Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007712.1 Hibiscus syriacus cultivar Beakdansim tig00109936_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: 920388
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:2171 original size:3 final size:3
Alignment explanation
Indices: 2165--2219 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
2155 TACTATAATA
* * *
2165 ATT ATT ATT ATA ATT ATT ATT ATA ATT A-T AAT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
2210 ATT ATT ATT A
1 ATT ATT ATT A
2220 AAAATAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:2179 original size:12 final size:12
Alignment explanation
Indices: 2162--2219 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
2152 TTTTACTATA
2162 ATAATTATTATT
1 ATAATTATTATT
2174 ATAATTATTATT
1 ATAATTATTATT
*
2186 ATAATTA-TAAT
1 ATAATTATTATT
2197 ATATATTATTATT
1 ATA-ATTATTATT
*
2210 ATTATTATTA
1 ATAATTATTA
2220 AAAATAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
11 6 0.15
12 30 0.73
13 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATAATTATTATT
Found at i:2668 original size:20 final size:20
Alignment explanation
Indices: 2630--2668 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2620 CCAACAGACC
*
2630 CAAGAGACAAAAACCGAGAG
1 CAAGAGACAAAAACAGAGAG
* *
2650 CAAGATACAAAAATAGAGA
1 CAAGAGACAAAAACAGAGA
2669 CCAACTCACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.05
Consensus pattern (20 bp):
CAAGAGACAAAAACAGAGAG
Found at i:4330 original size:19 final size:18
Alignment explanation
Indices: 4296--4337 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
4286 TAATTCTTTC
4296 TTTTCAAAATTTTATATA
1 TTTTCAAAATTTTATATA
*
4314 TTTTCATAATATTTATATA
1 TTTTCAAAAT-TTTATATA
4333 TTTTC
1 TTTTC
4338 TTATTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTCAAAATTTTATATA
Found at i:7641 original size:15 final size:15
Alignment explanation
Indices: 7621--7652 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7611 ATCAATACCT
7621 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
7636 TTTTGCATACATTCA
1 TTTTGCATACATGCA
7651 TT
1 TT
7653 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:14938 original size:11 final size:11
Alignment explanation
Indices: 14922--14984 Score: 81
Period size: 11 Copynumber: 5.3 Consensus size: 11
14912 AAGGAAAAAG
14922 AAAAAAAAGAA
1 AAAAAAAAGAA
14933 AAAAAAAAGAA
1 AAAAAAAAGAA
14944 AAAAAAAAGAA
1 AAAAAAAAGAA
14955 AAAAAAGGAGAGAA
1 AAAAAA--A-AGAA
14969 AAGAAAAAAGGAA
1 AA-AAAAAA-GAA
14982 AAA
1 AAA
14985 GGGGGGTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
11 28 0.60
12 2 0.04
13 7 0.15
14 6 0.13
15 4 0.09
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:14941 original size:20 final size:20
Alignment explanation
Indices: 14916--14977 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
14906 ATGCTTAAGG
14916 AAAAAGAAAAAAAAGAAAAA
1 AAAAAGAAAAAAAAGAAAAA
14936 AAAAAGAAAAAAAA-AAGAAA
1 AAAAAGAAAAAAAAGAA-AAA
* *
14956 AAAAAGGAGAGAAAAGAAAAA
1 AAAAA-GAAAAAAAAGAAAAA
14977 A
1 A
14978 GGAAAAAGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.05
20 22 0.59
21 11 0.30
22 2 0.05
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAAGAAAAA
Found at i:14977 original size:1 final size:1
Alignment explanation
Indices: 14916--14960 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
14906 ATGCTTAAGG
* * * *
14916 AAAAAGAAAAAAAAGAAAAAAAAAAGAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14961 GGAGAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:16577 original size:92 final size:93
Alignment explanation
Indices: 16420--16643 Score: 378
Period size: 92 Copynumber: 2.4 Consensus size: 93
16410 GGTTTGGTAA
*
16420 AACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAATGTTCTTTGAGTTA
* *
16485 TCTGATCTGGTTTGGTA-GGAACCACAG
66 TATGATCTGGTTTGGTATGAAACCACAG
*
16512 AACCAATCATTGAATTTGAAATATGAATGTGCTCATAGCATCTTCTGGAAATGTTCTTTGAGTTA
1 AACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAATGTTCTTTGAGTTA
16577 TATGATCTGGTTTGGTATGAAACCACAG
66 TATGATCTGGTTTGGTATGAAACCACAG
* *
16605 AACCAATCATTGGATATTGAAAGATGAATTTGCTCATAG
1 AACCAATCATTGAAT-TTGAAAGATGAATGTGCTCATAG
16644 TAGAAATAAG
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 79 0.64
93 23 0.19
94 21 0.17
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (93 bp):
AACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAATGTTCTTTGAGTTA
TATGATCTGGTTTGGTATGAAACCACAG
Found at i:17711 original size:124 final size:122
Alignment explanation
Indices: 17467--18697 Score: 1187
Period size: 124 Copynumber: 10.3 Consensus size: 122
17457 GCATTGCTAG
*
17467 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* * * * * *
17532 CAACTTTTTGCTCGAAT-TCATCTC---------TTGATGG-ATCAACATTTGCCAGA-A
66 TAACCTTTTGCT-GACTCT-ATCACAGAAGGAGATAGATGGCATCAAC-TTTTCCAGAGA
** *
17580 GTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* *
17645 TAACCATTTGCTCGACGCTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGA
66 TAACCTTTTGCT-GACTCTATCACAGAAGGAGATAGAT-GGCATCAACTTTTCCAGAGA
*
17704 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* * * * * * *
17769 CAACTTTTTGCTCGAAT-TCATCTC---------TTGATGG-ATCAACATTTGCTAGA-A
66 TAACCTTTTGCT-GACTCT-ATCACAGAAGGAGATAGATGGCATCAAC-TTTTCCAGAGA
** * * *
17817 GTGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* * *
17882 TAACCTTTTGAATGACTCTATCACAGAAGGA-A-ATA-GG--TCAACATTTCCAGAGA
66 TAACCTTTTG-CTGACTCTATCACAGAAGGAGATAGATGGCATCAACTTTTCCAGAGA
* *
17935 AAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* * * * * * *
17999 CAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGA
66 TAACCTTTTGC-TGACTCTATCACAGAAGGAGATAGA-TGGCATCAACTTTTCCAGAGA
* * *
18058 AAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* *
18123 TAACCTTTTGCTCGACGCTATCACAGAAGGAGATAAATCGGCATCAACTTTTCCAGAGA
66 TAACCTTTTGCT-GACTCTATCACAGAAGGAGATAGAT-GGCATCAACTTTTCCAGAGA
*
18182 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* * * * * *
18247 CAACTTTTTGCTCGAAT-TCATCTC---------TTGATGG-ATCAACATTTGCCAGA-A
66 TAACCTTTTGCT-GACTCT-ATCACAGAAGGAGATAGATGGCATCAAC-TTTTCCAGAGA
** * * *
18295 GTGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* * *
18360 TAACCTTTTGAATGACTCTATCACAGAA-G-GA-A-ATGG-GTCAACATTTCCAGAGA
66 TAACCTTTTG-CTGACTCTATCACAGAAGGAGATAGATGGCATCAACTTTTCCAGAGA
* * *
18413 AAATTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* * * * * * * *
18477 CAACCTTTTGCATAATTCTATCACAGAAGCATATAGATTAGCATAAACCTTTCCAGAGA
66 TAACCTTTTGC-TGACTCTATCACAGAAGGAGATAGA-TGGCATCAACTTTTCCAGAGA
* * *
18536 AAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* * * * * * **
18601 TAACCTTTTGAATGACTCTATCACAGAAGGAAATAG--GTCAACATCATCCCCAGCAGA
66 TAACCTTTTG-CTGACTCTATCACAGAAGGAGATAGATGGCATCAACTTTTCCAG-AGA
* *
18658 AAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAA-AAGA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
18698 TTTTATTCAA
Statistics
Matches: 930, Mismatches: 130, Indels: 108
0.80 0.11 0.09
Matches are distributed among these distances:
113 241 0.26
114 24 0.03
115 7 0.01
117 123 0.13
118 70 0.08
119 5 0.01
120 2 0.00
121 15 0.02
122 41 0.04
123 99 0.11
124 303 0.33
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (122 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
TAACCTTTTGCTGACTCTATCACAGAAGGAGATAGATGGCATCAACTTTTCCAGAGA
Found at i:17886 original size:237 final size:236
Alignment explanation
Indices: 17467--18697 Score: 1583
Period size: 237 Copynumber: 5.2 Consensus size: 236
17457 GCATTGCTAG
17467 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
17532 CAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAG
66 CAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAG
* * * * * *
17597 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCATTTG-CTCGAC
131 AACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAAT-GAC
* *
17661 GCTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGA
195 TCTATCACAGAAGGAGATA-ATCGGCATCAACATTTCCAGAGA
17704 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
17769 CAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCTAGAAGTGTTCATAATGAGAAG
66 CAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAG
17834 AACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACT
131 AACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACT
*
17899 CTATCACAGAA-G-GA-AATAGG--TCAACATTTCCAGAGA
196 CTATCACAGAAGGAGATAATCGGCATCAACATTTCCAGAGA
* * *
17935 AAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * * **
17999 CAACCTTTTGCAT--AATTCTATCAC-AGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAAAG
66 CAACTTTTTGC-TCGAATTC-ATCTCTTGATG--GAT-CA--A-CAT-----TTGCCAGA-AGTG
* *
18061 TTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAA
117 TTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAA
* * *
18126 CCTTTTG-CTCGACGCTATCACAGAAGGAGATAAATCGGCATCAACTTTTCCAGAGA
182 CCTTTTGAAT-GACTCTATCACAGAAGGAGAT-AATCGGCATCAACATTTCCAGAGA
18182 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
18247 CAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAG
66 CAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAG
18312 AACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACT
131 AACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACT
*
18377 CTATCACAGAA-G-GA-AAT-GG-GTCAACATTTCCAGAGA
196 CTATCACAGAAGGAGATAATCGGCATCAACATTTCCAGAGA
* * * *
18413 AAATTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * **
18477 CAACCTTTTGCAT--AATTCTATCACAGAAGCATATAGATTAGCATAAACCTTT-CCAGAGAAAG
