Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 51
Found at i:8840711 original size:82 final size:82
Alignment explanation
Indices: 8840566--8841086 Score: 510
Period size: 82 Copynumber: 6.3 Consensus size: 82
8840556 CCTTGTAGAT
* * * ** *
8840566 AATCTACACTATTCGCGTCCA-TTTCTTGTCATTGACACCTCACATCAACTCAGATAAAATGAAA
1 AATCTACACTATTCACAT-CATTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAA
*
8840630 TATTTTAGAGAATTAGAG
65 TATTTTAGAGAATCAGAG
* * * ** *
8840648 AATATATACTATTCACATCATTTTCTTATCATTGGCATTTCATATCAACTCAGATAAACTGAAAT
1 AATCTACACTATTCACATCATTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
* *
8840713 ATTTTAGAGAATCTGTG
66 ATTTTAGAGAATCAGAG
* * * *
8840730 AATCTACAATATTCACATCCTTTGT-TTGTCATTGATATTTCACATCAATTCAGATAAACTTAAA
1 AATCTACACTATTCACATCATTT-TCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAA
* ** *
8840794 TAATTTCCATTGAACTCATAG
65 T-ATTT-TAGAGAA-TCAGAG
* * * * * * * *
8840815 AATTTACACTATTCATATCCTTTACTTGTCTTTGATATTTCACATCAACTTAGATAAACTAAAAC
1 AATCTACACTATTCACATCATTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
*
8840880 ATTTTAGAGAAT-AAATG
66 ATTTTAGAGAATCAGA-G
** * * * * *
8840897 AATCTACACTATTCATGTCCTTTGCTTTTCATTGACATTTCACATCAATTCAGATAAACTGAAAT
1 AATCTACACTATTCACATCATTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
*
8840962 ATTTTAGAGAATCAGGG
66 ATTTTAGAGAATCAGAG
* * * * *
8840979 AGTCTACAATATTCACGTTATTTTCTTGTCATTGATATTTCACATCAACTCAGATAAATTGAAAT
1 AATCTACACTATTCACATCATTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
*
8841044 AATTTCCATTGA-AATCAGAG
66 -ATTT---TAGAGAATCAGAG
8841064 AATCTACACTATTCACATCATTT
1 AATCTACACTATTCACATCATTT
8841087 GCTTTTAAAA
Statistics
Matches: 357, Mismatches: 70, Indels: 21
0.80 0.16 0.05
Matches are distributed among these distances:
81 4 0.01
82 244 0.68
83 14 0.04
84 8 0.02
85 84 0.24
86 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (82 bp):
AATCTACACTATTCACATCATTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
ATTTTAGAGAATCAGAG
Found at i:8841010 original size:249 final size:249
Alignment explanation
Indices: 8840605--8841078 Score: 675
Period size: 249 Copynumber: 1.9 Consensus size: 249
8840595 CATTGACACC
* * * *
8840605 TCACATCAACTCAGATAAAATGAAATATTTTAGAGAATTAGAGAATATATACTATTCACATCATT
1 TCACATCAACTCAGATAAAATAAAACATTTTAGAGAATTAAAGAATATACACTATTCACATCATT
* * * * *
8840670 TTCTTATCATTGGCATTTCATATCAACTCAGATAAACTGAAATATTTTAGAGAATCTGTGAATCT
66 TGCTTATCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAGAATCAGGGAATCT
* *
8840735 ACAATATTCACATCCTTTGTTTGTCATTGATATTTCACATCAATTCAGATAAACTT-AAATAATT
131 ACAATATTCACATCATTTGTTTGTCATTGATATTTCACATCAACTCAGATAAA-TTGAAATAATT
* * *
8840799 TCCATTGAACTCATAGAATTTACACTATTCATATCCTTTACTTGTCTTTGATATT
195 TCCATTGAAATCAGAGAATCTACACTATTCATATCCTTTACTTGTCTTTGATATT
* * * ** *
8840854 TCACATCAACTTAGATAAACTAAAACATTTTAGAGAA-TAAATGAATCTACACTATTCATGTCCT
1 TCACATCAACTCAGATAAAATAAAACATTTTAGAGAATTAAA-GAATATACACTATTCACATCAT
* * *
8840918 TTGCTTTTCATTGACATTTCACATCAATTCAGATAAACTGAAATATTTTAGAGAATCAGGGAGTC
65 TTGCTTATCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAGAATCAGGGAATC
* *
8840983 TACAATATTCACGTTATTT-TCTTGTCATTGATATTTCACATCAACTCAGATAAATTGAAATAAT
130 TACAATATTCACATCATTTGT-TTGTCATTGATATTTCACATCAACTCAGATAAATTGAAATAAT
8841047 TTCCATTGAAATCAGAGAATCTACACTATTCA
194 TTCCATTGAAATCAGAGAATCTACACTATTCA
8841079 CATCATTTGC
Statistics
Matches: 197, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
248 6 0.03
249 191 0.97
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.37
Consensus pattern (249 bp):
TCACATCAACTCAGATAAAATAAAACATTTTAGAGAATTAAAGAATATACACTATTCACATCATT
TGCTTATCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAGAATCAGGGAATCT
ACAATATTCACATCATTTGTTTGTCATTGATATTTCACATCAACTCAGATAAATTGAAATAATTT
CCATTGAAATCAGAGAATCTACACTATTCATATCCTTTACTTGTCTTTGATATT
Found at i:8841069 original size:167 final size:165
Alignment explanation
Indices: 8840566--8841092 Score: 555
Period size: 167 Copynumber: 3.2 Consensus size: 165
8840556 CCTTGTAGAT
* * * ** * *
8840566 AATCTACACTATTCGCGTCCATTT-CTTGTCATTGACACCTCACATCAACTCAGATAAAATGAAA
1 AATCTACACTATTCACATCC-TTTGCTTTTCATTGACATTTCACATCAATTCAGATAAACTGAAA
* * * ** *
8840630 TATTTTAGAGAATTAGAGAATATATACTATTCACATCATTTTCTTATCATTGGCATTTCATATCA
65 TATTTTAGAGAATCAGAGAATATACACTATTCACATCATTTTCTTGTCATTGATATTTCACATCA
* *
8840695 ACTCAGATAAACTGAAAT-ATTTTAGAGAATCTGTG
130 ACTCAGATAAACTGAAATAATTTTAGAGAATCAGAG
* * *
8840730 AATCTACAATATTCACATCCTTTG-TTTGTCATTGATATTTCACATCAATTCAGATAAACTTAAA
1 AATCTACACTATTCACATCCTTTGCTTT-TCATTGACATTTCACATCAATTCAGATAAACTGAAA
* ** * * * * * *
8840794 TAATTTCCATTGAACTCATAGAATTTACACTATTCATATCCTTTACTTGTCTTTGATATTTCACA
65 T-ATTT-TAGAGAA-TCAGAGAATATACACTATTCACATCATTTTCTTGTCATTGATATTTCACA
* *
8840859 TCAACTTAGATAAACT-AAA-ACATTTTAGAGAAT-AAATG
127 TCAACTCAGATAAACTGAAATA-ATTTTAGAGAATCAGA-G
**
8840897 AATCTACACTATTCATGTCCTTTGCTTTTCATTGACATTTCACATCAATTCAGATAAACTGAAAT
1 AATCTACACTATTCACATCCTTTGCTTTTCATTGACATTTCACATCAATTCAGATAAACTGAAAT
* * * * * *
8840962 ATTTTAGAGAATCAGGGAGTCTACAATATTCACGTTATTTTCTTGTCATTGATATTTCACATCAA
66 ATTTTAGAGAATCAGAGAATATACACTATTCACATCATTTTCTTGTCATTGATATTTCACATCAA
* *
8841027 CTCAGATAAATTGAAATAATTTCCATTGA-AATCAGAG
131 CTCAGATAAACTGAAATAATTT---TAGAGAATCAGAG
*
8841064 AATCTACACTATTCACATCATTTGCTTTT
1 AATCTACACTATTCACATCCTTTGCTTTT
8841093 AAAAGTTAAA
Statistics
Matches: 293, Mismatches: 55, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
163 5 0.02
164 101 0.34
165 15 0.05
166 12 0.04
167 152 0.52
168 8 0.03
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (165 bp):
AATCTACACTATTCACATCCTTTGCTTTTCATTGACATTTCACATCAATTCAGATAAACTGAAAT
ATTTTAGAGAATCAGAGAATATACACTATTCACATCATTTTCTTGTCATTGATATTTCACATCAA
CTCAGATAAACTGAAATAATTTTAGAGAATCAGAG
Found at i:8845717 original size:12 final size:12
Alignment explanation
Indices: 8845697--8845746 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
8845687 AAAATCATTT
*
8845697 AAATCTATTTTA
1 AAATTTATTTTA
8845709 AAATTTATTTTA
1 AAATTTATTTTA
* *
8845721 AAATATATATT-
1 AAATTTATTTTA
*
8845732 -GATTTATTTTA
1 AAATTTATTTTA
8845743 AAAT
1 AAAT
8845747 ATGGATTGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 7 0.24
12 22 0.76
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (12 bp):
AAATTTATTTTA
Found at i:8845736 original size:22 final size:22
Alignment explanation
Indices: 8845711--8846096 Score: 614
Period size: 22 Copynumber: 17.6 Consensus size: 22
8845701 CTATTTTAAA
**
8845711 ATTTATTTTAAAATATATATTG
1 ATTTATTTTAAAATATGGATTG
8845733 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
***
8845755 ATTTATTTTAAAATAT-GAAAA
1 ATTTATTTTAAAATATGGATTG
8845776 AGTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATGGATTG
***
8845799 ATTTATTTTAAAATATGGACAA
1 ATTTATTTTAAAATATGGATTG
*
8845821 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
8845843 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
8845865 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
8845887 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
8845909 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
8845931 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
8845953 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
**
8845975 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
8845996 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
8846018 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
8846040 ATTTATTTTAAATTATGGATTG
1 ATTTATTTTAAAATATGGATTG
* *
8846062 ATTTATTTTAAAAGATGAATTG
1 ATTTATTTTAAAATATGGATTG
8846084 ATTTATTTTAAAA
1 ATTTATTTTAAAA
8846097 AAATATTATT
Statistics
Matches: 335, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
21 22 0.07
22 310 0.93
23 3 0.01
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:8846176 original size:31 final size:31
Alignment explanation
Indices: 8846118--8846177 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
8846108 TAGTTGTATG
*
8846118 AATTATTTAAATTTCAGTATTATAAAACTAA
1 AATTATTTAAATTTCAGTATTACAAAACTAA
* *
8846149 AATTATTTAAATTTCATTATTGCAAAACT
1 AATTATTTAAATTTCAGTATTACAAAACT
8846178 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (31 bp):
AATTATTTAAATTTCAGTATTACAAAACTAA
Found at i:8858301 original size:43 final size:43
Alignment explanation
Indices: 8858254--8858354 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
8858244 CAGCGTTTTT
* ** * *
8858254 ACACAAACACCGCTAAAAGTCATGATCTGTAGTGTC-TTTTTA
1 ACACAAACACCGCTAAAAGTCATGATATACAGTGACATTTTCA
**
8858296 CACACAAACGTCGCTAAAAGTCATGATATACAGTGACATTTTCA
1 -ACACAAACACCGCTAAAAGTCATGATATACAGTGACATTTTCA
8858340 ACACAAACACCGCTA
1 ACACAAACACCGCTA
8858355 TTGAACATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
43 43 0.90
44 5 0.10
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (43 bp):
ACACAAACACCGCTAAAAGTCATGATATACAGTGACATTTTCA
Found at i:8867609 original size:5 final size:5
Alignment explanation
Indices: 8867599--8867624 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8867589 CTTCAACTTC
8867599 TTTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT T
8867625 CTTTTTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:8875822 original size:33 final size:33
Alignment explanation
Indices: 8875716--8875833 Score: 80
Period size: 33 Copynumber: 3.5 Consensus size: 33
8875706 AAATGACTCG
* * *
8875716 AGTGAGACGA-TTTTTCAAGAGAAAA-TATGTCA
1 AGTGAGACAATTTTTTTAAG-GAAAACTATCTCA
* * *
8875748 AGTGAGATGAAATTTTGTTTATA-GAGAAACTGTCTCG
1 AGTGAGA--CAATTTT-TTTA-AGGA-AAACTATCTCA
*
8875785 AGTGAGACAATTTTTTTAAGGAAAACTATTTCA
1 AGTGAGACAATTTTTTTAAGGAAAACTATCTCA
* *
8875818 AGTGATACAATATTTT
1 AGTGAGACAATTTTTT
8875834 GTTTCGAGAT
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
32 7 0.11
33 23 0.35
34 7 0.11
35 11 0.17
36 6 0.09
37 12 0.18
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.35
Consensus pattern (33 bp):
AGTGAGACAATTTTTTTAAGGAAAACTATCTCA
Found at i:8880923 original size:42 final size:42
Alignment explanation
Indices: 8880863--8880944 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
8880853 TCGAAATTTC
*
8880863 GTGTTTGTTTCACATAATTTATTTTCCGGAAAATATTTTCAT
1 GTGTTTGTTTCACATAATTCATTTTCCGGAAAATATTTTCAT
* *
8880905 GTGTTTGTTTTA-AGTAATTCATTTTCCGGAAAATGTTTTC
1 GTGTTTGTTTCACA-TAATTCATTTTCCGGAAAATATTTTC
8880945 CAATGTTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (42 bp):
GTGTTTGTTTCACATAATTCATTTTCCGGAAAATATTTTCAT
Found at i:8881200 original size:27 final size:27
Alignment explanation
Indices: 8881175--8881267 Score: 86
Period size: 27 Copynumber: 3.4 Consensus size: 27
8881165 AAAATATATT
8881175 TATTAATATTTATAATAATATAATATAA
1 TATT-ATATTTATAATAATATAATATAA
* *
8881203 TATTATATTTTTAATATTATAATAAAATAA
1 TATTATATTTATAATA--AT-ATAATATAA
8881233 TCAATTATA-TTATAATAATAT-A-A-AA
1 T--ATTATATTTATAATAATATAATATAA
8881258 TATTATATTT
1 TATTATATTT
8881268 TTATTTTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
23 6 0.11
24 2 0.04
25 3 0.05
26 1 0.02
27 12 0.21
28 6 0.11
29 4 0.07
30 9 0.16
31 7 0.12
32 6 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTATATTTATAATAATATAATATAA
Found at i:8881262 original size:23 final size:23
Alignment explanation
Indices: 8881216--8881266 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
8881206 TATATTTTTA
*
8881216 ATATTATAATAAAATAATCAATT
1 ATATTATAATAAAATAATAAATT
*
8881239 ATATTATAATAATATAA-AATATT
1 ATATTATAATAAAATAATAA-ATT
8881262 ATATT
1 ATATT
8881267 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTATAATAAAATAATAAATT
Found at i:8881381 original size:23 final size:23
