Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005223.1 Hibiscus syriacus cultivar Beakdansim tig00011824_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: 548742
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 2 of 3
Found at i:197616 original size:6 final size:6
Alignment explanation
Indices: 197605--197629 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
197595 GACACGTATT
197605 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
197630 TGGGACGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:198591 original size:40 final size:40
Alignment explanation
Indices: 198541--198618 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
198531 TTGGACCATC
198541 GTGTTGCGAATTTAACTTTCACGTAAAGAATTTGACTTCT
1 GTGTTGCGAATTTAACTTTCACGTAAAGAATTTGACTTCT
* *
198581 GTGTTGCGAATTTGACTTTCGCGTAAAGAATTTGACTT
1 GTGTTGCGAATTTAACTTTCACGTAAAGAATTTGACTT
198619 TCGCGTTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (40 bp):
GTGTTGCGAATTTAACTTTCACGTAAAGAATTTGACTTCT
Found at i:198627 original size:40 final size:39
Alignment explanation
Indices: 198497--198633 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
198487 TTTTGGAGTA
* *** * *
198497 TCGCGTTGCGAATTTCGACTATCGCGTTGCGATTTTGGACCA
1 TCGCGTTGCGAATTT-GACTTTCGCGTAAAGAATTT-GA-CT
* * *
198539 TCGTGTTGCGAATTTAACTTTCACGTAAAGAATTTGACT
1 TCGCGTTGCGAATTTGACTTTCGCGTAAAGAATTTGACT
*
198578 TCTGTGTTGCGAATTTGACTTTCGCGTAAAGAATTTGACTT
1 TC-GCGTTGCGAATTTGACTTTCGCGTAAAGAATTTGAC-T
*
198619 TCGCGTTGCAAATTT
1 TCGCGTTGCGAATTT
198634 AGAACCTGAG
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.04
40 47 0.59
41 16 0.20
42 14 0.17
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (39 bp):
TCGCGTTGCGAATTTGACTTTCGCGTAAAGAATTTGACT
Found at i:198632 original size:20 final size:20
Alignment explanation
Indices: 198497--198693 Score: 116
Period size: 20 Copynumber: 9.8 Consensus size: 20
198487 TTTTGGAGTA
*
198497 TCGCGTTGCGAATTTCGACTA
1 TCGCGTTGCGAATTT-GACTT
* **
198518 TCGCGTTGCGATTTTGGACCA
1 TCGCGTTGCGAATTT-GACTT
* *
198539 TCGTGTTGCGAATTTAACTT
1 TCGCGTTGCGAATTTGACTT
* ***
198559 TCACGTAAAGAATTTGAC-T
1 TCGCGTTGCGAATTTGACTT
*
198578 TCTGTGTTGCGAATTTGACTT
1 TC-GCGTTGCGAATTTGACTT
***
198599 TCGCGTAAAGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
* *
198619 TCGCGTTGCAAATTTAGAAC-C
1 TCGCGTTGCGAATTT-G-ACTT
* *
198640 T-GAGTTGCGAAATTTGA-AT
1 TCGCGTTGCG-AATTTGACTT
* **
198659 TCGCGTTGCGAATATGA-GA
1 TCGCGTTGCGAATTTGACTT
198678 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
198694 TTGGTTATTT
Statistics
Matches: 133, Mismatches: 36, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
19 26 0.20
20 64 0.48
21 41 0.31
22 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTT
Found at i:199340 original size:26 final size:26
Alignment explanation
Indices: 199304--199360 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
199294 GGCAACGTAC
*
199304 AGCGCTGAAGTGGCTATTCAAATCGA
1 AGCGCTGAAGTCGCTATTCAAATCGA
199330 AGCGCTGAAGTCGCTATTCAAATCGA
1 AGCGCTGAAGTCGCTATTCAAATCGA
199356 AGCGC
1 AGCGC
199361 AACAGCGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (26 bp):
AGCGCTGAAGTCGCTATTCAAATCGA
Found at i:199848 original size:2 final size:2
Alignment explanation
Indices: 199841--199874 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
199831 TTATTATTAC
199841 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
199875 TACATATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:201270 original size:18 final size:18
Alignment explanation
Indices: 201249--201285 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
201239 AATACTGATG
201249 GGACCATAGAAACTGTTA
1 GGACCATAGAAACTGTTA
201267 GGACCATAGAAACTGTTA
1 GGACCATAGAAACTGTTA
201285 G
1 G
201286 CGTTCCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (18 bp):
GGACCATAGAAACTGTTA
Found at i:202342 original size:43 final size:43
Alignment explanation
Indices: 202207--202416 Score: 230
Period size: 42 Copynumber: 5.0 Consensus size: 43
202197 CGTTTGAGAA
* * * * *
202207 CAAAAAACACCGCAATAGGTCAATATCTATTGCGGCATTT-TT
1 CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTTGTT
* * * * *
202249 GAACAAACGCCGCAAAAGGTCGAGATCTAT-GCGGCGTTTGTT
1 CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTTGTT
*
202291 CAAAAAACGCCGCAATAGGTAAAGATATATAGCGGCGTTT-TT
1 CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTTGTT
* * * *
202333 GGAACAAACGTCGCAAAAGGTC-AGATATATAGCGGCGTTTGTT
1 -CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTTGTT
* *
202376 CAAAAAATGCTGCAATAGGTCAAGATATATAGCGGCGTTTG
1 CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTTG
202417 CAAAAGGTTA
Statistics
Matches: 139, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
41 8 0.06
42 85 0.61
43 46 0.33
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (43 bp):
CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTTGTT
Found at i:202368 original size:85 final size:84
Alignment explanation
Indices: 202207--202415 Score: 303
Period size: 85 Copynumber: 2.5 Consensus size: 84
202197 CGTTTGAGAA
* * * * *
202207 CAAAAAACACCGCAATAGGTCAATATCTATTGCGGCATTTTTGAACAAACGCCGCAAAAGGTCGA