66 CAACTTTTTGC-TCGAATTC-AT--C----TC-T-T-GA-T-GGATCAACATTTGCCAGA-AGTG
18539 TTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAA
117 TTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAA
* * * **
18604 CCTTTTGAATGACTCTATCACAGAA-G-GA-AATAGGTCAACATCATCCCCAGCAGA
182 CCTTTTGAATGACTCTATCACAGAAGGAGATAATCGG-CATCAACATTTCCAG-AGA
* *
18658 AAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAA-AAGA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
18698 TTTTATTCAA
Statistics
Matches: 885, Mismatches: 63, Indels: 84
0.86 0.06 0.08
Matches are distributed among these distances:
229 13 0.01
230 90 0.10
231 92 0.10
232 4 0.00
233 7 0.01
234 2 0.00
235 7 0.01
236 3 0.00
237 283 0.32
238 10 0.01
239 2 0.00
240 13 0.01
241 193 0.22
242 3 0.00
243 5 0.01
244 10 0.01
245 41 0.05
246 5 0.01
247 48 0.05
248 46 0.05
249 8 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (236 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAG
AACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACT
CTATCACAGAAGGAGATAATCGGCATCAACATTTCCAGAGA
Found at i:18114 original size:354 final size:350
Alignment explanation
Indices: 17467--18611 Score: 1273
Period size: 354 Copynumber: 3.2 Consensus size: 350
17457 GCATTGCTAG
* *
17467 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTATT
* * * ** **
17532 CAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAG
66 CAACCTTTTGATCGAATTCATCACAGGATGGATCAACATTTGCCAGAAAAGTTCATAATGAGAAG
* *
17597 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCATTTGC-TCGAC
131 AACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTTAACCTTTTGCAT-GAC
* * *
17661 GCTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
194 TCTATCACAGAA-GAGATAGAT-TGCATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTC
* *
17726 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATC
257 ATCTGAAGGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATC
* *
17791 -TCTTGAT-GGATCAACATTTGCTAGA-A
322 AGCTTGATAGGATCAACATTTGCCAGAGA
** * *
17817 GTGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTATT
* *
17882 TAACCTTTTGAAT-G-ACTCTATCACAGAAGGAAATAGG-TCAACATTT-CCAGAGAAAGTTCAT
66 CAACCTTTTG-ATCGAATTC-ATCAC---AGG--AT-GGATCAACATTTGCCAGA-AAAGTTCAT
* * *
17943 AATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTT
122 AATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTTAACCTTTT
* * * *
18008 GCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAAAGTTCATAATGAGA
187 GCATGACTCTATCACAGAAG-AGATAGATT-GCATCAACATTTCCAGAGAAAGTTCATAATGAGA
* *
18073 AGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTCGA
250 AGAACTCATCTGAAGGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGA
* *** *
18138 CGCTATCA-CAGAAGGAGATAAATCGGCATCAAC-TTTTCCAGAGA
315 --AT-TCATCAG--CTTGAT--A--GG-ATCAACATTTGCCAGAGA
* *
18182 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTATT
* * * ** **
18247 CAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAG
66 CAACCTTTTGATCGAATTCATCACAGGATGGATCAACATTTGCCAGAAAAGTTCATAATGAGAAG
* * *
18312 AACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACT
131 AACTCATCTGAA-GAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTTAACCTTTTGCATGACT
** * *
18377 CTATCACAGAAG-GA-A-A-TGGGTCAACATTTCCAGAGAAAATTCATAATGAGAAGAACTTATC
195 CTATCACAGAAGAGATAGATTGCATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC
* *
18438 TGAA-GAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCAT--AATTCTATCA
260 TGAAGGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC-TCGAATTC-AT--
* * *
18500 CAGAAGCATATAGATTAGCATAAACCTTT-CCAGAGA
321 C---AGC-T-T-GA-TAGGATCAACATTTGCCAGAGA
* *
18536 AAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTATT
*
18601 TAACCTTTTGA
66 CAACCTTTTGA
18612 ATGACTCTAT
Statistics
Matches: 669, Mismatches: 83, Indels: 82
0.80 0.10 0.10
Matches are distributed among these distances:
349 3 0.00
350 74 0.11
351 3 0.00
353 3 0.00
354 283 0.42
355 87 0.13
356 5 0.01
357 7 0.01
358 3 0.00
359 8 0.01
360 38 0.06
361 62 0.09
362 1 0.00
364 10 0.01
365 79 0.12
366 3 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (350 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTATT
CAACCTTTTGATCGAATTCATCACAGGATGGATCAACATTTGCCAGAAAAGTTCATAATGAGAAG
AACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTTAACCTTTTGCATGACTC
TATCACAGAAGAGATAGATTGCATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
GAAGGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCAGCT
TGATAGGATCAACATTTGCCAGAGA
Found at i:18478 original size:478 final size:478
Alignment explanation
Indices: 17582--18697 Score: 1999
Period size: 478 Copynumber: 2.3 Consensus size: 478
17572 TGCCAGAAGT
* *
17582 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
1 GTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
*
17647 ACCATTTGCTCGACGCTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAAGTTCAT
66 ACCTTTTGCTCGACGCTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAAGTTCAT
17712 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT
131 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT
*
17777 TGCTCGAATTCATCTCTTGATGGATCAACATTTGCTAGAAGTGTTCATAATGAGAAGAACTCATC
196 TGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAGAACTCATC
17842 TGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACTCTATCACA
261 TGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACTCTATCACA
*
17907 GAAGGAAATAGGTCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
326 GAAGGAAATAGGTCAACATTTCCAGAGAAAATTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
17972 AGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGAT
391 AGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGAT
18037 TAGCATAAACCTTTCCAGAGAAA
456 TAGCATAAACCTTTCCAGAGAAA
18060 GTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
1 GTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
*
18125 ACCTTTTGCTCGACGCTATCACAGAAGGAGATAAATCGGCATCAACTTTTCCAGAGAAAGTTCAT
66 ACCTTTTGCTCGACGCTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAAGTTCAT
18190 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT
131 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT
18255 TGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAGAACTCATC
196 TGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAGAACTCATC
18320 TGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACTCTATCACA
261 TGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACTCTATCACA
*
18385 GAAGGAAATGGGTCAACATTTCCAGAGAAAATTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
326 GAAGGAAATAGGTCAACATTTCCAGAGAAAATTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
*
18450 AGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCATATAGAT
391 AGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGAT
18515 TAGCATAAACCTTTCCAGAGAAA
456 TAGCATAAACCTTTCCAGAGAAA
* *
18538 GTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTA
1 GTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
* * * * ** **
18603 ACCTTTTGAAT-GACTCTATCACAGAAGGAAATAGGTCAACATC-A--TCCCCAGCAGAAAGTTC
66 ACCTTTTG-CTCGACGCTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAG-AGAAAGTTC
* *
18664 ATAATGAGAAGAACTTATCTGAAGAAAGAA-AAGA
129 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
18698 TTTTATTCAA
Statistics
Matches: 615, Mismatches: 21, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
475 9 0.01
476 37 0.06
477 1 0.00
478 567 0.92
479 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (478 bp):
GTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
ACCTTTTGCTCGACGCTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAAGTTCAT
AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT
TGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCATAATGAGAAGAACTCATC
TGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACTCTATCACA
GAAGGAAATAGGTCAACATTTCCAGAGAAAATTCATAATGAGAAGAACTTATCTGAAGAGGAAGA
AGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGAT
TAGCATAAACCTTTCCAGAGAAA
Found at i:18838 original size:3 final size:3
Alignment explanation
Indices: 18832--18880 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
18822 TTTTACTATA
* *
18832 ATT ATT ATT ATA ATT ATT ATT ATA ATT A-T ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
18877 ATT A
1 ATT A
18881 AAAATATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:18847 original size:6 final size:6
Alignment explanation
Indices: 18828--18892 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
18818 ATTTTTTTAC
* * *
18828 TATAAT TATTAT TATAAT TATTAT TATAAT TAT-A- TAT-AT TATTAT
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT
* * *
18873 TATTAT TAAAAA TATAAT TA
1 TATAAT TATAAT TATAAT TA
18893 CAAATAATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
4 4 0.08
5 4 0.08
6 40 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TATAAT
Found at i:18880 original size:12 final size:12
Alignment explanation
Indices: 18828--18878 Score: 77
Period size: 12 Copynumber: 4.2 Consensus size: 12
18818 ATTTTTTTAC
18828 TATAATTATTAT
1 TATAATTATTAT
18840 TATAATTATTAT
1 TATAATTATTAT
18852 TATAATTA-TAT
1 TATAATTATTAT
*
18863 ATATTATTATTAT
1 -TATAATTATTAT
18876 TAT
1 TAT
18879 TAAAAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
11 3 0.08
12 30 0.83
13 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATAATTATTAT
Found at i:18887 original size:21 final size:21
Alignment explanation
