Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008025.1 Hibiscus syriacus cultivar Beakdansim tig00110500_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: 2744542
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:708950 original size:90 final size:90
Alignment explanation
Indices: 708826--709045 Score: 298
Period size: 90 Copynumber: 2.4 Consensus size: 90
708816 ATGAATAAAA
** * * * * *
708826 GAAAATGCATAACTTTGCATTATCGACATAAAAGGTGCCATTAATGAAAATGCATAATGGTGCAT
1 GAAAATGCATAACGGTGCATCATTGGCATAAAAGGTGCCAGTAATGAAAATACATAATGGTGCAT
708891 TATCAACATAAAAGGTGAC-ACTAAT
66 TATCAACATAAAAGGTG-CTACTAAT
* ** * *
708916 GAATATGCATAACGGTGCATTTTTGGCATAAAAGGTGCCAGTAATGAAAATACATAATTGTGTAT
1 GAAAATGCATAACGGTGCATCATTGGCATAAAAGGTGCCAGTAATGAAAATACATAATGGTGCAT
**
708981 TATCAGTATAAAAGGTGCTACTAAT
66 TATCAACATAAAAGGTGCTACTAAT
709006 GAAAATGCATAACGGTGCATCATTGGCATAAAAGGTGCCA
1 GAAAATGCATAACGGTGCATCATTGGCATAAAAGGTGCCA
709046 CTCATGGTAT
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 1 0.01
90 113 0.99
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (90 bp):
GAAAATGCATAACGGTGCATCATTGGCATAAAAGGTGCCAGTAATGAAAATACATAATGGTGCAT
TATCAACATAAAAGGTGCTACTAAT
Found at i:715324 original size:176 final size:178
Alignment explanation
Indices: 715023--715341 Score: 411
Period size: 176 Copynumber: 1.8 Consensus size: 178
715013 TTTGTAAATA
*
715023 TTTTAATTATAGTTACAAAATGTATAGTCACAAATGATTATCTCCAATTTTTGGTAAAAAAACAA
1 TTTTAATTATAGTGACAAAATGTATAGTCACAAATGATTATCTCCAATTTTTGGTAAAAAAACAA
* * * *
715088 AATCATATAGTGACATGTTTTGTAACTATAAGCTATAATTATTGTTACAAAAAAATTGTCACAAC
66 AATCATATAATGACATATTTTGTAACTATAAGCTATAATAATTATTACAAAAAAATTGTCACAA-
715153 AAATAATGAGATTCAAGTTTTTAGTAAAAAACAATGTTTGTTGTTATATG
130 AAA-AATGAGATTCAAGTTTTTAGTAAAAAACAATGTTTGTTGTTATATG
* ***
715203 TTTTAATTATAGTGACAAAAT-T-T-GTCACAAAT-ATTTCTCTCCATATTTTT-GTGCCAAAA-
1 TTTTAATTATAGTGACAAAATGTATAGTCACAAATGA-TTATCTCCA-ATTTTTGGTAAAAAAAC
* * *
715262 AAAGTCATATAATGACCA-ATTTTGTAACTATAAG-TGTTAATAATTATTACAAAAACATTGTCA
64 AAAATCATATAATGA-CATATTTTGTAACTATAAGCT-ATAATAATTATTACAAAAAAATTGTCA
*
715325 CAAAAAAATGATATTCA
127 CAAAAAAATGAGATTCA
715342 CGGTTTTGTG
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
174 10 0.08
175 4 0.03
176 55 0.45
177 25 0.20
178 7 0.06
179 1 0.01
180 20 0.16
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (178 bp):
TTTTAATTATAGTGACAAAATGTATAGTCACAAATGATTATCTCCAATTTTTGGTAAAAAAACAA
AATCATATAATGACATATTTTGTAACTATAAGCTATAATAATTATTACAAAAAAATTGTCACAAA
AAAATGAGATTCAAGTTTTTAGTAAAAAACAATGTTTGTTGTTATATG
Found at i:721085 original size:23 final size:23
Alignment explanation
Indices: 721052--721184 Score: 83
Period size: 23 Copynumber: 5.4 Consensus size: 23
721042 TATATAGTAC
*
721052 ATATATTTATTGTGT-TTATATAT
1 ATATATATATTGTGTATT-TATAT
721075 ATATATATATTGTGTATTTATAT
1 ATATATATATTGTGTATTTATAT
** *
721098 ATAT-TATAAAGTATATTTATTAT
1 ATATATATATTGTGTATTTA-TAT
*
721121 TTATATATTATATG-GTATTTTTATTAT
1 ATATATA-TAT-TGTGTA--TTTA-TAT
*
721148 ATAATATTATAGTGTAGTATTTATAGT
1 AT-ATA-TATATTGT-GTATTTATA-T
721175 ATAATATATA
1 AT-ATATATA
721185 CATATATATT
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
22 12 0.14
23 29 0.33
24 4 0.05
25 4 0.05
26 7 0.08
27 22 0.25
28 5 0.06
29 5 0.06
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (23 bp):
ATATATATATTGTGTATTTATAT
Found at i:721101 original size:29 final size:30
Alignment explanation
Indices: 721068--721133 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
721058 TTATTGTGTT
*
721068 TATATATATATA-TATATTGT-GTATTTATA
1 TATATATATAAAGTATATT-TAGTATTTATA
*
721097 TATAT-TATAAAGTATATTTATTATTTATA
1 TATATATATAAAGTATATTTAGTATTTATA
721126 TAT-TATAT
1 TATATATAT
721134 GGTATTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (30 bp):
TATATATATAAAGTATATTTAGTATTTATA
Found at i:721148 original size:21 final size:21
Alignment explanation
Indices: 721115--721154 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
721105 AAAGTATATT
*
721115 TATTATTTATATATTATATGG
1 TATTATTTATATATAATATGG
721136 TATT-TTTATTATATAATAT
1 TATTATTTA-TATATAATAT
721155 TATAGTGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TATTATTTATATATAATATGG
Found at i:721183 original size:29 final size:25
Alignment explanation
Indices: 721039--721183 Score: 72
Period size: 25 Copynumber: 5.7 Consensus size: 25
721029 TATGGTGTTA
* *
721039 TATTATATAGTACATATATT-TATTG
1 TATT-TATAGTATATATATTATATGG
*
721064 TGTTTATA-TATATATA-TATATTGTG
1 TATTTATAGTATATATATTATA-TG-G
* *
721089 TATTTATA-TATAT-TA-TA-AAGTA
1 TATTTATAGTATATATATTATATG-G
*
721111 TATTTATTA-TTTATATATTATATGG
1 TATTTA-TAGTATATATATTATATGG
* *
721136 TATTTTTATTATATAATATTATAGTGTAG
1 TATTTATAGTATAT-ATATTATA-TG--G
721165 TATTTATAGTATAATATAT
1 TATTTATAGTAT-ATATAT
721184 ACATATATAT
Statistics
Matches: 94, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
22 9 0.10
23 16 0.17
24 13 0.14
25 27 0.29
26 10 0.11
27 2 0.02
29 15 0.16
30 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.08, T:0.54
Consensus pattern (25 bp):
TATTTATAGTATATATATTATATGG
Found at i:722688 original size:262 final size:262
Alignment explanation
Indices: 722216--722689 Score: 835
Period size: 262 Copynumber: 1.8 Consensus size: 262
722206 TGAGATCTAA
* *
722216 GTTCGAACACCGAGAACGTCAGAGGTGTAAGCGTTAAATGTTAAGAGTTTGAGAGTAATCTTAAA
1 GTTCGAACACCGAGAACGTCAGAGGTATAAACGTTAAATGTTAAGAGTTTGAGAGTAATCTTAAA
*
722281 ATAAATACTACCTTATACTTACCTCATATTAATTAAAAAAATAAAGAGACATCGTTGAAAAAGTA
66 ACAAATACTACCTTATACTTACCTCATATTAATTAAAAAAATAAAGAGACATCGTTGAAAAAGTA
722346 AAAAAGTGAAACCTTGCATGGTAGATCTAAGTCATTGGGGTTGGTTCTTGGATATATATAACACC
131 AAAAAGTGAAACCTTGCATGGTAGATCTAAGTCATTGGGGTTGGTTCTTGGATATATATAACACC
722411 CTTAACTTGTATTCGTAATCAAGTGGTCTCCGTGATAAAGGAATCATTATCGTTCCTTGAGACTT
196 CTTAACTTGTATTCGTAATCAAGTGGTCTCCGTGATAAAGGAATCATTATCGTTCCTTGAGACTT
722476 GG
261 GG
* * *
722478 GTTCGAGCACCGAGAACGTCAG-GGATATAAACGTTCAATGTTAAGAGTTTGAGAGTAATCTTAG
1 GTTCGAACACCGAGAACGTCAGAGG-TATAAACGTTAAATGTTAAGAGTTTGAGAGTAATCTTAA
* * *
722542 AACAAATATTACCTTATACTTATCTCATATTAATTAAAAAAATAAAGAGATA-CTGTTGAAAAAG
65 AACAAATACTACCTTATACTTACCTCATATTAATTAAAAAAATAAAGAGACATC-GTTGAAAAAG
722606 TAAAAAAGTGAAACCTTGCATGGTAGATCTAAGTCATTGGGGTTGGTTCTTGGATATATATAACA
129 TAAAAAAGTGAAACCTTGCATGGTAGATCTAAGTCATTGGGGTTGGTTCTTGGATATATATAACA
722671 CCCTTAACTTGTATTCGTA
194 CCCTTAACTTGTATTCGTA
722690 CCCAAATACA
Statistics
Matches: 201, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
261 3 0.01
262 198 0.99
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (262 bp):
GTTCGAACACCGAGAACGTCAGAGGTATAAACGTTAAATGTTAAGAGTTTGAGAGTAATCTTAAA
ACAAATACTACCTTATACTTACCTCATATTAATTAAAAAAATAAAGAGACATCGTTGAAAAAGTA
AAAAAGTGAAACCTTGCATGGTAGATCTAAGTCATTGGGGTTGGTTCTTGGATATATATAACACC
CTTAACTTGTATTCGTAATCAAGTGGTCTCCGTGATAAAGGAATCATTATCGTTCCTTGAGACTT
GG
Found at i:723386 original size:14 final size:14
Alignment explanation
Indices: 723363--723395 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
723353 TTTAACCTAT
*
723363 TTAAATCATATTTA
1 TTAAAACATATTTA
723377 TTAAAACATATTTA
1 TTAAAACATATTTA
723391 TTAAA
1 TTAAA
723396 TCACATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAAACATATTTA
Found at i:724135 original size:195 final size:195
Alignment explanation
Indices: 723902--724332 Score: 582
Period size: 195 Copynumber: 2.2 Consensus size: 195
723892 TCACAAAGGT
* * * * *
723902 ACATGAGTGATTTGTACATTGTTCAATTATCACTCCACCTCATGCTCTGCA-CA-GGTACATGAG
1 ACATGAGTGATTTGTATAGTGTTCAATTATCACTCCACCTCATGCAC--CATAATGATACATGAG
* * *
723965 CCATATGAGTAATCTGTACAGCT-TTTAATTATCACTCCACCTCATGCATCACAAAGGTACATGA
64 CCATATGAGTAATCCGTACAG-TATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGA
* * * * * * *
724029 GTCATATGAATGATAT-GTATAGTGTTTAATTATCTCTCCACCTCATGCACCACTAAGGTACATG
128 ATCATATGAATGAT-TCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATG
724093 AGTC
192 AGTC
* *
724097 ATATGAGTGATTTGTATAGTGTTCAATTATCACTCCACCTCATGCACCATAATGATACATGAGTC
1 ACATGAGTGATTTGTATAGTGTTCAATTATCACTCCACCTCATGCACCATAATGATACATGAGCC
724162 ATATGAGTAATCCGTACAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAATC
66 ATATGAGTAATCCGTACAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAATC
*
724227 ATATGAGTGATTCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATGAGTC
131 ATATGAATGATTCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATGAGTC
* * * ** *
724292 ACATGAGTGATTTATATTGTATTCAACAATCACTACACCTC
1 ACATGAGTGATTTGTATAGTGTTCAATTATCACTCCACCTC
724333 GTACATCATT
Statistics
Matches: 207, Mismatches: 25, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
193 2 0.01
194 3 0.01
195 202 0.98
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (195 bp):
ACATGAGTGATTTGTATAGTGTTCAATTATCACTCCACCTCATGCACCATAATGATACATGAGCC
ATATGAGTAATCCGTACAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAATC
ATATGAATGATTCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATGAGTC
Found at i:724300 original size:65 final size:65
Alignment explanation
Indices: 723904--724332 Score: 486
Period size: 65 Copynumber: 6.6 Consensus size: 65
723894 ACAAAGGTAC
* * * * * ** * *
723904 ATGAGTGATTTGTACATTGTTCAATTATCACTCCACCTCATGCTCTGCACAGGTACATGAGCCAT
1 ATGAGTGATTCGTATAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCAT
* * * *
723969 ATGAGT-AATCTGTACAGCT-TTTAATTATCACTCCACCTCATGCATCACAAAGGTACATGAGTC
1 ATGAGTGATTC-GTATAG-TATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTC
724032 AT
64 AT
* * * * *
724034 ATGAATGATAT-GTATAGTGTTTAATTATCTCTCCACCTCATGCACCACTAAGGTACATGAGTCA
1 ATGAGTGAT-TCGTATAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCA
724098 T
65 T
* * * * *
724099 ATGAGTGATTTGTATAGTGTTCAATTATCACTCCACCTCATGCACCATAATGATACATGAGTCAT
1 ATGAGTGATTCGTATAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCAT
* * * *
724164 ATGAGTAATCCGTACAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAATCAT
1 ATGAGTGATTCGTATAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCAT
* * *
724229 ATGAGTGATTCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATGAGTCAC
1 ATGAGTGATTCGTATAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCAT
** * ** *
724294 ATGAGTGATTTATATTGTATTCAACAATCACTACACCTC
1 ATGAGTGATTCGTATAGTATTCAATTATCACTCCACCTC
724333 GTACATCATT
Statistics
Matches: 313, Mismatches: 45, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
64 4 0.01
65 306 0.98
66 2 0.01
67 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (65 bp):
ATGAGTGATTCGTATAGTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCAT
Found at i:724459 original size:189 final size:189
Alignment explanation
Indices: 724228--724608 Score: 708
Period size: 189 Copynumber: 2.0 Consensus size: 189
724218 ACATGAATCA
724228 TATGAGTGATTCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATGAGTCA
1 TATGAGTGATTCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATGAGTCA
* * *
724293 CATGAGTGATTTATATTGTATTCAACAATCACTACACCTCGTACATCATTGACTCTCATGTCTTA
66 CATGAATGATTTATATTGTATTCAACAATCACTACACCTCATACATCATTGACTCTCACGTCTTA
724358 TATATTGCCCTTTTATTTAAATTTATATTATTTTTAATATAAAACATTTATAGAATAAT
131 TATATTGCCCTTTTATTTAAATTTATATTATTTTTAATATAAAACATTTATAGAATAAT
724417 TATGAGTGATTCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATGAGTCA
1 TATGAGTGATTCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATGAGTCA
* * *
724482 CATGAATGATTTGTATTGTATTCAGCAATCACTACACCTCATACATCATTGTCTCTCACGTCTTA
66 CATGAATGATTTATATTGTATTCAACAATCACTACACCTCATACATCATTGACTCTCACGTCTTA
724547 TATATTGCCCTTTTATTTAAATTTATATTATTTTTAATATAAAACATTTATAGAATAAT
131 TATATTGCCCTTTTATTTAAATTTATATTATTTTTAATATAAAACATTTATAGAATAAT
724606 TAT
1 TAT
724609 CAACTTCATA
Statistics
Matches: 186, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
189 186 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (189 bp):
TATGAGTGATTCGTATAGTATTCAACTATCACTCCACCTAATGCACCACAAAGGTACATGAGTCA
CATGAATGATTTATATTGTATTCAACAATCACTACACCTCATACATCATTGACTCTCACGTCTTA
TATATTGCCCTTTTATTTAAATTTATATTATTTTTAATATAAAACATTTATAGAATAAT
Found at i:724691 original size:15 final size:17
Alignment explanation
Indices: 724649--724683 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
724639 ATACTTTAAT
*
724649 TAACTTAATAACTCATG
1 TAACTTTATAACTCATG
724666 TAACTTTATAACTCATG
1 TAACTTTATAACTCATG
724683 T
1 T
724684 TCTTATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (17 bp):
TAACTTTATAACTCATG
Found at i:725271 original size:228 final size:228
Alignment explanation
Indices: 724874--725330 Score: 914
Period size: 228 Copynumber: 2.0 Consensus size: 228
724864 TTCTTTCAAT
724874 TATAAACCCAATACTTTGAATATATCCATATTAGTTCCTTAATATTCAATTTAAATCCTTATAAA
1 TATAAACCCAATACTTTGAATATATCCATATTAGTTCCTTAATATTCAATTTAAATCCTTATAAA
724939 TTATTTTCAGATTATATTAAATCTAATACATTAACTTTACCTAATTGTCATTTCACCACCAACTT
66 TTATTTTCAGATTATATTAAATCTAATACATTAACTTTACCTAATTGTCATTTCACCACCAACTT
725004 TCCTAAAACTTACGAATTGGATCTCTATCTTATACAACTTTCCACATTGAGTCAAATTCCTATTT
131 TCCTAAAACTTACGAATTGGATCTCTATCTTATACAACTTTCCACATTGAGTCAAATTCCTATTT
725069 AACTATTCAAGTCCCTCTAATAATTATTTAGAC
196 AACTATTCAAGTCCCTCTAATAATTATTTAGAC
725102 TATAAACCCAATACTTTGAATATATCCATATTAGTTCCTTAATATTCAATTTAAATCCTTATAAA
1 TATAAACCCAATACTTTGAATATATCCATATTAGTTCCTTAATATTCAATTTAAATCCTTATAAA
725167 TTATTTTCAGATTATATTAAATCTAATACATTAACTTTACCTAATTGTCATTTCACCACCAACTT
66 TTATTTTCAGATTATATTAAATCTAATACATTAACTTTACCTAATTGTCATTTCACCACCAACTT
725232 TCCTAAAACTTACGAATTGGATCTCTATCTTATACAACTTTCCACATTGAGTCAAATTCCTATTT
131 TCCTAAAACTTACGAATTGGATCTCTATCTTATACAACTTTCCACATTGAGTCAAATTCCTATTT
725297 AACTATTCAAGTCCCTCTAATAATTATTTAGAC
196 AACTATTCAAGTCCCTCTAATAATTATTTAGAC
725330 T
1 T
725331 TTACACATCA
Statistics
Matches: 229, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 229 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (228 bp):
TATAAACCCAATACTTTGAATATATCCATATTAGTTCCTTAATATTCAATTTAAATCCTTATAAA
TTATTTTCAGATTATATTAAATCTAATACATTAACTTTACCTAATTGTCATTTCACCACCAACTT
TCCTAAAACTTACGAATTGGATCTCTATCTTATACAACTTTCCACATTGAGTCAAATTCCTATTT
AACTATTCAAGTCCCTCTAATAATTATTTAGAC
Found at i:728040 original size:21 final size:24
Alignment explanation
Indices: 728010--728058 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
728000 TTTCAATGCA
728010 ATTTGATCC-TTG-ATTTA-TTTT
1 ATTTGATCCTTTGAATTTATTTTT
*
728031 ATTTGTTCCTTTGAATTTATTTTT
1 ATTTGATCCTTTGAATTTATTTTT
728055 ATTT
1 ATTT
728059 AAATTGGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 5 0.21
24 8 0.33
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.65
Consensus pattern (24 bp):
ATTTGATCCTTTGAATTTATTTTT
Found at i:730742 original size:131 final size:131
Alignment explanation
Indices: 730508--730770 Score: 526
Period size: 131 Copynumber: 2.0 Consensus size: 131
730498 TGAAATGTTT
730508 GGTGTAGGATCAATTAGCAAAGAAGGGGGAATTAAAGGGGCAAATAAGTCTTTTGACAAGGAAAA
1 GGTGTAGGATCAATTAGCAAAGAAGGGGGAATTAAAGGGGCAAATAAGTCTTTTGACAAGGAAAA
730573 TAATTAAATCTTATTTGATGATATTTATAACCGCGTGGAAGCCAGGGAAAAAGACAAAAGTTTCT
66 TAATTAAATCTTATTTGATGATATTTATAACCGCGTGGAAGCCAGGGAAAAAGACAAAAGTTTCT
730638 A
131 A
730639 GGTGTAGGATCAATTAGCAAAGAAGGGGGAATTAAAGGGGCAAATAAGTCTTTTGACAAGGAAAA
1 GGTGTAGGATCAATTAGCAAAGAAGGGGGAATTAAAGGGGCAAATAAGTCTTTTGACAAGGAAAA
730704 TAATTAAATCTTATTTGATGATATTTATAACCGCGTGGAAGCCAGGGAAAAAGACAAAAGTTTCT
66 TAATTAAATCTTATTTGATGATATTTATAACCGCGTGGAAGCCAGGGAAAAAGACAAAAGTTTCT
730769 A
131 A
730770 G
1 G
730771 ATTTCTCTTC
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (131 bp):
GGTGTAGGATCAATTAGCAAAGAAGGGGGAATTAAAGGGGCAAATAAGTCTTTTGACAAGGAAAA
TAATTAAATCTTATTTGATGATATTTATAACCGCGTGGAAGCCAGGGAAAAAGACAAAAGTTTCT
A
Found at i:732088 original size:23 final size:23
Alignment explanation
Indices: 732062--732112 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
732052 AATCTTATAT
732062 GGCACTACAGTGCAATTCTACGC
1 GGCACTACAGTGCAATTCTACGC
* * *
732085 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACAGTGCAATTCTACGC
732108 GGCAC
1 GGCAC
732113 CTCGGTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (23 bp):
GGCACTACAGTGCAATTCTACGC
Found at i:732129 original size:23 final size:23
Alignment explanation
Indices: 732071--732121 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
732061 TGGCACTACA
*
732071 GTGCAATTCTACGCGGCACTTCG
1 GTGCAATTCTACGCGGCACCTCG
*
732094 GTGCAATTCTACGTGGCACCTCG
1 GTGCAATTCTACGCGGCACCTCG
732117 GTGCA
1 GTGCA
732122 TTTATACGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GTGCAATTCTACGCGGCACCTCG
Found at i:733252 original size:36 final size:34
Alignment explanation
Indices: 733212--733291 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
733202 TCTTGGGTAT
* * *
733212 ACACTCTAGTGTTTTTAAATCATGTGTCTTCGTTAG
1 ACACTCTAGTGTCTGT-AAT-ATGTGCCTTCGTTAG
* *
733248 ACACTCTAGGGTCTGTACTATGTGCCTTCGTTAG
1 ACACTCTAGTGTCTGTAATATGTGCCTTCGTTAG
733282 ACACTCTAGT
1 ACACTCTAGT
733292 ACTACCTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.61
35 2 0.05
36 13 0.34
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (34 bp):
ACACTCTAGTGTCTGTAATATGTGCCTTCGTTAG
Found at i:733481 original size:21 final size:22
Alignment explanation
Indices: 733449--733490 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
733439 AATAACATTT
733449 ATGATAAACATCATATGTATTC
1 ATGATAAACATCATATGTATTC
733471 ATGAT-AACATCATATGTATT
1 ATGATAAACATCATATGTATT
733491 AAACAGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (22 bp):
ATGATAAACATCATATGTATTC
Found at i:735358 original size:13 final size:13
Alignment explanation
Indices: 735322--735374 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
735312 TCATAAATCG
*
735322 ATGACGTGCATTT
1 ATGACGCGCATTT
* *
735335 ATGGCACGCATTT
1 ATGACGCGCATTT
*
735348 ATGACGTGCATTT
1 ATGACGCGCATTT
*
735361 ATGATGCGCATTT
1 ATGACGCGCATTT
735374 A
1 A
735375 CGACTTACAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (13 bp):
ATGACGCGCATTT
Found at i:735370 original size:26 final size:26
Alignment explanation
Indices: 735322--735374 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
735312 TCATAAATCG
*
735322 ATGACGTGCATTTATGGCACGCATTT
1 ATGACGTGCATTTATGACACGCATTT
**
735348 ATGACGTGCATTTATGATGCGCATTT
1 ATGACGTGCATTTATGACACGCATTT
735374 A
1 A
735375 CGACTTACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (26 bp):
ATGACGTGCATTTATGACACGCATTT
Found at i:743717 original size:22 final size:22
Alignment explanation
Indices: 743689--743741 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
743679 AGGACTTGAA
743689 ATGCATGGCTGAATTTTACAAT
1 ATGCATGGCTGAATTTTACAAT
743711 ATGCATGGCTGAATTTTACAAT
1 ATGCATGGCTGAATTTTACAAT
743733 ATGCATGGC
1 ATGCATGGC
743742 CGAAGGTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (22 bp):
ATGCATGGCTGAATTTTACAAT
Found at i:752075 original size:17 final size:17
Alignment explanation
Indices: 752053--752093 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
752043 TTGTTCTACT
752053 AAAATTTT-TTATTTTAA
1 AAAATTTTATTA-TTTAA
752070 AAAATTTTATTATTTAA
1 AAAATTTTATTATTTAA
*
752087 AATATTT
1 AAAATTT
752094 ATGATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAAATTTTATTATTTAA
Found at i:754210 original size:30 final size:33
Alignment explanation
Indices: 754174--754251 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 33
754164 AAAACCGAAT
754174 TAAACGGGGACG-A-A-GAAAAACCATTTATGC
1 TAAACGGGGACGAACAGGAAAAACCATTTATGC
754204 TAAACGGGGACGGGAACAGGGAAAAACCATTTATGC
1 TAAACGGGGAC--GAACA-GGAAAAACCATTTATGC
*
754240 TAAATGGGGACG
1 TAAACGGGGACG
754252 GGGACGGGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 11 0.27
32 1 0.02
33 1 0.02
34 2 0.05
36 26 0.63
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (33 bp):
TAAACGGGGACGAACAGGAAAAACCATTTATGC
Found at i:754382 original size:35 final size:36
Alignment explanation
Indices: 754331--754415 Score: 127
Period size: 35 Copynumber: 2.4 Consensus size: 36
754321 AAATAATTAT
*
754331 TATATATATATATAATATTAATAAATTTAATTTAAA
1 TATAAATATATATAATATTAATAAATTTAATTTAAA
* *
754367 T-TAAATATATATAATATTTATATATTTAATTTAAA
1 TATAAATATATATAATATTAATAAATTTAATTTAAA
*
754402 TATATATATATATA
1 TATAAATATATATA
754416 TACCCGGCCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 32 0.73
36 12 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
TATAAATATATATAATATTAATAAATTTAATTTAAA
Found at i:754430 original size:12 final size:12
Alignment explanation
Indices: 754415--754445 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
754405 ATATATATAT
754415 ATACCCGGCCCG
1 ATACCCGGCCCG
*
754427 ATACCCGGTCCG
1 ATACCCGGCCCG
754439 ATACCCG
1 ATACCCG
754446 TTTAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.45, G:0.23, T:0.13
Consensus pattern (12 bp):
ATACCCGGCCCG
Found at i:756261 original size:24 final size:24
Alignment explanation
Indices: 756234--756321 Score: 124
Period size: 24 Copynumber: 3.7 Consensus size: 24
756224 ATCATAACAT
* *
756234 AATCCAAGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAG
756258 AATCCAGGTCAAGTATTCA-ATCAG
1 AATCCAGGTCAAGTA-TCAGATCAG
*
756282 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
*
756306 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
756322 TATAATAGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
23 2 0.03
24 53 0.91
25 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAG
Found at i:758847 original size:13 final size:13
Alignment explanation
Indices: 758801--758830 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
758791 GCCGGTCAAC
*
758801 GGTCAACGGGTCG
1 GGTCAACGGGTCA
758814 GGTCAACGGGTCA
1 GGTCAACGGGTCA
758827 GGTC
1 GGTC
758831 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCA
Found at i:758862 original size:18 final size:18
