AAGAGAGGAA
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:0.84, C:0.09, G:0.06, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAA
Found at i:271923 original size:31 final size:30
Alignment explanation
Indices: 271885--271997 Score: 147
Period size: 31 Copynumber: 3.7 Consensus size: 30
271875 AAATACCTTT
*
271885 TCAAAGTCCACGACTCAGTGGCAATCTCTGC
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTGC
*
271916 TCAAAGTCCACGACTCAGTGGCATCTTTTCC
1 TCAAAGTCCACGACTCAGTGGCATC-TTTGC
* *
271947 TTTAAAGTCCACGACTCAATGGCAT-TTTGTC
1 -TCAAAGTCCACGACTCAGTGGCATCTTTG-C
271978 TCAAAGTCCACGACTCAGTG
1 TCAAAGTCCACGACTCAGTG
271998 ACATTTTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
30 24 0.33
31 26 0.36
32 22 0.31
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (30 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTGC
Found at i:271986 original size:30 final size:31
Alignment explanation
Indices: 271885--272037 Score: 152
Period size: 32 Copynumber: 4.9 Consensus size: 31
271875 AAATACCTTT
*
271885 TCAAAGTCCACGACTCAGTGGCAATCTCTG-C
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTGTC
271916 TCAAAGTCCACGACTCAGTGGCATCTTT-TCC
1 TCAAAGTCCACGACTCAGTGGCATCTTTGT-C
* *
271947 TTTAAAGTCCACGACTCAATGGCAT-TTTGTC
1 -TCAAAGTCCACGACTCAGTGGCATCTTTGTC
* * *
271978 TCAAAGTCCACGACTCAGTGACATTTTTTTC
1 TCAAAGTCCACGACTCAGTGGCATCTTTGTC
* * *
272009 TTCAAAGCCCACAACTTC-GTGGCACCTTT
1 -TCAAAGTCCACGAC-TCAGTGGCATCTTT
272038 TCCTTTAAAG
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
30 26 0.25
31 32 0.31
32 43 0.42
33 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTGTC
Found at i:271996 original size:62 final size:63
Alignment explanation
Indices: 271884--272020 Score: 188
Period size: 62 Copynumber: 2.2 Consensus size: 63
271874 CAAATACCTT
* *
271884 TTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
1 TTCAAAGTCCACGACTCAATGGCAATCTCTGCTCAAAGTCCACGACTCAGTGACATCTTTTCC
* * * *
271947 TTTAAAGTCCACGACTCAATGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGACATTTTTTTC
1 TTCAAAGTCCACGACTCAATGGCAATCTCTG-CTCAAAGTCCACGACTCAGTGACATCTTTTCC
*
272009 TTCAAAGCCCAC
1 TTCAAAGTCCAC
272021 AACTTCGTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
61 3 0.05
62 41 0.63
63 21 0.32
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (63 bp):
TTCAAAGTCCACGACTCAATGGCAATCTCTGCTCAAAGTCCACGACTCAGTGACATCTTTTCC
Found at i:272032 original size:62 final size:62
Alignment explanation
Indices: 271915--272622 Score: 237
Period size: 66 Copynumber: 11.0 Consensus size: 62
271905 GCAATCTCTG
* * * * * *
271915 CTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAGTCCACGAC-TCAATGGCA-TTTTGT
1 CTCAAAGTCCACGACTCAGTGGCATTTTTTCCTTCAAAGCCCACAACTTC-GTGGCACTTTT-C
* *
271977 CTCAAAGTCCACGACTCAGTGACATTTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTC
1 CTCAAAGTCCACGACTCAGTGGCATTTTTTCCTTCAAAGCCCACAACTTCGTGGCA-CTTTTC
* * * * * *
272040 CTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTTTTT
1 C-TCAAAGTCCACGACTCAGTGGCA-T-TTTTTCCTTCAAAGCCCACAACTTCGTGGCAC---TT
272105 TTC
60 TTC
* * * * * ** * * *
272108 CTTCTAAGCCCACAACTCCGTGGCA-----CCCTTTTAAGTCCACGACTCCGTGGCACTCTTTTC
1 C-TCAAAGTCCACGACTCAGTGGCATTTTTTCCTTCAAAGCCCACAACTTCGTGGCA--CTTTTC
* * * * * *
272168 CTTTAAAGCCCACAACT-ACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTT
1 C-TCAAAGTCCACGACTCA-GTGGCA-TTTTTTCCTTCAAAGCCCACAACTTCGTGGCA--C-TT
272232 TTC
60 TTC
** * * * * * *
272235 CTTTTAAGCCCACAACTCCGTGGCACCTTTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCCTT
1 C-TCAAAGTCCACGACTCAGTGGCA---TTTTTTCCTTCAAAGCCCACAACTTCGTGGCA-CTTT
272300 T-
61 TC
* * * *
272301 -T--AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTTTTTTC
1 CTCAAAGTCCACGACTCAGTGGCA-TTTTTTCCTTCAAAGCCCACAACTTCGTGGCAC--TTTTC
* * * * * * *
272363 CTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCATAACTCCGTGGCACCTTTT
1 C-TCAAAGTCCACGACTCAGTGGCA-T-TTTTTCCTTCAAAGCCCACAACTTCGTGGCA-C---T
272428 TTTC
59 TTTC
* * * * * ** * * *
272432 CTTCTAAGCCCACAACTCCGTGGCA-----CCCTTTTAAGTCCACGACTCCGTGGCACTCTTTTC
1 C-TCAAAGTCCACGACTCAGTGGCATTTTTTCCTTCAAAGCCCACAACTTCGTGGCA--CTTTTC
** * * * *
272492 CTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 C-TCAAAGTCCACGACTCAGTGGCA-TTTTTTCCTTCAAAGCCCACAACTTCGTGGCA--CTTTT
272557 C
62 C
* * * * * * *
272558 CTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCATAAC-TCTGTGGCACCTTT
1 C-TCAAAGTCCACGACTCAGTGGCA-T-TTTTTCCTTCAAAGCCCACAACTTC-GTGGCA-CTTT
272622 T
61 T
272623 TTTCCTTCTA
Statistics
Matches: 531, Mismatches: 74, Indels: 78
0.78 0.11 0.11
Matches are distributed among these distances:
59 1 0.00
60 81 0.15
61 26 0.05
62 86 0.16
63 5 0.01
64 24 0.05
65 2 0.00
66 134 0.25
67 79 0.15
68 30 0.06
69 63 0.12
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (62 bp):
CTCAAAGTCCACGACTCAGTGGCATTTTTTCCTTCAAAGCCCACAACTTCGTGGCACTTTTC
Found at i:272147 original size:27 final size:27
Alignment explanation
Indices: 272107--272490 Score: 120
Period size: 33 Copynumber: 12.2 Consensus size: 27
272097 CACTTTTTTT
*
272107 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
* *
272134 CCTTTTAAGTCCACGACTCCGTGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCA--C
* *
272163 TTTTCCTTTAAAGCCCACAACTACGTGGCACTC
1 ----CCTTTTAAGCCCACAACTCCGTGGCA--C
*
272196 TTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 ----CCTTTTAAGCCCACAACTCCGTGGCA--C
272229 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACC
1 -----CCTTTTAAGCCCACAACTCCGTGGCA-C
*
272262 TTTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
1 -------CCTTTTAAGCCCACAACTCCGTGGCAC
* *
272296 CCTTTTAAGTCCACGACTCCGTGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCA--C
* *
272325 TTTTCCTTTAAAGCCCACAACTACGTGGCAC
1 ----CCTTTTAAGCCCACAACTCCGTGGCAC
*
272356 TTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 ------CCTTTTAAGCCCACAACTCCGTGGCA--C
* *
272391 TTTTTCCTTCTAAGCCCATAACTCCGTGGCACC
1 -----CCTTTTAAGCCCACAACTCCGTGGCA-C
*
272424 TTTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
1 -------CCTTTTAAGCCCACAACTCCGTGGCAC
* *
272458 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
272485 TCTTTT
1 CCTTTT
272491 CCTTTTAAGT
Statistics
Matches: 306, Mismatches: 30, Indels: 42
0.81 0.08 0.11
Matches are distributed among these distances:
27 75 0.25
29 2 0.01
31 1 0.00
33 106 0.35
34 61 0.20
35 61 0.20
ACGTcount: A:0.19, C:0.36, G:0.13, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:272323 original size:162 final size:161
Alignment explanation
Indices: 271981--272749 Score: 1058
Period size: 162 Copynumber: 4.8 Consensus size: 161
271971 TTTTGTCTCA
* * * * * *
271981 AAGTCCACGACTCAGTGACA-TTTTTTTCTTCAAAGCCCACAACTTCGTGGCAC-CTTTTCCTTT
1 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTT
272044 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTTTTTTTCC
66 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTTTTTTTCC
272109 TTCTAAGCCCACAACTCCGTGGCACCCTTTT
131 TTCTAAGCCCACAACTCCGTGGCACCCTTTT
272140 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTC
1 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTT-
*
272205 T-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTTT
65 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCA-CTTTTTTT
272269 CCTTCTAAGCCCACAACTCCGTGGCACCCTTTT
129 CCTTCTAAGCCCACAACTCCGTGGCACCCTTTT
*
272302 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTTTTTTCCTTC
1 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTT-
*
272367 T-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCATAACTCCGTGGCACCTTTTTTT
65 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCA-CTTTTTTT
272431 CCTTCTAAGCCCACAACTCCGTGGCACCCTTTT
129 CCTTCTAAGCCCACAACTCCGTGGCACCCTTTT
* * * *
272464 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTTT
1 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTT
* *
272529 AAAGCCCACAACTACGTGGCACTC-TTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCC
66 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTTTTTTTCC
* * * *
272593 TTCTAAGTCCATAACTCTGTGGCACCTTTTTTTCCTTCT
131 TTCTAAGCCCACAACTCCGTGGCA-C-------CCTTTT
* * * * * *
272632 AAGCCCACAACTCCGTGGCA--C----CCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTTT
1 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTT
* * * * * *
272691 AAAGCCCACAACTCTGTGGCAC-CTTGTTCTTTTTAAGTCCACAACTTCGTGGCATCTTT
66 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCA-CTTT
272750 CACCCTTTCT
Statistics
Matches: 563, Mismatches: 32, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
159 18 0.03
160 59 0.10
161 94 0.17
162 365 0.65
163 3 0.01
166 1 0.00
168 23 0.04
ACGTcount: A:0.19, C:0.35, G:0.13, T:0.33
Consensus pattern (161 bp):
AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTT
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTTTTTTTCC
TTCTAAGCCCACAACTCCGTGGCACCCTTTT
Found at i:272653 original size:195 final size:197
Alignment explanation
Indices: 271919--272749 Score: 909
Period size: 195 Copynumber: 4.3 Consensus size: 197
271909 TCTCTGCTCA
* * *
271919 AAGTCCACGACTCAGTGGCA-TCTTTTCCTTTAAAGTCCACGACT-CAATGGCA-T-TTTGT-C-
1 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGTCCACAACTAC-GTGGCACTCTTT-TCCT
* * * * * * * *
271978 TCAAAGTCCACGACTCAGTGACA-T-TTTTTTCTTCAAAGCCCACAACTTCGTGGCACC---TTT
64 TCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTTTTT
272038 TCCTT-TAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTT
129 TCCTTCT-AAGCCCACAACTCCGTGGCAC-C----TCCTTCTAAGCCCACAACTCCGTGGCAC-T
* *
272102 TTTTTCCTTCT
187 CTTTTCCTTTT
* * * * *
272113 AAGCCCACAACTCCGTGGCA--C----CCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTT-
1 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGTCCACAACTACGTGGCACTCTTTTCCTTC
* *
272171 TAAAGCCCACAACTACGTGGCACTC-TTTTCCTTCTAAGCCCACAACTCCGTGGCA-CTCTTTTT
66 T-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTTTTTT
*
272234 CCTTTTAAGCCCACAACTCCGTGGCACCTTTTTTTCCTTCTAAGCCCACAACTCCGTGGCA--C-
