Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009572.1 Hibiscus syriacus cultivar Beakdansim tig00116937_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: 2529503
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:765521 original size:3 final size:3
Alignment explanation
Indices: 765513--765547 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
765503 CTATTTAATT
765513 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
765548 ATACAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:767080 original size:2 final size:2
Alignment explanation
Indices: 767073--767126 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
767063 GTAAATATTG
767073 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
767115 AT AT AT AT AT AT
1 AT AT AT AT AT AT
767127 TGTTGTATAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:769013 original size:40 final size:40
Alignment explanation
Indices: 768962--769049 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
768952 CGTTTTTTGA
768962 ACAAACGCCGCAAAAAACCTAACTTTAGAGGCGTTTGTAT
1 ACAAACGCCGCAAAAAACCTAACTTTAGAGGCGTTTGTAT
* * * *
769002 ACAAACGCCGCAAAAGATCTTACTTTAGTGGCGTTTGTAT
1 ACAAACGCCGCAAAAAACCTAACTTTAGAGGCGTTTGTAT
*
769042 AAAAACGC
1 ACAAACGC
769050 TGCTAAAGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (40 bp):
ACAAACGCCGCAAAAAACCTAACTTTAGAGGCGTTTGTAT
Found at i:769151 original size:41 final size:41
Alignment explanation
Indices: 768944--769410 Score: 389
Period size: 41 Copynumber: 11.3 Consensus size: 41
768934 TAGCGGCATT
* * *
768944 TTTAGCGGCGTTTTT-TGAACAAACGCCGCAAAAAAC-C-TAAC
1 TTTAGTGGCGTTTTTAT--ACAAACGCCGCTAAAGACTCGT-AC
* * * *
768985 TTTAGAGGCGTTTGTATACAAACGCCGCAAAAGA-TCTTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * * * *
769025 TTTAGTGGCGTTTGTATAAAAACGCTGCTAAAGATTAGTA-
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * * *
769065 TTGTAGTGGCGTTTTTACACAAACGCCGGC-ATAGAATCGTTC
1 TT-TAGTGGCGTTTTTATACAAACGCC-GCTAAAGACTCGTAC
*
769107 TTTAGGGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * * *
769148 TTTAGTGGCATTTTTATA-AAAGCGCAGCTATA-ACTCATAC
1 TTTAGTGGCGTTTTTATACAAA-CGCCGCTAAAGACTCGTAC
* * * * *
769188 TTTA-TTGCTGTTTTTATAAAAACGCTGCTATA-ACTCATAC
1 TTTAGTGGC-GTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * * *
769228 TTTAGTGGCATTTTTGTTTAAAAACGCCGCTATAGACTCGTAC
1 TTTAGTGGC-GTTTT-TATACAAACGCCGCTAAAGACTCGTAC
* * * *
769271 TTTAGTGGCGTTTTTGTTTACAAACGTCGCTATAGACTTGTAC
1 TTTAGTGGCG-TTTT-TATACAAACGCCGCTAAAGACTCGTAC
* *
769314 TTTAGTGGCGTTTTTATAAAAAAACGCCGCAAAAGACTCGTAC
1 TTTAGTGGCGTTTTTAT--ACAAACGCCGCTAAAGACTCGTAC
**
769357 GCTAGTGGCGTTTTTATACAAACGCCG-TAAAAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCT-AAAGACTCGTAC
769398 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
769411 GTACCACAAA
Statistics
Matches: 356, Mismatches: 52, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.01
40 96 0.27
41 143 0.40
42 25 0.07
43 89 0.25
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
Found at i:772050 original size:43 final size:42
Alignment explanation
Indices: 771987--772339 Score: 368
Period size: 43 Copynumber: 8.2 Consensus size: 42
771977 ATGGTAATTA
*
771987 GCGGCGTTTGTATCCAAAAACGCCGCTATATATCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* * *
772030 GTGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACATTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* *
772073 GCGGCGTTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
** * * * *
772116 ATGGCGTTTGTTCTAAAAACGCCAG-TATAGGTCTTATCTTTT
1 GCGGCGTTTGTTCCAAAAACGCC-GCTATAGATCTGACCTTTT
*
772158 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACATTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * * * *
772201 GCGGCGTTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCG-TTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTT
* *
772245 GCGGCGTTTATTCCAAAAACGCCGCTATAGATGTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
* * * *
772288 ACGGCGTTTGTTCAAAAAACGCCG-TAATAGATATTGACCTATT
1 GCGGCGTTTGTTCCAAAAACGCCGCT-ATAGAT-CTGACCTTTT
*
772331 GCGGTGTTT
1 GCGGCGTTT
772340 TTTGTTCTCA
Statistics
Matches: 261, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
42 38 0.15
43 205 0.79
44 18 0.07
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:772230 original size:128 final size:129
Alignment explanation
Indices: 771989--772319 Score: 384
Period size: 128 Copynumber: 2.6 Consensus size: 129
771979 GGTAATTAGC
* * *
771989 GGCGTTTGTATCCAAAAACGCCGCTATATATCTGACCTTTTGTGGCGTTTGTGTCCAAAAACGCC
1 GGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCC
*
772054 GCTATAGGTCTGACATTTTGCGGCGTTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTTAT
66 GCTATAGATCTGACATTTTGCGGCGTTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTTAT
* * * *
772118 GGCGTTTGT-TCTAAAAACGCCAG-TATAGGTCTTATCTTTTGCGGCGTTTGTATCCAAAAACGC
1 GGCGTTTGTATCCAAAAACGCC-GCTATAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGC
* * * * * ** * * *
772181 CGCTATAGATCTGACATTTTGCGGCGTTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTTG
65 CGCTATAGATCTGACATTTTGCGGCGTTTGTGTCCAAAAACGCCACTATAGGTC-TGACCTTTTA
*
772246 C
129 T
* * * *
772247 GGCGTTTAT-TCCAAAAACGCCGCTATAGATGTCGACCTTTTACGGCGTTTGT-TCAAAAAACGC
1 GGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTATCCAAAAACGC
772310 CG-TAATAGAT
65 CGCT-ATAGAT
772320 ATTGACCTAT
Statistics
Matches: 170, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
128 93 0.55
129 61 0.36
130 16 0.09
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (129 bp):
GGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCC
GCTATAGATCTGACATTTTGCGGCGTTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTTAT
Found at i:779844 original size:26 final size:26
Alignment explanation
Indices: 779809--779862 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
779799 CAAACAATAG
779809 ATATAGCTCTCTGTGTTGTATGAACT
1 ATATAGCTCTCTGTGTTGTATGAACT
*
779835 ATATAGCTCTCTTTGTTGTATGAACT
1 ATATAGCTCTCTGTGTTGTATGAACT
779861 AT
1 AT
779863 CTCATGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (26 bp):
ATATAGCTCTCTGTGTTGTATGAACT
Found at i:781075 original size:3 final size:3
Alignment explanation
Indices: 781067--781097 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
781057 TATTAATTCT
781067 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
781098 CATTTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:782693 original size:24 final size:25
Alignment explanation
Indices: 782666--782717 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
782656 TAATTTGAAA
*
782666 TAAATAAGTTAA-AAAATATAA-TAT
1 TAAATAA-TTAATAAAAAATAATTAT
782690 TAAATAATTAATAAAAAATAATTAT
1 TAAATAATTAATAAAAAATAATTAT
782715 TAA
1 TAA
782718 CTGAAACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 4 0.16
24 15 0.60
25 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
TAAATAATTAATAAAAAATAATTAT
Found at i:786271 original size:42 final size:42
Alignment explanation
Indices: 786177--786271 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 42
786167 ACCGATGATG
* * * *
786177 ATGCCCAGCCCTCTAGTTTAGATGCCATCTCCTCAGGGGTAT
1 ATGCCAAGCCCACCAGTTTAGATGCCATCTCCTCAGGGGTAC
* *
786219 ATGCCAAGCCCACCAGTTTATATGCCATCT-CTGCAGGGTTAC
1 ATGCCAAGCCCACCAGTTTAGATGCCATCTCCT-CAGGGGTAC
* *
786261 ATTCCTAGCCC
1 ATGCCAAGCCC
786272 TCTGGGTTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCAAGCCCACCAGTTTAGATGCCATCTCCTCAGGGGTAC
Found at i:786301 original size:21 final size:21
Alignment explanation
Indices: 786255--786315 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
786245 ATCTCTGCAG
* **
786255 GGTTACATTCCTAGCCCTCTG
1 GGTTACATTCCTAGCCCGCCA
786276 GGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCTAGCCCGCCA
* *
786297 TGTTACATGCCTAGCCCGC
1 GGTTACATTCCTAGCCCGC
786316 AGGGTTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.16, C:0.36, G:0.20, T:0.28
Consensus pattern (21 bp):
GGTTACATTCCTAGCCCGCCA
Found at i:786870 original size:34 final size:34
Alignment explanation
Indices: 786827--786899 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
786817 TTAAATGTTT
*
786827 TTAATATACAAATTATAGTATTCAAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
* *
786861 TTAAAATACAAATTATGGTATTCAAAATTTAACA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
786895 TTAAA
1 TTAAA
786900 TTCAACTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCAAAATTTAAAA
Found at i:787026 original size:14 final size:14
Alignment explanation
Indices: 787007--787037 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
786997 TTTTATCCTT
787007 AACATATACATTAA
1 AACATATACATTAA
787021 AACATATACATTAA
1 AACATATACATTAA
787035 AAC
1 AAC
787038 CAACTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (14 bp):
AACATATACATTAA
Found at i:787863 original size:138 final size:138
Alignment explanation
Indices: 787360--788012 Score: 1044
Period size: 137 Copynumber: 4.7 Consensus size: 138
787350 CCATCCATCT
* *
787360 ATAGTTACCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
787425 GGAAGGCGCGCCCCCGGGAATGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
787490 TGACATGA
131 TGACATGA
** * *
787498 ATAGTTATCAG-GGGGCATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
787562 GGAAGGTGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
787627 TGATATG-
131 TGACATGA
*
787634 A-AGTTTCCCC-AGGGACATGAGTGACCATAATAGGGCAATAATAACATATTCTCTGACAAAATA
1 ATAG-TTCCCCGAGGGACATGAGTGA-CATAATAGGGCAATGATAACATATTCTCTGACAAAATA
*
787697 ATCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATATGT
64 ATCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGT
*
787762 ACTGATATGA
129 ACTGACATGA
*
787772 ATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAGCATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * *
787837 CGAAGGCGTGCCCCCGGGAACACGCTTTCACCACTTTTCTAAGTCCCCTCAGAAATAATAGGTAC
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
787902 TGACATGA
131 TGACATGA
* *
787910 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* **
787975 CGAAGGCGCTCCCCAAGGAACGCGCTTTCACCACTTTG
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTG
788013 GGTACTGACA
Statistics
Matches: 477, Mismatches: 32, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
135 2 0.00
136 16 0.03
137 228 0.48
138 215 0.45
139 16 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (138 bp):
ATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
TGACATGA
Found at i:788057 original size:117 final size:116
Alignment explanation
Indices: 787897--788115 Score: 359
Period size: 117 Copynumber: 1.9 Consensus size: 116
787887 AGAAATAATA
* * *
787897 GGTACTGACATGAATAGTTCCCCGGGGGACATGAGTGACATAATAGGACAATGATAACATATTCT
1 GGTACTGACATGAATAGTCCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTAT
787962 CTGACAAAATAATCGAAGGCGCT-CCCCAAGGAACGCGCTTTCACCACTTTG
66 CTGACAAAATAATCGAAGGCG-TGCCCCAAGGAACGCGCTTTCACCACTTTG
*
788013 GGTACTGACATGAATAGTACCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTA
1 GGTACTGACATGAATAGT-CCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTA
* *
788078 TCTGACAAAATAATGGAAGGCGTGCCCCCAGGAACGCG
65 TCTGACAAAATAATCGAAGGCGTGCCCCAAGGAACGCG
788116 TGCCCCCAGG
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
116 19 0.20
117 76 0.80
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (116 bp):
GGTACTGACATGAATAGTCCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTAT
CTGACAAAATAATCGAAGGCGTGCCCCAAGGAACGCGCTTTCACCACTTTG
Found at i:788116 original size:16 final size:16
Alignment explanation
Indices: 788092--788131 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
788082 ACAAAATAAT
*
788092 GGAAGGCGTGCCCCCA
1 GGAACGCGTGCCCCCA
788108 GGAACGCGTGCCCCCA
1 GGAACGCGTGCCCCCA
788124 GGAACGCG
1 GGAACGCG
788132 CCTTCACGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.38, G:0.38, T:0.05
Consensus pattern (16 bp):
GGAACGCGTGCCCCCA
Found at i:788144 original size:117 final size:117
Alignment explanation
Indices: 787898--788152 Score: 293
Period size: 117 Copynumber: 2.2 Consensus size: 117
787888 GAAATAATAG
* * * *
787898 GTACTGACATGAATAGT-TCCCCGGGGGACATGAGTGACATAATAGGACAATGATAACATATTCT
1 GTACTCACATGAATAGTACCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTAT
** *** *
787962 CTGACAAAATAATCGAAGGCGCTCCCCAAGGAACGCGCTTTCACCACTTTGG
66 CTGACAAAATAATCGAAGGCGCTCCCCAAGGAACGCGCTGCCACCACAACGC
* *
788014 GTACTGACATGAATAGTACCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTAT
1 GTACTCACATGAATAGTACCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTAT
* * * *
788079 CTGACAAAATAATGGAAGGCG-TGCCCCCAGGAACGCG-TGCCCCCAGGAACGC
66 CTGACAAAATAATCGAAGGCGCT-CCCCAAGGAACGCGCTGCCACCA-CAACGC
* *
788131 G-CCTTCACGTGAATAGTACCCC
1 GTAC-TCACATGAATAGTACCCC
788153 GGTTATAGAC
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
116 24 0.20
117 94 0.80
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.20
Consensus pattern (117 bp):
GTACTCACATGAATAGTACCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTAT
CTGACAAAATAATCGAAGGCGCTCCCCAAGGAACGCGCTGCCACCACAACGC
Found at i:791033 original size:22 final size:24
Alignment explanation
Indices: 791007--791055 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
790997 TTTATGATAT
*
791007 TTATTTATTAT-AATAATTAA-TA
1 TTATTTATTATAAAAAATTAATTA
*
791029 TTATTTGTTATAAAAAATTAATTA
1 TTATTTATTATAAAAAATTAATTA
791053 TTA
1 TTA
791056 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 8 0.35
24 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTATTTATTATAAAAAATTAATTA
Found at i:792247 original size:20 final size:21
Alignment explanation
Indices: 792211--792261 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
792201 AATACCTTAA
*
792211 TCTTTTTA-ATCATTATTATT
1 TCTTTTTAGTTCATTATTATT
*
792231 TCTTTTTAGTTCA-TATTGTT
1 TCTTTTTAGTTCATTATTATT
*
792251 TTTATTTTAGT
1 TCT-TTTTAGT
792262 ACTTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.20, C:0.08, G:0.06, T:0.67
Consensus pattern (21 bp):
TCTTTTTAGTTCATTATTATT
Found at i:792329 original size:20 final size:18
Alignment explanation
Indices: 792293--792355 Score: 83
Period size: 20 Copynumber: 3.4 Consensus size: 18
792283 TTGACCTTTG
*
792293 ATTTATTTAATATTTTTT
1 ATTTATTTATTATTTTTT
792311 ATTTATTTATTTCATTTTTT
1 ATTTATTTA-TT-ATTTTTT
*
792331 ATTTTTTTATT-TTTTTT
1 ATTTATTTATTATTTTTT
792348 ATTTATTT
1 ATTTATTT
792356 TAATTTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
17 13 0.32
18 9 0.22
19 3 0.08
20 15 0.38
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTTATTTATTATTTTTT
Found at i:792333 original size:12 final size:13
Alignment explanation
Indices: 792303--792404 Score: 52
Period size: 12 Copynumber: 7.6 Consensus size: 13
792293 ATTTATTTAA
792303 TATTT-TTT-ATT
1 TATTTATTTCATT
792314 TATTTATTTCATT
1 TATTTATTTCATT
*
792327 T-TTTATTT-TTT
1 TATTTATTTCATT
* *
792338 TATTTTTTTTATT
1 TATTTATTTCATT
*
792351 TATTTTAATTTTATTTT
1 TA-TTT-ATTTCA--TT
*
792368 TATGTTTTTTC-TT
1 TAT-TTATTTCATT
792381 TGATTTATTTAACATT
1 T-ATTTATTT--CATT
792397 TATTTATT
1 TATTTATT
792405 ATTTTTTGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
11 8 0.11
12 16 0.23
13 16 0.23
14 5 0.07
15 13 0.18
16 7 0.10
17 6 0.08
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (13 bp):
TATTTATTTCATT
Found at i:792337 original size:9 final size:9
Alignment explanation
Indices: 792325--792377 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
792315 ATTTATTTCA
792325 TTTTTTA-T
1 TTTTTTATT
792333 TTTTTTATT
1 TTTTTTATT
792342 TTTTTTATT
1 TTTTTTATT
*
792351 TATTTTAATTT
1 T-TTTTTA-TT
792362 TATTTTTATGT
1 T-TTTTTAT-T
792373 TTTTT
1 TTTTT
792378 CTTTGATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 7 0.18
9 11 0.28
10 10 0.26
11 11 0.28
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTATT
Found at i:792351 original size:24 final size:24
Alignment explanation
Indices: 792303--792368 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
792293 ATTTATTTAA
* *
792303 TATTTTTTATTTATTTATTTCATT
1 TATTTTTTTTTTATTTTTTTCATT
*
792327 T-TTTATTTTTTTATTTTTTTTATT
1 TATTT-TTTTTTTATTTTTTTCATT
**
792351 TATTTTAATTTTATTTTT
1 TATTTTTTTTTTATTTTT
792369 ATGTTTTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 3 0.09
24 29 0.83
25 3 0.09
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (24 bp):
TATTTTTTTTTTATTTTTTTCATT
Found at i:792356 original size:20 final size:19
Alignment explanation
Indices: 792303--792391 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 19
792293 ATTTATTTAA
*
792303 TATTTTTTATTTATTTATT
1 TATTTTTTATTTTTTTATT
792322 TCATTTTTTATTTTTTTA-T
1 T-ATTTTTTATTTTTTTATT
792341 T-TTTTTTATTTATTTTAATT
1 TATTTTTTATTT-TTTT-ATT
*
792361 T-TATTTTTATGTTTTTTCTT
1 TAT-TTTTTAT-TTTTTTATT
792381 TGATTTATTTA
1 T-ATTT-TTTA
792392 ACATTTATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 15
0.78 0.03 0.20
Matches are distributed among these distances:
17 10 0.17
18 4 0.07
19 4 0.07
20 21 0.36
21 13 0.22
22 7 0.12
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (19 bp):
TATTTTTTATTTTTTTATT
Found at i:792399 original size:35 final size:32
Alignment explanation
Indices: 792293--792411 Score: 98
Period size: 33 Copynumber: 3.5 Consensus size: 32
792283 TTGACCTTTG
* * * *
792293 ATTTATTTAATATTTTTTATTTATTTATTTCATT
1 ATTTATTT-TTATTTTTTTTTTATTTATTTTA-A
*
792327 TTTTATTTTT-TTATTTTTTTTATTTATTTTAA
1 ATTTATTTTTATT-TTTTTTTTATTTATTTTAA
*
792359 TTTTATTTTTATGTTTTTTCTTTGATTTA-TTTAA
1 ATTTATTTTTAT-TTTTTT-TTT-ATTTATTTTAA
792393 CATTTATTTATTATTTTTT
1 -ATTTATTT-TTATTTTTT
792412 GATTAACATT
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
32 12 0.17
33 23 0.32
34 16 0.22
35 17 0.24
36 4 0.06
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (32 bp):
ATTTATTTTTATTTTTTTTTTATTTATTTTAA
Found at i:792404 original size:4 final size:4
Alignment explanation
Indices: 792293--792355 Score: 60
Period size: 4 Copynumber: 16.0 Consensus size: 4
792283 TTGACCTTTG
* *
792293 ATTT ATTT A-AT ATTT -TTT ATTT ATTT ATTT CATTT -TTT ATTT TTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT
*
792339 ATTTT TTTT ATTT ATTT
1 A-TTT ATTT ATTT ATTT
792356 TAATTTTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
3 8 0.17
4 33 0.69
5 7 0.15
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.78
Consensus pattern (4 bp):
ATTT
Found at i:792408 original size:11 final size:11
Alignment explanation
Indices: 792293--792408 Score: 62
Period size: 11 Copynumber: 10.4 Consensus size: 11
792283 TTGACCTTTG
*
792293 ATTTATTTAAT
1 ATTTATTTATT
792304 ATTT-TTTATTT
1 ATTTATTTA-TT
792315 ATTTATTTCATT
1 ATTTATTT-ATT
* *
792327 TTTTATTTTTTT
1 ATTTA-TTTATT
792339 ATTT-TTT-TT
1 ATTTATTTATT
*
792348 ATTTATTT-TA
1 ATTTATTTATT
792358 ATTTTATTT-TT
1 A-TTTATTTATT
* *
792369 ATGTTTTTTCTTT
1 AT-TTATTT-ATT
**
792382 GATTTATTTAAC
1 -ATTTATTTATT
792394 ATTTATTTATT
1 ATTTATTTATT
792405 ATTT
1 ATTT
792409 TTTGATTAAC
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
9 6 0.07
10 13 0.16
11 36 0.44
12 14 0.17
13 11 0.13
14 2 0.02
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.74
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:794718 original size:31 final size:31
Alignment explanation
Indices: 794680--794744 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
794670 AGAGTCGAGG
*
794680 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTCTTT-GAGACATATGGACA
* *
794711 GTTTACCTAGGTTCTTTGGGACCTATGGACA
1 GTTTACCTAGGTTCTTTGAGACATATGGACA
794742 GTT
1 GTT
794745 ACCGAGGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTTGAGACATATGGACA
Found at i:794764 original size:30 final size:30
Alignment explanation
Indices: 794730--794921 Score: 269
Period size: 30 Copynumber: 6.4 Consensus size: 30
794720 GGTTCTTTGG
* * *
794730 GACCTATGGACAGTTACCGAGGATTTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
794760 GACCTTTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
794790 GACCTCTGGATAGTTACCGAGGATTTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
794820 GACATCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* * *
794850 GACATTTGGATAGTTACCGATGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* * *
794880 GACCTCTGGATAGTTATCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
794909 GACCTCTGGATAG
1 GACCTCTGGATAG
794922 GTCCTTCGGG
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
29 20 0.14
30 127 0.86
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:798143 original size:14 final size:15
Alignment explanation
Indices: 798120--798157 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
798110 AGATCCAATC
798120 AAGAAC-AAAAAGAG
1 AAGAACAAAAAAGAG
*
798134 AAGAAGAAAAAAGAG
1 AAGAACAAAAAAGAG
*
798149 AAAAACAAA
1 AAGAACAAA
798158 GTAAAATCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.76, C:0.05, G:0.18, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAG
Found at i:798192 original size:12 final size:13
Alignment explanation
Indices: 798120--798194 Score: 52
Period size: 12 Copynumber: 5.9 Consensus size: 13
798110 AGATCCAATC
*
798120 AAGAACAAAAAGAG
1 AAGAATAAAAA-AG
*
798134 AAGAAGAAAAAAG
1 AAGAATAAAAAAG
798147 -AGAA-AAACAAAG
1 AAGAATAAA-AAAG
* *
798159 TAA-AATCAAAATG
1 -AAGAATAAAAAAG
798172 AA-AATAAAAAAG
1 AAGAATAAAAAAG
798184 AAGAA-AAAAAA
1 AAGAATAAAAAA
798195 AATAAAGGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
11 3 0.06
12 26 0.51
13 9 0.18
14 13 0.25
ACGTcount: A:0.76, C:0.04, G:0.15, T:0.05
Consensus pattern (13 bp):
AAGAATAAAAAAG
Found at i:798208 original size:38 final size:36
Alignment explanation
Indices: 798137--798221 Score: 91