Alignment explanation
Indices: 758807--758865 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
758797 CAACGGTCAA
758807 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
758825 CAGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
* *
758843 CGGGTTGGGTCAACAGGT
1 CGGGTCGGGTCAACGGGT
758861 CGGGT
1 CGGGT
758866 AAACGGGTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.14, C:0.20, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:760339 original size:159 final size:159
Alignment explanation
Indices: 760050--760359 Score: 611
Period size: 159 Copynumber: 1.9 Consensus size: 159
760040 CAGATCATGT
760050 TTGAGACCTTCAATGTACCTGCCATGTATGTTGCTATCCAGGCTGTTCTCTCATTGTATGCCAGT
1 TTGAGACCTTCAATGTACCTGCCATGTATGTTGCTATCCAGGCTGTTCTCTCATTGTATGCCAGT
*
760115 GGTCGTACAACAGGTTTGTTCAAATAAAGACCTTACTAATTTTCACACTTTTTTTTACTGATTAT
66 GGTCGTACAACAGGTTTGTTCAAATAAAGACCTTACTAAGTTTCACACTTTTTTTTACTGATTAT
760180 TCATAATCAAGCTGAGACCTTGGAACAGG
131 TCATAATCAAGCTGAGACCTTGGAACAGG
760209 TTGAGACCTTCAATGTACCTGCCATGTATGTTGCTATCCAGGCTGTTCTCTCATTGTATGCCAGT
1 TTGAGACCTTCAATGTACCTGCCATGTATGTTGCTATCCAGGCTGTTCTCTCATTGTATGCCAGT
760274 GGTCGTACAACAGGTTTGTTCAAATAAAGACCTTACTAAGTTTCACACTTTTTTTTACTGATTAT
66 GGTCGTACAACAGGTTTGTTCAAATAAAGACCTTACTAAGTTTCACACTTTTTTTTACTGATTAT
760339 TCATAATCAAGCTGAGACCTT
131 TCATAATCAAGCTGAGACCTT
760360 TGTCGTAACC
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 150 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (159 bp):
TTGAGACCTTCAATGTACCTGCCATGTATGTTGCTATCCAGGCTGTTCTCTCATTGTATGCCAGT
GGTCGTACAACAGGTTTGTTCAAATAAAGACCTTACTAAGTTTCACACTTTTTTTTACTGATTAT
TCATAATCAAGCTGAGACCTTGGAACAGG
Found at i:761018 original size:19 final size:19
Alignment explanation
Indices: 760997--761032 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
760987 AATATATTTA
760997 AAAACA-ATAAAATAAATT
1 AAAACATATAAAATAAATT
761015 AAAACATATAAAATAAAT
1 AAAACATATAAAATAAAT
761033 GACTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAACATATAAAATAAATT
Found at i:761903 original size:40 final size:39
Alignment explanation
Indices: 761858--761933 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 39
761848 GTTTATATCT
** *
761858 TCTCTGTTTTTTTTTCTGTCTCTCTCTCCTTTTTTTTGTC
1 TCTCTGTTTCGTTCTCTGTCTCTCTC-CCTTTTTTTTGTC
* *
761898 TCTCTGTTTCGTTCTCTGTCTCTGTCCTTTTTTTTT
1 TCTCTGTTTCGTTCTCTGTCTCTCTCCCTTTTTTTT
761934 CTTTGGTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 9 0.29
40 22 0.71
ACGTcount: A:0.00, C:0.25, G:0.09, T:0.66
Consensus pattern (39 bp):
TCTCTGTTTCGTTCTCTGTCTCTCTCCCTTTTTTTTGTC
Found at i:762443 original size:3 final size:3
Alignment explanation
Indices: 762435--762499 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
762425 TTAATATATT
* *
762435 TAA TAA TAA TAG TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
762483 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
762500 TGGATAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:763067 original size:113 final size:113
Alignment explanation
Indices: 762819--763361 Score: 939
Period size: 113 Copynumber: 4.8 Consensus size: 113
762809 GAATTATGCC
* * * *
762819 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGCGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * ** **
762883 TATGAACTTTC-ATCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
66 TATGAAC--TCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
762932 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
762997 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
66 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
*
763045 AAAAGGCTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
763110 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
66 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
763158 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
763222 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
66 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
763270 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
763335 TATGAACTCGAACTGGAAAAGCTGATC
66 TATGAACTCGAACTGGAAAAGATGATC
763362 TTTCAAATGA
Statistics
Matches: 414, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
112 114 0.28
113 237 0.57
114 63 0.15
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
Found at i:763269 original size:225 final size:226
Alignment explanation
Indices: 762825--763361 Score: 943
Period size: 225 Copynumber: 2.4 Consensus size: 226
762815 TGCCAAAAGT
* * * *
762825 TGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGCGTTCTTCTCATTATGAAC
1 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
* ** *
762890 TTTC-ATCTGGAAAAGCTGATCCATTAAATGATGGATTCATATAAAAGGTTGAACAAATTCTTCT
66 --TCGAACTGGAAAAGCTGATCCACCAAATGATGGATTCAGATAAAAGGTTGAACAAATTCTTCT
762954 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGA
129 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGA
763019 TGATCCACCAAATGATGGATTCAGGTAAAAGGC
194 TGATCCACCAAATGATGGATTCAGGTAAAAGGC
763052 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
1 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
* *
763117 TCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCA
66 TCGAACTGGAAAAGCTGATCCACCAAATGATGGATTCAGATAAAAGGTTGAACAAATTCTTCTCA
763182 TTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATG
131 TTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATG
*
763246 ATCCACCAAATGATGGATTCAGGTAAAAGGT
196 ATCCACCAAATGATGGATTCAGGTAAAAGGC
763277 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
1 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
763342 TCGAACTGGAAAAGCTGATC
66 TCGAACTGGAAAAGCTGATC
763362 TTTCAAATGA
Statistics
Matches: 297, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
225 164 0.55
226 72 0.24
227 61 0.21
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (226 bp):
TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
TCGAACTGGAAAAGCTGATCCACCAAATGATGGATTCAGATAAAAGGTTGAACAAATTCTTCTCA
TTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATG
ATCCACCAAATGATGGATTCAGGTAAAAGGC
Found at i:764341 original size:84 final size:84
Alignment explanation
Indices: 764097--764893 Score: 1253
Period size: 84 Copynumber: 9.5 Consensus size: 84
764087 ACTGAATCAT
* * *
764097 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTTTAAACTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
*
764161 ATT-GTTCTGTCAAATCAG
66 ATTGGTTCTGTCAAACCAG
*
764179 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCACATTCATCTTCCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
*
764243 ATTGGTTTTGTCAAACCAG
66 ATTGGTTCTGTCAAACCAG
* *
764262 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACATTCATCTTCCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
*
764327 ATTGGTTTTGTCAAACCAG
66 ATTGGTTCTGTCAAACCAG
* *
764346 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACATTCATCTTCCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
*
764411 ATTGGTTTTGTCAAACCAG
66 ATTGGTTCTGTCAAACCAG
* *
764430 ATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATT-AACACATTCATCTTCTAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
* * * *
764494 CTTGATTCTGTCTAATCAG
66 ATTGGTTCTGTCAAACCAG
* *
764513 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACATTCATCTTCCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
*
764578 ATTGGTTTTGTCAAACCAG
66 ATTGGTTCTGTCAAACCAG
* * * *
764597 ATCAGATAACTCAAAGAACAATTCCAGAAGATGCTATT-AACACATTCATCTTTTAAACTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
*
764661 ATTGGTTCTGTCTAACCAG
66 ATTGGTTCTGTCAAACCAG
*
764680 ATCAGATAACTCAAAGAACACTTCCAGCAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
* * * *
764745 CTTGATTCTGTCTAATCAG
66 ATTGGTTCTGTCAAACCAG
764764 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
* * *
764829 CTTGATTCTGTCCAACCAG
66 ATTGGTTCTGTCAAACCAG
764848 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACAT
764894 ATAAAAGGTT
Statistics
Matches: 666, Mismatches: 44, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
82 60 0.09
83 202 0.30
84 404 0.61
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (84 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
ATTGGTTCTGTCAAACCAG
Found at i:764373 original size:167 final size:167
Alignment explanation
Indices: 764097--764893 Score: 1292
Period size: 167 Copynumber: 4.8 Consensus size: 167
764087 ACTGAATCAT
* *
764097 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTTTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATTCAATGA
*
764162 TT-GTTCTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCACATT
66 TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
764225 CATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
131 CATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
* *
764262 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACATTCATCTTCCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-GAACACATTCATCTTCTAAATTCAATG
* *
764327 ATTGGTTTTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACAT
65 ATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACAT
764392 TCATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
130 TCATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
* * *
764430 ATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTAACACATTCATCTTCTAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATTCAATGA
* * * *
764495 TTGATTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACATT
66 TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
764560 CATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
131 CATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
* * * *
764597 ATCAGATAACTCAAAGAACAATTCCAGAAGATGCTATTAACACATTCATCTTTTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATTCAATGA
* *
764662 TTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGCAGATGCTATTGAGCACATT
66 TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
* * * * * *
764727 CATCTTCTAAATTCAATGCTTGATTCTGTCTAATCAG
131 CATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
*
764764 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTAAATTCAATG
* * *
764829 CTTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACAT
65 ATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACAT
764894 ATAAAAGGTT
Statistics
Matches: 588, Mismatches: 40, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
165 37 0.06
166 26 0.04
167 360 0.61
168 165 0.28
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (167 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATTCAATGA
TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
CATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
Found at i:764538 original size:251 final size:250
Alignment explanation
Indices: 764097--764893 Score: 1326