Indices: 18844--18892 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18834 TATTATTATA
* *
18844 ATTATTATTATAATTATATAT
1 ATTATTATTATAATTAAAAAT
*
18865 ATTATTATTATTATTAAAAAT
1 ATTATTATTATAATTAAAAAT
*
18886 ATAATTA
1 ATTATTA
18893 CAAATAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTATTATTATAATTAAAAAT
Found at i:22965 original size:16 final size:16
Alignment explanation
Indices: 22944--23002 Score: 109
Period size: 16 Copynumber: 3.7 Consensus size: 16
22934 TTTATGTCCG
22944 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
22960 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
22976 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
22992 TTTATGTTCGT
1 TTTATGTTCGT
23003 TTATCTATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.58
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:23929 original size:2 final size:2
Alignment explanation
Indices: 23905--23970 Score: 93
Period size: 2 Copynumber: 34.5 Consensus size: 2
23895 ATTTTCGTCC
* *
23905 AT AT AA AT AT AT -T TT AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23945 AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
23971 GTTTGCAAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
1 3 0.05
2 55 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:24039 original size:37 final size:37
Alignment explanation
Indices: 23984--24312 Score: 263
Period size: 37 Copynumber: 9.1 Consensus size: 37
23974 TGCAAACGTA
* *
23984 TTTGAAATACATACATAATATATAGTTTTTAAAAACAT
1 TTTGAAA-ATATATATAATATATAGTTTTTAAAAACAT
* *
24022 TTTGAAAATGTATATAATATATA-TTTTTTAAAACAT
1 TTTGAAAATATATATAATATATAGTTTTTAAAAACAT
* * *
24058 TTT-----TTTA-AAAACTATATA--ATTT-AAAACAT
1 TTTGAAAATATATATAA-TATATAGTTTTTAAAAACAT
* *
24087 TTTAGAAAATATATATAATATATATTTTTTAAAATCAT
1 TTT-GAAAATATATATAATATATAGTTTTTAAAAACAT
* *
24125 TTTGAAAACT-TATATAATATATA-ATTTTGAAAACAT
1 TTTGAAAA-TATATATAATATATAGTTTTTAAAAACAT
* * *
24161 TTTAAAAATATATATAATATATAATTTTTTAAAACATT
1 TTTGAAAATATATATAATATATAGTTTTTAAAAACA-T
* * *
24199 TTTGAAAATATATATATTATATAGTTTTT-TAAACGTT
1 TTTGAAAATATATATAATATATAGTTTTTAAAAAC-AT
* ** *
24236 TTTCAAAATACGTATAATATATAGCTTTTAAAAAACAT
1 TTTGAAAATATATATAATATATAG-TTTTTAAAAACAT
* * * * *
24274 TTTGGAAATTTATATATTATAT-GTTTTTGAAAATAT
1 TTTGAAAATATATATAATATATAGTTTTTAAAAACAT
24310 TTT
1 TTT
24313 TATATATAAT
Statistics
Matches: 235, Mismatches: 38, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
29 10 0.04
30 6 0.03
31 9 0.04
35 10 0.04
36 61 0.26
37 70 0.30
38 65 0.28
39 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (37 bp):
TTTGAAAATATATATAATATATAGTTTTTAAAAACAT
Found at i:24101 original size:28 final size:29
Alignment explanation
Indices: 24037--24105 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
24027 AAATGTATAT
** **
24037 AATATATATTTTTTAAAACATTTTTTTAA
1 AATATATATAATTTAAAACATTTTTAGAA
24066 AA-ACTATATAATTTAAAACA-TTTTAGAA
1 AATA-TATATAATTTAAAACATTTTTAGAA
24094 AATATATATAAT
1 AATATATATAAT
24106 ATATATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 17 0.50
29 17 0.50
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (29 bp):
AATATATATAATTTAAAACATTTTTAGAA
Found at i:24171 original size:25 final size:25
Alignment explanation
Indices: 24123--24172 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
24113 TTTTAAAATC
*
24123 ATTTTGAAAACTTATATAATATATA
1 ATTTTGAAAACTTATATAAAATATA
*
24148 ATTTTGAAAACATTTTA-AAAATATA
1 ATTTTGAAAAC-TTATATAAAATATA
24173 TATAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (25 bp):
ATTTTGAAAACTTATATAAAATATA
Found at i:24313 original size:75 final size:74
Alignment explanation
Indices: 24080--24314 Score: 251
Period size: 75 Copynumber: 3.2 Consensus size: 74
24070 TATATAATTT
* * * * *
24080 AAAACA-TTTTAGAAAATATATATAATATATATTTTTTAAAATCATTTTGAAAACTTATATAATA
1 AAAACATTTTTA-AAAATACATATAATATATAATTTTTAAAAACATTTTGAAAATTTATATATTA
**
24144 TATAATTTTG
65 TATGTTTTTG
* * *
24154 AAAACA-TTTTAAAAATATATATAATATATAATTTTTTAAAACATTTTTGAAAATATATATATTA
1 AAAACATTTTTAAAAATACATATAATATATAATTTTTAAAAACA-TTTTGAAAATTTATATATTA
24218 TATAGTTTTT-
65 TAT-GTTTTTG
* * * * * * *
24228 TAAACGTTTTTCAAAATACGTATAATATATAGCTTTTAAAAAACATTTTGGAAATTTATATATTA
1 AAAACATTTTTAAAAATACATATAATATATA-ATTTTTAAAAACATTTTGAAAATTTATATATTA
24293 TATGTTTTTG
65 TATGTTTTTG
*
24303 AAAATATTTTTA
1 AAAACATTTTTA
24315 TATATAATAT
Statistics
Matches: 134, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
73 29 0.22
74 41 0.31
75 54 0.40
76 10 0.07
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (74 bp):
AAAACATTTTTAAAAATACATATAATATATAATTTTTAAAAACATTTTGAAAATTTATATATTAT
ATGTTTTTG
Found at i:24336 original size:3 final size:3
Alignment explanation
Indices: 24324--24354 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
24314 ATATATAATA
24324 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
24355 CTCTTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25530 original size:11 final size:11
Alignment explanation
Indices: 25510--25578 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 11
25500 GTAATATATA
25510 TATTTATTTAT
1 TATTTATTTAT
*
25521 TATTTGTTTAT
1 TATTTATTTAT
25532 TATTAGTATTAGTAT
1 TATT--TATT--TAT
25547 TA-TTATTT-T
1 TATTTATTTAT
25556 TATTTTATTTATT
1 TA-TTTATTTA-T
25569 TATTTTATTT
1 TA-TTTATTT
25579 GTCTTTTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
9 3 0.06
10 1 0.02
11 20 0.42
12 4 0.08
13 14 0.29
14 1 0.02
15 5 0.10
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (11 bp):
TATTTATTTAT
Found at i:25563 original size:5 final size:5
Alignment explanation
Indices: 25553--25707 Score: 56
Period size: 5 Copynumber: 29.8 Consensus size: 5
25543 GTATTATTAT
* * *
25553 TTTTA TTTTA -TTTA -TTTA TTTTA TTTGTC TTTT- TTTGTA TTTTA TCTCA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTT-TA TTTTA TTTTA
* *
25602 TTTTA TTTCTGCAA TTTGT- TTTTA -TTTA TTTCT- TTATTT TTTTA TTCTA
1 TTTTA TTT-T---A TTT-TA TTTTA TTTTA TTT-TA TT-TTA TTTTA TTTTA
* * *
25651 TTTCA -TTTC TTTTA TTTTGA TTTTA TTAATT- TTTTA TTTTCCT TTTTA
1 TTTTA TTTTA TTTTA TTTT-A TTTTA TT--TTA TTTTA TTTT--A TTTTA
25699 TTTTA TTTT
1 TTTTA TTTT
25708 TTCTACGTTT
Statistics
Matches: 115, Mismatches: 15, Indels: 40
0.68 0.09 0.24
Matches are distributed among these distances:
4 20 0.17
5 65 0.57
6 19 0.17
7 6 0.05
9 5 0.04
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:25587 original size:13 final size:13
Alignment explanation
Indices: 25554--25578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25544 TATTATTATT
25554 TTTATTTTATTTA
1 TTTATTTTATTTA
25567 TTTATTTTATTT
1 TTTATTTTATTT
25579 GTCTTTTTTT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:25595 original size:10 final size:11
Alignment explanation
Indices: 25538--25597 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
25528 TTATTATTAG
*
25538 TATTAGTATTAT
1 TATTTGTATT-T
*
25550 TATTTTTATTT
1 TATTTGTATTT
*
25561 TATTTATTTATTT
1 TA-TT-TGTATTT
*
25574 TATTTGTCTTT
1 TATTTGTATTT
25585 T-TTTGTATTT
1 TATTTGTATTT
25595 TAT
1 TAT
25598 CTCATTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
10 9 0.22
11 10 0.25
12 12 0.30
13 9 0.22
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (11 bp):
TATTTGTATTT
Found at i:25652 original size:21 final size:21
Alignment explanation
Indices: 25620--25689 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
25610 CTGCAATTTG
25620 TTTTTATTTATTTC-TTTATT
1 TTTTTATTTATTTCATTTATT
*
25640 TTTTTATTCTATTTCATTTCTT
1 TTTTTATT-TATTTCATTTATT
* * * *
25662 TTATT-TTGATTTTA-TTAAT
1 TTTTTATTTATTTCATTTATT
25681 TTTTTATTT
1 TTTTTATTT
25690 TCCTTTTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 7 0.18
20 15 0.38
21 8 0.21
22 9 0.23
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (21 bp):
TTTTTATTTATTTCATTTATT
Found at i:25668 original size:25 final size:25
Alignment explanation
Indices: 25624--25687 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
25614 AATTTGTTTT
* *
25624 TATTTATTTCTTTATTTTTTTATTC
1 TATTTATTTCTTTATATTTTGATTC
*
25649 TATTTCATTTCTTT-TATTTTGATTT
1 TATTT-ATTTCTTTATATTTTGATTC
*
25674 TATTAATTT-TTTAT
1 TATTTATTTCTTTAT
25688 TTTCCTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 3 0.09
24 5 0.15
25 17 0.52
26 8 0.24
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (25 bp):
TATTTATTTCTTTATATTTTGATTC
Found at i:25707 original size:22 final size:22
Alignment explanation
Indices: 25682--25733 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
25672 TTTATTAATT
*
25682 TTTTATTTTCCTTTTTATTTTA
1 TTTTATTTACCTTTTTATTTTA
* *
25704 TTTT-TTCTACGTTTTTCTTTTA
1 TTTTATT-TACCTTTTTATTTTA
25726 -TTTATTTA
1 TTTTATTTA
25734 AAATTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.13, C:0.10, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTATTTACCTTTTTATTTTA
Found at i:26062 original size:12 final size:12
Alignment explanation
Indices: 26045--26075 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
26035 ATTCAAGTCA
26045 AAGCCCAATTCC
1 AAGCCCAATTCC
26057 AAGCCCAATTCC
1 AAGCCCAATTCC
*
26069 GAGCCCA
1 AAGCCCA
26076 GCCGAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.42, G:0.13, T:0.13
Consensus pattern (12 bp):
AAGCCCAATTCC
Found at i:29628 original size:31 final size:31
Alignment explanation
Indices: 29592--29650 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
29582 AACTTAAAAG
* *
29592 AGTTTTGCAATATTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
29623 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
