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 45 of 51
Found at i:11217175 original size:3 final size:3
Alignment explanation
Indices: 11217167--11217211 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
11217157 AGGTTAATAG
11217167 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT AT
11217212 ACAATGAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:11227436 original size:99 final size:99
Alignment explanation
Indices: 11227260--11227447 Score: 261
Period size: 99 Copynumber: 1.9 Consensus size: 99
11227250 AAATGTAATC
* * *
11227260 ATATGTATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGGCTCGTCTTTATGA
1 ATATATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGTCTTTATGA
* *
11227325 ATAAGATTCAGCTAGCCTGGTAAAAGAGATTATA
66 ATAAGATCCAGCTAGCCTGATAAAAGAGATTATA
* * * **
11227359 ATATATATACAATAAATCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATTCCCCAG-CTTTATG
1 ATATATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCC-GTCTTTATG
*
11227423 GATAAGATCCAGCTAGCCTGATAAA
65 AATAAGATCCAGCTAGCCTGATAAA
11227448 GGCAAATTAC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 76 0.99
100 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (99 bp):
ATATATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGTCTTTATGA
ATAAGATCCAGCTAGCCTGATAAAAGAGATTATA
Found at i:11229209 original size:43 final size:45
Alignment explanation
Indices: 11229145--11229232 Score: 144
Period size: 43 Copynumber: 2.0 Consensus size: 45
11229135 GATGGAACAA
*
11229145 ATGATAGAAGAGTCAATCTTTAGTGTT-TCTTCCTTGACTTTCTC
1 ATGATAGAAGAGTCAATCTTTAGTGTTGTCTTACTTGACTTTCTC
*
11229189 ATGA-AGAAGAGTCTATCTTTAGTGTTGTCTTACTTGACTTTCTC
1 ATGATAGAAGAGTCAATCTTTAGTGTTGTCTTACTTGACTTTCTC
11229233 GTCAAGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 21 0.51
44 20 0.49
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (45 bp):
ATGATAGAAGAGTCAATCTTTAGTGTTGTCTTACTTGACTTTCTC
Found at i:11229240 original size:44 final size:43
Alignment explanation
Indices: 11229150--11229240 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 43
11229140 AACAAATGAT
* *
11229150 AGAAGAGTCAATCTTTAGTGTTTCTTCCTTGACTTTCTCATGA
1 AGAAGAGTCAATCTTTAGTGTTTCTTACTTGACTTTCTCATCA
* *
11229193 AGAAGAGTCTATCTTTAGTGTTGTCTTACTTGACTTTCTCGTCA
1 AGAAGAGTCAATCTTTAGTGTT-TCTTACTTGACTTTCTCATCA
11229237 AGAA
1 AGAA
11229241 AAATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 21 0.49
44 22 0.51
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (43 bp):
AGAAGAGTCAATCTTTAGTGTTTCTTACTTGACTTTCTCATCA
Found at i:11230241 original size:81 final size:81
Alignment explanation
Indices: 11230036--11230477 Score: 343
Period size: 81 Copynumber: 5.5 Consensus size: 81
11230026 GTCTGATTTC
* * * * * * ** * *
11230036 CCCTGAATGAATAGTGGAGAAGACACATCTTCCCAAAATAGATCTGTTTACCCAAAAAAGAAGC-
1 CCCTGAATGAATAGTGGAGCAGAGACATCTT-CCAAAGTTGATCTATCTACCTGAAGAAGAGGCA
* * *
11230100 -ATATCGAGTTTTATCT
65 AAGATCGAGTCTAATCT
* * *
11230116 CCCTGAA-GAGTAGTGGAGTA-ATG---TCTTCC-AAGTTGATCTGTCTACCTGAAGAAGAGGCA
1 CCCTGAATGAATAGTGGAGCAGA-GACATCTTCCAAAGTTGATCTATCTACCTGAAGAAGAGGCA
11230175 AAGATCGAGTCTAATCT
65 AAGATCGAGTCTAATCT
* *
11230192 CCCTAAAAGAATAGTGGAGCAGAGACATCTTCCAAAGTTGATCTATCTACCCT-AAGAAGAGGCA
1 CCCTGAATGAATAGTGGAGCAGAGACATCTTCCAAAGTTGATCTATCTA-CCTGAAGAAGAGGCA
* *
11230256 TAGATCGAGTCTCATCT
65 AAGATCGAGTCTAATCT
* * * * * *
11230273 CCCTGAATGAATAGTGGAGCAGAGACGTCTTCCAAAGTTGATATATCTACCCGAAAAAGAGGTAC
1 CCCTGAATGAATAGTGGAGCAGAGACATCTTCCAAAGTTGATCTATCTACCTGAAGAAGAGGCAA
* ** *
11230338 AGATCAAGTCTTGTAT
66 AGATCGAGTCTAATCT
* * * * * * *
11230354 CCCTGAATGAACAGTAGAGCAGACACATCTTCCAAAGTTGATTTGTCTAACC-GAAAAAAGATGC
1 CCCTGAATGAATAGTGGAGCAGAGACATCTTCCAAAGTTGATCTATCT-ACCTG-AAGAAGAGGC
* *
11230418 ACAA-ATTGAGTC-ATGTCT
64 A-AAGATCGAGTCTA-ATCT
* * * *
11230436 ACCTGAATGAATAGTGGAACTGAAACATCTTCC-AAGTTGATC
1 CCCTGAATGAATAGTGGAGCAGAGACATCTTCCAAAGTTGATC
11230478 GTCTACCCTC
Statistics
Matches: 296, Mismatches: 51, Indels: 29
0.79 0.14 0.08
Matches are distributed among these distances:
74 22 0.07
75 2 0.01
76 23 0.08
77 12 0.04
78 2 0.01
79 11 0.04
80 15 0.05
81 157 0.53
82 51 0.17
83 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (81 bp):
CCCTGAATGAATAGTGGAGCAGAGACATCTTCCAAAGTTGATCTATCTACCTGAAGAAGAGGCAA
AGATCGAGTCTAATCT
Found at i:11230384 original size:162 final size:155
Alignment explanation
Indices: 11230022--11230414 Score: 399
Period size: 162 Copynumber: 2.5 Consensus size: 155
11230012 TAAAGATTTT
* * * * * * *
11230022 TCAAGTCTGATTTCCCCTGAATGAATAGTGGAGAAGACACATCTTCCCAAAATAGATCTGTTTAC
1 TCAAGTCTAATAT-CCCTGAATGAATAGTGGAGCAGACACATCTT-CCAAAGTTGATCTATCTAC
* * * * *
11230087 CCAAAAAAGAAGCATATCGAGTTTTATCTCCCTGAAGAGTAGTGGAGTAATGTCTTCCAAGTTGA
64 CCAAAAAAGAAGCATATCGAGTCTCATCTCCCTGAAGAATAGTGGAGGAACGTCTTCCAAGTTGA
* * * *
11230152 TCTGTCTACCTGAAGAAGAGGCAAAGA
129 TATATCTACCCGAAAAAGAGGCAAAGA
* * * * *
11230179 TCGAGTCTAATCTCCCTAAAAGAATAGTGGAGCAGAGACATCTTCCAAAGTTGATCTATCTACCC
1 TCAAGTCTAATATCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAAGTTGATCTATCTACCC
* * *
11230244 TAAGAAGAGGCATAGATCGAGTCTCATCTCCCTGAATGAATAGTGGAGCAGAGACGTCTTCCAAA
66 AAAAAAGAAGCAT--ATCGAGTCTCATCTCCCTGAA-GAATAGTGGAG--GA-ACGTCTTCC-AA
* *
11230309 GTTGATATATCTACCCGAAAAAGAGGTACAGA
124 GTTGATATATCTACCCGAAAAAGAGGCAAAGA
** * * * *
11230341 TCAAGTCTTGTATCCCTGAATGAACAGTAGAGCAGACACATCTTCCAAAGTTGATTTGTCTAACC
1 TCAAGTCTAATATCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAAGTTGATCTATCT-ACC
*
11230406 GAAAAAAGA
65 CAAAAAAGA
11230415 TGCACAAATT
Statistics
Matches: 189, Mismatches: 39, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
155 27 0.14
156 27 0.14
157 29 0.15
158 10 0.05
160 1 0.01
161 8 0.04
162 78 0.41
163 9 0.05
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (155 bp):
TCAAGTCTAATATCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAAGTTGATCTATCTACCC
AAAAAAGAAGCATATCGAGTCTCATCTCCCTGAAGAATAGTGGAGGAACGTCTTCCAAGTTGATA
TATCTACCCGAAAAAGAGGCAAAGA
Found at i:11230608 original size:135 final size:136
Alignment explanation
Indices: 11230353--11230621 Score: 294
Period size: 135 Copynumber: 2.0 Consensus size: 136
11230343 AAGTCTTGTA
* * * * * *
11230353 TCCCTGAATGAACAGTAGAGCAGACACATCTTCCAAAGTTGATTTGTCTAACCGAAAAAAGATGC
1 TCCCTAAATGAACAGTAGAGAAGACACATCCTCCAAAGTTGATATATCTAACCGAAAAAAGAGGC
* * *
11230418 ACAAATTGAGTCATGTCTACCTGAATGAATAGTGGAACTGAAACATCTTCCAAGTTGAT-CGTCT
66 ACAAATCGAGTCATGTCTACCTGAATGAATAATGGAACTGAAACATCTTCAAAGTTGATACGTCT
11230482 ACCCTC
131 ACCCTC
* * *
11230488 TCCCTAAATGAATAGTGGAGAAGACACGTCCTCCAAAGTTGATATATCT-ACCTGAAAAAA-AGG
1 TCCCTAAATGAACAGTAGAGAAGACACATCCTCCAAAGTTGATATATCTAACC-GAAAAAAGAGG
* * * * * * * * *
11230551 CACAGATCGAGTCTTGTGTCCCTTAATGAATAATGG-AGTAGAGATATCTTACAAAGTTGATATG
65 CACAAATCGAGTCATGTCTACCTGAATGAATAATGGAACT-GAAACATCTT-CAAAGTTGATACG
11230615 TCTACCC
128 TCTACCC
11230622 GAAGAAGAGG
Statistics
Matches: 109, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
133 2 0.02
134 42 0.39
135 57 0.52
136 8 0.07
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (136 bp):
TCCCTAAATGAACAGTAGAGAAGACACATCCTCCAAAGTTGATATATCTAACCGAAAAAAGAGGC
ACAAATCGAGTCATGTCTACCTGAATGAATAATGGAACTGAAACATCTTCAAAGTTGATACGTCT
ACCCTC
Found at i:11230609 original size:81 final size:81
Alignment explanation
Indices: 11230486--11230961 Score: 500
Period size: 81 Copynumber: 6.0 Consensus size: 81
11230476 TCGTCTACCC
* * * ** * * *
11230486 TCTCCCTAAATGAATAGTGGAGAAGACACGTCCTCCAAAGTTGATATATCTACCTGAAAAAAAGG
1 TCTCCCTAAATAAATAGTGGAGCAGAGATATCTTCCAAAGTTGATATATCTACCCGAAAAAGAGG
11230551 CACAGATCGAGTCTTG
66 CACAGATCGAGTCTTG
* * * * * * * *
11230567 TGTCCCTTAATGAATAATGGAGTAGAGATATCTTACAAAGTTGATATGTCTACCCGAAGAAGAGG
1 TCTCCCTAAATAAATAGTGGAGCAGAGATATCTTCCAAAGTTGATATATCTACCCGAAAAAGAGG
* **
11230632 CACATATCGAGTCTCA
66 CACAGATCGAGTCTTG
* * * *
11230648 TCTCCC----TGAATAGT-G-GCAGAGATGTCTTCCAAAGTTGATATGTCTACCTGAAAAAGAGG
1 TCTCCCTAAATAAATAGTGGAGCAGAGATATCTTCCAAAGTTGATATATCTACCCGAAAAAGAGG
* *
11230707 CACATATCAAGT-TTG
66 CACAGATCGAGTCTTG
* * * * * *
11230722 ATTTCCCTAAATAAATAGTGGAGCA-AGGATATCTTCCATAGTTGATCTATCTACTCAAAAAATA
1 -TCTCCCTAAATAAATAGTGGAGCAGA-GATATCTTCCAAAGTTGATATATCTACCCGAAAAAGA
11230786 GGCACAGATCGAGTCTTG
64 GGCACAGATCGAGTCTTG
* * * * * *
11230804 TCTCCCTGAATCAATAGTGGAGCAGACACATCTTCCAAAGTTGATATGTCTACCCGAAGAAGAGG
1 TCTCCCTAAATAAATAGTGGAGCAGAGATATCTTCCAAAGTTGATATATCTACCCGAAAAAGAGG
* **
11230869 CATAGATCGAGTCTCA
66 CACAGATCGAGTCTTG
* *
11230885 TCTCCCTAAATAAATAGTGGAGCAGAGACATCTTCCAAAGTTGATATAACTACCCGAAAAAGAGG
1 TCTCCCTAAATAAATAGTGGAGCAGAGATATCTTCCAAAGTTGATATATCTACCCGAAAAAGAGG
11230950 CACAGATCGAGT
66 CACAGATCGAGT
11230962 TGTATCCCTG
Statistics
Matches: 325, Mismatches: 60, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
74 1 0.00
75 55 0.17
76 1 0.00
77 7 0.02
79 7 0.02
80 2 0.01
81 248 0.76
82 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (81 bp):
TCTCCCTAAATAAATAGTGGAGCAGAGATATCTTCCAAAGTTGATATATCTACCCGAAAAAGAGG
CACAGATCGAGTCTTG
Found at i:11231004 original size:237 final size:236
Alignment explanation
Indices: 11230488--11231905 Score: 651
Period size: 241 Copynumber: 6.0 Consensus size: 236
11230478 GTCTACCCTC
* * * *
11230488 TCCCTAAATGAATAGTGGAG-AA-GACACGTCCTCCAAAGTTGATATATCTACCTGAAAAAAAGG
1 TCCCTAAATAAATACTGGAGCAAGGACA--TCTTCCAAAGTTGATATATCTA-CTCAAAAAAAGG
* * * * * * *
11230551 CACAGATCGAGTCTTGTGTCCCTTAATGAATAATGGAGTAGAGATATCTTACAAAGTTGATATGT
63 CACAGATCGAGTCTTGTCTCCCTGAATGAATAGTGGAGCAGAAACATCTTCCAAAGTTGATATGT
* * **
11230616 CTACCCGAAGAAGAGGCACATATCGAGTCTCATCTCCCTGAATAGTGGCAGAGATGTCTTCCAAA
128 CTACCCGAAGAAGAGGCACAGATCGAGTCTCATCTCCCTAAATAGTGGCAGAGACATCTTCCAAA
** * * *
11230681 GTTGATATGTCTACCTGAAAAAGAGGCACATATCAAGTTTGATT
193 GTTGATATAACTACCCGAAAAAGAGGCACAGATCAAGTTTGATA
* * * *
11230725 TCCCTAAATAAATAGTGGAGCAAGGATATCTTCCATAGTTGATCTATCTACTCAAAAAATAGGCA
1 TCCCTAAATAAATACTGGAGCAAGGACATCTTCCAAAGTTGATATATCTACTCAAAAAA-AGGCA
* *
11230790 CAGATCGAGTCTTGTCTCCCTGAATCAATAGTGGAGCAGACACATCTTCCAAAGTTGATATGTCT
65 CAGATCGAGTCTTGTCTCCCTGAATGAATAGTGGAGCAGAAACATCTTCCAAAGTTGATATGTCT
*
11230855 ACCCGAAGAAGAGGCATAGATCGAGTCTCATCTCCCTAAATAAATAGTGGAGCAGAGACATCTTC
130 ACCCGAAGAAGAGGCACAGATCGAGTCTCATCTCCC----TAAATAGT-G-GCAGAGACATCTTC
*
11230920 CAAAGTTGATATAACTACCCGAAAAAGAGGCACAGATCGAG-TTG-TA
189 CAAAGTTGATATAACTACCCGAAAAAGAGGCACAGATCAAGTTTGATA
* * * * *
11230966 TCCCT-GATGAACAT-CT-GAG-TA-GACA-CTTCCAAAGTTGATTTGTCTAAC-CAAAAAAGAT
1 TCCCTAAAT-AA-ATACTGGAGCAAGGACATCTTCCAAAGTTGATATATCT-ACTCAAAAAA-AG
* * * * * * *
11231024 GCACAAATTGAGTCATGTCTACCTGAATGAATAGTGGAACTGAAACATCTTCCAAATTTGATCAT
62 GCACAGATCGAGTCTTGTCTCCCTGAATGAATAGTGGAGCAGAAACATCTTCCAAAGTTGAT-AT
*** * * * *
11231089 -T-TA--C----------C-C---TC---TC-C--CTAAATGAATAGTGGAGAAGACACATCCTC
126 GTCTACCCGAAGAAGAGGCACAGATCGAGTCTCATCTCCCTAAATAGT-G-GCAGAGACATCTTC
* * * * * * *
11231130 CAAAGTTGATCTATCTACCTGAAAAGGAGACACAGATCGAGTCTTG-TG
189 CAAAGTTGATATAACTACCCGAAAAAGAGGCACAGATCAAGT-TTGATA
* * * * * * * * * *
11231178 TCCCTTAATGAATAATAGAGTATA-GATATCTTCCAAAGTTGATCTGTCTACTCGAAGAAGAGGC
1 TCCCTAAATAAATACTGGAGCA-AGGACATCTTCCAAAGTTGATATATCTACTC-AAAAAAAGGC
* ** * * * **
11231242 ACATATCGAGTCTCATCTCCCTGACTGAGTAGTGGAGCAGAGATGTCTTCCAAAGTTGATATGTC
64 ACAGATCGAGTCTTGTCTCCCTGAATGAATAGTGGAGCAGAAACATCTTCCAAAGTTGATATGTC
* * * * * * **
11231307 TACCCAAAAAAGAGGCACATATCAAGTCTGATTTCCCTAAATGAATAGTGG-AGAAAGGATGTCT
129 TACCCGAAGAAGAGGCACAGATCGAGTCTCATCTCCCT--A--AATAGTGGCAG--A-GACATCT
* * * * * *
11231371 TCCATAGTTGATCTATCTACTCGAAAAAGAGGCACAGATCGAGTCTTG-TC
187 TCCAAAGTTGATATAACTACCCGAAAAAGAGGCACAGATCAAGT-TTGATA
* * * * * * * * *
11231421 T-CC-GAATCAATAGTGGAGC-AGACACATCTTCC-AAGTTGATCTGTCTACCCCGAAGAAGAGG
1 TCCCTAAATAAATACTGGAGCAAG-GACATCTTCCAAAGTTGATATATCTA-CTC-AAAAAAAGG
* * * * * * ** * *
11231482 AACATATCAAGTCTTATCTCCCTGAATGAATAGTAGAGCAGAGATGTCTTCCAAATTTGATCTGT
63 CACAGATCGAGTCTTGTCTCCCTGAATGAATAGTGGAGCAGAAACATCTTCCAAAGTTGATATGT
* * * * * * * *
11231547 CTACCCTAAGAAAAGGCACATATCAAGT-T-TTCTCCCTGAATGAATAGTAGAGCATAAACGTCT
128 CTACCCGAAGAAGAGGCACAGATCGAGTCTCATCTCCCT--A--AATAGT-G-GCAGAGACATCT
** * * * * * * *
11231610 TTTAATGTTGATCTATCTACCAGAAAAAAGAGGCACAGATCGAGTCTG-TC
187 TCCAAAGTTGATATAACTACCCG-AAAAAGAGGCACAGATCAAGTTTGATA
* * * * * * * * * * * *
11231660 TCTCTGAATGAATAGTGGAGCATA-CACGTCCTCTAAATTTGATATGTCTACCCGAAAAAGAGGC
1 TCCCTAAATAAATACTGGAGCA-AGGACATCTTCCAAAGTTGATATATCTACTC-AAAAAAAGGC
* * * * * * * * * *
11231724 ACAAATCAAGTCTTATATCCCTAAATAAATAGTGGAGTAGATATATCTT-CAAAGTTGATCTGT-
64 ACAGATCGAGTCTTGTCTCCCTGAATGAATAGTGGAGCAGAAACATCTTCCAAAGTTGATATGTC
* * * * *
11231787 TACCCAAAGAAGAGGCACAGATCGAGTCTTATAC-CCTTGAATGAATACTGGAGCAGATACATCT
129 TACCCGAAGAAGAGGCACAGATCGAGTCTCAT-CTCCCT--A--AATAGT-G-GCAGAGACATCT
* * *
11231851 TCCAAAG-TGATAGT--CTACCC--AAAAGAGGCATAGATCAAGTCTGATT
187 TCCAAAGTTGATA-TAACTACCCGAAAAAGAGGCACAGATCAAGTTTGATA
11231897 TCCCTAAAT
1 TCCCTAAAT
11231906 GACTAGTGGA
Statistics
Matches: 943, Mismatches: 167, Indels: 142
0.75 0.13 0.11
Matches are distributed among these distances:
210 57 0.06
211 2 0.00
212 11 0.01
213 5 0.01
214 2 0.00
215 8 0.01
216 71 0.08
217 8 0.01
219 1 0.00
220 2 0.00
224 1 0.00
229 1 0.00
230 1 0.00
233 2 0.00
234 1 0.00
236 33 0.03
237 221 0.23
238 9 0.01
239 78 0.08
240 65 0.07
241 236 0.25
242 25 0.03
243 103 0.11
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (236 bp):
TCCCTAAATAAATACTGGAGCAAGGACATCTTCCAAAGTTGATATATCTACTCAAAAAAAGGCAC
AGATCGAGTCTTGTCTCCCTGAATGAATAGTGGAGCAGAAACATCTTCCAAAGTTGATATGTCTA
CCCGAAGAAGAGGCACAGATCGAGTCTCATCTCCCTAAATAGTGGCAGAGACATCTTCCAAAGTT
GATATAACTACCCGAAAAAGAGGCACAGATCAAGTTTGATA
Found at i:11231076 original size:318 final size:317
Alignment explanation
Indices: 11230486--11231086 Score: 660
Period size: 318 Copynumber: 1.9 Consensus size: 317