Alignment explanation
Indices: 8881355--8881399 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8881345 CTAATAATTT
8881355 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
8881378 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
8881400 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:8881517 original size:91 final size:87
Alignment explanation
Indices: 8881368--8881537 Score: 200
Period size: 91 Copynumber: 1.9 Consensus size: 87
8881358 TAAAGATATT
* * * * * *
8881368 TAAAATATACTAATTAATATTTTTAAAATATAATATAACACTATTACTTTAATAAATAATTAATA
1 TAAAATATACAAATTAATATTTTTAAAATAAAATATAAAAATAATACTTTAATAAATAAATAA-A
8881433 TAATTTATAATATTTTTATTTCAC
65 TAATTT-TAATATTTTTATTTCAC
*
8881457 TAAAATATACCAATATTAATATTTTTATTAATAAAATTATAAAAATAATA-TTTAAT-AATAAAT
1 TAAAATATA-CAA-ATTAATATTTTTA-AAATAAAA-TATAAAAATAATACTTTAATAAATAAAT
*
8881520 AAATTATTTTAATATTTT
62 AAATAATTTTAATATTTT
8881538 AAAATAATAA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
89 18 0.26
90 8 0.12
91 21 0.30
92 12 0.17
93 10 0.14
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (87 bp):
TAAAATATACAAATTAATATTTTTAAAATAAAATATAAAAATAATACTTTAATAAATAAATAAAT
AATTTTAATATTTTTATTTCAC
Found at i:8881772 original size:15 final size:15
Alignment explanation
Indices: 8881754--8881804 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
8881744 GTAATTCATG
8881754 AATTCAAATTTCAGT
1 AATTCAAATTTCAGT
*
8881769 AATTC-ATTTTCCAGT
1 AATTCAAATTT-CAGT
8881784 AATTCAAATTTCAGT
1 AATTCAAATTTCAGT
8881799 AATTCA
1 AATTCA
8881805 TTTTTCAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 4 0.12
15 24 0.75
16 4 0.12
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (15 bp):
AATTCAAATTTCAGT
Found at i:8881810 original size:15 final size:15
Alignment explanation
Indices: 8881762--8881812 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
8881752 TGAATTCAAA
8881762 TTTCAGTAATTCATT
1 TTTCAGTAATTCATT
* **
8881777 TTCCAGTAATTCAAA
1 TTTCAGTAATTCATT
8881792 TTTCAGTAATTCATT
1 TTTCAGTAATTCATT
8881807 TTTCAG
1 TTTCAG
8881813 AAAACCAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (15 bp):
TTTCAGTAATTCATT
Found at i:8882214 original size:21 final size:20
Alignment explanation
Indices: 8882167--8882215 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
8882157 GTCAGATACA
*
8882167 CTAATTAAAAAAAAAAAATC
1 CTAAATAAAAAAAAAAAATC
*
8882187 CTATAAATAATAAAAAAAAGATC
1 C--TAAATAA-AAAAAAAAAATC
8882210 CTAAAT
1 CTAAAT
8882216 TACCCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 5 0.21
22 6 0.25
23 12 0.50
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.22
Consensus pattern (20 bp):
CTAAATAAAAAAAAAAAATC
Found at i:8882287 original size:11 final size:13
Alignment explanation
Indices: 8882250--8882286 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
8882240 ATAAAGCTGA
8882250 ATTTAATTAAAAAT
1 ATTTAA-TAAAAAT
8882264 ATTTAATAAAAAT
1 ATTTAATAAAAAT
8882277 ATTTAA-AAAA
1 ATTTAATAAAA
8882287 TCGTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.17
13 13 0.57
14 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTAATAAAAAT
Found at i:8883105 original size:15 final size:15
Alignment explanation
Indices: 8883085--8883122 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8883075 TCAGTATTTG
8883085 AATCATTCAACGCTT
1 AATCATTCAACGCTT
* *
8883100 AATCATTCAGCTCTT
1 AATCATTCAACGCTT
8883115 AATCATTC
1 AATCATTC
8883123 TGAAGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (15 bp):
AATCATTCAACGCTT
Found at i:8891846 original size:106 final size:106
Alignment explanation
Indices: 8891649--8891943 Score: 396
Period size: 107 Copynumber: 2.8 Consensus size: 106
8891639 AATAATATTT
* * *
8891649 TATTCTGGAATTTGAGCAATGTTGGTAGTATCGATTCTACCTTGTGAGTATCGATACTCCCACTA
1 TATTCTGGAATTTGAGCAATGATGGTAGTATCGATACTACCTTGTGAGTATCGATACTTCCA-TA
* * *
8891714 CCTTTGGTACCAGTACCCAAAGGGGTATC-GTACCATTTTTG
65 CCTTTGGTATCGGTACCCAAAGGGGTATCAGTACCATTTTTA
8891755 TATTCTGGAATTTGAGCAATGATGGTAGTATCGATACTACCTTGTGAGTATCGATACTTCCATTA
1 TATTCTGGAATTTGAGCAATGATGGTAGTATCGATACTACCTTGTGAGTATCGATACTTCCA-TA
* * *** *
8891820 CCTTTGGAATCGGTATTCC-TTTGGGTATCAGTATCATTTTTA
65 CCTTTGGTATCGGTA-CCCAAAGGGGTATCAGTACCATTTTTA
* * *
8891862 TATTTTGGAATTTGAGCAATGGTGGTAGTATTGATACTACCTTGTGAGTATCGATACTTCCGATA
1 TATTCTGGAATTTGAGCAATGATGGTAGTATCGATACTACCTTGTGAGTATCGATACTTCC-ATA
*
8891927 CATTTGGTATCGGTACC
65 CCTTTGGTATCGGTACC
8891944 ATATAAACAA
Statistics
Matches: 167, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
106 81 0.49
107 85 0.51
108 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (106 bp):
TATTCTGGAATTTGAGCAATGATGGTAGTATCGATACTACCTTGTGAGTATCGATACTTCCATAC
CTTTGGTATCGGTACCCAAAGGGGTATCAGTACCATTTTTA
Found at i:8895235 original size:11 final size:11
Alignment explanation
Indices: 8895219--8895281 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
8895209 AAAATTACAT
8895219 TATTAAAAATA
1 TATTAAAAATA
8895230 TATTAAAAATA
1 TATTAAAAATA
* ***
8895241 CATTATTGATA
1 TATTAAAAATA
8895252 -ATTATAAAAT-
1 TATTA-AAAATA
8895262 T-TTAAAAATA
1 TATTAAAAATA
8895272 TATTAAAAAT
1 TATTAAAAAT
8895282 TCTATAATAC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:8895523 original size:5 final size:5
Alignment explanation
Indices: 8895513--8895789 Score: 293
Period size: 5 Copynumber: 55.0 Consensus size: 5
8895503 GACAATAAAT
* * * * * *
8895513 ATAAC ATAAC ATAAC ATAGC ATAGC ATAGC ATAAC ATAGC ATAGC ATAGC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
* * * * * * * * * *
8895563 ATAGC ATAGC ATAGC ATAGC ATAGC ATAGC ATAGC ATAGC ATAGC ATAGC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
*
8895613 ATAAC ATAAC ATAAC ATAAC ATATC ATAGCAC ATAAC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATA--AC ATAAC ATAAC ATAAC ATAAC
* * * * *
8895665 ATAAC ATAGC ATAAC ATAAC ATAAC ATAGC ATAGC ATAGC ATAGC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
* ** * *
8895715 ATAGC ATAAC ATAGT ATAGC ATAAC ATAAC ATAGC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
8895765 ATAAC ATAAC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC
8895790 TCAAACCTTC
Statistics
Matches: 252, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
5 248 0.98
7 4 0.02
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.21
Consensus pattern (5 bp):
ATAAC
Found at i:8895540 original size:15 final size:15
Alignment explanation
Indices: 8895513--8895789 Score: 338
Period size: 15 Copynumber: 18.3 Consensus size: 15
8895503 GACAATAAAT
*
8895513 ATAACATAACATAAC
1 ATAACATAGCATAAC
* *
8895528 ATAGCATAGCATAGC
1 ATAACATAGCATAAC
*
8895543 ATAACATAGCATAGC
1 ATAACATAGCATAAC
* *
8895558 ATAGCATAGCATAGC
1 ATAACATAGCATAAC
* *
8895573 ATAGCATAGCATAGC
1 ATAACATAGCATAAC
* *
8895588 ATAGCATAGCATAGC
1 ATAACATAGCATAAC
*
8895603 ATAGCATAGCATAAC
1 ATAACATAGCATAAC
*
8895618 ATAACATAACATAAC
1 ATAACATAGCATAAC
*
8895633 ATATCATAGCACATAAC
1 ATAACATAG--CATAAC
*
8895650 ATAACATAACATAAC
1 ATAACATAGCATAAC
8895665 ATAACATAGCATAAC
1 ATAACATAGCATAAC
* *
8895680 ATAACATAACATAGC
1 ATAACATAGCATAAC
* *
8895695 ATAGCATAGCATAGC
1 ATAACATAGCATAAC
8895710 ATAACATAGCATAAC
1 ATAACATAGCATAAC
**
8895725 ATAGTATAGCATAAC
1 ATAACATAGCATAAC
8895740 ATAACATAGCATAAC
1 ATAACATAGCATAAC
*
8895755 ATAACATAACATAAC
1 ATAACATAGCATAAC
*
8895770 ATAACATAACATAAC
1 ATAACATAGCATAAC
8895785 ATAAC
1 ATAAC
8895790 TCAAACCTTC
Statistics
Matches: 236, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
15 223 0.94
17 13 0.06
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.21
Consensus pattern (15 bp):
ATAACATAGCATAAC
Found at i:8897319 original size:16 final size:16
Alignment explanation
Indices: 8897294--8897325 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8897284 ATTTTAATAT
*
8897294 TTTTTTAAAAATTAAA
1 TTTTTGAAAAATTAAA
8897310 TTTTTGAAAAATTAAA
1 TTTTTGAAAAATTAAA
8897326 AAATATTTTT
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTTTGAAAAATTAAA
Found at i:8901164 original size:24 final size:24
Alignment explanation
Indices: 8901120--8901166 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8901110 ATAAAGAACC
*
8901120 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
8901144 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
8901167 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:8904497 original size:19 final size:20
Alignment explanation
Indices: 8904475--8904518 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8904465 GAGAAAAGGT
8904475 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
8904494 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
8904514 AAAAG
1 AAAAG
8904519 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:8907183 original size:3 final size:3
Alignment explanation
Indices: 8907177--8907238 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
8907167 TATATGTATT
*
8907177 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8907225 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
8907239 TGGTAAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8909383 original size:3 final size:3
Alignment explanation
Indices: 8909375--8909423 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
8909365 AATATATATT
*
8909375 TAA TAA TAA TAA TGA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8909422 TA
1 TA
8909424 TGGGTAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8911475 original size:112 final size:112
Alignment explanation
Indices: 8911300--8911523 Score: 416
Period size: 113 Copynumber: 2.0 Consensus size: 112
8911290 CGGCGGAGGC
8911300 GGCGAGGAATAGCAACGGTGGCCGCGTGGCCCTAGGGTCAGACCCTAGGGTTTCCATCTAGAGAA
1 GGCGAGGAATAGCAACGGTGGCCGCGTGGCCCTAGGGTCAGACCCTAGGGTTTCCATCTAGAGAA
8911365 AT-TGGACCGTTGGATTGTGCCAGATCCAACGGTCAGTCTGAGGCGG
66 ATCTGGACCGTTGGATTGTGCCAGATCCAACGGTCAGTCTGAGGCGG
8911411 GGCGA-GAATAGCAACGGTGGCCGCGTGGCCCTAGGGTATCAGACCCTAGGGTTTCCATCTAGAG
1 GGCGAGGAATAGCAACGGTGGCCGCGTGGCCCTAGGG--TCAGACCCTAGGGTTTCCATCTAGAG
8911475 AAATCTGGACCGTTGGATTGTGCCAGATCCAACGGTCAGTCTGAGGCGG
64 AAATCTGGACCGTTGGATTGTGCCAGATCCAACGGTCAGTCTGAGGCGG
8911524 CTGGCTAGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
110 31 0.28
111 5 0.05
112 30 0.27
113 44 0.40
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.20
Consensus pattern (112 bp):
GGCGAGGAATAGCAACGGTGGCCGCGTGGCCCTAGGGTCAGACCCTAGGGTTTCCATCTAGAGAA
ATCTGGACCGTTGGATTGTGCCAGATCCAACGGTCAGTCTGAGGCGG
Found at i:8911684 original size:3 final size:3
Alignment explanation
Indices: 8911676--8911722 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
8911666 AATATATATT
* *
8911676 TAA TAA TAA TAA TGA TGA TAA T-A TAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
8911721 TA
1 TA
8911723 TGGGTAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8912294 original size:114 final size:113
Alignment explanation
Indices: 8912040--8912710 Score: 887
Period size: 114 Copynumber: 5.9 Consensus size: 113
8912030 GATAGAATTA
* * * *
8912040 TTGAACAAGTTCTTCTTATTATAAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * * ** **
8912105 GAACTCTACT-TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAA
63 GAAC-CTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTCAGGCAAAAGG
* *
8912156 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
8912221 CCTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAAAGTTAATCCATCAA-ATGATGAATTCAGGCAAAAGG
* *
8912270 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCATATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTAT
* * * * * *
8912335 GAACTTTACT-TGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGA
63 GAACCTT-CTCTGGAAAAGTTAATCCATCAAATGATGAATTCAGGCAAAAGG
* *
8912386 TTGAACAAGTTCTTCTCATTATGAACTTCTTGTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
8912451 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAAAGTTAATCCATCAA-ATGATGAATTCAGGCAAAAGG
8912500 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * *
8912565 CTTTCTCTGGAAAAATTAATCCATCAAGTGATGAATTCAGACAAAAAGG
66 CCTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTCAGGC-AAAAGG
8912614 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
** * * *
8912679 TTTTCTCTGGAAATGATGATCCATCAAATGAT
66 CCTTCTCTGGAAAAGTTAATCCATCAAATGAT
8912711 AGATTTGAAT
Statistics
Matches: 493, Mismatches: 53, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
112 6 0.01
113 89 0.18
114 256 0.52
116 99 0.20
117 41 0.08
118 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (113 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTCAGGCAAAAGG
Found at i:8912301 original size:230 final size:229
Alignment explanation
Indices: 8912040--8912705 Score: 1050
Period size: 230 Copynumber: 2.9 Consensus size: 229
8912030 GATAGAATTA
* * * *
8912040 TTGAACAAGTTCTTCTTATTATAAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
8912105 GAACTCTACTTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAGTTCTT
66 GAACT-TACTTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAGTTCTT
*
8912170 CTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA
130 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA
*
8912235 GTTAATCCATCAATTTGATGAATTCAGGTAAAAGG
195 GATAATCCATCAATTTGATGAATTCAGGTAAAAGG
* *
8912270 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCATATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* *
8912335 GAACTTTACTTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTT
66 GAAC-TTACTTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAGTTCTT
*
8912400 CTCATTATGAACTTCTTGTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA
130 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA
*
8912465 GCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
195 GATAATCCATCAATTTGATGAATTCAGGTAAAAGG
8912500 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * ** * * * * *
8912562 GAACTTTCTCTGGAAAAATTAATCCATCAAGTGATGAATTCAGACAAAAAGGTTGAACAAATTCT
66 GAACTTACT-TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAA-ATTGAACAAGTTCT
**
8912627 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTTTCTCTGGAAA
129 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAA
* *
8912692 TGATGATCCATCAA
194 AGATAATCCATCAA
8912706 ATGATAGATT
Statistics
Matches: 403, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
226 4 0.01
227 52 0.13
228 85 0.21
230 261 0.65
231 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (229 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
GAACTTACTTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAGTTCTTC
TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAG
ATAATCCATCAATTTGATGAATTCAGGTAAAAGG
Found at i:8912535 original size:344 final size:341
Alignment explanation
Indices: 8912039--8912710 Score: 992
Period size: 344 Copynumber: 2.0 Consensus size: 341
8912029 TGATAGAATT
* *
8912039 ATTGAACAAGTTCTTCTTATTATAAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTA
* * * * *
8912104 TGAACTCTACTTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAGTTCT
64 TGAACTCTACTTGGAAAAGCTAATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAATTCT
*
8912169 TCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAA
129 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAA
* * **
8912234 AGTTAATCCATCAATTTGATGAATTCAG-GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
194 AATTAATCCATCAA-GTGATGAATTCAGACAAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
* * *
8912298 CTTCTTCCTTTTTCATATGACGAGTTCTTCTCATTATGAACTTTACT-TGGCAATGTTGATCCAT
258 CTTCTTCCTTCTTC--A-GACGAGTTCTTCTCATTATGAA-TTTACTCTGGAAATGATGATCCAT
8912362 CAAATGATGAATTCAAGCAAAAG
319 CAAATGATGAATTCAAGCAAAAG
* *
8912385 ATTGAACAAGTTCTTCTCATTATGAACTTCTTGTTCCTTCTTCAGAT-GAGTTCTTCTCATTATG
1 ATTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATG
* * *** **
8912449 AAC-CTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCT
66 AACTCTACT-TGGAAAAGCTAATCCATCAA-ATGATGAATTCAAACAAAAAATTGAACAAATTCT
*
8912513 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
129 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAA
8912578 AATTAATCCATCAAGTGATGAATTCAGACAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
194 AATTAATCCATCAAGTGATGAATTCAGACAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
* *
8912643 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTTTCTCTGGAAATGATGATCCATCAAAT
259 TTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAATTTACTCTGGAAATGATGATCCATCAAAT
8912708 GAT
324 GAT
8912711 AGATTTGAAT
Statistics
Matches: 295, Mismatches: 27, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
340 5 0.02
341 44 0.15
342 5 0.02
343 48 0.16
344 150 0.51
346 43 0.15
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (341 bp):
ATTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATG
AACTCTACTTGGAAAAGCTAATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAATTCTTC
TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAA
TTAATCCATCAAGTGATGAATTCAGACAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTT
CTTCCTTCTTCAGACGAGTTCTTCTCATTATGAATTTACTCTGGAAATGATGATCCATCAAATGA
TGAATTCAAGCAAAAG
Found at i:8913487 original size:83 final size:83
Alignment explanation
Indices: 8913348--8913848 Score: 948
Period size: 83 Copynumber: 6.0 Consensus size: 83
8913338 TCTCCTATGA
*
8913348 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
8913413 TTCCAGAAGATGCTATTG
66 TTCCAGAAAATGCTATTG
8913431 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
8913496 TTCCAGAAAATGCTATTG
66 TTCCAGAAAATGCTATTG
8913514 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
8913579 TTCCAGAAGATGCTATTG
66 TTCCAGAAAATGCTATTG
*
8913597 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
8913662 TTCCAGAAGATGCTATTG
66 TTCCAGAAAATGCTATTG
8913680 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
8913745 TTCCAGAAAATGTTATTG
66 TTCCAGAAAATGCTATTG
8913763 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
8913828 TTCCAGAAAATGCTATTG
66 TTCCAGAAAATGCTATTG
8913846 GCA
1 GCA
8913849 CATTACATTT
Statistics
Matches: 410, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 410 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (83 bp):
GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
TTCCAGAAAATGCTATTG
Found at i:8915009 original size:5 final size:5
Alignment explanation
Indices: 8915001--8915051 Score: 66
Period size: 5 Copynumber: 9.8 Consensus size: 5
8914991 CCTTTTTCTT
* *
8915001 TTTTC TTTTTC TTTTT TTTTC TTTTC TTTTC ATTTTT TTTTC TTTTC TTTT
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
8915052 TTTCATCAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
5 31 0.77
6 9 0.22
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:8915025 original size:21 final size:22
Alignment explanation
Indices: 8914993--8915052 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 22
8914983 TTGACCCCCC
*
8914993 TTTTTCTT-TTTTCTTTTTC-T
1 TTTTTTTTCTTTTCTTTTTCAT
8915013 TTTTTTTTCTTTTC-TTTTCAT
1 TTTTTTTTCTTTTCTTTTTCAT
8915034 TTTTTTTTCTTTTCTTTTT
1 TTTTTTTTCTTTTCTTTTT
8915053 TTCATCAAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 12 0.33
21 20 0.56
22 4 0.11
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTTTTCTTTTCTTTTTCAT
Found at i:8915053 original size:16 final size:16
Alignment explanation
Indices: 8914994--8915054 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
8914984 TGACCCCCCT
8914994 TTTTCTTTTTTCTTTTTC
1 TTTTC-TTTTT-TTTTTC
*
8915012 TTTT-TTTTTCTTTTC
1 TTTTCTTTTTTTTTTC
*
8915027 TTTTCATTTTTTTTTC
1 TTTTCTTTTTTTTTTC
8915043 TTTTCTTTTTTT
1 TTTTCTTTTTTT
8915055 CATCAAGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
15 9 0.24
16 25 0.66
18 4 0.11
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTC
Found at i:8925458 original size:17 final size:17
Alignment explanation
Indices: 8925422--8925470 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
8925412 ATAATGAAAT
*
8925422 AAAATAATAAATATTATG
1 AAAAT-ATAAAAATTATG
*
8925440 AAAATATAAAAATTTTG
1 AAAATATAAAAATTATG
*
8925457 AAAAGA-AAAAATTA
1 AAAATATAAAAATTA
8925471 AAAATTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 7 0.26
17 15 0.56
18 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAATATAAAAATTATG
Found at i:8926044 original size:14 final size:15
Alignment explanation
Indices: 8926018--8926046 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8926008 GATATTGATA
8926018 AATATTAATTTAAAT
1 AATATTAATTTAAAT
8926033 AATATT-ATTTAAAT
1 AATATTAATTTAAAT
8926047 TTAAAATACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTAATTTAAAT
Found at i:8927123 original size:16 final size:15
Alignment explanation
Indices: 8927102--8927131 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8927092 CTTTCTCCGG
8927102 TTCTGTCTCTCTTTTT
1 TTCTGTCTCT-TTTTT
8927118 TTCTGTCTCTTTTT
1 TTCTGTCTCTTTTT
8927132 CTCTCCTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.23, G:0.07, T:0.70
Consensus pattern (15 bp):
TTCTGTCTCTTTTTT
Found at i:8927607 original size:3 final size:3
Alignment explanation
Indices: 8927599--8927663 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
8927589 AATATATATT
* * *
8927599 TAA TAA TAA TAA TAA TAA TGA TGA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8927647 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
8927664 TGGGTAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8933902 original size:24 final size:24
Alignment explanation
Indices: 8933858--8933904 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8933848 ATAAAGAACC
*
8933858 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
8933882 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
8933905 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:8940762 original size:150 final size:152
Alignment explanation
Indices: 8940491--8940792 Score: 590
Period size: 150 Copynumber: 2.0 Consensus size: 152
8940481 ATTCAACTTC
8940491 ACCCCTCTGGTGCATAATTAGAATGGCTCTTCTTACCTGCCAAACATAACCACCATATTACAAAC
1 ACCCCTCTGGTGCATAATTAGAATGGCTCTTCTTACCTGCCAAACATAACCACCATATTACAAAC
8940556 ATGATTGAACTGGATGTACATACAACCCAAAAATTGGCATACTCGAATGAATCAG-TTTTAAGTT
66 ATGATTGAACTGGATGTACATACAACCCAAAAATTGGCATACTCGAATGAATCAGTTTTTAAGTT
8940620 AACTACTTAC-ATTGATTCGTT
131 AACTACTTACAATTGATTCGTT
8940641 ACCCCTCTGGTGCATAATTAGAATGGCTCTTCTTACCTGCCAAACATAACCACCATATTACAAAC
1 ACCCCTCTGGTGCATAATTAGAATGGCTCTTCTTACCTGCCAAACATAACCACCATATTACAAAC
8940706 ATGATTGAACTGGATGTACATACAACCCAAAAATTGGCATACTCGAATGAATCAGTTTTTAAGTT
66 ATGATTGAACTGGATGTACATACAACCCAAAAATTGGCATACTCGAATGAATCAGTTTTTAAGTT
8940771 AACTACTTACAATTGATTCGTT
131 AACTACTTACAATTGATTCGTT
8940793 CATCCCCATT
Statistics
Matches: 150, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
150 120 0.80
151 19 0.13
152 11 0.07
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (152 bp):
ACCCCTCTGGTGCATAATTAGAATGGCTCTTCTTACCTGCCAAACATAACCACCATATTACAAAC
ATGATTGAACTGGATGTACATACAACCCAAAAATTGGCATACTCGAATGAATCAGTTTTTAAGTT
AACTACTTACAATTGATTCGTT
Found at i:8942332 original size:7 final size:7
Alignment explanation
Indices: 8942322--8942553 Score: 99
Period size: 7 Copynumber: 32.7 Consensus size: 7
8942312 TCATATCACA
8942322 TAAACTC