29651 CCATACAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:29702 original size:22 final size:22
Alignment explanation
Indices: 29674--30147 Score: 553
Period size: 22 Copynumber: 21.6 Consensus size: 22
29664 ATAATAATTT
*
29674 TTTTAAAATAAAACAATTCATA
1 TTTTAAAATAAATCAATTCATA
29696 TTTTAAAATAAATCAATAT-ATA
1 TTTTAAAATAAATCAAT-TCATA
*
29718 TTTAAAAATAAATCAA-TC-TA
1 TTTTAAAATAAATCAATTCATA
29738 TATTTAAAATAAATCAA-TCTATA
1 T-TTTAAAATAAATCAATTC-ATA
***
29761 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATTCATA
*
29783 TTTTAAAATAAGTCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
***
29805 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATTCATA
*
29827 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
29849 TTTTTTAAAATAAATCAATCCATA
1 --TTTTAAAATAAATCAATTCATA
*
29873 TTTTAAAATAAAT-TATTCCATA
1 TTTTAAAATAAATCAATT-CATA
29895 TTTTAAAATAAATC-ATTCCATA
1 TTTTAAAATAAATCAATT-CATA
29917 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
**
29939 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATTCATA
*
29961 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
29983 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
30005 TTTT-AAATAAAT--TTTCCATA
1 TTTTAAAATAAATCAATT-CATA
30025 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
**
30047 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATTCATA
30069 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
*
30091 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
30113 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
30135 TTTTAAAATAAAT
1 TTTTAAAATAAAT
30148 TTTAAAATAG
Statistics
Matches: 394, Mismatches: 34, Indels: 48
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.00
20 12 0.03
21 46 0.12
22 292 0.74
23 21 0.05
24 22 0.06
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:29767 original size:17 final size:18
Alignment explanation
Indices: 29725--29767 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
29715 ATATTTAAAA
29725 ATAAATCAATCTATATTT
1 ATAAATCAATCTATATTT
29743 AAAATAAATCAATCTATATTT
1 ---ATAAATCAATCTATATTT
29764 -TAAA
1 ATAAA
29768 ATAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
21 18 0.82
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATCAATCTATATTT
Found at i:29828 original size:66 final size:66
Alignment explanation
Indices: 29690--30150 Score: 610
Period size: 66 Copynumber: 7.0 Consensus size: 66
29680 AATAAAACAA
** * *
29690 TTCATATTTTAAAATAAATCAATATATATTTAAAAATAAATCAATCTATA-TTTAAAATAAA-TC
1 TTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTT
*
29753 A
66 T
* *** * *
29754 ATCTATATTTTAAAATAAATTTTTTCATATTTTAAAATAAGTCAATCTATATTTTAAAATAAATT
1 TTC-ATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATT
29819 TT
65 TT
*
29821 TTCATATTTTAAAATAAATCAATCCATATTTTTTAAAATAAATCAATCCATATTTTAAAATAAAT
1 TTCATATTTTAAAATAAATCAATCCATA--TTTTAAAATAAATCAATCTATATTTTAAAATAAAT
*
29886 TAT
64 TTT
* * *
29889 TCCATATTTTAAAATAAATCATTCCATATTTTAAAATAAATCAAT-TCATATTTTAAAATAAAAT
1 TTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCT-ATATTTTAAAATAAATT
29953 TT
65 TT
*
29955 TTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTT-AAATAAA-TT
1 TTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTT
30018 T
66 T
* * *** *
30019 TCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAAATTTTTC-ATATTTTAAAATAAATC
1 TTCATATTTTAAAATAAATCAATCCATATTTTAAAAT-AAATCAATCTATATTTTAAAATAAATT
**
30083 AA
65 TT
30085 TTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTT
1 TTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTT
30150 T
66 T
30151 AAAATAGATT
Statistics
Matches: 344, Mismatches: 42, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
64 47 0.14
65 66 0.19
66 167 0.49
67 3 0.01
68 61 0.18
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (66 bp):
TTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTT
T
Found at i:33204 original size:20 final size:20
Alignment explanation
Indices: 33168--33205 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33158 TTATTAAATA
*
33168 ATTTAAAATATTTTATTTTC
1 ATTTAAAATATTATATTTTC
33188 ATTTAAAA-ATATATATTT
1 ATTTAAAATAT-TATATTT
33206 AATGTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTAAAATATTATATTTTC
Found at i:40225 original size:25 final size:26
Alignment explanation
Indices: 40171--40218 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
40161 CCAGTAAAAG
*
40171 AATAATTTTAACTTTTAAAATAATTT
1 AATAATTTTAACTTTTAAAATAATTA
40197 AATAA-TTTAA-TTTTAAAA-AATT
1 AATAATTTTAACTTTTAAAATAATT
40219 CAAAATATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.18
24 8 0.36
25 5 0.23
26 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATAATTTTAACTTTTAAAATAATTA
Found at i:40231 original size:25 final size:25
Alignment explanation
Indices: 40177--40223 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
40167 AAAGAATAAT
* *
40177 TTTAACTTTTAAAATAATTTAATAA
1 TTTAACTTTTAAAATAATTCAAAAA
40202 TTTAA-TTTTAAAA-AATTCAAAA
1 TTTAACTTTTAAAATAATTCAAAA
40224 TATCTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 8 0.40
25 5 0.25
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTAACTTTTAAAATAATTCAAAAA
Found at i:40719 original size:103 final size:102
Alignment explanation
Indices: 40593--40799 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 102
40583 AGTGTCAACC
40593 GGAATGGCTTTGAATCAGCCTCGCCAAGTTGAGAATAGCAGAATGACCACAATAGCTGCAAAATG
1 GGAATGGCTTTGAATCAGCCTCGCCAAGTTGAGAATAGCAGAATGACCACAATAGCTGCAAAATG
*
40658 ACAAAATGAAATGGAAGTAATAAACCAAATCAGATAGG
66 AAAAAATGAAATGGAAGTAATAAACC-AATCAGATAGG
*
40696 GGAATGGCTTTGAATCAGCCTCGCCAAGTTGAGAATAGCAGAATGACCACAGTAGCTGCAAAATG
1 GGAATGGCTTTGAATCAGCCTCGCCAAGTTGAGAATAGCAGAATGACCACAATAGCTGCAAAATG
40761 AAAAAATGAAATGGAAGTAATAAACCAATCAGATAGG
66 AAAAAATGAAATGGAAGTAATAAACCAATCAGATAGG
40798 GG
1 GG
40800 CAACACTAAG
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
102 13 0.13
103 89 0.87
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (102 bp):
GGAATGGCTTTGAATCAGCCTCGCCAAGTTGAGAATAGCAGAATGACCACAATAGCTGCAAAATG
AAAAAATGAAATGGAAGTAATAAACCAATCAGATAGG
Found at i:42972 original size:122 final size:122
Alignment explanation
Indices: 42755--42998 Score: 488
Period size: 122 Copynumber: 2.0 Consensus size: 122
42745 AGAAAGCATC
42755 ATTCTAACCTGCCAGAAAATAAAGTTGGTGCTAACAGTTTGAGAAACTGCTTCATTTCCCCATGT
1 ATTCTAACCTGCCAGAAAATAAAGTTGGTGCTAACAGTTTGAGAAACTGCTTCATTTCCCCATGT
42820 ATCTCGATTAAGCTTCAAAAACACATACAGCATCAGAATATATGATTACATTATAAG
66 ATCTCGATTAAGCTTCAAAAACACATACAGCATCAGAATATATGATTACATTATAAG
42877 ATTCTAACCTGCCAGAAAATAAAGTTGGTGCTAACAGTTTGAGAAACTGCTTCATTTCCCCATGT
1 ATTCTAACCTGCCAGAAAATAAAGTTGGTGCTAACAGTTTGAGAAACTGCTTCATTTCCCCATGT
42942 ATCTCGATTAAGCTTCAAAAACACATACAGCATCAGAATATATGATTACATTATAAG
66 ATCTCGATTAAGCTTCAAAAACACATACAGCATCAGAATATATGATTACATTATAAG
42999 CCAGTTCAAA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (122 bp):
ATTCTAACCTGCCAGAAAATAAAGTTGGTGCTAACAGTTTGAGAAACTGCTTCATTTCCCCATGT
ATCTCGATTAAGCTTCAAAAACACATACAGCATCAGAATATATGATTACATTATAAG
Found at i:46153 original size:30 final size:30
Alignment explanation
Indices: 46111--46214 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 30
46101 ATAAAATAAT
* *
46111 TAAATTAT-AATTTAATTCTTAAAATTTACA
1 TAAACTATCAATTTAA-TCTTAAATTTTACA
* *
46141 TAAA-TATCAATTTGATCTTAAATTTTATA
1 TAAACTATCAATTTAATCTTAAATTTTACA
* *
46170 TAAAAT-TCTAATTTAATCTCTAAATTTTAGA
1 TAAACTATC-AATTTAATCT-TAAATTTTACA
*
46201 TAAACTATTAATTT
1 TAAACTATCAATTT
46215 GACTTTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
29 21 0.34
30 20 0.32
31 20 0.32
32 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (30 bp):
TAAACTATCAATTTAATCTTAAATTTTACA
Found at i:46213 original size:31 final size:30
Alignment explanation
Indices: 46118--46214 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
46108 AATTAAATTA
*
46118 TAATTTAAT-TCTTAAAATTTACATAAATAT
1 TAATTTAATCTC-TAAATTTTACATAAATAT
* * *
46148 CAATTTGATCT-TAAATTTTATATAAA-ATT
1 TAATTTAATCTCTAAATTTTACATAAATA-T
*
46177 CTAATTTAATCTCTAAATTTTAGATAAACTAT
1 -TAATTTAATCTCTAAATTTTACATAAA-TAT
46209 TAATTT
1 TAATTT
46215 GACTTTTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
28 1 0.02
29 14 0.26
30 16 0.30
31 21 0.39
32 1 0.02
33 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.47
Consensus pattern (30 bp):
TAATTTAATCTCTAAATTTTACATAAATAT
Found at i:46225 original size:31 final size:29
Alignment explanation
Indices: 46118--46225 Score: 83
Period size: 31 Copynumber: 3.6 Consensus size: 29
46108 AATTAAATTA
* *
46118 TAATTTAATTCTTAAAATTTACATAAATAT
1 TAATTTGATT-TTAAATTTTACATAAATAT
* * *
46148 CAATTTGATCTTAAATTTTATATAAA-ATT
1 TAATTTGATTTTAAATTTTACATAAATA-T
* * *
46177 CTAATTTAATCTCTAAATTTTAGATAAACTAT
1 -TAATTTGAT-TTTAAATTTTACATAAA-TAT
46209 TAATTTGACTTTTAAAT
1 TAATTTGA-TTTTAAAT
46226 CTAGTCAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
28 1 0.02
29 15 0.25
30 14 0.23
31 27 0.45
32 2 0.03
33 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (29 bp):
TAATTTGATTTTAAATTTTACATAAATAT
Found at i:47401 original size:30 final size:30
Alignment explanation
Indices: 47367--47434 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
47357 TTATTTTAAA
*
47367 GATAAAATTACCACTTAAACTTTAAGTAAG
1 GATAAAATTACCACTTAAACTTTAAATAAG
*
47397 GATAAAATTTCCACTTAAACTTTAAATAAG
1 GATAAAATTACCACTTAAACTTTAAATAAG
*
47427 GGTAAAAT
1 GATAAAAT
47435 AATATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (30 bp):
GATAAAATTACCACTTAAACTTTAAATAAG
Found at i:47595 original size:2 final size:2