Period size: 251 Copynumber: 3.2 Consensus size: 250
764087 ACTGAATCAT
764097 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTTTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTTTAAACTCAATGA
* *
764162 TT-GTTCTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCACATTC
66 TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTC
* * * * * *
764226 ATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
131 ATCTTCTAAATTCAATGCTTGATTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAA
764291 GATGCTATGGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
196 GATGCTATGGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
* ** *
764346 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACATTCATCTTCCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-GAACACATTCATCTTTTAAACTCAATG
* * *
764411 ATTGGTTTTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTAACACATT
65 ATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATT
764476 CATCTTCTAAATTCAATGCTTGATTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGA
130 CATCTTCTAAATTCAATGCTTGATTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGA
764541 AGATGCTATGGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
195 AGATGCTATGGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
* *
764597 ATCAGATAACTCAAAGAACAATTCCAGAAGATGCTATTAACACATTCATCTTTTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTTTAAACTCAATGA
* *
764662 TTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGCAGATGCTATTGAGCACATT
66 TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-AGCACATT
764727 CATCTTCTAAATTCAATGCTTGATTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGA
130 CATCTTCTAAATTCAATGCTTGATTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGA
* * * * * *
764792 AGATGCTATTGAGCACATTCATCTTCTAAATTCAATGCTTGATTCTGTCCAACCAG
195 AGATGCTATGGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
*
764848 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACAT
764894 ATAAAAGGTT
Statistics
Matches: 509, Mismatches: 35, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
249 37 0.07
250 101 0.20
251 364 0.72
252 7 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (250 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTTTAAACTCAATGA
TTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTC
ATCTTCTAAATTCAATGCTTGATTCTGTCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAA
GATGCTATGGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGTCAAACCAG
Found at i:765848 original size:19 final size:19
Alignment explanation
Indices: 765826--765899 Score: 91
Period size: 19 Copynumber: 4.0 Consensus size: 19
765816 TTGACCCACC
765826 TTTTTTCCTTTTTTCTCTT
1 TTTTTTCCTTTTTTCTCTT
765845 TTTTTTCCTTTTTTCT-TT
1 TTTTTTCCTTTTTTCTCTT
*
765863 CTTTTTT--TCTTTTCTCTT
1 -TTTTTTCCTTTTTTCTCTT
* *
765881 TTTTTTCTTTTTTTTTCTT
1 TTTTTTCCTTTTTTCTCTT
765900 CAAGCATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 13 0.27
18 4 0.08
19 31 0.65
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTCCTTTTTTCTCTT
Found at i:765850 original size:11 final size:11
Alignment explanation
Indices: 765834--765898 Score: 71
Period size: 11 Copynumber: 5.7 Consensus size: 11
765824 CCTTTTTTCC
765834 TTTTTTCTCTT
1 TTTTTTCTCTT
765845 TTTTTTC-CTTT
1 TTTTTTCTC-TT
*
765856 TTTCTTTCTTTTT
1 TTT-TTTC-TCTT
765869 TTCTTTTCTCTT
1 TT-TTTTCTCTT
765881 TTTTTTCT-TT
1 TTTTTTCTCTT
765891 TTTTTTCT
1 TTTTTTCT
765899 TCAAGCATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
10 11 0.23
11 18 0.38
12 9 0.19
13 8 0.17
14 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:765882 original size:15 final size:16
Alignment explanation
Indices: 765836--765891 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 16
765826 TTTTTTCCTT
765836 TTTTCTCTTTTTTTTCC
1 TTTTCTCTTTTTTTT-C
*
765853 TTTTTTCTTTCTTTTTTTC
1 --TTTTCTCT-TTTTTTTC
765872 TTTTCTCTTTTTTTTC
1 TTTTCTCTTTTTTTTC
765888 TTTT
1 TTTT
765892 TTTTTCTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 12 0.35
17 7 0.21
19 8 0.24
20 7 0.21
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTCTTTTTTTTC
Found at i:765894 original size:8 final size:8
Alignment explanation
Indices: 765825--765894 Score: 59
Period size: 8 Copynumber: 8.0 Consensus size: 8
765815 CTTGACCCAC
*
765825 CTTTTTTC
1 CTTTTTTT
765833 CTTTTTTCT
1 CTTTTTT-T
765842 CTTTTTTTT
1 C-TTTTTTT
*
765851 CCTTTTTT
1 CTTTTTTT
765859 CTTTCTTTT
1 CTTT-TTTT
*
765868 TTTCTTTTCT
1 CTT-TTTT-T
765878 CTTTTTTTT
1 C-TTTTTTT
765887 CTTTTTTT
1 CTTTTTTT
765895 TTCTTCAAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
8 23 0.45
9 14 0.27
10 12 0.24
11 2 0.04
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
CTTTTTTT
Found at i:777104 original size:26 final size:26
Alignment explanation
Indices: 777075--777124 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
777065 CTTTTCTTTG
777075 ATATTGATAAATATTAATTTTAAATA
1 ATATTGATAAATATTAATTTTAAATA
* * * *
777101 ATATTGTTTACTTTTAATTTTAAA
1 ATATTGATAAATATTAATTTTAAA
777125 ATATCAGAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (26 bp):
ATATTGATAAATATTAATTTTAAATA
Found at i:777295 original size:41 final size:42
Alignment explanation
Indices: 777230--777327 Score: 100
Period size: 41 Copynumber: 2.4 Consensus size: 42
777220 TTAACAATAT
*
777230 AATAAAATAAA--AAATACTACTAAAACAAAT-ATTTAAAAAC
1 AATAAAATAAATTAAATACTACTAAAACAAATGA-CTAAAAAC
* *
777270 AATAAAATAAATTAAA-ACATA-TAAAATAAATGACTAAATAC
1 AATAAAATAAATTAAATAC-TACTAAAACAAATGACTAAAAAC
777311 AA-AAAATAAAATTAAAT
1 AATAAAAT-AAATTAAAT
777328 CTAATTCATA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
40 16 0.33
41 27 0.55
42 6 0.12
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.23
Consensus pattern (42 bp):
AATAAAATAAATTAAATACTACTAAAACAAATGACTAAAAAC
Found at i:777326 original size:19 final size:20
Alignment explanation
Indices: 777262--777327 Score: 66
Period size: 19 Copynumber: 3.3 Consensus size: 20
777252 AAACAAATAT
*
777262 TTAAAAACAATAAAAT-AAA
1 TTAAATACAATAAAATAAAA
777281 TTAAA-ACATATAAAATAAATGA
1 TTAAATACA-ATAAAATAAA--A
*
777303 CTAAATACAA-AAAATAAAA
1 TTAAATACAATAAAATAAAA
777322 TTAAAT
1 TTAAAT
777328 CTAATTCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 3 0.08
19 18 0.45
20 2 0.05
21 8 0.20
22 6 0.15
23 3 0.08
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (20 bp):
TTAAATACAATAAAATAAAA
Found at i:778701 original size:3 final size:3
Alignment explanation
Indices: 778693--778805 Score: 190
Period size: 3 Copynumber: 37.7 Consensus size: 3
778683 TTAATCTATT
* *
778693 TAA TAA TAA TAG TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
778741 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
778789 TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
778806 TGGATAAAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:781632 original size:4 final size:4
Alignment explanation
Indices: 781623--781651 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
781613 TTGCATTCAT
781623 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
781652 GGTTTAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:789488 original size:18 final size:18
Alignment explanation
Indices: 789465--789500 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
789455 AACATTATCT
789465 TTCATATCAATATATGAA
1 TTCATATCAATATATGAA
789483 TTCATATCAATATATGAA
1 TTCATATCAATATATGAA
789501 ATGCATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (18 bp):
TTCATATCAATATATGAA
Found at i:804658 original size:95 final size:95
Alignment explanation
Indices: 804480--804660 Score: 254
Period size: 95 Copynumber: 1.9 Consensus size: 95
804470 CTGAGTTCTG
* * * * * *
804480 GTACCGATATTGTCAAAACAGAATGCTAAATTGGTACCAATACCATATATGATATTGATACTACT
1 GTACCGATAATGTCAAAACAGAATGCTAAAATGGTAACAATAACATATATGATATCGATACTACA
* * *
804545 TAGAGTTGTAGTACCGATACTTCTCAGGCA
66 TAGAGTAGCAATACCGATACTTCTCAGGCA
* *
804575 GTACCGATAATGTCAAAACAGAATGCTAAAATGGTAACGATAACATATGTGATATCGATACTACA
1 GTACCGATAATGTCAAAACAGAATGCTAAAATGGTAACAATAACATATATGATATCGATACTACA
*
804640 TAGAGTAGCAATATCGATACT
66 TAGAGTAGCAATACCGATACT
804661 GTCAAAAACA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (95 bp):
GTACCGATAATGTCAAAACAGAATGCTAAAATGGTAACAATAACATATATGATATCGATACTACA
TAGAGTAGCAATACCGATACTTCTCAGGCA
Found at i:804681 original size:76 final size:75
Alignment explanation
Indices: 804579--804719 Score: 219
Period size: 76 Copynumber: 1.9 Consensus size: 75
804569 CAGGCAGTAC
* *
804579 CGATAATGTCAAAACAGAATGCTAAAATGGTAACGATAACATATGTGATATCGATACTACATAGA
1 CGATAATGTCAAAACAGAATGATAAAATGGTAACGATAACATATATGATATCGATACTACATAGA
804644 GTAGCAATAT
66 GTAGCAATAT
* * * *
804654 CGATACTGTCAAAAACAGAATGATAAAATGGTACCGATACCATATATGATATCGATACTACTTAG
1 CGATAATGTC-AAAACAGAATGATAAAATGGTAACGATAACATATATGATATCGATACTACATAG
804719 A
65 A
804720 TTAATTGTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
75 9 0.15
76 50 0.85
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (75 bp):
CGATAATGTCAAAACAGAATGATAAAATGGTAACGATAACATATATGATATCGATACTACATAGA
GTAGCAATAT
Found at i:804731 original size:76 final size:75
Alignment explanation
Indices: 804579--804738 Score: 212
Period size: 76 Copynumber: 2.1 Consensus size: 75
804569 CAGGCAGTAC
* * *
804579 CGATAATGTCAAAACAGAATGCTAAAATGGTAACGATAACATATGTGATATCGATACTACATAGA
1 CGATACTGTCAAAACAGAATGATAAAATGGTAACGATAACATATATGATATCGATACTACATAGA
*
804644 GTAGCAATAT
66 GTAACAATAT
* * *
804654 CGATACTGTCAAAAACAGAATGATAAAATGGTACCGATACCATATATGATATCGATACTACTTAG
1 CGATACTGTC-AAAACAGAATGATAAAATGGTAACGATAACATATATGATATCGATACTACATAG
* ***
804719 ATTAATTGTAT
65 AGTAACAATAT
804730 CGATACTGT
1 CGATACTGT
804739 GAGTAATGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
75 9 0.12
76 64 0.88
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (75 bp):
CGATACTGTCAAAACAGAATGATAAAATGGTAACGATAACATATATGATATCGATACTACATAGA
GTAACAATAT
Found at i:804735 original size:24 final size:23
Alignment explanation
Indices: 804703--804760 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
804693 CCATATATGA
* *
804703 TATCGATACTACTTAGATTAATTG
1 TATCGATACTACTT-GAGTAATGG
*
804727 TATCGATACT--GTGAGTAATGG
1 TATCGATACTACTTGAGTAATGG
804748 TATCGATACTACT
1 TATCGATACTACT
804761 CCTTTAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 17 0.61
22 1 0.04
24 10 0.36
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (23 bp):
TATCGATACTACTTGAGTAATGG
Found at i:805038 original size:16 final size:16
Alignment explanation
Indices: 805017--805047 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
805007 ATATCTCATG
805017 CGTGACGAGCTCCATA
1 CGTGACGAGCTCCATA
*
805033 CGTGACGAGTTCCAT
1 CGTGACGAGCTCCAT
805048 GAGGACTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.23
Consensus pattern (16 bp):
CGTGACGAGCTCCATA