Period size: 38 Copynumber: 2.3 Consensus size: 36
798127 AAAAGAGAAG
* * **
798137 AAGAAAAAAG-AGAAAAACAAAGTAAAATCAAAATGAA
1 AAGAAAAAAGAAGAAAAAAAAAATAAAAGAAAAAT--A
* *
798174 AATAAAAAAGAAGAAAAAAAAAATAAAGGAAAAATA
1 AAGAAAAAAGAAGAAAAAAAAAATAAAAGAAAAATA
798210 AAGAAAAAAGAA
1 AAGAAAAAAGAA
798222 AACAAGACGC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 12 0.30
37 9 0.22
38 19 0.47
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (36 bp):
AAGAAAAAAGAAGAAAAAAAAAATAAAAGAAAAATA
Found at i:798218 original size:11 final size:11
Alignment explanation
Indices: 798172--798218 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
798162 AATCAAAATG
798172 AAAATAAA-AA
1 AAAATAAAGAA
* * *
798182 AGAAGAAAAAA
1 AAAATAAAGAA
*
798193 AAAATAAAGGA
1 AAAATAAAGAA
798204 AAAATAAAGAA
1 AAAATAAAGAA
798215 AAAA
1 AAAA
798219 GAAAACAAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
10 6 0.21
11 23 0.79
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (11 bp):
AAAATAAAGAA
Found at i:800530 original size:37 final size:34
Alignment explanation
Indices: 800489--800617 Score: 150
Period size: 36 Copynumber: 3.6 Consensus size: 34
800479 ACAAGATGGC
* * *
800489 GTCTCGCTTGAGACTAATTTACTCAAAACAAAGTTTT
1 GTCTCTCTTGAGAC-AGTTT-CTCGAAACAAA-TTTT
800526 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCTC--GAAACAAATTTT
*
800562 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTT--CTCGAAACAAATTTT
*
800598 GTCTCTCTTGAGATAGTTTC
1 GTCTCTCTTGAGACAGTTTC
800618 CCATGAAACA
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
34 1 0.01
35 3 0.04
36 57 0.69
37 20 0.24
38 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (34 bp):
GTCTCTCTTGAGACAGTTTCTCGAAACAAATTTT
Found at i:800569 original size:21 final size:21
Alignment explanation
Indices: 800544--800608 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
800534 TGAGACAGTT
800544 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
800565 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
800582 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
800601 TCTCTTGA
1 TCTCTTGA
800609 GATAGTTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 4 0.12
19 3 0.09
20 1 0.03
21 15 0.44
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:800569 original size:36 final size:36
Alignment explanation
Indices: 800514--800800 Score: 322
Period size: 36 Copynumber: 8.1 Consensus size: 36
800504 AATTTACTCA
*
800514 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
800551 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
800587 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCATG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
800623 AAACAAA-----AC-CT-TTGA-ATATGTTTTCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCCCTTG
* * **
800652 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * * *
800688 GAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
800725 AAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
800761 AAACAAA-GTTGTCTCTCTTAAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
800796 AAACA
1 AAACA
800801 CCAATCTTTG
Statistics
Matches: 215, Mismatches: 25, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.01
29 19 0.09
30 2 0.01
31 1 0.00
34 1 0.00
35 30 0.14
36 120 0.56
37 39 0.18
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:800728 original size:138 final size:138
Alignment explanation
Indices: 800514--800767 Score: 402
Period size: 138 Copynumber: 1.8 Consensus size: 138
800504 AATTTACTCA
* * *
800514 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
1 AAACAAAGTTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGT
* *
800579 TTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCATGAAACAAAACCTTTGAATATGT
66 TTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCCATGAAACAAAACCTTTGAATATGT
800644 TTTCCTTG
131 TTTCCTTG
* * *
800652 AAACAAA-TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAG
1 AAACAAAGTTTCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTTATCTCTCTTGAGACAG
* *
800716 TTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAA
65 TTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCCATGAAACAAA
800768 GTTGTCTCTC
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
137 29 0.28
138 76 0.72
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (138 bp):
AAACAAAGTTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGT
TTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCCATGAAACAAAACCTTTGAATATGT
TTTCCTTG
Found at i:800770 original size:73 final size:71
Alignment explanation
Indices: 800527--800800 Score: 249
Period size: 73 Copynumber: 3.9 Consensus size: 71
800517 CAAAGTTTTG
* * * * * *
800527 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 TCTCCCTTGAGACAGTTTCCCTTGAAACAAA-GTTATCTCTCTTAAGACAGTTTCTCTTGAAACA
**
800592 AATTTTG
65 AATTTCA
* * * * *
800599 TCTCTCTTGAGATAGTTTCCCATGAAACAAA---A-C-CT-TTGAATA-TGTTT-TCCTTGAAAC
1 TCTCCCTTGAGACAGTTTCCCTTGAAACAAAGTTATCTCTCTT-AAGACAGTTTCT-CTTGAAAC
*
800656 AAATTTCG
64 AAATTTCA
** * * *
800664 TCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAAC
1 TCTCCCTTGAGACAGTTTCCCTTGAAACAAAG--TTATCTCTCTTAAGACAGTTTCTCTTGAAAC
*
800729 AAATTTTA
64 AAATTTCA
* *
800737 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTGTCTCTCTTAAGACAGTTTCTCTTGAAACA
1 TCTCCCTTGAGACAGTTTCCCTTGAAACAAAGTTATCTCTCTTAAGACAGTTTCTCTTGAAACA
800801 CCAATCTTTG
Statistics
Matches: 162, Mismatches: 28, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
65 45 0.28
66 4 0.02
67 1 0.01
70 1 0.01
71 31 0.19
72 32 0.20
73 47 0.29
74 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (71 bp):
TCTCCCTTGAGACAGTTTCCCTTGAAACAAAGTTATCTCTCTTAAGACAGTTTCTCTTGAAACAA
ATTTCA
Found at i:800812 original size:174 final size:175
Alignment explanation
Indices: 800519--800858 Score: 533
Period size: 174 Copynumber: 1.9 Consensus size: 175
800509 ACTCAAAACA
* *
800519 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
1 AAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCC
* * *
800584 TTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCATGAAACAAAACCTTTGAATATGTTT-TC
66 TTGAAACAAATGTTGTCTCTCTTAAGACAGTTTCCCATGAAACAAAACCTTTGAATATGTTTCT-
* *
800648 CTTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACT
130 CTTGAAACAAAATTTCGCCTCCCTGGAGACAGTTTCTTTTGGAACT
800693 AAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCC
1 AAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCC
* * * *
800758 TTGAAACAAA-GTTGTCTCTCTTAAGACAGTTTCTCTTGAAACACCAATCTTTGAATATGTTTCT
66 TTGAAACAAATGTTGTCTCTCTTAAGACAGTTTCCCATGAAACA-AAACCTTTGAATATGTTTCT
*
800822 CTTGAAACAAAATTTTGCCTCCCTGGAGACAGTTTCT
130 CTTGAAACAAAATTTCGCCTCCCTGGAGACAGTTTCT
800859 CTTGAAACAC
Statistics
Matches: 151, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
173 28 0.19
174 97 0.64
175 26 0.17
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (175 bp):
AAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCC
TTGAAACAAATGTTGTCTCTCTTAAGACAGTTTCCCATGAAACAAAACCTTTGAATATGTTTCTC
TTGAAACAAAATTTCGCCTCCCTGGAGACAGTTTCTTTTGGAACT
Found at i:800895 original size:33 final size:33
Alignment explanation
Indices: 800853--800938 Score: 138
Period size: 34 Copynumber: 2.6 Consensus size: 33
800843 CCTGGAGACA
800853 GTTTCTCTTGAAACACAAAAAACCTTTG-AAATT
1 GTTTCTCTTGAAACACAAAAAACCTTTGCAAA-T
*
800886 GTTTCTCTTGAAACAAAAAAAAACCTTTGCAAAT
1 GTTTCTCTTGAAAC-ACAAAAAACCTTTGCAAAT
800920 GTTTCTCTTGAAACACAAA
1 GTTTCTCTTGAAACACAAA
800939 GACCTTCGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
33 18 0.37
34 28 0.57
35 3 0.06
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGCAAAT
Found at i:801079 original size:84 final size:85
Alignment explanation
Indices: 800931--801096 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 85
800921 TTTCTCTTGA
* *
800931 AACACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAA
1 AACACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAACTCAA
*
800996 GGCTAGAAGGGTTATCTACC
66 GGCAAGAAGGGTTATCTACC
* * *
801016 AACA-AAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGCACATTATTTACAACATAGCTCAA
1 AACACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAACTCAA
*
801080 GGCAAGAAGTGTTATCT
66 GGCAAGAAGGGTTATCT
801097 GTCAAAAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 70 0.95
85 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (85 bp):
AACACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAACTCAA
GGCAAGAAGGGTTATCTACC
Found at i:803356 original size:5 final size:5
Alignment explanation
Indices: 803329--803454 Score: 55
Period size: 5 Copynumber: 24.6 Consensus size: 5
803319 TGACCTTTGA
* * * * *
803329 TTTAT TTAAT ATTT-T TTTAT TTTGT TTTAT ATCAT TTTTT CTTTGAT
1 TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTT-AT
* * *
803376 TTCT-T TTTAT TTCTTT TTCTAT TTT-T TCT-T TTGAT TTTAT TGTTAT
1 TT-TAT TTTAT TT-TAT TT-TAT TTTAT TTTAT TTTAT TTTAT T-TTAT
* *
803422 TTTTT ATTTAT TTTAT TAT-T TTTAT TTTAT TTT
1 TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTT
803455 TATGTTTTTC
Statistics
Matches: 90, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
4 12 0.13
5 51 0.57
6 25 0.28
7 2 0.02
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:803422 original size:24 final size:22
Alignment explanation
Indices: 803395--803453 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
803385 TTTCTTTTTC
*
803395 TATTTTTTCTTTTGATTTTATTGT
1 TATTTTTT-ATTT-ATTTTATTGT
*
803419 TATTTTTTATTTATTTTATTAT
1 TATTTTTTATTTATTTTATTGT
*
803441 TTTTATTTTATTT
1 TATT-TTTTATTT
803454 TTATGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.39
23 11 0.35
24 8 0.26
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (22 bp):
TATTTTTTATTTATTTTATTGT
Found at i:803440 original size:19 final size:19
Alignment explanation
Indices: 803338--803454 Score: 68
Period size: 19 Copynumber: 6.1 Consensus size: 19
803328 ATTTATTTAA
*
803338 TATT-TTTTTATTTTGTTT
1 TATTATTTTTATTTTATTT
803356 TATATCATTTTT-TCTTTGATTTCT
1 TAT-T-ATTTTTAT-TTT-A-TT-T
*
803380 TTTTATTTCTT-TTTCTATTT
1 TATTATTT-TTATTT-TATTT
* *
803400 T-TTCTTTTGATTTTATTGT
1 TATTATTTTTATTTTATT-T
803419 TA-T-TTTTTA-TTTATTT
1 TATTATTTTTATTTTATTT
803435 TATTATTTTTATTTTATTT
1 TATTATTTTTATTTTATTT
803454 T
1 T
803455 TATGTTTTTC
Statistics
Matches: 79, Mismatches: 5, Indels: 29
0.70 0.04 0.26
Matches are distributed among these distances:
16 3 0.04
17 7 0.09
18 19 0.24
19 20 0.25
20 3 0.04
21 10 0.13
22 7 0.09
23 7 0.09
24 3 0.04
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (19 bp):
TATTATTTTTATTTTATTT
Found at i:803448 original size:6 final size:6
Alignment explanation
Indices: 803379--803462 Score: 52
Period size: 6 Copynumber: 13.8 Consensus size: 6
803369 CTTTGATTTC
* *