130 CCTTCTAAGCCCACAACTCCGTGGCACC------TCCTTCTAAGCCCACAACTCCGTGGCACTCT
272296 ---CCTTTT
189 TTTCCTTTT
* *
272302 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTTTTTTCCTTC
1 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGTCCACAACTACGTGGCACTCTTTTCCTTC
*
272367 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCATAACTCCGTGGCACCTTTTTTTC
66 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTTTTTTC
* * *
272432 CTTCTAAGCCCACAACTCCGTGGCA-C-CCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTT
131 CTTCTAAGCCCACAACTCCGTGGCACCTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTCCTT
272495 TT
196 TT
*
272497 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTC
1 AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGTCCACAACTACGTGGCACTCTTTTCCTTC
* * *
272562 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCATAACTCTGTGGCACCTTTTTTTC
66 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTTTTTTC
* * *
272627 CTTCTAAGCCCACAACTCCGTGGCA-C-CCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTT
131 CTTCTAAGCCCACAACTCCGTGGCACCTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTCCTT
*
272690 TA
196 TT
* * * * * *
272692 AAGCCCACAACTCTGTGGCAC-CTTGTTCTTTTTAAGTCCACAACTTCGTGGCA-TCTTT
1 AAGTCCACGACTCCGTGGCACTCTT-TTCCTTTAAAGTCCACAACTACGTGGCACTCTTT
272750 CACCCTTTCT
Statistics
Matches: 566, Mismatches: 41, Indels: 60
0.85 0.06 0.09
Matches are distributed among these distances:
189 68 0.12
190 3 0.01
191 6 0.01
192 17 0.03
193 29 0.05
194 26 0.05
195 322 0.57
196 63 0.11
197 32 0.06
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (197 bp):
AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGTCCACAACTACGTGGCACTCTTTTCCTTC
TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTTTTTTC
CTTCTAAGCCCACAACTCCGTGGCACCTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTCCTT
TT
Found at i:272666 original size:27 final size:27
Alignment explanation
Indices: 272626--272685 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
272616 ACCTTTTTTT
*
272626 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
* *
272653 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
272680 TCTTTT
1 CCTTTT
272686 CCTTTAAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.38, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:272690 original size:357 final size:351
Alignment explanation
Indices: 272001--272749 Score: 1168
Period size: 357 Copynumber: 2.1 Consensus size: 351
271991 CTCAGTGACA
* *
272001 TTTTTTTCTTCAAAGCCCACAACTTCGTGGCAC-C-TTTTCCTTTAAAGCCCACAACTCCGTGGC
1 TTTTTTCCTTCTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTAAAGCCCACAACTCCGTGGC
272064 ACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTTTTTTTCCTTCTAAGCCCACAACTCCGT
66 ACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC------TCCTTCTAAGCCCACAACTCCGT
272129 GGCACCCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCAC
125 GGCACCCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCAC
*
272194 TCTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGC
190 TCTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGC
272259 ACCTTTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACT
255 ACCTTTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACT
272324 CTTTTCCTTTAAAGCCCACAACTAC-GTGGCAC
320 CTTTTCCTTTAAAGCCCACAACT-CTGTGGCAC
* *
272356 TTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGCCCATAACTCCGTGG
1 TTTTTTCCTTCTAAGCCCACAACTTCGTGGCACTCTTTTTCCTT-TAAAGCCCACAACTCCGTGG
* * * *
272420 CACCTTTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC-CCTTTTAAGTCCACGACTCCGTGGCA
65 CA-CTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCCTTCTAAGCCCACAACTCCGTGGCA
272484 CTCTTTTCCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGC
129 --C----CCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGC
* * *
272549 ACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCATAACTCTGTG
188 ACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTG
272614 GCACCTTTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCA
253 GCACCTTTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCA
272679 CTCTTTTCCTTTAAAGCCCACAACTCTGTGGCAC
318 CTCTTTTCCTTTAAAGCCCACAACTCTGTGGCAC
* * * * *
272713 CTTGTTCTTTTTAAGTCCACAACTTCGTGGCA-TCTTT
1 TTTTTTCCTTCTAAGCCCACAACTTCGTGGCACTCTTT
272750 CACCCTTTCT
Statistics
Matches: 365, Mismatches: 18, Indels: 21
0.90 0.04 0.05
Matches are distributed among these distances:
351 23 0.06
353 1 0.00
355 30 0.08
356 7 0.02
357 269 0.74
358 35 0.10
ACGTcount: A:0.19, C:0.35, G:0.13, T:0.33
Consensus pattern (351 bp):
TTTTTTCCTTCTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTAAAGCCCACAACTCCGTGGC
ACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCCTTCTAAGCCCACAACTCCGTGGCACC
CTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTT
CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTT
TTTTCCTTCTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACTCTTTTC
CTTTAAAGCCCACAACTCTGTGGCAC
Found at i:272854 original size:49 final size:49
Alignment explanation
Indices: 272790--273966 Score: 1201
Period size: 49 Copynumber: 24.8 Consensus size: 49
272780 GCAACCCTTC
*
272790 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
272839 TAAGTCCAATGTAGCTCGCCTTGACTCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
272882 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTTGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * **
272931 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGTGCCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
272980 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * *
273029 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATT---AGC---ATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
273072 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * * * *
273121 TAAGACCAATGTAGGTGGCCTTGACTCAGCACATTGTCCCCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
273170 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCA-TTTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTT
* *
273219 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
273262 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
273311 TAAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A-C---ACCTT
1 T-AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
273355 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * *
273407 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
273456 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
273499 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
273548 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
273597 TAAGTACAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
273640 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
273689 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
273732 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
273781 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * * *
273824 TAAGCCCGATATCGCTGGCCTTGAATCAACATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * ** *
273873 TACGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * *
273928 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
273967 TTTTTATCAC
Statistics
Matches: 939, Mismatches: 130, Indels: 112
0.80 0.11 0.09
Matches are distributed among these distances:
43 293 0.31
44 11 0.01
45 1 0.00
46 5 0.01
47 1 0.00
48 9 0.01
49 509 0.54
50 30 0.03
51 2 0.00
52 43 0.05
53 2 0.00
55 33 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:272905 original size:92 final size:92
Alignment explanation
Indices: 272785--273904 Score: 1435
Period size: 92 Copynumber: 11.9 Consensus size: 92
272775 CGGTGGCAAC
*
272785 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
* *
272850 TAGCTCGCCTTGACTCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
272878 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTTGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
272943 AGCTGGCCTTGACTCAGCACATTGGTGCCTTTA
66 AGCTGGCCTTGAATCAGCACATT-G-G-C---A
* * * *
272976 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * *
273041 AGCTGGCCTTGACTCAACACATTAGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
273068 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * *
273133 AGGTGGCCTTGACTCAGCACATTGTCCCCTTTA
66 AGCTGGCCTTGAATCAGCACATTG---GC---A
* * * *
273166 TCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCA-TTTTCATCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTTTAAGTCCAATG
273230 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * * *
273258 CCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAAGTCCAATG
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT-AAGTCCAATG
*
273323 TAGCTGGCCTTGAATCAGCACATTGACA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* *
273351 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAAGTCTAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAA
* * *
273416 TATCGCTGGCCTTGAATCAGCATATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
273446 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGCC
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
* *
273505 CAATATAGCTGGCCTTGAATCAGCATATTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
273538 CCTTTATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCATCTTCATCTTTAAGTA
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
273603 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
273636 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
273701 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
273728 CCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
273793 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * * * * * *
273820 CCTTTAAGCCCGATATCGCTGGCCTTGAATCAACATATTGGCATCTTCATCTTTACGTTCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
273885 AGCTGGCCTTGAATCAGCAC