Alignment explanation
Indices: 47588--47634 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
47578 TAATAATTTA
* * * *
47588 AT AT AT AT AT AT AT AT AT AC AT AT -T AT AT GT AT GT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47629 AT AT AT
1 AT AT AT
47635 TTTATTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:49653 original size:22 final size:22
Alignment explanation
Indices: 49603--49655 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
49593 AACAATGTCG
*
49603 TGAACAGTAATGAATAGTACCA
1 TGAACAGTAATGAACAGTACCA
* * * *
49625 TGTACAGTAGTGAACATTACTA
1 TGAACAGTAATGAACAGTACCA
49647 TGAACAGTA
1 TGAACAGTA
49656 CCGAATGTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (22 bp):
TGAACAGTAATGAACAGTACCA
Found at i:50690 original size:31 final size:30
Alignment explanation
Indices: 50618--50694 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
50608 CCATAGGACC
* * *
50618 CGAAAAACCTAGGTAAATTGTCCATATGTT
1 CGAAAGACATAGGTAAACTGTCCATATGTT
***
50648 CCTTAGAACATAGGTAAACTGTCCATATGTCT
1 CGAAAG-ACATAGGTAAACTGTCCATATGT-T
50680 CGAAAGACATAGGTA
1 CGAAAGACATAGGTA
50695 GCCCTCGACT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
30 2 0.06
31 30 0.83
32 4 0.11
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (30 bp):
CGAAAGACATAGGTAAACTGTCCATATGTT
Found at i:52511 original size:30 final size:30
Alignment explanation
Indices: 52489--52547 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
52479 GGTCCTTGAA
*
52489 CTTT-TCAAAGTTTATACTTTGGTCACTAAT
1 CTTTATCAAA-TTTATAATTTGGTCACTAAT
52519 CTTTATCAAATTTATAATTTGGTCACTAA
1 CTTTATCAAATTTATAATTTGGTCACTAA
52548 ATACATCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (30 bp):
CTTTATCAAATTTATAATTTGGTCACTAAT
Found at i:59276 original size:21 final size:19
Alignment explanation
Indices: 59247--59288 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
59237 AAATGGAAAA
59247 AAATCTTAATATATTATTAAT
1 AAATCTT-A-ATATTATTAAT
*
59268 AAATGTTAATATTATTAAT
1 AAATCTTAATATTATTAAT
59287 AA
1 AA
59289 TTTATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 1 0.05
21 6 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
AAATCTTAATATTATTAAT
Found at i:65836 original size:23 final size:23
Alignment explanation
Indices: 65795--65840 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
65785 TTTGATTTAG
*
65795 TAAAATAGTGTCGACTGATTCAA
1 TAAAATAGTGTCGAATGATTCAA
65818 TAAAATAGTG-CTGAATGATTCAA
1 TAAAATAGTGTC-GAATGATTCAA
65841 CACAGAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (23 bp):
TAAAATAGTGTCGAATGATTCAA
Found at i:68919 original size:19 final size:19
Alignment explanation
Indices: 68895--68953 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
68885 GATTCAAGAA
68895 GTATCGATACCGAAAGGGG
1 GTATCGATACCGAAAGGGG
68914 GTATCGATA-C---A----
1 GTATCGATACCGAAAGGGG
68925 GTATCGATACCGAAAGGGG
1 GTATCGATACCGAAAGGGG
68944 GTATCGATAC
1 GTATCGATAC
68954 TGTGCGGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 16
0.67 0.00 0.33
Matches are distributed among these distances:
11 9 0.28
12 1 0.03
15 2 0.06
18 1 0.03
19 19 0.59
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.20
Consensus pattern (19 bp):
GTATCGATACCGAAAGGGG
Found at i:68930 original size:30 final size:30
Alignment explanation
Indices: 68894--68953 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
68884 TGATTCAAGA
68894 AGTATCGATACCGAAAGGGGGTATCGATAC
1 AGTATCGATACCGAAAGGGGGTATCGATAC
68924 AGTATCGATACCGAAAGGGGGTATCGATAC
1 AGTATCGATACCGAAAGGGGGTATCGATAC
68954 TGTGCGGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (30 bp):
AGTATCGATACCGAAAGGGGGTATCGATAC
Found at i:69446 original size:55 final size:55
Alignment explanation
Indices: 69383--69778 Score: 472
Period size: 55 Copynumber: 7.2 Consensus size: 55
69373 GTATATCAGT
* * *
69383 ACTATGTGTGTAAATCCACGGAATTCATCATAAGTTGATGAATAATCGTACATGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATAACCGTACATGC
69438 ACTATGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATAACCGTACATGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATAACCGTACATGC
* * * * *
69493 ACTATGTGTGCAAATCCACGGAATTTATCATGAGTTGATGAAGAACCGAACATAC
1 ACTATGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATAACCGTACATGC
** *
69548 ACTATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGTACATGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATAACCGTACATGC
** * * * * *
69603 TTTATGTGTGTAAATCCACGAAATTCATTATTAGTTGATGAATAACCGTACAGGT
1 ACTATGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATAACCGTACATGC
* ** * *
69658 ACTATGTGTGTAAATCCACATAATTCATTATTAGTTGATGAATAACCGTACAGGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATAACCGTACATGC
* * * ** * * * *
69713 ACGATGTGCGC-AACCCACATAATTCATCATAAGTCGATGAACT-ACTGTACAGGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAA-TAACCGTACATGC
*
69767 ACTACGTGTGCA
1 ACTATGTGTGCA
69779 TCTTAATAAA
Statistics
Matches: 301, Mismatches: 38, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
54 44 0.15
55 257 0.85
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (55 bp):
ACTATGTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATAACCGTACATGC
Found at i:70943 original size:24 final size:25
Alignment explanation
Indices: 70897--70945 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
70887 TTAAGAATCC
*
70897 CTTTAAAAACATTACTTAATTTTTA
1 CTTTAAAAACATTAATTAATTTTTA
* *
70922 CTTTAAAAATA-TAATTACTTTTTA
1 CTTTAAAAACATTAATTAATTTTTA
70946 TATAGCTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (25 bp):
CTTTAAAAACATTAATTAATTTTTA
Found at i:70987 original size:76 final size:75
Alignment explanation
Indices: 70894--71037 Score: 261
Period size: 76 Copynumber: 1.9 Consensus size: 75
70884 TTCTTAAGAA
*
70894 TCCCTTTAAAAACATTACTTAATTTTTACTTTAAAAATATAATTACTTTTTATATAGCTTTAAAA
1 TCCCTTTAAAAACATTACTTAATTTTTACTTTAAAAATATAATTACTTTTTATAGAGCTTTAAAA
70959 TTTAACGACG
66 TTTAACGACG
*
70969 TCCCTTTTAAAAACATTACTTAATTTTTACTTTAAAAATATAATTATTTTTTATAGAGCTTTAAA
1 TCCC-TTTAAAAACATTACTTAATTTTTACTTTAAAAATATAATTACTTTTTATAGAGCTTTAAA
71034 ATTT
65 ATTT
71038 GTCTTATCTT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 4 0.06
76 62 0.94
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (75 bp):
TCCCTTTAAAAACATTACTTAATTTTTACTTTAAAAATATAATTACTTTTTATAGAGCTTTAAAA
TTTAACGACG
Found at i:71019 original size:24 final size:25
Alignment explanation
Indices: 70974--71021 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
70964 CGACGTCCCT
*
70974 TTTAAAAACATTACTTAATTTTTAC
1 TTTAAAAACATTAATTAATTTTTAC
* *
70999 TTTAAAAATA-TAATTATTTTTTA
1 TTTAAAAACATTAATTAATTTTTA
71022 TAGAGCTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTAAAAACATTAATTAATTTTTAC
Found at i:71725 original size:28 final size:28
Alignment explanation
Indices: 71693--71747 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
71683 TTACATCATG
71693 TTGTCAAACTAATGCTTGAAATATTATA
1 TTGTCAAACTAATGCTTGAAATATTATA
* ** *
71721 TTGTCGAGTTAATGCTTGAAATGTTAT
1 TTGTCAAACTAATGCTTGAAATATTAT
71748 GTCATTGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (28 bp):
TTGTCAAACTAATGCTTGAAATATTATA
Found at i:72347 original size:18 final size:18
Alignment explanation
Indices: 72324--72358 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
72314 GTAAGGTTAT
72324 AATAGATTTTTTTATTAC
1 AATAGATTTTTTTATTAC
72342 AATAGATTTTTTTATTA
1 AATAGATTTTTTTATTA
72359 TATACTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
AATAGATTTTTTTATTAC
Found at i:74173 original size:20 final size:21
Alignment explanation
Indices: 74148--74199 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
74138 TTTTCCCAAT
74148 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGTAAA
* **
74168 TCGCAACGCGAATTGGGTAAA
1 TCGCAATGCGAATTAAGTAAA
74189 TCGCAATGCGA
1 TCGCAATGCGA
74200 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGTAAA
Found at i:74213 original size:20 final size:20
Alignment explanation
Indices: 74188--74281 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
74178 AATTGGGTAA
74188 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
74208 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
74228 ATCACAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
74249 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
74269 TTCGCAACGCGAT
1 ATCGCAATGCGAT
74282 TTACATAGCG
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.73
21 12 0.20
22 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:74848 original size:19 final size:19
Alignment explanation
Indices: 74803--74850 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
74793 TTCGAGAATG
*
74803 AAAATCGCAACGCGGAAAT
1 AAAATCGCAACGCGGAAAC
*
74822 AACTATCGCAACGC-GAAACC
1 AA-AATCGCAACGCGGAAA-C
74842 AAAATCGCA
1 AAAATCGCA
74851 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGGAAAC
Found at i:74873 original size:19 final size:19
Alignment explanation
Indices: 74846--74991 Score: 96
Period size: 19 Copynumber: 8.1 Consensus size: 19
74836 GAAACCAAAA
*
74846 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
74865 TTGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
74884 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
74898 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
74917 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
74931 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
74950 TCCGCGTTGTGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