11230476 TCGTCTACCC
* * *
11230486 TCTCCCTAAATGAATAGTGGAGAAGACACGTCCTCCAAAGTTGATATATCTACCTGAAAAAAAGG
1 TCTCCCTAAATCAATAGTGGAGAAGACACATCCTCCAAAGTTGATATATCTACCCGAAAAAAAGG
** * * * * * **
11230551 CACAGATCGAGTCTTGTGTCCCTTAATGAATAATGGAGTAGAGATATCTTACAAAGTTGATATGT
66 CACAGATCGAGTCTCATCTCCCTAAATAAATAATGGAGCAGAGACATCTTACAAAGTTGATATAA
* * * * **
11230616 CTACCCGAAGAAGAGGCACATATCGAGTCTCATCTCCCTGAATAGTGGCAGAGATGTCTTCCAAA
131 CTACCCGAAAAAGAGGCACAGATCGAGTCTCATATCCCTGAATAATGGCAGAGATCACTTCCAAA
* * * * * *
11230681 GTTGATATGTCTACCTGAAAAAGAGGCACATATCAAGTTTGATTTCCCTAAATAAATAGTGGAGC
196 GTTGATATGTCTACCTAAAAAAGAGGCACAAATCAAGTATGATCTACCTAAATAAATAGTGGAAC
* *
11230746 AAGGATATCTTCCATAGTTGATCTATCTACTCAAAAAATAGGCACAGATCGAGTCTTG
261 AA-GACATCTTCCAAAGTTGATCTATCTACTCAAAAAATAGGCACAGATCGAGTCTTG
* * * * * *
11230804 TCTCCCTGAATCAATAGTGGAGCAGACACATCTTCCAAAGTTGATATGTCTACCCGAAGAAGAGG
1 TCTCCCTAAATCAATAGTGGAGAAGACACATCCTCCAAAGTTGATATATCTACCCGAAAAAAAGG
* * *
11230869 CATAGATCGAGTCTCATCTCCCTAAATAAATAGTGGAGCAGAGACATCTTCCAAAGTTGATATAA
66 CACAGATCGAGTCTCATCTCCCTAAATAAATAATGGAGCAGAGACATCTTACAAAGTTGATATAA
* *
11230934 CTACCCGAAAAAGAGGCACAGATCGAGT-T-GTATCCCTG-ATGAACATCTG-AGTAGA-CACTT
131 CTACCCGAAAAAGAGGCACAGATCGAGTCTCATATCCCTGAAT--A-AT-GGCAG-AGATCACTT
* * ** * *
11230994 CCAAAGTTGATTTGTCTAACC-AAAAAAGATGCACAAATTGAGTCATG-TCTACCTGAATGAATA
191 CCAAAGTTGATATGTCT-ACCTAAAAAAGAGGCACAAATCAAGT-ATGATCTACCTAAATAAATA
*
11231057 GTGGAACTGAA-ACATCTTCCAAATTTGATC
254 GTGGAAC--AAGACATCTTCCAAAGTTGATC
11231087 ATTTACCCTC
Statistics
Matches: 230, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
315 2 0.01
316 7 0.03
317 2 0.01
318 208 0.90
319 9 0.04
320 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (317 bp):
TCTCCCTAAATCAATAGTGGAGAAGACACATCCTCCAAAGTTGATATATCTACCCGAAAAAAAGG
CACAGATCGAGTCTCATCTCCCTAAATAAATAATGGAGCAGAGACATCTTACAAAGTTGATATAA
CTACCCGAAAAAGAGGCACAGATCGAGTCTCATATCCCTGAATAATGGCAGAGATCACTTCCAAA
GTTGATATGTCTACCTAAAAAAGAGGCACAAATCAAGTATGATCTACCTAAATAAATAGTGGAAC
AAGACATCTTCCAAAGTTGATCTATCTACTCAAAAAATAGGCACAGATCGAGTCTTG
Found at i:11231213 original size:81 final size:81
Alignment explanation
Indices: 11231095--11231970 Score: 683
Period size: 81 Copynumber: 10.9 Consensus size: 81
11231085 TCATTTACCC
* * * ** * * * *
11231095 TCTCCCTAAATGAATAGTGGAGAAGACACATCCTCCAAAGTTGATCTATCTACCTGAAAAGGAGA
1 TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTACCTGAAAAAGAGG
*
11231160 CACAGATCGAGTCTTG
66 CACAGATCGAGTCTTA
* * * * * * * *
11231176 TGTCCCTTAATGAATAATAGAGTATAGATATCTTCCAAAGTTGATCTGTCTA-CTCGAAGAAGAG
1 TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTACCT-GAAAAAGAG
* *
11231240 GCACATATCGAGTCTCA
65 GCACAGATCGAGTCTTA
* * * **
11231257 TCTCCCTGACTGAGTAGTGGAGCAGAGATGTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGG
1 TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTACCTGAAAAAGAGG
* * *
11231322 CACATATCAAGTCTGA
66 CACAGATCGAGTCTTA
* * * * *
11231338 TTTCCCTAAATGAATAGTGGAG-AAAGGATGTCTTCCATAGTTGATCTATCTA-CTCGAAAAAGA
1 TCTCCCTGAATGAATAGTGGAGCAGA-GATGTCTTCCAAAGTTGATCTGTCTACCT-GAAAAAGA
*
11231401 GGCACAGATCGAGTCTTG
64 GGCACAGATCGAGTCTTA
* * ** * *
11231419 TCT-CC-GAATCAATAGTGGAGCAGACACATCTTCC-AAGTTGATCTGTCTACCCCGAAGAAGAG
1 TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTA-CCTGAAAAAGAG
* * *
11231481 GAACATATCAAGTCTTA
65 GCACAGATCGAGTCTTA
* *
11231498 TCTCCCTGAATGAATAGTAGAGCAGAGATGTCTTCCAAATTTGATCTGTCTACCCT-AAGAAA-A
1 TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTA-CCTGAA-AAAGA
* *
11231561 GGCACATATCAAGT-TT-
64 GGCACAGATCGAGTCTTA
* * * * ** * * *
11231577 TCTCCCTGAATGAATAGTAGAGCATAAACGTCTTTTAATGTTGATCTATCTACCAGAAAAAAGAG
1 TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTACCTG-AAAAAGAG
*
11231642 GCACAGATCGAGTC-TG
65 GCACAGATCGAGTCTTA
* * * * * * * * *
11231658 TCTCTCTGAATGAATAGTGGAGCATACACGTCCTCTAAATTTGATATGTCTACCCGAAAAAGAGG
1 TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTACCTGAAAAAGAGG
* *
11231723 CACAAATCAAGTCTTA
66 CACAGATCGAGTCTTA
* * * * * * *
11231739 TATCCCTAAATAAATAGTGGAGTAGATATATCTT-CAAAGTTGATCTGT-TACC-CAAAGAAGAG
1 TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTACCTGAAA-AAGAG
11231801 GCACAGATCGAGTCTTA
65 GCACAGATCGAGTCTTA
* * * ** * *
11231818 TAC-CCTTGAATGAATACTGGAGCAGATACATCTTCCAAAG-TGAT-AGTCTACC--CAAAAGAG
1 T-CTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTACCTGAAAAAGAG
* * *
11231878 GCATAGATCAAGTCTGA
65 GCACAGATCGAGTCTTA
* * * * * * * *
11231895 TTTCCCTAAATGACTAGTGGAGAAGAGATGTCTTTCATAGTTGATCTGCCTACCCGAAAAAGAGG
1 TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTACCTGAAAAAGAGG
* *
11231960 AACATATCGAG
66 CACAGATCGAG
11231971 GTTGAAAATG
Statistics
Matches: 630, Mismatches: 139, Indels: 52
0.77 0.17 0.06
Matches are distributed among these distances:
77 47 0.07
78 26 0.04
79 155 0.25
80 66 0.10
81 316 0.50
82 20 0.03
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (81 bp):
TCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTCTACCTGAAAAAGAGG
CACAGATCGAGTCTTA
Found at i:11231530 original size:160 final size:161
Alignment explanation
Indices: 11231095--11231970 Score: 745
Period size: 160 Copynumber: 5.5 Consensus size: 161
11231085 TCATTTACCC
* * * * * * *
11231095 TCTCCCTAAATGAATAGTGGAGAAGACACATCCTCCAAAGTTGATCTATCTACCTGAAAAGGAGA
1 TCTCCCTGAATGAATAGTGGAGCAGACACATCTTCC-AAGTTGATCTGTCTACCCGAAAAAGAGG
* * * * * * * *
11231160 CACAGATCGAGTCTTGTGTCCCTTAATGAATAATAGAGTATAGATATCTTCCAAAGTTGATCTGT
65 CACAGATCGAGTCTTATCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGT
* * * *
11231225 CTACTCGAAGAAGAGGCACATATCGAGTCTCA
130 CTACCCGAAAAAGAGGCACATATCAAGTCTTA
* * * ** * *
11231257 TCTCCCTGACTGAGTAGTGGAGCAGAGATGTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGG
1 TCTCCCTGAATGAATAGTGGAGCAGACACATCTTCC-AAGTTGATCTGTCTACCCGAAAAAGAGG
* * * * * * * *
11231322 CACATATCAAGTCTGATTTCCCTAAATGAATAGTGGAG-AAAGGATGTCTTCCATAGTTGATCTA
65 CACAGATCGAGTCTTATCTCCCTGAATGAATAGTGGAGCAGA-GATGTCTTCCAAAGTTGATCTG
* * * *
11231386 TCTACTCGAAAAAGAGGCACAGATCGAGTCTTG
129 TCTACCCGAAAAAGAGGCACATATCAAGTCTTA
* *
11231419 TCT-CC-GAATCAATAGTGGAGCAGACACATCTTCCAAGTTGATCTGTCTACCCCGAAGAAGAGG
1 TCTCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAGTTGATCTGTCTA-CCCGAAAAAGAGG
* * * * *
11231482 AACATATCAAGTCTTATCTCCCTGAATGAATAGTAGAGCAGAGATGTCTTCCAAATTTGATCTGT
65 CACAGATCGAGTCTTATCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGT
*
11231547 CTACCCTAAGAAA-AGGCACATATCAAGT-TT-
130 CTACCCGAA-AAAGAGGCACATATCAAGTCTTA
* * * * ** * *
11231577 TCTCCCTGAATGAATAGTAGAGCATAAACGTCTTTTAATGTTGATCTATCTACCAGAAAAAAGAG
1 TCTCCCTGAATGAATAGTGGAGCAGACACATCTTCCAA-GTTGATCTGTCTACCCG-AAAAAGAG
* * * * * * * * *
11231642 GCACAGATCGAGTC-TGTCTCTCTGAATGAATAGTGGAGCATACACGTCCTCTAAATTTGATATG
64 GCACAGATCGAGTCTTATCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTG
*
11231706 TCTACCCGAAAAAGAGGCACAAATCAAGTCTTA
129 TCTACCCGAAAAAGAGGCACATATCAAGTCTTA
* * * * * * *
11231739 TATCCCTAAATAAATAGTGGAGTAGATATATCTTCAAAGTTGATCTGT-TACCC-AAAGAAGAGG
1 TCTCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAGTTGATCTGTCTACCCGAAA-AAGAGG
* * * ** *
11231802 CACAGATCGAGTCTTATAC-CCTTGAATGAATACTGGAGCAGATACATCTTCCAAAG-TGAT-AG
65 CACAGATCGAGTCTTAT-CTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTG
* * *
11231864 TCTACCC--AAAAGAGGCATAGATCAAGTCTGA
129 TCTACCCGAAAAAGAGGCACATATCAAGTCTTA
* * * * * ** * *
11231895 TTTCCCTAAATGACTAGTGGAGAAGAGATGTCTTTCATAGTTGATCTGCCTACCCGAAAAAGAGG
1 TCTCCCTGAATGAATAGTGGAGCAGACACATCTTCCA-AGTTGATCTGTCTACCCGAAAAAGAGG
* *
11231960 AACATATCGAG
65 CACAGATCGAG
11231971 GTTGAAAATG
Statistics
Matches: 583, Mismatches: 114, Indels: 38
0.79 0.16 0.05
Matches are distributed among these distances:
156 50 0.09
157 10 0.02
158 34 0.06
159 47 0.08
160 232 0.40
161 51 0.09
162 159 0.27
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (161 bp):
TCTCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAGTTGATCTGTCTACCCGAAAAAGAGGC
ACAGATCGAGTCTTATCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCAAAGTTGATCTGTC
TACCCGAAAAAGAGGCACATATCAAGTCTTA
Found at i:11231533 original size:241 final size:238
Alignment explanation
Indices: 11231095--11231816 Score: 814
Period size: 241 Copynumber: 3.0 Consensus size: 238
11231085 TCATTTACCC
* * * * * *
11231095 TCTCCCTAAATGAATAGTGGAGAAGACACATCCTCCAAAGTTGATCTATCTACCTGAAAAGGAGA
1 TCTCCCTAAATGAATAGTGGAGAA-AGACGTCTTCC-AAGTTGATCTATCTACCAGAAAAAGAGG
* * * * * * *
11231160 CACAGATCGAGTCTTGTGTCCCTTAATGAATAATAGAGTATAGATATCTTCCAAAGTTGATCTGT
64 CACAGATCGAGTCTTGTCT-CCTGAATGAATAGTGGAGCATACACATCTTCC-AAGTTGATCTGT
* * * * *
11231225 CTACTCGAAGAAGAGGCACATATCGAGTCTCATCTCCCTGACTGAGTAGTGGAGCAGAGATGTCT
127 CTACCCGAAGAAGAGGCACATATCAAGTCTTATCTCCCTGAATGAATAGTGGAGCAGAGATGTCT
*
11231290 TCCAAAGTTGATATGTCTACCCAAAAAAGAGGCACATATCAAGTCTGAT
192 TCCAAAGTTGATCTGTCTACCCAAAAAAGAGGCACATATCAAGTCT--T
*
11231339 T-TCCCTAAATGAATAGTGGAGAAAGGATGTCTTCCATAGTTGATCTATCTACTC-GAAAAAGAG
1 TCTCCCTAAATGAATAGTGGAGAAA-GACGTCTTCCA-AGTTGATCTATCTAC-CAGAAAAAGAG
* *
11231402 GCACAGATCGAGTCTTGTCTCC-GAATCAATAGTGGAGCAGACACATCTTCCAAGTTGATCTGTC
63 GCACAGATCGAGTCTTGTCTCCTGAATGAATAGTGGAGCATACACATCTTCCAAGTTGATCTGTC
* *
11231466 TACCCCGAAGAAGAGGAACATATCAAGTCTTATCTCCCTGAATGAATAGTAGAGCAGAGATGTCT
128 TA-CCCGAAGAAGAGGCACATATCAAGTCTTATCTCCCTGAATGAATAGTGGAGCAGAGATGTCT
* *
11231531 TCCAAATTTGATCTGTCTACCCTAAGAAA-AGGCACATATCAAGT-TT
192 TCCAAAGTTGATCTGTCTACCC-AAAAAAGAGGCACATATCAAGTCTT
* * **
11231577 TCTCCCTGAATGAATAGTAGAGCATAA-ACGTCTTTTAATGTTGATCTATCTACCAGAAAAAAGA
1 TCTCCCTAAATGAATAGTGGAG-A-AAGACGTCTTCCAA-GTTGATCTATCTACCAG-AAAAAGA
* * * * *
11231641 GGCACAGATCGAGTC-TGTCTCTCTGAATGAATAGTGGAGCATACACGTCCTCTAAATTTGATAT
62 GGCACAGATCGAGTCTTGTCTC-CTGAATGAATAGTGGAGCATACACATCTTC-CAAGTTGATCT
* * * * * * * *
11231705 GTCTACCCGAAAAAGAGGCACAAATCAAGTCTTATATCCCTAAATAAATAGTGGAGTAGATATAT
125 GTCTACCCGAAGAAGAGGCACATATCAAGTCTTATCTCCCTGAATGAATAGTGGAGCAGAGATGT
* * *
11231770 CTT-CAAAGTTGATCTGT-TACCCAAAGAAGAGGCACAGATCGAGTCTT
190 CTTCCAAAGTTGATCTGTCTACCCAAAAAAGAGGCACATATCAAGTCTT
11231817 ATACCCTTGA
Statistics
Matches: 410, Mismatches: 52, Indels: 36
0.82 0.10 0.07
Matches are distributed among these distances:
238 8 0.02
239 64 0.16
240 55 0.13
241 190 0.46
242 22 0.05
243 69 0.17
244 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (238 bp):
TCTCCCTAAATGAATAGTGGAGAAAGACGTCTTCCAAGTTGATCTATCTACCAGAAAAAGAGGCA
CAGATCGAGTCTTGTCTCCTGAATGAATAGTGGAGCATACACATCTTCCAAGTTGATCTGTCTAC
CCGAAGAAGAGGCACATATCAAGTCTTATCTCCCTGAATGAATAGTGGAGCAGAGATGTCTTCCA
AAGTTGATCTGTCTACCCAAAAAAGAGGCACATATCAAGTCTT
Found at i:11232794 original size:37 final size:37
Alignment explanation
Indices: 11232744--11232896 Score: 204
Period size: 36 Copynumber: 4.2 Consensus size: 37
11232734 GGAAAAGTCA
11232744 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGTAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGTAAATCC
*** *
11232781 ATCTTAAGCCTTCACCGAAGAGTAGTGAAG-CGGTCT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGTAAATCC
* *
11232817 ATCCTAAGCCTTCACCGAAGAGTAGTGAAATAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGTAAATCC
* *
11232854 ATCTTAAGCC-TCACTGAAGAGTAGTGAAGCAAAT-C
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGTAAATCC
*
11232889 ATTTTAAG
1 ATCTTAAG
11232897 GAAGAGTGTT
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
35 8 0.08
36 51 0.51
37 41 0.41
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGTAAATCC
Found at i:11232834 original size:73 final size:72
Alignment explanation
Indices: 11232748--11232883 Score: 245
Period size: 73 Copynumber: 1.9 Consensus size: 72
11232738 AAGTCAATCT
*
11232748 TAAGCCTTCACCGAAGAGTAGTGAAGTAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCG
1 TAAGCCTTCACCGAAGAGTAGTGAAATAAATCCATCTTAAGCC-TCACCGAAGAGTAGTGAAGCG
11232813 GTCTATCC
65 GTCTATCC
*
11232821 TAAGCCTTCACCGAAGAGTAGTGAAATAAATCCATCTTAAGCCTCACTGAAGAGTAGTGAAGC
1 TAAGCCTTCACCGAAGAGTAGTGAAATAAATCCATCTTAAGCCTCACCGAAGAGTAGTGAAGC
11232884 AAATCATTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
72 19 0.31
73 42 0.69
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (72 bp):
TAAGCCTTCACCGAAGAGTAGTGAAATAAATCCATCTTAAGCCTCACCGAAGAGTAGTGAAGCGG
TCTATCC
Found at i:11233334 original size:54 final size:55
Alignment explanation
Indices: 11233254--11234661 Score: 1427
Period size: 54 Copynumber: 25.9 Consensus size: 55
11233244 AATGAAGATG
* * * * * *
11233254 TTCGAATTCTATACTCCCTT-AA-AAAGAGGGAGCGAACCCATTTGTAAAAAATTG
1 TTCGAGTTCTATACT-CCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * *
11233308 TTCGAGTTCCATACTCCTTAAA-AAAGAAGGAGCGAACCCGTTTGAAGAAGA-TG
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * ** *
11233361 TTCGAG-TCTCATACT-CTCTGAAGGAATAGGGAGC-AGACACGATTGTTGAAGA-TG
1 TTCGAGTTCT-ATACTCCT-TAAAGAAAGAGGGAGCGA-ACCCGTTTGCAGAAGATTA
* * * *
11233415 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACCCGTTTTCAGAAGATT-
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11233469 TT---GTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TG
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11233520 TTCGAGTTCTATACTCCCTAAAGAAAGA-GGAGCGAACCCATTGGC--AAGATTA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * * * * *
11233572 TTCAAGTTCTATACTCCCTGAAGAAAGAGAGAACGAACCCATTTTCATAAGATTG
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * *
11233627 TTCGAGTTCCATACTCCCTAAAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATT-
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* *
11233681 TTCGAGTTGTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * *
11233736 TTCGAGTTC--TACTTCCTGAAAGAAAGAGGGAGCGAACCCATTTACAGAAGA-TG
1 TTCGAGTTCTATAC-TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * *
11233789 TTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGAGAACTCGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
*
11233844 TTCGAGTTCTATACT-CTCTAAAGAAAGAGGGAGCGAACCCGTTTGTAGAAGATTA
1 TTCGAGTTCTATACTCCT-TAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* *
11233899 TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTACAGAAGA-TA
1 TTCGAGTTCTATAC-TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * ** *
11233954 TTCAAGTT-TCATACTCCCTAGACAAAGAGGGAGCGAACTCGTAAGAAGAAGATTA
1 TTCGAGTTCT-ATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * **
11234009 TTCGAGTTCCATACTCCTGAAAGAAAGAGGGAGAAAACCCGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * *
11234064 TTCGAGTTTTATACTTCCTGAAAGAAAGAGGGAGTGAACTCGTTTGCAAAAGATTA
1 TTCGAGTTCTATAC-TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11234120 TTCGAGTTCTATACTCCCTAAAGAAAGAGAGAGTGAACCCGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * *
11234175 TTTGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACTCGTTTACAGAATA-TG
1 TTCGAGTTCTATAC-TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * ** *
11234230 TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGGACTCGTAAGAAGAAGATTA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * *
11234285 TTC--GTTCCATACTCCTGAAAG-AAGAGGGAGAGAACCCGATTGCAGAAGATTA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * *
11234337 TTCGAGTTCTATACTTCCTGAAATAAAAAGGGAGTGAGCCCGTTTGTAGAAGATTA
1 TTCGAGTTCTATAC-TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* **
11234393 TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTATAGAAGATTA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* *
11234448 TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * *
11234503 TTCGAATTCTATACTTCCTGAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TG
1 TTCGAGTTCTATAC-TCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * * *
11234558 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCCGTTTGAAGAAGA-TG
1 TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11234612 TTCGAGTT-TCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAA
1 TTCGAGTTCT-ATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAA
11234662 TGTCCGAGTT
Statistics
Matches: 1145, Mismatches: 172, Indels: 74
0.82 0.12 0.05
Matches are distributed among these distances:
50 1 0.00
51 49 0.04
52 58 0.05
53 76 0.07
54 387 0.34
55 386 0.34
56 186 0.16
57 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (55 bp):
TTCGAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
Found at i:11233642 original size:55 final size:55
Alignment explanation
Indices: 11233254--11234738 Score: 1488
Period size: 55 Copynumber: 27.4 Consensus size: 55
11233244 AATGAAGATG
* * * * * * *
11233254 TTCGAATTCTATACTCCCTTAA-AAAGAGGGAGCGAACCCATTTGTAAAAAATTG
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * *
11233308 TTCGAGTTCCATACT-CCTTAAAAAAGAAGGAGCGAACCCGTTTGAAGAAGA-TG
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * ** *
11233361 TTCGAG-TCTCATACTCTCTGAAGGAATAGGGAGC-AGACACGATTGTTGAAGA-TG
1 TTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTGCAGAAGATTA
* *
11233415 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACCCGTTTTCAGAAGATT-
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11233469 TT---GTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TG
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11233520 TTCGAGTTCTATACTCCCTAAAGAAAGA-GGAGCGAACCCATTGGC--AAGATTA
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * * *
11233572 TTCAAGTTCTATACTCCCTGAAGAAAGAGAGAACGAACCCATTTTCATAAGATTG
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * *
11233627 TTCGAGTTCCATACTCCCTAAAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATT-
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* *
11233681 TTCGAGTTGTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * *
11233736 TTCGAGTTC--TACTTCCTGAAAGAAAGAGGGAGCGAACCCATTTACAGAAGA-TG
1 TTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* *
11233789 TTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGAGAACTCGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11233844 TTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCGTTTGTAGAAGATTA
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* *
11233899 TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTACAGAAGA-TA
1 TTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * ** *
11233954 TTCAAGTT-TCATACTCCCT-AGACAAAGAGGGAGCGAACTCGTAAGAAGAAGATTA
1 TTCGAGTTCT-ATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* **
11234009 TTCGAGTTCCATACT-CCTGAAAGAAAGAGGGAGAAAACCCGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * *
11234064 TTCGAGTTTTATACTTCCTGAAAGAAAGAGGGAGTGAACTCGTTTGCAAAAGATTA
1 TTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11234120 TTCGAGTTCTATACTCCCTAAAGAAAGAGAGAGTGAACCCGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * *
11234175 TTTGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACTCGTTTACAGAATA-TG
1 TTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * ** *
11234230 TTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGGACTCGTAAGAAGAAGATTA
1 TTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11234285 TTC--GTTCCATACT-CCTGAA-AGAAGAGGGAGAGAACCCGATTGCAGAAGATTA
1 TTCGAGTTCTATACTCCCTGAAGA-AAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * * *
11234337 TTCGAGTTCTATACTTCCTGAAATAAAAAGGGAGTGAGCCCGTTTGTAGAAGATTA
1 TTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* **
11234393 TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTATAGAAGATTA
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* *
11234448 TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * *
11234503 TTCGAATTCTATACTTCCTGAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TG
1 TTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * * * *
11234558 TCCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGTGAACCCGTTTGAAGAAGA-TG
1 TTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* *
11234612 TTCGAGTT-TCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTT---GAAGAATG
1 TTCGAGTTCT-ATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
* * *
11234664 TCCGAGTTCTATACTCCCTGAA-AATG-GGGAGCAAACCCG-TTG-ATCGAAGATTGA
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCA--GAAGATT-A
* *
11234718 -TCGAGTCCTACACTCCCTGAA
1 TTCGAGTTCTATACTCCCTGAA
11234739 AGAATAGGGA
Statistics
Matches: 1213, Mismatches: 168, Indels: 101
0.82 0.11 0.07
Matches are distributed among these distances:
49 2 0.00
50 13 0.01
51 58 0.05
52 79 0.07
53 104 0.09
54 369 0.30
55 400 0.33
56 187 0.15
57 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (55 bp):
TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTA
Found at i:11234050 original size:328 final size:329
Alignment explanation
Indices: 11233247--11234750 Score: 1564
Period size: 328 Copynumber: 4.6 Consensus size: 329
11233237 TGAAGCAAAT
* * * * ** * *
11233247 GAAGATGTTCGAATTCTATACTCCCTTAA-AAAGAGGGAGCGAACCCATTTGTAAAAAATTGTTC
1 GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTACAGAAGATTGTTC
* * * *
11233311 GAGTTCCATACTCCTTA-AAAAAGAAGGAGCGAACCCGTTTGAAGAAGA-TGTTCGAG-TCTCAT
66 GAGTTCCATACTCCCTAGAAAAAGAGGGAGCGAACCCGTATGAAGAAGATTATTCGAGTTC-CAT
* * * * * ** *
11233373 ACTCTCTG-AAGGAATAGGGAGCAGACACGATTGTTGAAGA-TGTTCGAGTTCTATACTCCCTG-
130 ACTC-CTGAAAGAAAGAGGGAGCAAACCCGTTTGCAGAAGATTATTCGAGTTC-ATACTCCCTGA
* *
11233435 AAGAAAGAGGGAACGAACCCGTTTTCAGAAGATT-TT---GTTCTATACTCCCTAAAGAAAGAGG
193 AAGAAAGAGGGAGCGAACCCGTTTACAGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGG
* * *
11233496 GAGCGAACCCGTTTGAAGAAGA-TGTTCGAGTTCTATACTCCCT-AAAGAAAGA-GGAGCGAACC
258 GAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACC
*
11233558 C-ATTG-
323 CGTTTGA
* * * * * * *
11233563 GCAAGATTATTCAAGTTCTATACTCCCTGAAGAAAGAGAGAACGAACCCATTTTCATAAGATTGT
1 G-AAGA-TATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTACAGAAGATTGT
* * * * **
11233628 TCGAGTTCCATACTCCCTA-AAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATT-TTCGAGTTGT
64 TCGAGTTCCATACTCCCTAGAA-AAAGAGGGAGCGAACCCGTATGAAGAAGATTATTCGAGTTCC
* *
11233691 ATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTC-TACTTCCTG
128 ATACT-CCTGAAAGAAAGAGGGAGCAAACCCGTTTGCAGAAGATTATTCGAGTTCATACTCCCTG
* * *
11233754 AAAGAAAGAGGGAGCGAACCCATTTACAGAAGA-TGTTCGAGTTCTATACTCCCTAGAGAAAGAG
192 AAAGAAAGAGGGAGCGAACCCGTTTACAGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAG
* *
11233818 GGAGAGAACTCGTTTGCAGAAGATTATTCGAGTTCTATAC-TCTCT-AAAGAAAGAGGGAGCGAA
257 GGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTC-CTGAAAGAAAGAGGGAGCGAA
11233881 CCCGTTTGTA
321 CCCGTTTG-A
* *
11233891 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTACAGAAGA-TAT
1 GAAGA-TATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTACAGAAGATTGT
* * * * *
11233955 TCAAGTTTCATACTCCCTAGACAAAGAGGGAGCGAACTCGTAAGAAGAAGATTATTCGAGTTCCA
64 TCGAGTTCCATACTCCCTAGAAAAAGAGGGAGCGAACCCGTATGAAGAAGATTATTCGAGTTCCA
* * *
11234020 TACTCCTGAAAGAAAGAGGGAGAAAACCCGTTTGCAGAAGATTATTCGAGTTTTATACTTCCTGA
129 TACTCCTGAAAGAAAGAGGGAGCAAACCCGTTTGCAGAAGATTATTCGAG-TTCATACTCCCTGA
* * * * *
11234085 AAGAAAGAGGGAGTGAACTCGTTTGCAAAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGA
193 AAGAAAGAGGGAGCGAACCCGTTTACAGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGG
* * *
11234150 GAGTGAACCCGTTTGCAGAAGATTATTTGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACT
258 GAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACC
*
11234215 CGTTTACA
323 CGTTT-GA
* * * * * * * * *
11234223 GAATATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGGACTCG-TAAGAAGAAGATTATT
1 GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTA-CAGAAGATTGTT
* * *
11234287 C--GTTCCATACT-CCT-GAAAGAAGAGGGAGAGAACCCG-ATTGCAGAAGATTATTCGAGTTCT
65 CGAGTTCCATACTCCCTAGAAA-AAGAGGGAGCGAACCCGTA-TGAAGAAGATTATTCGAGTTCC
* * ** * *
11234347 ATACTTCCTGAAATAAAAAGGGAGTGAGCCCGTTTGTAGAAGATTATTCGAGTTCTATACTCCCT
128 ATAC-TCCTGAAAGAAAGAGGGAGCAAACCCGTTTGCAGAAGATTATTCGAGTTC-ATACTCCCT
*
11234412 -AAAGAAAGAGGGAGCGAACCCGTTTATAGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGA
191 GAAAGAAAGAGGGAGCGAACCCGTTTACAGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGA
* * *
11234476 GGGAGCGAACCTGTTTGCAGAAGATTATTCGAATTCTATACTTCCTGAGAGAAAGAGGGAGCGAA
256 GGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAA
11234541 CCCGTTTGAA
321 CCCGTTTG-A
* * * * *
11234551 GAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCCGTTTGA-AGAAGA-TGTT
1 GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT-ACAGAAGATTGTT
* * * * * *
11234614 CGAGTTTCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-A-A-TGTCCGAGTTCTAT
65 CGAGTTCCATACTCCCTAGAAAAAGAGGGAGCGAACCCGTATGAAGAAGATTATTCGAGTTCCAT
* * *
11234676 ACTCCCTG-AA-AATG-GGGAGCAAACCCG-TTG-ATCGAAGATTGA-TCGAGTCCTACACTCCC
130 ACT-CCTGAAAGAAAGAGGGAGCAAACCCGTTTGCA--GAAGATT-ATTCGAGTTC-ATACTCCC
*
11234735 TGAAAG-AATAGGGAGC
190 TGAAAGAAAGAGGGAGC
11234751 ACACATGTTT
Statistics
Matches: 1009, Mismatches: 130, Indels: 90
0.82 0.11 0.07
Matches are distributed among these distances:
316 1 0.00
317 4 0.00
318 20 0.02
319 56 0.06
320 93 0.09
321 13 0.01
322 1 0.00
323 47 0.05
324 68 0.07
325 18 0.02
326 6 0.01
327 99 0.10
328 300 0.30
329 73 0.07
330 86 0.09
331 93 0.09
332 31 0.03
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (329 bp):
GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTACAGAAGATTGTTC
GAGTTCCATACTCCCTAGAAAAAGAGGGAGCGAACCCGTATGAAGAAGATTATTCGAGTTCCATA
CTCCTGAAAGAAAGAGGGAGCAAACCCGTTTGCAGAAGATTATTCGAGTTCATACTCCCTGAAAG
AAAGAGGGAGCGAACCCGTTTACAGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAG
CGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGT
TTGA
Found at i:11243894 original size:34 final size:34
Alignment explanation
Indices: 11243851--11243918 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
11243841 AGTACTAGTA
*
11243851 AACGAATTTGGAACTAGAATATAGTGATGATGAG
1 AACGAATTTGGAACTAGAACATAGTGATGATGAG
* *
11243885 AACGAATTTGGAACTGGAACATAGTGATGGTGAG
1 AACGAATTTGGAACTAGAACATAGTGATGATGAG
11243919 TAATTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.29, T:0.25
Consensus pattern (34 bp):
AACGAATTTGGAACTAGAACATAGTGATGATGAG
Found at i:11246391 original size:3 final size:3
Alignment explanation
Indices: 11246383--11246465 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
11246373 ATTGATTTAT
* * * *
11246383 TTA TTA TTA TTA TTA TTA -TA TAA TTA CTA TAA ATA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
11246429 TTA -TA TTA -TA AAA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11246466 AATATATATA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
2 8 0.12
3 57 0.88
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:11246419 original size:26 final size:26
Alignment explanation
Indices: 11246390--11246497 Score: 104
Period size: 26 Copynumber: 4.3 Consensus size: 26
11246380 TATTTATTAT
*
11246390 TATTATTATTATATAATTACTATAAA
1 TATTATTATTATATTATTACTATAAA
*
11246416 TATTATTATTATATTA-TATTATAAA
1 TATTATTATTATATTATTACTATAAA
*
11246441 -ATTATTATTATTATTATTATTATTAAA
1 TATTATTATTA-TATTATTACTA-TAAA
11246468 TA-TA-TA-TATA-TATATAC-ATAAA
1 TATTATTATTATATTAT-TACTATAAA
*
11246490 TAATATTA
1 TATTATTA
11246498 AAAAATTACA
Statistics
Matches: 72, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
22 6 0.08
23 6 0.08
24 16 0.22
25 15 0.21
26 22 0.31
27 6 0.08
28 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTATTATTATATTATTACTATAAA
Found at i:11246599 original size:16 final size:16
Alignment explanation
Indices: 11246580--11246620 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
11246570 CTCTAACCCT
*
11246580 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTACCTCC
11246596 AGCCGCCTCTACCTCC
