Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_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: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 26
Found at i:897716 original size:21 final size:23
Alignment explanation
Indices: 897682--897723 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
897672 TGTCTCATTA
*
897682 TTATTTTTTATTCAAT-ATTTAT
1 TTATTTATTATTCAATGATTTAT
897704 TTATTTATT-TTCAATGATTT
1 TTATTTATTATTCAATGATTT
897724 TAAATCCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (23 bp):
TTATTTATTATTCAATGATTTAT
Found at i:898618 original size:19 final size:19
Alignment explanation
Indices: 898595--898639 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
898585 AATTTGTGGA
*
898595 TTTTTTTAC-TTTTTTTCT
1 TTTTTTTACATTTTATTCT
898613 TCTTTTTT-CATTTTATTCT
1 T-TTTTTTACATTTTATTCT
898632 TTTTTTTA
1 TTTTTTTA
898640 TTCTTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTACATTTTATTCT
Found at i:903274 original size:42 final size:43
Alignment explanation
Indices: 903119--903373 Score: 307
Period size: 43 Copynumber: 6.0 Consensus size: 43
903109 ATTTTTACCG
***
903119 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTATTGTTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCATTTCC
* * *
903162 CAGGCTCATTTGCTATGTGCAGGGATAAGGCCTTACCATTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCATTTCC
* * * *
903205 CATGCTCCTTTGCTATGTGCAATGATAAGACCTTATCGTTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCATTTCC
*
903248 CA-GCTCATTTGCTATGTGCAAGGATAAGACCTTA-CATTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCATTTCC
* * *
903289 TAGGCTCCTTTGATATGTGCAAGGATAAGACCTTACCATTTCT
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCATTTCC
** * * * *
903332 CAATCTCTTTTGTTATGTGCAAGGGTAAGATCTTACCGATTT
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACC-ATTT
903374 TGTAGGCTAC
Statistics
Matches: 182, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
41 7 0.04
42 60 0.33
43 111 0.61
44 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (43 bp):
CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCATTTCC
Found at i:903361 original size:127 final size:128
Alignment explanation
Indices: 903122--903366 Score: 341
Period size: 127 Copynumber: 1.9 Consensus size: 128
903112 TTTACCGCAG
* ** * *
903122 GCTCCTTTGCTATGTGCAAGGATAAGACCTTATTGTTTCCCAGGCTCATTTGCTATGTGCAGGGA
1 GCTCATTTGCTATGTGCAAGGATAAGACCTTATCATTTCCCAGGCTCATTTGATATGTGCAAGGA
* * *
903187 TAAGGCCTTACCATTTCCCATGCTCCTTTGCTATGTGCAATGATAAGACCTTATCGTTTCCCA
66 TAAGACCTTACCATTTCCAATGCTCCTTTGCTATGTGCAAGGATAAGACCTTATCGTTTCCCA
* *
903250 GCTCATTTGCTATGTGCAAGGATAAGACCTTA-CATTTCCTAGGCTCCTTTGATATGTGCAAGGA
1 GCTCATTTGCTATGTGCAAGGATAAGACCTTATCATTTCCCAGGCTCATTTGATATGTGCAAGGA
* * * *
903314 TAAGACCTTACCATTTCTCAAT-CTCTTTTGTTATGTGCAAGGGTAAGATCTTA
66 TAAGACCTTACCATTTC-CAATGCTCCTTTGCTATGTGCAAGGATAAGACCTTA
903367 CCGATTTTGT
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
127 68 0.67
128 34 0.33
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (128 bp):
GCTCATTTGCTATGTGCAAGGATAAGACCTTATCATTTCCCAGGCTCATTTGATATGTGCAAGGA
TAAGACCTTACCATTTCCAATGCTCCTTTGCTATGTGCAAGGATAAGACCTTATCGTTTCCCA
Found at i:910673 original size:20 final size:20
Alignment explanation
Indices: 910648--910688 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
910638 GGCTGTGCCG
*
910648 TGGTATACTAACATAGTTAA
1 TGGTATACTAACATAATTAA
* *
910668 TGGTATGCTGACATAATTAA
1 TGGTATACTAACATAATTAA
910688 T
1 T
910689 TTTTTTTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (20 bp):
TGGTATACTAACATAATTAA
Found at i:912396 original size:13 final size:14
Alignment explanation
Indices: 912369--912398 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
912359 TAAAAAGCAA
912369 TTGAAAATATTTGG
1 TTGAAAATATTTGG
912383 TTGAAAAT-TTTGG
1 TTGAAAATATTTGG
912396 TTG
1 TTG
912399 TCATGACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTGAAAATATTTGG
Found at i:915924 original size:15 final size:16
Alignment explanation
Indices: 915893--915926 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
915883 TCAATTTTGT
915893 TTTATTCATTAACTTA
1 TTTATTCATTAACTTA
*
915909 TTTATT-ATTTACTTA
1 TTTATTCATTAACTTA
915924 TTT
1 TTT
915927 TTGTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATTCATTAACTTA
Found at i:916793 original size:71 final size:77
Alignment explanation
Indices: 916715--916877 Score: 198
Period size: 71 Copynumber: 2.2 Consensus size: 77
916705 TCGAGATTTT
* *
916715 AAATATTGATACTTAAT-CTATGAGTT-TTAATACTTTTACAT-TTAAAAAAG-T-TGAAGATAA
1 AAATATTGATACTTAATGCTATGA-TTATCAATACATTTACATATTAAAAAAGTTATGAAGATAA
916775 GATCG-AAAGT-A
65 GATCGAAAAGTAA
* * *
916786 AAATATTGATACTT-ATGCTATGATTATCGATACATTTACATATTGAAAAAGTTGATGAAGATAT
1 AAATATTGATACTTAATGCTATGATTATCAATACATTTACATATTAAAAAAGTT-ATGAAGATAA
*
916850 GATCGAAAATTAA
65 GATCGAAAAGTAA
916863 AAATATTGATACTTA
1 AAATATTGATACTTA
916878 TGTTCTAATG
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
70 4 0.05
71 32 0.42
72 8 0.10
73 1 0.01
75 13 0.17
76 4 0.05
77 15 0.19
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (77 bp):
AAATATTGATACTTAATGCTATGATTATCAATACATTTACATATTAAAAAAGTTATGAAGATAAG
ATCGAAAAGTAA
Found at i:916920 original size:77 final size:75
Alignment explanation
Indices: 916758--916973 Score: 215
Period size: 77 Copynumber: 2.9 Consensus size: 75
916748 TTTTACATTT
* * *
916758 AAAAAAGTTGAAGATAAGATCG-AAAGTAAAATATTGATACTTATGCTATGAT-TATCGATACAT
1 AAAAAAGATGAAGATAAGATCGAAAATTAAAATATTGATACTTATGCTATAATGT-TCGATAC-T
916821 TTACATATTGAA
64 TTACATATTGAA
*** * * *
916833 AAAGTTGATGAAGATATGATCGAAAATTAAAAATATTGATACTTATGTTCTAATGTTCGATACTT
1 AAAAAAGATGAAGATAAGATCGAAAATT-AAAATATTGATACTTATGCTATAATGTTCGATACTT
*
916898 ATTCAT-TTGAA
65 -TACATATTGAA
* * * ** *
916909 GAAAAAAGATGAATATAAAATCGAAAGTT-AAATATCAATACTTATGGTATAATGTTCGATACTT
1 -AAAAAAGATGAAGATAAGATCGAAAATTAAAATATTGATACTTATGCTATAATGTTCGATACTT
916973 T
65 T
916974 TTACTAAAGA
Statistics
Matches: 115, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
74 1 0.01
75 48 0.42
76 11 0.10
77 54 0.47
78 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (75 bp):
AAAAAAGATGAAGATAAGATCGAAAATTAAAATATTGATACTTATGCTATAATGTTCGATACTTT
ACATATTGAA
Found at i:919040 original size:29 final size:29
Alignment explanation
Indices: 919005--919086 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
918995 AAACTAAATT
* *
919005 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
919034 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
919063 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
919087 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:923647 original size:29 final size:29
Alignment explanation
Indices: 923612--923693 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
923602 AAACTAAATT
* *
923612 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
923641 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
923670 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
923694 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:924072 original size:24 final size:24
Alignment explanation
Indices: 924034--924090 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
924024 GATCCAGAAT
*
924034 AGATTCAAATCCCAGTTCAAGATA
1 AGATTCAAGTCCCAGTTCAAGATA
* *
924058 AGATTCAAGTTCCAGTTCAAGATG
1 AGATTCAAGTCCCAGTTCAAGATA
924082 AGATTCAAG
1 AGATTCAAG
924091 GCGAGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (24 bp):
AGATTCAAGTCCCAGTTCAAGATA
Found at i:931350 original size:20 final size:20
Alignment explanation
Indices: 931325--931378 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
931315 AATACGTTTA
931325 GAGTGTATCGATACATTAGG
1 GAGTGTATCGATACATTAGG
931345 GAGTGTATCGATACATTAGG
1 GAGTGTATCGATACATTAGG
931365 GAGTGTATCGATAC
1 GAGTGTATCGATAC
931379 CCCTTGAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (20 bp):
GAGTGTATCGATACATTAGG
Found at i:932276 original size:2 final size:2
Alignment explanation
Indices: 932269--932315 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
932259 AATATAAGTG
932269 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
932311 TT AT A
1 AT AT A
932316 AGTATGAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:943260 original size:3 final size:3
Alignment explanation
Indices: 943252--943279 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
943242 GAATAGGGTT
943252 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
943280 ATATTAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:949355 original size:77 final size:78
Alignment explanation
Indices: 949269--949433 Score: 208
Period size: 78 Copynumber: 2.1 Consensus size: 78
949259 TATATATAAG
* * * ** *
949269 AAATAAGGTTGTGCCTAATAATGTCATGGTTCACCAAGAAA-TAGGTTGTGATAT-GTAATGTTA
1 AAAT-AGGTTGCGCCTAAGAATATCATGGTTCACCAAGAAAGTAGGTTGAAATATAG-AATCTTA
*
949332 ATATTTTTATTAATA
64 ATATTTTTAATAATA
* *
949347 AAATAGGTTGCGCCTAAGGATATCATGGTTCACCAAGAAAGTAGGTTGAAATATAGACTCTTAAT
1 AAATAGGTTGCGCCTAAGAATATCATGGTTCACCAAGAAAGTAGGTTGAAATATAGAATCTTAAT
949412 ATTTTTAATAATA
66 ATTTTTAATAATA
*
949425 AAATGGGTT
1 AAATAGGTT
949434 ACACCTAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
77 32 0.43
78 42 0.56
79 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (78 bp):
AAATAGGTTGCGCCTAAGAATATCATGGTTCACCAAGAAAGTAGGTTGAAATATAGAATCTTAAT
ATTTTTAATAATA
Found at i:949564 original size:264 final size:263
Alignment explanation
Indices: 949222--949920 Score: 934
Period size: 264 Copynumber: 2.7 Consensus size: 263
949212 ACAATAAGAA
* *
949222 AATAAGAAAATAAGTTAAAAAC--AAAGATTGTTAGGAATATATATAAGAAATAAGGTTGTGC-C
1 AATAAGAAAATAAGTTAAAAGCTGAAA-A-TGTTATGAATATATATAAGAAATAAGG-T-TGCAC
* *
949284 T-AATAATGTCATGGTTCACCAAGAAATAGGTTGTGATATGTAATGTTAATATTTTTATTAATAA
62 TCAATAATGTAATGGTTCACTAAGAAATAGGTTGTGATATGTAATGTTAATATTTTTATTAATAA
* * * *
949348 AATAGGTTGCGCCTAAGGATATCATGGTTCACCAAGAAAGTAGGTTGAAATAT-AGACTCTTAAT
127 AATAGGTTGCGCC-AAGAATATCATGGTTCACTAAGAAAGTAGGTTGAAATATGA-AATCTTAAC
* * *
949412 ATTTTTAATAATAAAATGGGTTACACCTAAAATGTTATCAGAGTTTAAGCTGATTG-AG-TCTTG
190 ATTTTTAATAATAAAATGGGTTACACCTAAAATGTTATCAAAGTTTAAGCTGA-TGAAGCCCTAG
949475 AATTTTCCCAC
254 -ATTTTCCCAC
*
949486 AATAAGAAAATAAGTTAAAAGCTGAAAATGTTATCAATATATATAAGAAATAAGGTTGCACTCAA
1 AATAAGAAAATAAGTTAAAAGCTGAAAATGTTATGAATATATATAAGAAATAAGGTTGCACTCAA
* *
949551 TAATGTAATGGTTCATTAAGAAATAGATTGTGATATGTAATGTTAATATTTTTATTAATAAAATA