1 TAAACTC
8942329 TAAAACTC
1 T-AAACTC
*
8942337 TGAACTC
1 TAAACTC
*
8942344 TAAACCC
1 TAAACTC
*
8942351 TAAACTA
1 TAAACTC
8942358 TAAAC-C
1 TAAACTC
8942364 TTAAA-TC
1 -TAAACTC
* *
8942371 ATATCAC-A
1 -TA-AACTC
8942379 TAAACTC
1 TAAACTC
8942386 TAAAACTC
1 T-AAACTC
* *
8942394 TGAATTC
1 TAAACTC
*
8942401 TGAACTC
1 TAAACTC
*
8942408 TAAACCC
1 TAAACTC
8942415 TAAA-TC
1 TAAACTC
8942421 TTAAAC-C
1 -TAAACTC
*
8942428 ATAAACAC
1 -TAAACTC
8942436 TAAACTC
1 TAAACTC
8942443 TAAAC-C
1 TAAACTC
8942449 TTAAA-TCC
1 -TAAACT-C
* *
8942457 TATTA-TA
1 TA-AACTC
8942464 TAAACTC
1 TAAACTC
*
8942471 TAAACAC
1 TAAACTC
8942478 TAAAC-C
1 TAAACTC
*
8942484 ATAAACCC
1 -TAAACTC
8942492 TAAAC-C
1 TAAACTC
8942498 TTAAA-TC
1 -TAAACTC
*
8942505 ATATCACTC
1 -TA-AACTC
*
8942514 TAAACCC
1 TAAACTC
8942521 TAAACTC
1 TAAACTC
*
8942528 TAAACCC
1 TAAACTC
8942535 TAAACTC
1 TAAACTC
*
8942542 TAAACCC
1 TAAACTC
8942549 TAAAC
1 TAAAC
8942554 CTTGTCACGT
Statistics
Matches: 172, Mismatches: 32, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
6 7 0.04
7 140 0.81
8 23 0.13
9 2 0.01
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.26
Consensus pattern (7 bp):
TAAACTC
Found at i:8942356 original size:14 final size:14
Alignment explanation
Indices: 8942322--8942553 Score: 118
Period size: 14 Copynumber: 16.4 Consensus size: 14
8942312 TCATATCACA
*
8942322 TAAACTCTAAAACTC
1 TAAACTCT-AAACCC
*
8942337 TGAACTCTAAACCC
1 TAAACTCTAAACCC
* *
8942351 TAAACTATAAACCT
1 TAAACTCTAAACCC
* *
8942365 TAAA-TC-ATATCACA
1 TAAACTCTA-AAC-CC
*
8942379 TAAACTCTAAAACTC
1 TAAACTCT-AAACCC
* * * *
8942394 TGAATTCTGAACTC
1 TAAACTCTAAACCC
* * *
8942408 TAAACCCTAAATCT
1 TAAACTCTAAACCC
*
8942422 TAAAC-CATAAACAC
1 TAAACTC-TAAACCC
*
8942436 TAAACTCTAAACCT
1 TAAACTCTAAACCC
* **
8942450 TAAA-TCCTATTA-TA
1 TAAACT-CTA-AACCC
*
8942464 TAAACTCTAAACAC
1 TAAACTCTAAACCC
8942478 TAAAC-CATAAACCC
1 TAAACTC-TAAACCC
* *
8942492 TAAAC-CTTAAATCA
1 TAAACTC-TAAACCC
*
8942506 TATCACTCTAAACCC
1 TA-AACTCTAAACCC
8942521 TAAACTCTAAACCC
1 TAAACTCTAAACCC
8942535 TAAACTCTAAACCC
1 TAAACTCTAAACCC
8942549 TAAAC
1 TAAAC
8942554 CTTGTCACGT
Statistics
Matches: 163, Mismatches: 40, Indels: 29
0.70 0.17 0.12
Matches are distributed among these distances:
12 1 0.01
13 7 0.04
14 124 0.76
15 27 0.17
16 3 0.02
17 1 0.01
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.26
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:8942362 original size:57 final size:57
Alignment explanation
Indices: 8942288--8942446 Score: 212
Period size: 57 Copynumber: 2.8 Consensus size: 57
8942278 CCTAACCCCT
*
8942288 AACCCTTAACATATAAACCTTAAATCATATCACATAAACTCTAAAACTCTGAACTCTA
1 AACCCTAAAC-TATAAACCTTAAATCATATCACATAAACTCTAAAACTCTGAACTCTA
* *
8942346 AACCCTAAACTATAAACCTTAAATCATATCACATAAACTCTAAAACTCTGAATTCTG
1 AACCCTAAACTATAAACCTTAAATCATATCACATAAACTCTAAAACTCTGAACTCTA
* ** * * *
8942403 AACTCTAAACCCTAAATCTTAAACCATA-AACACTAAACTCTAAA
1 AACCCTAAACTATAAACCTTAAATCATATCACA-TAAACTCTAAA
8942447 CCTTAAATCC
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
56 3 0.03
57 79 0.87
58 9 0.10
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (57 bp):
AACCCTAAACTATAAACCTTAAATCATATCACATAAACTCTAAAACTCTGAACTCTA
Found at i:8942964 original size:14 final size:14
Alignment explanation
Indices: 8942947--8942987 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8942937 TTTATTCATC
8942947 AATAATGTATTTTT
1 AATAATGTATTTTT
8942961 AAT-A--TATTTTT
1 AATAATGTATTTTT
*
8942972 AATAATGTAATTTT
1 AATAATGTATTTTT
8942986 AA
1 AA
8942988 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.43
12 1 0.04
13 1 0.04
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:8943253 original size:15 final size:15
Alignment explanation
Indices: 8943230--8943266 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
8943220 GAGAAGCCGT
8943230 GTGAGCCTCATTATA
1 GTGAGCCTCATTATA
*
8943245 GTGATCCTCATTATA
1 GTGAGCCTCATTATA
8943260 GTGAGCC
1 GTGAGCC
8943267 CAAACCAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (15 bp):
GTGAGCCTCATTATA
Found at i:8945705 original size:52 final size:55
Alignment explanation
Indices: 8945643--8945750 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 55
8945633 TTTACTGCTT
8945643 TGATTTTCCAACTCTGCAA-TA-TATTATTTTTTTC-TTTTAGAGTAGAATCTAG
1 TGATTTTCCAACTCTGCAATTATTATTATTTTTTTCTTTTTAGAGTAGAATCTAG
8945695 TGATTTTCCAACTCTGCAATTATTATTATTTTTTTCTTTTTAGAGTAGAATCTAG
1 TGATTTTCCAACTCTGCAATTATTATTATTTTTTTCTTTTTAGAGTAGAATCTAG
8945750 T
1 T
8945751 AATGCATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
52 19 0.36
53 2 0.04
54 13 0.25
55 19 0.36
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (55 bp):
TGATTTTCCAACTCTGCAATTATTATTATTTTTTTCTTTTTAGAGTAGAATCTAG
Found at i:8945980 original size:5 final size:5
Alignment explanation
Indices: 8945970--8946302 Score: 532
Period size: 5 Copynumber: 68.6 Consensus size: 5
8945960 ATCATATTTA
8945970 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT-T TATA- TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
8946018 TAT-T TATAT TATAT TAT-T TATAT TATA- TATAT TATAT TATA- TAT-T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
8946063 TATAT TATAT TATAT T-TAT TATAT TATAT TATAT TATAT TAT-T TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
8946111 TATAT TATAT TATAT TATAT TATA- TATAT ATATAT TATA- TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT
8946160 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
8946210 TATAT TATAT TATAT TATATT TATAT TATA- TATAT TATAT TATA- TATAT
1 TATAT TATAT TATAT TATA-T TATAT TATAT TATAT TATAT TATAT TATAT
8946259 ATATAT ATATAT TATAT TATAT TATAT TATAT TATAT T-TAT TAT
1 -TATAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
8946303 TAAATAAAAA
Statistics
Matches: 311, Mismatches: 0, Indels: 34
0.90 0.00 0.10
Matches are distributed among these distances:
4 54 0.17
5 236 0.76
6 21 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:8947185 original size:2 final size:2
Alignment explanation
Indices: 8947180--8947297 Score: 97
Period size: 2 Copynumber: 60.5 Consensus size: 2
8947170 TTTTAAAAAC
* * * *
8947180 TA TA TA TA TA TA TA TA TA CTT TA AA TA -A TA TG TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
*
8947222 T- TA TGC TA TA TA TA T- TA TA T- TA TA TA TA -A TA TA TA CTA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
*
8947262 TA CTA TA TA TA CA -A TA TA TA TA TA TA T- TA TA TA TA T
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8947298 CAATATACTA
Statistics
Matches: 94, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
1 7 0.07
2 81 0.86
3 6 0.06
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8947247 original size:7 final size:7
Alignment explanation
Indices: 8947216--8947295 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 7
8947206 AATATGTAAA
8947216 TATATAT
1 TATATAT
*
8947223 TATGCTA-
1 TAT-ATAT
8947230 TATATAT
1 TATATAT
8947237 TATAT-T
1 TATATAT
*
8947243 ATATATAA
1 -TATATAT
*
8947251 TATATAC
1 TATATAT
8947258 TATATACT
1 TATATA-T
*
8947266 ATATATAC
1 -TATATAT
*
8947274 AATATAT
1 TATATAT
8947281 ATATATAT
1 -TATATAT
8947289 TATATAT
1 TATATAT
8947296 ATCAATATAC
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
6 3 0.05
7 40 0.70
8 8 0.14
9 6 0.11
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (7 bp):
TATATAT
Found at i:8947249 original size:9 final size:9
Alignment explanation
Indices: 8947215--8947297 Score: 64
Period size: 9 Copynumber: 8.9 Consensus size: 9
8947205 TAATATGTAA
8947215 ATATATATT
1 ATATATATT
*
8947224 ATGCTATA-T
1 AT-ATATATT
8947233 ATATTATATT
1 ATA-TATATT
8947243 ATATATA--
1 ATATATATT
*
8947250 ATATATACT
1 ATATATATT
8947259 ATATACTATAT
1 ATATA-TAT-T
*
8947270 ATACAATATAT
1 ATA-TATAT-T
8947281 ATATATATT
1 ATATATATT
8947290 ATATATAT
1 ATATATAT
8947298 CAATATACTA
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
7 7 0.11
9 27 0.44
10 14 0.23
11 12 0.20
12 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (9 bp):
ATATATATT
Found at i:8953354 original size:11 final size:11
Alignment explanation
Indices: 8953334--8953369 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
8953324 CCTTTGCTTT
8953334 CTCC-ATTTAG
1 CTCCAATTTAG
8953344 CTCCAATTTAG
1 CTCCAATTTAG
8953355 CTCCAATTTAG
1 CTCCAATTTAG
8953366 CTCC
1 CTCC
8953370 CAAGTTATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.36
Consensus pattern (11 bp):
CTCCAATTTAG
Found at i:8958814 original size:33 final size:34
Alignment explanation
Indices: 8958775--8959003 Score: 114
Period size: 33 Copynumber: 7.0 Consensus size: 34
8958765 AATACTACTA
*
8958775 TATAATATAATTATATATTATA-AGTA-ATATAA
1 TATAATATAATTATATATTATATACTATATATAA
* * *
8958807 GTATAATATATTTTTA-ATTATATTCTATATATAA
1 -TATAATATAATTATATATTATATACTATATATAA
* *
8958841 AATAATATAATT-TATATATATATA-TATATATAT
1 TATAATATAATTATATAT-TATATACTATATATAA
* *
8958874 TATAATA-AA-TAGCATAATATATA-TATATAT-A
1 TATAATATAATTA-TATATTATATACTATATATAA
* ** *
8958905 TATTAA-A-AA-CA-ATATTATATTTTCAAATATAA
1 TA-TAATATAATTATATATTATATACT-ATATATAA
* * *
8958937 TAT-ATATAATATAAATACTATATAC-ATATATAT
1 TATAATATAAT-TATATATTATATACTATATATAA
* *
8958970 TATACTAT-ATATATATACTATAT-CTTATATATAA
1 TATAATATAAT-TATATATTATATAC-TATATATAA
8959004 ATACTTTATA
Statistics
Matches: 153, Mismatches: 25, Indels: 35
0.72 0.12 0.16
Matches are distributed among these distances:
29 8 0.05
30 2 0.01
31 14 0.09
32 32 0.21
33 67 0.44
34 22 0.14
35 8 0.05
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (34 bp):
TATAATATAATTATATATTATATACTATATATAA
Found at i:8958869 original size:40 final size:40
Alignment explanation
Indices: 8958773--8958907 Score: 115
Period size: 40 Copynumber: 3.4 Consensus size: 40
8958763 TTAATACTAC
*
8958773 TATATA-ATATA-AT-TATATATTATAAGTAATATAAGTATAA
1 TATATATATATATATATATATATTATAA-TAA-ATAA-CATAA
* *
8958813 TATAT-T-TTTA-AT-TATAT-TCTATATATAAAATAATATAA
1 TATATATATATATATATATATAT-TATA-AT-AAATAACATAA
* *
8958851 TTTATATATATATATATATATATTATAATAAATAGCATAA
1 TATATATATATATATATATATATTATAATAAATAACATAA
8958891 TATATATATATATATAT
1 TATATATATATATATAT
8958908 TAAAAACAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
38 10 0.12
39 20 0.25
40 36 0.45
41 4 0.05
42 9 0.11
43 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (40 bp):
TATATATATATATATATATATATTATAATAAATAACATAA
Found at i:8958877 original size:28 final size:28
Alignment explanation
Indices: 8958773--8958903 Score: 87
Period size: 28 Copynumber: 4.8 Consensus size: 28
8958763 TTAATACTAC
*
8958773 TATATA-ATATA-ATTATATATTATAAGT
1 TATATATATATATA-TATATATTATAATT
* *
8958800 AATATA-AGTATA-ATATAT-TTTTAA-T
1 TATATATA-TATATATATATATTATAATT
* * *
8958825 TATAT-TCTATATATAAAATAATATAATT
1 TATATATATATATAT-ATATATTATAATT
*
8958853 TATATATATATATATATATATTATAATA
1 TATATATATATATATATATATTATAATT
* *
8958881 AATAGCATAATATATATATATAT
1 TATA-TAT-ATATATATATATAT
8958904 ATATTAAAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
24 4 0.05
25 7 0.09
26 8 0.10
27 15 0.18
28 24 0.29
29 10 0.12
30 14 0.17
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (28 bp):
TATATATATATATATATATATTATAATT
Found at i:8959025 original size:27 final size:26
Alignment explanation
Indices: 8958935--8959061 Score: 80
Period size: 27 Copynumber: 4.8 Consensus size: 26
8958925 TTTCAAATAT
*
8958935 AATATATATAATATAAATACTATAT-A
1 AATATATAT-ATATAAATACTTTATAA
* * * *
8958961 CATATATATTATACTATATA-TATATAC
1 AATATATA-TATA-TAAATACTTTATAA
* *
8958988 TATATCTTATATATAAATACTTTATAA
1 AATAT-ATATATATAAATACTTTATAA
* * *
8959015 AATACTATATATATATAGAGTTTTATAA