Found at i:820968 original size:21 final size:20
Alignment explanation
Indices: 820930--820969 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
820920 ATCAACATTT
*
820930 TTTGCATATGCATTTGCATC
1 TTTGCATATGCATCTGCATC
*
820950 TTTGCATTTTGCATCTGCAT
1 TTTGCA-TATGCATCTGCAT
820970 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTGCATATGCATCTGCATC
Found at i:822251 original size:26 final size:26
Alignment explanation
Indices: 822222--822290 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
822212 AAATCAAATC
822222 AAAGCGAAGAGAAAAGAAAAGAAAAA
1 AAAGCGAAGAGAAAAGAAAAGAAAAA
* * *
822248 AAAGAGAAAAGAAACA-AAGAGAAAAA
1 AAAGCGAAGAGAAA-AGAAAAGAAAAA
*
822274 ATAA-CAAAGAGAAAAGA
1 A-AAGCGAAGAGAAAAGA
822291 GAAAAATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 1 0.03
26 30 0.88
27 3 0.09
ACGTcount: A:0.74, C:0.04, G:0.20, T:0.01
Consensus pattern (26 bp):
AAAGCGAAGAGAAAAGAAAAGAAAAA
Found at i:822268 original size:15 final size:15
Alignment explanation
Indices: 822236--822290 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
822226 CGAAGAGAAA
*
822236 AGAAAAGAAAAAAAAG
1 AGAAAAG-AAACAAAG
822252 AGAAAAGAAACAAAG
1 AGAAAAGAAACAAAG
*
822267 AGAAAAAATAACAAAG
1 AGAAAAGA-AACAAAG
822283 AGAAAAGA
1 AGAAAAGA
822291 GAAAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
15 14 0.40
16 21 0.60
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (15 bp):
AGAAAAGAAACAAAG
Found at i:822268 original size:36 final size:34
Alignment explanation
Indices: 822228--822321 Score: 91
Period size: 36 Copynumber: 2.6 Consensus size: 34
822218 AATCAAAGCG
822228 AAGAGAAAAGAAAAGAAAAAAAAGAGAAAAGAAACA
1 AAGAGAAAAGAAAAGAAAAAAAAGAG-AAA-AAACA
* *
822264 AAGAGAAAA-AATAACAAAGAGAAAAGAGAAAAATCA
1 AAGAGAAAAGAA-AAGAAA-A-AAAAGAGAAAAAACA
* **
822300 AAGAAAAAAGCGAAGAAAAAAA
1 AAGAGAAAAGAAAAGAAAAAAA
822322 GGACAAGAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
34 3 0.06
35 3 0.06
36 31 0.65
37 4 0.08
38 7 0.15
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (34 bp):
AAGAGAAAAGAAAAGAAAAAAAAGAGAAAAAACA
Found at i:824071 original size:40 final size:40
Alignment explanation
Indices: 824011--824109 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
824001 CTTCATTGCA
824011 TAGGAACCGTGTCATCCCCTGACCAGACCTCCTCATCATG
1 TAGGAACCGTGTCATCCCCTGACCAGACCTCCTCATCATG
* *
824051 TAGGAACCGTGTCATTCCCTGACCAGACCTTCTCATCACT-
1 TAGGAACCGTGTCATCCCCTGACCAGACCTCCTCATCA-TG
**
824091 TAGGATTCGTGTCA-CCCCT
1 TAGGAACCGTGTCATCCCCT
824110 AGATAACCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 4 0.08
40 48 0.91
41 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.26
Consensus pattern (40 bp):
TAGGAACCGTGTCATCCCCTGACCAGACCTCCTCATCATG
Found at i:828945 original size:3 final size:3
Alignment explanation
Indices: 828937--829016 Score: 60
Period size: 3 Copynumber: 26.7 Consensus size: 3
828927 ATAAATAAAA
* *
828937 AAT AAT AAT AA- AAT GAAG AA- AA- AAG AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
828980 AAT AAT ATAT ACAT AAT AA- AAA AAT AAAT AAA AAT AA
1 AAT AAT A-AT A-AT AAT AAT AAT AAT -AAT AAT AAT AA
829017 GAAGAAAATG
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
2 8 0.12
3 46 0.71
4 11 0.17
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:829091 original size:46 final size:47
Alignment explanation
Indices: 829040--829132 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 47
829030 ATAGATAAAT
* *
829040 AAATAAAACAAATATAAA-GAAGATAAAAA-A-TAAAGATGAGGAATAA
1 AAATAAAACAAA-ATAAAGGAAGAAAAAAAGAGTAAAAAT-AGGAATAA
*
829086 AAATAAAATAAAATAAAGGAAGAAAAAAAGAGTAAAAATAGGAATAA
1 AAATAAAACAAAATAAAGGAAGAAAAAAAGAGTAAAAATAGGAATAA
829133 GTAAACTAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 5 0.12
46 21 0.51
47 9 0.22
48 6 0.15
ACGTcount: A:0.71, C:0.01, G:0.14, T:0.14
Consensus pattern (47 bp):
AAATAAAACAAAATAAAGGAAGAAAAAAAGAGTAAAAATAGGAATAA
Found at i:829150 original size:3 final size:3
Alignment explanation
Indices: 829142--829180 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
829132 AGTAAACTAG
* *
829142 AAT AAT AAT AAT AAT AAT GAT AAT AAT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
829181 GAAAACAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:831983 original size:25 final size:23
Alignment explanation
Indices: 831955--832001 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
831945 ATTATTATTT
*
831955 AAAATTTATTATTGATAAAAATATG
1 AAAATATA-TATT-ATAAAAATATG
*
831980 AAAATATATATTTTAAAAATAT
1 AAAATATATATTATAAAAATAT
832002 TAAATCAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
AAAATATATATTATAAAAATATG
Found at i:841748 original size:40 final size:40
Alignment explanation
Indices: 841697--841797 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 40
841687 CTTAGCATCC
* *
841697 TTCAGATGAAAGTGTAAGATCGTTACAGGACTCAGCGTCT
1 TTCAGAAGAAAGAGTAAGATCGTTACAGGACTCAGCGTCT
* *
841737 TTTAGAAGAAAGAGTAAGATCGTTACATGACTCAGCGTCT
1 TTCAGAAGAAAGAGTAAGATCGTTACAGGACTCAGCGTCT
* *
841777 TTCAGAAGAAAGGGTGAGATC
1 TTCAGAAGAAAGAGTAAGATC
841798 ATAACTAGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (40 bp):
TTCAGAAGAAAGAGTAAGATCGTTACAGGACTCAGCGTCT
Found at i:841759 original size:124 final size:124
Alignment explanation
Indices: 841302--841757 Score: 460
Period size: 124 Copynumber: 3.7 Consensus size: 124
841292 CTCAGTAATA
* * * * *
841302 GATCA-CCCGAATAACGACTTAACATCCTTCAGAGGAAGGAGTAAGATCG-TCCATGACTCAGCT
1 GATCACCCCGAATCACGACTTAACATCCTTCAGATGAAAGAGTAAGATCGTTCCATGACTCAACG
* * * * * *
841365 TCTTTCAGAGGAAAGAGTGATATCATCACCAGATTCACCATCATTCAGTAAAAGAAGTG
66 TCTTTCAGAAGAAAGAGTGAGATCATCACCAGATTCAACATCCTTTAGTAAAAGGAGTG
* * *
841424 GATCACCCTGAATCACGACTTAACATCATAT-AGATG---GAGTAAGATCGTTCCATGACTTAAC
1 GATCACCCCGAATCACGACTTAACATCCT-TCAGATGAAAGAGTAAGATCGTTCCATGACTCAAC
* *** * *
841485 GTCTTCCATTGGAAAGAGTGAGATCATCACCAAATTCAACATCCTTTAGTAAAATGAGTG
65 GTCTTTCAGAAGAAAGAGTGAGATCATCACCAGATTCAACATCCTTTAGTAAAAGGAGTG
* * * **
841545 TATCACCCCGAATCATGACATATA-ATCCTTCAGA-GAAAGGAGTAAGATCGTTCCACAACTCAA
1 GATCACCCCGAATCACGACTTA-ACATCCTTCAGATGAAA-GAGTAAGATCGTTCCATGACTCAA
* * * * * *
841608 CATTTTTCATAAGAAAAAGTGAGATCGTCACCAGATTCATCATCCTTTAGTAAAAGGAGTG
64 CGTCTTTCAGAAGAAAGAGTGAGATCATCACCAGATTCAACATCCTTTAGTAAAAGGAGTG
* * * * * * * *
841669 GATCACCCCAAATTACAACTTAGCATCCTTCAGATGAAAGTGTAAGATCGTTACAGGACTCAGCG
1 GATCACCCCGAATCACGACTTAACATCCTTCAGATGAAAGAGTAAGATCGTTCCATGACTCAACG
* *
841734 TCTTTTAGAAGAAAGAGTAAGATC
66 TCTTTCAGAAGAAAGAGTGAGATC
841758 GTTACATGAC
Statistics
Matches: 270, Mismatches: 53, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
120 13 0.05
121 85 0.31
122 6 0.02
123 24 0.09
124 138 0.51
125 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (124 bp):
GATCACCCCGAATCACGACTTAACATCCTTCAGATGAAAGAGTAAGATCGTTCCATGACTCAACG
TCTTTCAGAAGAAAGAGTGAGATCATCACCAGATTCAACATCCTTTAGTAAAAGGAGTG
Found at i:843640 original size:2 final size:2
Alignment explanation
Indices: 843624--843668 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
843614 GTTCTAGCTT
843624 TA TA T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
843664 T- TA TA
1 TA TA TA
843669 CATCTTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:844688 original size:22 final size:23
Alignment explanation
Indices: 844663--844720 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
844653 CCCCAAGTTA
844663 CATCAA-ACCCAAACATAGAGCC
1 CATCAAGACCCAAACATAGAGCC
* *
844685 CATCAAGACTCAAACCTAGAGCC
1 CATCAAGACCCAAACATAGAGCC
* *
844708 CAACAGGACCCAA
1 CATCAAGACCCAA
844721 CCTCGTTAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.43, C:0.36, G:0.12, T:0.09
Consensus pattern (23 bp):
CATCAAGACCCAAACATAGAGCC
Found at i:846304 original size:44 final size:45
Alignment explanation
Indices: 846233--846335 Score: 174
Period size: 44 Copynumber: 2.3 Consensus size: 45
846223 TTATTTTACT
846233 TTAATTTTTGCATGAATGGTTGCATATT-GATTCATTTTAGTCCATA
1 TTAA-TTTTGCATGAATGGTTGCATATTAG-TTCATTTTAGTCCATA
846279 TTAATTTTGCATG-ATGGTTGCATATTAGTTCATTTTAGTCCATA
1 TTAATTTTGCATGAATGGTTGCATATTAGTTCATTTTAGTCCATA
846323 TTAATTTTGCATG
1 TTAATTTTGCATG
846336 TTACCCTCAT
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
44 42 0.75
45 10 0.18
46 4 0.07
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.49
Consensus pattern (45 bp):
TTAATTTTGCATGAATGGTTGCATATTAGTTCATTTTAGTCCATA
Found at i:852328 original size:19 final size:19
Alignment explanation
Indices: 852295--852345 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
852285 ACCATCTCTA
*
852295 TCATTTCTT-TATTTCATT
1 TCATTACTTATATTTCATT
852313 TCATT-CTTAATATTTCATT
1 TCATTACTT-ATATTTCATT
852332 TCATTACTTATATT
1 TCATTACTTATATT
852346 ATTATCCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.10
18 5 0.17
19 19 0.63
20 3 0.10
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.61
Consensus pattern (19 bp):
TCATTACTTATATTTCATT
Found at i:852668 original size:19 final size:19
Alignment explanation
Indices: 852615--852671 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
852605 GTGCAAAAAG
852615 AAAGAAAAAGACAAAAGAAGA
1 AAAG-AAAAGA-AAAAGAAGA
852636 AAA-AAATCAG-AAAAGAAGA
1 AAAGAAA--AGAAAAAGAAGA
852655 AAAGAAAAGAAAAAGAA
1 AAAGAAAAGAAAAAGAA
852672 AAATTCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.06
19 22 0.69
20 3 0.09
21 5 0.16
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (19 bp):
AAAGAAAAGAAAAAGAAGA
Found at i:852670 original size:16 final size:16
Alignment explanation
Indices: 852610--852673 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
852600 TTGGAGTGCA
852610 AAAAG-AAAGAAAAAG
1 AAAAGAAAAGAAAAAG
*
852625 ACAAA-AGAAGAAAAA-
1 A-AAAGAAAAGAAAAAG
*
852640 AATCAGAAAAG---AAG
1 AA-AAGAAAAGAAAAAG
852654 AAAAGAAAAGAAAAAG
1 AAAAGAAAAGAAAAAG
852670 AAAA
1 AAAA
852674 ATTCAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 15
0.66 0.07 0.27
Matches are distributed among these distances:
13 9 0.24
14 3 0.08
15 3 0.08
16 22 0.59
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:860149 original size:21 final size:21
Alignment explanation
Indices: 860123--860183 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
860113 TTACGAAGTT
*
860123 ACTGTAGCAGTGCATCGATGC
1 ACTGTAGTAGTGCATCGATGC
*
860144 ACTGTAGTAGTACATCGATGC
1 ACTGTAGTAGTGCATCGATGC
*
860165 ACTGTAGTACTGCATCGAT
1 ACTGTAGTAGTGCATCGAT
860184 ACAATTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (21 bp):
ACTGTAGTAGTGCATCGATGC
Found at i:863676 original size:20 final size:20
Alignment explanation
Indices: 863651--863699 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
863641 TGAATTCGAT
863651 ATGTTTTAATTAGTTTTGTA
1 ATGTTTTAATTAGTTTTGTA
863671 ATGTTTTAATTAGTTTTGTA
1 ATGTTTTAATTAGTTTTGTA
863691 ATGTTTTAA
1 ATGTTTTAA
863700 ATGTGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (20 bp):
ATGTTTTAATTAGTTTTGTA