66 TAATGTAATGGTTCACTAAGAAATAGGTTGTGATATGTAATGTTAATATTTTTATTAATAAAATA
* * * *
949616 GGATGTGC-CCAAGAATGTCATGGTTCGCTAAGAAAGTATGTTGAAATATGAAATCTTAGCATTT
131 GG-T-TGCGCCAAGAATATCATGGTTCACTAAGAAAGTAGGTTGAAATATGAAATCTTAACATTT
949680 TTAATAATAAAATGGGTTACACCTAAAATGTTATCAAAGTTTAAGCTGATGAAGCCCTAGATTTT
194 TTAATAATAAAATGGGTTACACCTAAAATGTTATCAAAGTTTAAGCTGATGAAGCCCTAGATTTT
949745 CCCAC
259 CCCAC
* * * * * *
949750 GATAAAAAAATAAATT-AAAGCTGAAAATGTTATGAATATAAATAAGAAATACGGTTGTGAC-CA
1 AATAAGAAAATAAGTTAAAAGCTGAAAATGTTATGAATATATATAAGAAATAAGGTTG-CACTCA
* * *
949813 ATAATGTTATGATTCACTAAGAAATAGGTTGTAATATGTAATGTTAATATTTTTATTAATAAAAT
65 ATAATGTAATGGTTCACTAAGAAATAGGTTGTGATATGTAATGTTAATATTTTTATTAATAAAAT
* * * *
949878 ATGTTGCTACCAAGAATATTATGGTT-ACTAAGTAAGTAGGTTG
130 AGGTTGC-GCCAAGAATATCATGGTTCACTAAGAAAGTAGGTTG
949921 TGATTTGTAA
Statistics
Matches: 387, Mismatches: 36, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
261 3 0.01
262 18 0.05
263 122 0.32
264 230 0.59
265 8 0.02
266 6 0.02
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (263 bp):
AATAAGAAAATAAGTTAAAAGCTGAAAATGTTATGAATATATATAAGAAATAAGGTTGCACTCAA
TAATGTAATGGTTCACTAAGAAATAGGTTGTGATATGTAATGTTAATATTTTTATTAATAAAATA
GGTTGCGCCAAGAATATCATGGTTCACTAAGAAAGTAGGTTGAAATATGAAATCTTAACATTTTT
AATAATAAAATGGGTTACACCTAAAATGTTATCAAAGTTTAAGCTGATGAAGCCCTAGATTTTCC
CAC
Found at i:951177 original size:34 final size:32
Alignment explanation
Indices: 951115--951184 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
951105 CCTTACAAAC
* *
951115 TCCCTAGTTTTTCCGGGTTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
951147 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
951181 TCCC
1 TCCC
951185 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:951489 original size:21 final size:21
Alignment explanation
Indices: 951463--951504 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
951453 GCCCAATGGG
*
951463 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
951484 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
951505 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:951701 original size:29 final size:31
Alignment explanation
Indices: 951669--951728 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
951659 AAATTTTGAA
*
951669 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
951698 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
951729 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:952396 original size:99 final size:97
Alignment explanation
Indices: 952266--952508 Score: 341
Period size: 99 Copynumber: 2.5 Consensus size: 97
952256 TTGTAGCCTC
*
952266 TAACTTAACCAATTAATATAACAACAAGGCGCAACCTATAATGTTATCCATGAAACC-AGATTTG
1 TAACTTAACCAATTAATATAACAACAAGGCGCAACCTATAATGTTATCCATGAAACCAAG-TTTC
952330 TATTACTTTTTCATAATATAAACAGTTTC-CGCTAA
65 TATTACTTTTT-ATAATATAAACAGTTTCAC-CT-A
* *
952365 TAACTTAACCAATTAACATAACAA-ATAGGCGCAACCTATAATATTATCCATGAAACCAAGTTTC
1 TAACTTAACCAATTAATATAACAACA-AGGCGCAACCTATAATGTTATCCATGAAACCAAGTTTC
*
952429 TATTACTTTTTATAATATACACAGTTTCAACCTA
65 TATTACTTTTTATAATATAAACAGTTTC-ACCTA
* * *
952463 TAA-TTAACCAGTTAATATAACAACAAGGTGCAACCTATGATGTTAT
1 TAACTTAACCAATTAATATAACAACAAGGCGCAACCTATAATGTTAT
952509 AAGGAAATAA
Statistics
Matches: 130, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
97 36 0.28
98 22 0.17
99 69 0.53
100 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (97 bp):
TAACTTAACCAATTAATATAACAACAAGGCGCAACCTATAATGTTATCCATGAAACCAAGTTTCT
ATTACTTTTTATAATATAAACAGTTTCACCTA
Found at i:954059 original size:7 final size:7
Alignment explanation
Indices: 954047--954096 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
954037 GTCAAAGAAA
954047 GTCAACG
1 GTCAACG
954054 GTCAACG
1 GTCAACG
954061 GTC-ACG
1 GTCAACG
954067 GTCAACG
1 GTCAACG
954074 GTC-ACG
1 GTCAACG
**
954080 GTCGTCG
1 GTCAACG
954087 GTCAACG
1 GTCAACG
954094 GTC
1 GTC
954097 GAGTCGGGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 12 0.32
7 26 0.68
ACGTcount: A:0.20, C:0.30, G:0.32, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:954069 original size:13 final size:13
Alignment explanation
Indices: 954051--954096 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
954041 AAGAAAGTCA
954051 ACGGTCAACGGTC
1 ACGGTCAACGGTC
954064 ACGGTCAACGGTC
1 ACGGTCAACGGTC
**
954077 ACGGTCGTCGGTC
1 ACGGTCAACGGTC
954090 AACGGTC
1 -ACGGTC
954097 GAGTCGGGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 24 0.80
14 6 0.20
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:954072 original size:20 final size:20
Alignment explanation
Indices: 954047--954096 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
954037 GTCAAAGAAA
954047 GTCAACGGTCAACGGTC-ACG
1 GTCAACGGTC-ACGGTCGACG
*
954067 GTCAACGGTCACGGTCGTCG
1 GTCAACGGTCACGGTCGACG
954087 GTCAACGGTC
1 GTCAACGGTC
954097 GAGTCGGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.20, C:0.30, G:0.32, T:0.18
Consensus pattern (20 bp):
GTCAACGGTCACGGTCGACG
Found at i:954118 original size:16 final size:17
Alignment explanation
Indices: 954086--954124 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
954076 CACGGTCGTC
*
954086 GGTCAACGGTCGAGTCG
1 GGTCAACAGTCGAGTCG
954103 GGTCAACAGTCG-GTCG
1 GGTCAACAGTCGAGTCG
954119 GGTCAA
1 GGTCAA
954125 ACCGGTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.18
Consensus pattern (17 bp):
GGTCAACAGTCGAGTCG
Found at i:954143 original size:19 final size:19
Alignment explanation
Indices: 954119--954171 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
954109 CAGTCGGTCG
954119 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
954138 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
954157 GGTCAAACCGGTTCA
1 GGTCAAACCGGTTCA
954172 AAACTAGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.17
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:954149 original size:9 final size:10
Alignment explanation
Indices: 954121--954173 Score: 74
Period size: 10 Copynumber: 5.5 Consensus size: 10
954111 GTCGGTCGGG
954121 TCAAACCGGT
1 TCAAACCGGT
*
954131 TCAGACCGG-
1 TCAAACCGGT
954140 TCAAACCGGT
1 TCAAACCGGT
*
954150 TCAGACCGG-
1 TCAAACCGGT
954159 TCAAACCGGT
1 TCAAACCGGT
954169 TCAAA
1 TCAAA
954174 ACTAGTCAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 16 0.43
10 21 0.57
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:961309 original size:6 final size:7
Alignment explanation
Indices: 961287--961323 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
961277 GTCAAAGAAA
961287 GTCAACG
1 GTCAACG
*
961294 ATCAACG
1 GTCAACG
961301 GTC-ACG
1 GTCAACG
961307 GTCAACG
1 GTCAACG
961314 GTCAACG
1 GTCAACG
961321 GTC
1 GTC
961324 GGGTCGGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:961313 original size:13 final size:14
Alignment explanation
Indices: 961287--961323 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
961277 GTCAAAGAAA
*
961287 GTCAACGATCAACG
1 GTCAACGGTCAACG
961301 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
961314 GTCAACGGTC
1 GTCAACGGTC
961324 GGGTCGGGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:961335 original size:17 final size:17
Alignment explanation
Indices: 961313--961353 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
961303 CACGGTCAAC
*
961313 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
*
961330 GGTCAACAGTCGTGTCG
1 GGTCAACAGTCGGGTCG
961347 GGTCAAC
1 GGTCAAC
961354 CCGGTTCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.39, T:0.20
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:961385 original size:10 final size:10
Alignment explanation
Indices: 961349--961456 Score: 91
Period size: 9 Copynumber: 11.1 Consensus size: 10
961339 TCGTGTCGGG
*
961349 TCAACCCGGT
1 TCAAACCGGT
*
961359 TCAGACCGG-
1 TCAAACCGGT
961368 TCAAACCGGT
1 TCAAACCGGT
*
961378 TCAGACCGG-
1 TCAAACCGGT
961387 TCAAACCGGT
1 TCAAACCGGT
* *
961397 TCGAACCAG-
1 TCAAACCGGT
*
961406 TCAAACTGGT
1 TCAAACCGGT
*
961416 TCAAAACTGG-
1 TC-AAACCGGT
961426 TCAAACCGGT
1 TCAAACCGGT
*
961436 TCAAAACTGG-
1 TC-AAACCGGT
961446 TCAAACCGGT
1 TCAAACCGGT
961456 T
1 T
961457 TAACAGTGCC
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
9 34 0.44
10 31 0.40
11 13 0.17
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:961419 original size:29 final size:30
Alignment explanation
Indices: 961366--961440 Score: 57
Period size: 29 Copynumber: 2.6 Consensus size: 30
961356 GGTTCAGACC
* * *
961366 GGTCAAACCGGTTCAGACC-GGTC-AAACC
1 GGTCAAACCGGTTCAAACCAGTTCAAAACT
* * **
961394 GGTTCGAACCAG-TCAAACTGGTTCAAAACT
1 GG-TCAAACCGGTTCAAACCAGTTCAAAACT
961424 GGTCAAACCGGTTCAAA
1 GGTCAAACCGGTTCAAA
961441 ACTGGTCAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
28 7 0.20
29 17 0.49
30 11 0.31
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.19
Consensus pattern (30 bp):
GGTCAAACCGGTTCAAACCAGTTCAAAACT
Found at i:961424 original size:11 final size:10
Alignment explanation
Indices: 961408--961450 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
961398 CGAACCAGTC
961408 AAACTGGTTCA
1 AAACTGG-TCA
961419 AAACTGGTC-
1 AAACTGGTCA
*
961428 AAACCGGTTCA
1 AAACTGG-TCA
961439 AAACTGGTCA
1 AAACTGGTCA
961449 AA
1 AA
961451 CCGGTTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 6 0.21
10 9 0.32
11 13 0.46
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (10 bp):
AAACTGGTCA
Found at i:961430 original size:20 final size:19
Alignment explanation
Indices: 961347--961456 Score: 130
Period size: 19 Copynumber: 5.7 Consensus size: 19
961337 AGTCGTGTCG
* *
961347 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAAACC
*
961366 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAAACC
*
961385 GGTCAAACCGGTTCGAACC
1 GGTCAAACCGGTTCAAACC
* * *
961404 AGTCAAACTGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACC
*
961424 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACC
961444 GGTCAAACCGGTT
1 GGTCAAACCGGTT
961457 TAACAGTGCC
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
19 47 0.58
20 34 0.42
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACC
Found at i:970066 original size:90 final size:89
Alignment explanation
Indices: 969917--970082 Score: 305
Period size: 90 Copynumber: 1.9 Consensus size: 89
969907 CCTAACACAC
*
969917 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAAT-TAT
969982 ATTTAATTAATTGGAATTTAATAAT
65 ATTTAATTAATTGGAATTTAATAAT