1 CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTTTTGAACAAACGCCGCAAAAGGTCGA
*
202272 GATCTATGCGGCGTTTGTT
66 GATATATGCGGCGTTTGTT
* *
202291 CAAAAAACGCCGCAATAGGTAAAGATATATAGCGGCGTTTTTGGAACAAACGTCGCAAAAGGTC-
1 CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTTTT-GAACAAACGCCGCAAAAGGTCG
202355 AGATATATAGCGGCGTTTGTT
65 AGATATAT-GCGGCGTTTGTT
* *
202376 CAAAAAATGCTGCAATAGGTCAAGATATATAGCGGCGTTT
1 CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTT
202416 GCAAAAGGTT
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
84 43 0.38
85 69 0.62
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (84 bp):
CAAAAAACGCCGCAATAGGTCAAGATATATAGCGGCGTTTTTGAACAAACGCCGCAAAAGGTCGA
GATATATGCGGCGTTTGTT
Found at i:202486 original size:71 final size:71
Alignment explanation
Indices: 202345--202478 Score: 187
Period size: 71 Copynumber: 1.9 Consensus size: 71
202335 AACAAACGTC
* * * *
202345 GCAAAAGGTCAGATATATAGCGGCGTTTGTTCAAAAAATGCTGCAATAGGTCAAGATATATAGCG
1 GCAAAAGGTCAGACATATAGCGGAGTTTGTTCAAAAAACGCCGCAATAGGTCAAGATATATAGCG
202410 GCGTTT
66 GCGTTT
* * * * *
202416 GCAAAAGGTTAGACATTTAGCGGAGTTTGTTCAAAAACCGCCGCAATATGTCAATATATATAG
1 GCAAAAGGTCAGACATATAGCGGAGTTTGTTCAAAAAACGCCGCAATAGGTCAAGATATATAG
202479 TTGCGTTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 54 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (71 bp):
GCAAAAGGTCAGACATATAGCGGAGTTTGTTCAAAAAACGCCGCAATAGGTCAAGATATATAGCG
GCGTTT
Found at i:202552 original size:156 final size:155
Alignment explanation
Indices: 202279--202570 Score: 365
Period size: 156 Copynumber: 1.9 Consensus size: 155
202269 CGAGATCTAT
*
202279 GCGGCGTTTGTTCAAAAAACGCCGCAATAGGTAAAGATATATAGCGGCGTTTTTGGAACAAACGT
1 GCGGAGTTTGTTCAAAAAACGCCGCAATAGGTAAAGATATATAGCGGCGTTTTTGGAACAAACGT
* * *
202344 CGCAAAAGGTCAGATATATAGCGGCGTTTGTTCAAAAAATGCTGCAATAGGTCAAGATATATAGC
66 CGCAAAAGGTCAGATATATAGCGGCGTTTGTTCAAAAAACGCCGCAATAGGTC-AGATATATAAC
202409 GGCGTTTGCAAAAGGTTAGACATTTA
130 GGCGTTTGCAAAAGGTTAGACATTTA
* * * * ** *
202435 GCGGAGTTTGTTCAAAAACCGCCGCAATATGTCAATATATATAGTTGCGTTTTTTGAACAAACG-
1 GCGGAGTTTGTTCAAAAAACGCCGCAATAGGTAAAGATATATAGCGGCGTTTTTGGAACAAACGT
** * * * * *
202499 CTTTAAAAGGTTAGATCTATAGCGGCGTTT-TTGGAACAAACGCCGCTAA-AGGTCAGATCTATA
66 C-GCAAAAGGTCAGATATATAGCGGCGTTTGTT-CAAAAAACGCCGC-AATAGGTCAGATATATA
202562 ACGGCGTTT
128 ACGGCGTTT
202571 TTTTGGTACA
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
155 19 0.17
156 94 0.82
157 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (155 bp):
GCGGAGTTTGTTCAAAAAACGCCGCAATAGGTAAAGATATATAGCGGCGTTTTTGGAACAAACGT
CGCAAAAGGTCAGATATATAGCGGCGTTTGTTCAAAAAACGCCGCAATAGGTCAGATATATAACG
GCGTTTGCAAAAGGTTAGACATTTA
Found at i:202617 original size:44 final size:43
Alignment explanation
Indices: 202481--202631 Score: 180
Period size: 42 Copynumber: 3.5 Consensus size: 43
202471 ATATATAGTT
***
202481 GCGTTTTTTGAACAAACGCTTTAAAAGGT-TAGATCTATAGCG
1 GCGTTTTTTGAACAAACGCCGCAAAAGGTCTAGATCTATAGCG
* * *
202523 GCGTTTTTGGAACAAACGCCGCTAAAGGTC-AGATCTATAACG
1 GCGTTTTTTGAACAAACGCCGCAAAAGGTCTAGATCTATAGCG
* * * *
202565 GCGTTTTTTTGGTACAAACGCCGCAAAAGATCTAGGTCTATAGTG
1 GCG-TTTTTT-GAACAAACGCCGCAAAAGGTCTAGATCTATAGCG
202610 GCGTTTTTTGAACAAACGCCGC
1 GCGTTTTTTGAACAAACGCCGC
202632 TAATTACCTT
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
42 38 0.42
43 17 0.19
44 24 0.26
45 12 0.13
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
GCGTTTTTTGAACAAACGCCGCAAAAGGTCTAGATCTATAGCG
Found at i:205513 original size:41 final size:41
Alignment explanation
Indices: 205464--205604 Score: 221
Period size: 41 Copynumber: 3.4 Consensus size: 41
205454 TTTGTAAATG
*
205464 AAAACGCCACTAAAGTACGAGTTTATAGTGGCATTTGTATA
1 AAAACGCCACTAAAGTACGAGTTTATAGTGGCGTTTGTATA
205505 AAAACGCCACTAAAGTACGAGTTTATAGTGGCGTTTGTATA
1 AAAACGCCACTAAAGTACGAGTTTATAGTGGCGTTTGTATA
* * *
205546 AAAACGCCACTAAAATACAAGTCTATAGTGGCGTTTGTAT-
1 AAAACGCCACTAAAGTACGAGTTTATAGTGGCGTTTGTATA
*
205586 AAAACTGCCGCTAAAGTAC
1 AAAAC-GCCACTAAAGTAC
205605 TACTCTTTAG
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 5 0.05
41 88 0.95
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (41 bp):
AAAACGCCACTAAAGTACGAGTTTATAGTGGCGTTTGTATA
Found at i:205622 original size:41 final size:41
Alignment explanation
Indices: 205464--205636 Score: 190
Period size: 41 Copynumber: 4.2 Consensus size: 41
205454 TTTGTAAATG
* *
205464 AAAACGCCACTAAAGTACGAGT-TTATAGTGGCATTTGTATA
1 AAAACGCCACTAAAGTACAAGTCTT-TAGTGGCGTTTGTATA
*
205505 AAAACGCCACTAAAGTACGAGT-TTATAGTGGCGTTTGTATA
1 AAAACGCCACTAAAGTACAAGTCTT-TAGTGGCGTTTGTATA
* *
205546 AAAACGCCACTAAAATACAAGTCTATAGTGGCGTTTGTAT-
1 AAAACGCCACTAAAGTACAAGTCTTTAGTGGCGTTTGTATA
* * * * * *
205586 AAAACTGCCGCTAAAGTACTACTCTTTAGCGTCGTTTGTCAAA
1 AAAAC-GCCACTAAAGTACAAGTCTTTAGTGGCGTTTGT-ATA
205629 AAAACGCC
1 AAAACGCC
205637 GCTATACATG
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
40 5 0.04
41 101 0.87
42 5 0.04
43 5 0.04
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (41 bp):
AAAACGCCACTAAAGTACAAGTCTTTAGTGGCGTTTGTATA
Found at i:205622 original size:82 final size:83
Alignment explanation
Indices: 205464--205721 Score: 228