1 AATA-TATATATATAAATA-CTTTATAA
*
8959043 AGTATATATATAT-AATACT
1 AATATATATATATAAATACT
8959062 ACTAAAATTT
Statistics
Matches: 77, Mismatches: 17, Indels: 15
0.71 0.16 0.14
Matches are distributed among these distances:
25 1 0.01
26 22 0.29
27 41 0.53
28 13 0.17
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (26 bp):
AATATATATATATAAATACTTTATAA
Found at i:8959050 original size:2 final size:2
Alignment explanation
Indices: 8958832--8959031 Score: 97
Period size: 2 Copynumber: 104.0 Consensus size: 2
8958822 AATTATATTC
* *
8958832 TA TA TA TA -A AA TA -A TA TA -A TT TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
8958871 TA T- TA TA -A TA AA TA GCA TA -A TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
8958910 AA AA CA -A TA T- TA TA T- TT TCA AA TA TA -A TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* *
8958948 TA AA TA CTA TA TA CA TA TA TA T- TA TA CTA TA TA TA TA TA CTA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* * * *
8958990 TA TC T- TA TA TA TA AA TA CTT TA TA -A AA TA CTA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA
8959032 GAGTTTTATA
Statistics
Matches: 154, Mismatches: 22, Indels: 44
0.70 0.10 0.20
Matches are distributed among these distances:
1 15 0.10
2 129 0.84
3 10 0.06
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (2 bp):
TA
Found at i:8959728 original size:22 final size:21
Alignment explanation
Indices: 8959669--8959731 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
8959659 ATTATCCAAT
8959669 AAACTTGAAATCAATAATAAC
1 AAACTTGAAATCAATAATAAC
8959690 AAACTTGAAATCAATAATAAC
1 AAACTTGAAATCAATAATAAC
*
8959711 AAACTTGAAAATCCATAATAA
1 AAACTTG-AAATCAATAATAA
8959732 TAAATCAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 28 0.70
22 12 0.30
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (21 bp):
AAACTTGAAATCAATAATAAC
Found at i:8962930 original size:31 final size:31
Alignment explanation
Indices: 8962895--8962955 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
8962885 AAAATTATTT
8962895 TTGATAACAAAACGACGATTATCAAATTGGC
1 TTGATAACAAAACGACGATTATCAAATTGGC
* * *
8962926 TTGATAACAAAATGATGGTTATCAAATTGG
1 TTGATAACAAAACGACGATTATCAAATTGG
8962956 AGCCATTGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (31 bp):
TTGATAACAAAACGACGATTATCAAATTGGC
Found at i:8967914 original size:12 final size:12
Alignment explanation
Indices: 8967890--8967944 Score: 83
Period size: 12 Copynumber: 4.6 Consensus size: 12
8967880 GTTATTTCAA
8967890 CGGGTATCGGGC
1 CGGGTATCGGGC
* *
8967902 CGGTTATCAGGC
1 CGGGTATCGGGC
8967914 CGGGTATCGGGC
1 CGGGTATCGGGC
*
8967926 CGGGTATTGGGC
1 CGGGTATCGGGC
8967938 CGGGTAT
1 CGGGTAT
8967945 ATATATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.11, C:0.22, G:0.45, T:0.22
Consensus pattern (12 bp):
CGGGTATCGGGC
Found at i:8968185 original size:36 final size:36
Alignment explanation
Indices: 8968105--8968187 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
8968095 GATTACTAAA
* * * *
8968105 CCCATCCCCGTCCCCATTTAATATAATCGGTTTTTC
1 CCCATCCCCGTCCCCATTTAACATAAACGATTTTCC
* ** *
8968141 CCCGTCCCCGTCCCTGTTTAGCATAAACGATTTTCC
1 CCCATCCCCGTCCCCATTTAACATAAACGATTTTCC
8968177 CCCATCCCCGT
1 CCCATCCCCGT
8968188 TTAATTCGGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.17, C:0.41, G:0.11, T:0.31
Consensus pattern (36 bp):
CCCATCCCCGTCCCCATTTAACATAAACGATTTTCC
Found at i:8968832 original size:46 final size:46
Alignment explanation
Indices: 8968764--8968853 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
8968754 TCGAGCTAAT
*
8968764 GACGTTAAACAAAAGGGTTTGATCGGAGGCAACCCATTCCTTTTAC
1 GACGTTAAACAAAAGGGCTTGATCGGAGGCAACCCATTCCTTTTAC
8968810 GACGTTAAACAAAAGGGCTTGATCGGAGGCAACCCATTCCTTTT
1 GACGTTAAACAAAAGGGCTTGATCGGAGGCAACCCATTCCTTTT
8968854 TATTTTCATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
GACGTTAAACAAAAGGGCTTGATCGGAGGCAACCCATTCCTTTTAC
Found at i:8968881 original size:5 final size:5
Alignment explanation
Indices: 8968851--8968959 Score: 64
Period size: 5 Copynumber: 21.8 Consensus size: 5
8968841 ACCCATTCCT
* *
8968851 TTTTA TTTTCA TTTT- TTTGA -TTTA TTTTA TTTTTA TTTTA TTTTA TTTCCA
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTT-TA
**** * * * *
8968902 TTTTA TTTTTA ACAAA CTTTA TTTCA TTATA -TTTA TTTTA -ATTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
8968951 TTTTA TTTT
1 TTTTA TTTT
8968960 TCCCTGAATA
Statistics
Matches: 77, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
4 12 0.16
5 46 0.60
6 19 0.25
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:8968885 original size:11 final size:11
Alignment explanation
Indices: 8968851--8968898 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
8968841 ACCCATTCCT
*
8968851 TTTTATTTTCA
1 TTTTATTTTTA
*
8968862 TTTTTTTGATTTA
1 TTTTATT--TTTA
8968875 TTTTATTTTTA
1 TTTTATTTTTA
8968886 TTTTA-TTTTA
1 TTTTATTTTTA
8968896 TTT
1 TTT
8968899 CCATTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 8 0.25
11 15 0.47
13 9 0.28
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:8968890 original size:16 final size:16
Alignment explanation
Indices: 8968851--8968910 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
8968841 ACCCATTCCT
*
8968851 TTTTATTTTCATTTTTT
1 TTTTATTTT-ATTTTTA
8968868 TGATTTATTTTATTTTTA
1 T--TTTATTTTATTTTTA
**
8968886 TTTTATTTTATTTCCA
1 TTTTATTTTATTTTTA
8968902 TTTTATTTT
1 TTTTATTTT
8968911 TAACAAACTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 22 0.58
17 1 0.03
18 7 0.18
19 8 0.21
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTATTTTATTTTTA
Found at i:8968904 original size:11 final size:10
Alignment explanation
Indices: 8968851--8968909 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 10
8968841 ACCCATTCCT
8968851 TTTTATTTTCA
1 TTTTA-TTTCA
*
8968862 TTTT-TTTGA
1 TTTTATTTCA
*
8968871 -TTTATTTTA
1 TTTTATTTCA
*
8968880 TTTTTATTTTA
1 -TTTTATTTCA
8968891 TTTTATTTCCA
1 TTTTATTT-CA
8968902 TTTTATTT
1 TTTTATTT
8968910 TTAACAAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 3 0.07
9 8 0.20
10 8 0.20
11 22 0.54
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTATTTCA
Found at i:8969430 original size:20 final size:19
Alignment explanation
Indices: 8969405--8969447 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
8969395 AGACCACCAG
8969405 TCACTCTTCGTCGTCGTTCA
1 TCACTC-TCGTCGTCGTTCA
*
8969425 TCA--CTCGTCGTTGTTCA
1 TCACTCTCGTCGTCGTTCA
8969442 TCACTC
1 TCACTC
8969448 GTTGCCTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 15 0.75
18 1 0.05
19 1 0.05
20 3 0.15
ACGTcount: A:0.12, C:0.35, G:0.14, T:0.40
Consensus pattern (19 bp):
TCACTCTCGTCGTCGTTCA
Found at i:8969434 original size:17 final size:17
Alignment explanation
Indices: 8969412--8969449 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
8969402 CAGTCACTCT
8969412 TCGTCGTCGTTCATCAC
1 TCGTCGTCGTTCATCAC
*
8969429 TCGTCGTTGTTCATCAC
1 TCGTCGTCGTTCATCAC
8969446 TCGT
1 TCGT
8969450 TGCCTCCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.32, G:0.18, T:0.39
Consensus pattern (17 bp):
TCGTCGTCGTTCATCAC
Found at i:8972916 original size:86 final size:85
Alignment explanation
Indices: 8972747--8972905 Score: 273
Period size: 86 Copynumber: 1.9 Consensus size: 85
8972737 ATGTTTTAGG
*
8972747 ATATTATTTTAATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTA
1 ATATTATTTTAATCTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTA
8972812 GGATTTATGATACTATTTTT
66 GGATTTATGATACTATTTTT
* * *
8972832 ATATTATATTTTATCTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTGATT
1 ATATTAT-TTTAATCTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATT
8972897 AGGATTTAT
65 AGGATTTAT
8972906 TTATTTATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
85 7 0.10
86 62 0.90
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (85 bp):
ATATTATTTTAATCTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTA
GGATTTATGATACTATTTTT
Found at i:8973789 original size:11 final size:12
Alignment explanation
Indices: 8973765--8973823 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 12
8973755 TTTAAAATTA
8973765 TTATCTATTATT
1 TTATCTATTATT
*
8973777 TTAT-TATTGTT
1 TTATCTATTATT
*
8973788 TTCTCT-TT-TT
1 TTATCTATTATT
8973798 TTAT-T-TTATT
1 TTATCTATTATT
8973808 TTAT-T-TTATT
1 TTATCTATTATT
8973818 TTATCT
1 TTATCT
8973824 TCTCATCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 3 0.07
10 21 0.51
11 12 0.29
12 5 0.12
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.75
Consensus pattern (12 bp):
TTATCTATTATT
Found at i:8973806 original size:5 final size:5
Alignment explanation
Indices: 8973772--8973821 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
8973762 TTATTATCTA
* *
8973772 TTATT TTATT ATTGTT TTCTCT TT-TT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT -TTATT TTAT-T TTATT TTATT TTATT TTATT TTATT TTAT
8973822 CTTCTCATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
4 3 0.08
5 30 0.75
6 7 0.17
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:8976034 original size:31 final size:29
Alignment explanation
Indices: 8975973--8976030 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
8975963 TGATGATTGA
*
8975973 TACTTGTATCAATTATATACTATTTTATT
1 TACTTGTATCAACTATATACTATTTTATT
8976002 TACTTGTATCAACTATATACT-TTTT-TT
1 TACTTGTATCAACTATATACTATTTTATT
8976029 TA
1 TA
8976031 TTTAGTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 4 0.14
28 4 0.14
29 20 0.71
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.55
Consensus pattern (29 bp):
TACTTGTATCAACTATATACTATTTTATT
Found at i:8982272 original size:225 final size:220
Alignment explanation
Indices: 8981798--8982248 Score: 590
Period size: 224 Copynumber: 2.0 Consensus size: 220
8981788 AACATAACCA
* *
8981798 GTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCACTTATGTAATGTAATAGG
1 GTTAATTACT-AAAACATTATCAACCACAATAACATAACAAGTAGCACTTATGTAATGTAATAGG
* * * *
8981863 TAGCGCATTTCTAAAGCTGATGAGGCCTTAGATATCCAACGATAACAAAATAGGTTAATTACTTG
65 TAACACATTTCTAAAGCTGATGAGGCCTTAGATATCCAACGATAACAAAATAGGTTAAGTACTTA
* * *
8981928 ATTTTTTATAAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTCTAAGCTGATG
130 ATTTGTTATAAATATTATCAACATATTAGGTAGCACCTAAAATATTACCAAAGTCTAAGC--ATG
*
8981993 GAGCCTTAGAAATCCGACGATAACAAAATAT
193 GA--C-TAGAAATCCGACGAGAACAAAATAT
* *
8982024 GTTAATTACTAAAACATTATCAACCACAATAACATAACAAGTAGCGCTTATTTAATGTAATAGGT
1 GTTAATTACTAAAACATTATCAACCACAATAACATAACAAGTAGCACTTATGTAATGTAATAGGT
** * * *
8982089 AACATTTTTTTAAAGCTGATG-GAGCCTTAGA-ATCCGATGATAACAAAATAGGTTAAGTACTTA
66 AACACATTTCTAAAGCTGATGAG-GCCTTAGATATCCAACGATAACAAAATAGGTTAAGTACTTA
* ** ** *
8982152 ATTTGTTATCAATATTATCAACATATTAGGTAGCACCTAAAATATTATTAACTTTTAAGC-T-GA
130 ATTTGTTATAAATATTATCAACATATTAGGTAGCACCTAAAATATTACCAAAGTCTAAGCATGGA
8982215 -T-GAAATCCGACGAGAACAAAATAT
195 CTAGAAATCCGACGAGAACAAAATAT
8982239 GTTAATTACT
1 GTTAATTACT
8982249 TATTTTGTTA
Statistics
Matches: 201, Mismatches: 23, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
215 32 0.16
216 1 0.00
220 2 0.01
221 1 0.00
224 80 0.40
225 75 0.37
226 10 0.05
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (220 bp):
GTTAATTACTAAAACATTATCAACCACAATAACATAACAAGTAGCACTTATGTAATGTAATAGGT
AACACATTTCTAAAGCTGATGAGGCCTTAGATATCCAACGATAACAAAATAGGTTAAGTACTTAA
TTTGTTATAAATATTATCAACATATTAGGTAGCACCTAAAATATTACCAAAGTCTAAGCATGGAC
TAGAAATCCGACGAGAACAAAATAT
Found at i:8982290 original size:99 final size:99
Alignment explanation
Indices: 8982119--8982298 Score: 270
Period size: 99 Copynumber: 1.8 Consensus size: 99
8982109 GGAGCCTTAG