*
970007 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATTATA
970072 TTTAATTAATT
66 TTTAATTAATT
970083 AAAATTAAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 15 0.20
90 59 0.80
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATTATA
TTTAATTAATTGGAATTTAATAAT
Found at i:970104 original size:90 final size:90
Alignment explanation
Indices: 969920--970104 Score: 282
Period size: 90 Copynumber: 2.1 Consensus size: 90
969910 AACACACCCT
*
969920 TTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATATT
1 TTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATT
** * **
969985 TAATTAATTGGAATTTAATAATCCT
66 TAATTAATTAAAATTAAATAATCAG
*
970010 TTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAAT-TATATT
1 TTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATT
*
970074 TAATTAATTAAAATTAAATATTCGAG
66 TAATTAATTAAAATTAAATAATC-AG
970100 TTTAT
1 TTTAT
970105 TAAAACATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 25 0.29
90 61 0.71
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (90 bp):
TTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATT
TAATTAATTAAAATTAAATAATCAG
Found at i:974656 original size:24 final size:24
Alignment explanation
Indices: 974619--974668 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
974609 TTTCTGGACA
*
974619 TTCTATATGGCACTTCGGTGCAAT
1 TTCTATATGACACTTCGGTGCAAT
*
974643 TTCTATGTGACACTTCGGTGCAAT
1 TTCTATATGACACTTCGGTGCAAT
974667 TT
1 TT
974669 ATACGAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTATATGACACTTCGGTGCAAT
Found at i:981653 original size:23 final size:23
Alignment explanation
Indices: 981627--981742 Score: 98
Period size: 23 Copynumber: 5.1 Consensus size: 23
981617 TACGCGATCG
981627 TTCGGGACAATTCTACGTGGTCC
1 TTCGGGACAATTCTACGTGGTCC
* * * *
981650 TTCGAGACATTTCTACGAGGTCT
1 TTCGGGACAATTCTACGTGGTCC
*
981673 TTCGGGAC-ATT-TATGTGGTCC
1 TTCGGGACAATTCTACGTGGTCC
*
981694 TTCGGGAC-ATTCTATGTGG-CAC
1 TTCGGGACAATTCTACGTGGTC-C
* *
981716 TTCGGTG-CAATTTCTACGCGGTAC
1 TTCGG-GACAA-TTCTACGTGGTCC
981740 TTC
1 TTC
981743 AGTGCAATTT
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
21 19 0.25
22 16 0.21
23 28 0.37
24 12 0.16
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.34
Consensus pattern (23 bp):
TTCGGGACAATTCTACGTGGTCC
Found at i:981712 original size:22 final size:22
Alignment explanation
Indices: 981627--981720 Score: 102
Period size: 23 Copynumber: 4.2 Consensus size: 22
981617 TACGCGATCG
981627 TTCGGGACAATTCTACGTGGTCC
1 TTCGGGAC-ATTCTACGTGGTCC
* * *
981650 TTCGAGACATTTCTACGAGGTCT
1 TTCGGGACA-TTCTACGTGGTCC
*
981673 TTCGGGACATT-TATGTGGTCC
1 TTCGGGACATTCTACGTGGTCC
*
981694 TTCGGGACATTCTATGTGG-CAC
1 TTCGGGACATTCTACGTGGTC-C
981716 TTCGG
1 TTCGG
981721 TGCAATTTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
21 19 0.31
22 16 0.26
23 26 0.43
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.34
Consensus pattern (22 bp):
TTCGGGACATTCTACGTGGTCC
Found at i:986109 original size:30 final size:30
Alignment explanation
Indices: 986041--986099 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
986031 TTTATAGGGG
*
986041 AGTTATTAAAATATTAATAAAATACATTTA
1 AGTTATTAAAATATTAATAAAATAAATTTA
*
986071 AGTTATTAAAATATTAGTAAAATAAATTT
1 AGTTATTAAAATATTAATAAAATAAATTT
986100 GATATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (30 bp):
AGTTATTAAAATATTAATAAAATAAATTTA
Found at i:991031 original size:2 final size:2
Alignment explanation
Indices: 991024--991074 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
991014 AAGTAGTAGT
991024 TA TA TA TA TA TA 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
991066 TA TA TA TA T
1 TA TA TA TA T
991075 TAACCACCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:992978 original size:101 final size:101
Alignment explanation
Indices: 992821--993638 Score: 676
Period size: 101 Copynumber: 8.1 Consensus size: 101
992811 ATTAAATTTA
* * * ** * * * * *
992821 ATAATATAAACGGTTT-AATACCTATAACCTAAATGGTTAACAAATAGAAAATGTGCTACCTACA
1 ATAATATAAAAGGTTTCAA-ACATATAACGTAAACAGTTGACAATTAAAAAAGGTGCTACCTATA
* *
992885 ATGTTATACTTATAAACCTATTTTGTCTTACTTGTGC
65 ATGTTATACTTATAAACCTGTTTTGTCTTACTTTTGC
* * *
992922 ACAATATAAAAGGTTTCAAACATATAACGTAAACAATTGACAATTAAAAAAGGTGCTACCAATAA
1 ATAATATAAAAGGTTTCAAACATATAACGTAAACAGTTGACAATTAAAAAAGGTGCTACCTATAA
* * * * *
992987 TGTAATACTTTTAAACTTGTTTTGCCTTACTTTTTC
66 TGTTATACTTATAAACCTGTTTTGTCTTACTTTTGC
* * * * * * *
993023 ATAATA-AAATAGGTTTCAAATAAATAACCTAAA-AGGTTGACAAATAAAAAATGGAGCAAGCTA
1 ATAATATAAA-AGGTTTCAAACATATAACGTAAACA-GTTGACAATTAAAAAA-GGTGCTACCTA
* * * * * *
993086 TAATGTTAAACTTACAAACCTATTTTGTTTTAAATTTTTC
63 TAATGTTATACTTATAAACCTGTTTTGTCTT-ACTTTTGC
** * * * * *
993126 ATAATA-AAAACAATTTCAAACATATAACGTACACGGTTGACAA-CAAAAAAGGTGCTACTTGTA
1 ATAATATAAAA-GGTTTCAAACATATAACGTAAACAGTTGACAATTAAAAAAGGTGCTACCTATA
* * * * *
993189 ATGTTATACTTTTGAATCTGTTTTCTTTTACTTTTGC
65 ATGTTATACTTATAAACCTGTTTTGTCTTACTTTTGC
* * * * *
993226 ATAATATAAAAGGTTTTAATCATAAAATGTAAACAGTTGACTATTAAAAAAGGTAG-TACCTATA
1 ATAATATAAAAGGTTTCAAACATATAACGTAAACAGTTGACAATTAAAAAAGGT-GCTACCTATA
*
993290 AAGTTATA-TTGATAAACCTGTTTTGTCTTACTTTTGC
65 ATGTTATACTT-ATAAACCTGTTTTGTCTTACTTTTGC
* * * * * * *
993327 ATAAT-TAAAAAGGTTCCAAATAAATAACCTAAA-AGGTTGACAATTTAAAAAGGTACAACCT-T
1 ATAATAT-AAAAGGTTTCAAACATATAACGTAAACA-GTTGACAATTAAAAAAGGTGCTACCTAT
* *
993389 GAATGTTA-ACCTTATAAACCTTTTTTGTCTTACTTTT-T
64 -AATGTTATA-CTTATAAACCTGTTTTGTCTTACTTTTGC
* *** * * *
993427 ATGATATACGTGAATTT-AAACATATAACGTAAACGGTTGACAATTAAAAAAGATGCTACCTATA
1 ATAATATAAAAG-GTTTCAAACATATAACGTAAACAGTTGACAATTAAAAAAGGTGCTACCTATA
* **
993491 ATGTTATACATATAAATATGTTTTGTCTTACTTTTGC
65 ATGTTATACTTATAAACCTGTTTTGTCTTACTTTTGC
* * * * * * *
993528 ATAATATAAAAGGTTTTAATCATAAAACGTAAACAATTGATAGTT-AAAAAGGCGCTACCTATAA
1 ATAATATAAAAGGTTTCAAACATATAACGTAAACAGTTGACAATTAAAAAAGGTGCTACCTATAA
* **
993592 TGTTATA-TTAATGAACCTGTTTTGTCTGGCTTTTGC
66 TGTTATACTT-ATAAACCTGTTTTGTCTTACTTTTGC
*
993628 ATAATAAAAAA
1 ATAATATAAAA
993639 ATGTGTAACA
Statistics
Matches: 559, Mismatches: 133, Indels: 51
0.75 0.18 0.07
Matches are distributed among these distances:
99 1 0.00
100 174 0.31
101 302 0.54
102 42 0.08
103 40 0.07
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.36
Consensus pattern (101 bp):
ATAATATAAAAGGTTTCAAACATATAACGTAAACAGTTGACAATTAAAAAAGGTGCTACCTATAA
TGTTATACTTATAAACCTGTTTTGTCTTACTTTTGC
Found at i:993200 original size:203 final size:202
Alignment explanation
Indices: 992844--993241 Score: 464
Period size: 203 Copynumber: 2.0 Consensus size: 202
992834 TTTAATACCT
* * * * * *
992844 ATAACCTAAATGGTTAACAAATAGAAAATGTGCTACCTACAATGTTATACTTATAAACCTATTTT
1 ATAACCTAAAAGGTTAACAAATAAAAAATGAGCAACCTACAATGTTAAACTTACAAACCTATTTT
* ** *
992909 GTCTTACTTGTGCACAATATAAAAGGTTTCAAACATATAACGTAAACAATTGACAATTAAAAAAG
66 GTCTTAATTGTGCACAATATAAAAAATTTCAAACATATAACGTAAACAATTGACAATCAAAAAAG
*
992974 GTGCTACCAATAATGTAATACTTTTAAA-CTTGTTTTGC-CTTACTTTTTCATAATA-AAATAGG
131 GTGCTACCAATAATGTAATACTTTTAAATC-TGTTTT-CTCTTACTTTTGCATAATATAAA-AGG
993036 TTTCAAATAA
193 TTTCAAATAA
* * *
993046 ATAACCTAAAAGGTTGACAAATAAAAAATGGAGCAAGCTATAATGTTAAACTTACAAACCTATTT
1 ATAACCTAAAAGGTTAACAAATAAAAAAT-GAGCAACCTACAATGTTAAACTTACAAACCTATTT
* * * * * **
993111 TGTTTTAAATTTTTCATAATA-AAAACAATTTCAAACATATAACGTACACGGTTGACAA-CAAAA
65 TGTCTT-AATTGTGCACAATATAAAA-AATTTCAAACATATAACGTAAACAATTGACAATCAAAA
*** * * *
993174 AAGGTGCTACTTGTAATGTTATACTTTTGAATCTGTTTTCTTTTACTTTTGCATAATATAAAAGG
128 AAGGTGCTACCAATAATGTAATACTTTTAAATCTGTTTTCTCTTACTTTTGCATAATATAAAAGG
993239 TTT
193 TTT
993242 TAATCATAAA
Statistics
Matches: 163, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
202 27 0.17
203 95 0.58
204 41 0.25
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (202 bp):
ATAACCTAAAAGGTTAACAAATAAAAAATGAGCAACCTACAATGTTAAACTTACAAACCTATTTT
GTCTTAATTGTGCACAATATAAAAAATTTCAAACATATAACGTAAACAATTGACAATCAAAAAAG
GTGCTACCAATAATGTAATACTTTTAAATCTGTTTTCTCTTACTTTTGCATAATATAAAAGGTTT
CAAATAA
Found at i:993760 original size:102 final size:99
Alignment explanation
Indices: 993651--993990 Score: 303
Period size: 101 Copynumber: 3.4 Consensus size: 99
993641 GTGTAACATA
* *
993651 TAATGTTAAACTTATAAACATGTTTTGTTTTACTTTTTTCATAATAAAAATGGTTTCAAACATAT
1 TAATGTTAAACTTATAAACATGTTTTGTCTTAC-TTTTGCATAATAAAAATGGTTTCAAACATAT
*
993716 AACATACACCGTTGACAAATAAAAAAGGCGCTACCT
65 AACATA-ACCGTTGACAATTAAAAAAGGCGCTACCT
* * * * *
993752 GTAATGTTATACTTTTAAACATGTTCTT-TCTTACTTTTGCATAATAAAAAAGGTTTTAATCATA
1 -TAATGTTAAACTTATAAACATGTT-TTGTCTTACTTTTGCATAATAAAAATGGTTTCAAACATA
* * *
993816 TAATATAAACGATTGACAATTAAAAAAAGGAGCTACCT
64 TAACATAACCG-TTGACAATT-AAAAAAGGCGCTACCT
* * ** * * *
993854 ATAATTTTATACCGATGAACCA-ATTTAG-CTTACTTTTGCATAATAAAAATGGTTTCAAACATA
1 -TAATGTTAAACTTAT-AAACATGTTTTGTCTTACTTTTGCATAATAAAAATGGTTTCAAACATA
* * * * *
993917 T-ACTTTTAACGGTTGACAATTTAAAAAGGCACAACCT
64 TAAC--ATAACCGTTGACAATTAAAAAAGGCGCTACCT
* * **
993954 TGAATGTTAACCTTATAAACCT-TTTTGGGTTACTTTT
1 T-AATGTTAAACTTATAAACATGTTTTGTCTTACTTTT
993991 TCATGAAATA
Statistics
Matches: 189, Mismatches: 39, Indels: 22
0.76 0.16 0.09
Matches are distributed among these distances:
99 8 0.04
100 33 0.17
101 83 0.44
102 59 0.31
103 6 0.03
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (99 bp):
TAATGTTAAACTTATAAACATGTTTTGTCTTACTTTTGCATAATAAAAATGGTTTCAAACATATA
ACATAACCGTTGACAATTAAAAAAGGCGCTACCT
Found at i:993791 original size:164 final size:162
Alignment explanation
Indices: 993487--993802 Score: 377
Period size: 164 Copynumber: 1.9 Consensus size: 162
993477 AGATGCTACC
* * * *
993487 TATAATGTTATACATATAAATATGTTTTGTCTTACTTTTGCATAATATAAAAGGTTTTAATCATA
1 TATAATGTTAAACATATAAACATGTTTTGTCTTACTTTTGCATAATATAAAAGGTTTCAAACATA
* * * * * *
993552 AAACGTAAACAATTGATAGTTAAAAAGGCGCTACCTATAATGTTATATTAATGAACCTGTTTTGT
66 AAACATAAACAATTGAAAATAAAAAAGGCGCTACCTATAATGTTATATTAATAAACATGTTTTGT
*
993617 CTGGCTTTTGCATAATAAAAAAATGTGTAACA
131 CTGACTTTTGCATAATAAAAAAATGTGTAACA
* * *
993649 TATAATGTTAAACTTATAAACATGTTTTGTTTTACTTTTTTCATAATA-AAAATGGTTTCAAACA
1 TATAATGTTAAACATATAAACATGTTTTGTCTTAC-TTTTGCATAATATAAAA-GGTTTCAAACA
* * ** * *
993713 TATAACATACACCGTTGACAAATAAAAAAGGCGCTACCTGTAATGTTATACTT-TTAAACATGTT
64 TAAAACATAAACAATTGA-AAATAAAAAAGGCGCTACCTATAATGTTATA-TTAATAAACATGTT
*
993777 CTT-TCTTACTTTTGCATAATAAAAAA
127 -TTGTCTGACTTTTGCATAATAAAAAA
993803 GGTTTTAATC
Statistics