1 AGCCGCCTCTACCTCC
11246612 AGCCGCCTC
1 AGCCGCCTC
11246621 AGCCAACGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.10, C:0.56, G:0.17, T:0.17
Consensus pattern (16 bp):
AGCCGCCTCTACCTCC
Found at i:11248398 original size:92 final size:87
Alignment explanation
Indices: 11248280--11248460 Score: 317
Period size: 92 Copynumber: 2.0 Consensus size: 87
11248270 AGGTATTCGA
11248280 CCTACCTGACCCAAAGGCGATGGCGACTCCCAAATTATTTTCAAAACCATTTATTCACATCAATT
1 CCTACCTGACCCAAAGGCGATGGCGACTCCCAAATTATTTTCAAAACCATTTATTCACATCAATT
11248345 TTCCCGTCAAGAAAAATATTTCGTG
66 TT-CCGTC-AG-AAAATATTTCGTG
11248370 CCTACCTGACCCAAAAGGCCGATGGCGACTCCCAAATTATTTTCAAAACCATTTATTCACATCAA
1 CCTACCTGACCC-AAAGG-CGATGGCGACTCCCAAATTATTTTCAAAACCATTTATTCACATCAA
11248435 TTTTCCGTCAGAAAATATTTCGTG
64 TTTTCCGTCAGAAAATATTTCGTG
11248459 CC
1 CC
11248461 CGGACGAAAA
Statistics
Matches: 89, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
89 15 0.17
90 14 0.16
91 10 0.11
92 50 0.56
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (87 bp):
CCTACCTGACCCAAAGGCGATGGCGACTCCCAAATTATTTTCAAAACCATTTATTCACATCAATT
TTCCGTCAGAAAATATTTCGTG
Found at i:11248619 original size:19 final size:18
Alignment explanation
Indices: 11248565--11248632 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
11248555 TTAAAATTTC
*
11248565 ATATATTTA-ATTTATA-
1 ATATTTTTATATTTATAT
* * *
11248581 ATTTTTTTATATATACAT
1 ATATTTTTATATTTATAT
11248599 ATATTTTTACTATTTATAT
1 ATATTTTTA-TATTTATAT
*
11248618 ATATTATTAATATTT
1 ATATT-TTTATATTT
11248633 CATTTTATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
16 7 0.17
17 5 0.12
18 8 0.20
19 17 0.43
20 3 0.08
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTTTATATTTATAT
Found at i:11255032 original size:8 final size:8
Alignment explanation
Indices: 11255019--11255054 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
11255009 CTTGAAGAAA
11255019 AAAAAAAG
1 AAAAAAAG
11255027 -AAAAAAG
1 AAAAAAAG
11255034 AAAAAAAG
1 AAAAAAAG
*
11255042 AGAAAAAG
1 AAAAAAAG
11255050 AAAAA
1 AAAAA
11255055 GGGGGGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:11255039 original size:15 final size:16
Alignment explanation
Indices: 11255019--11255054 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
11255009 CTTGAAGAAA
11255019 AAAAAAAGA-AAAAAG
1 AAAAAAAGAGAAAAAG
11255034 AAAAAAAGAGAAAAAG
1 AAAAAAAGAGAAAAAG
11255050 AAAAA
1 AAAAA
11255055 GGGGGGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAG
Found at i:11255039 original size:16 final size:17
Alignment explanation
Indices: 11255018--11255054 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
11255008 GCTTGAAGAA
11255018 AAAAAAAAGA-AAAAAG
1 AAAAAAAAGAGAAAAAG
11255034 -AAAAAAAGAGAAAAAG
1 AAAAAAAAGAGAAAAAG
11255050 AAAAA
1 AAAAA
11255055 GGGGGGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 6 0.32
17 4 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAGAAAAAG
Found at i:11256330 original size:83 final size:83
Alignment explanation
Indices: 11256191--11256499 Score: 557
Period size: 83 Copynumber: 3.7 Consensus size: 83
11256181 TAACTGGAAT
11256191 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
11256256 CCAATCATTGAATTTAGA
66 CCAATCATTGAATTTAGA
*
11256274 AGATGAATTTGC-CAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
11256338 ACCAATCATTGAATTTAGA
65 ACCAATCATTGAATTTAGA
*
11256357 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
* *
11256422 CCAATCATTGGATTTAAA
66 CCAATCATTGAATTTAGA
*
11256440 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGATCTTTGAGTTATCTGATCTGGTTTGG
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
11256500 TAGGAACTAC
Statistics
Matches: 218, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
82 1 0.00
83 216 0.99
84 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (83 bp):
AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
CCAATCATTGAATTTAGA
Found at i:11257559 original size:113 final size:113
Alignment explanation
Indices: 11257219--11257783 Score: 800
Period size: 113 Copynumber: 5.0 Consensus size: 113
11257209 TAGCAAAGAT
* * * * *
11257219 TCAAATCTATCATTTGATGGATTGA-CATTTCCAGAGAAAGTTCATAATAAGAAAAACTCATCTG
1 TCAAATCCATCATTTGATGGA-TCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * *
11257283 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * * * *
11257332 TTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCAT
1 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCAT
*
11257396 CTGAAGAAGGAA-TA-AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
62 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
11257446 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
11257511 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11257559 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
11257624 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAGCCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
11257672 -CTGAATTCATCAATTGATGGATTATCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTG
1 TC-AAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * *
11257735 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11257784 ATAATTCTAT
Statistics
Matches: 409, Mismatches: 34, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
111 16 0.04
112 77 0.19
113 218 0.53
114 79 0.19
115 3 0.01
116 16 0.04
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:11257614 original size:227 final size:226
Alignment explanation
Indices: 11257219--11257783 Score: 827
Period size: 227 Copynumber: 2.5 Consensus size: 226
11257209 TAGCAAAGAT
* * * *
11257219 TCAAATCTATCATTTGATGGATTGA-CATTTCCAGAGAAAGTTCATAATAAGAAAAACTCATCTG
1 TCAAATCCATCATTTGATGGA-TCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTG
* ** *
11257283 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTG
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCATTTG
* *
11257348 ATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA-TA-A
130 ATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGA
*
11257411 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
192 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
11257446 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
* *
11257511 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCATTTGA
* * *
11257576 TGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
131 TGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
11257640 TCATAATGAGAAGAATTTGTTCAGCCTTTTAC
195 TCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * * * *
11257672 -CTGAATTCATCAATTGATGGATTATCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTG
1 TC-AAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTG
*
11257735 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
11257784 ATAATTCTAT
Statistics
Matches: 308, Mismatches: 25, Indels: 12
0.89 0.07 0.03
Matches are distributed among these distances:
224 16 0.05
225 75 0.24
226 66 0.21
227 150 0.49
228 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (226 bp):
TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCATTTGA
TGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAATTTGTTCAACCTTTTAC
Found at i:11258122 original size:3 final size:3
Alignment explanation
Indices: 11258114--11258206 Score: 114
Period size: 3 Copynumber: 31.0 Consensus size: 3
11258104 ATTGATTTAT
* * * *
11258114 TTA TTA TTA TTA TAA TTA TAA TTA TTA TTA TTA TTA TTA TAA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
11258162 TAA ATA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11258207 AATATATATA
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:11258346 original size:16 final size:16
Alignment explanation
Indices: 11258327--11258367 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
11258317 CTCTAACCCT
11258327 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
11258343 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
11258359 AGCCGCCTC
1 AGCCGCCTC
11258368 AGCCAACGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.56, G:0.20, T:0.17
Consensus pattern (16 bp):
AGCCGCCTCTGCCTCC
Found at i:11264831 original size:29 final size:29
Alignment explanation
Indices: 11264789--11264846 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11264779 TTAATGCACC
11264789 ATGGGTAAGTCCAAAACACAAAGTAGAAT
1 ATGGGTAAGTCCAAAACACAAAGTAGAAT
*
11264818 ATGGGTAAGTCCAAAACACAAATTAGAAT
1 ATGGGTAAGTCCAAAACACAAAGTAGAAT
11264847 TAGCATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (29 bp):
ATGGGTAAGTCCAAAACACAAAGTAGAAT
Found at i:11270221 original size:18 final size:18
Alignment explanation
Indices: 11270179--11270221 Score: 79
Period size: 17 Copynumber: 2.4 Consensus size: 18
11270169 CCTTCACCAT
11270179 AGTATCGATACTCCCTTA
1 AGTATCGATACTCCCTTA
11270197 A-TATCGATACTCCCTTA
1 AGTATCGATACTCCCTTA
11270214 AGTATCGA
1 AGTATCGA
11270222 CACCAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (18 bp):
AGTATCGATACTCCCTTA
Found at i:11290579 original size:20 final size:20
Alignment explanation
Indices: 11290556--11290596 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11290546 GACACATGAA
11290556 ATAAATTATGGATACACTCT
1 ATAAATTATGGATACACTCT
11290576 ATAAATTATGGATACACTCT
1 ATAAATTATGGATACACTCT
11290596 A
1 A
11290597 ACTCTAGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (20 bp):
ATAAATTATGGATACACTCT
Found at i:11302245 original size:36 final size:36
Alignment explanation
Indices: 11302212--11302311 Score: 128
Period size: 36 Copynumber: 2.8 Consensus size: 36
11302202 CATATTAAAT
*
11302212 AGATAAAAACAACGAACCTTACACATTACATTAAGG
1 AGATAAAAACAACAAACCTTACACATTACATTAAGG
* ** *
11302248 AGATAAAAAGAACAAACCTTACATGTTGCATTAAGG
1 AGATAAAAACAACAAACCTTACACATTACATTAAGG
* * *
11302284 AGATAATAATAACAAACCTTAAACATTA
1 AGATAAAAACAACAAACCTTACACATTA
11302312 AATAAAATCA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (36 bp):
AGATAAAAACAACAAACCTTACACATTACATTAAGG
Found at i:11303085 original size:12 final size:12
Alignment explanation
Indices: 11303060--11303119 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
11303050 AGATAACATT
11303060 AAACATAATTATAA
1 AAACATAA--ATAA
*
11303074 AAACTTAAATAA
1 AAACATAAATAA
*
11303086 AATCATAAATAA
1 AAACATAAATAA
11303098 TAAA-AT--ATAA
1 -AAACATAAATAA
11303108 AAACATAAATAA
1 AAACATAAATAA
11303120 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
9 3 0.08
10 6 0.16
12 20 0.53
13 2 0.05
14 7 0.18
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (12 bp):
AAACATAAATAA
Found at i:11303154 original size:41 final size:45
Alignment explanation
Indices: 11303104--11303200 Score: 130
Period size: 47 Copynumber: 2.2 Consensus size: 45
11303094 ATAATAAAAT
*
11303104 ATAAAAACAT-AA-A-TAAGTTTAT-CAAAATTACATAACATCAA
1 ATAAAAACATAAACATTAAGTTTATCCAAAACTACATAACATCAA
*
11303145 ATAAAAACATAAATCATTTAAGTTTATCCAAAACTACATAACATTAA
1 ATAAAAACATAAA-CA-TTAAGTTTATCCAAAACTACATAACATCAA
11303192 ATAAAAACA
1 ATAAAAACA
11303201 AGATAACATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
41 10 0.21
42 2 0.04
44 1 0.02
46 9 0.19
47 26 0.54
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (45 bp):
ATAAAAACATAAACATTAAGTTTATCCAAAACTACATAACATCAA
Found at i:11303199 original size:21 final size:21
Alignment explanation
Indices: 11303174--11303215 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11303164 AAGTTTATCC
*
11303174 AAAACTACATAACATTAAATA
1 AAAACAACATAACATTAAATA
*
11303195 AAAACAAGATAACATTAAATA
1 AAAACAACATAACATTAAATA
11303216 TAATTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAACAACATAACATTAAATA
Found at i:11303233 original size:22 final size:22
Alignment explanation
Indices: 11303205--11303301 Score: 74
Period size: 22 Copynumber: 4.3 Consensus size: 22
11303195 AAAACAAGAT
11303205 AACATTAAATATAATTATAAAA
1 AACATTAAATATAATTATAAAA
* **
11303227 AACATTACAT-TAAACATAAAGA
1 AACATTAAATATAATTATAAA-A
* **
11303249 AATATTAAATCATTTAAGTT-TATCA
1 AACATTAAAT-A--TAA-TTATAAAA
11303274 AACATTAAATATAATTAT-AAA
1 AACATTAAATATAATTATAAAA
11303295 AACATTA
1 AACATTA
11303302 CATTAAACAT
Statistics
Matches: 56, Mismatches: 12, Indels: 15
0.67 0.14 0.18
Matches are distributed among these distances:
21 18 0.32
22 22 0.39
24 1 0.02
25 10 0.18
26 5 0.09
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (22 bp):
AACATTAAATATAATTATAAAA
Found at i:11303320 original size:68 final size:69
Alignment explanation
Indices: 11303205--11303343 Score: 262
Period size: 68 Copynumber: 2.0 Consensus size: 69
11303195 AAAACAAGAT
11303205 AACATTAAATATAATTATAAAAAACATTACATTAAACATAAAGAAATATTAAATCATTTAAGTTT
1 AACATTAAATATAATTATAAAAAACATTACATTAAACATAAAGAAATATTAAATCATTTAAGTTT
11303270 ATCA
66 ATCA
*
11303274 AACATTAAATATAATTAT-AAAAACATTACATTAAACATAAATAAATATTAAATCATTTAAGTTT
1 AACATTAAATATAATTATAAAAAACATTACATTAAACATAAAGAAATATTAAATCATTTAAGTTT
11303338 ATCA
66 ATCA
11303342 AA
1 AA
11303344 ATCTAATGAT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 51 0.74
69 18 0.26
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (69 bp):
AACATTAAATATAATTATAAAAAACATTACATTAAACATAAAGAAATATTAAATCATTTAAGTTT
ATCA
Found at i:11307283 original size:24 final size:24
Alignment explanation
Indices: 11307256--11307361 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
11307246 AAACGGAGAT
11307256 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * * *
11307280 ATCAGATATCAGAACAGAATCCGG
1 ATCAGAAATCAAAACATAATTCAG
* * * * *
11307304 GTTAGGAATCAGAACA-GATTCAG
1 ATCAGAAATCAAAACATAATTCAG
** *
11307327 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACATAATTCAG
11307351 ATCAGAAATCA
1 ATCAGAAATCA
11307362 GATAAAATAT
Statistics
Matches: 59, Mismatches: 22, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
23 14 0.24
24 45 0.76
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACATAATTCAG
Found at i:11307361 original size:47 final size:48
Alignment explanation
Indices: 11307256--11307363 Score: 110
Period size: 47 Copynumber: 2.3 Consensus size: 48
11307246 AAACGGAGAT
* * **
11307256 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCGG
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
11307304 GTTAGGAATCAGAACA-GATTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
11307351 ATCAGAAATCAGA
1 ATCAGAAATCAGA
11307364 TAAAATATTC
Statistics
Matches: 46, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
47 34 0.74
48 12 0.26
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:11309837 original size:8 final size:8
Alignment explanation
Indices: 11309824--11309863 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
11309814 GGTCAACTCC
11309824 GGTCAACG
1 GGTCAACG
11309832 GGTCAAC-
1 GGTCAACG
11309839 GGTCAACG
1 GGTCAACG
11309847 GGT---CG
1 GGTCAACG
11309852 GGTCAACG
1 GGTCAACG
11309860 GGTC
1 GGTC
11309864 GGGTAAACGG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:11309879 original size:18 final size:18
Alignment explanation
Indices: 11309858--11309903 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
11309848 GTCGGGTCAA
11309858 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
11309876 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
11309894 CGGGTCGGGT
1 CGGGTCGGGT
11309904 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.20, G:0.52, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:11309892 original size:26 final size:27
Alignment explanation
Indices: 11309829--11309893 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
11309819 ACTCCGGTCA
*
11309829 ACGGGTCAAC-GGTCAACGGGTCGGGT
1 ACGGGTCAACGGGTAAACGGGTCGGGT
11309855 CAACGGGT---CGGGTAAACGGGTCGGGT
1 --ACGGGTCAACGGGTAAACGGGTCGGGT
11309881 -CGGGTCAACGGGT
1 ACGGGTCAACGGGT
11309894 CGGGTCGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
23 5 0.16
25 1 0.03
26 20 0.62
28 6 0.19
ACGTcount: A:0.18, C:0.22, G:0.45, T:0.15
Consensus pattern (27 bp):
ACGGGTCAACGGGTAAACGGGTCGGGT
Found at i:11309899 original size:13 final size:13
Alignment explanation
Indices: 11309824--11309881 Score: 80
Period size: 13 Copynumber: 4.3 Consensus size: 13
11309814 GGTCAACTCC
*
11309824 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
11309839 GGTCAACGGGTCG
1 GGTCAACGGGTCG
11309852 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
11309865 GGTAAACGGGTCG
1 GGTCAACGGGTCG
11309878 GGTC
1 GGTC
11309882 GGGTCAACGG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 28 0.70
15 12 0.30
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:11311991 original size:24 final size:24
Alignment explanation
Indices: 11311964--11312070 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
11311954 AAACGGAGAT
*
11311964 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
11311988 ATCAGATATCAGAACAGAATCCGG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
11312012 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
11312036 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
11312060 ATCAGAAATCA
1 ATCAGAAATCA
11312071 GATAAAATAT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:11312070 original size:48 final size:48
Alignment explanation
Indices: 11311964--11312072 Score: 110
Period size: 48 Copynumber: 2.3 Consensus size: 48
11311954 AAACGGAGAT
* * * **
11311964 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCGG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
11312012 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
11312060 ATCAGAAATCAGA
1 ATCAGAAATCAGA
11312073 TAAAATATTC
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:11313221 original size:18 final size:18
Alignment explanation
Indices: 11313194--11313229 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11313184 CCGATCTATT
11313194 ATTTAATTCAGTCATTTC
1 ATTTAATTCAGTCATTTC
* *
11313212 ATTTACTTCAGTCCTTTC
1 ATTTAATTCAGTCATTTC
11313230 GAACAATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTTAATTCAGTCATTTC
Found at i:11314559 original size:12 final size:12
Alignment explanation
Indices: 11314527--11314581 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 12
11314517 TGGTCAACTC
11314527 CGGTCAACGGGT
1 CGGTCAACGGGT
11314539 CAACGGTCAACGGGT
1 ---CGGTCAACGGGT
11314554 CGGTCAACGGGT
1 CGGTCAACGGGT
*
11314566 CGGGTAAACGGGT
1 C-GGTCAACGGGT
11314579 CGG
1 CGG
11314582 GTCGGGTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
12 15 0.39
13 11 0.29
15 12 0.32
ACGTcount: A:0.20, C:0.24, G:0.42, T:0.15
Consensus pattern (12 bp):
CGGTCAACGGGT
Found at i:11314584 original size:18 final size:18
Alignment explanation
Indices: 11314561--11314606 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
11314551 GGTCGGTCAA
11314561 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
11314579 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
11314597 CGGGTCGGGT
1 CGGGTCGGGT
11314607 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.20, G:0.52, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:11314602 original size:13 final size:13
Alignment explanation
Indices: 11314528--11314584 Score: 71
Period size: 13 Copynumber: 4.3 Consensus size: 13
11314518 GGTCAACTCC
*
11314528 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
11314543 GGTCAACGGGTC-
1 GGTCAACGGGTCG
11314555 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
11314568 GGTAAACGGGTCG
1 GGTCAACGGGTCG
11314581 GGTC
1 GGTC
11314585 GGGTCAACGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
12 12 0.31
13 15 0.38
15 12 0.31
ACGTcount: A:0.19, C:0.23, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:11319861 original size:20 final size:21
Alignment explanation
Indices: 11319832--11319870 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
11319822 CATGTTGAGT
11319832 TTGACTCGTTGACTTTGACAG
1 TTGACTCGTTGACTTTGACAG
11319853 TTGAC-CGTTGACTTTGAC
1 TTGACTCGTTGACTTTGAC
11319871 CAAAAAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (21 bp):
TTGACTCGTTGACTTTGACAG
Found at i:11320794 original size:26 final size:28
Alignment explanation
Indices: 11320748--11320806 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
11320738 GAATTACCTT
*
11320748 CTAAAGTGTAAAATGACCAAAA-TACCC
1 CTAAAGGGTAAAATGACCAAAAGTACCC
*
11320775 CTAAAGGGT-AAATGACCAAAAGTACCT
1 CTAAAGGGTAAAATGACCAAAAGTACCC
11320802 CTAAA
1 CTAAA
11320807 CCTTAGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.19
Consensus pattern (28 bp):
CTAAAGGGTAAAATGACCAAAAGTACCC
Found at i:11322794 original size:44 final size:44
Alignment explanation
Indices: 11322738--11322823 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
11322728 CAGCTCGTAA
* *
11322738 TTTGCACCGAAGTGTCATATAATTGTCCCG-AATGACCACATAGG
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAAT-ACCACATAGG
* * *
11322782 TTTGCACTGAAGTGCCACATATTTGTCCTGAAATACCACATA
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAATACCACATA
11322824 ATTGTCTAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 33 0.92
45 3 0.08
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTGTCCCGAAATACCACATAGG
Found at i:11323507 original size:20 final size:20
Alignment explanation
Indices: 11323479--11323556 Score: 97
Period size: 20 Copynumber: 3.8 Consensus size: 20
11323469 CCATCCCCTG
*
11323479 GTATTGATACTACCCTCACA
1 GTATCGATACTACCCTCACA
11323499 GTATCGATACTACCCTCACA
1 GTATCGATACTACCCTCACA
11323519 GTATCGATAC--CCTCTTCAACTA
1 GTATCGATACTACC-C-TC-AC-A
11323541 GTATCGATACTACCCT
1 GTATCGATACTACCCT
11323557 TAAGAAATAC
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 31 0.61
21 2 0.04
22 12 0.24
23 1 0.02
24 2 0.04
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.29
Consensus pattern (20 bp):
GTATCGATACTACCCTCACA
Found at i:11323917 original size:25 final size:25
Alignment explanation
Indices: 11323889--11323936 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
11323879 AAAAGCTACT
*
11323889 CCATATCAAAATTTCATTTCTAAAC
1 CCATATCAAAATTTCATCTCTAAAC
* * *
11323914 CCATTTTACAATTTCATCTCTAA
1 CCATATCAAAATTTCATCTCTAA
11323937 TTTACTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (25 bp):
CCATATCAAAATTTCATCTCTAAAC
Found at i:11330115 original size:140 final size:141
Alignment explanation
Indices: 11329861--11330186 Score: 415
Period size: 140 Copynumber: 2.3 Consensus size: 141
11329851 ATGGTTAAAA
* * * * * *
11329861 GATTCATCATCAGAGGATTTGAGATCGAGTT-TAACTAAATTTAGTTGTTACTGCACGTGTAGTT
1 GATTCATCATTAGATGATTTGAGATTGA-TTCTAACTACATTTAGCTGTTACCGCAC-TGTAGTT
* * * * *
11329925 TGATCTTTGGAATGGTGCTGTTTTCGCTAATAGCATAGTTGATGGTTAAAAGATTCATCATCCAA
64 TGATCTTTGGAATGGTGCTATTTTCACTAATAGCATAATTAACGGTTAAAAGATTCATCATCCAA
11329990 TGGATTTAAGATC
129 TGGATTTAAGATC
11330003 GATTCATCATTAGATGATTTGAGATTGATTCTAACTACATTTAGCTGTTACCGCA-TGTAGTTTA
1 GATTCATCATTAGATGATTTGAGATTGATTCTAACTACATTTAGCTGTTACCGCACTGTAGTTT-
* **
11330067 GA-CTTTGGAATGGTGCTATTTTCACTGATAGCATAATTAACGGTTAAAAGATTCATCATCGGAT
65 GATCTTTGGAATGGTGCTATTTTCACTAATAGCATAATTAACGGTTAAAAGATTCATCATCCAAT
*
11330131 GGATTTGAGATC
130 GGATTTAAGATC
* * ** *
11330143 GATTCATCATTGGATGGATTTCAGATTGAGACTAGCTACATTTA
1 GATTCATCATTAGAT-GATTTGAGATTGATTCTAACTACATTTA
11330187 TCTTGCACAC
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
140 87 0.54
141 28 0.17
142 46 0.29
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (141 bp):
GATTCATCATTAGATGATTTGAGATTGATTCTAACTACATTTAGCTGTTACCGCACTGTAGTTTG
ATCTTTGGAATGGTGCTATTTTCACTAATAGCATAATTAACGGTTAAAAGATTCATCATCCAATG
GATTTAAGATC
Found at i:11330157 original size:27 final size:27
Alignment explanation
Indices: 11330116--11330168 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
11330106 ACGGTTAAAA
*
11330116 GATTCATCATCGGATGGATTTGAGATC
1 GATTCATCATCGGATGGATTTCAGATC
*
11330143 GATTCATCATTGGATGGATTTCAGAT
1 GATTCATCATCGGATGGATTTCAGAT
11330169 TGAGACTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (27 bp):
GATTCATCATCGGATGGATTTCAGATC
Found at i:11330202 original size:140 final size:137
Alignment explanation
Indices: 11329914--11330281 Score: 399
Period size: 140 Copynumber: 2.7 Consensus size: 137
11329904 GTTGTTACTG
* * *
11329914 CACGTGTAGTTTGATCTTTGGAATGGTGCTGTTTTCGCTAATAGCATAGTTGATGGTTAAAAGAT
1 CACGTGTAGTTTGA-CTTTGGAATGGTGCTATTTTCACTAATAGCATAGTTGACGGTTAAAAGAT
* * **
11329979 TCATCATCCAATGGATTTAAGATCGATTCATCATTAGATGATTTGAGATTGATTCTAACTACATT
65 TCATCATCCGATGGATTT-AGATCGATTCATCATTAGATGATTTCAGATTGAGACTAACTACATT
*
11330044 TAGCTGTTA
129 TAGCTGTCA
* * *
11330053 C-CGCATGTAGTTTAGACTTTGGAATGGTGCTATTTTCACTGATAGCATAATTAACGGTTAAAAG
1 CACG--TGTAGTTT-GACTTTGGAATGGTGCTATTTTCACTAATAGCATAGTTGACGGTTAAAAG
* * *
11330117 ATTCATCATCGGATGGATTTGAGATCGATTCATCATTGGATGGATTTCAGATTGAGACTAGCTAC
63 ATTCATCATCCGATGGATTT-AGATCGATTCATCATTAGAT-GATTTCAGATTGAGACTAACTAC
*
11330182 ATTTATCT-TGCA
126 ATTTAGCTGT-CA
* * * * * *
11330194 CACGTGTAGTGTGGAC--T-GCA--GTGCAATTTTCACTAATAGCGTAGTTGACTGTTAAATGAT
1 CACGTGTAGT-TTGACTTTGGAATGGTGCTATTTTCACTAATAGCATAGTTGACGGTTAAAAGAT
*
11330254 TCATCATCTGATGGATTTATGATCGATT
65 TCATCATCCGATGGATTTA-GATCGATT
11330282 ATAATTGTTT
Statistics
Matches: 195, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
134 1 0.01
135 58 0.30
137 2 0.01
138 3 0.02
139 1 0.01
140 97 0.50
141 31 0.16
142 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (137 bp):
CACGTGTAGTTTGACTTTGGAATGGTGCTATTTTCACTAATAGCATAGTTGACGGTTAAAAGATT
CATCATCCGATGGATTTAGATCGATTCATCATTAGATGATTTCAGATTGAGACTAACTACATTTA
GCTGTCA
Found at i:11335057 original size:25 final size:26
Alignment explanation
Indices: 11335029--11335078 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
11335019 ATATGTTTTT
11335029 AATTTCTTTTATT-AAAATAACACCC
1 AATTTCTTTTATTCAAAATAACACCC
* * *
11335054 AATTTTTTTTTTTCAACATAACACC
1 AATTTCTTTTATTCAAAATAACACC
11335079 TATTAATGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTTCTTTTATTCAAAATAACACCC
Found at i:11335928 original size:2 final size:2
Alignment explanation
Indices: 11335921--11335959 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11335911 TCATTTTTAC
11335921 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11335960 TTTTTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11338217 original size:30 final size:30
Alignment explanation
Indices: 11338174--11338276 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
11338164 ATTGAAAGGG
11338174 AAAGAAGGGAAGAGGAAGAAGCTAGGAAGAA
1 AAAGAA-GGAAGAGGAAGAAGCTAGGAAGAA
*
11338205 AAAGAAGGAAGAGG-AG--GCTCA-AAAGAGA
1 AAAGAAGGAAGAGGAAGAAGCT-AGGAAGA-A
* * * *
11338233 AAGGAA-GAGGAAGAAGAAGCCAGGAAGAA
1 AAAGAAGGAAGAGGAAGAAGCTAGGAAGAA
*
11338262 AAAGGAGGAAGAGGA
1 AAAGAAGGAAGAGGA
11338277 GGCTCGAAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
27 12 0.22
28 9 0.16
29 8 0.15
30 20 0.36
31 6 0.11
ACGTcount: A:0.54, C:0.05, G:0.39, T:0.02
Consensus pattern (30 bp):
AAAGAAGGAAGAGGAAGAAGCTAGGAAGAA
Found at i:11338243 original size:6 final size:6
Alignment explanation
Indices: 11338234--11338345 Score: 52
Period size: 6 Copynumber: 18.2 Consensus size: 6
11338224 CAAAAGAGAA
* ** * * *
11338234 AGGAAG AGGAAG AAGAAG CCAGGAAG AAAAAGG AGGAAG AGGAGG CTCGAAAG
1 AGGAAG AGGAAG AGGAAG --AGGAAG AGGAA-G AGGAAG AGGAAG --AGGAAG
* **
11338287 AGG-AG -GGAAG AGGAAG AGGAGG CTCGAAG -GAGAAG A-GAAG AGGAAG
1 AGGAAG AGGAAG AGGAAG AGGAAG -AGGAAG AG-GAAG AGGAAG AGGAAG
11338333 AGGAAG AGGAAG A
1 AGGAAG AGGAAG A
11338346 AGCCAGGAGG
Statistics
Matches: 78, Mismatches: 17, Indels: 22
0.67 0.15 0.19
Matches are distributed among these distances:
4 2 0.03
5 9 0.12
6 52 0.67
7 7 0.09
8 8 0.10
ACGTcount: A:0.47, C:0.05, G:0.46, T:0.02
Consensus pattern (6 bp):
AGGAAG
Found at i:11338259 original size:57 final size:57
Alignment explanation