803379 TTTTTA TTTCTT- TTTCTA TTTTT- TCTTTTGA -TTTTA TTGTTA TTTTTTA
1 TTTTTA TTT-TTA TTTTTA TTTTTA T-TTTT-A TTTTTA TTTTTA -TTTTTA
*
803428 TTTATT- TTATTA TTTTTA -TTTTA TTTTTA TGTTTT
1 TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTT
803463 TCTTTGATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
5 10 0.16
6 38 0.62
7 13 0.21
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:803456 original size:42 final size:41
Alignment explanation
Indices: 803379--803476 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 41
803369 CTTTGATTTC
* *
803379 TTTTTATTTCTTTTTCTATTTTTTCTTTTGATTTTATTGTTAT
1 TTTTTATTTATTTTTCTATTTTTTATTTTGATTTTA-TGTT-T
803422 TTTTTATTTATTTTAT-TA-TTTTTATTTT-ATTTTTATGTTT
1 TTTTTATTTATTTT-TCTATTTTTTATTTTGA-TTTTATGTTT
803462 TTCTTTGATTTATTT
1 TT-TTT-ATTTATTT
803477 AAGAGAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
40 3 0.06
41 8 0.16
42 22 0.45
43 15 0.31
44 1 0.02
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (41 bp):
TTTTTATTTATTTTTCTATTTTTTATTTTGATTTTATGTTT
Found at i:803462 original size:19 final size:18
Alignment explanation
Indices: 803379--803463 Score: 70
Period size: 18 Copynumber: 4.7 Consensus size: 18
803369 CTTTGATTTC
*
803379 TTTTTATTTCTTT-TTCTA
1 TTTTTATTT-TTTATTTTA
*
803397 TTTTT-TCTTTTGATTTTA
1 TTTTTAT-TTTTTATTTTA
*
803415 TTGTTATTTTTTA-TTTA
1 TTTTTATTTTTTATTTTA
803432 -TTTTATTATTTTTATTTTA
1 TTTTTA-T-TTTTTATTTTA
803451 TTTTTATGTTTTT
1 TTTTTAT-TTTTT
803464 CTTTGATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.07
17 8 0.15
18 26 0.48
19 11 0.20
20 5 0.09
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTATTTTTTATTTTA
Found at i:807094 original size:20 final size:20
Alignment explanation
Indices: 807056--807115 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
807046 CCAGAACCCT
*
807056 AGGGGGTATCGATTCCC-CTA
1 AGGGGGGATCGATTCCCTC-A
* *
807076 TGGGGGGAATCGGTTCCCTCA
1 AGGGGGG-ATCGATTCCCTCA
807097 AGGGGGGATCGATTCCCTC
1 AGGGGGGATCGATTCCCTC
807116 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 16 0.48
21 16 0.48
22 1 0.03
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.23
Consensus pattern (20 bp):
AGGGGGGATCGATTCCCTCA
Found at i:808588 original size:46 final size:46
Alignment explanation
Indices: 808524--808615 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
808514 TCTTCTTTTA
808524 TAAAACCATTTAAAAATGCACTTTTAACATCCGTTTGATATAATTT
1 TAAAACCATTTAAAAATGCACTTTTAACATCCGTTTGATATAATTT
808570 TAAAACCATTTAAAAATGCACTTTTAACATCCGTTTGATATAATTT
1 TAAAACCATTTAAAAATGCACTTTTAACATCCGTTTGATATAATTT
808616 AAATTCATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (46 bp):
TAAAACCATTTAAAAATGCACTTTTAACATCCGTTTGATATAATTT
Found at i:815340 original size:24 final size:24
Alignment explanation
Indices: 815313--815362 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
815303 AAAAAGAACC
815313 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
815337 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
815361 AA
1 AA
815363 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:816489 original size:10 final size:9
Alignment explanation
Indices: 816469--816509 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
816459 TTAGTACACA
816469 TTTTTTCTT
1 TTTTTTCTT
816478 TTTTTTCTT
1 TTTTTTCTT
*
816487 TTTTTTC-A
1 TTTTTTCTT
*
816495 CTTTTTCTT
1 TTTTTTCTT
816504 TTTTTT
1 TTTTTT
816510 ACGCTGCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:816489 original size:17 final size:18
Alignment explanation
Indices: 816469--816509 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
816459 TTAGTACACA
**
816469 TTTTTTCTTTTTTTTCTT
1 TTTTTTCTACTTTTTCTT
816487 TTTTTTC-ACTTTTTCTT
1 TTTTTTCTACTTTTTCTT
816504 TTTTTT
1 TTTTTT
816510 ACGCTGCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTCTACTTTTTCTT
Found at i:820931 original size:24 final size:24
Alignment explanation
Indices: 820904--820953 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
820894 ATAAAGAACC
820904 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
820928 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
820952 AA
1 AA
820954 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:825499 original size:15 final size:15
Alignment explanation
Indices: 825479--825513 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
825469 TAAGAGGATT
825479 ATTAAATTTCAATTA
1 ATTAAATTTCAATTA
*
825494 ATTAAATTTCATTTA
1 ATTAAATTTCAATTA
825509 ATTAA
1 ATTAA
825514 TTTGAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTAAATTTCAATTA
Found at i:825552 original size:88 final size:90
Alignment explanation
Indices: 825388--825559 Score: 285
Period size: 88 Copynumber: 1.9 Consensus size: 90
825378 TAATCCCGAA
* *
825388 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATACATTTAATTAATTTCAAATAATAAAATCCCTAATATGAT
825453 TAGGGTAACTTGGATATAAGAGGAT
66 TAGGGTAACTTGGATATAAGAGGAT
* *
825478 TATTAAATTTCAATTAATTAAAT-TTCATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATACATTTAATTAATTTCAAATAATAAAATCCCTAATATGAT
*
825541 TAGGGTAACTTGGCTATAA
66 TAGGGTAACTTGGATATAA
825560 AATGGTGTGT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 30 0.39
89 25 0.32
90 22 0.29
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.40
Consensus pattern (90 bp):
TATTAAATTTCAATTAATTAAATATACATTTAATTAATTTCAAATAATAAAATCCCTAATATGAT
TAGGGTAACTTGGATATAAGAGGAT
Found at i:829198 original size:15 final size:15
Alignment explanation
Indices: 829178--829208 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
829168 TTGGAAATTT
829178 TCAATATTGGTGGGG
1 TCAATATTGGTGGGG
829193 TCAATATTGGTGGGG
1 TCAATATTGGTGGGG
829208 T
1 T
829209 ATGGATGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.39, T:0.35
Consensus pattern (15 bp):
TCAATATTGGTGGGG
Found at i:829825 original size:34 final size:34
Alignment explanation
Indices: 829781--829875 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 34
829771 TCGTGAATAT
* *
829781 TAAATAAACATGTTCACGAACGATAAACGAACGC
1 TAAACAAACATGTTCACGAACAATAAACGAACGC
* * *
829815 TAAACGAACATGCTCACAAACAATAAACGAACGC
1 TAAACAAACATGTTCACGAACAATAAACGAACGC
*
829849 TAAACAAACATGTTCACGAACATTAAA
1 TAAACAAACATGTTCACGAACAATAAA
829876 TAAACAAACA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.49, C:0.22, G:0.12, T:0.17
Consensus pattern (34 bp):
TAAACAAACATGTTCACGAACAATAAACGAACGC
Found at i:832357 original size:24 final size:24
Alignment explanation
Indices: 832330--832377 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
832320 GAGAAAATTA
832330 TTACTCCCCCTTACTATAACACTT
1 TTACTCCCCCTTACTATAACACTT
*
832354 TTACTCTCCCTTACTATAACACTT
1 TTACTCCCCCTTACTATAACACTT
832378 CTCCCCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (24 bp):
TTACTCCCCCTTACTATAACACTT
Found at i:832635 original size:8 final size:8
Alignment explanation
Indices: 832624--832688 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
832614 CATTTAAGTT
832624 CAAACATC
1 CAAACATC
*
832632 CAAAACAAATT
1 C-AAAC--ATC
832643 CAAACATC
1 CAAACATC
*
832651 CACAA-ATT
1 CA-AACATC
832659 CAAACATTC
1 CAAACA-TC
832668 ACAAACATC
1 -CAAACATC
832677 CAAACATC
1 CAAACATC
832685 CAAA
1 CAAA
832689 ATGTTAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
7 2 0.04
8 22 0.48
9 9 0.20
10 10 0.22
11 3 0.07
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (8 bp):
CAAACATC
Found at i:832657 original size:16 final size:16
Alignment explanation
Indices: 832622--832690 Score: 68
Period size: 16 Copynumber: 4.1 Consensus size: 16
832612 AGCATTTAAG
832622 TTCAAACATCCAAAACAAA
1 TTCAAACATCC---ACAAA
832641 TTCAAACATCCACAAA
1 TTCAAACATCCACAAA
*
832657 TTCAAACATTCACAAACA
1 TTCAAACATCCAC-AA-A
*
832675 TCCAAACATCCA-AAA
1 TTCAAACATCCACAAA
832690 T
1 T
832691 GTTAAAACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
15 2 0.04
16 19 0.42
17 2 0.04
18 11 0.24
19 11 0.24
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (16 bp):
TTCAAACATCCACAAA
Found at i:834463 original size:23 final size:23
Alignment explanation
Indices: 834429--834486 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
834419 GATGCTAGTA
834429 GGTATCGATACCCATTC-AAGGAG
1 GGTATCGATACCCATTCAAAGG-G
*
834452 GGTATCGGTACCCATTCAAAGGG
1 GGTATCGATACCCATTCAAAGGG
834475 GGTATCGATACC
1 GGTATCGATACC
834487 TAGCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 28 0.88
24 4 0.12
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (23 bp):
GGTATCGATACCCATTCAAAGGG
Found at i:840758 original size:42 final size:42
Alignment explanation
Indices: 840711--840795 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
840701 TGAAGAATAT
840711 TCGATTATTTAAAAACATCGAGACCAGATCTTAAATGAGTTA
1 TCGATTATTTAAAAACATCGAGACCAGATCTTAAATGAGTTA
840753 TCGATTATTTAAAAACATCGAGACCAGATCTTAAATGAGTTA
1 TCGATTATTTAAAAACATCGAGACCAGATCTTAAATGAGTTA
840795 T
1 T
840796 AATAACCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (42 bp):
TCGATTATTTAAAAACATCGAGACCAGATCTTAAATGAGTTA
Found at i:842503 original size:55 final size:55
Alignment explanation
Indices: 842444--842549 Score: 144
Period size: 55 Copynumber: 1.9 Consensus size: 55
842434 GAATGATGGG
*
842444 TCCACTCCCTATTCTCTCAGAG-AGTATAGGACACGAAA-AATATTCGGCAAACATT
1 TCCACTCCCTATTCTCTCAG-GCAGTATAGAACAC-AAACAATATTCGGCAAACATT
* * *
842499 TCCACTCCGTATTCTTTCAGGCAGTATAGAACTCAAACAATATTCGGCAAA
1 TCCACTCCCTATTCTCTCAGGCAGTATAGAACACAAACAATATTCGGCAAA
842550 TCTGCTCCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
54 4 0.09
55 41 0.91
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (55 bp):
TCCACTCCCTATTCTCTCAGGCAGTATAGAACACAAACAATATTCGGCAAACATT
Found at i:842703 original size:55 final size:55
Alignment explanation
Indices: 842570--842915 Score: 406
Period size: 55 Copynumber: 6.3 Consensus size: 55
842560 ATTCTTTGAT
* *
842570 GGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTATT-TTTCAG
1 GGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTATTGCTTCAA
** * *
842624 GGAGTATAGAACTCGAACAATCTTCTGAAAACAAGTTCGCTCCCTATTACTTCAG
1 GGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTATTGCTTCAA
* * * * * * *
842679 GGATTATAGAACTCGAACAATCTTCTGCAAACAGGTTTGCTCTCTAATCCTTCAA
1 GGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTATTGCTTCAA
* * * * * * **
842734 GGAGTATAAAATTCGAACAATCGTCTAAAAACGAGTTTGCTCTATATTGCTTCAA
1 GGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTATTGCTTCAA
* * * * *
842789 GGAGTATAGATCTCGAACAATCTTCTGCATACGTGTTCGCTCCCTATGGCTTCAA
1 GGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTATTGCTTCAA
* * * * *
842844 GGAGTATATAACTCGAACAATCTTCTAAAAATGGGTTCGCTACCTATTGCTTCAG
1 GGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTATTGCTTCAA
842899 GGAGTATAGAACTCGAA
1 GGAGTATAGAACTCGAA
842916 ATTGACTTGC
Statistics
Matches: 246, Mismatches: 45, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