Period size: 82 Copynumber: 3.1 Consensus size: 83
205454 TTTGTAAATG
* * * *
205464 AAAACGCCACTAAAGTACGAGTTTATAGTGGCATTTGTATAAAAACGCCACTAAAGTACGAGTTT
1 AAAACGCCACTAAAATACAAGTCTATAGTGGCATTTGTATAAAAACGCCACTAAAGTACGACTTT
* *
205529 ATAGTGGCGTTTGT-ATA
66 ATAGCGGCGTTTGTCAAA
* * *
205546 AAAACGCCACTAAAATACAAGTCTATAGTGGCGTTTGTAT-AAAACTGCCGCTAAAGTACTACTC
1 AAAACGCCACTAAAATACAAGTCTATAGTGGCATTTGTATAAAAAC-GCCACTAAAGTACGACT-
*
205610 TT-TAGCGTCGTTTGTCAAA
64 TTATAGCGGCGTTTGTCAAA
* ** * * * * * *
205629 AAAACGCCGCT---ATACATGACCCTATTA-CGGCATTTTTATAAAAACGCCTCTACAGGACTAC
1 AAAACGCCACTAAAATACA--AGTCTA-TAGTGGCATTTGTATAAAAACGCCACTAAAGTACGAC
205690 TCTT-TAGCGGCGTTTGTC-AA
63 T-TTATAGCGGCGTTTGTCAAA
205710 AAAACGCCACTA
1 AAAACGCCACTA
205722 TACATGACCA
Statistics
Matches: 147, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
80 5 0.03
81 17 0.12
82 104 0.71
83 21 0.14
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAACGCCACTAAAATACAAGTCTATAGTGGCATTTGTATAAAAACGCCACTAAAGTACGACTTT
ATAGCGGCGTTTGTCAAA
Found at i:205740 original size:40 final size:39
Alignment explanation
Indices: 205618--205744 Score: 105
Period size: 41 Copynumber: 3.1 Consensus size: 39
205608 TCTTTAGCGT
* *
205618 CGTTTGTCAAAAAAACGCCGCTATACATGACCCTATTACGG
1 CGTTTGTC-AAAAAACGCC-CTATACATGACCATATTGCGG
* * * * * *
205659 CATTT-TTATAAAAACG-CCTCTACAGGACTACTCTTTAGCGG
1 CGTTTGTCA-AAAAACGCCCTATACATGACCA-T-ATT-GCGG
205700 CGTTTGTCAAAAAACGCCACTATACATGACCATATTGCGG
1 CGTTTGTCAAAAAACGCC-CTATACATGACCATATTGCGG
205740 CGTTT
1 CGTTT
205745 TTTATAAAAA
Statistics
Matches: 65, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
38 9 0.14
39 3 0.05
40 19 0.29
41 20 0.31
42 4 0.06
43 10 0.15
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (39 bp):
CGTTTGTCAAAAAACGCCCTATACATGACCATATTGCGG
Found at i:205754 original size:41 final size:40
Alignment explanation
Indices: 205628--205755 Score: 109
Period size: 40 Copynumber: 3.1 Consensus size: 40
205618 CGTTTGTCAA
* * *
205628 AAAAACGCCGCTATACATGACCCTATTACGGC-ATTTTTAT
1 AAAAACGCC-CTATACATGACCATATTGCGGCGTTTTTTAT
* * * * * *
205668 AAAAACG-CCTCTACAGGACTACTCTTTAGCGGCGTTTGTCA-
1 AAAAACGCCCTATACATGACCA-T-ATT-GCGGCGTTTTTTAT
205709 AAAAACGCCACTATACATGACCATATTGCGGCGTTTTTTAT
1 AAAAACGCC-CTATACATGACCATATTGCGGCGTTTTTTAT
205750 AAAAAC
1 AAAAAC
205756 ACTGCTAAAG
Statistics
Matches: 66, Mismatches: 15, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
38 9 0.14
39 2 0.03
40 20 0.30
41 19 0.29
42 6 0.09
43 10 0.15
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (40 bp):
AAAAACGCCCTATACATGACCATATTGCGGCGTTTTTTAT
Found at i:205774 original size:82 final size:82
Alignment explanation
Indices: 205595--205827 Score: 251
Period size: 82 Copynumber: 2.8 Consensus size: 82
205585 TAAAACTGCC
* * *
205595 GCTAAAGTACTACTCTTTAGCGTCGTTTGTCAAAAAAACGCCGCTATACATGACCCTATTACGGC
1 GCTAAAGTACTACTCTTTAGCGGCGTTTGTC-AAAAAACGCCACTATACATGA-CCTATTGCGGC
* *
205660 -ATTTTTATAAAAACGCCT
64 GTTTTTTATAAAAACGACT
* *
205678 -CTACAGGACTACTCTTTAGCGGCGTTTGTCAAAAAACGCCACTATACATGACCATATTGCGGCG
1 GCTAAAGTACTACTCTTTAGCGGCGTTTGTCAAAAAACGCCACTATACATGACC-TATTGCGGCG
205742 TTTTTTATAAAAAC-ACT
65 TTTTTTATAAAAACGACT
* * * **
205759 GCTAAAGTA-TAACTCTGTT-GCGGCGTTTTTAAAAAAAATTGCCACTATTGATGAACCTATTGC
1 GCTAAAGTACT-ACTCT-TTAGCGGCGTTTGT-CAAAAAA-CGCCACTATACATG-ACCTATTGC
205822 GGCGTT
61 GGCGTT
205828 AAACGCCGCT
Statistics
Matches: 128, Mismatches: 14, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
80 2 0.02
81 31 0.24
82 61 0.48
83 8 0.06
84 23 0.18
85 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (82 bp):
GCTAAAGTACTACTCTTTAGCGGCGTTTGTCAAAAAACGCCACTATACATGACCTATTGCGGCGT
TTTTTATAAAAACGACT
Found at i:208282 original size:13 final size:13
Alignment explanation
Indices: 208264--208302 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
208254 CACATCTTTT
208264 TATTTTTATTATA
1 TATTTTTATTATA
* *
208277 TATTTTTATAAAA
1 TATTTTTATTATA
*
208290 TATTTTTCTTATA
1 TATTTTTATTATA
208303 ATTGTTTGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTATTATA
Found at i:217899 original size:20 final size:20
Alignment explanation
Indices: 217871--217939 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
217861 CACTTCAATA
*
217871 TTATGGTTTGTTTATGAATT
1 TTATTGTTTGTTTATGAATT
** * *
217891 TTATTGTTT-TAGACTTAATA
1 TTATTGTTTGTTTA-TGAATT
*
217911 TTATTGTTTGTTTATGTATT
1 TTATTGTTTGTTTATGAATT
217931 TTATTGTTT
1 TTATTGTTT
217940 TAAAGTTAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
19 2 0.05
20 33 0.89
21 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.14, T:0.64
Consensus pattern (20 bp):
TTATTGTTTGTTTATGAATT
Found at i:217922 original size:40 final size:40
Alignment explanation
Indices: 217857--217960 Score: 145
Period size: 40 Copynumber: 2.5 Consensus size: 40
217847 GTCATGAGAC
217857 TTAACACTTCAATATTATGGTTTGTTTATGAATTTTATTGTT
1 TTAA-ACTT-AATATTATGGTTTGTTTATGAATTTTATTGTT
* * *
217899 TTAGACTTAATATTATTGTTTGTTTATGTATTTTATTGTT
1 TTAAACTTAATATTATGGTTTGTTTATGAATTTTATTGTT
* *
217939 TTAAAGTTAATATTGTGGTTTG
1 TTAAACTTAATATTATGGTTTG
217961 AATCTTGAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 48 0.87
41 4 0.07