Matches: 128, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
162 35 0.27
163 33 0.26
164 56 0.44
165 4 0.03
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (162 bp):
TATAATGTTAAACATATAAACATGTTTTGTCTTACTTTTGCATAATATAAAAGGTTTCAAACATA
AAACATAAACAATTGAAAATAAAAAAGGCGCTACCTATAATGTTATATTAATAAACATGTTTTGT
CTGACTTTTGCATAATAAAAAAATGTGTAACA
Found at i:994992 original size:23 final size:23
Alignment explanation
Indices: 994960--995008 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
994950 TATTCGAACG
*
994960 ATTGAATCGAATATAAACTTCAAA
1 ATTGAATCGAAAATAAACTT-AAA
*
994984 ATTG-ATCGAAAATAATCTTAAA
1 ATTGAATCGAAAATAAACTTAAA
995006 ATT
1 ATT
995009 TCTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 13 0.57
24 4 0.17
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (23 bp):
ATTGAATCGAAAATAAACTTAAA
Found at i:1001740 original size:21 final size:23
Alignment explanation
Indices: 1001705--1001765 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
1001695 TTGGTGTAGA
*
1001705 GGGAATCGA-TCCCCCCATG-A-
1 GGGAACCGATTCCCCCCATGAAG
* **
1001725 GGGAACTGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCATGAAG
1001748 GGGAACCGATTCCCCCCA
1 GGGAACCGATTCCCCCCA
1001766 CAGGGGAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 7 0.23
21 8 0.26
22 1 0.03
23 15 0.48
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCATGAAG
Found at i:1006474 original size:21 final size:21
Alignment explanation
Indices: 1006398--1006475 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
1006388 TGTCTCGTAT
*
1006398 GACCACATATATATTCCAAAG
1 GACCACATATATGTTCCAAAG
*
1006419 GACCAAATATATG-TCCAAGAAG
1 GACCACATATATGTTCC-A-AAG
*
1006441 GACCTCATATATGTTCCAAAG
1 GACCACATATATGTTCCAAAG
*
1006462 GATCACATATATGT
1 GACCACATATATGT
1006476 CCCGAATGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.06
21 27 0.56
22 15 0.31
23 3 0.06
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (21 bp):
GACCACATATATGTTCCAAAG
Found at i:1023519 original size:21 final size:21
Alignment explanation
Indices: 1023409--1023524 Score: 92
Period size: 21 Copynumber: 5.5 Consensus size: 21
1023399 AAAATGTCAT
1023409 GAAGGACCACATATATGTCCC
1 GAAGGACCACATATATGTCCC
* *
1023430 GTAGGACCACATATATGTTCC
1 GAAGGACCACATATATGTCCC
* * * *
1023451 AAAAGAGCA-ATTATATGTCCAA
1 GAAGGACCACA-TATATGTCC-C
* * *
1023473 GAAAGACCTCATATAT-ACTCC
1 GAAGGACCACATATATGTC-CC
* *
1023494 AAAGGATCACATATATGTCCC
1 GAAGGACCACATATATGTCCC
1023515 GAAGGACCAC
1 GAAGGACCAC
1023525 GTAGAACCCT
Statistics
Matches: 70, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
20 1 0.01
21 55 0.79
22 13 0.19
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (21 bp):
GAAGGACCACATATATGTCCC
Found at i:1025989 original size:12 final size:12
Alignment explanation
Indices: 1025972--1025997 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1025962 TATTTTTACC
1025972 TTAAAATTAAAT
1 TTAAAATTAAAT
1025984 TTAAAATTAAAT
1 TTAAAATTAAAT
1025996 TT
1 TT
1025998 GTATCCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAAAATTAAAT
Found at i:1027123 original size:102 final size:102
Alignment explanation
Indices: 1026994--1027185 Score: 273
Period size: 102 Copynumber: 1.9 Consensus size: 102
1026984 ACGTTACCTG
* *
1026994 TAATGTTATACATATAAACATGTTTTGTCTTACTTTTGCATAAT-ATAAAAGGTTTCAATCATAT
1 TAATGTTATACATATAAACATGTTTTGTCTTACTTTTGCATAATGA-AAAAGATTTCAAACATAT
1027058 AA-CGTAAATGGTTGACAATTAAAAAAAGGTGTTATTTA
65 AATC-TAAATGGTTGACAATTAAAAAAAGGTGTTATTTA
* * * **
1027096 TAATGTTATAC-TAATGAACCTGTTTTGTTTTACTTTTGCATCGTGAAAAAGATTTCAAACATAT
1 TAATGTTATACAT-ATAAACATGTTTTGTCTTACTTTTGCATAATGAAAAAGATTTCAAACATAT
1027160 AATCTAAATGGTTGACAATTAAAAAA
65 AATCTAAATGGTTGACAATTAAAAAA
1027186 GGCACAACTT
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
101 1 0.01
102 77 0.96
103 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (102 bp):
TAATGTTATACATATAAACATGTTTTGTCTTACTTTTGCATAATGAAAAAGATTTCAAACATATA
ATCTAAATGGTTGACAATTAAAAAAAGGTGTTATTTA
Found at i:1029914 original size:23 final size:23
Alignment explanation
Indices: 1029888--1029950 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1029878 TATATGGTCA
*
1029888 TTCGGGAAAAATCTACGCATTCC
1 TTCGGGAAAAATCTACGCAGTCC
* *
1029911 TTCGGGACAAATCTACGCGGTCC
1 TTCGGGAAAAATCTACGCAGTCC
1029934 TTCGGGAAAAATCTACG
1 TTCGGGAAAAATCTACG
1029951 TGGCACTTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (23 bp):
TTCGGGAAAAATCTACGCAGTCC
Found at i:1029959 original size:23 final size:22
Alignment explanation
Indices: 1029888--1029961 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 22
1029878 TATATGGTCA
*
1029888 TTCGGGAAAAATCTACGCAT-TCC
1 TTCGGGAAAAATCTACG--TGGCC
* *
1029911 TTCGGGACAAATCTACGCGGTCC
1 TTCGGGAAAAATCTACGTGG-CC
1029934 TTCGGGAAAAATCTACGTGGCAC
1 TTCGGGAAAAATCTACGTGGC-C
1029957 TTCGG
1 TTCGG
1029962 TGCAAATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 1 0.02
23 42 0.98
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (22 bp):
TTCGGGAAAAATCTACGTGGCC
Found at i:1032090 original size:23 final size:23
Alignment explanation
Indices: 1032064--1032112 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
1032054 ATAAATAACC
1032064 AAAATAAACT-TAAATATACCATT
1 AAAATAAACTCTAAATAT-CCATT
*
1032087 AAAATAAAGTCTAAATATCCATT
1 AAAATAAACTCTAAATATCCATT
1032110 AAA
1 AAA
1032113 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAAACTCTAAATATCCATT
Found at i:1039082 original size:16 final size:16
Alignment explanation
Indices: 1039061--1039092 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1039051 TATATGTCCA
1039061 GTGGCTAGGAAAGGTC
1 GTGGCTAGGAAAGGTC
1039077 GTGGCTAGGAAAGGTC
1 GTGGCTAGGAAAGGTC
1039093 TTCCTAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.44, T:0.19
Consensus pattern (16 bp):
GTGGCTAGGAAAGGTC
Found at i:1042267 original size:23 final size:23
Alignment explanation
Indices: 1042241--1042289 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1042231 ATAAAGAACC
*
1042241 AAAATAAACT-TAAATATACCATT
1 AAAATAAACTCTAAACAT-CCATT
*
1042264 AAAATAAAGTCTAAACATCCATT
1 AAAATAAACTCTAAACATCCATT
1042287 AAA
1 AAA
1042290 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTCTAAACATCCATT
Found at i:1046646 original size:2 final size:2
Alignment explanation
Indices: 1046639--1046670 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
1046629 ATTAATTTCT
1046639 TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
1046671 GTGACAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1047296 original size:21 final size:20
Alignment explanation
Indices: 1047272--1047317 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1047262 GAATATTATT
1047272 GATACTGAT-TGAAGTAGTATC
1 GATACTGATGTGAAG--GTATC
*
1047293 GATACTGATGTGGAGGTATC
1 GATACTGATGTGAAGGTATC
1047313 GATAC
1 GATAC
1047318 CAAGGACAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 9 0.39
22 4 0.17
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.30
Consensus pattern (20 bp):
GATACTGATGTGAAGGTATC
Found at i:1048589 original size:577 final size:577
Alignment explanation
Indices: 1047496--1050378 Score: 4965
Period size: 577 Copynumber: 5.0 Consensus size: 577
1047486 AAGTAAAGGT
*
1047496 TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGCTATGTGTAAATTCGATCG
1 TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGCTATGTGTAGATTCGATCG
* *
1047561 AAAGCAAATGCTGAGCGAAGTAACATATAAAGTTGGAAAGTTAAAGTGAAAAAGAGTTGCTTAAG
66 AAAGCAAATGTTGAGCGAAGTAACATATAAAGTTGGAAAGTTAAAGTGAAAAAGAGTTGCTTAGG
* * * *
1047626 GCTTAAGTGAGGCAAAGGTGAGTGCATTTTACTATATTTTTCAATATAATAAGAGGAAGAATCGC
131 GCTTAAGTGTGGCAAAGGTGAGTGCATTTTACTATACTTTTCAATATAATAGGAGGAAGACTCGC
* * * * *
1047691 GACGAGTCAACCTCGATTGTTTTGAAAGAACAATGTTTTGAATTTTACTGTGAAAAACTTTTATC
196 GATGAGTCAACCTCGAATGTTTTGAAAGAAAAATGTTTTGAATTTTACTATGAAACACTTTTATC
*
1047756 ATGCTTTGATAAATAAATTGTGAATAATTTGGTTTGTGAAGAGCCAAATCTTGAAAGTTTATTAA
261 ATGCTTTGATAAATAAATTGTGAATAATTTGGTTTGTGAAGAGCCAAATCTTGAAAGTTTGTTAA
* * * *
1047821 TGTAAATGATTTGAATTATGACATGATTCTTTCTGATATTTCGATATATTCTTATTTAGGAAATT
326 TGTAAATGATTTGAATTATGACATGATTTTTTCTGATATTTTGATATATTCTTGTTTATGAAATT
1047886 TGACATGAAATGATATATGGATTTAAATATAATACTATGTGATATACTATATAAATGTTTTCTAC
391 TGACATGAAATGATATATGGATTTAAATATAATACTATGTGATATACTATATAAATGTTTTCTAC
1047951 GTGACAATGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAAAATATTCCACGTGAAAAT
456 GTGACAATGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAAAATATTCCACGTGAAAAT
* * *
1048016 ACCTATGTGAATGTGCTCTACATGAAAAAGACATAATTTGAATAATGAAATGAAAAA
521 ACCTATGTGAATGTGCTCTACATGAATAAGACACACTTTGAATAATGAAATGAAAAA
1048073 TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGCTATGTGTAGATTCGATCG
1 TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGCTATGTGTAGATTCGATCG
* * *
1048138 AAAGTAAATGTTAAGCGAAGTAACATATAAAGTTTGAAAGTTAAAGTGAAAAAGAGTTGCTTAGG
66 AAAGCAAATGTTGAGCGAAGTAACATATAAAGTTGGAAAGTTAAAGTGAAAAAGAGTTGCTTAGG
*
1048203 GCTTAAGTGTGGCAAAGGTGAGTGCATTTTACTATACTTTTCAATATAATAGGAGGAAGACTCAC
131 GCTTAAGTGTGGCAAAGGTGAGTGCATTTTACTATACTTTTCAATATAATAGGAGGAAGACTCGC
* *
1048268 GATGAGTCAACCTTGAATGTTTTGAAAGAAAAATGTTTTGAATTTTACTGTGAAACACTTTTATC
196 GATGAGTCAACCTCGAATGTTTTGAAAGAAAAATGTTTTGAATTTTACTATGAAACACTTTTATC
* * * * *
1048333 ATGCCTTGATAAATAAATTGTGAAGAATTTGGTTTGTGAAGAGACAAATCTTGAAAGATTATTAA
261 ATGCTTTGATAAATAAATTGTGAATAATTTGGTTTGTGAAGAGCCAAATCTTGAAAGTTTGTTAA
1048398 TGTAAATGATTTGAATTATGACATGATTTTTTCTGATATTTTGATATATTCTTGTTTATGAAATT
326 TGTAAATGATTTGAATTATGACATGATTTTTTCTGATATTTTGATATATTCTTGTTTATGAAATT
*
1048463 TGACATGAAATGATATATGGATTTAAATTTAATACTATGTGATATACTATATAAATGTTTTCTAC
391 TGACATGAAATGATATATGGATTTAAATATAATACTATGTGATATACTATATAAATGTTTTCTAC
*
1048528 GAGACAATGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAAAATATTCCACGTGAAAAT
456 GTGACAATGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAAAATATTCCACGTGAAAAT
*
1048593 ACCTATGTGAATGTGCTCTACATGAATAAGACACACTTTGAATAACGAAATGAAAAA
521 ACCTATGTGAATGTGCTCTACATGAATAAGACACACTTTGAATAATGAAATGAAAAA
*
1048650 CAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGCTATGTGTAGATTCGATCG
1 TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGCTATGTGTAGATTCGATCG
* * *
1048715 AAAGCGAATGTTGAGAGATGTAACATATAAAGTTGGAAAGTTAAAGTGAAAAAGAGTTGCTTAGG
66 AAAGCAAATGTTGAGCGAAGTAACATATAAAGTTGGAAAGTTAAAGTGAAAAAGAGTTGCTTAGG
* * *
1048780 GCTTAAGTTTGGCAAAGGTTAGTGCATTTTACTATACTTTTCAGTATAATAGGAGGAAGACTCGC