54 46 0.19
55 200 0.81
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (55 bp):
GGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTATTGCTTCAA
Found at i:856591 original size:55 final size:55
Alignment explanation
Indices: 856532--857003 Score: 308
Period size: 55 Copynumber: 8.6 Consensus size: 55
856522 ACGGGTCCGA
* *
856532 TCCCTATTCTTTCAGAGAGTATAGGACTCAAAAAATATTCGGCAAACAGGTCTGC
1 TCCCTATTCTTTCAGAGAGTATAGAACTCAAACAATATTCGGCAAACAGGTCTGC
* * * * *
856587 TCCCTATTCTTTCAGGGATTATAGAACTCGAACAATATTTGGCAAACAGGTCCGC
1 TCCCTATTCTTTCAGAGAGTATAGAACTCAAACAATATTCGGCAAACAGGTCTGC
* * * *
856642 TCCCTATTCTTTCAG-GAAGTATAGAACTCAAACAATCTTCTGAAAACAGGT-TCGT
1 TCCCTATTCTTTCAGAG-AGTATAGAACTCAAACAATATTCGGCAAACAGGTCT-GC
* * ** * * * *
856697 TCCCTATTTTTTCAGAGAGTATAGAACTCAAACAATCTTTTGAAAACAAGTTTGA
1 TCCCTATTCTTTCAGAGAGTATAGAACTCAAACAATATTCGGCAAACAGGTCTGC
* * ** * *
856752 TCCCTATTGC-TTCATG-GAGTATAGAACTCGAACAATCTTTTGCAAACGGGT-TCAC
1 TCCCTATT-CTTTCA-GAGAGTATAGAACTCAAACAATATTCGGCAAACAGGTCT-GC
* *** *
856807 TCCCTATTGC-TTCA-AGGAGTATAGAACTCAAACAATCTTCTAAAAACGGGT-TCGC
1 TCCCTATT-CTTTCAGA-GAGTATAGAACTCAAACAATATTCGGCAAACAGGTCT-GC
* ** * ** *
856862 TCCCTATTGC-TTCA-AGGAGTATAGAACTCGAACAATATTTTGCAAGCAACT-TCAC
1 TCCCTATT-CTTTCAGA-GAGTATAGAACTCAAACAATATTCGGCAAACAGGTCT-GC
* * *** *
856917 TCCCTATTGC-TTCA-AGGAGTATAGAACTCGAACAATCTTCTAAAAACAGGT-TCAC
1 TCCCTATT-CTTTCAGA-GAGTATAGAACTCAAACAATATTCGGCAAACAGGTCT-GC
*
856972 TCCCTATTGC-TTCAGGGAGTATAGAACTCAAA
1 TCCCTATT-CTTTCAGAGAGTATAGAACTCAAA
857004 ATTGACTTGC
Statistics
Matches: 357, Mismatches: 50, Indels: 20
0.84 0.12 0.05
Matches are distributed among these distances:
54 2 0.01
55 352 0.99
56 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (55 bp):
TCCCTATTCTTTCAGAGAGTATAGAACTCAAACAATATTCGGCAAACAGGTCTGC
Found at i:856689 original size:110 final size:109
Alignment explanation
Indices: 856532--857003 Score: 497
Period size: 110 Copynumber: 4.3 Consensus size: 109
856522 ACGGGTCCGA
* * * *
856532 TCCCTATT-CTTTCAGAGAGTATAGGACTCAAAAAATATTCGGCAAACAGG-TCTGCTCCCTATT
1 TCCCTATTGC-TTCAG-GAGTATAGAACTCAAACAATATTCTGCAAACAGGTTC-ACTCCCTATT
* * * * ** *
856595 -CTTTCAGGGATTATAGAACTCGAACAATATT-TGGCAAACAGGTCCGC
63 GC-TTCAAGGAGTATAGAACTCAAACAATCTTCT-AAAAACAGGTTCGC
* * ** *
856642 TCCCTATT-CTTTCAGGAAGTATAGAACTCAAACAATCTTCTGAAAACAGGTTCGTTCCCTATTT
1 TCCCTATTGC-TTCAGG-AGTATAGAACTCAAACAATATTCTGCAAACAGGTTCACTCCCTATTG
* * * * * *
856706 TTTC-AGAGAGTATAGAACTCAAACAATCTTTTGAAAACAAGTTTGA
64 CTTCAAG-GAGTATAGAACTCAAACAATCTTCTAAAAACAGGTTCGC
* * * *
856752 TCCCTATTGCTTCATGGAGTATAGAACTCGAACAATCTTTTGCAAACGGGTTCACTCCCTATTGC
1 TCCCTATTGCTTCA-GGAGTATAGAACTCAAACAATATTCTGCAAACAGGTTCACTCCCTATTGC
*
856817 TTCAAGGAGTATAGAACTCAAACAATCTTCTAAAAACGGGTTCGC
65 TTCAAGGAGTATAGAACTCAAACAATCTTCTAAAAACAGGTTCGC
* * * **
856862 TCCCTATTGCTTCAAGGAGTATAGAACTCGAACAATATTTTGCAAGCAACTTCACTCCCTATTGC
1 TCCCTATTGCTTC-AGGAGTATAGAACTCAAACAATATTCTGCAAACAGGTTCACTCCCTATTGC
* *
856927 TTCAAGGAGTATAGAACTCGAACAATCTTCTAAAAACAGGTTCAC
65 TTCAAGGAGTATAGAACTCAAACAATCTTCTAAAAACAGGTTCGC
856972 TCCCTATTGCTTCAGGGAGTATAGAACTCAAA
1 TCCCTATTGCTTCA-GGAGTATAGAACTCAAA
857004 ATTGACTTGC
Statistics
Matches: 313, Mismatches: 39, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
109 3 0.01
110 301 0.96
111 9 0.03
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (109 bp):
TCCCTATTGCTTCAGGAGTATAGAACTCAAACAATATTCTGCAAACAGGTTCACTCCCTATTGCT
TCAAGGAGTATAGAACTCAAACAATCTTCTAAAAACAGGTTCGC
Found at i:856759 original size:165 final size:163
Alignment explanation
Indices: 856532--857003 Score: 576
Period size: 165 Copynumber: 2.9 Consensus size: 163
856522 ACGGGTCCGA
* * ** * * *
856532 TCCCTATTCTTTCAGAGAGTATAGGACTCAAAAAATATTCGGCAAACAGGTCTGCTCCCTATT-C
1 TCCCTATTCTTTCAGAGAGTATAGAACTCAAACAATATTTTGCAAACAAGTTTGATCCCTATTGC
* * * * *
856596 TTTCAGGGATTATAGAACTCGAACAATATTTGGCAAACAGGTCCGCTCCCTATT-CTTTCAGGAA
66 -TTCAAGGAGTATAGAACTCGAACAATCTTT-GCAAACAGGTTCACTCCCTATTGC-TTCAGG-A
* *
856660 GTATAGAACTCAAACAATCTTCTGAAAACAGGTTCGT
127 GTATAGAACTCAAACAATCTTCTAAAAACAGGTTCGC
* * *
856697 TCCCTATTTTTTCAGAGAGTATAGAACTCAAACAATCTTTTGAAAACAAGTTTGATCCCTATTGC
1 TCCCTATTCTTTCAGAGAGTATAGAACTCAAACAATATTTTGCAAACAAGTTTGATCCCTATTGC
* *
856762 TTCATGGAGTATAGAACTCGAACAATCTTTTGCAAACGGGTTCACTCCCTATTGCTTCAAGGAGT
66 TTCAAGGAGTATAGAACTCGAACAATC-TTTGCAAACAGGTTCACTCCCTATTGCTTC-AGGAGT
*
856827 ATAGAACTCAAACAATCTTCTAAAAACGGGTTCGC
129 ATAGAACTCAAACAATCTTCTAAAAACAGGTTCGC
* * * *
856862 TCCCTATTGC-TTCA-AGGAGTATAGAACTCGAACAATATTTTGCAAGCAA-CTTCACTCCCTAT
1 TCCCTATT-CTTTCAGA-GAGTATAGAACTCAAACAATATTTTGCAAACAAGTTTGA-TCCCTAT
**
856924 TGCTTCAAGGAGTATAGAACTCGAACAATCTTCTAAAAACAGGTTCACTCCCTATTGCTTCAGGG
63 TGCTTCAAGGAGTATAGAACTCGAACAATCTT-TGCAAACAGGTTCACTCCCTATTGCTTCA-GG
856989 AGTATAGAACTCAAA
126 AGTATAGAACTCAAA
857004 ATTGACTTGC
Statistics
Matches: 268, Mismatches: 30, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
164 7 0.03
165 253 0.94
166 8 0.03
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (163 bp):
TCCCTATTCTTTCAGAGAGTATAGAACTCAAACAATATTTTGCAAACAAGTTTGATCCCTATTGC
TTCAAGGAGTATAGAACTCGAACAATCTTTGCAAACAGGTTCACTCCCTATTGCTTCAGGAGTAT
AGAACTCAAACAATCTTCTAAAAACAGGTTCGC
Found at i:866086 original size:34 final size:33
Alignment explanation
Indices: 865983--866237 Score: 121
Period size: 35 Copynumber: 7.4 Consensus size: 33
865973 ATTTACTCAA
*
865983 ATAAATATCTTTTAATATTCAAATTTAAATATATAT
1 ATAAATATCTTTTAATATTCAAA-TTAAA-A-AGAT
* *
866019 ATAATAATATCTTTTAAT-TTGATATATTCAAAAGAT
1 AT-A-AATATCTTTTAATATTCA-A-ATTAAAAAGAT
*
866055 ATAAATACCTTTTAATATTCAAACTTAAAAAGAT
1 ATAAATATCTTTTAATATTCAAA-TTAAAAAGAT
* * * ***
866089 AATAAATATATTTTAAT-TTGAGTTATTCCGAAGAAT
1 -ATAAATATCTTTTAATATTCA--AATTAAAAAG-AT
* *
866125 ATAATTATCTTTTAATATTCAAATTTAAGCAA-AT
1 ATAAATATCTTTTAATATTCAAA-TTAA-AAAGAT
* * *
866159 AATAAACA-CATTTTAAT-TTGAAATATTTAAAAGA-
1 -ATAAATATC-TTTTAATATT-CAA-ATTAAAAAGAT
* * *
866193 ATAATTATCGTATTAATATTCAAATTGAAAAG--
1 ATAAATATC-TTTTAATATTCAAATTAAAAAGAT
866225 ATAAATATCTTTT
1 ATAAATATCTTTT
866238 TAATTTGAAA
Statistics
Matches: 166, Mismatches: 33, Indels: 45
0.68 0.14 0.18
Matches are distributed among these distances:
31 3 0.02
32 8 0.05
33 14 0.08
34 42 0.25
35 59 0.36
36 16 0.10
37 5 0.03
38 18 0.11
39 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (33 bp):
ATAAATATCTTTTAATATTCAAATTAAAAAGAT
Found at i:866147 original size:70 final size:68
Alignment explanation
Indices: 865983--866245 Score: 248
Period size: 70 Copynumber: 3.8 Consensus size: 68
865973 ATTTACTCAA
* * *
865983 ATAAATATCTTTTAATATTCAAATTTAAATATATATATAATAATATCTTTTAATTTGATATATTC
1 ATAAATATCTTTTAATATTCAAATTTAAAAAGATA-AT-A-AATATATTTTAATTTGAT-TATTC
866048 AAAAGAT
62 AAAAGAT
* * **
866055 ATAAATACCTTTTAATATTCAAACTTAAAAAGATAATAAATATATTTTAATTTGAGTTATTCCGA
1 ATAAATATCTTTTAATATTCAAATTTAAAAAGATAATAAATATATTTTAATTTGA-TTATTCAAA
866120 AGAAT
65 AG-AT
* * * * * *
866125 ATAATTATCTTTTAATATTCAAATTTAAGCAA-ATAATAAACACATTTTAATTTGAAATATTTAA
1 ATAAATATCTTTTAATATTCAAATTTAA-AAAGATAATAAATATATTTTAATTTG-ATTATTCAA
866189 AAGA-
64 AAGAT
* * * * *
866193 ATAATTATCGTATTAATATTCAAA-TTGAAAAGATAA-ATATCT-TTTTAATTTGA
1 ATAAATATC-TTTTAATATTCAAATTTAAAAAGATAATAAATATATTTTAATTTGA
866246 AATATTATGA
Statistics
Matches: 161, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
65 1 0.01
66 10 0.06
67 4 0.02
68 16 0.10
69 38 0.24
70 56 0.35
71 5 0.03
72 31 0.19
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (68 bp):
ATAAATATCTTTTAATATTCAAATTTAAAAAGATAATAAATATATTTTAATTTGATTATTCAAAA
GAT
Found at i:872576 original size:30 final size:28
Alignment explanation
Indices: 872497--872577 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
872487 AAATTTTATC
*
872497 TAGTGACCAAAATGAAAATTTTGAAAGTT
1 TAGTGACCAAAATG-TAATTTTGAAAGTT
* * *
872526 TAGTGGCCAAATTATAAATTTGTGAAAGGTT
1 TAGTGACCAAAATGT-AATTT-TGAAA-GTT
*
872557 TAGTGACCAAAGTGTAATTTT
1 TAGTGACCAAAATGTAATTTT
872578 AAAATGTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 17 0.40
30 10 0.24
31 15 0.36
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (28 bp):
TAGTGACCAAAATGTAATTTTGAAAGTT
Found at i:873643 original size:12 final size:12
Alignment explanation
Indices: 873626--873759 Score: 51
Period size: 12 Copynumber: 11.2 Consensus size: 12
873616 GTCATAGGTA
*
873626 TATGTGCAATTC
1 TATGTGCAAATC
* *
873638 TATGTGGC-ACTA
1 TATGT-GCAAATC
*
873650 TATGTGTAAATC
1 TATGTGCAAATC
* * *
873662 TACGTGGC-ACTT
1 TATGT-GCAAATC
873674 TATGTGCAAATC
1 TATGTGCAAATC
* *
873686 TATGTGGC-ACTA
1 TATGT-GCAAATC
873698 TATGTGCAAATC
1 TATGTGCAAATC
* * *
873710 TACGTGGC-ATTT
1 TATGT-GCAAATC
*
873722 TATGAGCAAATC
1 TATGTGCAAATC
* * * *
873734 TACGTGGAACTT
1 TATGTGCAAATC
873746 TATGTGCAAATC
1 TATGTGCAAATC
873758 TA
1 TA
873760 CGTGGCACTA
Statistics
Matches: 82, Mismatches: 32, Indels: 16
0.63 0.25 0.12
Matches are distributed among these distances:
11 7 0.09
12 68 0.83
13 7 0.09
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (12 bp):
TATGTGCAAATC
Found at i:873651 original size:24 final size:24
Alignment explanation
Indices: 873624--873800 Score: 228
Period size: 24 Copynumber: 7.4 Consensus size: 24
873614 GAGTCATAGG
* *
873624 TATATGTGCAATTCTATGTGGCAC
1 TATATGTGCAAATCTACGTGGCAC
*
873648 TATATGTGTAAATCTACGTGGCAC
1 TATATGTGCAAATCTACGTGGCAC
* *
873672 TTTATGTGCAAATCTATGTGGCAC
1 TATATGTGCAAATCTACGTGGCAC
*
873696 TATATGTGCAAATCTACGTGGCAT
1 TATATGTGCAAATCTACGTGGCAC
* * *
873720 TTTATGAGCAAATCTACGTGGAAC
1 TATATGTGCAAATCTACGTGGCAC
*
873744 TTTATGTGCAAATCTACGTGGCAC
1 TATATGTGCAAATCTACGTGGCAC
* * *
873768 TATATGAGCAATTCTACGTGACAC
1 TATATGTGCAAATCTACGTGGCAC
*
873792 TATTTGTGC
1 TATATGTGC
873801 TTTCTATTTG
Statistics
Matches: 132, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 132 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (24 bp):
TATATGTGCAAATCTACGTGGCAC
Found at i:873746 original size:72 final size:72
Alignment explanation
Indices: 873624--873794 Score: 252
Period size: 72 Copynumber: 2.4 Consensus size: 72
873614 GAGTCATAGG
* * * * *
873624 TATATGTGCAATTCTATGTGGCACTATATGTGTAAATCTACGTGGCACTTTATGTGCAAATCTAT
1 TATATGTGCAATTCTACGTGGCACTATATGAGCAAATCTACGTGGAACTTTATGTGCAAATCTAC
873689 GTGGCAC
66 GTGGCAC
* * *
873696 TATATGTGCAAATCTACGTGGCATTTTATGAGCAAATCTACGTGGAACTTTATGTGCAAATCTAC
1 TATATGTGCAATTCTACGTGGCACTATATGAGCAAATCTACGTGGAACTTTATGTGCAAATCTAC
873761 GTGGCAC
66 GTGGCAC
* *
873768 TATATGAGCAATTCTACGTGACACTAT
1 TATATGTGCAATTCTACGTGGCACTAT
873795 TTGTGCTTTC
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 86 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (72 bp):
TATATGTGCAATTCTACGTGGCACTATATGAGCAAATCTACGTGGAACTTTATGTGCAAATCTAC
GTGGCAC
Found at i:874128 original size:29 final size:29
Alignment explanation
Indices: 874070--874134 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