74970 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
74990 TC
1 TC
74992 AACCAAAAGA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
14 19 0.20
16 4 0.04
17 5 0.05
19 39 0.40
20 29 0.30
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:74916 original size:33 final size:33
Alignment explanation
Indices: 74879--74966 Score: 149
Period size: 33 Copynumber: 2.6 Consensus size: 33
74869 GTTGCGATTT
74879 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
74912 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
74945 TCATTTCCGCGTTGTGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
74967 ATTATCTCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 38 0.73
34 14 0.27
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:74968 original size:20 final size:20
Alignment explanation
Indices: 74934--74991 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
74924 GCGATTCTCT
**
74934 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
* *
74954 CGTTGTGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
74974 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
74992 AACCAAAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:77151 original size:42 final size:42
Alignment explanation
Indices: 77075--77240 Score: 206
Period size: 42 Copynumber: 4.0 Consensus size: 42
77065 GACTCGCCTG
* *
77075 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTGAAGAGGCCCCTA
* * * * * *
77117 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTGAAGAGGCCCCTA
* *
77159 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTGAAGAGGCCCCTA
* * * *
77201 TCATTCCTCGAGAGTCCCCTCCCACCGTTTAAGAGGCCCC
1 TCATCCCTCAAGAGTCCACTCCCACCGTTGAAGAGGCCCC
77241 GATTCACATA
Statistics
Matches: 102, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 102 1.00
ACGTcount: A:0.21, C:0.39, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTGAAGAGGCCCCTA
Found at i:77213 original size:84 final size:84
Alignment explanation
Indices: 77072--77238 Score: 325
Period size: 84 Copynumber: 2.0 Consensus size: 84
77062 CCCGACTCGC
77072 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
77137 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
77156 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
77221 CCCACCGTTTAAGAGGCC
66 CCCACCGTTCAAGAGGCC
77239 CCGATTCACA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:78615 original size:14 final size:14
Alignment explanation
Indices: 78596--78631 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
78586 ATTGTTTAAT
78596 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
78610 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
78624 TGATTTGT
1 TGATTTGT
78632 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:78762 original size:19 final size:19
Alignment explanation
Indices: 78738--78784 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
78728 AAAAAGTACT
*
78738 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
78757 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
78776 ATCGCAACG
1 ATCGCAACG
78785 AGAGAATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:78837 original size:19 final size:19
Alignment explanation
Indices: 78809--78930 Score: 76
Period size: 19 Copynumber: 7.2 Consensus size: 19
78799 GGAAATTAAA
*
78809 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
78828 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
78844 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
78861 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
78875 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
78894 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
78910 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
78927 TTCG
1 TTCG
78931 ATAGTAATTT
Statistics
Matches: 77, Mismatches: 13, Indels: 28
0.65 0.11 0.24
Matches are distributed among these distances:
14 23 0.30
16 13 0.17
17 13 0.17
19 28 0.36
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:78855 original size:33 final size:32
Alignment explanation
Indices: 78813--78930 Score: 175
Period size: 33 Copynumber: 3.6 Consensus size: 32
78803 ATTAAATTCG
78813 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
78846 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
78879 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
78912 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
78931 ATAGTAATTT
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
31 3 0.04
33 71 0.92
35 3 0.04
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:78889 original size:66 final size:66
Alignment explanation
Indices: 78806--78930 Score: 232
Period size: 66 Copynumber: 1.9 Consensus size: 66
78796 ACGGGAAATT
*
78806 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
78871 G
66 G
*
78872 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCG
78931 ATAGTAATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:82287 original size:20 final size:21
Alignment explanation
Indices: 82262--82313 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
82252 TTTTCCTAAT
*
82262 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
82282 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
82303 TCGCAATGCGA
1 TCGCAATGCGA
82314 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:82387 original size:20 final size:20
Alignment explanation
Indices: 82298--82389 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
82288 TGCGAATTTG
* *
82298 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
82318 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* * *
82338 ACAAAATCGTAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
82359 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
82379 GAAAATCGCAA
1 GAAAATCGCAA
82390 TCATCTTCAA
Statistics
Matches: 52, Mismatches: 19, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
20 38 0.73
21 14 0.27
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:82678 original size:20 final size:20
Alignment explanation
Indices: 82603--82670 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
82593 CAACGGGGAA
82603 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
82623 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
82643 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
82663 ATCGCAAC
1 ATCGCAAC
82671 TAGAAAATCG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:82682 original size:34 final size:34
Alignment explanation
Indices: 82587--82690 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 34
82577 ATTCATTTGA
** *
82587 CTATCGCAACGGGGAAATCGCAACGCGAAAATGG
1 CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
82621 CTATCGCAATTCGAAATGAAAAATCGCAACGCGAAAATGG
1 CTATCGCAA--C--AA-G-AAAATCGCAACGCGAAAATGG
* *
82661 CTATCGCAACTAGAAAATCGCAATGCGAAA
1 CTATCGCAACAAGAAAATCGCAACGCGAAA
82691 TGAAAATCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
34 25 0.42
35 1 0.02
36 2 0.03
38 1 0.02
39 1 0.02
40 29 0.49
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (34 bp):
CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
Found at i:82721 original size:14 final size:14
Alignment explanation
Indices: 82702--82755 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
82692 GAAAATCGCA
82702 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
82716 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
82733 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
82749 TTGCGAT
1 TTGCGAT
82756 AGTCAGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:82721 original size:33 final size:33
Alignment explanation
Indices: 82684--82754 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
82674 AAAATCGCAA
82684 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
82717 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
82750 TGCGA
1 TGCGA
82755 TAGTCAGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:82901 original size:14 final size:14
Alignment explanation
Indices: 82882--82918 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
82872 CATCAATTAA
82882 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
82896 ACAAATCATCTTTT
1 ACAAATCAACATTT
82910 ACAAATCAA
1 ACAAATCAA
82919 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:84383 original size:41 final size:42
Alignment explanation
Indices: 84338--84419 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
84328 CTTCAACGAT
* *
84338 GATAGTGACCTCTTGAACG-GTGGGGGGGACTCTTGAGGGAG
1 GATAGGGACCTCTTGAACGAGTGGAGGGGACTCTTGAGGGAG
* *
84379 GATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGA
1 GATAGGGACCTCTTGAACGAGTGGAGGGGACTCTTGAGGGA
84420 TGACAGGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 17 0.47
42 19 0.53
ACGTcount: A:0.21, C:0.15, G:0.43, T:0.22
Consensus pattern (42 bp):
GATAGGGACCTCTTGAACGAGTGGAGGGGACTCTTGAGGGAG
Found at i:84811 original size:20 final size:19
Alignment explanation
Indices: 84788--84855 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
84778 GAAACTTAAA
84788 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
84808 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
84828 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
84847 ATCGCAACG
1 ATCGCAACG
84856 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:84863 original size:14 final size:14
Alignment explanation
Indices: 84844--84901 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
84834 ATGCGAAATG
84844 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