Indices: 11338188--11338303 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
11338178 AAGGGAAGAG
*
11338188 GAAGAAGCTAGGAAGAAAAAGAAGGAAGAGGAGGCTCAAAAGAGAAAGGAAGAGGAA
1 GAAGAAGCCAGGAAGAAAAAGAAGGAAGAGGAGGCTCAAAAGAGAAAGGAAGAGGAA
* * * *
11338245 GAAGAAGCCAGGAAGAAAAAGGAGGAAGAGGAGGCTCGAAAGAGGAGGGAAGAGGAA
1 GAAGAAGCCAGGAAGAAAAAGAAGGAAGAGGAGGCTCAAAAGAGAAAGGAAGAGGAA
11338302 GA
1 GA
11338304 GGAGGCTCGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.51, C:0.06, G:0.41, T:0.03
Consensus pattern (57 bp):
GAAGAAGCCAGGAAGAAAAAGAAGGAAGAGGAGGCTCAAAAGAGAAAGGAAGAGGAA
Found at i:11338302 original size:30 final size:30
Alignment explanation
Indices: 11338210--11338336 Score: 129
Period size: 30 Copynumber: 4.3 Consensus size: 30
11338200 AAGAAAAAGA
*
11338210 AGGAAGAGGAGGCTCAAAAGAGAA-AGGAAG
1 AGGAAGAGGAGGCTCGAAAGAGAAGA-GAAG
* * * *
11338240 AGGAAGAAGAAGC-CAGGAAGA-AA-A-AGG
1 AGGAAGAGGAGGCTC-GAAAGAGAAGAGAAG
* *
11338267 AGGAAGAGGAGGCTCGAAAGAGGAGGGAAG
1 AGGAAGAGGAGGCTCGAAAGAGAAGAGAAG
*
11338297 AGGAAGAGGAGGCTCGAAGGAGAAGAGAAG
1 AGGAAGAGGAGGCTCGAAAGAGAAGAGAAG
11338327 AGGAAGAGGA
1 AGGAAGAGGA
11338337 AGAGGAAGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
27 18 0.23
28 2 0.03
29 4 0.05
30 54 0.69
ACGTcount: A:0.47, C:0.06, G:0.44, T:0.02
Consensus pattern (30 bp):
AGGAAGAGGAGGCTCGAAAGAGAAGAGAAG
Found at i:11338346 original size:21 final size:20
Alignment explanation
Indices: 11338329--11338439 Score: 107
Period size: 21 Copynumber: 5.2 Consensus size: 20
11338319 AAGAGAAGAG
11338329 GAAGAGGAAGAGGAAGAAGCCA
1 GAAG-GGAAGAGGAAGAAG-CA
* * *
11338351 GGAGGAAAGAGGAGGAAGCCA
1 GAAGGGAAGAGGAAGAAG-CA
11338372 GAAGGGAAGAGGAAGAAGCCA
1 GAAGGGAAGAGGAAGAAG-CA
11338393 GAAGGGAAGAGGAAGAAGCTAA
1 GAAGGGAAGAGGAAGAAGC--A
* *
11338415 GAAGAGAAGA-GAAGCAGCA
1 GAAGGGAAGAGGAAGAAGCA
11338434 GCAAGG
1 G-AAGG
11338440 AGAGAGCAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
19 2 0.03
20 4 0.05
21 58 0.75
22 13 0.17
ACGTcount: A:0.48, C:0.09, G:0.42, T:0.01
Consensus pattern (20 bp):
GAAGGGAAGAGGAAGAAGCA
Found at i:11338380 original size:42 final size:43
Alignment explanation
Indices: 11338329--11338450 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 43
11338319 AAGAGAAGAG
* * *
11338329 GAAGAGGAAGAGGAAGAAGCCAGGAGGAAAGAGGAGGAAGC-CA
1 GAAG-GGAAGAGGAAGAAGCCAGAAGGAAAGAGGAAGAAGCTAA
*
11338372 GAAGGGAAGAGGAAGAAGCCAGAAGGGAAGAGGAAGAAGCTAA
1 GAAGGGAAGAGGAAGAAGCCAGAAGGAAAGAGGAAGAAGCTAA
* * * *
11338415 GAAGAGAAGA-GAAGCAG-CAGCAAGGAGAGAGCAAGA
1 GAAGGGAAGAGGAAGAAGCCAG-AAGGAAAGAGGAAGA
11338451 GGAAGCCAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 3 0.04
42 51 0.75
43 14 0.21
ACGTcount: A:0.48, C:0.09, G:0.42, T:0.01
Consensus pattern (43 bp):
GAAGGGAAGAGGAAGAAGCCAGAAGGAAAGAGGAAGAAGCTAA
Found at i:11345783 original size:56 final size:56
Alignment explanation
Indices: 11345693--11345807 Score: 169
Period size: 56 Copynumber: 2.1 Consensus size: 56
11345683 TTCTTTGTAA
*
11345693 TGTTGCATGGCGTTGCATATGTTTTGCGACAACAACTCAAGATCATCCTTGCAAGG
1 TGTTGCATGGCGTTGCATATGTGTTGCGACAACAACTCAAGATCATCCTTGCAAGG
* * * *
11345749 TGTTGCATGGTGTTGCCTCTGTGTTGCG-CTAACAACTCAAGATCATCTTTGCAAGG
1 TGTTGCATGGCGTTGCATATGTGTTGCGAC-AACAACTCAAGATCATCCTTGCAAGG
11345805 TGT
1 TGT
11345808 AACTTCCTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
55 1 0.02
56 52 0.98
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (56 bp):
TGTTGCATGGCGTTGCATATGTGTTGCGACAACAACTCAAGATCATCCTTGCAAGG
Found at i:11355324 original size:13 final size:13
Alignment explanation
Indices: 11355287--11355338 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
11355277 GCATTTTGCT
11355287 TAAAAAAGAGAAAA
1 TAAAAAA-AGAAAA
* *
11355301 AAAGGAAAAAGATAA
1 TAA--AAAAAGAAAA
11355316 TAAAAAAAGAAAA
1 TAAAAAAAGAAAA
*
11355329 TAAATAAAGA
1 TAAAAAAAGA
11355339 GAGAAAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 18 0.58
14 2 0.06
15 7 0.23
16 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (13 bp):
TAAAAAAAGAAAA
Found at i:11355335 original size:20 final size:20
Alignment explanation
Indices: 11355297--11355335 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11355287 TAAAAAAGAG
*
11355297 AAAAAAAGGAAAAAGATAAT
1 AAAAAAAGGAAAAAAATAAT
11355317 AAAAAAA-GAAAATAAATAA
1 AAAAAAAGGAAAA-AAATAA
11355336 AGAGAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAAAAAGGAAAAAAATAAT
Found at i:11356839 original size:55 final size:55
Alignment explanation
Indices: 11356779--11357413 Score: 786
Period size: 55 Copynumber: 11.5 Consensus size: 55
11356769 AAAATGTCCT
*
11356779 AGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
1 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
* * *
11356834 AGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACAATTGTTGAAGATTATTCG
1 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
* *
11356889 AGTATTATACTCTCTGAAGAAATAGGGAGCATACACGATTGTTGAAGATTGTTCG
1 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
*
11356944 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATTGTTCG
1 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
* * *
11356999 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGGTTGTTGAATATTGTCCG
1 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
* *
11357054 AGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTTGAATATTGTTCG
1 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
*
11357109 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTTG
1 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
*
11357164 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGA-TGTTCG
1 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
* * * ** *
11357218 AGTCTTATACTCCCTGAAAGAAAGAGGGAGC-GA-ACTCATTTGCAGAAGATTATTCG
1 AGTCTTATACTCTCTG-AAGAAATAGGGAGCAGACAC-GA-TTGTTGAAGATTGTTCG
* * * * * *
11357274 AGT-TCAATACT-TCCTGAAAGAAAAAGGGAGC-GAACCCGTTTGTAGAAGATTATTCG
1 AGTCT-TATACTCT-CTG-AAGAAATAGGGAGCAG-ACACGATTGTTGAAGATTGTTCG
* * * ** *
11357330 AGT-TCTATACT-TCCTAAAATAAAAAGGGAGCAGACACGATTGCAGAAGATTATTCG
1 AGTCT-TATACTCT-CT-GAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
*
11357386 AGT-TCTATACT-TCCTGAAAGAAAGAGGG
1 AGTCT-TATACTCT-CTG-AAGAAATAGGG
11357414 TTTACAGAAG
Statistics
Matches: 524, Mismatches: 45, Indels: 21
0.89 0.08 0.04
Matches are distributed among these distances:
53 2 0.00
54 23 0.04
55 378 0.72
56 118 0.23
57 2 0.00
58 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (55 bp):
AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
Found at i:11357292 original size:56 final size:55
Alignment explanation
Indices: 11357214--11357647 Score: 484
Period size: 56 Copynumber: 8.0 Consensus size: 55
11357204 GTTGAAGATG
*
11357214 TTCGAG-TCTTATACTCCCTGAAAGAAAGAGGGAGCGAACTCATTTGCAGAAGATTA
1 TTCGAGTTC-TATACTTCCTGAAAGAAAGAGGGAGCGAAC-CATTTGCAGAAGATTA
* * * *
11357270 TTCGAGTTCAATACTTCCTGAAAGAAAAAGGGAGCGAACCCGTTTGTAGAAGATTA
1 TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAA-CCATTTGCAGAAGATTA
* * * *
11357326 TTCGAGTTCTATACTTCCTAAAATAAAAAGGGAGCAGACACGA-TTGCAGAAGATTA
1 TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGC-GA-ACCATTTGCAGAAGATTA
*
11357382 TTCGAGTTCTATACTTCCTGAAAGAAAGA--G-G-G-----TTTACAGAAGATTA
1 TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCATTTGCAGAAGATTA
* * * *
11357428 TTCGAGTTCTATACTTCATGAAAGAAAAAGGAAGCGAACCGTTTGCAGAAGATTA
1 TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCATTTGCAGAAGATTA
* *
11357483 TTCGAGTTCTATACTTCCTTAAAGAAAGAGGGAGCGAACCCATTTGCATAAGATTA
1 TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAA-CCATTTGCAGAAGATTA
* *
11357539 TTCGAGTTCTATACTTCCTGAAAAAAAAAGAGGGAGCAAACCCATTTGCAGAAGATTA
1 TTCGAGTTCTATACTTCCTG--AAAGAAAGAGGGAGCGAA-CCATTTGCAGAAGATTA
* **
11357597 TTCGAG---T-TACTTCCTAAAAGAAAGAGGGAGCGAACCTATTTTTAGAAGATT
1 TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACC-ATTTGCAGAAGATT
11357648 CTTTTCAAGT
Statistics
Matches: 326, Mismatches: 34, Indels: 40
0.81 0.09 0.10
Matches are distributed among these distances:
46 39 0.12
49 1 0.00
50 1 0.00
51 3 0.01
52 28 0.09
53 1 0.00
54 9 0.03
55 48 0.15
56 150 0.46
57 6 0.02
58 40 0.12
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (55 bp):
TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCATTTGCAGAAGATTA
Found at i:11357439 original size:46 final size:46
Alignment explanation
Indices: 11357372--11357514 Score: 178
Period size: 55 Copynumber: 2.9 Consensus size: 46
11357362 GACACGATTG
11357372 CAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGTTTA
1 CAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGTTTA
* *
11357418 CAGAAGATTATTCGAGTTCTATACTTCATGAAAGAAAAAGGAAGCGAACCGTTTG
1 CAGAAGATTATTCGAGTTCTATACTTCCTGAAAG--AAA-G-AG-G----GTTTA
*
11357473 CAGAAGATTATTCGAGTTCTATACTTCCTTAAAGAAAGAGGG
1 CAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGG
11357515 AGCGAACCCA
Statistics
Matches: 84, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
46 34 0.40
48 3 0.04
49 1 0.01
50 3 0.04
51 3 0.04
52 1 0.01
53 3 0.04
55 36 0.43
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
CAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGTTTA
Found at i:11357499 original size:213 final size:212
Alignment explanation
Indices: 11357214--11357624 Score: 598
Period size: 213 Copynumber: 1.9 Consensus size: 212
11357204 GTTGAAGATG
* * *
11357214 TTCGAGTCTTATACTCCCTGAAAGAAAGAGGGAGCGAACTCATTTGCAGAAGATTATTCGAGTTC
1 TTCGAGTCTTATACTCCATGAAAGAAAAAGGAAGCGAACTCATTTGCAGAAGATTATTCGAGTTC
* *
11357279 AATACTTCCTGAAAGAAAAAGGGAGCGAACCCGTTTGTAGAAGATTATTCGAGTTCTATACTTCC
66 AATACTTCCTGAAAGAAAAAGGGAGCGAACCCATTTGCAGAAGATTATTCGAGTTCTATACTTCC
* * * *
11357344 T-AAAATAAAA-AGGGAGCAGACACGA-TTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAAG
131 TGAAAAAAAAAGAGGGAGCAAAC-CCATTTGCAGAAGATTATTCGAG---T-TACTTCCTAAAAG
11357406 AAAGAGGGTTTACAGAAGATTA
191 AAAGAGGGTTTACAGAAGATTA
* *
11357428 TTCGAGT-TCTATACTTCATGAAAGAAAAAGGAAGCGAAC-CGTTTGCAGAAGATTATTCGAGTT
1 TTCGAGTCT-TATACTCCATGAAAGAAAAAGGAAGCGAACTCATTTGCAGAAGATTATTCGAGTT
* * * *
11357491 CTATACTTCCTTAAAGAAAGAGGGAGCGAACCCATTTGCATAAGATTATTCGAGTTCTATACTTC
65 CAATACTTCCTGAAAGAAAAAGGGAGCGAACCCATTTGCAGAAGATTATTCGAGTTCTATACTTC
11357556 CTGAAAAAAAAAGAGGGAGCAAACCCATTTGCAGAAGATTATTCGAGTTACTTCCTAAAAGAAAG
130 CTGAAAAAAAAAGAGGGAGCAAACCCATTTGCAGAAGATTATTCGAGTTACTTCCTAAAAGAAAG
11357621 AGGG
195 AGGG
11357625 AGCGAACCTA
Statistics
Matches: 178, Mismatches: 15, Indels: 11
0.87 0.07 0.05
Matches are distributed among these distances:
211 20 0.11
212 1 0.01
213 85 0.48
214 43 0.24
215 29 0.16
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (212 bp):
TTCGAGTCTTATACTCCATGAAAGAAAAAGGAAGCGAACTCATTTGCAGAAGATTATTCGAGTTC
AATACTTCCTGAAAGAAAAAGGGAGCGAACCCATTTGCAGAAGATTATTCGAGTTCTATACTTCC
TGAAAAAAAAAGAGGGAGCAAACCCATTTGCAGAAGATTATTCGAGTTACTTCCTAAAAGAAAGA
GGGTTTACAGAAGATTA
Found at i:11357507 original size:55 final size:56
Alignment explanation
Indices: 11357418--11357647 Score: 290
Period size: 55 Copynumber: 4.2 Consensus size: 56
11357408 AGAGGGTTTA
* * * *
11357418 CAGAAGATTATTCGAGTTCTATACTTCATGAAAGAAAAAGGAAGCGAA-CCGTTTG
1 CAGAAGATTATTCGAGTTCTATACTTCCTAAAAGAAAAAGGGAGCGAACCCATTTG
* *
11357473 CAGAAGATTATTCGAGTTCTATACTTCCTTAAAGAAAGAGGGAGCGAACCCATTTG
1 CAGAAGATTATTCGAGTTCTATACTTCCTAAAAGAAAAAGGGAGCGAACCCATTTG
* * *
11357529 CATAAGATTATTCGAGTTCTATACTTCCTGAAAAAAAAAGAGGGAGCAAACCCATTTG
1 CAGAAGATTATTCGAGTTCTATACTTCCT-AAAAGAAAA-AGGGAGCGAACCCATTTG
* * *
11357587 CAGAAGATTATTCGAG---T-TACTTCCTAAAAGAAAGAGGGAGCGAACCTATTTT
1 CAGAAGATTATTCGAGTTCTATACTTCCTAAAAGAAAAAGGGAGCGAACCCATTTG
*
11357639 TAGAAGATT
1 CAGAAGATT
11357648 CTTTTCAAGT
Statistics
Matches: 155, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
52 23 0.15
53 7 0.05
54 8 0.05
55 45 0.29
56 34 0.22
57 6 0.04
58 32 0.21
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (56 bp):
CAGAAGATTATTCGAGTTCTATACTTCCTAAAAGAAAAAGGGAGCGAACCCATTTG
Found at i:11357547 original size:157 final size:158
Alignment explanation
Indices: 11357260--11357561 Score: 484
Period size: 157 Copynumber: 1.9 Consensus size: 158
11357250 AACTCATTTG
* * *
11357260 CAGAAGATTATTCGAGTTCAATACTTCCTGAAAGAAAAAGGGAGCGAACCCGTTTGTAGAAGATT
1 CAGAAGATTATTCGAGTTCAATACTTCATGAAAGAAAAAGGAAGCGAACCCGTTTGCAGAAGATT
* *
11357325 ATTCGAGTTCTATACTTCCTAAAATAAAAAGGGAGCAGACACGATTGCAGAAGATTATTCGAGTT
66 ATTCGAGTTCTATACTTCCTAAAAGAAAAAGGGAGCAGACACCATTGCAGAAGATTATTCGAGTT
11357390 CTATACTTCCTGAAAGAAAGAGGGTTTA
131 CTATACTTCCTGAAAGAAAGAGGGTTTA
*
11357418 CAGAAGATTATTCGAGTTCTATACTTCATGAAAGAAAAAGGAAGCGAA-CCGTTTGCAGAAGATT
1 CAGAAGATTATTCGAGTTCAATACTTCATGAAAGAAAAAGGAAGCGAACCCGTTTGCAGAAGATT
* * *
11357482 ATTCGAGTTCTATACTTCCTTAAAGAAAGAGGGAGC-GA-ACCCATTTGCATAAGATTATTCGAG
66 ATTCGAGTTCTATACTTCCTAAAAGAAAAAGGGAGCAGACA-CCA-TTGCAGAAGATTATTCGAG
11357545 TTCTATACTTCCTGAAA
129 TTCTATACTTCCTGAAA
11357562 AAAAAAGAGG
Statistics
Matches: 133, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
155 1 0.01
156 4 0.03
157 83 0.62
158 45 0.34
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (158 bp):
CAGAAGATTATTCGAGTTCAATACTTCATGAAAGAAAAAGGAAGCGAACCCGTTTGCAGAAGATT
ATTCGAGTTCTATACTTCCTAAAAGAAAAAGGGAGCAGACACCATTGCAGAAGATTATTCGAGTT
CTATACTTCCTGAAAGAAAGAGGGTTTA
Found at i:11357574 original size:58 final size:56
Alignment explanation
Indices: 11357418--11357647 Score: 283
Period size: 58 Copynumber: 4.2 Consensus size: 56
11357408 AGAGGGTTTA
* * * *
11357418 CAGAAGATTATTCGAGTTCTATACTTCATGAAAGAAAA-AGGAAGCGAA-CCGTTTG
1 CAGAAGATTATTCGAGTTCTATACTTCCT-AAAAAAAAGAGGGAGCGAACCCATTTG
* *
11357473 CAGAAGATTATTCGAGTTCTATACTTCCTTAAAGAAAGAGGGAGCGAACCCATTTG
1 CAGAAGATTATTCGAGTTCTATACTTCCTAAAAAAAAGAGGGAGCGAACCCATTTG
* *
11357529 CATAAGATTATTCGAGTTCTATACTTCCTGAAAAAAAAAGAGGGAGCAAACCCATTTG
1 CAGAAGATTATTCGAGTTCTATACTTCCT--AAAAAAAAGAGGGAGCGAACCCATTTG