874060 TTTACGTTGG
874070 GCTAT-AATATGAAAAAGTAAATAATATAT
1 GCTATGAA-ATGAAAAAGTAAATAATATAT
* *
874099 GTTATGAAATGAAAAAGTGAAA-AATTTAT
1 GCTATGAAATGAAAAAGT-AAATAATATAT
874128 GCTATGA
1 GCTATGA
874135 GATGCAAGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (29 bp):
GCTATGAAATGAAAAAGTAAATAATATAT
Found at i:876419 original size:46 final size:46
Alignment explanation
Indices: 876340--876469 Score: 183
Period size: 46 Copynumber: 2.8 Consensus size: 46
876330 AGCTTTTTAG
* * * *
876340 CAATTATTTTCTTGAAAGGTTTTAACTCTTCATCAAATGGTCTTAA
1 CAATTCTTTTCATGAAAGGTTTTAACTCTTCATCAAAAGGTATTAA
876386 TC-ATT-TGTTTCATGAAAGGTTTTAACTCTTCATCAAAAGGTATTAA
1 -CAATTCT-TTTCATGAAAGGTTTTAACTCTTCATCAAAAGGTATTAA
*
876432 CAATTCTTTTCATGAATGGTTTTAACTCTTCATCAAAA
1 CAATTCTTTTCATGAAAGGTTTTAACTCTTCATCAAAA
876470 TATGTTAGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
45 2 0.03
46 72 0.95
47 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (46 bp):
CAATTCTTTTCATGAAAGGTTTTAACTCTTCATCAAAAGGTATTAA
Found at i:876425 original size:21 final size:21
Alignment explanation
Indices: 876354--876469 Score: 65
Period size: 21 Copynumber: 5.1 Consensus size: 21
876344 TATTTTCTTG
876354 AAAGGTTTTAACTCTTCATCA
1 AAAGGTTTTAACTCTTCATCA
* * * *
876375 AATGGTCTTAATCATTTGTTTCAT-G
1 AAAGGTTTTAA-C---T-CTTCATCA
876400 AAAGGTTTTAACTCTTCATCA
1 AAAGGTTTTAACTCTTCATCA
* *
876421 AAAGGTATTAACAATTCTTTTCAT-G
1 AAAGGTTTTAAC---TC--TTCATCA
*
876446 AATGGTTTTAACTCTTCATCA
1 AAAGGTTTTAACTCTTCATCA
876467 AAA
1 AAA
876470 TATGTTAGTT
Statistics
Matches: 69, Mismatches: 14, Indels: 24
0.64 0.13 0.22
Matches are distributed among these distances:
20 10 0.14
21 23 0.33
22 3 0.04
24 3 0.04
25 20 0.29
26 10 0.14
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (21 bp):
AAAGGTTTTAACTCTTCATCA
Found at i:876927 original size:19 final size:19
Alignment explanation
Indices: 876883--876930 Score: 80
Period size: 18 Copynumber: 2.6 Consensus size: 19
876873 TATTATTATT
*
876883 ATTTTATTCTAGGATTAAC
1 ATTTTTTTCTAGGATTAAC
876902 A-TTTTTTCTAGGATTAAC
1 ATTTTTTTCTAGGATTAAC
876920 ATTTTTTTCTA
1 ATTTTTTTCTA
876931 ACAGAATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (19 bp):
ATTTTTTTCTAGGATTAAC
Found at i:882679 original size:33 final size:28
Alignment explanation
Indices: 882619--882675 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
882609 AATATACATT
882619 TAATATCTAAATTATTACTTTTGTTTTG
1 TAATATCTAAATTATTACTTTTGTTTTG
882647 TAATATCTAAATTATTACTTTTGTTTTG
1 TAATATCTAAATTATTACTTTTGTTTTG
882675 T
1 T
882676 TTTGGTGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (28 bp):
TAATATCTAAATTATTACTTTTGTTTTG
Found at i:885484 original size:21 final size:23
Alignment explanation
Indices: 885459--885508 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
885449 TAACATGCAA
**
885459 AAACAAAAATGGGTAAA-T-TAC
1 AAACAAAAATAAGTAAATTATAC
*
885480 AAACAGAAATAAGTAAATTATAC
1 AAACAAAAATAAGTAAATTATAC
885503 AAACAA
1 AAACAA
885509 TACCTACACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 14 0.61
22 1 0.04
23 8 0.35
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (23 bp):
AAACAAAAATAAGTAAATTATAC
Found at i:886554 original size:3 final size:3
Alignment explanation
Indices: 886541--886582 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
886531 TGAAAACAAA
*
886541 AAT AGT AAT AAT AAT AAT AAT AA- AGCAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AA
886583 CGGGACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 1 0.03
3 31 0.91
4 1 0.03
5 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:886957 original size:42 final size:42
Alignment explanation
Indices: 886879--886959 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
886869 AGACATGTGA
* * *
886879 AAACATCTTGCTTGAAAGACTTACATATGACTCGAAGGATTT
1 AAACATCATGCTCGAAAGACTTACATATGACCCGAAGGATTT
*
886921 AAACATCATGCTCGAAAGACTTAC-TAATGGCCCGAAGGA
1 AAACATCATGCTCGAAAGACTTACAT-ATGACCCGAAGGA
886960 CTTACCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACATCATGCTCGAAAGACTTACATATGACCCGAAGGATTT
Found at i:887052 original size:187 final size:189
Alignment explanation
Indices: 886703--887072 Score: 478
Period size: 192 Copynumber: 2.0 Consensus size: 189
886693 GTCTCAAGTG
* * * * *
886703 AGACTGACAGATGACCCAAAGGGTTTAATCATCATGGTCGAAAGTCTTACTGATGGCCCGAAAGG
1 AGACTGACAGATGACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCCGAAAGG
* *** *
886768 CCTTTTGAATTTTGAAAATAGTTTAATAGGTAAGAAACTTTTCTTACTTTTCAAAATTTTCAATT
66 ACTTACCAATTTTGAAAATAGTTTAATAGGT---AAACTTTTCTTACTTTTCAAAAATTTCAATT
* * * *
886833 CAGATTTAAATGAGAAACTTTTTTTCATTTTTCGAGAGACATGTGAAAACATCTTGCTTGAA
128 CAAATTTAAATGAGAAACCTTTCTTCATTTTTCAAGAGACATGTGAAAACATCTTGCTTGAA
* * * *
886895 AGACTTACATATGACTCGAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCCG-AAGG
1 AGACTGACAGATGACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCCGAAAGG
* * *
886959 ACTTACCAATTTCTG-AAATAGTTTACTAGGT-AACTTTTTTTACTTTTCAAAAATTTCAGTTTC
66 ACTTACCAATTT-TGAAAATAGTTTAATAGGTAAACTTTTCTTACTTTTCAAAAATTTCA-ATTC
887022 AAATTTAAATGAGAAACCTTTCTT-ATTTTTCAAGAGACATGTGAAAACATC
129 AAATTTAAATGAGAAACCTTTCTTCATTTTTCAAGAGACATGTGAAAACATC
887073 CTGCCCGAAA
Statistics
Matches: 155, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
187 51 0.33
188 24 0.15
191 27 0.17
192 53 0.34
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (189 bp):
AGACTGACAGATGACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACTAATGGCCCGAAAGG
ACTTACCAATTTTGAAAATAGTTTAATAGGTAAACTTTTCTTACTTTTCAAAAATTTCAATTCAA
ATTTAAATGAGAAACCTTTCTTCATTTTTCAAGAGACATGTGAAAACATCTTGCTTGAA
Found at i:887379 original size:233 final size:231
Alignment explanation
Indices: 886882--887978 Score: 1358
Period size: 233 Copynumber: 4.8 Consensus size: 231
886872 CATGTGAAAA
* * * * *
886882 CATCTTGCTTGAAAGACTTACATATGACTCGAAGGATTTAAACATCATGCTCGAAAGACTTACTA
1 CATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTG
* *
886947 ATGGCCCGAAGGACTTACCAATTTCTGAAATAGTTTACTAGGT----AACTTTTTTTACTTTTCA
66 ATGGCCAGAAGGACTTACCAATTT-TGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCA
* * * **
887008 AAAATTTCAGTTTCAAATTTAAATGAGAAACCTTTCTTATTTTTCAAGAGACATGTGAAAACATC
130 AAAATTTCATTTTCAAATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGAAAACATC
887073 CTGCCCGAAAGTTTTATGGATGGCCTGAAGGACTTAT
195 CTGCCCGAAAGTTTTATGGATGGCCTGAAGGACTTAT
* ** * * *
887110 CATTTTGCTCGAAAGACTTACAAATGACTTGAAGGATTTAAGCATCATGCCCGAAATACTTACTA
1 CATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTG
* *
887175 ATGGCCAAAAGGACTTACCAATTTTGAAATTAGTTTACTAGGTAAGAAACTTTTCTTACTTTTGA
66 ATGGCCAGAAGGACTTACCAATTTTGAAA-TAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCA
* *
887240 AAAATTTCTATTTTCATATTTAAATTAGAAACTTTTCTCATTTTTTGAGAGACATGTGAAAACAT
130 AAAATTTC-ATTTTCAAATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGAAAACAT
* * *
887305 TCTACCCGAAGGTTTTATGGATGGCCTGAAGGACTTAT
194 CCTGCCCGAAAGTTTTATGGATGGCCTGAAGGACTTAT
* * * * * *
887343 CATCTTGCTCAAAATACTTACAGATGACCCGAAGGATTTAAACATCATGCTCAAAAGACTTTCTG
1 CATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTG
* * * *
887408 ATAGCCAGAAGGACTTACCAATTTTGGAAATAATTTACTAGGTAAGAAAATTTTCTGACTTTTCA
66 ATGGCCAGAAGGACTTACCAATTTT-GAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCA
* * *
887473 AAAATTTCAATTTTCAGATTTAAATGAGAAATTTTTCTCATTTTTTGAGAGACATGTGAAAAGAT
130 AAAATTTC-ATTTTCAAATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGAAAACAT
* * *
887538 CCT-TCCAAAAGGTTTTATGGATGGACC-AAAGGAC--AT
194 CCTGCCCGAAA-GTTTTATGGATGG-CCTGAAGGACTTAT
* * * *
887574 CATTTTGCTCAAAAGACTTACAAATGACCCGAAGGATTCAAGCATCATGCTCGAAAGACTTATTG
1 CATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTG
* *
887639 ATGGGCC-GAATGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTC
66 AT-GGCCAGAAGGACTTACCAATTTT-GAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTC
** * * *
887703 AAAAA----AAATTCAAATTTAAATGAGAAATTTTTCTCATTTTTCGAGAAACATGTGAAAACAT
129 AAAAATTTCATTTTCAAATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGAAAACAT
* * ** *
887764 CTTGCCCGAAAGTCTTACAGATGGCCTGAAGAACTTAT
194 CCTGCCCGAAAGTTTTATGGATGGCCTGAAGGACTTAT
* * * * *
887802 CATCTTGCTCGAAAGACTTACAGATGACCTGAAGAATTTAAGCATCAAGCTTGAAAGACTTACTG
1 CATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTG
* * * *
887867 ATTGCCCGAAGGAATTACCAATTTTGAAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCA
66 ATGGCCAGAAGGACTTACCAATTTTG-AAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTC-
* * *
887932 AAAAATTTCAATTTTCAACTTTAAAAGAGAAA-TGTTTCTTATTTTTT
129 AAAAATTTC-ATTTTCAAATTTAAATGAGAAACT-TTTCTCATTTTTT
887979 AACTTATAAA
Statistics
Matches: 749, Mismatches: 97, Indels: 40
0.85 0.11 0.05
Matches are distributed among these distances:
225 2 0.00
226 67 0.09
227 14 0.02
228 204 0.27
229 5 0.01
231 118 0.16
232 31 0.04
233 273 0.36
234 35 0.05
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (231 bp):
CATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTG
ATGGCCAGAAGGACTTACCAATTTTGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAA
AAATTTCATTTTCAAATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGAAAACATCC
TGCCCGAAAGTTTTATGGATGGCCTGAAGGACTTAT
Found at i:887822 original size:41 final size:42
Alignment explanation
Indices: 887761--887864 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 42
887751 CATGTGAAAA
* * * *
887761 CATCTTGCCCGAAAGTCTTACAGATGGCCTGAAGAACTT-AT
1 CATCTTGCTCGAAAGACTTACAGATGACCTGAAGAACTTAAG
*
887802 CATCTTGCTCGAAAGACTTACAGATGACCTGAAGAATTTAAG
1 CATCTTGCTCGAAAGACTTACAGATGACCTGAAGAACTTAAG
** *
887844 CATCAAGCTTGAAAGACTTAC
1 CATCTTGCTCGAAAGACTTAC
887865 TGATTGCCCG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
41 35 0.65
42 19 0.35
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (42 bp):
CATCTTGCTCGAAAGACTTACAGATGACCTGAAGAACTTAAG
Found at i:890072 original size:24 final size:24
Alignment explanation
Indices: 890045--890156 Score: 116
Period size: 24 Copynumber: 4.5 Consensus size: 24
890035 TTTATTTCTC
890045 TTTTTCTTTTTTTTTTTTTTTTTTT
1 TTTTTC-TTTTTTTTTTTTTTTTTT
* *
890070 TTTTTCTTTTTTTCTTTTTCTTTT
1 TTTTTCTTTTTTTTTTTTTTTTTT
* * * *
890094 TTTTTATTTTTTCTCTTTTATTTT
1 TTTTTCTTTTTTTTTTTTTTTTTT
* * *
890118 TTTTTATTTTTTTTCTATATTTTTTC
1 TTTTTCTTTTTTTT-T-TTTTTTTTT
890144 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
890157 ATCTTTTCTC
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
24 48 0.67
25 6 0.08
26 18 0.25
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (24 bp):
TTTTTCTTTTTTTTTTTTTTTTTT
Found at i:890154 original size:58 final size:56
Alignment explanation
Indices: 890045--890173 Score: 181
Period size: 58 Copynumber: 2.3 Consensus size: 56
890035 TTTATTTCTC
* *
890045 TTTTTCT-TTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTCTTTTTCTTTTTTTTTAT
1 TTTTTCTCTTTTTTTTTTTTTTTTTTTTTCTATTTTTTTCTTTTTC-TTTTTTTTAT
890101 TTTTTCTCTTTTATTTTTTTTTATTTTTTTTCTATATTTTTTCTTTTTC-TTTTTTTAT
1 TTTTTCTCTTTT-TTTTTTTTT-TTTTTTTTCTAT-TTTTTTCTTTTTCTTTTTTTTAT
*
890159 CTTTTCTCTTTTTTT
1 TTTTTCTCTTTTTTT
890174 AATGACTTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
56 7 0.11
57 7 0.11
58 29 0.44
59 10 0.15
60 13 0.20
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (56 bp):
TTTTTCTCTTTTTTTTTTTTTTTTTTTTTCTATTTTTTTCTTTTTCTTTTTTTTAT
Found at i:890163 original size:23 final size:21
Alignment explanation
Indices: 890051--890173 Score: 117
Period size: 23 Copynumber: 5.6 Consensus size: 21
890041 TCTCTTTTTC
890051 TTTTT-TTTTTTTTTTTT-TT
1 TTTTTCTTTTTTTTTTTTATT
*
890070 TTTTTCTTTTTTTCTTTTTCTT
1 TTTTTCTTTTTTT-TTTTTATT
*
890092 TTTTTTTATTTTTTCTCTTTTATT
1 TTTTTCT-TTTTTT-T-TTTTATT
*
890116 TTTTT-TTATTTTTTTTCTATAT
1 TTTTTCTT-TTTTTTTTTTAT-T
890138 TTTTTCTTTTTCTTTTTTTATCT
1 TTTTTCTTTTT-TTTTTTTAT-T
*
890161 TTTCTCTTTTTTT
1 TTTTTCTTTTTTT
890174 AATGACTTTG
Statistics
Matches: 89, Mismatches: 6, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
19 5 0.06
20 7 0.08
21 10 0.11
22 21 0.24
23 35 0.39
24 11 0.12
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTTCTTTTTTTTTTTTATT
Found at i:890170 original size:14 final size:12
Alignment explanation
Indices: 890043--890171 Score: 87
Period size: 11 Copynumber: 11.1 Consensus size: 12
890033 ATTTTATTTC
890043 TCTTTTTCTTTT
1 TCTTTTTCTTTT
890055 T-TTTTT-TTTT
1 TCTTTTTCTTTT
890065 T-TTTTT-TTTT
1 TCTTTTTCTTTT
*
890075 CTTTTTTTCTTTT
1 -TCTTTTTCTTTT
890088 TCTTTTT-TTTT
1 TCTTTTTCTTTT
890099 AT-TTTTTCTCTTT
1 -TCTTTTTCT-TTT
* *
890112 TATTTTTTTTTAT
1 TCTTTTTCTTT-T
* * *
890125 TTTTTTTCTATA
1 TCTTTTTCTTTT
890137 T-TTTTTCTTTT
1 TCTTTTTCTTTT
*
890148 TC-TTTT-TTTA
1 TCTTTTTCTTTT
890158 TCTTTTCTCTTTT
1 TCTTTT-TCTTTT
890171 T
1 T
890172 TTAATGACTT
Statistics
Matches: 95, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
10 19 0.20
11 31 0.33
12 19 0.20
13 26 0.27
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (12 bp):
TCTTTTTCTTTT
Found at i:890173 original size:1 final size:1
Alignment explanation
Indices: 890045--890156 Score: 98
Period size: 1 Copynumber: 112.0 Consensus size: 1
890035 TTTATTTCTC
* * * * * * *
890045 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTCTTTTTCTTTTTTTTTATTTTTTCTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
890110 TTTATTTTTTTTTATTTTTTTTCTATATTTTTTCTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
890157 ATCTTTTCTC
Statistics
Matches: 83, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:897193 original size:28 final size:26
Alignment explanation
Indices: 897161--897234 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 26
897151 AATTACAAAT
897161 AATTAAAATAAATAAAA-CATGGGGACTA
1 AATTAAAATAAATAAAATCAT--GGAC-A
897189 AATTAAAATAAATTAAAATTGCATGGACA
1 AATTAAAATAAA-TAAAA-T-CATGGACA
897218 AATTAAAATAAATAAAA
1 AATTAAAATAAATAAAA
897235 AAGATTCGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
28 17 0.40
29 18 0.43
30 4 0.10
32 3 0.07
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.24
Consensus pattern (26 bp):
AATTAAAATAAATAAAATCATGGACA
Found at i:898656 original size:81 final size:80
Alignment explanation
Indices: 898589--898757 Score: 313
Period size: 81 Copynumber: 2.1 Consensus size: 80
898579 TATTGTACAC
898589 ATTA-TATCAGATTATTCAAAATAAATACATTATAAATATTTAAATTAATAATATCATTAATTGT
1 ATTAGTATCAGATTATTCAAAATAAATACATTATAAATATTTAAATTAATAATATCATTAATTGT
898653 ATCTTAACCGATTTGT
66 ATCTTAA-CGATTTGT
898669 ATTAGTATCAGATTATTCAAAATAAATACATTATAAATATTTAAATTAATAATATCATTAATTGT
1 ATTAGTATCAGATTATTCAAAATAAATACATTATAAATATTTAAATTAATAATATCATTAATTGT
898734 ATCTTAACCGATTTGT
66 ATCTTAA-CGATTTGT
898750 ATTAGTAT
1 ATTAGTAT
898758 TACTAGGACA
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 4 0.05
81 84 0.95
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (80 bp):
ATTAGTATCAGATTATTCAAAATAAATACATTATAAATATTTAAATTAATAATATCATTAATTGT
ATCTTAACGATTTGT
Found at i:900789 original size:48 final size:49
Alignment explanation
Indices: 900737--900831 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 49
900727 TGTTATGACA
900737 ATAATATTAATGCTAAACGGGTAAAAATTAAAA-AAAAATTATGGTGTC
1 ATAATATTAATGCTAAACGGGTAAAAATTAAAAGAAAAATTATGGTGTC
900785 ATAATATTAATGCTAAACGGGTAAAAATTAAAAGAAAAATTATGGTG
1 ATAATATTAATGCTAAACGGGTAAAAATTAAAAGAAAAATTATGGTG
900832 GAAACATAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 33 0.72
49 13 0.28
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (49 bp):
ATAATATTAATGCTAAACGGGTAAAAATTAAAAGAAAAATTATGGTGTC
Found at i:901074 original size:19 final size:18
Alignment explanation
Indices: 901033--901073 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
901023 TAATAGTGAG
901033 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
901051 TTATTAT-AATTATATTT
1 TTATTATAAAATATATTT
901068 TT-TTAT
1 TTATTAT
901074 TTGTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 11 0.50
18 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:901082 original size:14 final size:15
Alignment explanation
Indices: 901049--901090 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
901039 TAAAATATAT
* *
901049 TTTTATTATAATTATA
1 TTTT-TTATATTTGTA
901065 TTTTTT-TATTTGTA
1 TTTTTTATATTTGTA
901079 TTTTTTATATTT
1 TTTTTTATATTT
901091 TAAATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 7 0.30
16 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTTTATATTTGTA
Found at i:903055 original size:17 final size:18
Alignment explanation
Indices: 903022--903061 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
903012 TAATAGTGAG
903022 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
903040 TTATTAT-AATTATATTT
1 TTATTATAAAATATATTT
903057 TTATT
1 TTATT
903062 TGTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:904659 original size:13 final size:13
Alignment explanation
Indices: 904635--904678 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
904625 TTTAGTAATT
904635 TTAAGATTTTGAAA
1 TTAAG-TTTTGAAA
904649 TTAAGTTTTGAAA
1 TTAAGTTTTGAAA
**
904662 TTACTCTTTTGAAA
1 TTA-AGTTTTGAAA
904676 TTA
1 TTA
904679 CTCCCCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (13 bp):
TTAAGTTTTGAAA
Found at i:904671 original size:14 final size:14
Alignment explanation
Indices: 904641--904681 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
904631 AATTTTAAGA
**
904641 TTTTGAAATTA-AG
1 TTTTGAAATTACTC
904654 TTTTGAAATTACTC
1 TTTTGAAATTACTC
904668 TTTTGAAATTACTC
1 TTTTGAAATTACTC
904682 CCCCCTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (14 bp):
TTTTGAAATTACTC
Found at i:904732 original size:69 final size:65
Alignment explanation
Indices: 904649--904775 Score: 209
Period size: 66 Copynumber: 1.9 Consensus size: 65
904639 GATTTTGAAA
904649 TTAAGTTTTGAAATTACTCTTTTGAAATTACTCCCCCCTTACTTTAACACTTCTCCCATTTTGTA
1 TTAAGTTTTGAAATTACTCTTTTGAAATTA---CCCCCTTACTTTAACACTTCTCCCATTTTGTA
904714 ATT
63 ATT
*
904717 TTAAGATTTTGAAATTACTCTTTTGAAATTACCCCTTTACTTTAACACTTCTCCCATTT
1 TTAAG-TTTTGAAATTACTCTTTTGAAATTACCCCCTTACTTTAACACTTCTCCCATTT
904776 ATCATTTAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
66 27 0.47
68 5 0.09
69 25 0.44
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (65 bp):
TTAAGTTTTGAAATTACTCTTTTGAAATTACCCCCTTACTTTAACACTTCTCCCATTTTGTAATT
Found at i:906887 original size:20 final size:20
Alignment explanation
Indices: 906850--906888 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
906840 AGATTGAGTG
* * *
906850 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
906870 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
906889 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:914449 original size:60 final size:60
Alignment explanation
Indices: 914317--914454 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 60
914307 TAACATATGA
* * * *
914317 ATAGTTGGGTGACTATTTTGTAAATTTTAATAGTTGAGGGACTCAACAAAGCAACATCCT
1 ATAGTCGGGAGACAATTTTGTAAATTTTAATAGTTGAGAGACTCAACAAAGCAACATCCT
** * * * * **
914377 ATAGTCAAGAGACCATTTTGTAACTTTTAATAGTT-ATGAGACTGAACAAATCATTATCCT
1 ATAGTCGGGAGACAATTTTGTAAATTTTAATAGTTGA-GAGACTCAACAAAGCAACATCCT
914437 ATAGTCGGGAGACAATTT
1 ATAGTCGGGAGACAATTT
914455 GTGTTCTTTA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
59 1 0.02
60 62 0.98
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (60 bp):
ATAGTCGGGAGACAATTTTGTAAATTTTAATAGTTGAGAGACTCAACAAAGCAACATCCT
Found at i:914681 original size:2 final size:2
Alignment explanation
Indices: 914674--914718 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
914664 GGGTAACATT
*
914674 TA TA TA TA TA TA TA TA TA TT 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
914716 TA T
1 TA T
914719 TCAAAATACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:919409 original size:37 final size:37
Alignment explanation
Indices: 919362--919467 Score: 115
Period size: 37 Copynumber: 2.9 Consensus size: 37
919352 AAAAAGTCGG
* * * *
919362 GTCGGATGAAGGGTATATATTTTTCGAGTCGGATC-A
1 GTCGGGTGAAGGATATAAAATTTTCGAGTCGGATCGA
* * *
919398 GATCGGGTGAAGGATGTAAAATTTTCGGGTCGGGTCGA
1 G-TCGGGTGAAGGATATAAAATTTTCGAGTCGGATCGA
* *
919436 GTCGGGTGAAGGATGTAAAATTTTCGGGTCGG
1 GTCGGGTGAAGGATATAAAATTTTCGAGTCGG
919468 GTCATCCGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.02
37 58 0.95
38 2 0.03
ACGTcount: A:0.24, C:0.10, G:0.37, T:0.29
Consensus pattern (37 bp):
GTCGGGTGAAGGATATAAAATTTTCGAGTCGGATCGA
Found at i:919468 original size:37 final size:37
Alignment explanation
Indices: 919382--919471 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
919372 GGGTATATAT
* *
919382 TTTTCGAGTCGGATCAGATCGGGTGAAGGATGTAAAA
1 TTTTCGGGTCGGGTCAGATCGGGTGAAGGATGTAAAA
919419 TTTTCGGGTCGGGTC-GAGTCGGGTGAAGGATGTAAAA
1 TTTTCGGGTCGGGTCAGA-TCGGGTGAAGGATGTAAAA
919456 TTTTCGGGTCGGGTCA
1 TTTTCGGGTCGGGTCA
919472 TCCGAAACCC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
36 2 0.04
37 47 0.96
ACGTcount: A:0.22, C:0.12, G:0.37, T:0.29
Consensus pattern (37 bp):
TTTTCGGGTCGGGTCAGATCGGGTGAAGGATGTAAAA
Found at i:921489 original size:2 final size:2
Alignment explanation
Indices: 921482--921512 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
921472 AATTAGTGAG
921482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
921513 CTATGACCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:921998 original size:5 final size:5
Alignment explanation
Indices: 921990--922026 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
921980 ATATAAGCAA
*
921990 AAAAT AAAAT ATAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
922027 GCTTGTGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:923684 original size:24 final size:23
Alignment explanation
Indices: 923657--923774 Score: 75