84858 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
84874 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
84890 AAAATCGCAACG
1 AAAATCGCAACG
84902 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:84886 original size:32 final size:33
Alignment explanation
Indices: 84828--84906 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
84818 GGAAATGGCT
84828 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
84861 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
84893 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
84907 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 29 0.64
33 16 0.36
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:84935 original size:19 final size:19
Alignment explanation
Indices: 84913--84994 Score: 86
Period size: 18 Copynumber: 4.6 Consensus size: 19
84903 GAAACACAAA
84913 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
84932 TCGCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
* *
84950 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
84966 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
84983 TTGCATTGCGAT
1 TCGCATTGCGAT
84995 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.11
15 3 0.06
16 4 0.07
17 3 0.06
18 21 0.39
19 17 0.31
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:85013 original size:20 final size:20
Alignment explanation
Indices: 84988--85033 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
84978 TCATTTTGCA
84988 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
85008 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
85028 TTGCGA
1 TTGCGA
85034 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:85541 original size:18 final size:18
Alignment explanation
Indices: 85515--85559 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
85505 GTCGATCAGA
*
85515 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
85533 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
85551 TGATGGCTC
1 TGATGGCTC
85560 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:86927 original size:20 final size:20
Alignment explanation
Indices: 86879--86937 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
86869 AATAGTTTCT
**
86879 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACAC
*
86899 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACAC
**
86919 GAATTTGACTATCGCAACA
1 GAAAATGACTATCGCAACA
86938 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:87457 original size:20 final size:20
Alignment explanation
Indices: 87432--87481 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
87422 ATTATGTATT
87432 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
87452 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
87472 ATCTCGTTGC
1 ATCGCGTTGC
87482 AATTTTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:87517 original size:20 final size:20
Alignment explanation
Indices: 87492--87545 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
87482 AATTTTGTAT
87492 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
87512 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
87532 TATCGCATTGCGAT
1 TATCGCATTGCGAT
87546 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:87548 original size:61 final size:61
Alignment explanation
Indices: 87411--87548 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
87401 CGCTTTGAAA
* * * *
87411 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * * *
87472 ATCTCGTTGCAATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
87533 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
87549 CCCAATTCGC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:87564 original size:61 final size:61
Alignment explanation
Indices: 87431--87566 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 61
87421 GATTATGTAT
* * * * * ** *
87431 TATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCAATTTTGTAT
1 TATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTCCAA
* * * *
87492 TATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTT-CCAA
87554 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
87567 TTACTTATTC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
TATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTCCAA
Found at i:87656 original size:21 final size:21
Alignment explanation
Indices: 87616--87656 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
87606 ACTGTAGACC
**
87616 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
87637 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
87657 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:90654 original size:27 final size:27
Alignment explanation
Indices: 90616--90707 Score: 175
Period size: 27 Copynumber: 3.4 Consensus size: 27
90606 ATCAAAGAAC
90616 CAATCAACAAATTATTCAGGAAAACGT
1 CAATCAACAAATTATTCAGGAAAACGT
90643 CAATCAACAAATTATTCAGGAAAACGT
1 CAATCAACAAATTATTCAGGAAAACGT
*
90670 CAATCAACAAATTATGCAGGAAAACGT
1 CAATCAACAAATTATTCAGGAAAACGT
90697 CAATCAACAAA
1 CAATCAACAAA
90708 CACCCAATGG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.50, C:0.20, G:0.11, T:0.20
Consensus pattern (27 bp):
CAATCAACAAATTATTCAGGAAAACGT
Found at i:93043 original size:87 final size:87
Alignment explanation
Indices: 92897--93145 Score: 437
Period size: 87 Copynumber: 2.9 Consensus size: 87
92887 ATGTTATATT
*
92897 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGATA
1 ATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGATA
92962 GCGCTTATATAATAAAATAGGC
66 GCGCTTATATAATAAAATAGGC
*
92984 ATTTAACGGGAAATATTATCAAGTACAATAACATATTAGATAACGCTTATATAATGTAATAGATA
1 ATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGATA
*
93049 GCGCTTATATAATAAAATAGGT
66 GCGCTTATATAATAAAATAGGC
* *
93071 ATTTAACGGAAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATATG-T
1 ATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATA-GAT
93135 AGCGCTTATAT
65 AGCGCTTATAT
93146 TGACCTATTT
Statistics
Matches: 155, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
87 154 0.99
88 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (87 bp):
ATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGATA
GCGCTTATATAATAAAATAGGC
Found at i:93067 original size:23 final size:23
Alignment explanation
Indices: 93020--93068 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
93010 AATAACATAT
**
93020 TAGATAACGCTTATATAATGTAA
1 TAGATAACGCTTATATAATAAAA
*
93043 TAGATAGCGCTTATATAATAAAA
1 TAGATAACGCTTATATAATAAAA
93066 TAG
1 TAG
93069 GTATTTAACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (23 bp):
TAGATAACGCTTATATAATAAAA
Found at i:96698 original size:200 final size:200
Alignment explanation
Indices: 96344--96774 Score: 774
Period size: 200 Copynumber: 2.2 Consensus size: 200
96334 AAGCCTAATT
96344 TGGATCGACAC-TTATTGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAA
1 TGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAA
* * * *
96408 CTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCTGTATACTTGTACCGGTT
66 CTAAAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGATT
96473 AGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTT
131 AGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTT
96538 ATATA
196 ATATA
*
96543 TGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAA
1 TGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAA
*
96608 CTAAAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTATCGATT
66 CTAAAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGATT
* *
96673 AGATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTT
131 AGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTT
96738 ATATA
196 ATATA
*
96743 TGGATCGACACTTTATGGTTGCACCCTGTTTG
1 TGGATCGACACTTTATTGTTGCACCCTGTTTG
96775 TCATATTGTA
Statistics
Matches: 222, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
199 11 0.05
200 211 0.95
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (200 bp):
TGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAA
CTAAAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGATT
AGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTT
ATATA
Found at i:97005 original size:18 final size:18
Alignment explanation
Indices: 96982--97042 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
96972 TCTCATTCAT
*
96982 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
97000 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
97019 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
97038 AATTA
1 AATTA
97043 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:97018 original size:19 final size:19
Alignment explanation
Indices: 96994--97042 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
96984 TTATATTCAC
96994 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
97013 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
97032 ATACAAAATTA
1 ATACAAAATTA
97043 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:98876 original size:33 final size:33
Alignment explanation
Indices: 98839--98904 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
98829 CATCTTAATA
*
98839 TCACCCCTTAACACCCCAAATTCTTTCACCACT
1 TCACCCCTCAACACCCCAAATTCTTTCACCACT
* * *
98872 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAAATTCTTTCACCACT
98905 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAAATTCTTTCACCACT
Found at i:98963 original size:21 final size:21
Alignment explanation
Indices: 98938--99002 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
98928 CCCCTTATGC