131 GCTTAAGTGTGGCAAAGGTGAGTGCATTTTACTATACTTTTCAATATAATAGGAGGAAGACTCGC
* * * *
1048845 AATGAGTCAACCTCGAATATTTTGAAAGAAAAGTGTTTTGAATTTTAGTATGAAACACTTTTATC
196 GATGAGTCAACCTCGAATGTTTTGAAAGAAAAATGTTTTGAATTTTACTATGAAACACTTTTATC
*
1048910 GTGCTTTGATAAATAAATTGTGAATAATTTGGTTTGTGAAGAGCCAAATCTTGAAAGTTTGTTAA
261 ATGCTTTGATAAATAAATTGTGAATAATTTGGTTTGTGAAGAGCCAAATCTTGAAAGTTTGTTAA
1048975 TGTAAATGATTTGAATTATGACATGATTTTTTCTGATATTTTGATATATTCTTGTTTATGAAATT
326 TGTAAATGATTTGAATTATGACATGATTTTTTCTGATATTTTGATATATTCTTGTTTATGAAATT
*
1049040 TGACATGAAATGATATATGGATTTAAATATAATACTATATGATATACTATATAAATGTTTTCTAC
391 TGACATGAAATGATATATGGATTTAAATATAATACTATGTGATATACTATATAAATGTTTTCTAC
*
1049105 GTGACAATGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAAAATATTCCATGTGAAAAT
456 GTGACAATGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAAAATATTCCACGTGAAAAT
1049170 ACCTATGTGAATGTGCTCTACATGAATAAGACACACTTTGAATAATGAAATGAAAAA
521 ACCTATGTGAATGTGCTCTACATGAATAAGACACACTTTGAATAATGAAATGAAAAA
1049227 TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGCTATATGTGTAGATTCGAT
1 TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGC--TATGTGTAGATTCGAT
* * * * *
1049292 CGAAAGCAAATGTTGGGCGAAGTAAAATATAAACTTGGAAAGTTAAAGTGAAAAAAAGTTTCTTA
64 CGAAAGCAAATGTTGAGCGAAGTAACATATAAAGTTGGAAAGTTAAAGTGAAAAAGAGTTGCTTA
* * *
1049357 GGGCATAAGTGTGGCAAAGGTGAGTACATTTTACTATACTTTTCAATATAATAAGAGGAAGACTC
129 GGGCTTAAGTGTGGCAAAGGTGAGTGCATTTTACTATACTTTTCAATATAATAGGAGGAAGACTC
* *
1049422 GCGATAAGTCAACCTCGAATGTTTTGAAAGAAAAATATTTTGAATTTTACTATGAAACACTTTTA
194 GCGATGAGTCAACCTCGAATGTTTTGAAAGAAAAATGTTTTGAATTTTACTATGAAACACTTTTA
*
1049487 TCATGCTTTG----AT-AATTGTGAATAATTTGGTTTTTGAAGAGCCAAATCTTGAAAGTTTGTT
259 TCATGCTTTGATAAATAAATTGTGAATAATTTGGTTTGTGAAGAGCCAAATCTTGAAAGTTTGTT
* *
1049547 AATGTAAATGATTTGAATTATGACATGA-GTTTTCTGATATTTCGATATATTCTTGTTTATGAAA
324 AATGTAAATGATTTGAATTATGACATGATTTTTTCTGATATTTTGATATATTCTTGTTTATGAAA
1049611 TTTGACATGAAATGATATATGGATTTAAATATAATACTATGTGATATACTATATAAATGTTTTCT
389 TTTGACATGAAATGATATATGGATTTAAATATAATACTATGTGATATACTATATAAATGTTTTCT
* *
1049676 ACGTGACAATGATATGTGAATAAGTTTATATGAAAATGTTCTAAGTGAAAATATTCCACGTGGAA
454 ACGTGACAATGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAAAATATTCCACGTGAAA
* *
1049741 ATATCTATGTGAATGTGCTCTACATGAATAAGACACACTTTGAATAGTGAAATGAAAAA
519 ATACCTATGTGAATGTGCTCTACATGAATAAGACACACTTTGAATAATGAAATGAAAAA
*
1049800 TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGTTATGTGTAGATTCGATCG
1 TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGCTATGTGTAGATTCGATCG
*
1049865 AAAGCAAATGTTGAGCGAAGTAACATATAAAGTTGGAAAGTTAAAGTAAAAAAGAGTTGCTTAGG
66 AAAGCAAATGTTGAGCGAAGTAACATATAAAGTTGGAAAGTTAAAGTGAAAAAGAGTTGCTTAGG
* *
1049930 GCTTAAGTGAGGCAAAGGTGAGTGCGTTTTACTATACTTTTCAATATAATAGGAGGAAGACTCGC
131 GCTTAAGTGTGGCAAAGGTGAGTGCATTTTACTATACTTTTCAATATAATAGGAGGAAGACTCGC
* *
1049995 GATGAGTCAACCTCGAATGTTTTAAAAGAAAAATGTTTTGAATTTTACTATGAAACATTTTTATC
196 GATGAGTCAACCTCGAATGTTTTGAAAGAAAAATGTTTTGAATTTTACTATGAAACACTTTTATC
* *
1050060 ATGCTTTGATAAATAAATTGTGAATAATTTGGTTTGTGAAGAACCAAATCATGAAAGTTTGTTAA
261 ATGCTTTGATAAATAAATTGTGAATAATTTGGTTTGTGAAGAGCCAAATCTTGAAAGTTTGTTAA
* * * *
1050125 TGTAAATTATTTGAATTTTGACTTGATTTTTTCTCATATTTTGATATATTCTTGTTTATGAAATT
326 TGTAAATGATTTGAATTATGACATGATTTTTTCTGATATTTTGATATATTCTTGTTTATGAAATT
1050190 TGACATGAAATGATATATGGATTTAAATATAATACTATGTGATATACTATATAAATGTTTTCTAC
391 TGACATGAAATGATATATGGATTTAAATATAATACTATGTGATATACTATATAAATGTTTTCTAC
* *
1050255 GTGACAACGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAGAATATTCCACGTGAAAAT
456 GTGACAATGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAAAATATTCCACGTGAAAAT
*
1050320 A---ATGTCAATGTGCTCTACATGAATAAGACACACTTTGAATAATGAAATGAAAAA
521 ACCTATGTGAATGTGCTCTACATGAATAAGACACACTTTGAATAATGAAATGAAAAA
1050374 TAATT
1 TAATT
1050379 ATATGGAATA
Statistics
Matches: 2178, Mismatches: 120, Indels: 19
0.94 0.05 0.01
Matches are distributed among these distances:
571 206 0.09
573 263 0.12
574 131 0.06
575 4 0.00
576 70 0.03
577 1304 0.60
579 200 0.09
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (577 bp):
TAATTGGTTAGATGTTAATTGAGCTCCGATATTCATATTGGTCATGCTATGTGTAGATTCGATCG
AAAGCAAATGTTGAGCGAAGTAACATATAAAGTTGGAAAGTTAAAGTGAAAAAGAGTTGCTTAGG
GCTTAAGTGTGGCAAAGGTGAGTGCATTTTACTATACTTTTCAATATAATAGGAGGAAGACTCGC
GATGAGTCAACCTCGAATGTTTTGAAAGAAAAATGTTTTGAATTTTACTATGAAACACTTTTATC
ATGCTTTGATAAATAAATTGTGAATAATTTGGTTTGTGAAGAGCCAAATCTTGAAAGTTTGTTAA
TGTAAATGATTTGAATTATGACATGATTTTTTCTGATATTTTGATATATTCTTGTTTATGAAATT
TGACATGAAATGATATATGGATTTAAATATAATACTATGTGATATACTATATAAATGTTTTCTAC
GTGACAATGATATGTGAATATGTTTATATGAAAATGTTCTAAGTGAAAATATTCCACGTGAAAAT
ACCTATGTGAATGTGCTCTACATGAATAAGACACACTTTGAATAATGAAATGAAAAA
Found at i:1050479 original size:23 final size:22
Alignment explanation
Indices: 1050448--1050549 Score: 69
Period size: 23 Copynumber: 4.4 Consensus size: 22
1050438 AGTCGAGGGT
* *
1050448 TCTACGTGGTCCTTCGGGTCAAA
1 TCTATGTGGTCCTTCGGAT-AAA
* *
1050471 TCTATGTGGTCATTCAGGATAAT
1 TCTATGTGGTCCTTC-GGATAAA
* *
1050494 TCTATGTGATCCTTCGAGAAAAA
1 TCTATGTGGTCCTTCG-GATAAA
** *
1050517 TTCTACATGATCCTTCGGGATAAA
1 -TCTATGTGGTCCTTC-GGATAAA
*
1050541 TCTACGTGG
1 TCTATGTGG
1050550 CACTTTGGTG
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
22 1 0.02
23 39 0.63
24 21 0.34
25 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (22 bp):
TCTATGTGGTCCTTCGGATAAA
Found at i:1050541 original size:24 final size:24
Alignment explanation
Indices: 1050487--1050545 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
1050477 TGGTCATTCA
**
1050487 GGAT-AATTCTATGTGATCCTTCG
1 GGATAAATTCTACATGATCCTTCG
* *
1050510 AGAAAAATTCTACATGATCCTTCG
1 GGATAAATTCTACATGATCCTTCG
1050534 GGATAAA-TCTAC
1 GGATAAATTCTAC
1050546 GTGGCACTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 7 0.24
24 22 0.76
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (24 bp):
GGATAAATTCTACATGATCCTTCG
Found at i:1051245 original size:17 final size:17
Alignment explanation
Indices: 1051225--1051258 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1051215 TATCTGAGTC
1051225 AGATACAAATCCGGGTG
1 AGATACAAATCCGGGTG
1051242 AGATACAAATCCGGGTG
1 AGATACAAATCCGGGTG
1051259 TTACAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (17 bp):
AGATACAAATCCGGGTG
Found at i:1056176 original size:38 final size:38
Alignment explanation
Indices: 1056134--1056239 Score: 140
Period size: 38 Copynumber: 2.8 Consensus size: 38
1056124 GGTGTATGTG
* *
1056134 TATATAACTGTATGAATAGATGGATGTCGTCATATGAT
1 TATATAATTGTACGAATAGATGGATGTCGTCATATGAT
* * * * *
1056172 TATATAGTTGCACGAATAGATTGACGTCGTTATATGAT
1 TATATAATTGTACGAATAGATGGATGTCGTCATATGAT
*
1056210 TATATAATTGTACGAATAGATGAATGTCGT
1 TATATAATTGTACGAATAGATGGATGTCGT
1056240 TATACGAGTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (38 bp):
TATATAATTGTACGAATAGATGGATGTCGTCATATGAT
Found at i:1059466 original size:32 final size:32
Alignment explanation
Indices: 1059425--1059490 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
1059415 ACATTGTTTG
1059425 TAAGGATTCTACAATGGAAGGAAGATGATCGT
1 TAAGGATTCTACAATGGAAGGAAGATGATCGT
1059457 TAAGGATTCTACAATGGAAGGAAGATGATCGT
1 TAAGGATTCTACAATGGAAGGAAGATGATCGT
1059489 TA
1 TA
1059491 GTTTGTTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.26
Consensus pattern (32 bp):
TAAGGATTCTACAATGGAAGGAAGATGATCGT
Found at i:1061615 original size:17 final size:17
Alignment explanation
Indices: 1061593--1061662 Score: 79
Period size: 17 Copynumber: 4.1 Consensus size: 17
1061583 AATTAAGAGT
*
1061593 TAGTTTGATTAATGCAC
1 TAGTTTGATTAATGAAC
*
1061610 TAGTTTGATGAATGAAC
1 TAGTTTGATTAATGAAC
*
1061627 TAGTTTAATTAATGAACC
1 TAGTTTGATTAATGAA-C
* *
1061645 AACTTT-ATTAATGAAC
1 TAGTTTGATTAATGAAC
1061661 TA
1 TA
1061663 AATGCATGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
16 2 0.04
17 38 0.84
18 5 0.11
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (17 bp):
TAGTTTGATTAATGAAC
Found at i:1063397 original size:14 final size:14
Alignment explanation
Indices: 1063378--1063428 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1063368 CGATAATCTA
1063378 TTCATTTATGTTCG
1 TTCATTTATGTTCG
*
1063392 TTCATTTATCTTCG
1 TTCATTTATGTTCG
* *
1063406 TTCGTTTATGTTCA
1 TTCATTTATGTTCG
*
1063420 TTCTTTTAT
1 TTCATTTAT
1063429 ATCCAACTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.14, C:0.16, G:0.10, T:0.61
Consensus pattern (14 bp):
TTCATTTATGTTCG
Found at i:1064295 original size:20 final size:20
Alignment explanation
Indices: 1064270--1064307 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1064260 TTGAAAACAA
*
1064270 AACAATTTTAAATATTAAAT
1 AACAATTTGAAATATTAAAT
*
1064290 AACAATTTGAAATTTTAA
1 AACAATTTGAAATATTAA
1064308 TCTTTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
AACAATTTGAAATATTAAAT
Found at i:1064971 original size:33 final size:31
Alignment explanation
Indices: 1064907--1064974 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 31
1064897 ACCTTACAAC
*
1064907 TCCCTAGTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTCCGGGATAAACTAGAACCTT
*
1064938 TCCCTAGCTTTTACACGGGATAAAC-ATAACCTT
1 TCCCTAG-TTTT-C-CGGGATAAACTAGAACCTT
1064971 TCCC
1 TCCC
1064975 CTTTGCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 7 0.22
32 4 0.12
33 12 0.38
34 9 0.28
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (31 bp):
TCCCTAGTTTTCCGGGATAAACTAGAACCTT
Found at i:1065431 original size:13 final size:13
Alignment explanation
Indices: 1065394--1065425 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1065384 CGAAATGGAG
*
1065394 TGCATGGATGCAC
1 TGCAGGGATGCAC
1065407 TGCAGGGATGCAC
1 TGCAGGGATGCAC
1065420 TGCAGG
1 TGCAGG
1065426 AGTGCATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.38, T:0.19
Consensus pattern (13 bp):
TGCAGGGATGCAC
Found at i:1065709 original size:21 final size:20
Alignment explanation
Indices: 1065662--1065710 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
1065652 AAATGTTTAA
1065662 TGAAAAA-GATATCAATTGT
1 TGAAAAATGATATCAATTGT
*
1065681 TAACAAAATGATATCAATTGTT
1 TGA-AAAATGATATCAATTG-T
1065703 TGAAAAAT
1 TGAAAAAT
1065711 ATGAAAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 4 0.16
21 16 0.64
22 3 0.12
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (20 bp):
TGAAAAATGATATCAATTGT
Found at i:1068947 original size:64 final size:63
Alignment explanation
Indices: 1068866--1069063 Score: 224