Found at i:879296 original size:133 final size:134
Alignment explanation
Indices: 879058--879766 Score: 890
Period size: 133 Copynumber: 5.3 Consensus size: 134
879048 GCGAATCGAA
** * *
879058 CTCGATTCAATCTTCCCTGAGTATTAGTAGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* * *
879123 AGAAGAAGCAAAACA-ATCCTTATCTTTCAAGATTTGATATTCCCTGAGTAACACTGGAACAAGT
66 AGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
879187 CTAC
131 CTAC
* *
879191 CTCGATTCAAACTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTAA
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* * *
879256 AGAA-TAGCAGAACGTATCCTTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAACAAGT
66 AGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
* *
879320 ATCC
131 CTAC
* * * * * *
879324 CTTGATTTAATATTCCCTGAGTGACAGTGTAATGAATCAACGTCCCCATATCTAATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* * * * ** *
879389 AGAAGAAGCAAAACATATCTTTCTCTTTCAAGATTTGATATTCCCTTAGAAACTTTGGAAACAAA
66 AGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGG-AACAAG
879454 TCTGA-
130 TCT-AC
* * *
879459 CTCGATTCAATCTTCCCTGAGTAACATTGGAATGAATCAACGTACCCATATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* * * * *
879524 AGAAGAAGCAGAAAATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGGGGAATAAGT
66 AGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
879589 CTGC
131 CTAC
* * * * * *
879593 CTCGATTTAATTTTCCATGAGTCATAGTGGAATAAATCAACGTCCCCATATCTGA-TTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* *** * *
879657 AGAAAAAATGGAACATATCCCTCTCTTTCAAGATTTGATAATCCCTGAGTAACAGTGGAACAAGT
66 AGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
879722 CTAC
131 CTAC
* *
879726 C-CTGATTCAATCTTCCCTAAAG-AACAGTGGAATGAGTCAAC
1 CTC-GATTCAATCTTCCCT-GAGTAACAGTGGAATGAATCAAC
879767 ATTTCTCAAT
Statistics
Matches: 487, Mismatches: 82, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
132 8 0.02
133 268 0.55
134 100 0.21
135 111 0.23
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
AGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
CTAC
Found at i:879981 original size:15 final size:15
Alignment explanation
Indices: 879943--879989 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
879933 GATATTTTTA
*
879943 TATTATTAATATTA-T
1 TATTATT-ATTTTATT
879958 TATTATTATTTTACTT
1 TATTATTATTTTA-TT
879974 TATT-TTATTTTATT
1 TATTATTATTTTATT
879988 TA
1 TA
879990 ACATATCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.31
15 15 0.52
16 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTATTATTTTATT
Found at i:880374 original size:17 final size:17
Alignment explanation
Indices: 880352--880384 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
880342 GTCAGATTAC
880352 CCAAATCAACACTCAAT
1 CCAAATCAACACTCAAT
*
880369 CCAAATCCACACTCAA
1 CCAAATCAACACTCAA
880385 AAACATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.15
Consensus pattern (17 bp):
CCAAATCAACACTCAAT
Found at i:882857 original size:23 final size:22
Alignment explanation
Indices: 882809--882857 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
882799 ACAGAATATC
882809 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
882830 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
882853 AAGGA
1 AAGGA
882858 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:884489 original size:23 final size:23
Alignment explanation
Indices: 884436--884507 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 23
884426 ATGGACATTA
884436 TATATGGCACTACGGTG-AATTC
1 TATATGGCACTACGGTGCAATTC
* *
884458 TACACGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
*
884481 TATATGGCACTTCGGTGC-ATT-
1 TATATGGCACTACGGTGCAATTC
884502 TATATG
1 TATATG
884508 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
21 6 0.14
22 18 0.41
23 20 0.45
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
TATATGGCACTACGGTGCAATTC
Found at i:889492 original size:23 final size:23
Alignment explanation
Indices: 889424--889484 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
889414 CATTATTACA
*
889424 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
889447 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
889470 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
889485 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:896300 original size:55 final size:55
Alignment explanation
Indices: 896164--896537 Score: 589
Period size: 55 Copynumber: 6.9 Consensus size: 55
896154 ACCAATATAG
* * *
896164 AAATTCATAAACTTATTATGAATTTCTTAATTGTGCACACACAGTGCCCATACG-
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
* *
896218 AAATTCATAAACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
* *
896273 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCATACACAGT-CTCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGC-CCATACGA
* *
896328 AAATTCATAAACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGACCATAC-A
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
*
896382 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACATAGTGCCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
896437 AAATTCATAAACTTATTATGAATTTCTTAGTTTTACGCACAC-AA-TGCCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTT--GCACACAAAGTGCCCATACGA
896492 AAATTCAT-AACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGC
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGC
896538 TCATTTGGTA
Statistics
Matches: 296, Mismatches: 16, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
52 6 0.02
53 2 0.01
54 130 0.44
55 151 0.51
56 1 0.00
57 6 0.02
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (55 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
Found at i:896315 original size:109 final size:110
Alignment explanation
Indices: 896164--896537 Score: 607
Period size: 109 Copynumber: 3.4 Consensus size: 110
896154 ACCAATATAG
* *
896164 AAATTCATAAACTTATTATGAATTTCTTAATTGTGCACACACAGTGCCCATACG-AAATTCATAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGAAAATTCATAA
*
896228 ACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGG
66 ACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
*
896273 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCATACACAGT-CTCCATACGAAAATTCATA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGC-CCATACGAAAATTCATA
*
896337 AACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGACCATAC-A
65 AACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
*
896382 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACATAGTGCCCATACGAAAATTCATAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGAAAATTCATAA
*
896447 ACTTATTATGAATTTCTTAGTTTTACGCACAC-AA-TGCCCATACGA
66 ACTTATTATAAATTTCTTAGTTTT--GCACACAAAGTGCCCATACGA
*
896492 AAATTCAT-AACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGC
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGC
896538 TCATTTGGTA
Statistics
Matches: 249, Mismatches: 10, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
108 1 0.00
109 178 0.71
110 64 0.26
111 6 0.02
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (110 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGAAAATTCATAA
ACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
Found at i:896388 original size:164 final size:164
Alignment explanation
Indices: 896164--896536 Score: 606
Period size: 164 Copynumber: 2.3 Consensus size: 164
896154 ACCAATATAG
* * * * *
896164 AAATTCATAAACTTATTATGAATTTCTTAATTGTGCACACACAGTGCCCATACGAAATTCATAAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGACCATACAAAATTCATAAA
*
896229 CTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGA
66 CTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTTATTATGA
* * *
896294 ATTTCTTAGTTTTGCATACACAGT-CTCCATACGA
131 ATTTCTTAGTTTTACACACACAATGC-CCATACGA
*
896328 AAATTCATAAACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGACCATACAAAATTCATAAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGACCATACAAAATTCATAAA
* *
896393 CTTATTATGAATTTCTTAGTTTTGCACACATAGTGCCCATACGAAAATTCATAAACTTATTATGA
66 CTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTTATTATGA
*
896458 ATTTCTTAGTTTTACGCACACAATGCCCATACGA
131 ATTTCTTAGTTTTACACACACAATGCCCATACGA
896492 AAATTCAT-AACTTATTATGAATTTCTTAGTTTTGCACACAAAGTG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTG
896537 CTCATTTGGT
Statistics
Matches: 194, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
163 36 0.19
164 157 0.81
165 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (164 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGACCATACAAAATTCATAAA
CTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTTATTATGA
ATTTCTTAGTTTTACACACACAATGCCCATACGA
Found at i:899317 original size:135 final size:134
Alignment explanation
Indices: 898921--899608 Score: 953
Period size: 134 Copynumber: 5.1 Consensus size: 134
898911 GAGGATCGAA
* *
898921 CTCGATTCAATCTTCCCTAATTAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
* * * * *
898986 AGAAGAAGCAGAATAGATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAAAAAGT
66 AGAAGAAGCGGAACAAATCTTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
899051 CTGC
131 CTAC
* * *
899055 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTGCCTCA
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
* * * *
899120 AGAAGAAGCGGAACATATCTTTCTCTTTCAAGATTTGGTATTCCCTAAGTAACAGTGGAACAACT
66 AGAAGAAGCGGAACAAATCTTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
899185 CTAC
131 CTAC
* * * * * *
899189 CTCGATTAAATCATCCCTGAGTAATAGTGTAATGAATCAACGTCCCCAGATTTGATTTTCCCTAA
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCT-C
* * * * *
899254 AAAAAGAAGTGAAACAAATCTTTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGAAACAAG
65 AAGAAGAAGCGGAACAAATCTTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
899319 TCTAC
130 TCTAC
* * *
899324 CTCGATTCAATCTTCACTGACTAACAGTGGAATGAATCAAACGTCCCTAGATATGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATC-AACGTCCCCAGATATGATTTTCCCTC
* * * * * *
899389 AAGAAGAAGTGGAACATATCTCTCTCTTTCAGGATTTGATATTCCCTGAGTAACAGTGGAATATG
65 AAGAAGAAGCGGAACAAATCTTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
899454 TCTGC
130 TCTAC
* * * *
899459 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCTCAGATTTGATTTTCCCTTA
1 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
** * *
899524 AGAAGAAGCGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACATTGGAACAAGT
66 AGAAGAAGCGGAACAAATCTTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
899589 CTAC
131 CTAC
*
899593 CCCGATTCAATCTTCC
1 CTCGATTCAATCTTCC
899609 TTGAAGAACA
Statistics
Matches: 485, Mismatches: 67, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
134 274 0.56
135 188 0.39
136 23 0.05
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
AGAAGAAGCGGAACAAATCTTTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
CTAC
Found at i:902569 original size:34 final size:34
Alignment explanation
Indices: 902526--902596 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
902516 CATCAAAAAT
902526 TTAATCTGTCAAAAATTTATAAATATAAGTGGAC
1 TTAATCTGTCAAAAATTTATAAATATAAGTGGAC
*
902560 TTAATCTGTCAATAATTTATAAATATAAGTGGAC
1 TTAATCTGTCAAAAATTTATAAATATAAGTGGAC
902594 TTA
1 TTA
902597 GATAATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (34 bp):
TTAATCTGTCAAAAATTTATAAATATAAGTGGAC
Found at i:903246 original size:60 final size:60
Alignment explanation
Indices: 903118--903264 Score: 165
Period size: 60 Copynumber: 2.5 Consensus size: 60
903108 ATGACTTTGG
* * * *
903118 GGATGAAATTAAAAGATTCAAAAGTTT-GGGACCAATTTAGAATGAGGATCATAGTTTAT
1 GGATGAAATTAAAATATTCAAAAGTTTAGGGACCAATTTAGAAAGAAGATCATACTTTAT
* *
903177 GGATGAAATTAAAATATTCAAAAGTTTAGTGACTAATTT-GTAAAGAA-AGTCATACTTTAT
1 GGATGAAATTAAAATATTCAAAAGTTTAGGGACCAATTTAG-AAAGAAGA-TCATACTTTAT
* * * *
903237 GGATTAAATTGAAATATTTAAAAATTTA
1 GGATGAAATTAAAATATTCAAAAGTTTA
903265 AAGATCAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 28 0.37
60 47 0.63
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (60 bp):
GGATGAAATTAAAATATTCAAAAGTTTAGGGACCAATTTAGAAAGAAGATCATACTTTAT
Found at i:903576 original size:79 final size:79
Alignment explanation
Indices: 903492--903640 Score: 289
Period size: 79 Copynumber: 1.9 Consensus size: 79
903482 CAACATTCTA
903492 TTACGACTAAGTCCACTTGATGGGTTCAACATTATAATATAATTGTTTTATTCATATGAAGTAAG
1 TTACGACTAAGTCCACTTGATGGGTTCAACATTATAATATAATTGTTTTATTCATATGAAGTAAG
903557 TACAACATTCTGTT
66 TACAACATTCTGTT
*
903571 TTACGACTAAGTCCACTTGATGGGTTCAACATTATAATATAATTGTTTTATTCATCTGAAGTAAG
1 TTACGACTAAGTCCACTTGATGGGTTCAACATTATAATATAATTGTTTTATTCATATGAAGTAAG
903636 TACAA
66 TACAA
903641 TGTAATATAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (79 bp):
TTACGACTAAGTCCACTTGATGGGTTCAACATTATAATATAATTGTTTTATTCATATGAAGTAAG
TACAACATTCTGTT
Found at i:918879 original size:25 final size:24
Alignment explanation
Indices: 918834--918881 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
918824 GACCTAAAAT
*
918834 AATAAAAGAAAAATAAGAATAAAG
1 AATAAAAGAAAAATAAAAATAAAG
918858 AATAAAATGAAAAA-AATAAATAAA
1 AATAAAA-GAAAAATAA-AAATAAA
918882 ATAAATATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (24 bp):
AATAAAAGAAAAATAAAAATAAAG
Found at i:918953 original size:20 final size:22
Alignment explanation
Indices: 918913--918954 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
918903 TAATAAATAC
918913 TATATAATATGTTTTCAAAAAT
1 TATATAATATGTTTTCAAAAAT
*
918935 TATATTATATG-TTTCAAAAA
1 TATATAATATGTTTTCAAAAA
918955 GCGTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
TATATAATATGTTTTCAAAAAT
Found at i:919014 original size:39 final size:38
Alignment explanation
Indices: 918924--919087 Score: 159
Period size: 37 Copynumber: 4.4 Consensus size: 38
918914 ATATAATATG
918924 TTTTCAAAAA-T-TATATTATAT--G-TTTCAAAAAGCGT-
1 TTTTCAAAAACTATATATTATATACGTTTTCAAAAA---TA
* *
918959 TTTTTAAAGAACTATATA-T-TATACGTTTTCAAAAGTA
1 TTTTCAAA-AACTATATATTATATACGTTTTCAAAAATA
* *
918996 TTTTCAAAAAACTATATATTATATACGTTTTAAAAAATG
1 TTTTC-AAAAACTATATATTATATACGTTTTCAAAAATA
919035 TTTTCAAAAA-TATATATTATATACGTTTTCAAAAAATA
1 TTTTCAAAAACTATATATTATATACGTTTTC-AAAAATA
*
919073 TTTT-TAAAACTATAT
1 TTTTCAAAAACTATAT
919088 TATATTATCA
Statistics
Matches: 108, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
35 7 0.06
36 6 0.06
37 38 0.35
38 29 0.27
39 28 0.26
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (38 bp):
TTTTCAAAAACTATATATTATATACGTTTTCAAAAATA
Found at i:919069 original size:38 final size:38
Alignment explanation
Indices: 918921--919087 Score: 161
Period size: 38 Copynumber: 4.5 Consensus size: 38
918911 ACTATATAAT
918921 ATGTTTTCAAAAAT-TATATTATAT--G-TTTCAAAAA
1 ATGTTTTCAAAAATATATATTATATACGTTTTCAAAAA
** *
918955 GCGTTTTTTAAAGAACTATATA-T-TATACGTTTTC-AAAA
1 ATG-TTTTCAAA-AA-TATATATTATATACGTTTTCAAAAA
* *
918993 GTATTTTCAAAAAACTATATATTATATACGTTTT-AAAAA
1 ATGTTTTC-AAAAA-TATATATTATATACGTTTTCAAAAA
919032 ATGTTTTCAAAAATATATATTATATACGTTTTCAAAAA
1 ATGTTTTCAAAAATATATATTATATACGTTTTCAAAAA
* * *
919070 ATATTTTTAAAACTATAT
1 ATGTTTTCAAAAATATAT
919088 TATATTATCA
Statistics
Matches: 110, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
34 1 0.01
35 7 0.06
36 5 0.05
37 34 0.31
38 39 0.35
39 24 0.22
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (38 bp):
ATGTTTTCAAAAATATATATTATATACGTTTTCAAAAA
Found at i:919880 original size:62 final size:63
Alignment explanation
Indices: 919805--919925 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 63
919795 ACACACCGTA
* * *
919805 TTTTTTTTATTC-TTTTTATT-TTTCCATTTAGAGCGCCCTTTCAGGTTTTCACTCTAAAAGT
1 TTTTTTTTATTCTTTTTTATTCTTTCAACTTAGAGCGCCCTTTCAGGTTTTCACCCTAAAAGT
* * *
919866 TTTTTTCTTTTTCTTTTTTTTTCTTTCAACTTAGGGCGCCCTTTCAGGTTTTCACCCTAA
1 TTTTTT-TTATTCTTTTTTATTCTTTCAACTTAGAGCGCCCTTTCAGGTTTTCACCCTAA
919926 GCGAAATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 6 0.12
62 5 0.10
63 7 0.14
64 33 0.65
ACGTcount: A:0.15, C:0.21, G:0.10, T:0.55
Consensus pattern (63 bp):
TTTTTTTTATTCTTTTTTATTCTTTCAACTTAGAGCGCCCTTTCAGGTTTTCACCCTAAAAGT
Found at i:924200 original size:21 final size:21
Alignment explanation
Indices: 924149--924189 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
924139 ATCAGCCTGA
*
924149 ATGTTATTGACTAGTCTTTCC
1 ATGTTATTGACCAGTCTTTCC
924170 ATGTTATTGACCAGTCTTTC
1 ATGTTATTGACCAGTCTTTC
924190 TAGCTTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (21 bp):
ATGTTATTGACCAGTCTTTCC
Found at i:928209 original size:14 final size:14
Alignment explanation
Indices: 928178--928211 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
928168 CCAACCCATT
* *
928178 TTTTAAATGTTGAC
1 TTTTAAATGTTAAA
928192 TTTTAAATGTTAAA
1 TTTTAAATGTTAAA
928206 TTTTAA
1 TTTTAA
928212 TGTGCTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (14 bp):
TTTTAAATGTTAAA
Found at i:929557 original size:4 final size:4
Alignment explanation
Indices: 929548--929577 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
929538 TAGATTGTAA
929548 AAAT AAAT AAAT AAAT AAAT -AAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
929578 AAAAGATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:930931 original size:38 final size:38
Alignment explanation
Indices: 930797--930930 Score: 172
Period size: 37 Copynumber: 3.6 Consensus size: 38
930787 TTTCAAAAAT
930797 TATATTATAT--G-TTTCAAAAATCGTTTTTTAAAAAACTA
1 TATATTATATACGTTTTCAAAAAT-G-TTTTT-AAAAACTA
* *
930835 TATACTATAT--GTTTTCAAAAGTGTTTTTAAAAACTA
1 TATATTATATACGTTTTCAAAAATGTTTTTAAAAACTA
*
930871 TATATTATATACGTTTTCAAAAATG-TTTTCAAAACTA
1 TATATTATATACGTTTTCAAAAATGTTTTTAAAAACTA
930908 TATATTATATACGTTTTCAAAAA
1 TATATTATATACGTTTTCAAAAA
930931 AAAATTCAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
36 17 0.19
37 39 0.44
38 23 0.26
39 9 0.10
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (38 bp):
TATATTATATACGTTTTCAAAAATGTTTTTAAAAACTA
Found at i:930939 original size:37 final size:37
Alignment explanation
Indices: 930864--930947 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
930854 AGTGTTTTTA
****
930864 AAAACTATATATTATATACGTTTTCAAAAATGTTTTC
1 AAAACTATATATTATATACGTTTTCAAAAAAAAATTC
930901 AAAACTATATATTATATACGTTTTCAAAAAAAAATTC
1 AAAACTATATATTATATACGTTTTCAAAAAAAAATTC
930938 AAAACTATAT
1 AAAACTATAT
930948 TATCATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.38
Consensus pattern (37 bp):
AAAACTATATATTATATACGTTTTCAAAAAAAAATTC
Found at i:931727 original size:14 final size:14
Alignment explanation
Indices: 931708--931746 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
931698 TAATGGGGAT
931708 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
931722 TAATCCCTGCAGAA
1 TAATCCCTGCAAAA
* *
931736 GAATCTCTGCA
1 TAATCCCTGCA
931747 TATAGACAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:936569 original size:24 final size:24
Alignment explanation
Indices: 936537--936624 Score: 122
Period size: 24 Copynumber: 3.7 Consensus size: 24
936527 AGTACACATG
* *
936537 GTACGAATATAAGAGTGCACAAAT
1 GTACTAATACAAGAGTGCACAAAT
*
936561 GTACTAATAAAAGAGTGCACAAAT
1 GTACTAATACAAGAGTGCACAAAT
* *
936585 GTACTAATACATGAGTGCACAAAC
1 GTACTAATACAAGAGTGCACAAAT
*
936609 ATACTAATACAAGAGT
1 GTACTAATACAAGAGT
936625 ATATGTTGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.22
Consensus pattern (24 bp):
GTACTAATACAAGAGTGCACAAAT
Found at i:936757 original size:20 final size:20
Alignment explanation
Indices: 936728--936799 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
936718 TATGGACAAG
* *
936728 CAGTAGCGATACTATTCTTA
1 CAGTATCGATACTATTCATA
* *
936748 CAGTATCGATACCTAATGA-A
1 CAGTATCGATA-CTATTCATA
*
936768 CAGTGTCGATACTATTCATA
1 CAGTATCGATACTATTCATA
**
936788 TGGTATCGATAC
1 CAGTATCGATAC
936800 CAATATAAGG
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 5 0.12
20 31 0.77
21 4 0.10
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (20 bp):
CAGTATCGATACTATTCATA
Found at i:941441 original size:20 final size:21
Alignment explanation
Indices: 941404--941443 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
941394 TCCATTGGGG
941404 GCCTCATGGAATCAATACTAT
1 GCCTCATGGAATCAATACTAT
* *
941425 GCCT-ATGGTATCGATACTA
1 GCCTCATGGAATCAATACTA
941444 CTATGTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
GCCTCATGGAATCAATACTAT
Found at i:941945 original size:63 final size:62
Alignment explanation
Indices: 941789--941950 Score: 154
Period size: 60 Copynumber: 2.7 Consensus size: 62
941779 ACTAACATAC
* * * * * * * *
941789 AAGTATTATATAAAAGTTCATTGA-GCAGTTCATAT-CCAAAATCATTCATAAACATTTAAT
1 AAGTATCATATAAAAATACATTTAGGCAATTCATATCCCAAAATAATTAAAAAACATTTAAT
*
941849 AAGTATCATATAAAAATACATTTTGGCAA-TCATATCCCAAAATAATTAAAAAATCATTTAAT
1 AAGTATCATATAAAAATACATTTAGGCAATTCATATCCCAAAATAATTAAAAAA-CATTTAAT
* ** *
941911 AAAGTTTCATATAAAAATGTA-TTAGGTAATTCATA-CCCAA
1 -AAGTATCATATAAAAATACATTTAGGCAATTCATATCCCAA
941951 TATCATCCAA
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
60 25 0.30
61 17 0.20
62 19 0.23
63 22 0.27
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (62 bp):
AAGTATCATATAAAAATACATTTAGGCAATTCATATCCCAAAATAATTAAAAAACATTTAAT
Found at i:956215 original size:21 final size:23
Alignment explanation
Indices: 956190--956238 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
956180 TGAAAGCATG
*
956190 TTTTATCATATTTT-TG-AAAT-A
1 TTTTAT-AAATTTTATGAAAATGA
956211 TTTTATAAATTTTATGAAAATGA
1 TTTTATAAATTTTATGAAAATGA
956234 TTTTA
1 TTTTA
956239 CGAATGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 8 0.33
22 4 0.17
23 6 0.25
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTTATAAATTTTATGAAAATGA
Found at i:958544 original size:21 final size:21
Alignment explanation