42 3 0.05
ACGTcount: A:0.25, C:0.04, G:0.14, T:0.57
Consensus pattern (40 bp):
TTAAACTTAATATTATGGTTTGTTTATGAATTTTATTGTT
Found at i:217984 original size:75 final size:76
Alignment explanation
Indices: 217905--218050 Score: 197
Period size: 76 Copynumber: 1.9 Consensus size: 76
217895 TGTTTTAGAC
* * * *
217905 TTAATATTATTG-TTTGTTTATGTA-TTTTATTGTTTTAAAGTTAATATTGTGGTTTGAATCTTG
1 TTAATATT-TTGTTTTATTTATGGATTTTTATTGTTTTAAACTAAATATTGTGGTTTGAATCTTG
217968 AGATTTGTCATT
65 AGATTTGTCATT
* * * *
217980 TTAATATTTTGTTTTATTTATGGATTTTTTTTGTTTTAGACTAAATATTGTGTTTTGACTCTTGA
1 TTAATATTTTGTTTTATTTATGGATTTTTATTGTTTTAAACTAAATATTGTGGTTTGAATCTTGA
218045 GATTTG
66 GATTTG
218051 ACTTTAATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
74 3 0.05
75 18 0.30
76 40 0.66
ACGTcount: A:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (76 bp):
TTAATATTTTGTTTTATTTATGGATTTTTATTGTTTTAAACTAAATATTGTGGTTTGAATCTTGA
GATTTGTCATT
Found at i:220311 original size:18 final size:18
Alignment explanation
Indices: 220288--220335 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
220278 TTTTGAACTA
*
220288 GAGTATCGATATTATCCT
1 GAGTATCGATACTATCCT
*
220306 GAGTATCGATGCTATCCT
1 GAGTATCGATACTATCCT
220324 GAGTATCGATAC
1 GAGTATCGATAC
220336 CAAAATTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (18 bp):
GAGTATCGATACTATCCT
Found at i:220545 original size:21 final size:21
Alignment explanation
Indices: 220473--220546 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 21
220463 AATAAACTCG
** * *
220473 GTATCGATACTCCTCCTACGA
1 GTATCGATACTCAACCAACAA
* *
220494 GTATCGATACCCAACCAATAA
1 GTATCGATACTCAACCAACAA
* **
220515 -TATTGATACTCAATGAACAA
1 GTATCGATACTCAACCAACAA
220535 GTATCGATACTC
1 GTATCGATACTC
220547 TTGACCCAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 15 0.38
21 25 0.62
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (21 bp):
GTATCGATACTCAACCAACAA
Found at i:222982 original size:40 final size:40
Alignment explanation
Indices: 222927--223008 Score: 139
Period size: 40 Copynumber: 2.0 Consensus size: 40
222917 TGCAATTTTA
222927 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
*
222967 TAATACA-TTTCGGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACTTT-GGTGTATATGGTGGGCACGACCTTATGTG
223007 TA
1 TA
223009 GCACTACAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 3 0.08
40 37 0.93
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (40 bp):
TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:223177 original size:45 final size:45
Alignment explanation
Indices: 223113--223326 Score: 333
Period size: 45 Copynumber: 4.8 Consensus size: 45
223103 ATAAGCATGC
*
223113 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGCTA
*
223158 AAATAAGCTTACGAACTTATGGAATAAATGGA-AAGTATATTGCTA
1 AAATAAGCTTACGAGCTTATGGAATAAAT-GATAAGTATATTGCTA
223203 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGCTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGCTA
* * *
223248 AAATAAGCTGACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGCTA
* *
223293 GAATAAGCTTACGAGCTTATACG-ATAAATGATAA
1 AAATAAGCTTACGAGCTTAT-GGAATAAATGATAA
223327 TAAATTTTAT
Statistics
Matches: 156, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
44 2 0.01
45 151 0.97
46 3 0.02
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGCTA
Found at i:223700 original size:10 final size:10
Alignment explanation
Indices: 223679--223735 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
223669 AAAAGTTTTT
*
223679 ATGAATAGTA
1 ATGAACAGTA
*
223689 ATGAACATTA
1 ATGAACAGTA
*
223699 ATAAACAGTA
1 ATGAACAGTA
*
223709 ATGAACAATA
1 ATGAACAGTA
*
223719 ATGAATAGTA
1 ATGAACAGTA
223729 ATGAACA
1 ATGAACA
223736 ATACCGACGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (10 bp):
ATGAACAGTA
Found at i:223710 original size:20 final size:20
Alignment explanation
Indices: 223685--223738 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
223675 TTTTATGAAT
*
223685 AGTAATGAACATTAATAAAC
1 AGTAATGAACAATAATAAAC
* *
223705 AGTAATGAACAATAATGAAT
1 AGTAATGAACAATAATAAAC
223725 AGTAATGAACAATA
1 AGTAATGAACAATA
223739 CCGACGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (20 bp):
AGTAATGAACAATAATAAAC
Found at i:229407 original size:35 final size:35
Alignment explanation
Indices: 229327--229482 Score: 164
Period size: 35 Copynumber: 4.5 Consensus size: 35
229317 ATCTGTATAT
229327 AACTATATATTATATAAGTTTTCAAAATGATTTTAAA
1 AACTATATATTATAT-AGTTTT-AAAATGATTTTAAA
*
229364 AACCATATATTATATATGGTTTT-AAATG-TTTTAAA
1 AACTATATATTATATA--GTTTTAAAATGATTTTAAA
229399 AACTATATATTATATAGTTTTCAAAAGTG-TTTTAAA
1 AACTATATATTATATAGTTTT-AAAA-TGATTTTAAA
* * *
229435 TA-TGT-TA-TATACA-TTTTCAAAATGATTTTAAA
1 AACTATATATTATATAGTTTT-AAAATGATTTTAAA
229467 AACTATATATTATATA
1 AACTATATATTATATA
229483 CATGTCTCAA
Statistics
Matches: 102, Mismatches: 8, Indels: 20
0.78 0.06 0.15
Matches are distributed among these distances:
31 2 0.02
32 17 0.17
33 12 0.12
34 4 0.04
35 32 0.31
36 16 0.16
37 14 0.14
38 5 0.05
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (35 bp):
AACTATATATTATATAGTTTTAAAATGATTTTAAA
Found at i:229464 original size:32 final size:31