Period size: 65 Copynumber: 3.1 Consensus size: 63
1068856 CTAAGAGTGT
* *
1068866 ATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTTGTGC
1 ATCGATACATGAAATGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGG-TTGTGC
* * *
1068930 ATCGATTCATCAAATGCATTCGATGTTTTCATAAA-ATCCTGAGTGCATCGATGCATGGTATGTG
1 ATCGATACATGAAATGCATTCGATG-TTTCA-AAATATCCAGAGTGCATCGATGCATGGT-TGTG
1068994 C
63 C
**
1068995 ATC-AGTACATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGATTGG
1 ATCGA-TACATGAAATGCATTCGATGTTTCAAAATA-TCCA-GAGTGCATCGATGCATGG-TT-G
1069057 TGC
61 TGC
1069060 ATCG
1 ATCG
1069064 GTGCATCACT
Statistics
Matches: 115, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 45 0.39
65 61 0.53
66 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (63 bp):
ATCGATACATGAAATGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGGTTGTGC
Found at i:1075795 original size:29 final size:28
Alignment explanation
Indices: 1075763--1075820 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
1075753 GGATGTTTAA
1075763 ATTTGATGGTTGT-TGGATGTTTTGAACTT
1 ATTTG-TGGTTGTATGGAT-TTTTGAACTT
* *
1075792 ATTTGTTGTTTTATGGATTTTTGAACTT
1 ATTTGTGGTTGTATGGATTTTTGAACTT
1075820 A
1 A
1075821 ATATTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.55
Consensus pattern (28 bp):
ATTTGTGGTTGTATGGATTTTTGAACTT
Found at i:1076556 original size:65 final size:64
Alignment explanation
Indices: 1076439--1076646 Score: 235
Period size: 65 Copynumber: 3.2 Consensus size: 64
1076429 TTTCAAAGTG
* * **
1076439 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCACCGATGCA-CAAGCCATGCATCGATGCACTCA-GGATTTTA-TGAAACATCGAATGCATT
1076502 TC
63 TC
1076504 ATGCACCGATGCACATA-CCATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCATTT
1 ATGCACCGATGCACA-AGCCATGCATCGATGCACTCAGGATTTTATG-AAACATCGAATGCATTT
*
1076568 G
64 C
* * * * *
1076569 ATGAATCGATGCACAAGCCATGCATCGATGCACTCTGGCTATTT-TGAAACATCGAATGCATTTT
1 ATGCACCGATGCACAAGCCATGCATCGATGCACTCAGGAT-TTTATGAAACATCGAATGCATTTC
*
1076633 ATGCATCGATGCAC
1 ATGCACCGATGCAC
1076647 TCTTAGTGTA
Statistics
Matches: 127, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
63 2 0.02
64 54 0.43
65 68 0.54
66 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (64 bp):
ATGCACCGATGCACAAGCCATGCATCGATGCACTCAGGATTTTATGAAACATCGAATGCATTTC
Found at i:1080909 original size:24 final size:24
Alignment explanation
Indices: 1080882--1080933 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
1080872 GAAATTAATT
1080882 TCAAAACTCAAAATTAAAGATAAA
1 TCAAAACTCAAAATTAAAGATAAA
*** *
1080906 TCAATTTTGAAAATTAAAGATAAA
1 TCAAAACTCAAAATTAAAGATAAA
1080930 TCAA
1 TCAA
1080934 TTTTGAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.27
Consensus pattern (24 bp):
TCAAAACTCAAAATTAAAGATAAA
Found at i:1080934 original size:24 final size:24
Alignment explanation
Indices: 1080891--1080948 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
1080881 TTCAAAACTC
1080891 AAAATTAAAGATAAATCAATTTTG
1 AAAATTAAAGATAAATCAATTTTG
1080915 AAAATTAAAGATAAATCAATTTTG
1 AAAATTAAAGATAAATCAATTTTG
*
1080939 AAAATAAAAG
1 AAAATTAAAG
1080949 TCGATTTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (24 bp):
AAAATTAAAGATAAATCAATTTTG
Found at i:1080975 original size:20 final size:19
Alignment explanation
Indices: 1080908--1080981 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 19
1080898 AAGATAAATC
1080908 AATTTTGAAAATTAAAGATAAA
1 AATTTTGAAAA-TAAA-AT-AA
*
1080930 TCAATTTTGAAAATAAAAGT-C
1 --AATTTTGAAAATAAAA-TAA
*
1080951 GATTTTGAAAATCAAAATAA
1 AATTTTGAAAAT-AAAATAA
1080971 AATTTTGAAAA
1 AATTTTGAAAA
1080982 ATGATTTAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 12 0.28
20 14 0.33
22 1 0.02
23 5 0.12
24 11 0.26
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.32
Consensus pattern (19 bp):
AATTTTGAAAATAAAATAA
Found at i:1082416 original size:22 final size:22
Alignment explanation
Indices: 1082391--1082466 Score: 125
Period size: 22 Copynumber: 3.5 Consensus size: 22
1082381 AGAGGTACCG
*
1082391 ATACCCCTATGAATTGGTATCA
1 ATACCCCTATGAATGGGTATCA
*
1082413 ATACCCCTATGAATGGGTACCA
1 ATACCCCTATGAATGGGTATCA
*
1082435 ATATCCCTATGAATGGGTATCA
1 ATACCCCTATGAATGGGTATCA
1082457 ATACCCCTAT
1 ATACCCCTAT
1082467 TAAGGCTCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (22 bp):
ATACCCCTATGAATGGGTATCA
Found at i:1091356 original size:81 final size:81
Alignment explanation
Indices: 1091157--1091360 Score: 228
Period size: 81 Copynumber: 2.5 Consensus size: 81
1091147 TCTTTTCACT
* * * * * ** * *
1091157 TAACTTGCATATTTGACACTTTTCTATCAAATGCACAAATAGTCCATTATTCTTTTACTCAACAA
1 TAACTAGCATAATTGACACCTTTCTACCAATTGCACAGTTAGACCATTATCCTTTTACTCAACAA
*
1091222 TGTTTAACCATTCATC
66 TATTTAACCATTCATC
* * * * * *
1091238 TAACTAACATCATTGACACCTTTCTGCCATTTGCACAGTTAGACCATTATCCTTTTACTCAGCAG
1 TAACTAGCATAATTGACACCTTTCTACCAATTGCACAGTTAGACCATTATCCTTTTACTCAACAA
* *
1091303 TATTTAATCGTTCATC
66 TATTTAACCATTCATC
* *
1091319 TAACTGGCATAATTGACACCTTCCTACCAATTGCACAGTTAG
1 TAACTAGCATAATTGACACCTTTCTACCAATTGCACAGTTAG
1091361 GCCTCAAAGG
Statistics
Matches: 99, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (81 bp):
TAACTAGCATAATTGACACCTTTCTACCAATTGCACAGTTAGACCATTATCCTTTTACTCAACAA
TATTTAACCATTCATC
Found at i:1091723 original size:59 final size:59
Alignment explanation
Indices: 1091652--1092236 Score: 954
Period size: 59 Copynumber: 9.9 Consensus size: 59
1091642 ATTTCCCACG
* * **
1091652 CGGAAATTCATACACTTAGTATGAATTACTTAACATTTTTGCACACCGAGTGCCCAATA
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
*
1091711 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAGTA
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
*
1091770 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAGTA
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
* *
1091829 TGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGCGCCCAATA
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
1091888 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
* ** **
1091947 CGGAAATTCATACACTTAATATGAATTTCTTAACATTTTTTCACACCGAGTGCCCAATA
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
* *
1092006 CGGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCTAATA
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
** * * *
1092065 CAAAAATTCATACACTTAATATGAATTTCTTAACATTTTAGCACACATAGTACCCAAAA
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
*
1092124 CGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
* * *
1092183 CAGAAATTCATATACTTAGTATGAATTTCTTAACATTTTAGCACACTTAGTGCC
1 CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCC
1092237 ATTTGGTAAT
Statistics
Matches: 489, Mismatches: 37, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 489 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (59 bp):
CGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA
Found at i:1093668 original size:20 final size:21
Alignment explanation
Indices: 1093643--1093714 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 21
1093633 AAAATGCTAA
1093643 AGTGTA-CCGATACACTCTGC
1 AGTGTATCCGATACACTCTGC
1093663 AGTGTATCCG-TACA--CTG-
1 AGTGTATCCGATACACTCTGC
*
1093680 -GTGTA-CCGATACACCCTGC
1 AGTGTATCCGATACACTCTGC
1093699 AGTGTATCC-ATACACT
1 AGTGTATCCGATACACT
1093715 GTGTATTGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
18 6 0.14
20 21 0.48
21 5 0.11
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (21 bp):
AGTGTATCCGATACACTCTGC
Found at i:1093691 original size:36 final size:35
Alignment explanation
Indices: 1093644--1093748 Score: 140
Period size: 36 Copynumber: 3.0 Consensus size: 35
1093634 AAATGCTAAA
*
1093644 GTGTACCGATACACTCTGCAGTGTATCCGTACACT
1 GTGTACCGATACACTCTGCAGTGTATCCATACACT
*
1093679 GGTGTACCGATACACCCTGCAGTGTATCCATACACT
1 -GTGTACCGATACACTCTGCAGTGTATCCATACACT
** * *
1093715 GTGTATTGATACATTTTG-AGTGTATCCATACACT
1 GTGTACCGATACACTCTGCAGTGTATCCATACACT
1093749 CTGGCTGCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
34 16 0.26
35 13 0.21
36 33 0.53
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (35 bp):
GTGTACCGATACACTCTGCAGTGTATCCATACACT
Found at i:1094133 original size:33 final size:33
Alignment explanation
Indices: 1094096--1094165 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
1094086 CATTATAAAG
*
1094096 GGGAAA-GTTCTAGCTAAGCCCGTGTAAAATCTA
1 GGGAAATGTTCTAGCTAAGCCCGTG-AAAAACTA
* * *
1094129 GGGAAATGTTCTAGTTTATCCCGTGAAAAACTA
1 GGGAAATGTTCTAGCTAAGCCCGTGAAAAACTA
1094162 GGGA
1 GGGA
1094166 GTTGTAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 17 0.53
34 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (33 bp):
GGGAAATGTTCTAGCTAAGCCCGTGAAAAACTA
Found at i:1096871 original size:21 final size:18
Alignment explanation
Indices: 1096828--1096882 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
1096818 TATTTTCCAT
1096828 CAATTGGTATCTTTTTAA
1 CAATTGGTATCTTTTTAA
1096846 CAATTGGTATCATTTTGTTAA
1 CAATTGGTATC--TTT-TTAA
* *
1096867 TAATTGGTGTCTTTTT
1 CAATTGGTATCTTTTT
1096883 CATTAAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
20 3 0.09
21 13 0.41
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (18 bp):
CAATTGGTATCTTTTTAA
Found at i:1097161 original size:20 final size:20
Alignment explanation
Indices: 1097109--1097164 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
1097099 CCGATAAACT
1097109 CTGCAGTGTATCCATACA--
1 CTGCAGTGTATCCATACACC
1097127 CTG--GTGTA-CCGATACACC
1 CTGCAGTGTATCC-ATACACC
1097145 CTGCAGTGTATCCATACACC
1 CTGCAGTGTATCCATACACC
1097165 TATGACTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.06
16 10 0.31
18 6 0.19
20 12 0.38
21 2 0.06
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (20 bp):
CTGCAGTGTATCCATACACC
Found at i:1097232 original size:15 final size:15
Alignment explanation
Indices: 1097212--1097257 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
1097202 ATACACCCTG
1097212 CAGTGTATCAATACA
1 CAGTGTATCAATACA
*
1097227 CAGTGTATCCATACA
1 CAGTGTATCAATACA
* *
1097242 CTGTGTATCGATACA
1 CAGTGTATCAATACA
1097257 C
1 C
1097258 TATGTAGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (15 bp):
CAGTGTATCAATACA
Found at i:1097258 original size:15 final size:15
Alignment explanation
Indices: 1097214--1097263 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1097204 ACACCCTGCA
*
1097214 GTGTATCAATACACA
1 GTGTATCAATACACT
*
1097229 GTGTATCCATACACT
1 GTGTATCAATACACT
*
1097244 GTGTATCGATACACT