Indices: 958520--958641 Score: 140
Period size: 21 Copynumber: 5.6 Consensus size: 21
958510 AATGCCATAT
*
958520 TACACATAGTACTACTCCAAG
1 TACACAAAGTACTACTCCAAG
*
958541 TACACAAATTACT-CTTGCCATAG
1 TACACAAAGTACTAC-T-CCA-AG
958564 TACACAAAGTACTACTCCAAG
1 TACACAAAGTACTACTCCAAG
958585 TACACAAAGTACT-CTTACCATAG
1 TACACAAAGTACTAC-T-CCA-AG
*
958608 TACACAAAGTACTACTACAAG
1 TACACAAAGTACTACTCCAAG
*
958629 TACATAAAGTACT
1 TACACAAAGTACT
958642 CTTACGAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 16
0.81 0.05 0.15
Matches are distributed among these distances:
20 2 0.02
21 42 0.48
22 11 0.12
23 31 0.35
24 2 0.02
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (21 bp):
TACACAAAGTACTACTCCAAG
Found at i:958645 original size:44 final size:44
Alignment explanation
Indices: 958514--958646 Score: 212
Period size: 44 Copynumber: 3.0 Consensus size: 44
958504 ACACAAAATG
* * * *
958514 CCATATTACACATAGTACTACTCCAAGTACACAAATTACTCTTG
1 CCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTA
958558 CCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTA
1 CCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTA
* *
958602 CCATAGTACACAAAGTACTACTACAAGTACATAAAGTACTCTTA
1 CCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTA
958646 C
1 C
958647 GAAAATGCGA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 83 1.00
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (44 bp):
CCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTA
Found at i:960317 original size:21 final size:21
Alignment explanation
Indices: 960293--960363 Score: 124
Period size: 21 Copynumber: 3.4 Consensus size: 21
960283 GAATCGTCAA
960293 TATCAATATTGTTTAAGTGAG
1 TATCAATATTGTTTAAGTGAG
960314 TATCAATATTGTTTAAGTGAG
1 TATCAATATTGTTTAAGTGAG
*
960335 TATCGATATTGTTTAAGTGAG
1 TATCAATATTGTTTAAGTGAG
*
960356 AATCAATA
1 TATCAATA
960364 CTCACCTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (21 bp):
TATCAATATTGTTTAAGTGAG
Found at i:962431 original size:17 final size:17
Alignment explanation
Indices: 962409--962441 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
962399 ACAAGTGAAA
*
962409 GAAGAAAATATAAAAAG
1 GAAGAAAAAATAAAAAG
962426 GAAGAAAAAATAAAAA
1 GAAGAAAAAATAAAAA
962442 AAAGAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (17 bp):
GAAGAAAAAATAAAAAG
Found at i:962437 original size:19 final size:19
Alignment explanation
Indices: 962407--962465 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
962397 GAACAAGTGA
962407 AAGAAGAAAATATAAAAAGG
1 AAGAA-AAAATATAAAAAGG
* *
962427 AAGAAAAAATAAAAAAAAG
1 AAGAAAAAATATAAAAAGG
*
962446 AAAAGAAAAATATAAAAAGG
1 AAGA-AAAAATATAAAAAGG
962466 GGTTTAAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.08
Consensus pattern (19 bp):
AAGAAAAAATATAAAAAGG
Found at i:963976 original size:131 final size:131
Alignment explanation
Indices: 963725--963976 Score: 292
Period size: 131 Copynumber: 1.9 Consensus size: 131
963715 AAAGTAAAAA
* ** **
963725 AAATCAATCTCGATTTAATCTTCCCTGAAGAGTAGTGAAGTGAATCAACATTTTTAGATCAAATA
1 AAATCAATCTCGATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAACATTTCCAGATCAAATA
* * ** * * ** *
963790 TACCCTGAAGAGTAGTGGAGCATATCCCTTTTCACATATTTGATCTCCCCGGAAGAGTAGTGAAG
66 TAACCTGAAGAGCAGCAGAGCATATCACTTTTCACACATTCAATCTCACCGGAAGAGTAGTGAAG
963855 C
131 C
**
963856 AAATCAATC-CTGATTCAATC-TCCCATGAAGAACAGTGAAGTGAATCAACATTTCCAGATCTGA
1 AAATCAATCTC-GATTCAATCTTCCC-TGAAGAACAGTGAAGTGAATCAACATTTCCAGATCAAA
* * * *
963919 TCTAACCTGAAGAGCAGCAGAGTATATCACTTTTCACACATTCAATCTTACCTGAAGA
64 TATAACCTGAAGAGCAGCAGAGCATATCACTTTTCACACATTCAATCTCACCGGAAGA
963977 CCAATTTCCA
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
130 5 0.05
131 94 0.95
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (131 bp):
AAATCAATCTCGATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAACATTTCCAGATCAAATA
TAACCTGAAGAGCAGCAGAGCATATCACTTTTCACACATTCAATCTCACCGGAAGAGTAGTGAAG
C
Found at i:964666 original size:9 final size:9
Alignment explanation
Indices: 964650--964683 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
964640 AAGAAGAGAT
964650 AAAAAAGGA
1 AAAAAAGGA
*
964659 AGAAAAGGA
1 AAAAAAGGA
964668 AAAAAAGGA
1 AAAAAAGGA
964677 ATAAAAA
1 A-AAAAA
964684 TATTTTTACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (9 bp):
AAAAAAGGA
Found at i:964671 original size:18 final size:19
Alignment explanation
Indices: 964627--964682 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
964617 ATTTCAAATG
* *
964627 AGGAGAAAAAAGAAAGAAG
1 AGGAGAAAAAAGGAAGAAA
*
964646 A-GATAAAAAAGGAAGAAA
1 AGGAGAAAAAAGGAAGAAA
*
964664 AGGA-AAAAAAGGAATAAA
1 AGGAGAAAAAAGGAAGAAA
964682 A
1 A
964683 ATATTTTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 29 0.91
19 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (19 bp):
AGGAGAAAAAAGGAAGAAA
Found at i:965427 original size:16 final size:17
Alignment explanation
Indices: 965384--965427 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
965374 TACTAGCATG
965384 TTTTGTTTTGTCAATATA
1 TTTTG-TTTGTCAATATA
*
965402 TTATTATTTGTCAATATA
1 TT-TTGTTTGTCAATATA
965420 -TTTGTTTG
1 TTTTGTTTG
965428 CATAAATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.26
17 1 0.04
18 14 0.61
19 2 0.09
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (17 bp):
TTTTGTTTGTCAATATA
Found at i:967246 original size:20 final size:20
Alignment explanation
Indices: 967218--967270 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
967208 AATTTTAGAT
967218 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
967238 AATCACAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
967258 AATCGCAATGCGA
1 AATCGCAATGCGA
967271 TAACACTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:967305 original size:20 final size:20
Alignment explanation
Indices: 967280--967344 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
967270 ATAACACTTG
*
967280 ATCGCAACACGATTCGGACT
1 ATCGCAACACGATTCTGACT
*
967300 ATCGCAACGCGATTCTGACT
1 ATCGCAACACGATTCTGACT
*
967320 ATTGCAACGA-GATTCTGACT
1 ATCGCAAC-ACGATTCTGACT
967340 ATCGC
1 ATCGC
967345 GTTGTGATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAACACGATTCTGACT
Found at i:967542 original size:22 final size:22
Alignment explanation
Indices: 967516--967586 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
967506 TACGGCGACA
*
967516 CCGTCCCCATCTCTGACAAAAT
1 CCGTCCCCATCTCCGACAAAAT
*
967538 CCGTCCCCATTTCCGACAAAAT
1 CCGTCCCCATCTCCGACAAAAT
* * *
967560 CCATCCCCATCTCCGGCGAAAT
1 CCGTCCCCATCTCCGACAAAAT
967582 CCGTC
1 CCGTC
967587 TATCTCCATC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.24, C:0.44, G:0.11, T:0.21
Consensus pattern (22 bp):
CCGTCCCCATCTCCGACAAAAT
Found at i:967969 original size:33 final size:34
Alignment explanation
Indices: 967924--968006 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 34
967914 CGCAACGACA
* *
967924 AAATTCGCGTTGCGATTATCTCTTTATGATAG-C
1 AAATTCGCGTTGCGATTATCTCGTTACGATAGTC
* * *
967957 CATTTCGCGTTGCGATTATCTCGTTGCGATAGTC
1 AAATTCGCGTTGCGATTATCTCGTTACGATAGTC
967991 AAATTCGCGTTGCGAT
1 AAATTCGCGTTGCGAT
968007 AATCATTTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 27 0.64
34 15 0.36
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (34 bp):
AAATTCGCGTTGCGATTATCTCGTTACGATAGTC
Found at i:968003 original size:20 final size:20
Alignment explanation
Indices: 967978--968026 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
967968 GCGATTATCT
*
967978 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
**
967998 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCAAATTCG
*
968018 TGTTGCGAT
1 CGTTGCGAT
968027 TTTCATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:968032 original size:20 final size:20
Alignment explanation
Indices: 967994--968049 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
967984 GATAGTCAAA
* **
967994 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
968014 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
* *
968034 TTCTTGTTGTGATTTT
1 TTCGTGTTGCGATTTT
968050 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.14, G:0.20, T:0.54
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:968056 original size:20 final size:20
Alignment explanation
Indices: 968013--968056 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
968003 CGATAATCAT
* *
968013 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
* *
968033 TTTCTTGTTGTGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
968053 TTTC
1 TTTC
968057 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.18, T:0.59
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:968247 original size:25 final size:26
Alignment explanation
Indices: 968193--968247 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
968183 TGTTTATTAT
*
968193 TGTTTTTGGTATATCTTCACATTGTA
1 TGTTTTTGGTATATCTTAACATTGTA
968219 -GTTTTTGGTATATC-TAAC-TTGGTA
1 TGTTTTTGGTATATCTTAACATT-GTA
968243 TGTTT
1 TGTTT
968248 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.08
24 6 0.23
25 18 0.69
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (26 bp):
TGTTTTTGGTATATCTTAACATTGTA
Found at i:970134 original size:34 final size:34
Alignment explanation
Indices: 970090--970211 Score: 102
Period size: 34 Copynumber: 3.4 Consensus size: 34
970080 AACGTGAATT
970090 TGACTATCGCAACGGGATAATCACAATGCAAAAA
1 TGACTATCGCAACGGGATAATCACAATGCAAAAA
* * * * *
970124 CGACTATCGCAATGCGGA-AATGACTATCGCAACGCGAATT
1 TGACTATCGCAACG-GGATAATCACAAT-GCAA----AA-A
* * *
970164 TGACTATTGCAACGGGATAATCGCAATGCGAAAA
1 TGACTATCGCAACGGGATAATCACAATGCAAAAA
970198 TGACTATCGCAACG
1 TGACTATCGCAACG
970212 CGAATTTAGT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
34 32 0.48
35 9 0.14
39 8 0.12
40 17 0.26
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (34 bp):
TGACTATCGCAACGGGATAATCACAATGCAAAAA
Found at i:970167 original size:20 final size:19
Alignment explanation
Indices: 970056--970215 Score: 79
Period size: 20 Copynumber: 8.6 Consensus size: 19
970046 AGAAGAATAG
* *
970056 TCGCAACACGAAAATGATTA
1 TCGCAACGCG-AAATGACTA
* *
970076 TCGCAACGTGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
* * *
970096 TCGCAACGGGATAATCACAA
1 TCGCAACGCGA-AATGACTA
*
970116 T-GCAA----AAACGACTA
1 TCGCAACGCGAAATGACTA
*
970130 TCGCAATGCGGAAATGACTA
1 TCGCAACGC-GAAATGACTA
*
970150 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
* *
970170 TTGCAACG-G-GAT-A--A
1 TCGCAACGCGAAATGACTA
*
970184 TCGCAATGCGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
970204 TCGCAACGCGAA
1 TCGCAACGCGAA
970216 TTTAGTTTCG
Statistics
Matches: 104, Mismatches: 21, Indels: 31
0.67 0.13 0.20
Matches are distributed among these distances:
14 13 0.12
15 6 0.06
16 1 0.01
17 3 0.03
18 1 0.01
19 12 0.12
20 67 0.64
21 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Done.