66 AGCTGGCCTTGAATCAGCAC
273905 GTTGACATCC
Statistics
Matches: 925, Mismatches: 69, Indels: 67
0.87 0.07 0.06
Matches are distributed among these distances:
89 1 0.00
92 543 0.59
93 88 0.10
94 4 0.00
95 37 0.04
96 5 0.01
97 4 0.00
98 201 0.22
99 1 0.00
100 1 0.00
101 40 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:273071 original size:141 final size:141
Alignment explanation
Indices: 272790--273904 Score: 1236
Period size: 141 Copynumber: 7.9 Consensus size: 141
272780 GCAACCCTTC
* *
272790 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCT
* * * *
272855 CGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
272914 ATTTGCACCTTTATCTT
131 A-TT--AGC---ATCTT
* * * ** *
272931 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGTGCCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCT
* *
272996 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAACAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
273061 ATTAGCATCTT
131 ATTAGCATCTT
* * *
273072 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTAGGT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCT
* * * * * * *
273137 GGCCTTGACTCAGCACATTGTCCCCTTTATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC--
**
273202 ATTGGCATTTTCATCTT
129 A----CATTAGCATCTT
* * * * *
273219 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGCCCGATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCT
* **
273278 GGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAAGTCCAATGTAGCTGGCCTTGAATCAGCA
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTT-AAGTCCAATGTAGCTGGCCTTGAATCAGCA
*
273343 CATT-GACACCTT
130 CATTAG-CATCTT
* * *
273355 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAAGTCTAATATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAATATA
* *
273420 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
63 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* *
273485 CACATTGGCACCTT
128 CACATTAGCATCTT
* *
273499 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCT
* * * *
273564 GGCCTTAAATCAGCATATTGGCATCTTCATCTTTAAGTACAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* *
273629 ATTGGCACCTT
131 ATTAGCATCTT
* *
273640 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCT
* * * *
273705 GGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
273764 ATTGGCATCTTCATCTT
131 ATT---A---GCATCTT
* * * * *
273781 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGCCCGATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCT
* * * * *
273840 GGCCTTGAATCAACATATTGGCATCTTCATCTTTACGTTCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
273905 GTTGACATCC
Statistics
Matches: 848, Mismatches: 90, Indels: 72
0.84 0.09 0.07
Matches are distributed among these distances:
135 69 0.08
136 46 0.05
137 2 0.00
139 1 0.00
140 2 0.00
141 485 0.57
142 26 0.03
143 4 0.00
144 82 0.10
145 49 0.06
146 3 0.00
147 79 0.09
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (141 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
ATTAGCATCTT
Found at i:274877 original size:33 final size:33
Alignment explanation
Indices: 274840--274906 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
274830 TTCAACGATT
274840 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
274873 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
274906 T
1 T
274907 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:274878 original size:13 final size:13
Alignment explanation
Indices: 274860--274884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
274850 CATAAAATGT
274860 TGTATCGATACAA
1 TGTATCGATACAA
274873 TGTATCGATACA
1 TGTATCGATACA
274885 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:275038 original size:52 final size:52
Alignment explanation
Indices: 274982--275106 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
274972 CACTGATCTT
*
274982 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
275034 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
275086 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
275107 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:286047 original size:51 final size:50
Alignment explanation
Indices: 285917--286052 Score: 139
Period size: 51 Copynumber: 2.6 Consensus size: 50
285907 AAAATTAGTA
* * * *
285917 TTTTAGAGATAACAACGGGGCTAGAGTATCCTCGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * * *
285968 TTCTAAAAAATAAAATCGGGTTTAGAGTATCCCCGATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
286020 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
286053 TCAGAAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
51 36 0.52
52 33 0.48
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:286124 original size:79 final size:79
Alignment explanation
Indices: 285993--286288 Score: 513
Period size: 79 Copynumber: 3.7 Consensus size: 79
285983 TCGGGTTTAG
*
285993 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGA
1 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGA
286058 AATAACGGGGTTGA
66 AATAACGGGGTTGA
*
286072 AGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGA
1 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGA
*
286137 AATAACGGGGTTGG
66 AATAACGGGGTTGA
286151 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGA
1 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGA
*
286216 AATAACGGGATTGGA
66 AATAACGGGGTT-GA
* * *
286231 A-TATCTCCGATTATGAAAAATTGATGTTTTAGAGATAAAACTGGGGTTGGAGTATCCC
1 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
286289 TGATGATTAA
Statistics
Matches: 207, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
79 205 0.99
80 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGA
AATAACGGGGTTGA
Found at i:286311 original size:27 final size:28
Alignment explanation
Indices: 286273--286342 Score: 117
Period size: 27 Copynumber: 2.6 Consensus size: 28
286263 AGATAAAACT
286273 GGGGTTGGAGTATCCCT-GATGATTAAA
1 GGGGTTGGAGTATCCCTCGATGATTAAA
*
286300 GGGGTTGGAGTAT-CCTCGATGATTAAC
1 GGGGTTGGAGTATCCCTCGATGATTAAA
286327 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
286343 CAATTATGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 3 0.08
27 35 0.88
28 2 0.05
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCTCGATGATTAAA
Found at i:286372 original size:263 final size:263
Alignment explanation
Indices: 286060--286551 Score: 795
Period size: 263 Copynumber: 1.9 Consensus size: 263
286050 CCCTCAGAAA
* ** * *
286060 TAACGGGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAG
1 TAACGGGGTTGAAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAG
** * *
286125 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAA
66 TATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAA
*
286190 AACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTGGAATATCTCCGATTATGAAAAATTGA
131 AACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTGGAATATCCCCGATTATGAAAAATTGA
* * *
286255 TGTTTTAGAGATAAAACTGGGGTTGGAGTATCCCTGATGATTAAAGGGGTTGGAGTATCCTCGAT
196 AGTTTTAGAAATAAAACTGGGATTGGAGTATCCCTGATGATTAAAGGGGTTGGAGTATCCTCGAT
286320 GAT
261 GAT
* * *
286323 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAACCGAGGTTTGAG
1 TAACGGGGTTGAAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAG
**
286388 TATTTCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAA
66 TATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAA
* *
286453 AACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
131 AACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTGGAATATCCCCGATTATGAAAAATTGA
*
286518 AGTTTTAGAAATAAAATTGGGATTGGAGTATCCC
196 AGTTTTAGAAATAAAACTGGGATTGGAGTATCCC
286552 CGCAGAAACA
Statistics
Matches: 208, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
263 208 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (263 bp):
TAACGGGGTTGAAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAG
TATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAA
AACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTGGAATATCCCCGATTATGAAAAATTGA
AGTTTTAGAAATAAAACTGGGATTGGAGTATCCCTGATGATTAAAGGGGTTGGAGTATCCTCGAT
GAT
Found at i:286454 original size:79 final size:78
Alignment explanation
Indices: 286323--286662 Score: 466
Period size: 79 Copynumber: 4.3 Consensus size: 78
286313 CCTCGATGAT
* *
286323 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAACCGAGGTTTGAG
1 TAACGGGGTTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCG-GGTTGGAG
**
286388 TATTTCCTCAAAAA
65 TATCCCCTCAAAAA
*
286402 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACC-GGGTTGGAG
**
286467 TATCCCCTCGGAAA
65 TATCCCCTCAAAAA
* * **
286481 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAA-GTTTTAGAAATAAAATTGGGATTGGA
1 TAACGGGGTTGGAGTATCCCCAATTATGAAAAATT-AATATTTTAGAAATAAAACCGGG-TTGGA
* *
286545 GTATCCCCGCAGAAA
64 GTATCCCCTCAAAAA
* * *
286560 CAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAAAAATAAAACCGTGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCG-GGTTGGAG
*
286625 TATCCCCTCGAAAA
65 TATCCCCTCAAAAA
*
286639 TAACGGGGATGGAGTATCCCCAAT
1 TAACGGGGTTGGAGTATCCCCAAT
286663 GATTAACGGG
Statistics
Matches: 232, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
78 5 0.02
79 222 0.96
80 5 0.02
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (78 bp):
TAACGGGGTTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGGGTTGGAGT
ATCCCCTCAAAAA
Found at i:286455 original size:184 final size:184
Alignment explanation
Indices: 286139--286472 Score: 515
Period size: 184 Copynumber: 1.8 Consensus size: 184
286129 CCCTCGGAAA
* * * *
286139 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAG
** * * * *
286204 TATCCCCTCGGAAATAACGGGATTGGAATATCTCCGATTATGAAAAATTGATGTTTTAGAGATAA
66 TATCCCCTCAAAAATAACGGGATTGGAATATCCCCGATTATGAAAAATTAATATTTTAGAAATAA
*
286269 AACTGGGGTTGGAGTATCCCTGATGATTAAAGGGGTTGGAGTATCCTCGATGAT
131 AACCGGGGTTGGAGTATCCCTGATGATTAAAGGGGTTGGAGTATCCTCGATGAT
* *