* *
8982119 AATCCGATGATAACAAAATAGGTTAAGTACTTAATTTGTTATCAATATTATCAACATATTAGGTA
1 AATCCGACGAGAACAAAATAGGTTAAGTACTTAATTTGTTATCAATATTATCAACATATTAGGTA
*
8982184 GCACCTAAAATATTATTAACTTTTAAGCTGATGA
66 ACACCTAAAATATTATTAACTTTTAAGCTGATGA
* * * *
8982218 AATCCGACGAGAACAAAATATGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAGGTA
1 AATCCGACGAGAACAAAATAGGTTAAGTACTTAATTTGTTATCAATATTATCAACATATTAGGTA
** *
8982283 ATGCCTAAAATGTTAT
66 ACACCTAAAATATTAT
8982299 CAAAGTTTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 71 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (99 bp):
AATCCGACGAGAACAAAATAGGTTAAGTACTTAATTTGTTATCAATATTATCAACATATTAGGTA
ACACCTAAAATATTATTAACTTTTAAGCTGATGA
Found at i:8982605 original size:17 final size:17
Alignment explanation
Indices: 8982580--8982615 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8982570 TTAGAGTAAG
*
8982580 TATGTATACATTATTAT
1 TATGGATACATTATTAT
8982597 TATGGATACATTATTAT
1 TATGGATACATTATTAT
8982614 TA
1 TA
8982616 ACCTTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (17 bp):
TATGGATACATTATTAT
Found at i:8982926 original size:23 final size:23
Alignment explanation
Indices: 8982900--8982971 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
8982890 CGGTAGCTAG
*
8982900 TTTAATATAATAGGTAGAGCTTA
1 TTTAATATAATAGGTAGAGCCTA
**
8982923 TTTAACGTAATAGGTAGCA-CCTA
1 TTTAATATAATAGGTAG-AGCCTA
*
8982946 TTTAATATAATAGGTAGCGCCTA
1 TTTAATATAATAGGTAGAGCCTA
8982969 TTT
1 TTT
8982972 TATTTTACCG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (23 bp):
TTTAATATAATAGGTAGAGCCTA
Found at i:8983121 original size:75 final size:75
Alignment explanation
Indices: 8982946--8983121 Score: 237
Period size: 75 Copynumber: 2.3 Consensus size: 75
8982936 GTAGCACCTA
* * * *
8982946 TTTAATATAATAGGTAGCGCCTATTTTATTTTACCGTTTATATTATTAGTAACCTTTAAACAAAT
1 TTTAATATAATAGGTAGCGCATATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
*
8983011 CAGTAGGTAT
66 CAGTAGGTAG
* * * *
8983021 TTTAATGTAATAGGTAGCACATATTTTATTTTACTGTTTACATTATTAGTAATCTTCAAACAAAC
1 TTTAATATAATAGGTAGCGCATATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
8983086 C-GATAGGTAG
66 CAG-TAGGTAG
* *
8983096 TTTAACATAATAGGTAGCGCTTATTT
1 TTTAATATAATAGGTAGCGCATATTT
8983122 AGCGTAATAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
74 1 0.01
75 86 0.99
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (75 bp):
TTTAATATAATAGGTAGCGCATATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
CAGTAGGTAG
Found at i:8983156 original size:23 final size:23
Alignment explanation
Indices: 8983096--8983157 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
8983086 CGATAGGTAG
*
8983096 TTTAACATAATAGGTAGCGCTTA
1 TTTAACATAATAGGTAACGCTTA
* *
8983119 TTTAGCGTAATAGGTAACG-TCTA
1 TTTAACATAATAGGTAACGCT-TA
*
8983142 TTTAACATAACAGGTA
1 TTTAACATAATAGGTA
8983158 GTGTAATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (23 bp):
TTTAACATAATAGGTAACGCTTA
Found at i:8984699 original size:23 final size:23
Alignment explanation
Indices: 8984647--8984699 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
8984637 TCAGGACAGT
*
8984647 TATGTGACACTTCAGTGCAAACC
1 TATGTGGCACTTCAGTGCAAACC
* *
8984670 TATGTGGCACTTCGGTGCTAACC
1 TATGTGGCACTTCAGTGCAAACC
8984693 TATGTGG
1 TATGTGG
8984700 TCATTAGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (23 bp):
TATGTGGCACTTCAGTGCAAACC
Found at i:8990959 original size:23 final size:23
Alignment explanation
Indices: 8990899--8990951 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
8990889 TCAGGACAAT
*
8990899 TATGTGGCACTTCAGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
*
8990922 TATGTGGCACTTCGGTGCTAACC
1 TATGTGGCACTTCGGTGCAAACC
8990945 TATGTGG
1 TATGTGG
8990952 TCTTTCGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:8991746 original size:74 final size:74
Alignment explanation
Indices: 8991621--8991760 Score: 181
Period size: 74 Copynumber: 1.9 Consensus size: 74
8991611 GCCTATTTGA
* * * ** * *
8991621 TTTTACCGTTTACATTATTAGTAAACTTTAAACACACTGGTAGGTATTTTAACGTAATAGGTAGC
1 TTTTACCGTTTACATTATTAGCAAACTTCAAACAAACAAGTAGGTAGTTTAACATAATAGGTAGC
8991686 GTCCGTTTT
66 GTCCGTTTT
* * * *
8991695 TTTTACGGTTTACATTTTTAGCAACCTTCAAACAAACAAGTAGGTAGTTTAACATAATGGGTAGC
1 TTTTACCGTTTACATTATTAGCAAACTTCAAACAAACAAGTAGGTAGTTTAACATAATAGGTAGC
8991760 G
66 G
8991761 CCTATTTTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 55 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (74 bp):
TTTTACCGTTTACATTATTAGCAAACTTCAAACAAACAAGTAGGTAGTTTAACATAATAGGTAGC
GTCCGTTTT
Found at i:8993510 original size:19 final size:19
Alignment explanation
Indices: 8993486--8993523 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8993476 AGATATCATA
*
8993486 TATTATTCAATTTGAATTT
1 TATTATTCAATCTGAATTT
8993505 TATTATTCAATCTGAATTT
1 TATTATTCAATCTGAATTT
8993524 CAGACATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (19 bp):
TATTATTCAATCTGAATTT
Found at i:8994535 original size:13 final size:13
Alignment explanation
Indices: 8994517--8994542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8994507 CTACAAAAAT
8994517 ATTATTATTATTA
1 ATTATTATTATTA
8994530 ATTATTATTATTA
1 ATTATTATTATTA
8994543 TAAATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:8997779 original size:30 final size:30
Alignment explanation
Indices: 8997745--8997802 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
8997735 TGCTTGTACA
8997745 AACTCATTTTTCTCTTTTGTTTGTGTTACT
1 AACTCATTTTTCTCTTTTGTTTGTGTTACT
*
8997775 AACTCGTTTTTCTCTTTTGTTTGTGTTA
1 AACTCATTTTTCTCTTTTGTTTGTGTTA
8997803 TTTTTCATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.60
Consensus pattern (30 bp):
AACTCATTTTTCTCTTTTGTTTGTGTTACT
Found at i:8999971 original size:17 final size:17
Alignment explanation
Indices: 8999949--8999989 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
8999939 TGATAAGATT
* *
8999949 GAACCCCTGTAAAATAA
1 GAACCCCTATAAAACAA
8999966 GAACCCCTATAAAACAA
1 GAACCCCTATAAAACAA
8999983 GAACCCC
1 GAACCCC
8999990 AATCCTACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.32, G:0.10, T:0.12
Consensus pattern (17 bp):
GAACCCCTATAAAACAA
Found at i:9001640 original size:36 final size:35
Alignment explanation
Indices: 9001585--9001669 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 35
9001575 ATCTATCAAC
** *
9001585 CTTGAGATTATTTTCTTAAAACAAATTTTTTCTCG
1 CTTGAGACAATTTTCTTAAAACAAATTTTGTCTCG
9001620 CTTGAGACAATTTGTCTTAAAACAAATTTTGTCTCG
1 CTTGAGACAATTT-TCTTAAAACAAATTTTGTCTCG
9001656 CTTGAGAC-ATTTTC
1 CTTGAGACAATTTTC
9001670 CTTTACGATG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
34 2 0.04
35 15 0.33
36 29 0.63
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (35 bp):
CTTGAGACAATTTTCTTAAAACAAATTTTGTCTCG
Found at i:9002139 original size:131 final size:131
Alignment explanation
Indices: 9001904--9002262 Score: 405
Period size: 131 Copynumber: 2.7 Consensus size: 131
9001894 TTGAAACATT
* * * * *
9001904 ATCCCTAAAGATGGCCTGTTATCCTCATTGTGTAGGAACCATGTCATCCCCCGACCAGACCTTCT
1 ATCCCTAAAGATGGCATGTTATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTTCT
** * * * ** * * *
9001969 CATCACGTAGGAACCGTGTCACCCCTAGATAACATGTCGTCCTTATTATGTAGGAATCGTGTTGT
66 CATCACGTAGGAGTCGTGTCACCCATAGATAACATGTCGTCCTCATCACATAGGAACCATGTTAT
9002034 C
131 C
* *
9002035 ATCCCTAAAGATGGCATGTCATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGACCTTCT
1 ATCCCTAAAGATGGCATGTTATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTTCT
*
9002100 CATCACGTAGGAGTCGTATCACCCATAGATAACCA-GTCGTCCTCATCACATAGGAACCATGTTA
66 CATCACGTAGGAGTCGTGTCACCCATAGATAA-CATGTCGTCCTCATCACATAGGAACCATGTTA
9002164 TC
130 TC
* * * * ** * * *
9002166 ACTCTCCCTAAAGATGGCATGTTATCTTCATCGCATAGGAACTGTGTCATCTACTTACCATATCG
1 A---TCCCTAAAGATGGCATGTTATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCT
* * *
9002231 CCTCATCACGTAGGAGTCATGTCACCCTTAGA
63 TCTCATCACGTAGGAGTCGTGTCACCCATAGA
9002263 CGACCAGAAC
Statistics
Matches: 191, Mismatches: 33, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
131 111 0.58
132 2 0.01
134 78 0.41
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (131 bp):
ATCCCTAAAGATGGCATGTTATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTTCT
CATCACGTAGGAGTCGTGTCACCCATAGATAACATGTCGTCCTCATCACATAGGAACCATGTTAT
C
Found at i:9004341 original size:230 final size:230
Alignment explanation
Indices: 9003955--9004393 Score: 824
Period size: 230 Copynumber: 1.9 Consensus size: 230
9003945 ATTAATATGC
9003955 ACATTATTATTTATGATATGTTTTAATTAATTTCTGATATTGTTGACAAACTTAGTTGTGTTTAA
1 ACATTATTATTTATGATATGTTTTAATTAATTTCTGATATTGTTGACAAACTTAGTTGTGTTTAA
* * *
9004020 TTTGTTGATATTCACGTTTTCCCAAAAAATTTATTCGAATATTTTCAAGAACAATGATTTGTAGA
66 TTTGTTAATATTCACGTCTTCCCAAAAAATTTATTCGAATATTTTCAAGAACAACGATTTGTAGA
*
9004085 ATGGGCGTGGAGAGCATTACTTGATCGTAGTAATGTGATTCGATACGACGTTTGAGCAAAATGTG
131 ATGGGCGTGGAGAGCATTACTTGATCGTAGTAATGTGATCCGATACGACGTTTGAGCAAAATGTG
9004150 AACTTGGAATAAACTATATATATATATATATATAA
196 AACTTGGAATAAACTATATATATATATATATATAA
9004185 ACATTATTATTTATGATATGTTTTAATTAATTTCTGATATTGTTGACAAACTTAGTTGTGTTTAA
1 ACATTATTATTTATGATATGTTTTAATTAATTTCTGATATTGTTGACAAACTTAGTTGTGTTTAA
9004250 TTTGTTAATATTCACGTCTTCCCAAAAAATTTATTCGAATATTTTCAAGAACAACGATTTGTAGA
66 TTTGTTAATATTCACGTCTTCCCAAAAAATTTATTCGAATATTTTCAAGAACAACGATTTGTAGA
* *
9004315 ATGGGCGTGGAGAGGATTATTTGATCGTAGTAATGTGATCCGATACGACGTTTGAGCAAAATGTG
131 ATGGGCGTGGAGAGCATTACTTGATCGTAGTAATGTGATCCGATACGACGTTTGAGCAAAATGTG
9004380 AACTTGGAATAAAC
196 AACTTGGAATAAAC
9004394 CAAATATAAA
Statistics
Matches: 203, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
230 203 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (230 bp):
ACATTATTATTTATGATATGTTTTAATTAATTTCTGATATTGTTGACAAACTTAGTTGTGTTTAA
TTTGTTAATATTCACGTCTTCCCAAAAAATTTATTCGAATATTTTCAAGAACAACGATTTGTAGA
ATGGGCGTGGAGAGCATTACTTGATCGTAGTAATGTGATCCGATACGACGTTTGAGCAAAATGTG
AACTTGGAATAAACTATATATATATATATATATAA
Found at i:9004988 original size:24 final size:24
Alignment explanation
Indices: 9004960--9005009 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
9004950 AAATCGACAA
9004960 TTTTTAAA-TAAAATTCATAATTGT
1 TTTTTAAATTAAAATT-ATAATTGT
* *
9004984 TTTTTAAATTAATATTTTAATTGT
1 TTTTTAAATTAAAATTATAATTGT
9005008 TT
1 TT
9005010 CCAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTTAAATTAAAATTATAATTGT
Found at i:9007715 original size:37 final size:37
Alignment explanation
Indices: 9007665--9007737 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
9007655 GCTTGTGGAA
*
9007665 CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCATACTAAAACTCTAT
*
9007702 CCTATTTTTAGGAGTTTGAATCCTACTAAAACTCTA
1 CCTATTTTTAGGAGTTTGAATCATACTAAAACTCTA
9007738 ACGTTTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (37 bp):
CCTATTTTTAGGAGTTTGAATCATACTAAAACTCTAT
Found at i:9008418 original size:35 final size:37
Alignment explanation
Indices: 9008343--9008428 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
9008333 AAGGTCTTGG
* * *
9008343 GTTTCAAGAGAAACATTTTTAAAGGTTTTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTCTGT
*
9008380 GTTTCAAGAGAAACAATTTCAAATG-TTTTTTTCT-T
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTCTGT
9008415 GTTTCAAGAGAAAC
1 GTTTCAAGAGAAAC
9008429 TGTCTCAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 15 0.33
36 8 0.18
37 22 0.49
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.44
Consensus pattern (37 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTCTGT
Found at i:9008463 original size:37 final size:36
Alignment explanation
Indices: 9008413--9008746 Score: 373