* * *
11357587 CAGAAGATTATTCGAG---T-TACTTCCTAAAAGAAAGAGGGAGCGAACCTATTTT
1 CAGAAGATTATTCGAGTTCTATACTTCCTAAAAAAAAGAGGGAGCGAACCCATTTG
*
11357639 TAGAAGATT
1 CAGAAGATT
11357648 CTTTTCAAGT
Statistics
Matches: 155, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
52 31 0.20
54 13 0.08
55 38 0.25
56 34 0.22
58 39 0.25
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (56 bp):
CAGAAGATTATTCGAGTTCTATACTTCCTAAAAAAAAGAGGGAGCGAACCCATTTG
Found at i:11360020 original size:22 final size:21
Alignment explanation
Indices: 11359972--11360021 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
11359962 GTGTTAATTG
* * *
11359972 GTTGACCGGTTGACCGGTCCG
1 GTTGACCGGTTGACCCGACCC
11359993 GTTTGACCGGTCTGACCCGACCC
1 G-TTGACCGGT-TGACCCGACCC
11360016 GTTGAC
1 GTTGAC
11360022 TTGACACGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.58
23 9 0.38
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (21 bp):
GTTGACCGGTTGACCCGACCC
Found at i:11360155 original size:61 final size:59
Alignment explanation
Indices: 11360041--11360196 Score: 235
Period size: 61 Copynumber: 2.6 Consensus size: 59
11360031 GACCCGACCC
*
11360041 GGTGACATTCTGGGAAATATTTTG-AAAAAGGTGACATTCTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAAAGGTGACATCCTGGGAAATATTTTGAAAAA
11360099 GGTGACATTCTGGGAAATATTTTGAAAAAAAAGGTGACATCCTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTG--AAAAAAGGTGACATCCTGGGAAATATTTTGAAAAA
** * *
11360160 GGTGACATTCTAAGAATTATTTTG-AGAAAGGTGACAT
1 GGTGACATTCTGGGAAATATTTTGAAAAAAGGTGACAT
11360197 TTTGGAAATT
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
58 36 0.40
61 54 0.60
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (59 bp):
GGTGACATTCTGGGAAATATTTTGAAAAAAGGTGACATCCTGGGAAATATTTTGAAAAA
Found at i:11360194 original size:90 final size:89
Alignment explanation
Indices: 11360041--11360205 Score: 267
Period size: 90 Copynumber: 1.8 Consensus size: 89
11360031 GACCCGACCC
* **
11360041 GGTGACATTCTGGGAAATATTTTGAAAAAGGTGACATTCTGGGAAATATTTTGAAAAAGGTGACA
1 GGTGACATCCTGGGAAATATTTTGAAAAAGGTGACATTCTAAGAAATATTTTGAAAAAGGTGACA
11360106 TTCTGGGAAATATTTTGAAAAAAAA
66 TT-TGGGAAATATTTTGAAAAAAAA
* *
11360131 GGTGACATCCTGGGAAATATTTTGAAAAAGGTGACATTCTAAGAATTATTTTGAGAAAGGTGACA
1 GGTGACATCCTGGGAAATATTTTGAAAAAGGTGACATTCTAAGAAATATTTTGAAAAAGGTGACA
*
11360196 TTTTGGAAAT
66 TTTGGGAAAT
11360206 TTTCGAATGT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.10
90 62 0.90
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (89 bp):
GGTGACATCCTGGGAAATATTTTGAAAAAGGTGACATTCTAAGAAATATTTTGAAAAAGGTGACA
TTTGGGAAATATTTTGAAAAAAAA
Found at i:11360206 original size:29 final size:29
Alignment explanation
Indices: 11360041--11360205 Score: 242
Period size: 29 Copynumber: 5.6 Consensus size: 29
11360031 GACCCGACCC
11360041 GGTGACATTCTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
11360070 GGTGACATTCTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
11360099 GGTGACATTCTGGGAAATATTTTGAAAAAAAA
1 GGTGACATTCTGGGAAATATTTTG---AAAAA
*
11360131 GGTGACATCCTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
** * *
11360160 GGTGACATTCTAAGAATTATTTTGAGAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
*
11360189 GGTGACATT-TTGGAAAT
1 GGTGACATTCTGGGAAAT
11360206 TTTCGAATGT
Statistics
Matches: 124, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
28 5 0.04
29 91 0.73
32 28 0.23
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (29 bp):
GGTGACATTCTGGGAAATATTTTGAAAAA
Found at i:11364602 original size:217 final size:214
Alignment explanation
Indices: 11364205--11364636 Score: 819
Period size: 217 Copynumber: 2.0 Consensus size: 214
11364195 TTCAAAAAAC
*
11364205 CATTCGCACTAGATAGGTATTAGAATTCTTAGTAATGCCTTTTGGTTTTACGAACGCTCCCGCAG
1 CATTCGCACTAGATAGGTATTAGAATTCTTAGTAATGCCTTTTGGTTTGACGAACGCTCCCGCAG
11364270 CTTTCATGGATTTGATGAATTGTGTGTTCCGACCATATTTGGATCAATTTGTGGTTGTCTTTATT
66 CTTTCATGGATTTGATGAATTGTGTGTTCCGACCATATTTGGATCAATTTGTGGTTGTCTTTATT
11364335 GATGATATTCTAGTTTATTCTCGGACAGAAACAGGGCATGCCAAGCACTTGAAGATCGTTCTGCG
131 GATGATATTCTAGTTTATTCTCGGACAGAAACAGGGCATGCCAAGCACTTGAAGATCGTTCTGCG
11364400 AACCTTGAGAGAGCATCGT
196 AACCTTGAGAGAGCATCGT
11364419 CATTCGCACTAGATATGGTCATTATGAATTCTTAGTAATGCCTTTTGGTTTGACGAACGCTCCCG
1 CATTCGCACTAGATA-GGT-ATTA-GAATTCTTAGTAATGCCTTTTGGTTTGACGAACGCTCCCG
*
11364484 CAGCTTTCATGGATTTGATGAATTGTGTGTTCCGGCCATATTTGGATCAATTTGTGGTTGTCTTT
63 CAGCTTTCATGGATTTGATGAATTGTGTGTTCCGACCATATTTGGATCAATTTGTGGTTGTCTTT
11364549 ATTGATGATATTCTAGTTTATTCTCGGACAGAAACAGGGCATGCCAAGCACTTGAAGATCGTTCT
128 ATTGATGATATTCTAGTTTATTCTCGGACAGAAACAGGGCATGCCAAGCACTTGAAGATCGTTCT
11364614 GCGAACCTTGAGAGAGCATCGT
193 GCGAACCTTGAGAGAGCATCGT
11364636 C
1 C
11364637 TATATGCCAA
Statistics
Matches: 213, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
214 15 0.07
215 3 0.01
216 4 0.02
217 191 0.90
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (214 bp):
CATTCGCACTAGATAGGTATTAGAATTCTTAGTAATGCCTTTTGGTTTGACGAACGCTCCCGCAG
CTTTCATGGATTTGATGAATTGTGTGTTCCGACCATATTTGGATCAATTTGTGGTTGTCTTTATT
GATGATATTCTAGTTTATTCTCGGACAGAAACAGGGCATGCCAAGCACTTGAAGATCGTTCTGCG
AACCTTGAGAGAGCATCGT
Found at i:11367772 original size:30 final size:29
Alignment explanation
Indices: 11367667--11367837 Score: 184
Period size: 29 Copynumber: 5.9 Consensus size: 29
11367657 ACCAGACCCG
* **
11367667 GTGACATTCTGGAAAATATTTTGAAAACT
1 GTGACATTCTGGGAAATATTTTGAAAAAA
*
11367696 GTGACATTTTGGGAAATATTTTGAAAAAAAA
1 GTGACATTCTGGGAAATATTTTG--AAAAAA
*
11367727 GTGACATTCTAGGAAATATTTTGAAAAAA
1 GTGACATTCTGGGAAATATTTTGAAAAAA
* * * *
11367756 GTTAACATCCTGGGAAATACTTTGAAAAAG
1 G-TGACATTCTGGGAAATATTTTGAAAAAA
* * *
11367786 GTGACATTTTGGGAATTATTTTGAAAAAT
1 GTGACATTCTGGGAAATATTTTGAAAAAA
*
11367815 GTGACATT-TTGGAAAT-TTTTGAA
1 GTGACATTCTGGGAAATATTTTGAA
11367838 TGTGGACTAT
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 7 0.06
28 6 0.05
29 58 0.48
30 24 0.20
31 25 0.21
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (29 bp):
GTGACATTCTGGGAAATATTTTGAAAAAA
Found at i:11375442 original size:22 final size:22
Alignment explanation
Indices: 11375417--11375458 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11375407 TCCAGAGGTA
*
11375417 ATTTTTATTTAGTTT-TTTATAT
1 ATTTTGATTTA-TTTATTTATAT
11375439 ATTTTGATTTATTTATTTAT
1 ATTTTGATTTATTTATTTAT
11375459 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (22 bp):
ATTTTGATTTATTTATTTATAT
Found at i:11375536 original size:26 final size:26
Alignment explanation
Indices: 11375470--11375537 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
11375460 TTAAAAAAAA
*
11375470 TATTTATGTATATATTTATTTCAAAT
1 TATTTATGTATTTATTTATTTCAAAT
* * * **
11375496 AATTTATGAAATTATTTATTTTGAAT
1 TATTTATGTATTTATTTATTTCAAAT
*
11375522 TATTTATTTATTTATT
1 TATTTATGTATTTATT
11375538 CAAAGTGGTA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTTATGTATTTATTTATTTCAAAT
Found at i:11378688 original size:27 final size:27
Alignment explanation
Indices: 11378665--11378717 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
11378655 TGTATATTAT
* *
11378665 TTATGTTATGATATTATTTAATATTTA
1 TTATCTTATGATAATATTTAATATTTA
* *
11378692 TTATCTTGTTATAATATTTAATATTT
1 TTATCTTATGATAATATTTAATATTT
11378718 CCTTTATCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (27 bp):
TTATCTTATGATAATATTTAATATTTA
Found at i:11380683 original size:173 final size:175
Alignment explanation
Indices: 11380394--11380744 Score: 688
Period size: 173 Copynumber: 2.0 Consensus size: 175
11380384 GTCAGTGGGT
11380394 TAGGGTAAGAGGTTTAGGATTTTTAGGGATTTGGAGTTATTTTATAATTTAAGAGAAATTTATGG
1 TAGGGTAAGAGGTTTAGGATTTTTAGGGATTTGGAGTTATTTTATAATTTAAGAGAAATTTATGG
11380459 TTTTTTAACTATAACATTATTTTTTAAATAAAATTTTCAAAACTACCATACA-GTGTTACTTAAC
66 TTTTTTAACTATAACATTATTTTTTAAATAAAATTTTCAAAACTACCATACACGTGTTACTTAAC
11380523 AGAG-TTTTAAATGGTCGTTAAGACACCTAAAGTGCTAAAGTTTG
131 AGAGTTTTTAAATGGTCGTTAAGACACCTAAAGTGCTAAAGTTTG
11380567 TAGGGTAAGAGGTTTAGGATTTTTAGGGATTTGGAGTTATTTTATAATTTAAGAGAAATTTATGG
1 TAGGGTAAGAGGTTTAGGATTTTTAGGGATTTGGAGTTATTTTATAATTTAAGAGAAATTTATGG
11380632 TTTTTTAACTATAACATTATTTTTTAAATAAAATTTTCAAAACTACCATACACGTGTTACTTAAC
66 TTTTTTAACTATAACATTATTTTTTAAATAAAATTTTCAAAACTACCATACACGTGTTACTTAAC
11380697 AGAGTTTTTAAATGGTCGTTAAGACACCTAAAGTGCTAAAGTTTG
131 AGAGTTTTTAAATGGTCGTTAAGACACCTAAAGTGCTAAAGTTTG
11380742 TAG
1 TAG
11380745 AAAAACAATA
Statistics
Matches: 176, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
173 117 0.66
174 16 0.09
175 43 0.24
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (175 bp):
TAGGGTAAGAGGTTTAGGATTTTTAGGGATTTGGAGTTATTTTATAATTTAAGAGAAATTTATGG
TTTTTTAACTATAACATTATTTTTTAAATAAAATTTTCAAAACTACCATACACGTGTTACTTAAC
AGAGTTTTTAAATGGTCGTTAAGACACCTAAAGTGCTAAAGTTTG
Found at i:11381779 original size:31 final size:31
Alignment explanation
Indices: 11381732--11381806 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
11381722 TCAAAAAACA
* * *
11381732 TAAGTTATAGTCACTTTCGTTTTTATTTAAT
1 TAAGATATGGTCACTTTCATTTTTATTTAAT
*
11381763 TAAGATATGGTCACTTTCATTTTTTTTTAAT
1 TAAGATATGGTCACTTTCATTTTTATTTAAT
*
11381794 TAAGATTTGGTCA
1 TAAGATATGGTCA
11381807 TCACGGGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (31 bp):
TAAGATATGGTCACTTTCATTTTTATTTAAT
Found at i:11381999 original size:22 final size:22
Alignment explanation
Indices: 11381974--11382024 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
11381964 ATTAAATTAA
*
11381974 TAATA-AAATATATTTAATAAGT
1 TAATATAAAGATATTT-ATAAGT
*
11381996 TAATATAAAGATATTTTTAAGT
1 TAATATAAAGATATTTATAAGT
11382018 TAATATA
1 TAATATA
11382025 TGTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (22 bp):
TAATATAAAGATATTTATAAGT
Found at i:11382034 original size:25 final size:24
Alignment explanation
Indices: 11381970--11382035 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 24
11381960 ATAAATTAAA
11381970 TTAATA-ATAAAATATATTTAATAAG
1 TTAATATATAAAATAT-TTT-ATAAG
*
11381995 TTAATATA-AAGATATTTT-TAAG
1 TTAATATATAAAATATTTTATAAG
11382017 TTAATATATGTAAAATATT
1 TTAATATA--TAAAATATT
11382036 ATAAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 12 0.34
24 3 0.09
25 19 0.54
26 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (24 bp):
TTAATATATAAAATATTTTATAAG
Found at i:11385426 original size:21 final size:21
Alignment explanation
Indices: 11385383--11385431 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11385373 AATTGGATGA
* *
11385383 CACGTTAGTACCGTGAACCAC
1 CACGTTAATACCGTAAACCAC
* *
11385404 CACGTTAATATCGTAAACTAC
1 CACGTTAATACCGTAAACCAC
*
11385425 CATGTTA
1 CACGTTA
11385432 GCACCTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (21 bp):
CACGTTAATACCGTAAACCAC
Found at i:11386277 original size:35 final size:35
Alignment explanation
Indices: 11386232--11386301 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
11386222 CGGGATGAAA
* *
11386232 AAAAATCGTTTATGTTAAACGGGGATGGGGACGGG
1 AAAAACCGTTTATGCTAAACGGGGATGGGGACGGG
*
11386267 AAAAACCGTTTATGCTAAATGGGGATGGGGACGGG
1 AAAAACCGTTTATGCTAAACGGGGATGGGGACGGG
11386302 GACGGGTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.37, T:0.21
Consensus pattern (35 bp):
AAAAACCGTTTATGCTAAACGGGGATGGGGACGGG
Found at i:11386380 original size:4 final size:4
Alignment explanation
Indices: 11386371--11386472 Score: 76
Period size: 4 Copynumber: 27.5 Consensus size: 4
11386361 AAATAATTAT
* * * *
11386371 TATA TATA TATA TATA -ATA T-TA -ATA AATT TA-A TTTA AAT- TA-A
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
11386413 TATA TATA TATA TATA -ATA TTTA TATA TTTA -ATT TAAA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
11386459 TATA TATA TATA TA
1 TATA TATA TATA TA
11386473 CCTGCCCGAT
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
3 15 0.20
4 60 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:11386382 original size:6 final size:6
Alignment explanation
Indices: 11386371--11386472 Score: 76
Period size: 6 Copynumber: 18.3 Consensus size: 6
11386361 AAATAATTAT
* * * *
11386371 TATATA TATATA TATA-A TAT-TA -ATAAA TTTA-A TTTAAA T-TA-A
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * *
11386413 TATATA TATATA TATA-A TATTTA TATATT TA-ATT TAAATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
11386459 TATATA TATATA TA
1 TATATA TATATA TA
11386473 CCTGCCCGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
4 4 0.05
5 24 0.30
6 53 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:11386417 original size:42 final size:42
Alignment explanation
Indices: 11386365--11386472 Score: 171
Period size: 42 Copynumber: 2.5 Consensus size: 42
11386355 TATTAAAAAT
*
11386365 AATTATTATATATATATATATAATATTAATAAATTTAATTTA
1 AATTAATATATATATATATATAATATTAATAAATTTAATTTA
* *
11386407 AATTAATATATATATATATATAATATTTATATATTTAATTTA
1 AATTAATATATATATATATATAATATTAATAAATTTAATTTA
11386449 AATATATATATATATATATATATA
1 AAT-TA-ATATATATATATATATA
11386473 CCTGCCCGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 42 0.69
43 2 0.03
44 17 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (42 bp):
AATTAATATATATATATATATAATATTAATAAATTTAATTTA
Found at i:11391368 original size:2 final size:2
Alignment explanation
Indices: 11391361--11391437 Score: 131
Period size: 2 Copynumber: 39.5 Consensus size: 2
11391351 ACCTTATTTA
*
11391361 AT AT AT AT AT A- AT AT AT AT CT 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
11391402 AT AT AT AT AT AT AT AT AT AT A- 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
11391438 ACCAGGGCAA
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 2 0.03
2 69 0.97
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11395059 original size:16 final size:16
Alignment explanation
Indices: 11395019--11395060 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11395009 ATCGAAATCG
*
11395019 AAATTAACCCGAACCA
1 AAATTAACTCGAACCA