286323 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAACCGAGGTTTGAG
1 TAACGGGGTTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAG
** * *
286388 TATTTCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAA
66 TATCCCCTCAAAAATAACGGGATTGGAATATCCCCGATTATGAAAAATTAATATTTTAGAAATAA
286453 AACCGGGGTTGGAGTATCCC
131 AACCGGGGTTGGAGTATCCC
286473 CTCGGAAATA
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
184 133 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (184 bp):
TAACGGGGTTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAG
TATCCCCTCAAAAATAACGGGATTGGAATATCCCCGATTATGAAAAATTAATATTTTAGAAATAA
AACCGGGGTTGGAGTATCCCTGATGATTAAAGGGGTTGGAGTATCCTCGATGAT
Found at i:286623 original size:342 final size:343
Alignment explanation
Indices: 285992--286683 Score: 1028
Period size: 342 Copynumber: 2.0 Consensus size: 343
285982 ATCGGGTTTA
* * * * *
285992 GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAG
1 GAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAA
** *
286057 AAATAACGGGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTG
66 AAATAACGGGGTTGAAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTG
*
286122 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAA
131 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAA
* * * * * *
286187 TAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTGGAATATCTCCGATTATGAAAAAT
196 TAAAACCGGGATTGGAGTATCCCCGCAGAAACAACGGGATTGGAATATCCCCAATTATGAAAAAT
* * * * * * * *
286252 TGATGTTTTAGAGATAAAACTGGGGTTGGAGTAT-CCCT-GATGATTAAAGGGGTTGGAGTATCC
261 TAATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCGA-AAATAAAGGGGATGGAGTATCC
* *
286315 TCGATGATTAACGGGGTTG
325 CCAATGATTAACGGGGTTG
* * **
286334 GAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAACCGAGGTTTGAGTATTTCCTCAA
1 GAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAA
*
286399 AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTG
66 AAATAACGGGGTTGAAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTG
286464 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAA
131 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAA
** * * *
286529 TAAAATTGGGATTGGAGTATCCCCGCAGAAACAACGGGGTTGGAGTATCCCCAATTATGAGAAAT
196 TAAAACCGGGATTGGAGTATCCCCGCAGAAACAACGGGATTGGAATATCCCCAATTATGAAAAAT
* *
286594 TAATATTTTAAAAATAAAACCGTGGTTGGAGTATCCCCTCGAAAATAACGGGGATGGAGTATCCC
261 TAATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAAGGGGATGGAGTATCCC
286659 CAATGATTAACGGGGTTG
326 CAATGATTAACGGGGTTG
286677 GAGTATC
1 GAGTATC
286684 TTCAATTGTT
Statistics
Matches: 311, Mismatches: 37, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
342 263 0.85
343 46 0.15
344 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (343 bp):
GAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAA
AAATAACGGGGTTGAAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTG
GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAA
TAAAACCGGGATTGGAGTATCCCCGCAGAAACAACGGGATTGGAATATCCCCAATTATGAAAAAT
TAATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAAGGGGATGGAGTATCCC
CAATGATTAACGGGGTTG
Found at i:286995 original size:1 final size:1
Alignment explanation
Indices: 286989--287063 Score: 69
Period size: 1 Copynumber: 75.0 Consensus size: 1
286979 GAGTTCCCTT
* * * * * * *
286989 AAAAAAAAAATAAAAAAAAATAAAAATAAAAAAAACACAAAAAAAACAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
287054 CACAAAAAAA
1 AAAAAAAAAA
287064 TGCAAAGGCA
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:287034 original size:30 final size:30
Alignment explanation
Indices: 287000--287063 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
286990 AAAAAAAAAT
* *
287000 AAAAAAA-AATAAAA-ATAAAAAAAACACA
1 AAAAAAACAAAAAAACAAAAAAAAAACACA
287028 AAAAAAACAAAAAAACAAAAAAAAAACACA
1 AAAAAAACAAAAAAACAAAAAAAAAACACA
287058 AAAAAA
1 AAAAAA
287064 TGCAAAGGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 7 0.22
29 6 0.19
30 19 0.59
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (30 bp):
AAAAAAACAAAAAAACAAAAAAAAAACACA
Found at i:287327 original size:17 final size:17
Alignment explanation
Indices: 287303--287339 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
287293 TCTTTTCCAA
287303 AAAAAAAAAAAG-AAAC
1 AAAAAAAAAAAGAAAAC
*
287319 AAAACAAAAAAGAAAAC
1 AAAAAAAAAAAGAAAAC
287336 AAAA
1 AAAA
287340 GAGGAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAAC
Found at i:288464 original size:35 final size:35
Alignment explanation
Indices: 288327--289081 Score: 907
Period size: 35 Copynumber: 21.8 Consensus size: 35
288317 TTTTTTCTTC
* *
288327 AAAGCCCACAACTTCGTGGCAC-C-TTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
288359 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
288393 AAAGCCCACAACTCCGTGGCACT-TTTTTCATCTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
288427 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* * *
288462 AAAGCCCATAACTCCGTGGCACTATTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTT
288499 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
288532 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
288567 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTT
*
288604 AAAGCCCACAACCCCGTGGCAC-CTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* * *
288638 TAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTT
*
288675 AAAGCCCACAACTCCGTGGCACTC-TTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* * *
288708 AAAGCCCACAACTACGTGGCACTCTTTTTCATCTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* * *
288743 AAAGCCCACAACTACGTGGCACTCTTTTTCATCTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
288778 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
*
288813 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTT
*
288850 AAAGCCCACAACTCCATGGCAC-CTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
288883 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* * *
288918 AAAGCCCACAACTACGTGGCACTC-TTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
288952 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
288986 -AAGCCCACAACTCCGTGGCACTCTTTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCACTC--TTTTT-CTTTTT
* * *
289023 AAAGCCCACAACTCTGTGGCAC-CTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
289057 -AAGTCCACAACTTCGTGGCA-TCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT
289082 CACCCTTTCC
Statistics
Matches: 634, Mismatches: 64, Indels: 49
0.85 0.09 0.07
Matches are distributed among these distances:
32 22 0.03
33 118 0.19
34 144 0.23
35 195 0.31
36 26 0.04
37 109 0.17
38 20 0.03
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (35 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
Found at i:289129 original size:33 final size:33
Alignment explanation
Indices: 289092--289155 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
289082 CACCCTTTCC
*
289092 AAAGCCCACACAAGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCATTCTCT
*
289125 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCATTCT
289156 AAGCCCAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCATTCTCT
Found at i:289213 original size:49 final size:49
Alignment explanation
Indices: 289155--290361 Score: 713
Period size: 49 Copynumber: 24.6 Consensus size: 49
289145 GCAACCCTTC
* *
289155 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
289204 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
289252 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
289295 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * * *
289347 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
289396 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * * * *
289448 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACATTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
289497 TACGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * * * *
289546 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT--CTT
* * * * *
289597 T---TCTCACCT-T--CAT---CTTTAAGTC--CA-ATGTAGCTGGCCTTGA-C--
1 TAAGTC-CA-ATATAGC-TGGCCTTGAA-TCAGCATAT-TGGC--ACCTTCATCTT
* * ** * ** * * * *
289638 TCAG-CACATTGGCACCTTCACCATT-AAGTCCAACATAGCTGGC-CTTGAATCAGCATAT
1 TAAGTC-CAAT-ATAGC-TGGCC-TTGAA-T-CAGCATA-TTGGCACCT---TCATC-T-T
** * * * * * * * * ** * *
289696 TGGCACCTTCATCTTTAAGC---CCAATGTAGCTGGCCTGAATCAGCACATTGGCA-C-C
1 T---AAGTCCA-ATAT-AGCTGGCC-TTGAATC-AGCAT--ATTGGCACCTT--CATCTT
* ** * * * * ** * *
289751 TCA--CCTTTA-AG-T--CCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCC-TTGAATC-AG-CAT--ATTGGCACCTT--CATCTT
289801 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
289853 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
289896 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
289948 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
289997 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
290046 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
290095 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
290144 GAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
290187 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
290236 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
290279 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
* *
290331 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
290362 CGTTGACATC
Statistics
Matches: 926, Mismatches: 138, Indels: 185
0.74 0.11 0.15
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 161 0.17
44 5 0.01
45 8 0.01
46 8 0.01
47 15 0.02
48 65 0.07
49 385 0.42
50 18 0.02
51 12 0.01
52 201 0.22
53 12 0.01
54 4 0.00
55 5 0.01
56 2 0.00
57 2 0.00
58 8 0.01
59 5 0.01
60 3 0.00
61 2 0.00
62 3 0.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:289808 original size:43 final size:45
Alignment explanation
Indices: 289609--290375 Score: 717
Period size: 49 Copynumber: 16.1 Consensus size: 45
289599 CTCACCTTCA
*
289609 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TC
* * ** *
289657 ACCATTAAGTCCAACATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TC
*
289706 ATCTTTAAGCCCAATGTAGCTGGCC-TGAATCAGCACATTGGCACCTC
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TC
* *
289753 ACCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA-C
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
* *
289798 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-----T-C
*
289848 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
* *
289893 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-----T-C
*
289943 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTC
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TC
* * *
289992 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TC
*
290041 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTC
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TC
* * *
290090 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
*
290136 TTCATCTTGAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C
1 -TC-T-TT-AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
* * *
290184 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TC
290231 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
* *
290276 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG--CA---T-C
* * *
290326 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATC
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
290372 -CTTT
1 TCTTT
290376 TTCTCATCTT
Statistics
Matches: 618, Mismatches: 63, Indels: 79
0.81 0.08 0.10
Matches are distributed among these distances:
43 150 0.24
44 6 0.01
45 6 0.01
46 6 0.01
47 28 0.05
48 38 0.06
49 264 0.43
50 7 0.01
52 113 0.18
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (45 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
Found at i:290111 original size:98 final size:98
Alignment explanation
Indices: 289601--290428 Score: 1024
Period size: 95 Copynumber: 8.6 Consensus size: 98
289591 TCACTTTTCT
* * * * * *
289601 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAG
1 CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
** *
289666 TCCAACATAGCTGGCCTTGAATCAGCATATTGG
66 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * * *
289699 CACCTTCATCTTTAAGCCCAATGTAGCTGGCC-TGAATCAGCACATTGGCA-CCTCACCTTTAAG
1 CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
*
289762 TCCAATGTAGCTAGCCTTGAATCAGCACATTGG
66 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
289795 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTT
1 CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTT
*
289854 AAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG
63 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
289890 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTT
1 CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTT
*
289949 AAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG
63 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
289985 CACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
1 CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
*
290050 TCCAATGTAGCTGGCCTTGACTCAGCACATTGG
66 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* *
290083 CACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAG
1 CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
*
290148 TCCAATGTAGCTGGCCTTGACTCAGCACATTGG
66 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
290181 CA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
1 CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
290240 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
66 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
290273 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTT
1 CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTT
* * *
290332 AAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGA
63 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * * * *
290368 CATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 CA-CC----T-TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTT
290429 TATCACTTTT
Statistics
Matches: 671, Mismatches: 33, Indels: 45
0.90 0.04 0.06
Matches are distributed among these distances:
90 21 0.03
91 17 0.03
92 130 0.19
94 7 0.01
95 179 0.27
96 42 0.06
97 17 0.03
98 173 0.26
99 4 0.01
101 41 0.06
105 6 0.01
107 34 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
Found at i:290212 original size:92 final size:92
Alignment explanation
Indices: 290092--290362 Score: 470
Period size: 92 Copynumber: 2.9 Consensus size: 92
290082 GCACCTTCAT
*
290092 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
290157 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
290184 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
290249 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
290276 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
290341 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
290363 GTTGACATCC
Statistics
Matches: 171, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
92 129 0.75
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:290723 original size:33 final size:33
Alignment explanation
Indices: 290686--290750 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
290676 TCAATGATTT
290686 GTATCGATACATAAAATGTTGTATCGATACAAC
1 GTATCGATACATAAAATGTTGTATCGATACAAC
*** *
290719 GTATCGATACATATTTTTTTGTATCGATACAA
1 GTATCGATACATAAAATGTTGTATCGATACAA
290751 TTTAAGCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (33 bp):
GTATCGATACATAAAATGTTGTATCGATACAAC
Found at i:290812 original size:13 final size:13
Alignment explanation
Indices: 290794--290818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
290784 ATTACTCACA
290794 TGTATCGATACAT
1 TGTATCGATACAT
290807 TGTATCGATACA
1 TGTATCGATACA
290819 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:290955 original size:52 final size:52
Alignment explanation
Indices: 290827--290947 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
290817 CACTGATCTT
*
290827 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
290879 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
290931 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
290948 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:295381 original size:12 final size:13
Alignment explanation
Indices: 295361--295389 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
295351 TTTTATTTTT
295361 TTTTGAATTTTAA
1 TTTTGAATTTTAA
295374 TTTT-AATTTTAA
1 TTTTGAATTTTAA
295386 TTTT
1 TTTT
295390 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:299935 original size:79 final size:78
Alignment explanation
Indices: 299846--300255 Score: 425
Period size: 79 Copynumber: 5.2 Consensus size: 78
299836 GAGATAATAA
* * * * ** *
299846 CGGGGCTGGAGTATCCCTTTGAAAATAACGGGGTTGGAGTATCCTCGGTTGTAAAAAATCAATGA
1 CGGGGTTGGAGTATCCC-TTGAAAATAACGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGT
* *
299911 TTTGGAAATAAAAT
65 TTTAGAAATAAAAC
* * * * * * * *
299925 CGAGATTGGAGCATCCCCTCAGAAATAACGGCGTTGGAGTATCCCCGACTATAAAAAATTGATCT
1 CGGGGTTGGAGTATCCCTTGA-AAATAACGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGT
299990 TTTAGAAATAAAAC
65 TTTAGAAATAAAAC
* * * * * * * * *
300004 CGGGGTTGAAGTATCTCCTTGGAAATAACGGGGTTAGATTATCCTCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATC-CCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGT
*
300069 TTTAGAAATAAAGC
65 TTTAGAAATAAAAC
* * *
300083 TGGGGTT-GAGGTATCCCCTAGAAAATAATC-GGGTTGGAGTATCCCCG---ATGAAAAATTGAT
1 CGGGGTTGGA-GTAT-CCCTTGAAAATAA-CGGGGTTGGAGTATCCCCGATTATAAAAAATTGAT
300143 GTTTTAGAAATAAAAC
63 GTTTTAGAAATAAAAC
* *
300159 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
1 CGGGGTTGGAGTAT-CCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGT
300224 TTTAGAAATAAAAC
65 TTTAGAAATAAAAC
*
300238 TGGGGTTGGAGTATCCCT
1 CGGGGTTGGAGTATCCCT
300256 GAGATTAAAA
Statistics
Matches: 273, Mismatches: 48, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
75 1 0.00
76 65 0.24
77 2 0.01
78 7 0.03
79 193 0.71
80 5 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTT
TTAGAAATAAAAC
Found at i:300202 original size:155 final size:155
Alignment explanation
Indices: 299846--300254 Score: 495
Period size: 155 Copynumber: 2.6 Consensus size: 155
299836 GAGATAATAA
* * * * * *
299846 CGGGGCTGGAGTATCCCTTTGAAAATAACGGGGTTGGAGTATCCTCGGTTGTAAAAAATCAATGA
1 CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTAAT-A
* * * * *
299911 -TTTGGAAATAAAATCGAGATTGGAGCATCCCCTCAGAAATAACGGCGTTGGAGTATCCCCGACT
65 TTTTAGAAATAAACT-GGGGTTGGAGTATCCCCTCAGAAATAACGGCGTTGGAGTATCCCCGA--
299975 ATAAAAAATTGATCTTTTAGAAATAAAAC
127 ATAAAAAATTGATCTTTTAGAAATAAAAC
* * * * * *
300004 CGGGGTTGAAGTATCTCCTTGGAAATAACGGGGTTAGATTATCCTCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTAATAT
300069 TTTAGAAATAAAGCTGGGGTT-GAGGTATCCCCT-AGAAAATAATCGG-GTTGGAGTATCCCCG-
66 TTTAGAAATAAA-CTGGGGTTGGA-GTATCCCCTCAG-AAATAA-CGGCGTTGGAGTATCCCCGA
* *
300130 ATGAAAAATTGATGTTTTAGAAATAAAAC
127 ATAAAAAATTGATCTTTTAGAAATAAAAC
* * * *
300159 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTAATAT
300224 TTTAGAAATAAAACTGGGGTTGGAGTATCCC
66 TTTAGAAAT-AAACTGGGGTTGGAGTATCCC
300255 TGAGATTAAA
Statistics
Matches: 215, Mismatches: 29, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
155 106 0.49
156 5 0.02
157 5 0.02
158 95 0.44
159 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (155 bp):
CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTAATAT
TTTAGAAATAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGCGTTGGAGTATCCCCGAATAA
AAAATTGATCTTTTAGAAATAAAAC
Found at i:302230 original size:8 final size:8
Alignment explanation
Indices: 302217--302246 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
302207 ACAAACCAAG
302217 GGCATTAT
1 GGCATTAT
302225 GGCATTAT
1 GGCATTAT
302233 GGCATTAT
1 GGCATTAT
302241 GGCATT
1 GGCATT
302247 CGTCCCCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (8 bp):