Period size: 36 Copynumber: 9.2 Consensus size: 36
9008403 TGTTTTTTTC
* *
9008413 TTGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-T
*
9008450 TTGTTTCAAGAGAAACATAT-TC-A-A-AG-----AT
1 TTGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAAT
9008478 TGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
1 T--TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-T
*
9008517 TTGTTTCAAG-GAAAACTATCTCAAGAGAGACAAAAT
1 TTGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAAAT
9008553 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGGCAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAG----A--CAAAAT
*
9008595 TTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-T
* * * *
9008632 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
* *
9008668 TTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
9008704 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-T
9008741 TTGTTT
1 TTGTTT
9008747 TGAGTAAATT
Statistics
Matches: 255, Mismatches: 19, Indels: 46
0.80 0.06 0.14
Matches are distributed among these distances:
28 2 0.01
29 3 0.01
30 17 0.07
31 1 0.00
32 1 0.00
33 2 0.01
34 2 0.01
36 98 0.38
37 88 0.35
38 4 0.02
39 2 0.01
40 1 0.00
42 34 0.13
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
Found at i:9008571 original size:73 final size:73
Alignment explanation
Indices: 9008481--9008746 Score: 374
Period size: 73 Copynumber: 3.6 Consensus size: 73
9008471 CAAAGATTGG
*
9008481 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACTGTCTCAAGAGAG
9008546 ACAAAATT
66 ACAAAATT
* *
9008554 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGGCAAAATTTGTTTCAA-GAGAAATTGTCTCA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC--A---AAACTTTGTTTCAAGGA-AAACTGTCTCA
9008618 AGAGAGACAAAACTT
60 AGAGAGACAAAA-TT
* * * * *
9008633 AGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACTGTCTCAAGAGAG
*
9008697 ATAAAATT
66 ACAAAATT
9008705 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
9008747 TGAGTAAATT
Statistics
Matches: 170, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
72 32 0.19
73 68 0.40
74 4 0.02
75 1 0.01
77 3 0.02
78 34 0.20
79 28 0.16
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACTGTCTCAAGAGAG
ACAAAATT
Found at i:9008603 original size:115 final size:109
Alignment explanation
Indices: 9008481--9008746 Score: 390
Period size: 115 Copynumber: 2.4 Consensus size: 109
9008471 CAAAGATTGG
*
9008481 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTC-AAGGAAAACTATCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAAG-AAACTATCTCAAGAGA
9008545 GACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGGCAAAATT
65 GACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG----A--CAAAATT
* * * * *
9008596 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAACTATCTCAAGAGAG
* *
9008661 ACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATT
66 ACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
9008705 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
9008747 TGAGTAAATT
Statistics
Matches: 139, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
109 45 0.32
111 1 0.01
115 90 0.65
116 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (109 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAACTATCTCAAGAGAG
ACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:9009559 original size:32 final size:32
Alignment explanation
Indices: 9009518--9009613 Score: 120
Period size: 32 Copynumber: 3.0 Consensus size: 32
9009508 TCGTATCAGG
*
9009518 ATGTTGAATCCCCAAAGATGCCCCAATATTCA
1 ATGTTGAATCTCCAAAGATGCCCCAATATTCA
* * **
9009550 ATGTTGAATCTCCAAAAATGCCCCAACATTTG
1 ATGTTGAATCTCCAAAGATGCCCCAATATTCA
* *
9009582 ATGTTGAATCTTCAAAGATTCCCCCAATATTC
1 ATGTTGAATCTCCAAAGA-TGCCCCAATATTC
9009614 CTCATTTCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
32 43 0.81
33 10 0.19
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.29
Consensus pattern (32 bp):
ATGTTGAATCTCCAAAGATGCCCCAATATTCA
Found at i:9010693 original size:12 final size:12
Alignment explanation
Indices: 9010659--9010711 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
9010649 TTTTTCTTCA
*
9010659 TTTTTTCTTTATT
1 TTTTTTCTCT-TT
9010672 TTTGTTTCTCTTT
1 TTT-TTTCTCTTT
9010685 TTTTTTCTCTTT
1 TTTTTTCTCTTT
* *
9010697 GCTTTTTCCCTTT
1 -TTTTTTCTCTTT
9010710 TT
1 TT
9010712 GTTCTGATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
12 10 0.29
13 18 0.53
14 6 0.18
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.77
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:9013787 original size:12 final size:12
Alignment explanation
Indices: 9013772--9013875 Score: 63
Period size: 12 Copynumber: 8.7 Consensus size: 12
9013762 AATAGTAAGT
9013772 AAAATAAATAAA
1 AAAATAAATAAA
*
9013784 AAAATATATTAAA
1 AAAATA-AATAAA
*
9013797 AAAATTAAA-GAA
1 AAAA-TAAATAAA
*
9013809 AAAATAAAGAAA
1 AAAATAAATAAA
* *
9013821 AAGAA-GAAGAAA
1 AA-AATAAATAAA
* *
9013833 TATATAAATAAA
1 AAAATAAATAAA
*
9013845 ACCAATAAAT-AA
1 A-AAATAAATAAA
9013857 AAAAT-AATAAA
1 AAAATAAATAAA
*
9013868 AAAGTAAA
1 AAAATAAA
9013876 ACTAATATAT
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
10 3 0.04
11 14 0.20
12 33 0.47
13 18 0.26
14 2 0.03
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:9013834 original size:69 final size:71
Alignment explanation
Indices: 9013729--9013876 Score: 160
Period size: 69 Copynumber: 2.1 Consensus size: 71
9013719 AAAACAAATT
* * * * * *
9013729 AAATAAAAGATAAGATAAAGAAAGAAAAGATAAAATA-GTAAGTAAAATAAATAAA-AAAATATA
1 AAATAAAAGAAAAAATAAAGAAAGAAAAGATAAAATATATAAATAAAACAAATAAATAAAAAATA
*
9013792 TTAAAA
66 ATAAAA
* *
9013798 AAATTAAAGAAAAAATAAAGAAA-AAGAAGA-AGAAATATATAAATAAAACCAATAAATAAAAAA
1 AAATAAAAGAAAAAATAAAGAAAGAA-AAGATA-AAATATATAAATAAAACAAATAAATAAAAAA
9013861 TAATAAAA
64 TAATAAAA
*
9013869 AAGTAAAA
1 AAATAAAA
9013877 CTAATATATA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
68 3 0.05
69 29 0.45
70 14 0.22
71 18 0.28
ACGTcount: A:0.73, C:0.01, G:0.09, T:0.17
Consensus pattern (71 bp):
AAATAAAAGAAAAAATAAAGAAAGAAAAGATAAAATATATAAATAAAACAAATAAATAAAAAATA
ATAAAA
Found at i:9014503 original size:13 final size:13
Alignment explanation
Indices: 9014485--9014509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9014475 TATGTAAATC
9014485 GTGTGTTACAATA
1 GTGTGTTACAATA
9014498 GTGTGTTACAAT
1 GTGTGTTACAAT
9014510 GGCTATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGTTACAATA
Found at i:9014583 original size:37 final size:37
Alignment explanation
Indices: 9014533--9014642 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
9014523 GCTTGTGGAA
* *
9014533 CCTATTTTTAGGAGGTTGAATCATAGTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
*
9014570 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTTTAT
1 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
*
9014607 CCTATTTTTAGGAGTTTGAATCCTACTAAAACTCTA
1 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
9014643 ACGTTTGTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
Found at i:9014594 original size:21 final size:21
Alignment explanation
Indices: 9014568--9014631 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
9014558 GTAAAACTCT
9014568 ATCCTATTTTTAGGAGTTTGA
1 ATCCTATTTTTAGGAGTTTGA
* ** *
9014589 ATCCTA---GTAAAACTTT--
1 ATCCTATTTTTAGGAGTTTGA
9014605 ATCCTATTTTTAGGAGTTTGA
1 ATCCTATTTTTAGGAGTTTGA
9014626 ATCCTA
1 ATCCTA
9014632 CTAAAACTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 6 0.20
18 6 0.20
19 6 0.20
21 12 0.40
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (21 bp):
ATCCTATTTTTAGGAGTTTGA
Found at i:9016163 original size:213 final size:216
Alignment explanation
Indices: 9015761--9016195 Score: 813
Period size: 213 Copynumber: 2.0 Consensus size: 216
9015751 AGGAATTCAA
9015761 ATGTGAGGGCGACATTGTTCCATCATTTTGAGGACATCGAGTAGCGTTTAAATGATTGTATCTGA
1 ATGTGAGGGCGACATTGTT-C-TCATTTTGAGGA-ATCGAGTAGCGTTTAAATGATTGTATCTGA
9015826 AGAAGCAATTATTCTTTTTCATTGATGAAGTCTAATTGTTTGTAGATAATTTGATTTTGAAAATG
63 AGAAGCAATTATTCTTTTTCATTGATGAAGTCTAATTGTTTGTAGATAATTTGATTTTGAAAATG
9015891 ATATTACTCTTTCGTGTTGAGGAATTCAAGTTGCTTCTGGTTGATTTTCTCGATGTCAAATCTGA
128 ATATTACTCTTTCGTGTTGAGGAATTCAAGTTGCTTCTGGTTGATTTTCTCGATGTCAAATCTGA
*
9015956 CGATGACATTGCTCTTTTACGTTG
193 CGATAACATTGCTCTTTTACGTTG
9015980 ATGTGAGGGCGACATTG-T-TCATTTTGAGG-ATCGAGTAGCGTTTAAATGATTGTATCTGAAGA
1 ATGTGAGGGCGACATTGTTCTCATTTTGAGGAATCGAGTAGCGTTTAAATGATTGTATCTGAAGA
9016042 AGCAATTATTCTTTTTCATTGATGAAGTCTAATTGTTTGTAGATAATTTGATTTTGAAAATGATA
66 AGCAATTATTCTTTTTCATTGATGAAGTCTAATTGTTTGTAGATAATTTGATTTTGAAAATGATA
9016107 TTACTCTTTCGTGTTGAGGAATTCAAGTTGCTTCTGGTTGATTTTCTCGATGTCAAATCTGACGA
131 TTACTCTTTCGTGTTGAGGAATTCAAGTTGCTTCTGGTTGATTTTCTCGATGTCAAATCTGACGA
9016172 TAACATTGCTCTTTTACGTTG
196 TAACATTGCTCTTTTACGTTG
9016193 ATG
1 ATG
9016196 AGGACTAGTC
Statistics
Matches: 215, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
213 186 0.87
215 11 0.05
218 1 0.00
219 17 0.08
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (216 bp):
ATGTGAGGGCGACATTGTTCTCATTTTGAGGAATCGAGTAGCGTTTAAATGATTGTATCTGAAGA
AGCAATTATTCTTTTTCATTGATGAAGTCTAATTGTTTGTAGATAATTTGATTTTGAAAATGATA
TTACTCTTTCGTGTTGAGGAATTCAAGTTGCTTCTGGTTGATTTTCTCGATGTCAAATCTGACGA
TAACATTGCTCTTTTACGTTG
Found at i:9033269 original size:138 final size:137
Alignment explanation
Indices: 9033015--9033269 Score: 327
Period size: 138 Copynumber: 1.8 Consensus size: 137
9033005 CAAAATAGAA
* * *
9033015 ATTCACAAACTTATTATGAATTCCATTGATGCACATATAGTGCCGAAAGTACACAAAGTACTGAT
1 ATTCACAAACTCATTATGAATACCATTGATACACATATAGTGCCGAAAGTACACAAAGTA-TGAT
* **
9033080 ACGAAAATGCACCGTTATGCATTAAACAAAATCGATCGATAACTTTTATACATAATTGTATAACA
65 ACGAAAATGCACCGTTATACATTAAACAAAATCGATCGATAACTTACATACATAATTGTATAACA
9033145 AAATGGTG
130 AAATGGTG
* ** *
9033153 ATTCACAAACTCATTATGAATACCA-TGATTACACATCTAGTGCC-AAACGTACACAGGGT-TGT
1 ATTCACAAACTCATTATGAATACCATTGA-TACACATATAGTGCCGAAA-GTACACAAAGTATGA
* * *
9033215 TACGAAAATGCATCGTTATACATTACACAAAATCGATTGATAACCATTACATACA
64 TACGAAAATGCACCGTTATACATTAAACAAAATCGATCGATAA-C-TTACATACA
9033270 ATCTATGTTG
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
136 41 0.41
137 7 0.07
138 52 0.52
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (137 bp):
ATTCACAAACTCATTATGAATACCATTGATACACATATAGTGCCGAAAGTACACAAAGTATGATA
CGAAAATGCACCGTTATACATTAAACAAAATCGATCGATAACTTACATACATAATTGTATAACAA
AATGGTG
Found at i:9040192 original size:138 final size:138
Alignment explanation
Indices: 9039944--9040199 Score: 318
Period size: 138 Copynumber: 1.9 Consensus size: 138
9039934 ACTGAAGTAC
* * ** *
9039944 CGAAATGGAAATTCACAAACTTATTATGAATTCCATGGATGCACATATAGTTTCGAAAGTACACA
1 CGAAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACATATAGTGCCAAAAGTACACA
* * *
9040009 AAGTACTGATATGAAAATGTACCGTTATCCATTAAACAAAATCGATCGATAACTTTTATACATAA
66 AAGTACTGATACGAAAATGCACCATTATCCATTAAACAAAATCGATCGATAACTTTTATACATAA
9040074 TTTTATAA
131 TTTTATAA
** * * *
9040082 CGAAATGGTGATTCACAAACTCATTATGAATACTAT-GATTGCATATCTAGTGCCAAAAGTACAC
1 CGAAATGGAAATTCACAAACTCATTATGAATACCATGGA-TGCACATATAGTGCCAAAAGTACAC
* * ** *
9040146 ACAA-TATTGTTACGAAAATGCACCATTATGGATTACACAAAATCGATCGATAAC
65 A-AAGTACTGATACGAAAATGCACCATTATCCATTAAACAAAATCGATCGATAAC
9040200 CATTACAAAC
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
137 2 0.02
138 94 0.96
139 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (138 bp):
CGAAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACATATAGTGCCAAAAGTACACA
AAGTACTGATACGAAAATGCACCATTATCCATTAAACAAAATCGATCGATAACTTTTATACATAA
TTTTATAA