Alignment explanation
Indices: 229403--229466 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
229393 TTTAAAAACT
*
229403 ATATATTATATAGTTTTCAAAAGTGTTTTAA
1 ATATATTATATAATTTTCAAAAGTGTTTTAA
*
229434 ATATGTTATATACATTTTCAAAA-TGATTTTAA
1 ATATATTATATA-ATTTTCAAAAGTG-TTTTAA
229466 A
1 A
229467 AACTATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (31 bp):
ATATATTATATAATTTTCAAAAGTGTTTTAA
Found at i:230179 original size:84 final size:84
Alignment explanation
Indices: 230067--231266 Score: 1112
Period size: 84 Copynumber: 14.4 Consensus size: 84
230057 ATCTTATTGA
* * * * * * *
230067 CAGATAACCTTTCTTGCCTTGAGCTATGCTGTAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
230132 TTCGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTGGTTGG
* * *
230151 CAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
**
230216 CTCGAAGGTCTTTTGG-TCA
66 CTCGAAGGTC-TTTGGTTGG
* * * * ** * * * * * *
230235 CAGATAACTCTTCTAGCCTTGAGTTATATTGTAAATGATGTTTCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG-TGCCTTGGAGCTGAGCGTAGTCGA
**
230300 ACTCG-AGG-CACT--TTGG
65 ACTCGAAGGTCTTTGGTTGG
* * * * *
230316 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGCAGCTGAACGTAGTCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
230381 CTCGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTGGTTGG
* * * *
230400 CAGATAACTCTTCTCAACTTAAGTTATGCTGCAAATGATATGCCTTGGTGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
230465 CTCGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTGGTTGG
* * *
230484 CAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
**
230549 CTCGAAGGTCTTTTGG-TCA
66 CTCGAAGGTC-TTTGGTTGG
* * * * * * *** * * *
230568 CAGATAACCCTTCTAGCCATGAGTTATGTTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATTGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
* *
230633 ACTCGAGGGTC--T--TTAG
65 ACTCGAAGGTCTTTGGTTGG
* * * * * *
230649 CAGATATCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGTCTTGGAGCTGAACGTAGTTGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
230714 CTTGAAGGTCTTTTGG-TGA
66 CTCGAAGGTC-TTTGGTTGG
* * * * * * * * * * *
230733 CAGATAACCATTCTAGCCTTGAGTTATGTTGTAAATGACGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
* *
230798 ACTAGAGGGTC--T--TTGG
65 ACTCGAAGGTCTTTGGTTGG
* * * *
230814 CATATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTACCTTGGAGCTGAGC-TCAGTGGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGT-AGTCGA
* * *
230878 ACTCAAAAGTCTTTGGTCGG
65 ACTCGAAGGTCTTTGGTTGG
* * * *
230898 TAGATAACCCTTCTCGACTTACGTTATGCTGCAAATAATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
230963 CTCGAAGGTCTTTTGG-TGA
66 CTCGAAGGTC-TTTGGTTGG
* * * * * * * * * * *
230982 CAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTACCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGA
*
231047 ACTCGAGGGTC--T--TTGG
65 ACTCGAAGGTCTTTGGTTGG
* * * *
231063 CAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
231128 CTTGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTGGTTGG
* * * * * *
231147 CAGCTAATCCTTCTCGATTTAAGTTATGCTGCAAATAATATGCCTTGGAGCTGAACGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
231212 CTCGAAGGTCTTT-GTTGG
66 CTCGAAGGTCTTTGGTTGG
* * * * **
231230 AAGATAACCCTTATAGCCTTGGGTTATGCTGCAAATG
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
231267 TTTCTTTAAA
Statistics
Matches: 888, Mismatches: 198, Indels: 61
0.77 0.17 0.05
Matches are distributed among these distances:
79 1 0.00
80 94 0.11
81 141 0.16
82 8 0.01
83 34 0.04
84 492 0.55
85 118 0.13
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (84 bp):
CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTTGG
Found at i:230346 original size:165 final size:165
Alignment explanation
Indices: 230066--231266 Score: 1011
Period size: 165 Copynumber: 7.2 Consensus size: 165
230056 AATCTTATTG
* * * * * * * *
230066 ACAGATAAC-CTTTCTTGCCTTGAGCTATGCTGTAAATGATGTG-TCTTGGAGCTGAGCGTAGTC
1 ACAGATAACTC-TTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
* * * *
230129 GAATTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATATGC
65 GAACTCG-AGG-CTCT--TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
230194 CTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTC
126 CTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTC
* **
230234 ACAGATAACTCTTCTAGCCTTGAGTTATATTGTAAATGATGTTTCCTCGAAGCTGAGTGTAATCG
1 ACAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* * *
230299 AACTCGAGGCACTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT-G
66 AACTCGAGGCTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAG
* * *
230363 CAGCTGAACGTAGTCAAACTCGAAGGTC-TTTGGTTG
131 -AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TC
* * * * * * * ** * *
230399 GCAGATAACTCTTCTCA-ACTTAAGTTATGCTGCAAATGATATG-CCTTGGTGCTGAGCGTAGTC
1 ACAGATAACTCTTCT-AGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
* * *
230462 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGC
65 GAACTCG-AGG-CTCT--TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
230527 CTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTC
126 CTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTC
* * * *
230567 ACAGATAACCCTTCTAGCCATGAGTTATGTTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATTG
1 ACAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* * * * * * *
230632 AACTCGAGGGTCTTTAGCAGATATCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGTCTTGG
66 AACTCGAGGCTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAG
* * * *
230697 AGCTGAACGTAGTTGAACTTGAAGGTCTTTTGGTG
131 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTC
*
230732 ACAGATAAC-CATTCTAGCCTTGAGTTATGTTGTAAATGACGTGCCCTCGAAGCTGAGTGTAATC
1 ACAGATAACTC-TTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
* * * * * *
230796 GAACTAGAGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTACCTTG
65 GAACTCGAGGCTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTA
* * *
230861 GAGCTGAGC-TCAGTGGAACTCAAAAGTC-TTTGGTC
130 GAGCTGAGCGT-AGTCGAACTCGAAGGTCTTTTGGTC
** * * * * * * * * * * *
230896 GGTAGATAACCCTTCTCGACTT-ACGTTATGCTGCAAATAATATG-CCTTGGAGCTGAGCGTAGT
1 -ACAGATAACTCTTCTAGCCTTGA-GTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* * * * * *
230959 CGAACTCGAAGG-TCTTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGT
64 CGAACTCG-AGGCTC-TTT-G-G-CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * * *
231023 ACCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-TTTGG--
124 GCCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTC
* * * * * * * * * * * *
231063 -CAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTG-CATTGGAGCTGAGCGTAGTCG
1 ACAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* * * * * * *
231126 AACTTGAAGGTCTTTGGTTGGCAGCTAATCCTTCTCGATTTAAGTTATGCTGCAAATAATATGCC
66 AACTCG-AGG-CTCT--TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
* *
231191 TTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGTTGG--
127 TTAGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-TTGGTC
* * * * *
231230 A-AGATAACCCTTATAGCCTTGGGTTATGCTGCAAATG
1 ACAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATG
231267 TTTCTTTAAA
Statistics
Matches: 846, Mismatches: 153, Indels: 69
0.79 0.14 0.06
Matches are distributed among these distances:
164 84 0.10
165 452 0.53
166 9 0.01
167 40 0.05
168 188 0.22
169 72 0.09
170 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (165 bp):
ACAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
AACTCGAGGCTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAG
AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTC
Found at i:230654 original size:249 final size:248
Alignment explanation
Indices: 230088--231266 Score: 1374
Period size: 249 Copynumber: 4.7 Consensus size: 248
230078 TCTTGCCTTG
* * * *
230088 AGCTATGCTGTAAATGATGTG-TCTTGGAGCTGAGCGTAGTCGAATTCGAAGGTCTTTGGTTGGC
1 AGCTATGCTGCAAATGATGTGCCCTCGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-GTTGGC
* *
230152 AGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAAC
64 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
* * * **
230217 TCGAAGGTCTTTTGGTCACAGATAACTCTTCTAGCCTTGAGTTATATTGTAAATGATGTTTCCTC
129 TCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTC
*
230282 GAAGCTGAGTGTAATCGAACTCG-AGGCACTTTGGCAGATAGCCCTTCTCGACTTA
194 GAAGCTGAGTGTAATCGAACTCGAAGG-TCTTTGGCAGATAGCCCTTCTCGACTTA
* * * *
230337 AGCTATGCTGCAAATGATGTG-CCTTGCAGCTGAACGTAGTCAAACTCGAAGGTCTTTGGTTGGC
1 AGCTATGCTGCAAATGATGTGCCCTCGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-GTTGGC
* * *
230401 AGATAACTCTTCTCAACTTAAGTTATGCTGCAAATGATATGCCTTGGTGCTGAGCGTAGTCGAAC
64 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * * * *
230466 TCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTT
129 TCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCT
* * * * * * * *
230530 AG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCATG
193 CGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTA
* * * ** * * * * *
230589 AGTTATGTTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATTGAACTCGAGGGTC-T-TTAGCAG
1 AGCTATGCTGCAAATGATGTGCCCTCGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGTTGGCAG
* * * * * * * *
230652 ATATCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGTCTTGGAGCTGAACGTAGTTGAACTT
66 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
230717 GAAGGTCTTTTGGTGACAGATAACCATTCTAGCCTTGAGTTATGTTGTAAATGACGTGCCCTCGA
131 GAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGA
* * *
230782 AGCTGAGTGTAATCGAACTAGAGGGTCTTTGGCATATAGCCCTTCTCGACTTA
196 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTA
* * * * * * *
230835 AGTTATGCTGCAAATGATGT-ACCTTGGAGCTGAGC-TCAGTGGAACTCAAAAGTCTTTGGTCGG
1 AGCTATGCTGCAAATGATGTGCCCTCGGAGCTGAGCGT-AGTCGAACTCGAAGGTC-TT-GTTGG
* * *
230898 TAGATAACCCTTCTCGACTTACGTTATGCTGCAAATAATATGCCTTGGAGCTGAGCGTAGTCGAA
63 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
* *
230963 CTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTACCCT
128 CTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCT
*
231028 CGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTA
193 CGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTA
* * * *
231084 AGCTATGTTGCAAATGATGTG-CATTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGGC
1 AGCTATGCTGCAAATGATGTGCCCTCGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-GTTGGC
* * * * *
231148 AGCTAATCCTTCTCGATTTAAGTTATGCTGCAAATAATATGCCTTGGAGCTGAACGTAGTCGAAC
64 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * *
231213 TCGAAGGTC-TTTGTTGGA-AGATAACCCTTATAGCCTTGGGTTATGCTGCAAATG
129 TCGAAGGTCTTTTGGT-GACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATG
231267 TTTCTTTAAA
Statistics
Matches: 786, Mismatches: 127, Indels: 35
0.83 0.13 0.04
Matches are distributed among these distances:
244 1 0.00
245 22 0.03
246 33 0.04
247 1 0.00
248 61 0.08
249 580 0.74
250 29 0.04
251 1 0.00
252 34 0.04
253 24 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (248 bp):
AGCTATGCTGCAAATGATGTGCCCTCGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGTTGGCAG
ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGA
AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTA
Found at i:236456 original size:10 final size:10
Alignment explanation
Indices: 236440--236489 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
236430 ATAGATAAGG
236440 AATATAAATA
1 AATATAAATA
* *
236450 TATATAAAAA
1 AATATAAATA
236460 AATATTAAATA
1 AATA-TAAATA
*
236471 AATAAAAAT-
1 AATATAAATA
236480 AATA-AAATA
1 AATATAAATA
236489 A
1 A
236490 TAAAGGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
8 4 0.12
9 5 0.15
10 15 0.45
11 9 0.27
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATATAAATA
Found at i:236471 original size:25 final size:25
Alignment explanation
Indices: 236443--236493 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
236433 GATAAGGAAT
* * *
236443 ATAAATATATATAAAAAAATATTAA
1 ATAAATAAAAATAAAAAAATAATAA
*
236468 ATAAATAAAAATAATAAAATAATAA
1 ATAAATAAAAATAAAAAAATAATAA
236493 A
1 A
236494 GGAAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (25 bp):
ATAAATAAAAATAAAAAAATAATAA
Found at i:237855 original size:29 final size:29
Alignment explanation
Indices: 237809--237883 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
237799 AAAATGTTTT
* *
237809 TTTTAAAAAATTAAATAATTTTCAAAAAAG
1 TTTT-AAAAATTATATAATTTCCAAAAAAG
237839 TTTTAAAAATTATATAATTTCCAAAAAAG
1 TTTTAAAAATTATATAATTTCCAAAAAAG
237868 TTTTAAAAATTATATA
1 TTTTAAAAATTATATA
237884 TTATATATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 39 0.91
30 4 0.09
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (29 bp):
TTTTAAAAATTATATAATTTCCAAAAAAG
Found at i:237897 original size:39 final size:39
Alignment explanation
Indices: 237849--237931 Score: 114
Period size: 41 Copynumber: 2.1 Consensus size: 39
237839 TTTTAAAAAT
*
237849 TATATAATTTCCAAAAAAGTTTT-AAAAATTATATATTA
1 TATATAATTTCCAAAAAAGTTTTAAAAAACTATATATTA
* *
237887 TATATAAATTTTCAAAAATGTTTTCAAAAAACTATATATTA
1 TATAT-AATTTCCAAAAAAGTTTT-AAAAAACTATATATTA
237928 TATA
1 TATA
237932 AGTTTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 5 0.13
39 16 0.41
41 18 0.46
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (39 bp):
TATATAATTTCCAAAAAAGTTTTAAAAAACTATATATTA
Found at i:237932 original size:39 final size:37
Alignment explanation
Indices: 237847--237942 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 37
237837 AGTTTTAAAA
* *
237847 ATTATAT-AATTTCCAAAAAAGTTTTAAAAATTATAT
1 ATTATATAAATTTTCAAAAAAGTTTTAAAAACTATAT
*
237883 ATTATATATAAATTTTCAAAAATGTTTTCAAAAAACTATAT
1 A-T-TATATAAATTTTCAAAAAAGTTTT--AAAAACTATAT
* *
237924 ATTATATAAGTTTTTAAAA
1 ATTATATAAATTTTCAAAA
237943 GAAACATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
36 1 0.02
37 1 0.02
38 5 0.10
39 31 0.62
40 1 0.02
41 11 0.22
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (37 bp):
ATTATATAAATTTTCAAAAAAGTTTTAAAAACTATAT
Found at i:239210 original size:30 final size:30
Alignment explanation
Indices: 239174--239230 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
239164 ATTATTTTGT
239174 TATTTTTAT-T-TATTTAATATTTATTTAATA
1 TATTTTTATCTATATTT-ATATTT-TTTAATA
239204 TATTTTTATCTATATTTATATTTTTTA
1 TATTTTTATCTATATTTATATTTTTTA
239231 TCTATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 13 0.52
31 7 0.28
32 5 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (30 bp):
TATTTTTATCTATATTTATATTTTTTAATA
Found at i:239211 original size:11 final size:11
Alignment explanation
Indices: 239180--239204 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
239170 TTGTTATTTT
239180 TATTTATTTAA
1 TATTTATTTAA
239191 TATTTATTTAA
1 TATTTATTTAA
239202 TAT
1 TAT
239205 ATTTTTATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:239230 original size:19 final size:22
Alignment explanation
Indices: 239194--239240 Score: 73
Period size: 19 Copynumber: 2.3 Consensus size: 22
239184 TATTTAATAT
239194 TTATTTAATATATTTTTATCTA
1 TTATTTAATATATTTTTATCTA
239216 -TATTT-ATAT-TTTTTATCTA
1 TTATTTAATATATTTTTATCTA
239235 TTATTT
1 TTATTT
239241 TTCCCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.42
20 9 0.38
21 5 0.21
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTTAATATATTTTTATCTA
Found at i:246136 original size:147 final size:148
Alignment explanation
Indices: 245940--246231 Score: 478
Period size: 147 Copynumber: 2.0 Consensus size: 148