GGCATTAT
Found at i:304373 original size:22 final size:22
Alignment explanation
Indices: 304347--304405 Score: 118
Period size: 22 Copynumber: 2.7 Consensus size: 22
304337 CATATGTGGG
304347 GACTCCTTGAAAATGTATATGA
1 GACTCCTTGAAAATGTATATGA
304369 GACTCCTTGAAAATGTATATGA
1 GACTCCTTGAAAATGTATATGA
304391 GACTCCTTGAAAATG
1 GACTCCTTGAAAATG
304406 GTTTTTTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (22 bp):
GACTCCTTGAAAATGTATATGA
Found at i:304616 original size:19 final size:19
Alignment explanation
Indices: 304592--304654 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
304582 CAACGATTTA
304592 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
304611 TATCGATAC--AA----TG
1 TATCGATACATAAGTGTTG
304624 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
304643 TATCGATACATA
1 TATCGATACATA
304655 TGAAGCTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (19 bp):
TATCGATACATAAGTGTTG
Found at i:304627 original size:13 final size:13
Alignment explanation
Indices: 304609--304633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
304599 ACATAAGTGT
304609 TGTATCGATACAA
1 TGTATCGATACAA
304622 TGTATCGATACA
1 TGTATCGATACA
304634 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:304628 original size:32 final size:32
Alignment explanation
Indices: 304592--304652 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
304582 CAACGATTTA
304592 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
304624 TATCGATACATAAGTGTTGTATCGATACA
1 TATCGATACATAAGTGTTGTATCGATACA
304653 TATGAAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:304714 original size:13 final size:13
Alignment explanation
Indices: 304696--304720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
304686 ATTACTCAAA
304696 TGTATCGATACAT
1 TGTATCGATACAT
304709 TGTATCGATACA
1 TGTATCGATACA
304721 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:304858 original size:52 final size:52
Alignment explanation
Indices: 304729--304859 Score: 208
Period size: 52 Copynumber: 2.5 Consensus size: 52
304719 CACTGATCTT
* *
304729 TGTATCGATACAAGCAGGCAAATTTGCCCAGATGTATCCATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCCATACACTATGAAA
* * * *
304781 TGTATCGATACATACAAGCAAATTTTCCCAGATGTATCGATATACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCCATACACTATGAAA
304833 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
304860 ATATTTCGGG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCCATACACTATGAAA
Found at i:312968 original size:20 final size:20
Alignment explanation
Indices: 312943--312996 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
312933 ATTAGAAGCA
* *
312943 ATGTATCGAGACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
312963 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
312983 ATGTATCGATACAA
1 ATGTATCGATACAA
312997 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:313048 original size:20 final size:20
Alignment explanation
Indices: 313023--313060 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
313013 TACTGCCAAT
313023 TTCATGTATCGATACAATTG
1 TTCATGTATCGATACAATTG
313043 TTCATGTATCGATACAAT
1 TTCATGTATCGATACAAT
313061 GATCATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
TTCATGTATCGATACAATTG
Found at i:315755 original size:34 final size:34
Alignment explanation
Indices: 315712--315781 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
315702 GCACGAATGG
* * *
315712 CCTTTTTCAAATTTGATTTTGCTATGAAATTGTC
1 CCTTCTTCAAATTTGATTTTGCTATAAAATTATC
315746 CCTTCTTCAAATTTGATTTTGCTATAAAATTATC
1 CCTTCTTCAAATTTGATTTTGCTATAAAATTATC
315780 CC
1 CC
315782 CAAAATCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (34 bp):
CCTTCTTCAAATTTGATTTTGCTATAAAATTATC
Found at i:316052 original size:23 final size:23
Alignment explanation
Indices: 316023--316068 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
316013 AAGGTAGGCA
316023 AAAATGCTTGAATGTATCGATAC
1 AAAATGCTTGAATGTATCGATAC
316046 AAAATGCTTGAATGTATCGATAC
1 AAAATGCTTGAATGTATCGATAC
316069 GTTTGAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (23 bp):
AAAATGCTTGAATGTATCGATAC
Found at i:316239 original size:21 final size:21
Alignment explanation
Indices: 316215--316264 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
316205 CAAAGTCTTC
*
316215 TATCGATACCTTAAGT-GAATG
1 TATCGATACC-TAAGTAGAAGG
* *
316236 TATCGATTCCTAAGTATAAGG
1 TATCGATACCTAAGTAGAAGG
316257 TATCGATA
1 TATCGATA
316265 TCTAGGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
TATCGATACCTAAGTAGAAGG
Found at i:318222 original size:2 final size:2
Alignment explanation
Indices: 318209--318250 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
318199 CTAGCATCAC
*
318209 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
318251 GTAAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:323170 original size:2 final size:2
Alignment explanation
Indices: 323163--323192 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
323153 CTTTCTTAAA
323163 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
323193 TTCAATTGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:324895 original size:2 final size:2
Alignment explanation
Indices: 324888--324917 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
324878 AGCAAGCTTA
324888 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
324918 AAAAGATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:331070 original size:26 final size:25
Alignment explanation
Indices: 331032--331103 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
331022 AAATTTATTT
*
331032 AAAT-TTTAGAATTTAATAAAAATTA
1 AAATATTTAAAATTTAATAAAAA-TA
*
331057 AATTATTTAAAATTTAATAAAAATA
1 AAATATTTAAAATTTAATAAAAATA
* *
331082 AAATAATTAAAAATT-ATAAAAA
1 AAATATTTAAAATTTAATAAAAA
331104 GACTTAAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.17
25 17 0.41
26 17 0.41
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (25 bp):
AAATATTTAAAATTTAATAAAAATA
Found at i:332185 original size:24 final size:25
Alignment explanation
Indices: 332154--332213 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
332144 TAAATTATTT
332154 TTTAAATTTATTAATT-TTATTTT-A
1 TTTAAA-TTATTAATTATTATTTTAA
332178 TTTAAATTA--AATTATTATTTTAAA
1 TTTAAATTATTAATTATTATTTT-AA
332202 TTTAAATTATTA
1 TTTAAATTATTA
332214 TTCTATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 3 0.10
24 16 0.52
26 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTAAATTATTAATTATTATTTTAA
Found at i:332206 original size:19 final size:19
Alignment explanation
Indices: 332143--332215 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 19
332133 TATTTATAAG
332143 TTAAATTATT-TTTTAAAT
1 TTAAATTATTATTTTAAAT
*
332161 TTATTAATT-TTATTTTATTTAAA
1 TTA--AATTATTATTTTA---AAT
332184 TTAAATTATTATTTTAAAT
1 TTAAATTATTATTTTAAAT
332203 TTAAATTATTATT
1 TTAAATTATTATT
332216 CTATTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
18 3 0.07
19 17 0.37
20 9 0.20
21 4 0.09
22 8 0.17
23 5 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAAATTATTATTTTAAAT
Found at i:332215 original size:41 final size:42
Alignment explanation
Indices: 332133--332225 Score: 120
Period size: 41 Copynumber: 2.2 Consensus size: 42
332123 TAACTAAATA
*
332133 TATTTATAAGTTAAATTATTTTTTAAATTTATTAATTTTATTT
1 TATTTATAAGTTAAATTATTTTTTAAATTTA-TAATTTTATTC
332176 TATTTA-AA-TTAAATTATTATTTTAAATTTA-AATTATTATTC
1 TATTTATAAGTTAAATTATT-TTTTAAATTTATAATT-TTATTC
*
332217 TATTAATAA
1 TATTTATAA
332226 ATAATATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
40 4 0.09
41 20 0.44
42 15 0.33
43 6 0.13
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (42 bp):
TATTTATAAGTTAAATTATTTTTTAAATTTATAATTTTATTC
Found at i:332220 original size:24 final size:21
Alignment explanation
Indices: 332154--332220 Score: 55
Period size: 24 Copynumber: 2.9 Consensus size: 21
332144 TAAATTATTT
332154 TTTAAATTTATTAATTTTATTTTA
1 TTTAAA-TTATT-A-TTTATTTTA
332178 TTTAAATTAAATTA-TTATTTTAAA
1 TTTAAATT--ATTATTTATTTT--A
332202 TTTAAATTATTATTCTATT
1 TTTAAATTATTATT-TATT
332221 AATAAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
22 11 0.30
23 3 0.08
24 20 0.54
25 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAAATTATTATTTATTTTA
Found at i:332261 original size:26 final size:28
Alignment explanation
Indices: 332225--332288 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
332215 TCTATTAATA
*
332225 AATAATATATTTTAATAAAATTT-AAATTT
1 AATAATAT-TATTAA-AAAATTTAAAATTT
332254 AA-AATATTATTAAAAAATTTAAAATTT
1 AATAATATTATTAAAAAATTTAAAATTT
332281 AATAATAT
1 AATAATAT
332289 CTAGACCGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.22
27 13 0.41
28 10 0.31
29 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AATAATATTATTAAAAAATTTAAAATTT
Found at i:332266 original size:27 final size:27
Alignment explanation
Indices: 332227--332288 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 27
332217 TATTAATAAA
332227 TAAT-ATATTTTAATAAAATTT-AAATT
1 TAATAATATTTTAA-AAAATTTAAAATT
332253 TAA-AATATTATTAAAAAATTTAAAATT
1 TAATAATATT-TTAAAAAATTTAAAATT
332280 TAATAATAT
1 TAATAATAT
332289 CTAGACCGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 15 0.47
27 12 0.38
28 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATAATATTTTAAAAAATTTAAAATT
Found at i:332862 original size:110 final size:113
Alignment explanation
Indices: 332610--332891 Score: 333
Period size: 110 Copynumber: 2.5 Consensus size: 113
332600 TATTATTCTT
* * *
332610 AATAAAAAATAATATTTAATTAACTTTAAAAAAAATTAGATTAATAAATTAAAATATTAATTATT
1 AATAAAAAATAATATTTAATTAAATTT--AAAAAATTACATTAACAAATTAAAATATTAATTATT
332675 TTTTAAAATAAAAAATTCAATTAAAAAGGGTTTATTATTATTATTTTTTAACAA
64 TTTT-AAATAAAAAATTCAA-TAAAAA--GTTTATTATTATTATTTTTTAACAA
* * *
332729 AATTAAAAATAATATTTGATTAAATTTAAAAAATTATATTAACAAATTAAAATATTAATTATATG
1 AATAAAAAATAATATTTAATTAAATTTAAAAAATTACATTAACAAATTAAAATATTAATTAT-T-
* * * *
332794 TTTT-TAT-AAAAA-T-AA-AAAATA-TTTTTTATTTTTATTTTTTAATAA
64 TTTTAAATAAAAAATTCAATAAAA-AGTTTATTATTATTATTTTTTAACAA