Found at i:9045299 original size:20 final size:20
Alignment explanation
Indices: 9045276--9045324 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
9045266 CTGTATGTTG
9045276 GTATCGATATTG-ACTCTTGA
1 GTATCGATATTGAAC-CTTGA
** *
9045296 GTATTAATATTGAACCTTGG
1 GTATCGATATTGAACCTTGA
9045316 GTATCGATA
1 GTATCGATA
9045325 CCCACCTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (20 bp):
GTATCGATATTGAACCTTGA
Found at i:9047222 original size:18 final size:18
Alignment explanation
Indices: 9047178--9047231 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
9047168 AAATATATAA
9047178 TTAATATTATAATCTAAT
1 TTAATATTATAATCTAAT
* *
9047196 TTATTTATT-TAATACTTAT
1 TTA-ATATTATAAT-CTAAT
9047215 TTAATATTATAA-CTAAT
1 TTAATATTATAATCTAAT
9047232 CAAAATTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 4 0.14
18 11 0.38
19 14 0.48
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATATTATAATCTAAT
Found at i:9048758 original size:29 final size:29
Alignment explanation
Indices: 9048638--9048787 Score: 110
Period size: 29 Copynumber: 5.1 Consensus size: 29
9048628 TTTTATATGA
* * *
9048638 GATTATATCCTCTTGTCCTAATTCTGCATAG
1 GATTATATCC-C-CGTCCTAATTCTGAATGG
* * *
9048669 GATTATATCCCCATCCTGATTCTGCATGG
1 GATTATATCCCCGTCCTAATTCTGAATGG
* *
9048698 AATTATATCCCCGTCC-AGATTCT-ATATAG
1 GATTATATCCCCGTCCTA-ATTCTGA-ATGG
*
9048727 GATTATA-CCATCGTCCTAATTCTGAATGG
1 GATTATATCC-CCGTCCTAATTCTGAATGG
** *
9048756 GATCGTATCCCTGTCCTAATTCT-ACATGG
1 GATTATATCCCCGTCCTAATTCTGA-ATGG
9048785 GAT
1 GAT
9048788 CCTCTATGGG
Statistics
Matches: 96, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
28 3 0.03
29 78 0.81
30 5 0.05
31 10 0.10
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (29 bp):
GATTATATCCCCGTCCTAATTCTGAATGG
Found at i:9058008 original size:19 final size:21
Alignment explanation
Indices: 9057971--9058013 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
9057961 TAACTTTTTC
9057971 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
9057991 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
9058011 TTT
1 TTT
9058014 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:9058019 original size:19 final size:20
Alignment explanation
Indices: 9057970--9058019 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
9057960 TTAACTTTTT
*
9057970 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
9057990 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
9058009 CTTTTACCTTT
1 CTTTTACCTTT
9058020 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:9063818 original size:17 final size:19
Alignment explanation
Indices: 9063796--9063831 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9063786 TTTTAGGGGA
9063796 ATAAA-TTAGTA-TGTTTT
1 ATAAATTTAGTATTGTTTT
9063813 ATAAATTTAGTATTGTTTT
1 ATAAATTTAGTATTGTTTT
9063832 GGAAATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (19 bp):
ATAAATTTAGTATTGTTTT
Found at i:9063837 original size:19 final size:18
Alignment explanation
Indices: 9063801--9063839 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9063791 GGGGAATAAA
*
9063801 TTAGTATGTTTTATAAAT
1 TTAGTATGTTTTAGAAAT
*
9063819 TTAGTATTGTTTTGGAAAT
1 TTAGTA-TGTTTTAGAAAT
9063838 TT
1 TT
9063840 TCAAAAGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (18 bp):
TTAGTATGTTTTAGAAAT
Found at i:9064917 original size:29 final size:29
Alignment explanation
Indices: 9064873--9065156 Score: 143
Period size: 29 Copynumber: 9.8 Consensus size: 29
9064863 GGAGGGTATA
* *
9064873 ATCCTCATCCTGATTCTATATGGAATTAT
1 ATCCTCATCCTAATTCTACATGGAATTAT
*
9064902 ATCCTCGTCCTAATTCTACAT-GAGATTAT
1 ATCCTCATCCTAATTCTACATGGA-ATTAT
* * * *
9064931 ATCCAT-GTCCTAATTCTGCATGGGATAAT
1 ATCC-TCATCCTAATTCTACATGGAATTAT
* * * * *
9064960 ATCCCCATCCTAATTATGCATGGGATCAT
1 ATCCTCATCCTAATTCTACATGGAATTAT
* * * *
9064989 A-CCTCTATCATGATT-TGGCATGGGATTAT
1 ATCCTC-ATCCTAATTCT-ACATGGAATTAT
** * * * *
9065018 ATGCC-CGCCCTGATTTTGCATGGGATTAT
1 AT-CCTCATCCTAATTCTACATGGAATTAT
* * * *
9065047 ATCCCCGTCCTGATTCTACATGGGATTAT
1 ATCCTCATCCTAATTCTACATGGAATTAT
*
9065076 AT-CTCCATCCTAATTCTACATGGGATTAT
1 ATCCT-CATCCTAATTCTACATGGAATTAT
* ** *
9065105 ATCCCCGCCCTAATTCTACACAT-G-ATTGT
1 ATCCTCATCCTAATTCT--ACATGGAATTAT
* *
9065134 ATCCCCATCCTGATTCTACATGG
1 ATCCTCATCCTAATTCTACATGG
9065157 GATCCTCTAC
Statistics
Matches: 210, Mismatches: 30, Indels: 31
0.77 0.11 0.11
Matches are distributed among these distances:
27 4 0.02
28 10 0.05
29 184 0.88
30 6 0.03
31 6 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (29 bp):
ATCCTCATCCTAATTCTACATGGAATTAT
Found at i:9065049 original size:87 final size:87
Alignment explanation
Indices: 9064873--9065160 Score: 283
Period size: 87 Copynumber: 3.3 Consensus size: 87
9064863 GGAGGGTATA
* * * * * * * **
9064873 ATCCTCATCCTGATTCTATATGGAATTATATCCT-CGTCCTAATTCTACATGAGATTATATCCAT
1 ATCCCCATCCTGATTCTACATGGGATCATA-CCTCCATCATAATTCTACATGGGATTATATCCCC
* *
9064937 GTCCTAATTCTGCATGGGATAAT
65 GCCCTAATTCTGCATGGGATTAT
* * * * * * *
9064960 ATCCCCATCCTAATTATGCATGGGATCATACCTCTATCATGATT-TGGCATGGGATTATATGCCC
1 ATCCCCATCCTGATTCTACATGGGATCATACCTCCATCATAATTCT-ACATGGGATTATATCCCC
* *
9065024 GCCCTGATTTTGCATGGGATTAT
65 GCCCTAATTCTGCATGGGATTAT
* * * *
9065047 ATCCCCGTCCTGATTCTACATGGGATTATATCTCCATCCTAATTCTACATGGGATTATATCCCCG
1 ATCCCCATCCTGATTCTACATGGGATCATACCTCCATCATAATTCTACATGGGATTATATCCCCG
* *** *
9065112 CCCTAATTCTACACATGATTGT
66 CCCTAATTCTGCATGGGATTAT
9065134 ATCCCCATCCTGATTCTACATGGGATC
1 ATCCCCATCCTGATTCTACATGGGATC
9065161 CTCTACGGAG
Statistics
Matches: 158, Mismatches: 40, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
86 4 0.03
87 153 0.97
88 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (87 bp):
ATCCCCATCCTGATTCTACATGGGATCATACCTCCATCATAATTCTACATGGGATTATATCCCCG
CCCTAATTCTGCATGGGATTAT
Found at i:9065111 original size:58 final size:57
Alignment explanation
Indices: 9064880--9065159 Score: 231
Period size: 58 Copynumber: 4.8 Consensus size: 57
9064870 ATAATCCTCA
* * * * **
9064880 TCCTGATTCTATATGGAATTATATCCTCGTCCTAATTCTACATGAGATTATATCCATG
1 TCCTGATTCTACATGGGATTATATCC-CATCCTAATTCTACATGGGATTATATCCCCG
* * * * * * **
9064938 TCCTAATTCTGCATGGGATAATATCCCCATCCTAATTATGCATGGGATCATA-CCTCTA
1 TCCTGATTCTACATGGGATTATAT-CCCATCCTAATTCTACATGGGATTATATCC-CCG
* * ** * * *
9064996 TCATGATT-TGGCATGGGATTATATGCCCGCCCTGATTTTGCATGGGATTATATCCCCG
1 TCCTGATTCT-ACATGGGATTATAT-CCCATCCTAATTCTACATGGGATTATATCCCCG
9065054 TCCTGATTCTACATGGGATTATATCTCCATCCTAATTCTACATGGGATTATATCCCCG
1 TCCTGATTCTACATGGGATTATATC-CCATCCTAATTCTACATGGGATTATATCCCCG
* * *** * *
9065112 CCCTAATTCTACACATGATTGTATCCCCATCCTGATTCTACATGGGAT
1 TCCTGATTCTACATGGGATTATAT-CCCATCCTAATTCTACATGGGAT
9065160 CCTCTACGGA
Statistics
Matches: 178, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
57 4 0.02
58 168 0.94
59 6 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (57 bp):
TCCTGATTCTACATGGGATTATATCCCATCCTAATTCTACATGGGATTATATCCCCG
Found at i:9068589 original size:20 final size:20
Alignment explanation
Indices: 9068561--9068608 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
9068551 TGTTGGGAAC
9068561 TCAAGATATGTTTATTTTAG
1 TCAAGATATGTTTATTTTAG
*
9068581 TCAATATATGTTTATTTTAG
1 TCAAGATATGTTTATTTTAG
*
9068601 TGAAGATA
1 TCAAGATA
9068609 ACACATGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (20 bp):
TCAAGATATGTTTATTTTAG
Found at i:9069812 original size:17 final size:18
Alignment explanation
Indices: 9069790--9069823 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9069780 GTACGTTGTT
9069790 TATTATCTA-TGTTATAA
1 TATTATCTATTGTTATAA
*
9069807 TATTATTTATTGTTATA
1 TATTATCTATTGTTATA
9069824 GACTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (18 bp):
TATTATCTATTGTTATAA
Found at i:9074824 original size:3 final size:3
Alignment explanation
Indices: 9074803--9075869 Score: 1176
Period size: 3 Copynumber: 364.0 Consensus size: 3
9074793 AGGCTTTCCG
*
9074803 CTT C-T CTT CTTT CTCT CTT CTT CTT CTT CTT CTT CTT CCT CTT CTT
1 CTT CTT CTT C-TT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9074849 C-T CTT CTT CTT C-T CTT CTT CTT -TT CTT CTT CTT C-T CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* *
9074893 CTT CTT CTT CTT CCT CTT CTT CCTT C-T CTT CTT C-T CTT CTT CCT
1 CTT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT
* * *
9074937 CTT CTT CCT CTT CTT CTT CTT CCT CTT CTTT CTT CTT TTT C-T CTCT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CT-T
*
9074983 CCT CTT CTT CTT CTT C-T CTTT CTTT CTTT CTT -TT CTT CTT CTT -TT
1 CTT CTT CTT CTT CTT CTT C-TT C-TT C-TT CTT CTT CTT CTT CTT CTT
*
9075028 CTT CTT CTT CTT -TT CTT CTT CTT CTT C-T CGTT -TT TTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT
9075071 CTT CTT C-T CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTTT CTT CTT
1 CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT
9075117 CTT CTT -TCT CTT CTT CTT CTT -TT CTT CTT CTT -TT CTT CTT C-T
1 CTT CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * *
9075159 CTT ATT CTT CTT ATT CTT CTT CTT CCTT -TT -TT CTT CCT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT
* *
9075203 C-T CTT CTT -TT CTT CTTT CTT CTT CGT CTT CTT CTTT CTT CTT ATT
1 CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT C-TT CTT CTT CTT
* * * *
9075248 GTT CTT CTT CCT CTT -GT CTT CTT CTT CTT CTT CCT CTT CTT -TT -TT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
9075293 CTT CTT CTT CTT -TT CGT CTT CTT CTT -TT C-T CTTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT
*
9075336 CTT CTT CTT C-T ATT CTT C-T CTT CTT CTT CTT CTTT CTT CTT CTCT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CT-T
* * * *
9075381 CTT CCT CTT CTT CTT CCT CTT CCT CTT CTT CTT CTT CCT CTT C-T CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * *
9075428 CTT C-C CTT CTT CTCT CTT CTT CTT CCT CTT CTT CTT C-T CCT CTT
1 CTT CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* *
9075472 CTT C-T CTT CCT CTT CTT -TCT CTT C-T CTT CTT CTT CTT CTT CGCT
1 CTT CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT CTT C-TT
*
9075516 CTT CTT CTT C-T CTCT CTT CTT CTT CCTT CTT CTT CCT CTT CTT CTT
1 CTT CTT CTT CTT CT-T CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT
* * * *
9075562 CCT CCT C-T CTT CTT C-T CTCT CTT CTTT CCT CTT CTT CTT CTT CCT
1 CTT CTT CTT CTT CTT CTT CT-T CTT C-TT CTT CTT CTT CTT CTT CTT
* *
9075607 CTT CTT CTT CCT CTT CTT CTT CCT CTT CTTT CTT C-T CTT -TT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT
* *
9075651 CTT C-T CTT TTT CTT CTT CTT CTT CTTT CCT CTT -TT CTT CTT -TT
1 CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT
*
9075694 CTT CTT CTT CTT CTT CTT C-T CTT CTT CTT CTT CTT CGT CTT CTT -TT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
9075740 TTT CTT CTT CTT CTT CTT CTT -TT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9075787 CTT CTT CTT CTT -TT CTT CTT CTT CTT CTT CTT CTT CTT -TT C-T CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9075832 CTT CTT CTT CTT -TT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9075870 TTTCCTCACT
Statistics
Matches: 918, Mismatches: 71, Indels: 150
0.81 0.06 0.13
Matches are distributed among these distances:
2 99 0.11
3 746 0.81
4 73 0.08
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:9076844 original size:2 final size:2
Alignment explanation
Indices: 9076837--9076873 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9076827 TTTAATTTCA
9076837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9076874 ATGCAAGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.