Period size: 24 Copynumber: 5.1 Consensus size: 23
923647 ATATAAAATT
*
923657 AAATATCTATAATATAATATTAAA
1 AAATATATATAAT-TAATATTAAA
* *
923681 AAATTAATATTTAATTTAT-TTAAA
1 AAA-T-ATATATAATTAATATTAAA
* *
923705 AAAT-TA-AT-ATTAAAATTAAT
1 AAATATATATAATTAATATTAAA
*
923725 ATATATATATAATATAATATTAAA
1 AAATATATATAAT-TAATATTAAA
* *
923749 AAATTAATATTTAATTTAT-TTAAA
1 AAA-T-ATATATAATTAATATTAAA
923773 AA
1 AA
923775 TTAATATTAA
Statistics
Matches: 72, Mismatches: 13, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.06
20 8 0.11
21 4 0.06
22 2 0.03
23 3 0.04
24 28 0.39
25 8 0.11
26 15 0.21
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATATATAATTAATATTAAA
Found at i:923696 original size:68 final size:64
Alignment explanation
Indices: 923624--923809 Score: 238
Period size: 68 Copynumber: 2.8 Consensus size: 64
923614 AAAATTTTAA
923624 TAATTTA-TAAAATAATTTATATGATATAAAATTAAATATCTATAATATAATATTAAAAAATTAA
1 TAATTTATTAAAA-AA-TTA-AT-AT-TAAAATTAAATATCTATAATATAATATTAAAAAATTAA
923688 TATT
61 TATT
*
923692 TAATTTATTTAAAAAATTAATATTAAAATTAATATATATATATAATATAATATTAAAAAATTAAT
1 TAATTTA-TTAAAAAATTAATATTAAAATT-A-A-ATATCTATAATATAATATTAAAAAATTAAT
923757 ATT
62 ATT
*
923760 TAATTTATTTAAAAATTAATATTAAAATTAAA-ATC-A-AATATAATA-TAAAA
1 TAATTTATTAAAAAATTAATATTAAAATTAAATATCTATAATATAATATTAAAA
923810 TTAAATATAA
Statistics
Matches: 110, Mismatches: 3, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
60 5 0.05
61 9 0.08
62 1 0.01
63 2 0.02
64 1 0.01
65 8 0.07
66 4 0.04
67 24 0.22
68 49 0.45
69 2 0.02
70 5 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (64 bp):
TAATTTATTAAAAAATTAATATTAAAATTAAATATCTATAATATAATATTAAAAAATTAATATT
Found at i:923788 original size:24 final size:24
Alignment explanation
Indices: 923742--923785 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
923732 TATAATATAA
*
923742 TATT-AAAAAATTAATATTTAATT
1 TATTAAAAAAATTAATATTAAATT
*
923765 TATT-TAAAAATTAATATTAAA
1 TATTAAAAAAATTAATATTAAA
923786 ATTAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TATTAAAAAAATTAATATTAAATT
Found at i:923816 original size:12 final size:12
Alignment explanation
Indices: 923771--923821 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
923761 AATTTATTTA
923771 AAAATT-AATATT
1 AAAATTAAATA-T
923783 AAAATTAAA-AT
1 AAAATTAAATAT
*
923794 CAAA-TATAATAT
1 AAAATTA-AATAT
923806 AAAATTAAATAT
1 AAAATTAAATAT
923818 AAAA
1 AAAA
923822 CCTTTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:924107 original size:27 final size:28
Alignment explanation
Indices: 924077--924150 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
924067 TTGAATTTAA
* *
924077 CAAAATGACCGAAATACCTTTAAA-CTT
1 CAAAATGATCGAAATACCCTTAAACCTT
924104 CAAAATGATCGAAATACCCTTAAACCTT
1 CAAAATGATCGAAATACCCTTAAACCTT
*
924132 -AAAATGATCAAAATACCCT
1 CAAAATGATCGAAATACCCT
924151 CGAACTCTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 40 0.93
28 3 0.07
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (28 bp):
CAAAATGATCGAAATACCCTTAAACCTT
Found at i:924223 original size:43 final size:43
Alignment explanation
Indices: 924162--924244 Score: 141
Period size: 43 Copynumber: 1.9 Consensus size: 43
924152 GAACTCTGAA
924162 ATGACTAAATTAACCTTGAGTACCAAATGACCTAAATACCCTT
1 ATGACTAAATTAACCTTGAGTACCAAATGACCTAAATACCCTT
*
924205 ATGACCTAAATT-ATCTTGAGTACCAAATGACCTAAATACC
1 ATGA-CTAAATTAACCTTGAGTACCAAATGACCTAAATACC
924245 ATAAGAAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 31 0.82
44 7 0.18
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (43 bp):
ATGACTAAATTAACCTTGAGTACCAAATGACCTAAATACCCTT
Found at i:924591 original size:32 final size:32
Alignment explanation
Indices: 924553--924623 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
924543 TATGAATGTT
924553 TTTTTTTCTGAACTTGTATTTTTATTTATAAA
1 TTTTTTTCTGAACTTGTATTTTTATTTATAAA
924585 TTTTTTTCTGAACTTGTATTTTTATTTATAAA
1 TTTTTTTCTGAACTTGTATTTTTATTTATAAA
*
924617 TTGTTTT
1 TTTTTTT
924624 ACAGTTGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.23, C:0.06, G:0.07, T:0.65
Consensus pattern (32 bp):
TTTTTTTCTGAACTTGTATTTTTATTTATAAA
Found at i:925762 original size:41 final size:41
Alignment explanation
Indices: 925716--926022 Score: 256
Period size: 41 Copynumber: 7.3 Consensus size: 41
925706 AAACACAAAC
* * *
925716 GCCACTAATGTACAAGTCTTTAGCAATGTTTGTTTAAAAAT
1 GCCACTAAAGTACAAGTCTTTAGCAGTGTTTGTATAAAAAT
* * ** *
925757 GCCACTAAACACAAATGTACAAGTCCTTAGTAACGTTTGTATAAAAAC
1 GCCACT------AAA-GTACAAGTCTTTAGCAGTGTTTGTATAAAAAT
* * * * *
925805 GTCACTAAAGTACAAGTCTATAGCAGCGTTTATATAAAAAC
1 GCCACTAAAGTACAAGTCTTTAGCAGTGTTTGTATAAAAAT
** *
925846 GCCACTAAAGTATGAGTCTTTAGCGGTGTTTGTATAAAAAT
1 GCCACTAAAGTACAAGTCTTTAGCAGTGTTTGTATAAAAAT
* * * **
925887 GCTACTAAAGTATC-AGCCTTTAGCTGCATTTGTATAAAAAT
1 GCCACTAAAGTA-CAAGTCTTTAGCAGTGTTTGTATAAAAAT
* * * *
925928 GCTACTAAAATACGAGTCTTTAGCAGCGTTTGTATAAAAAT
1 GCCACTAAAGTACAAGTCTTTAGCAGTGTTTGTATAAAAAT
* * * * *
925969 GCCACTAAAGTACTAGTCTTTAGCGGTGTTTGAATACAAAC
1 GCCACTAAAGTACAAGTCTTTAGCAGTGTTTGTATAAAAAT
*
926010 GCCACTAATGTAC
1 GCCACTAAAGTAC
926023 TAATAAATTG
Statistics
Matches: 218, Mismatches: 39, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
40 1 0.00
41 180 0.83
42 3 0.01
47 2 0.01
48 32 0.15
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (41 bp):
GCCACTAAAGTACAAGTCTTTAGCAGTGTTTGTATAAAAAT
Found at i:925777 original size:48 final size:48
Alignment explanation
Indices: 925722--925813 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
925712 AAACGCCACT
* * * *
925722 AATGTACAAGTCTTTAGCAATGTTTGTTTAAAAATGCCACTAAACACA
1 AATGTACAAGTCCTTAGCAACGTTTGTATAAAAACGCCACTAAACACA
* *
925770 AATGTACAAGTCCTTAGTAACGTTTGTATAAAAACGTCACTAAA
1 AATGTACAAGTCCTTAGCAACGTTTGTATAAAAACGCCACTAAA
925814 GTACAAGTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (48 bp):
AATGTACAAGTCCTTAGCAACGTTTGTATAAAAACGCCACTAAACACA
Found at i:926017 original size:123 final size:123
Alignment explanation
Indices: 925792--926017 Score: 330
Period size: 123 Copynumber: 1.8 Consensus size: 123
925782 CTTAGTAACG
*
925792 TTTGTATAAAAACGTCACTAAAGTACAAGTCTATAGCAGCGTTTATATAAAAACGCCACTAAAGT
1 TTTGTATAAAAACGTCACTAAAATACAAGTCTATAGCAGCGTTTATATAAAAACGCCACTAAAGT
* * *
925857 ATGAGTCTTTAGCGGTGTTTGTATAAAAATGCTACTAAAGTATCAGCCTTTAGCTGCA
66 ATGAGTCTTTAGCGGTGTTTGAATAAAAACGCCACTAAAGTATCAGCCTTTAGCTGCA
* * * * *
925915 TTTGTATAAAAATG-CTACTAAAATACGAGTCTTTAGCAGCGTTTGTATAAAAATGCCACTAAAG
1 TTTGTATAAAAACGTC-ACTAAAATACAAGTCTATAGCAGCGTTTATATAAAAACGCCACTAAAG
*
925979 TACT-AGTCTTTAGCGGTGTTTGAATACAAACGCCACTAA
65 TA-TGAGTCTTTAGCGGTGTTTGAATAAAAACGCCACTAA
926018 TGTACTAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
122 1 0.01
123 89 0.98
124 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (123 bp):
TTTGTATAAAAACGTCACTAAAATACAAGTCTATAGCAGCGTTTATATAAAAACGCCACTAAAGT
ATGAGTCTTTAGCGGTGTTTGAATAAAAACGCCACTAAAGTATCAGCCTTTAGCTGCA
Found at i:926203 original size:41 final size:41
Alignment explanation
Indices: 925790--926204 Score: 299
Period size: 41 Copynumber: 10.1 Consensus size: 41
925780 TCCTTAGTAA
* * * *
925790 CGTTTGTATAAAAACGTCACTAAAGTACAAGTCTATAGCAG
1 CGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
* *
925831 CGTTTATATAAAAACGCCACTAAAGTATGAGTCTTTAGCGG
1 CGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
* * * * *
925872 TGTTTGTATAAAAATGCTACTAAAGTATC-AGCCTTTAGCTG
1 CGTTTGTATAAAAACGCCACTAAAGTA-CGAGTCTTTAGCGG
* * * * *
925913 CATTTGTATAAAAATGCTACTAAAATACGAGTCTTTAGCAG
1 CGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
* *
925954 CGTTTGTATAAAAATGCCACTAAAGTACTAGTCTTTAGCGG
1 CGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
* * * * * * **
925995 TGTTTGAATACAAACGCCACTAATGTACTAATAAATT-GCGG
1 CGTTTGTATAAAAACGCCACTAAAGTACGAGT-CTTTAGCGG
* * * * * * *
926036 TGTTTAT-TCAAAAAATGCCATTACAGTATGAATCTCTTA-CGG
1 CGTTTGTAT--AAAAACGCCACTAAAGTACGAGTCT-TTAGCGG
* * * *
926078 CATTT-T-TCAAAAACGCCATTATA-TACGTGTCCTATTA-CGG
1 CGTTTGTAT-AAAAACGCCACTAAAGTACGAGT-CT-TTAGCGG
* **
926118 CGTTTGTATAAAAACGCCACTAAAGTACGCA-TTTTTAGTAG
1 CGTTTGTATAAAAACGCCACTAAAGTACG-AGTCTTTAGCGG
* * *
926159 CGTTTATATAAAAATGCCACTAAAGTACGAGTATTTAGCGG
1 CGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
926200 CGTTT
1 CGTTT
926205 TTGCTTAAAA
Statistics
Matches: 297, Mismatches: 63, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
39 4 0.01
40 31 0.10
41 230 0.77
42 32 0.11
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (41 bp):
CGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
Found at i:930670 original size:21 final size:21
Alignment explanation
Indices: 930627--930699 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
930617 TTTTCCCAAT
** *
930627 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
*
930647 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
*
930668 TCGCAATGCAAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
*
930689 TCACAATGCGA
1 TCGCAATGCGA
930700 TACTGACTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 11 0.25
21 33 0.75
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTGGGAAAA
Found at i:930721 original size:20 final size:20
Alignment explanation
Indices: 930692--930802 Score: 89
Period size: 20 Copynumber: 5.5 Consensus size: 20
930682 GGGAAAATCA
930692 CAATGCGATACTGACTATCG
1 CAATGCGATACTGACTATCG
* *
930712 CAATGTGATACTTACTATCG
1 CAATGCGATACTGACTATCG
* *
930732 CAATGCGATAAT-ACAAAATCG
1 CAATGCGATACTGAC--TATCG
* * *
930753 CAACGAGATACTGACTTTCG
1 CAATGCGATACTGACTATCG
* * * *
930773 CAACGCGATTCTAACTTTCG
1 CAATGCGATACTGACTATCG
*
930793 CAACGCGATA
1 CAATGCGATA
930803 ATACATAATC
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.03
20 57 0.77
21 13 0.18
22 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (20 bp):
CAATGCGATACTGACTATCG
Found at i:930750 original size:61 final size:61
Alignment explanation
Indices: 930685--930822 Score: 168
Period size: 61 Copynumber: 2.3 Consensus size: 61
930675 GCAAATTGGG
* * * * *
930685 AAAATCACAATGCGATACTGACTATCGCAATGTGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTAACTATCGCAACGCGATAATAC
* * * * *
930746 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTAACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTAACTATCGCAACGCGATAATAC
* *
930807 ATAATCGCAATACGAT
1 AAAATCGCAATGCGAT
930823 TTTCAAAGCG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (61 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTAACTATCGCAACGCGATAATAC
Found at i:931018 original size:22 final size:22
Alignment explanation
Indices: 930990--931033 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
930980 CACTCTCTCA
930990 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
931012 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
931034 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Done.