* *
98938 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
98959 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
98980 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
99001 CT
1 CT
99003 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:105087 original size:40 final size:40
Alignment explanation
Indices: 105032--105110 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
105022 TCCAATAGTT
105032 CAAATATGATCAACTAGAGAACAACCAACCATTACATCAC
1 CAAATATGATCAACTAGAGAACAACCAACCATTACATCAC
105072 CAAATATGATCAACTAGAGAACAACCAACCATTACATCA
1 CAAATATGATCAACTAGAGAACAACCAACCATTACATCA
105111 ACTAGGGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.48, C:0.27, G:0.08, T:0.18
Consensus pattern (40 bp):
CAAATATGATCAACTAGAGAACAACCAACCATTACATCAC
Found at i:109194 original size:12 final size:12
Alignment explanation
Indices: 109179--109209 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
109169 ATTCCACTTA
109179 AATGGCAGCAAT
1 AATGGCAGCAAT
109191 AATGGCAGCAAT
1 AATGGCAGCAAT
109203 AATGGCA
1 AATGGCA
109210 TCACACAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (12 bp):
AATGGCAGCAAT
Found at i:113505 original size:27 final size:27
Alignment explanation
Indices: 113473--113538 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
113463 TATGAGTCTG
*
113473 AAAATCTATTTTATTTCGAATACTGAT
1 AAAATCTATTTTATTTCGAACACTGAT
*
113500 AAAATCGATTTTATTTCGAACACTGAT
1 AAAATCTATTTTATTTCGAACACTGAT
* *
113527 AAATTTTATTTT
1 AAAATCTATTTT
113539 GTACTCATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
AAAATCTATTTTATTTCGAACACTGAT
Found at i:119701 original size:12 final size:12
Alignment explanation
Indices: 119684--119708 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
119674 ACTGTTCATG
119684 TGGTACCGATAC
1 TGGTACCGATAC
119696 TGGTACCGATAC
1 TGGTACCGATAC
119708 T
1 T
119709 AATGGCCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TGGTACCGATAC
Found at i:122888 original size:18 final size:18
Alignment explanation
Indices: 122849--122889 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
122839 TCATCAATAG
122849 AAAA-TATAAAAAATATT
1 AAAATTATAAAAAATATT
*
122866 TAAATTATATAAAAAT-TT
1 AAAATTATA-AAAAATATT
122884 AAAATT
1 AAAATT
122890 TTCACGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTATAAAAAATATT
Found at i:123856 original size:2 final size:2
Alignment explanation
Indices: 123849--123891 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
123839 AAATTTATTA
123849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123891 A
1 A
123892 ATTATTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123986 original size:30 final size:30
Alignment explanation
Indices: 123946--124082 Score: 211
Period size: 30 Copynumber: 4.6 Consensus size: 30
123936 ACCAAACCCG
*
123946 TCCCCGTCCCCGTTTAACATAAATGGTTTT
1 TCCCCGTCCCCGTTTAACATAAACGGTTTT
* * *
123976 TCCCCATCCCCGTTTAGCATAAACAGTTTT
1 TCCCCGTCCCCGTTTAACATAAACGGTTTT
*
124006 TCCCCGTCCCCGTTTAACATAAATGGTTTT
1 TCCCCGTCCCCGTTTAACATAAACGGTTTT
* *
124036 TCCCCATCCCCGTTTAGCATAAACGGTTTT
1 TCCCCGTCCCCGTTTAACATAAACGGTTTT
124066 TCCCCGTCCCCGTTTAA
1 TCCCCGTCCCCGTTTAA
124083 TTCAGTTTTC
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 94 1.00
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (30 bp):
TCCCCGTCCCCGTTTAACATAAACGGTTTT
Found at i:124019 original size:60 final size:60
Alignment explanation
Indices: 123946--124082 Score: 265
Period size: 60 Copynumber: 2.3 Consensus size: 60
123936 ACCAAACCCG
123946 TCCCCGTCCCCGTTTAACATAAATGGTTTTTCCCCATCCCCGTTTAGCATAAACAGTTTT
1 TCCCCGTCCCCGTTTAACATAAATGGTTTTTCCCCATCCCCGTTTAGCATAAACAGTTTT
*
124006 TCCCCGTCCCCGTTTAACATAAATGGTTTTTCCCCATCCCCGTTTAGCATAAACGGTTTT
1 TCCCCGTCCCCGTTTAACATAAATGGTTTTTCCCCATCCCCGTTTAGCATAAACAGTTTT
124066 TCCCCGTCCCCGTTTAA
1 TCCCCGTCCCCGTTTAA
124083 TTCAGTTTTC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (60 bp):
TCCCCGTCCCCGTTTAACATAAATGGTTTTTCCCCATCCCCGTTTAGCATAAACAGTTTT
Found at i:125860 original size:27 final size:27
Alignment explanation
Indices: 125828--125893 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
125818 TATGAGTCTG
125828 AAAATCTATTTTATTTCGAATACTGAT
1 AAAATCTATTTTATTTCGAATACTGAT
* *
125855 AAAATCGATTTTATTTTGAATACTGAT
1 AAAATCTATTTTATTTCGAATACTGAT
* *
125882 AAATTTTATTTT
1 AAAATCTATTTT
125894 GTACTCATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (27 bp):
AAAATCTATTTTATTTCGAATACTGAT
Found at i:125903 original size:20 final size:21
Alignment explanation
Indices: 125862--125905 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
125852 GATAAAATCG
*
125862 ATTTTATTTTGAATACTGATAA
1 ATTTTATTTTG-ATACTCATAA
125884 ATTTTATTTTG-TACTCATAA
1 ATTTTATTTTGATACTCATAA
125904 AT
1 AT
125906 GATTTTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (21 bp):
ATTTTATTTTGATACTCATAA
Found at i:127976 original size:12 final size:12
Alignment explanation
Indices: 127959--127983 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
127949 ACTGTTCATG
127959 TGGTACCGATAC
1 TGGTACCGATAC
127971 TGGTACCGATAC
1 TGGTACCGATAC
127983 T
1 T
127984 AATGGCCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TGGTACCGATAC
Found at i:131165 original size:18 final size:18
Alignment explanation
Indices: 131126--131166 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
131116 TCATCAATAG
131126 AAAA-TATAAAAAATATT
1 AAAATTATAAAAAATATT
*
131143 TAAATTATATAAAAAT-TT
1 AAAATTATA-AAAAATATT
131161 AAAATT
1 AAAATT
131167 TTCACGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTATAAAAAATATT
Found at i:132079 original size:15 final size:16
Alignment explanation
Indices: 132043--132097 Score: 76
Period size: 15 Copynumber: 3.4 Consensus size: 16
132033 GGTGTGCAAA
132043 TCCGGGTACCCGAATT
1 TCCGGGTACCCGAATT
*
132059 TTCGGGTACCCG-ATT
1 TCCGGGTACCCGAATT
*
132074 TCCGGGTACCCAGAACT
1 TCCGGGTACCC-GAATT
132091 TCCGGGT
1 TCCGGGT
132098 CGACGATTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.38
16 12 0.35
17 9 0.26
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.25
Consensus pattern (16 bp):
TCCGGGTACCCGAATT
Found at i:132105 original size:32 final size:31
Alignment explanation
Indices: 132043--132107 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
132033 GGTGTGCAAA
* * *
132043 TCCGGGTACCCGAATTTTCGGGTACCCGATT
1 TCCGGGTACCCGAACTTCCGGGTACACGATT
132074 TCCGGGTACCCAGAACTTCCGGGT-CGACGATT
1 TCCGGGTACCC-GAACTTCCGGGTAC-ACGATT
132106 TC
1 TC
132108 TCGGCCCGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.26
Consensus pattern (31 bp):
TCCGGGTACCCGAACTTCCGGGTACACGATT
Found at i:132145 original size:17 final size:17
Alignment explanation
Indices: 132123--132177 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
132113 CCGTGTCCCG
*
132123 ACCCGGATGTTACGGGT
1 ACCCGGATATTACGGGT
*
132140 ACCCGG-TAAT-CGGGT
1 ACCCGGATATTACGGGT
*
132155 ACCCGGATTTTACGGGT
1 ACCCGGATATTACGGGT
132172 ACCCGG
1 ACCCGG
132178 GAATCGAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 17 0.53
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (17 bp):
ACCCGGATATTACGGGT
Found at i:132155 original size:15 final size:15
Alignment explanation
Indices: 132135--132183 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
132125 CCGGATGTTA
132135 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
**
132150 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
*
132166 ACGGGTACCCGGGAAT
1 -CGGGTACCCGGTAAT
132182 CG
1 CG
132184 AATACCCGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 13 0.48
16 3 0.11
17 11 0.41
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:132159 original size:32 final size:32
Alignment explanation
Indices: 132123--132183 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
132113 CCGTGTCCCG
*
132123 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGGAATCGGGT
*
132155 ACCCGGATTTTACGGGTACCCGGGAATCG
1 ACCCGGATGTTACGGGTACCCGGGAATCG
132184 AATACCCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.20, C:0.26, G:0.33, T:0.21
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGGGAATCGGGT
Found at i:132190 original size:32 final size:32
Alignment explanation
Indices: 132123--132191 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
132113 CCGTGTCCCG
* **
132123 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGGAATCGAAT
*
132155 ACCCGGATTTTACGGGTACCCGGGAATCGAAT
1 ACCCGGATGTTACGGGTACCCGGGAATCGAAT
132187 ACCCG
1 ACCCG
132192 ATACCCGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.20
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGGGAATCGAAT
Found at i:132803 original size:30 final size:31
Alignment explanation
Indices: 132767--132833 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
132757 ACCAAACCCG
*
132767 TCCCCGTTCC-CCTTTAACATAAATAGTTTT
1 TCCCCGTTCCTCCTTTAACATAAACAGTTTT
* * *
132797 TCCCCG-TCCTCGTTTAGCATAAACGGTTTT
1 TCCCCGTTCCTCCTTTAACATAAACAGTTTT
132827 TCCCCGT
1 TCCCCGT
132834 CCCTACTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.37
Consensus pattern (31 bp):
TCCCCGTTCCTCCTTTAACATAAACAGTTTT
Found at i:134043 original size:26 final size:27
Alignment explanation
Indices: 133988--134047 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
133978 ATATGTTGTC
133988 AAATTGAATAATTTTTCAGACTATTAA
1 AAATTGAATAATTTTTCAGACTATTAA
134015 AAATTGAATAATTTTTCAGACTATTAA
1 AAATTGAATAATTTTTCAGACTATTAA
134042 AAATTG
1 AAATTG
134048 TGATAGTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (27 bp):
AAATTGAATAATTTTTCAGACTATTAA
Done.