*
332839 AATAAAAAATGATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAA
1 AATAAAAAATAATATTTAATTAAATTTAAAAAA-TTACATTAACAAATTAAAA
332892 AAATAACATT
Statistics
Matches: 146, Mismatches: 13, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
110 51 0.35
111 18 0.12
112 4 0.03
113 1 0.01
114 2 0.01
115 1 0.01
116 5 0.03
117 35 0.24
118 1 0.01
119 28 0.19
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (113 bp):
AATAAAAAATAATATTTAATTAAATTTAAAAAATTACATTAACAAATTAAAATATTAATTATTTT
TTAAATAAAAAATTCAATAAAAAGTTTATTATTATTATTTTTTAACAA
Found at i:332889 original size:22 final size:23
Alignment explanation
Indices: 332864--332917 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
332854 TTAATTAAAT
* *
332864 TTAAAAAATTTACA-TTAACAAA
1 TTAAAAAAATAACATTTAACAAA
**
332886 TTAAAAAAATAACATTTAAGGAA
1 TTAAAAAAATAACATTTAACAAA
332909 TTAAAAAAA
1 TTAAAAAAA
332918 ATTTATCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (23 bp):
TTAAAAAAATAACATTTAACAAA
Found at i:333357 original size:118 final size:117
Alignment explanation
Indices: 333224--333577 Score: 396
Period size: 119 Copynumber: 2.9 Consensus size: 117
333214 AATAAAAAAA
*
333224 TTTTAATTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAAT
1 TTTTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAAT
*
333289 TTTTAAACTTTAATTAAATATTTTTTTTATTAAAAATTATAATAAAAAACTTT
66 TTTTAAAC-TTAATTAAATATTTTTTTTATTAAAAATAATAATAAAAAACTTT
333342 TTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAA-ATTTTAATTTGTTAATGTAA
1 TTTTATTTTAAAATTTTTTA-TTTT-TAAAAACATAATAATTAATATTTTAATTTGTTAATGTAA
* **
333406 TTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAATAATAATAATAAGCCCTTTT
64 ATTTTTAAACTTAATT-AA-A-TA-TTTT--TTTTATT-AAAAATAATAATAA-AA-AAC-TTT
* * * * *
333470 TATTTTTATTTAAATTTTTTTATTTTT--AAA-A-AATAATTCATATTTTAATTTATTAATATAA
1 T-TTTAT-TTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAA
*
333531 ATTTCTTTAAAGC-TAATTAAATATTATTTTTGATTAAAAATAATAAT
64 A-TT-TTTAAA-CTTAATTAAATATT-TTTTTTATTAAAAATAATAAT
333578 TAATACATTA
Statistics
Matches: 205, Mismatches: 12, Indels: 35
0.81 0.05 0.14
Matches are distributed among these distances:
118 25 0.12
119 35 0.17
120 19 0.09
121 14 0.07
122 10 0.05
123 2 0.01
124 19 0.09
125 33 0.16
126 9 0.04
127 12 0.06
128 6 0.03
129 8 0.04
130 13 0.06
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (117 bp):
TTTTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAAT
TTTTAAACTTAATTAAATATTTTTTTTATTAAAAATAATAATAAAAAACTTT
Found at i:333627 original size:125 final size:122
Alignment explanation
Indices: 333257--333628 Score: 277
Period size: 119 Copynumber: 3.0 Consensus size: 122
333247 TTAAAAACAT
* * * *
333257 AATAATTAATATTTTAATTTGTTAATGTAAATTTTTAAACTTTAATTAAATATT-TTTTTTA-TT
1 AATAATTAA-ATTTTAATTTATTAATATAATTTTTTAAAC-TTAATTAAATATTATTTTTAATTT
* ** * * *
333320 A-AAAATTATAATAA-AA-AA---CTTTTTTTA-TT-TTAAAATTTTTTATTTTTATAAAAACA
64 ATAAAA-AATAATAATAATAAGCCCTTTTTAAATTTATTTAAATTTATTA-ATTTAT--AAA-A
* *
333376 TAATAATTAAATTTTAATTTGTTAATGTAATTTTTTAAACTTAATTAAATATTATTTTTAATTTT
1 -AATAATTAAATTTTAATTTATTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAA-TTT
** * * *
333441 ATTAAAAAATAATAATAATAAGCCCTTTTTATTTTTATTTAAATTTTTTTATTTTTAAAA
64 A-TAAAAAATAATAATAATAAGCCCTTTTTAAATTTATTTAAATTTATTAATTTATAAAA
* *
333501 AATAATTCATATTTTAATTTATTAATATAAATTTCTTTAAAGC-TAATTAAATATTATTTTTGA-
1 AATAATT-AAATTTTAATTTATTAATAT-AATTT-TTTAAA-CTTAATTAAATATTATTTTTAAT
* ** *
333564 TTA-AAAATAATAATTAATACATTATTCTTTTTTAAATTT-TTTAAATTTAATTAATTTATAAAA
62 TTATAAAA-AATAA-TAATA-ATAAGCCCTTTTTAAATTTATTTAAATTT-ATTAATTTATAAAA
333627 AA
1 AA
333629 CACTAAAATG
Statistics
Matches: 210, Mismatches: 22, Indels: 34
0.79 0.08 0.13
Matches are distributed among these distances:
118 13 0.06
119 35 0.17
120 9 0.04
121 3 0.01
122 7 0.03
123 10 0.05
124 14 0.07
125 35 0.17
126 34 0.16
127 32 0.15
128 7 0.03
129 11 0.05
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (122 bp):
AATAATTAAATTTTAATTTATTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAATTTAT
AAAAAATAATAATAATAAGCCCTTTTTAAATTTATTTAAATTTATTAATTTATAAAA
Found at i:334311 original size:89 final size:90
Alignment explanation
Indices: 334171--334381 Score: 300
Period size: 89 Copynumber: 2.3 Consensus size: 90
334161 CTTAAAATTG
* *
334171 GATTCTTTTTATGTAAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAAGAATTAGAT
1 GATT-TTTTTAT-AAAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAAGAATTAGAC
*
334236 TAATGCATGAATTATATGTGAGAATCA
64 TAATGCATGAATTATATCTGAGAATCA
* * *
334263 GA-TTTTTTATAAAAAAAAAGAAAGACTGATTGATTGTAAATGTTAGACTGTAAGGATTAGACTA
1 GATTTTTTTATAAAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAAGAATTAGACTA
*
334327 ATGCATGAATTATATCTGAGAATCG
66 ATGCATGAATTATATCTGAGAATCA
*
334352 GATTCTTTTTTATAGAAAAAAA-AAAGACTG
1 GA-T-TTTTTTATAAAAAAAAAGAAAGACTG
334382 CAAGGATTAA
Statistics
Matches: 108, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
89 74 0.69
90 7 0.06
91 9 0.08
92 18 0.17
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (90 bp):
GATTTTTTTATAAAAAAAAAGAAAGACTGATTGATTGTAAATGTCAGACTGCAAGAATTAGACTA
ATGCATGAATTATATCTGAGAATCA
Found at i:334473 original size:70 final size:69
Alignment explanation
Indices: 334307--334546 Score: 390
Period size: 70 Copynumber: 3.4 Consensus size: 69
334297 TGTAAATGTT
* * *
334307 AGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAA
1 AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
*
334372 AAAA
66 AGAA
334376 AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAATA
1 AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAA-A
334441 AAGAA
65 AAGAA
* * *
334446 AGACTGCAAGGATTAGACTAATACATGAATTATATCTGAGAATCAAATTCTTTTTTATAGGAAAA
1 AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATA-GAAAA
334511 AAGAA
65 AAGAA
*
334516 AGACTGTAAGGATTAAACTAATGCATGAATT
1 AGACTGCAAGGATTAAACTAATGCATGAATT
334547 GTACATGAAA
Statistics
Matches: 159, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
69 60 0.38
70 95 0.60
71 4 0.03
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (69 bp):
AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
AGAA
Found at i:334570 original size:70 final size:69
Alignment explanation
Indices: 334307--334584 Score: 382
Period size: 70 Copynumber: 4.0 Consensus size: 69
334297 TGTAAATGTT
* * *
334307 AGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAA
1 AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAA
*
334372 AAAA
66 AGAA
334376 AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATC-AGATTCTTTTTTATAGAAAT
1 AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCGA-ATTCTTTTTTATAGAAA-
334440 AAAGAA
64 AAAGAA
* * *
334446 AGACTGCAAGGATTAGACTAATACATGAATTATATCTGAGAATCAAATTCTTTTTTATAGGAAAA
1 AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATA-GAAAA
334511 AAGAA
65 AAGAA
* * * * * *
334516 AGACTGTAAGGATTAAACTAATGCATGAATTGTA-CATGAAAATTGAATTTTTTTTTGTA-AAAA
1 AGACTGCAAGGATTAAACTAATGCATGAATTATATC-TGAGAATCGAATTCTTTTTTATAGAAAA
334579 AAGAA
65 AAGAA
334584 A
1 A
334585 AGTTGGTTAA
Statistics
Matches: 189, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
68 10 0.05
69 60 0.32
70 114 0.60
71 5 0.03
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (69 bp):
AGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAA
AGAA
Found at i:339744 original size:42 final size:42
Alignment explanation
Indices: 339689--339807 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
339679 TTCTTCTCTC
* *
339689 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
339731 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
339773 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
339808 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:339748 original size:12 final size:11
Alignment explanation
Indices: 339722--339797 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
339712 TCTATTATCT
*
339722 CTCCTGTCTCTC
1 CTCCTATCTC-C
339734 CTCCTATCATCC
1 CTCCTATC-TCC
339746 CTCCTATCT--
1 CTCCTATCTCC
*
339755 CTACTATCT--
1 CTCCTATCTCC
*
339764 CTCCTGTCTCTC
1 CTCCTATCTC-C
339776 CTCCTATCATCC
1 CTCCTATC-TCC
*
339788 CTCCTCTCTC
1 CTCCTATCTC
339798 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:339749 original size:24 final size:24
Alignment explanation
Indices: 339713--339798 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
339703 CCTCCTCTCT
* *
339713 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
339737 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
339758 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
339779 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
339799 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:339773 original size:18 final size:18
Alignment explanation
Indices: 339704--339774 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
339694 CCTGTCATCC
* *
339704 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
339722 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
339744 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
339764 CTCCTGTCTCT
1 CTCCTGTCTCT
339775 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:345243 original size:125 final size:121
Alignment explanation
Indices: 344969--345331 Score: 443
Period size: 125 Copynumber: 2.9 Consensus size: 121
344959 TATTATTTTT
* *
344969 AATAAAAAATAATATTTAATTAACTTTAAAGAAATTTATATTAACAAATTAAAA--T-ATTAATT
1 AATAAAAAATAATATTTAATTAAGTTTAAA-AAA-TTAAATTAACAAATTAAAATTTAATT-ATT
*
345031 A--TTTTTTAAAAATAAAAAATTTAAATAAAAATAAAAAAGGTTTATTATTATTATTTTTTAATA
63 ATGTTTTTTAAAAATAAAAAATTT---T--AAATAAAAAAGGTTT-TTATTA-TAATTTTTAATA
345094 A
121 A
* * *
345095 AATTAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAAAAAATTAAAATTTAATTATTATG
1 AATAAAAAATAATATTTAATTAAGTTTAAAAAATTAAATTAACAAATTAAAATTTAATTATTATG
345160 TTTTTATAAAAAGTAAAAAATTTTGAAATAAAAAAGGCTTTTTATTATAATTTTTAATAA
66 TTTTT-TAAAAA-TAAAAAATTTT-AAATAAAAAAGG-TTTTTATTATAATTTTTAATAA
* *