1 GTGTATCAATACACT
*
1097259 ATGTA
1 GTGTA
1097264 GTGTATCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (15 bp):
GTGTATCAATACACT
Found at i:1101063 original size:17 final size:17
Alignment explanation
Indices: 1101037--1101070 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1101027 ATACGATTTA
* *
1101037 TAATTTTGTATGTGATG
1 TAATTATGTATGAGATG
1101054 TAATTATGTATGAGATG
1 TAATTATGTATGAGATG
1101071 AGAAAAGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (17 bp):
TAATTATGTATGAGATG
Found at i:1103817 original size:200 final size:198
Alignment explanation
Indices: 1103417--1104120 Score: 731
Period size: 200 Copynumber: 3.5 Consensus size: 198
1103407 ATCTAAATAT
* * * *
1103417 GTGTCGATACATTT-TCTACAAGTATAGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* * * * * * *
1103480 TAGGTAAATTAACAATGTAACCAATATAAATATAC-CGGTTAATTAGAAAACAGGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGATATAAATATACTC-TTTTATGAGAAAATAGGTCATCATAAT
** * * * * *
1103544 GTATCGACACTTGTGGAATTTTTGTCGATACTTATTGCCCAGGATGAATGCCCAAACGAGGTG-A
128 GTATCGACACTTGTTAAATTTGTGTCGATACTT-TTGTCCAGAATGAATGCCAAAAAG-GGTGCA
1103608 ACGCATAAA
191 AC-CATAAA
1103617 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
1103682 GGTAAATTTACAATGTAACCGATATAAATATACTACTTTTATGATAAAATAGGTCATCATAAAGT
66 GGTAAATTTACAATGTAACCGATATAAATATACT-CTTTTATGAGAAAATAGGTCATCATAATGT
1103747 ATCGACACTTGTTAAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
130 ATCGACACTTGTTAAATTTGTGTCGATACTTTT-GTCCAGAATGAATGCCAAAAAGGGTGCAACC
1103812 ATAAA
194 ATAAA
* ** * *
1103817 GTGTCGATACATTTATAAAAAGTATCGATCCCGGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
1103882 GGTAAATTTTCAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATACGTC-TAAATCATG
66 GGTAAATTTACAATGTAACCGATATAAATATACT-CTTTTATGAGAAAATAGGTCAT-CATAATG
* * * * * * **
1103946 TATCGACACTTTTTTAGTTTGCGTCGATACTTTTTTCATAATGAAATATGAATGGCCAACGA-GG
129 TATCGACACTTGTTAAATTTGTGTCGATACTTTTGTC--CA-G--A-ATGAAT-GCCAAAAAGGG
*
1104010 TGCAAGCATAAA
187 TGCAACCATAAA
* * ** * *
1104022 GTGTCGATACCTTTA--AAATTGTATCGATCTAAAAAAACATCGAAATCGATAATAATAATGTAA
1 GTGTCGATACATTTATTAAA-AGTATCGATC-CCAAAAACATCGAAACCGATAATTATAATGTAA
* * * *
1104085 TAGGTAAATTTGCAATATTACCGGTATAAATATACT
64 TAGGTAAATTTACAATGTAACCGATATAAATATACT
1104121 GGTTTACTTC
Statistics
Matches: 432, Mismatches: 56, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
199 3 0.01
200 241 0.56
201 76 0.18
202 2 0.00
203 3 0.01
204 10 0.02
205 91 0.21
206 6 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (198 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACTCTTTTATGAGAAAATAGGTCATCATAATGTA
TCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAAAAGGGTGCAACCAT
AAA
Found at i:1104232 original size:65 final size:64
Alignment explanation
Indices: 1104163--1104283 Score: 206
Period size: 65 Copynumber: 1.9 Consensus size: 64
1104153 TACCTATTAC
* *
1104163 ATTATTTAAGAGCTACCTAATATGTTATTGTACTTGATAATATTTTCCGGTTAAATGCCTATTTT
1 ATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATA-TTTCCAGTTAAATGCCTATTTT
*
1104228 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTTAAATG
1 ATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTTAAATG
1104284 ATATAACATT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
64 13 0.25
65 40 0.75
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (64 bp):
ATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTTAAATGCCTATTTT
Found at i:1107171 original size:39 final size:39
Alignment explanation
Indices: 1107117--1107192 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
1107107 TTCGTGTCCT
*
1107117 GTTTTCTATGGATGCTA-TTTCTTGTATTTATTACGACCA
1 GTTTTCTATGAATGCTACTTT-TTGTATTTATTACGACCA
*
1107156 GTTTTCTATTAATGCTACTTTTTGTATTTATTACGAC
1 GTTTTCTATGAATGCTACTTTTTGTATTTATTACGAC
1107193 ATGATAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 31 0.91
40 3 0.09
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.51
Consensus pattern (39 bp):
GTTTTCTATGAATGCTACTTTTTGTATTTATTACGACCA
Found at i:1115856 original size:12 final size:12
Alignment explanation
Indices: 1115839--1115873 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
1115829 AGGTAAAGAT
1115839 AATAATCAAAAC
1 AATAATCAAAAC
1115851 AATAATCAAAAC
1 AATAATCAAAAC
*
1115863 AATAATGAAAA
1 AATAATCAAAA
1115874 TAAACGTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.69, C:0.11, G:0.03, T:0.17
Consensus pattern (12 bp):
AATAATCAAAAC
Found at i:1117127 original size:33 final size:32
Alignment explanation
Indices: 1117090--1117167 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
1117080 GAAAAGAAGT
1117090 AAAATAAAA-AAACACAAAAGTAGCTAAA-AAATA
1 AAAATAAAATAAA-ACAAAAGTAG--AAACAAATA
**
1117123 AAAATAAAATAAAGTAAAAGTAGAAATCAAATA
1 AAAATAAAATAAAACAAAAGTAGAAA-CAAATA
1117156 AAAATAAAATAA
1 AAAATAAAATAA
1117168 TAAAAGAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
31 3 0.08
33 34 0.85
34 3 0.08
ACGTcount: A:0.73, C:0.05, G:0.06, T:0.15
Consensus pattern (32 bp):
AAAATAAAATAAAACAAAAGTAGAAACAAATA
Found at i:1117131 original size:5 final size:5
Alignment explanation
Indices: 1117117--1117188 Score: 54
Period size: 5 Copynumber: 13.2 Consensus size: 5
1117107 AAGTAGCTAA
* *
1117117 AAAAT AAAAAT AAAAT AAAGT AAAAGT AGAAAT CAAAT AAAAAT AAAAT
1 AAAAT -AAAAT AAAAT AAAAT AAAA-T A-AAAT AAAAT -AAAAT AAAAT
* *
1117166 AATAAA AGAAAT AAAGT AAAAT A
1 AA-AAT A-AAAT AAAAT AAAAT A
1117189 GGATAAGACA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
5 31 0.58
6 18 0.34
7 4 0.08
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1117141 original size:22 final size:22
Alignment explanation
Indices: 1117116--1117186 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
1117106 AAAGTAGCTA
1117116 AAAAATAAAAATAAAATAAAGT
1 AAAAATAAAAATAAAATAAAGT
* * * *
1117138 AAAAGTAGAAATCAAATAAA-A
1 AAAAATAAAAATAAAATAAAGT
1117159 ATAAAATAATAAA-AGAAATAAAGT
1 A-AAAATAA-AAATA-AAATAAAGT
1117183 AAAA
1 AAAA
1117187 TAGGATAAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
21 1 0.03
22 22 0.59
23 13 0.35
24 1 0.03
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAATAAAAATAAAATAAAGT
Found at i:1117175 original size:28 final size:31
Alignment explanation
Indices: 1117118--1117186 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 31
1117108 AGTAGCTAAA
1117118 AAATAAAAATAAAATAAAGTAAAAGTAGAAAT
1 AAATAAAAATAAAATAAAGTAAAAG-AGAAAT
1117150 CAAATAAAAATAAAAT-AA-T-AAA-AGAAAT
1 -AAATAAAAATAAAATAAAGTAAAAGAGAAAT
1117178 AAAGTAAAA
1 AAA-TAAAA
1117187 TAGGATAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
27 3 0.09
28 11 0.31
30 3 0.09
31 1 0.03
32 2 0.06
33 15 0.43
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.17
Consensus pattern (31 bp):
AAATAAAAATAAAATAAAGTAAAAGAGAAAT
Found at i:1117376 original size:22 final size:21
Alignment explanation
Indices: 1117347--1117393 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
1117337 AAGAGAAAAG
1117347 AAAAATATA-ATA-ATAATAATA
1 AAAAATATACATATA-AAT-ATA
1117368 AAAACATATACATATAAATATA
1 AAAA-ATATACATATAAATATA
1117390 AAAA
1 AAAA
1117394 TAAAATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.17
22 12 0.52
23 6 0.26
24 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATATACATATAAATATA
Found at i:1117540 original size:32 final size:34
Alignment explanation
Indices: 1117501--1117587 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
1117491 AACGTATGGC
*
1117501 AAAATAAAATAAAATAAAAAA-GAGCAAAAC-AA
1 AAAATAAAATAAAATAAAAAATAAGCAAAACTAA
*
1117533 AAAATAAAA-AAATATATAAAAATAAGTAAAACTAA
1 AAAATAAAATAAA-ATA-AAAAATAAGCAAAACTAA
1117568 AAAA-AAAATAATAATAAAAA
1 AAAATAAAATAA-AATAAAAA
1117588 GAAACCAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
31 3 0.06
32 12 0.26
33 5 0.11
34 15 0.32
35 11 0.23
36 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.15
Consensus pattern (34 bp):
AAAATAAAATAAAATAAAAAATAAGCAAAACTAA
Found at i:1117578 original size:27 final size:28
Alignment explanation
Indices: 1117532--1117584 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1117522 GAGCAAAACA
*
1117532 AAAAATAAAAAAATATATAAAAATAAGT
1 AAAAATAAAAAAATAAATAAAAATAAGT
* *
1117560 AAAACTAAAAAAA-AAATAATAATAA
1 AAAAATAAAAAAATAAATAAAAATAA
1117585 AAAGAAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAAATAAAAAAATAAATAAAAATAAGT
Found at i:1117598 original size:54 final size:54
Alignment explanation
Indices: 1117539--1117658 Score: 120
Period size: 54 Copynumber: 2.2 Consensus size: 54
1117529 ACAAAAAATA
* **
1117539 AAAAAATATATAA-AAATAAGTAAAACTAA-AAAAAAAATAATAATAAAAAGAAAC
1 AAAAAATATATAAGAAAT-ACTAAAAAGAATAAAAAAAATAATAA-AAAAAGAAAC
* * * * *
1117593 CAAAAAGA-AAAAGAAATACTAAAAAGAATAAAAATAATAATAAAAAAAGAAAG
1 AAAAAATATATAAGAAATACTAAAAAGAATAAAAAAAATAATAAAAAAAGAAAC
1117646 AAAGAAATATATA
1 AAA-AAATATATA
1117659 TATATATAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
53 22 0.43
54 27 0.53
55 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (54 bp):
AAAAAATATATAAGAAATACTAAAAAGAATAAAAAAAATAATAAAAAAAGAAAC
Found at i:1117616 original size:30 final size:28
Alignment explanation
Indices: 1117500--1117620 Score: 82
Period size: 30 Copynumber: 3.9 Consensus size: 28
1117490 AAACGTATGG
* *
1117500 CAAAATAAAATAAAATAA-AAAAGAGCAAAA
1 CAAAA-AAAAAAAAATAATAAAA-AG-AAAC
1117530 CAAAAAATAAAAAAATATATAAAAATAAGTAAAAC
1 CAAAAAA-AAAAAAATA-AT--AAA-AAG--AAAC
* *
1117565 TAAAAAAAAAATAATAATAAAAAGAAAC
1 CAAAAAAAAAAAAATAATAAAAAGAAAC
*
1117593 CAAAAAGAAAAAGAAATACTAAAAAGAA
1 CAAAAA-AAAAA-AAATAATAAAAAGAA
1117621 TAAAAATAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
28 9 0.12
29 7 0.09
30 29 0.39
31 4 0.05
33 2 0.03
34 13 0.18
35 10 0.14
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (28 bp):
CAAAAAAAAAAAAATAATAAAAAGAAAC
Found at i:1117634 original size:12 final size:12
Alignment explanation
Indices: 1117619--1117714 Score: 74
Period size: 12 Copynumber: 8.1 Consensus size: 12
1117609 TACTAAAAAG
1117619 AATAAAAATAAT
1 AATAAAAATAAT
*
1117631 AATAAAAA-AAG
1 AATAAAAATAAT
1117642 AA-AGAAAGA-AAT
1 AATA-AAA-ATAAT
* *
1117654 -ATATATATATAT
1 AATAAAAATA-AT
*
1117666 AATAATAATAAT
1 AATAAAAATAAT
*
1117678 AATAATAATAAT
1 AATAAAAATAAT
*
1117690 AATAATAATAAT
1 AATAAAAATAAT
*
1117702 AATAATAATAAT
1 AATAAAAATAAT
1117714 A
1 A
1117715 GAAGGGCTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
10 2 0.03