**
11395035 AAAGCAACTCGAACCA
1 AAATTAACTCGAACCA
11395051 AAATTAACTC
1 AAATTAACTC
11395061 AAATCGAAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (16 bp):
AAATTAACTCGAACCA
Found at i:11395120 original size:33 final size:33
Alignment explanation
Indices: 11395067--11395170 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 33
11395057 ACTCAAATCG
* * * **
11395067 AAAGTAACCCAGATTTAATTTTAAACC-GATTCA
1 AAAGCAACCCAAATTGAATTTT-AACCTGACCCA
11395100 AAAGCAACCCAAATTGAA-TTTAACCTGACCCA
1 AAAGCAACCCAAATTGAATTTTAACCTGACCCA
* * * *
11395132 AAAGCAACTCAAACTGAA-TTTAACCCGACCCG
1 AAAGCAACCCAAATTGAATTTTAACCTGACCCA
11395164 AAAGCAA
1 AAAGCAA
11395171 TCCTAACAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
31 4 0.07
32 42 0.69
33 15 0.25
ACGTcount: A:0.44, C:0.25, G:0.11, T:0.20
Consensus pattern (33 bp):
AAAGCAACCCAAATTGAATTTTAACCTGACCCA
Found at i:11395134 original size:32 final size:32
Alignment explanation
Indices: 11395098--11395170 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
11395088 TAAACCGATT
* *
11395098 CAAAAGCAACCCAAATTGAATTTAACCTGACC
1 CAAAAGCAACCCAAACTGAATTTAACCCGACC
*
11395130 CAAAAGCAACTCAAACTGAATTTAACCCGACC
1 CAAAAGCAACCCAAACTGAATTTAACCCGACC
*
11395162 CGAAAGCAA
1 CAAAAGCAA
11395171 TCCTAACAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.45, C:0.29, G:0.11, T:0.15
Consensus pattern (32 bp):
CAAAAGCAACCCAAACTGAATTTAACCCGACC
Found at i:11399249 original size:76 final size:76
Alignment explanation
Indices: 11399157--11399308 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
11399147 TAGCAAATGG
11399157 TCAAGTAAAAAGCTGAGTTTTGGAGGCAGACTACAACTCATTAAAGCTGTGTTGTTTAGTATCTT
1 TCAAGTAAAAAGCTGAGTTTTGGAGGCAGACTACAACTCATTAAAGCTGTGTTGTTTAGTATCTT
11399222 TAGCTATTGGA
66 TAGCTATTGGA
11399233 TCAAGTAAAAAGCTGAGTTTTGGAGGCAGACTACAACTCATTAAAGCTGTGTTGTTTAGTATCTT
1 TCAAGTAAAAAGCTGAGTTTTGGAGGCAGACTACAACTCATTAAAGCTGTGTTGTTTAGTATCTT
11399298 TAGCTATTGGA
66 TAGCTATTGGA
11399309 GCAGACAACT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (76 bp):
TCAAGTAAAAAGCTGAGTTTTGGAGGCAGACTACAACTCATTAAAGCTGTGTTGTTTAGTATCTT
TAGCTATTGGA
Found at i:11407082 original size:10 final size:10
Alignment explanation
Indices: 11407067--11407106 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
11407057 TAATAGTTTA
*
11407067 TTCTTTCTTC
1 TTCTTTTTTC
11407077 TTCTTTTTTC
1 TTCTTTTTTC
11407087 TTCTTCTTTTC
1 TTCTT-TTTTC
11407098 TTCTTTTTT
1 TTCTTTTTT
11407107 TTATATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:11407088 original size:13 final size:13
Alignment explanation
Indices: 11407070--11407102 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
11407060 TAGTTTATTC
11407070 TTTCTTCTTCTTT
1 TTTCTTCTTCTTT
11407083 TTTCTTCTTCTTT
1 TTTCTTCTTCTTT
11407096 TCTTCTT
1 T-TTCTT
11407103 TTTTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTCTTCTTT
Found at i:11407107 original size:11 final size:11
Alignment explanation
Indices: 11407074--11407107 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
11407064 TTATTCTTTC
11407074 TTCTTC-TTTT
1 TTCTTCTTTTT
*
11407084 TTCTTCTTCTT
1 TTCTTCTTTTT
11407095 TTCTTCTTTTT
1 TTCTTCTTTTT
11407106 TT
1 TT
11407108 TATATGGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTCTTTTT
Found at i:11407647 original size:44 final size:45
Alignment explanation
Indices: 11407597--11407686 Score: 173
Period size: 44 Copynumber: 2.0 Consensus size: 45
11407587 TCATTAACCA
11407597 AACCCATGCTTAACTCATAAGAATTAATCCAAAAG-AGACAACTC
1 AACCCATGCTTAACTCATAAGAATTAATCCAAAAGAAGACAACTC
11407641 AACCCATGCTTAACTCATAAGAATTAATCCAAAAGAAGACAACTC
1 AACCCATGCTTAACTCATAAGAATTAATCCAAAAGAAGACAACTC
11407686 A
1 A
11407687 CCTTTGCTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 35 0.78
45 10 0.22
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (45 bp):
AACCCATGCTTAACTCATAAGAATTAATCCAAAAGAAGACAACTC
Found at i:11409365 original size:21 final size:21
Alignment explanation
Indices: 11409339--11409392 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
11409329 GCGTTGTATT
11409339 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
11409360 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
11409381 TCGCGTTGCGAT
1 TCGCGTTGCGAT
11409393 TTTCCAGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:11409406 original size:20 final size:20
Alignment explanation
Indices: 11409381--11409440 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
11409371 TAGTTGAAAA
11409381 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
*
11409401 TCGCGTTGCGATATTCTACAGT
1 TCGCGTTGCGAT-TT-TCCAGT
*
11409423 T-GTCGATGCGATTTTCCA
1 TCG-CGTTGCGATTTTCCA
11409441 AATTCGTTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.44
21 5 0.15
22 14 0.41
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAGT
Found at i:11409558 original size:6 final size:6
Alignment explanation
Indices: 11409547--11409600 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
11409537 GACACGTATT
11409547 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
11409593 ACC-CG ACC
1 ACCACG ACC
11409601 CGAGACGAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.31
6 33 0.69
ACGTcount: A:0.30, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:11410100 original size:6 final size:6
Alignment explanation
Indices: 11410091--11410121 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
11410081 CGTCGTCTCG
11410091 GGTCGT GGTCGT GGTCGT GGTCGT -GTCGT GG
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GG
11410122 GTAATAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:11410283 original size:21 final size:22
Alignment explanation
Indices: 11410221--11410294 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 22
11410211 AATTTGGAAA
11410221 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
11410243 TTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
11410265 ATCGCAACGAC-ATTGTAGACT
1 ATCGCAACGACAACTGTAGACT
11410286 ATCGCAACG
1 ATCGCAACG
11410295 CGAAATCGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 18 0.38
22 29 0.62
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:11410304 original size:13 final size:13
Alignment explanation
Indices: 11410286--11410310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11410276 ATTGTAGACT
11410286 ATCGCAACGCGAA
1 ATCGCAACGCGAA
11410299 ATCGCAACGCGA
1 ATCGCAACGCGA
11410311 TTTTCAACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.24, T:0.08
Consensus pattern (13 bp):
ATCGCAACGCGAA
Found at i:11410360 original size:21 final size:21
Alignment explanation
Indices: 11410299--11410352 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
11410289 GCAACGCGAA
11410299 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
11410320 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
11410341 ATCGCAACGCGA
1 ATCGCAACGCGA
11410353 AATGCAACGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:11410632 original size:32 final size:32
Alignment explanation
Indices: 11410586--11410677 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 32
11410576 ACCTACAATG
*
11410586 AAAATCAACCGATCCGATATTGACCCGACCC-
1 AAAATCAACTGATCCGATATTGACCCGACCCA
*
11410617 AAAATCTAACTGATCC-AGTA-T-ATCCGACCCA
1 AAAATC-AACTGATCCGA-TATTGACCCGACCCA
*
11410648 AAAATCAA-TCGATCCGGTATTGACCCGACC
1 AAAATCAACT-GATCCGATATTGACCCGACC
11410678 TGATATTGAC
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
29 1 0.02
30 17 0.34
31 15 0.30
32 17 0.34
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.20
Consensus pattern (32 bp):
AAAATCAACTGATCCGATATTGACCCGACCCA
Found at i:11411084 original size:152 final size:153
Alignment explanation
Indices: 11410798--11411102 Score: 594
Period size: 152 Copynumber: 2.0 Consensus size: 153
11410788 GTACATCCGA
11410798 ACTAAACCCAAAATAACTGGACTCAAACCCGATCCGAATGACCCATTTGCCACCTCTAAATTTTA
1 ACTAAACCCAAAATAACTGGACTCAAACCCGATCCGAATGACCCATTTGCCACCTCTAAATTTTA
11410863 GTACCGAGTTTGAAACATAGCAGGCTGGGCTGGTTGGGTTGGAGTGGACTATTAGATTTTTCGGA
66 GTACCGAGTTTGAAACATAGCAGGCTGGGCTGGTTGGGTTGGAGTGGACTATTAGATTTTTCGGA
11410928 CCTGCCTGCGTACTTAAACTGGT
131 CCTGCCTGCGTACTTAAACTGGT
11410951 ACTAAACCC-AAATAACTGGACTCAAACCCGATCCGAATGACCCATTTGCCACCTCTAAATTTTA
1 ACTAAACCCAAAATAACTGGACTCAAACCCGATCCGAATGACCCATTTGCCACCTCTAAATTTTA
11411015 GTACCGAGTTTGAAACATAGCAGGCTGGGCTGGTTGGGTTGGAGTGGACTATTAGATTTTTCGGA
66 GTACCGAGTTTGAAACATAGCAGGCTGGGCTGGTTGGGTTGGAGTGGACTATTAGATTTTTCGGA
*
11411080 CCTGCCTGCTTACTTAAACTGGT
131 CCTGCCTGCGTACTTAAACTGGT
11411103 GGCACTTCCG
Statistics
Matches: 151, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
152 142 0.94
153 9 0.06
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (153 bp):
ACTAAACCCAAAATAACTGGACTCAAACCCGATCCGAATGACCCATTTGCCACCTCTAAATTTTA
GTACCGAGTTTGAAACATAGCAGGCTGGGCTGGTTGGGTTGGAGTGGACTATTAGATTTTTCGGA
CCTGCCTGCGTACTTAAACTGGT
Found at i:11417358 original size:37 final size:39
Alignment explanation
Indices: 11417317--11417413 Score: 92
Period size: 42 Copynumber: 2.5 Consensus size: 39
11417307 TTGAAAATAC
*
11417317 AATATATAGTTTTT-AGAAAAT-AGCTTTT-AAAACATAT
1 AATATATAGTTTTTAAAAAAATCAG-TTTTCAAAACATAT
* * *
11417354 AATATACACTTTTTAAAAAAATCAGTTTTCGAAAATATAT
1 AATATATAGTTTTTAAAAAAATCAGTTTTC-AAAACATAT
*
11417394 ATATTATATAGTTTTGAAAA
1 A-A-TATATAGTTTTTAAAA
11417414 CGGTTTTCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
37 12 0.26
38 10 0.21
39 2 0.04
40 9 0.19
41 1 0.02
42 13 0.28
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (39 bp):
AATATATAGTTTTTAAAAAAATCAGTTTTCAAAACATAT
Found at i:11417464 original size:33 final size:35
Alignment explanation
Indices: 11417390--11417715 Score: 228
Period size: 34 Copynumber: 9.7 Consensus size: 35
11417380 TTTCGAAAAT
* * *
11417390 ATATATATTATATAGTTTTGAAAACGGTTTTCG--AG
1 ATATATATTATATATTTTTGAAAAC-ATTTT-GAAAC
*
11417425 AT-TATATTA-ATAGTTTTG-AAA-ATTTTGAAAAC
1 ATATATATTATATATTTTTGAAAACATTTTG-AAAC
* *
11417457 ATATATA-TATATACTTTTGAAAACATTTT-AAAT
1 ATATATATTATATATTTTTGAAAACATTTTGAAAC
*
11417490 ATATATATAATATATTTTTGAAAACATTTTTGAAA-
1 ATATATATTATATATTTTTGAAAACA-TTTTGAAAC
11417525 ATATATATTATATAATTTTT-AAAACATTTTGAAAC
1 ATATATATTATAT-ATTTTTGAAAACATTTTGAAAC
* * *
11417560 ATATACAATATACAGTTTTTGAAAACA-TTT--AA-
1 ATATATATTATATA-TTTTTGAAAACATTTTGAAAC
* *
11417592 A-A-ATA-TATA-GTTTTTGAAAATATTTTGAAA-
1 ATATATATTATATATTTTTGAAAACATTTTGAAAC
*
11417622 ATATATATATATATATTTTT-AAAACGTTTTGAAA-
1 ATATATAT-TATATATTTTTGAAAACATTTTGAAAC
* * * **
11417656 ATATATATAATATAGTTTAGAAATATTTTTTCGAAA-
1 ATATATATTATATATTTTTGAAA-ACATTTT-GAAAC
* *
11417692 ATATATATAATGTAGTTTTTGAAA
1 ATATATATTATATA-TTTTTGAAA
11417716 GTATTTTTTG
Statistics
Matches: 241, Mismatches: 24, Indels: 50
0.77 0.08 0.16
Matches are distributed among these distances:
27 11 0.05
28 3 0.01
29 5 0.02
30 9 0.04
31 2 0.01
32 12 0.05
33 41 0.17
34 62 0.26
35 57 0.24
36 32 0.13
37 7 0.03
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (35 bp):
ATATATATTATATATTTTTGAAAACATTTTGAAAC
Found at i:11417509 original size:34 final size:34
Alignment explanation
Indices: 11417379--11417735 Score: 260
Period size: 35 Copynumber: 10.4 Consensus size: 34
11417369 AAAAAATCAG
* *
11417379 TTTTCGAAAATATATATATTATATAGTTTTGAAAACGG
1 TTTT-GAAAATATATATA--ATATATTTTTGAAAAC-A
* * *
11417417 TTTTCG-AGAT-TATATTA-ATAGTTTTG-AAA-A
1 TTTT-GAAAATATATATAATATATTTTTGAAAACA
* *
11417447 TTTTGAAAACATATATATATATACTTTTGAAAACA
1 TTTTGAAAATATATATA-ATATATTTTTGAAAACA
11417482 TTTT-AAATATATATATAATATATTTTTGAAAACA
1 TTTTGAAA-ATATATATAATATATTTTTGAAAACA
*
11417516 TTTTTGAAAATATATATTATATAATTTTT-AAAACA
1 -TTTTGAAAATATATATAATAT-ATTTTTGAAAACA
* *
11417551 TTTTGAAACATATACA-ATATACAGTTTTTGAAAACA
1 TTTTGAAA-ATATATATA-ATATA-TTTTTGAAAACA
* *
11417587 -TTT--AAA-A-ATAT-ATA-GTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATTTTTGAAAACA
*
11417614 TTTTGAAAATATATATATATATATTTTT-AAAACG
1 TTTTGAAAATATATATA-ATATATTTTTGAAAACA
* * **
11417648 TTTTGAAAATATATATAATATAGTTTAGAAATATT
1 TTTTGAAAATATATATAATATATTTTTGAAA-ACA
* **
11417683 TTTTCGAAAATATATATAATGTAGTTTTTGAAAGTATT
1 TTTT-GAAAATATATATAATATA-TTTTTGAAA--ACA
11417721 TTTTGAAAATATATA
1 TTTTGAAAATATATA
11417736 ATATTAGTTT
Statistics
Matches: 265, Mismatches: 26, Indels: 57
0.76 0.07 0.16
Matches are distributed among these distances:
27 11 0.04
28 3 0.01
29 4 0.02
30 11 0.04
31 7 0.03
32 9 0.03
33 27 0.10
34 59 0.22
35 62 0.23
36 37 0.14
37 21 0.08
38 14 0.05
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (34 bp):
TTTTGAAAATATATATAATATATTTTTGAAAACA
Found at i:11417603 original size:27 final size:28
Alignment explanation
Indices: 11417566--11417628 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
11417556 AAACATATAC
*
11417566 AATATACAGTTTTTGAAAACA-TTTAAA
1 AATATATAGTTTTTGAAAACATTTTAAA
* *
11417593 AATATATAGTTTTTGAAAATATTTTGAA
1 AATATATAGTTTTTGAAAACATTTTAAA
11417621 AATATATA
1 AATATATA
11417629 TATATATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 19 0.59
28 13 0.41
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (28 bp):
AATATATAGTTTTTGAAAACATTTTAAA
Found at i:11417606 original size:62 final size:62
Alignment explanation
Indices: 11417533--11417662 Score: 158
Period size: 62 Copynumber: 2.1 Consensus size: 62
11417523 AAATATATAT
11417533 TATATAATTTTT-AAAACATTTTGAAACATATACA-ATATACAGTTTTTGAAAAC-ATTTAAAAA
1 TATATAATTTTTGAAAACATTTTGAAA-ATATACATATATACA-TTTTT-AAAACGATTTAAAAA
* * * * * *
11417595 TATATAGTTTTTGAAAATATTTTGAAAATATATATATATATATTTTTAAAACGTTTTGAAAA
1 TATATAATTTTTGAAAACATTTTGAAAATATACATATATACATTTTTAAAACGATTTAAAAA
11417657 TATATA
1 TATATA
11417663 TAATATAGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
61 5 0.08
62 35 0.59
63 19 0.32
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (62 bp):
TATATAATTTTTGAAAACATTTTGAAAATATACATATATACATTTTTAAAACGATTTAAAAA
Done.