345220 AATAAAAAATAATATTTAGTTAAGTTTAAAAATTTAAATTAACAAATTAAAATATTAATTATTAT
1 AATAAAAAATAATATTTAATTAAGTTTAAAAAATTAAATTAACAAATTAAAAT-TTAATTATTAT
* *
345285 G-TTCTTAAAAAT-AAAAATTTTAAATTAAAAAAGTTTTTTATTATAAT
65 GTTTTTTAAAAATAAAAAATTTTAAA-TAAAAAAGGTTTTTATTATAAT
345332 AATAAATTTT
Statistics
Matches: 214, Mismatches: 13, Indels: 25
0.85 0.05 0.10
Matches are distributed among these distances:
121 16 0.07
122 17 0.08
123 1 0.00
124 23 0.11
125 66 0.31
126 63 0.29
127 7 0.03
128 5 0.02
129 6 0.03
130 10 0.05
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (121 bp):
AATAAAAAATAATATTTAATTAAGTTTAAAAAATTAAATTAACAAATTAAAATTTAATTATTATG
TTTTTTAAAAATAAAAAATTTTAAATAAAAAAGGTTTTTATTATAATTTTTAATAA
Found at i:345666 original size:23 final size:22
Alignment explanation
Indices: 345627--345680 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
345617 AATGACAAGT
*
345627 TTTTTTTAATTTCTTAAATGTTA
1 TTTTTTTAATTTCTT-AATGTAA
345650 TTTTTTTAA-TTCGTTAATGTAA
1 TTTTTTTAATTTC-TTAATGTAA
*
345672 ATTTTTTAA
1 TTTTTTTAA
345681 ATTTAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (22 bp):
TTTTTTTAATTTCTTAATGTAA
Found at i:345668 original size:22 final size:23
Alignment explanation
Indices: 345627--345702 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
345617 AATGACAAGT
*
345627 TTTTTTTAATTTCTTAAATGTTA
1 TTTTTTTAATTTCTTAAATGTAA
345650 TTTTTTTAA-TTCGTT-AATGTAAA
1 TTTTTTTAATTTC-TTAAATGT-AA
* * *
345673 TTTTTTAAATTTAATTAAATATAA
1 TTTTTTTAATTT-CTTAAATGTAA
345697 TTTTTT
1 TTTTTT
345703 ATTTTATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
22 8 0.18
23 20 0.45
24 12 0.27
25 4 0.09
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTTTAATTTCTTAAATGTAA
Found at i:345683 original size:23 final size:22
Alignment explanation
Indices: 345628--345703 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
345618 ATGACAAGTT
* *
345628 TTTTTTAATTTCTTAAATGTTA
1 TTTTTTAAATTCTTAAATGTAA
*
345650 TTTTTTTAATTCGTT-AATGTAAA
1 TTTTTTAAATTC-TTAAATGT-AA
* *
345673 TTTTTTAAATTTAATTAAATATAA
1 TTTTTTAAA-TT-CTTAAATGTAA
345697 TTTTTTA
1 TTTTTTA
345704 TTTTATTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 15 0.35
23 11 0.26
24 13 0.30
25 4 0.09
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTTTTAAATTCTTAAATGTAA
Found at i:345706 original size:22 final size:23
Alignment explanation
Indices: 345671--345719 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
345661 CGTTAATGTA
*
345671 AATTTTTTAAATTTAATTAAATAT
1 AATTTTTT-AATTTAATTAAAAAT
*
345695 AATTTTTT-ATTTTATTAAAAAT
1 AATTTTTTAATTTAATTAAAAAT
345717 AAT
1 AAT
345720 AATAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
24 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTTTTTAATTTAATTAAAAAT
Found at i:346127 original size:14 final size:14
Alignment explanation
Indices: 346108--346148 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
346098 TATATTCATA
346108 AAAAAATTTATTTT
1 AAAAAATTTATTTT
*
346122 AAAAAATATT-TTAT
1 AAAAAAT-TTATTTT
346136 AAAAAATTTATTT
1 AAAAAATTTATTT
346149 ACAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAAAAATTTATTTT
Found at i:346130 original size:28 final size:28
Alignment explanation
Indices: 346099--346169 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
346089 ATTTTTTAAT
346099 ATATTCATA-AAAAAATTTATTTTA-AAAA
1 ATATT-ATATAAAAAATTTA-TTTACAAAA
*
346127 ATATTTTATAAAAAATTTATTTACAAAA
1 ATATTATATAAAAAATTTATTTACAAAA
*
346155 ATA--AAATAAAAAATT
1 ATATTATATAAAAAATT
346170 AATAATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 10 0.26
27 6 0.16
28 22 0.58
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (28 bp):
ATATTATATAAAAAATTTATTTACAAAA
Found at i:346154 original size:14 final size:13
Alignment explanation
Indices: 346108--346156 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 13
346098 TATATTCATA
346108 AAAAAATTTATTTT
1 AAAAAATTTA-TTT
346122 AAAAAATATT-TTAT
1 AAAAAAT-TTATT-T
346136 AAAAAATTTATTT
1 AAAAAATTTATTT
346149 ACAAAAAT
1 A-AAAAAT
346157 AAAATAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.19
14 23 0.74
15 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAAAATTTATTT
Found at i:346311 original size:2 final size:2
Alignment explanation
Indices: 346304--346341 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
346294 ATAACTAATG
346304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
346342 TGTAAATATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:346732 original size:5 final size:6
Alignment explanation
Indices: 346714--346741 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
346704 TAAATTTTTG
346714 TTATTT TTATTT TTATTT TTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTAT
346742 ATTAATACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:347073 original size:23 final size:22
Alignment explanation
Indices: 347030--347073 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
347020 GAGTATTTTT
*
347030 TTTTTTGAAAAAAGTAGATAAG
1 TTTTTTGAAAAAAGTAAATAAG
347052 TTTTTT-AAAAATAGATAAATAA
1 TTTTTTGAAAAA-AG-TAAATAA
347074 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (22 bp):
TTTTTTGAAAAAAGTAAATAAG
Found at i:347455 original size:16 final size:16
Alignment explanation
Indices: 347434--347471 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
347424 TATTATATAT
**
347434 AATATAAATATAGGTA
1 AATATAAATATAAATA
347450 AATATAAATATAAATA
1 AATATAAATATAAATA
347466 AATATA
1 AATATA
347472 TGATTGGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AATATAAATATAAATA
Found at i:347717 original size:3 final size:3
Alignment explanation
Indices: 347711--347745 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
347701 ACAAAGAAGA
347711 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
347746 AATTCAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:347968 original size:21 final size:21
Alignment explanation
Indices: 347935--347974 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
347925 GAGTAAAAAG
*
347935 ATTTAAAAGATTAATTATTAT
1 ATTTAAAAGATTAAATATTAT
347956 ATTTATAAA-ATTAAATATT
1 ATTTA-AAAGATTAAATATT
347975 TTTAAATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
ATTTAAAAGATTAAATATTAT
Found at i:348107 original size:8 final size:8
Alignment explanation
Indices: 348094--348118 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
348084 TTTCAACGTA
348094 TAAAATTT
1 TAAAATTT
348102 TAAAATTT
1 TAAAATTT
348110 TAAAATTT
1 TAAAATTT
348118 T
1 T
348119 TATTTAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TAAAATTT
Found at i:348758 original size:15 final size:15
Alignment explanation
Indices: 348748--348816 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
348738 TGAATTTGTG
348748 TTATTTTAATTTGAA
1 TTATTTTAATTTGAA
* *
348763 TTATTTTAGTTTAAA
1 TTATTTTAATTTGAA
* * *
348778 TCATTTTGAGTTTAAA
1 TTATTTT-AATTTGAA
348794 TT-TTTTCGAATTTGAA
1 TTATTTT--AATTTGAA
*
348810 TAATTTT
1 TTATTTT
348817 TAGGCTCGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
15 23 0.52
16 17 0.39
17 4 0.09
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (15 bp):
TTATTTTAATTTGAA
Found at i:348791 original size:16 final size:15
Alignment explanation
Indices: 348750--348794 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
348740 AATTTGTGTT
* * *
348750 ATTTTAATTTGAATT
1 ATTTTAGTTTAAATC
348765 ATTTTAGTTTAAATC
1 ATTTTAGTTTAAATC
348780 ATTTTGAGTTTAAAT
1 ATTTT-AGTTTAAAT
348795 TTTTTCGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (15 bp):
ATTTTAGTTTAAATC
Found at i:350156 original size:9 final size:9
Alignment explanation
Indices: 350104--350170 Score: 55
Period size: 9 Copynumber: 6.9 Consensus size: 9
350094 CCTAATGTTT
*
350104 TTTTTTTCAA
1 TTTTTTT-AG
350114 TTTTTTTAG
1 TTTTTTTAG
*
350123 TTTTTTCTAAT
1 TTTTTT-T-AG
350134 TATTTTATTA-
1 T-TTTT-TTAG
350144 TTTTTTTAG
1 TTTTTTTAG
350153 TTTTTTTAG
1 TTTTTTTAG
350162 TTTCTTTTA
1 TTT-TTTTA
350171 AGTATGTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
8 3 0.06
9 23 0.47
10 14 0.29
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.75
Consensus pattern (9 bp):
TTTTTTTAG
Found at i:355027 original size:52 final size:52
Alignment explanation
Indices: 354949--355080 Score: 264
Period size: 52 Copynumber: 2.5 Consensus size: 52
354939 CGAAATATGA
354949 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
355001 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
355053 AAATTTGCCTGCATGTATCGATACATTT
1 AAATTTGCCTGCATGTATCGATACATTT
355081 GAGTAATGTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 80 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:355155 original size:32 final size:33
Alignment explanation
Indices: 355118--355183 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
355108 AGTAGCTTAA
355118 ATTGTATCGATACAAAACTT-ATGTATCGATAC
1 ATTGTATCGATACAAAACTTAATGTATCGATAC
*
355150 ATTGTATCGATACAACACTTAATGTATCGATAC
1 ATTGTATCGATACAAAACTTAATGTATCGATAC
355183 A
1 A
355184 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTAATGTATCGATAC
Found at i:355157 original size:13 final size:13
Alignment explanation
Indices: 355139--355163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
355129 ACAAAACTTA
355139 TGTATCGATACAT
1 TGTATCGATACAT
355152 TGTATCGATACA
1 TGTATCGATACA
355164 ACACTTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:359131 original size:2 final size:2
Alignment explanation
Indices: 359124--359148 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
359114 GTCAATAATC
359124 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
359149 TATTAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:359990 original size:12 final size:12
Alignment explanation
Indices: 359966--359998 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
359956 AGATCCCAAC
359966 TAAAAAA-AATT
1 TAAAAAATAATT
*
359977 TAAAAAATAGTT
1 TAAAAAATAATT
359989 TAAAAAATAA
1 TAAAAAATAA
359999 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
TAAAAAATAATT
Done.