11 10 0.14
12 53 0.75
13 6 0.08
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:1117672 original size:3 final size:3
Alignment explanation
Indices: 1117664--1117714 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
1117654 ATATATATAT
1117664 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1117712 ATA
1 ATA
1117715 GAAGGGCTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1118574 original size:25 final size:25
Alignment explanation
Indices: 1118545--1118593 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1118535 CCTAACCGAT
1118545 TCGGGTTGCTCCAGTGGAACGGGTC
1 TCGGGTTGCTCCAGTGGAACGGGTC
*
1118570 TCGGGTTGCTCCAGTGGACCGGGT
1 TCGGGTTGCTCCAGTGGAACGGGT
1118594 TCCAGATGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.10, C:0.24, G:0.41, T:0.24
Consensus pattern (25 bp):
TCGGGTTGCTCCAGTGGAACGGGTC
Found at i:1131303 original size:13 final size:13
Alignment explanation
Indices: 1131279--1131318 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1131269 CTATACATAT
1131279 AATAGTTTTTCAAA
1 AATAG-TTTTCAAA
* *
1131293 CATTGTTTTCAAA
1 AATAGTTTTCAAA
1131306 AATAGTTTTCAAA
1 AATAGTTTTCAAA
1131319 TTTTGCCCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (13 bp):
AATAGTTTTCAAA
Found at i:1136650 original size:30 final size:31
Alignment explanation
Indices: 1136614--1136679 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
1136604 CAAGATACAT
1136614 AACTTTTTG-AAATTACACTT-TT-GATCCCTA
1 AACTTTTTGAAAATTAC-CTTATTAG-TCCCTA
1136644 AAC-TTTTGAAAAATTACCTTATTAGTCCCTA
1 AACTTTTTG-AAAATTACCTTATTAGTCCCTA
1136675 AACTT
1 AACTT
1136680 GTACAACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
29 5 0.16
30 6 0.19
31 18 0.58
32 2 0.06
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (31 bp):
AACTTTTTGAAAATTACCTTATTAGTCCCTA
Found at i:1139031 original size:65 final size:64
Alignment explanation
Indices: 1138861--1139039 Score: 179
Period size: 64 Copynumber: 2.8 Consensus size: 64
1138851 TTAGACCCTT
* * *
1138861 AGTGCATCGGTGCACTAA-GAGTGCAACGATGCATAAAATACATTCGATG-TTTCAAAATAGCCT
1 AGTGCATCGATGCA-TAATG-GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCT
1138924 G
64 G
** *
1138925 AGTGCATCGATGCATGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCT
1 AGTGCATCGATGCATAATGGTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CT
1138988 G
64 G
* * * *
1138989 AGTGCAAT-GATGCATAATATGTGCATCGGTGCATGAAATGCATTCAATGTT
1 AGTGC-ATCGATGCATAAT-GGTGCATCGATGCATAAAATGCATTCGATGTT
1139040 CAATTTATTC
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
63 28 0.29
64 36 0.37
65 33 0.34
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (64 bp):
AGTGCATCGATGCATAATGGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTG
Found at i:1142488 original size:14 final size:14
Alignment explanation
Indices: 1142469--1142496 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1142459 CAACACAATT
1142469 TTGTTTCTTTGAAA
1 TTGTTTCTTTGAAA
1142483 TTGTTTCTTTGAAA
1 TTGTTTCTTTGAAA
1142497 ACCAAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (14 bp):
TTGTTTCTTTGAAA
Found at i:1145876 original size:15 final size:15
Alignment explanation
Indices: 1145858--1145888 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1145848 TTCATCGGAA
*
1145858 CCTTCTTTATCGCTC
1 CCTTCTTCATCGCTC
1145873 CCTTCTTCATCGCTC
1 CCTTCTTCATCGCTC
1145888 C
1 C
1145889 ATGTAGCCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.45, G:0.06, T:0.42
Consensus pattern (15 bp):
CCTTCTTCATCGCTC
Found at i:1147710 original size:64 final size:64
Alignment explanation
Indices: 1147642--1147821 Score: 183
Period size: 64 Copynumber: 2.8 Consensus size: 64
1147632 TTGGACCCTT
1147642 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTT-A-AAATAGC-C
1 AGTGCATCGGTGCACT-AGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAA-A-CTC
1147704 TG
63 TG
* * * *
1147706 AGTGCATCGATGCATGGCT-G-GTACATCGATGCATAAAATGAAATCGATGTTTTCATAAAACTC
1 AGTGCATCGGTGCA---CTAGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACTC
1147769 TG
63 TG
* * *
1147771 AATGCATCGGTGCA-TAGTATGTGCATCGGTGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCACTAG-A-GTGCATCGATGCATAAAATGCATTCGATGTT
1147822 CGATTTATTC
Statistics
Matches: 95, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
64 44 0.46
65 44 0.46
66 3 0.03
67 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (64 bp):
AGTGCATCGGTGCACTAGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACTCTG
Found at i:1147810 original size:65 final size:63
Alignment explanation
Indices: 1147644--1147821 Score: 191
Period size: 65 Copynumber: 2.8 Consensus size: 63
1147634 GGACCCTTAG
*
1147644 TGCATCGGTGCACTAAG-AGTGCATCGATGCATAAAATGCATTCGATGTTTTAAAATAGCCTGAG
1 TGCATCGGTGCA-T-AGTAGTGCATCGATGCATAAAATGCATTCGATGTTTTAAAATAGCCTGAA
* * * * * *
1147708 TGCATCGATGCATGGCTGGTACATCGATGCATAAAATGAAATCGATGTTTTCATAAA-A-CTCTG
1 TGCATCGGTGCATAG-TAGTGCATCGATGCATAAAATGCATTCGATGTTTT-A-AAATAGC-CTG
1147771 AA
62 AA
* *
1147773 TGCATCGGTGCATAGTATGTGCATCGGTGCATGAAATGCATTCGATGTT
1 TGCATCGGTGCATAGTA-GTGCATCGATGCATAAAATGCATTCGATGTT
1147822 CGATTTATTC
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 43 0.46
65 45 0.48
66 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (63 bp):
TGCATCGGTGCATAGTAGTGCATCGATGCATAAAATGCATTCGATGTTTTAAAATAGCCTGAA
Found at i:1151601 original size:31 final size:30
Alignment explanation
Indices: 1151556--1151624 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
1151546 CAAAATACAT
*
1151556 AACTTTTTAAAATTACACTTTTGA-TCCCTA
1 AACTTTTAAAAATTAC-CTTTTGATTCCCTA
* *
1151586 AACTTTTGAAAAATTACCTTTTTATTTCCTA
1 AACTTTT-AAAAATTACCTTTTGATTCCCTA
1151617 AACTTTTA
1 AACTTTTA
1151625 CAAACTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.46
Consensus pattern (30 bp):
AACTTTTAAAAATTACCTTTTGATTCCCTA
Found at i:1154579 original size:14 final size:14
Alignment explanation
Indices: 1154560--1154587 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1154550 CGCCTAATAG
1154560 GAGCTAGCAAGCTA
1 GAGCTAGCAAGCTA
1154574 GAGCTAGCAAGCTA
1 GAGCTAGCAAGCTA
1154588 AAGCGGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.29, T:0.14
Consensus pattern (14 bp):
GAGCTAGCAAGCTA
Found at i:1165842 original size:32 final size:32
Alignment explanation
Indices: 1165798--1165883 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 32
1165788 ATAATTATAA
* *
1165798 CTACTATGCATTATCTGAATACGATAATGATT
1 CTACTATGCATTATCTGAATACAATAATGACT
* * * * *
1165830 CTGCTATACATTATCTAAATGCAATATTGACT
1 CTACTATGCATTATCTGAATACAATAATGACT
1165862 CTACTATGCATTATCTGAATAC
1 CTACTATGCATTATCTGAATAC
1165884 CATACTAACT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (32 bp):
CTACTATGCATTATCTGAATACAATAATGACT
Found at i:1166982 original size:20 final size:20
Alignment explanation
Indices: 1166959--1166996 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1166949 TCTAGTGTGG
* *
1166959 AGACTAGTCCTTTAGTATAA
1 AGACCAGTCCTTCAGTATAA
1166979 AGACCAGTCCTTCAGTAT
1 AGACCAGTCCTTCAGTAT
1166997 GAGACTAGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (20 bp):
AGACCAGTCCTTCAGTATAA
Found at i:1172645 original size:20 final size:19
Alignment explanation
Indices: 1172596--1172645 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
1172586 TGATATCATA
1172596 CCTTTGGTATGGAGACCAT
1 CCTTTGGTATGGAGACCAT
* * *
1172615 TCTTCTAGTATGGAGACTAGT
1 CCTT-TGGTATGGAGACCA-T
1172636 CCTTTGGTAT
1 CCTTTGGTAT
1172646 ACAGACCAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 3 0.12
20 17 0.71
21 4 0.17
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (19 bp):
CCTTTGGTATGGAGACCAT
Found at i:1173066 original size:17 final size:18
Alignment explanation
Indices: 1173029--1173066 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1173019 GCTCAACTAC
1173029 TCAAATCTTAACAATTCA
1 TCAAATCTTAACAATTCA
*
1173047 TCAAATCTTAGCAA-TCA
1 TCAAATCTTAACAATTCA
1173064 TCA
1 TCA
1173067 TATTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.32
Consensus pattern (18 bp):
TCAAATCTTAACAATTCA
Found at i:1173777 original size:22 final size:20
Alignment explanation
Indices: 1173727--1173781 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 20
1173717 GAAAGAAGGG
1173727 TAGTATCGATACTCCTAGAC
1 TAGTATCGATACTCCTAGAC
1173747 TAGTATCGATACTCCT-GAGC
1 TAGTATCGATACTCCTAGA-C
1173767 TAGGGTATCGATACT
1 TA--GTATCGATACT
1173782 ATCTGGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.06
20 19 0.59
22 11 0.34
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (20 bp):
TAGTATCGATACTCCTAGAC
Found at i:1179726 original size:43 final size:42
Alignment explanation
Indices: 1179642--1179724 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
1179632 ATATACATCC
* * * **
1179642 TAACCTCATGCTTTCTAGTTCCATGCTTTGTTTGGAAAAATA
1 TAACCGCATGATTTCTAGTTCCATGCTTTATTCAGAAAAATA
1179684 TAACCGCATGATTTCTAGTTCACATGCATTTATTCAGAAAA
1 TAACCGCATGATTTCTAGTTC-CATGC-TTTATTCAGAAAA
1179725 TAAAGTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 19 0.56
43 5 0.15
44 10 0.29
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (42 bp):
TAACCGCATGATTTCTAGTTCCATGCTTTATTCAGAAAAATA
Found at i:1182043 original size:3 final size:3
Alignment explanation
Indices: 1182030--1182067 Score: 58
Period size: 3 Copynumber: 12.0 Consensus size: 3
1182020 TATTGATTTG
1182030 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
1182068 AAAAATGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1182249 original size:29 final size:29
Alignment explanation
Indices: 1182206--1182403 Score: 254
Period size: 29 Copynumber: 6.8 Consensus size: 29
1182196 GGTGTCTACA
*
1182206 TTGTACTTTATTGTAATTTATAAATAGTT
1 TTGTACTTTATTGTAATTTATAAATAATT
*
1182235 ATGTACTTTATTGTAATTTATAAATAATT
1 TTGTACTTTATTGTAATTTATAAATAATT
* * *
1182264 TTATACTTTATTGTAATTTGTAATTAATT
1 TTGTACTTTATTGTAATTTATAAATAATT
* * *
1182293 TTGTACTTT-TTATAATTGATAAAGAAATT
1 TTGTACTTTATTGTAATTTATAAA-TAATT
*
1182322 TTGTACTTTATTGTAATTTATAAATAAAT
1 TTGTACTTTATTGTAATTTATAAATAATT
* *
1182351 TTGCACTTTATTGTAATTTATAAATAGTT
1 TTGTACTTTATTGTAATTTATAAATAATT
* * *
1182380 TGGTACTTAATTATAATTTATAAA
1 TTGTACTTTATTGTAATTTATAAA
1182404 ATATTTTTTC
Statistics
Matches: 144, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
28 10 0.07
29 122 0.85
30 12 0.08
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (29 bp):
TTGTACTTTATTGTAATTTATAAATAATT
Done.