245930 AAACTATTTA
* * * * *
245940 AATTAGAATCAAATAGTATTATAGTATTATATATATTTATACTTAAATTTAAACAGAAACTCAAA
1 AATTAGAATCAAATAATATTATAATATAATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
*
246005 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAA-TTCGAGTCAACT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCAAAAAAATTTCGAGTCAACT
246069 ATTTTATAAACTGAACTG
131 ATTTTATAAACTGAACTG
* **
246087 AATTAGAATCAAATAATATTATAATATAATAAATATTTATAATTGAATTTAAACAGAAACTTGAA
1 AATTAGAATCAAATAATATTATAATATAATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
* *
246152 AATTCAATTCAATTTGACTTTATTTAAATTTTATAAACTCAAATCAAAAAAATTTCGAGTCAACT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCAAAAAAATTTCGAGTCAACT
246217 ATTTTATAAACTGAA
131 ATTTTATAAACTGAA
246232 TTGAGTATTT
Statistics
Matches: 133, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
147 106 0.80
148 27 0.20
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (148 bp):
AATTAGAATCAAATAATATTATAATATAATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCAAAAAAATTTCGAGTCAACT
ATTTTATAAACTGAACTG
Found at i:246483 original size:35 final size:36
Alignment explanation
Indices: 246403--246471 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
246393 GGGGTTGGGT
*
246403 ATATAATTGAAGTATTTTTGGAATTTGAGGTTTATA
1 ATATAATTGAAGCATTTTTGGAATTTGAGGTTTATA
* *
246439 ATATAATTGAAGCA-TTTTGGATTTTGGGGTTTA
1 ATATAATTGAAGCATTTTTGGAATTTGAGGTTTA
246472 ATATGTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.46
Consensus pattern (36 bp):
ATATAATTGAAGCATTTTTGGAATTTGAGGTTTATA
Found at i:255751 original size:42 final size:38
Alignment explanation
Indices: 255689--255801 Score: 109
Period size: 41 Copynumber: 2.7 Consensus size: 38
255679 AAAAAATAAC
*
255689 TTATAAAAGTAAAATGTGAGATTAAAAACTAAGGAACCTCAA
1 TTAT-AAAGTAAAAT-TGAGATTAAAAAATAA-GAA-CTCAA
*
255731 TTATAAACGTAGAAATTGAGACTTAAAAAATTAGAACTCAA
1 TTATAAA-GTA-AAATTGAGA-TTAAAAAATAAGAACTCAA
* *
255772 TTATAAAGATACAAAATGAGATTGAAAAAT
1 TTATAAAG-TA-AAATTGAGATTAAAAAAT
255802 TTGTGGTCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
40 9 0.15
41 25 0.40
42 15 0.24
43 13 0.21
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (38 bp):
TTATAAAGTAAAATTGAGATTAAAAAATAAGAACTCAA
Found at i:255778 original size:41 final size:42
Alignment explanation
Indices: 255689--255778 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
255679 AAAAAATAAC
*
255689 TTATAAAAGTAAAATGTGAGATTAAAAACTAAGGAACCTCAA
1 TTATAAAAGTAAAATGTGAGATTAAAAAATAAGGAACCTCAA
* *
255731 TTATAAACGTAGAAAT-TGAGACTTAAAAAATTA-GAA-CTCAA
1 TTATAAAAGTA-AAATGTGAGA-TTAAAAAATAAGGAACCTCAA
255772 TTATAAA
1 TTATAAA
255779 GATACAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 12 0.28
42 18 0.42
43 13 0.30
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (42 bp):
TTATAAAAGTAAAATGTGAGATTAAAAAATAAGGAACCTCAA
Found at i:255874 original size:44 final size:46
Alignment explanation
Indices: 255809--255962 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 46
255799 AATTTGTGGT
** *
255809 CATCAATTATAAATGTAAAAAAGTACGATTGAAAAAAAATAAGGGA
1 CATCAATTATAAAAATAAAAAAGTAAGATTGAAAAAAAATAAGGGA
* * * *
255855 -ATCAGTTATAAAAATAAAAAAGTAGGATT--ATAAAAATTAGGGA
1 CATCAATTATAAAAATAAAAAAGTAAGATTGAAAAAAAATAAGGGA
* * * * * *
255898 CCTTAATTATAAAAAT-AAAAA-TAAAATTGAAAAAAATTAAAGCA
1 CATCAATTATAAAAATAAAAAAGTAAGATTGAAAAAAAATAAGGGA
* *
255942 C-TCAACTATAAACATAAAAAA
1 CATCAATTATAAAAATAAAAAA
255963 TATAATAAAA
Statistics
Matches: 85, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
42 5 0.06
43 28 0.33
44 27 0.32
45 25 0.29
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.23
Consensus pattern (46 bp):
CATCAATTATAAAAATAAAAAAGTAAGATTGAAAAAAAATAAGGGA
Found at i:258152 original size:13 final size:13
Alignment explanation
Indices: 258136--258165 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
258126 ATGTAAAGAG
*
258136 AAAAAGTAATTTT
1 AAAAAATAATTTT
258149 AAAAAATAATTTT
1 AAAAAATAATTTT
258162 AAAA
1 AAAA
258166 TATTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AAAAAATAATTTT
Found at i:258406 original size:21 final size:21
Alignment explanation
Indices: 258380--258430 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
258370 TCAAATCAAG
*
258380 TAAGAAAATGGTGAAGTAAAT
1 TAAGAAAATGGTGAAGCAAAT
258401 TAAGAAAATGGTGAAGCAAAT
1 TAAGAAAATGGTGAAGCAAAT
258422 TAAGAAAAT
1 TAAGAAAAT
258431 AATAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.22
Consensus pattern (21 bp):
TAAGAAAATGGTGAAGCAAAT
Found at i:258612 original size:17 final size:17
Alignment explanation
Indices: 258587--258620 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
258577 AATTATTTAA
258587 TAAAAATAATTT-TTTT
1 TAAAAATAATTTATTTT
258603 TAAAAGATAATTTATTTT
1 TAAAA-ATAATTTATTTT
258621 CTTTATTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TAAAAATAATTTATTTT
Found at i:259470 original size:2 final size:2
Alignment explanation
Indices: 259463--259497 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
259453 ACAAATATTG
259463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
259498 ACAACACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:260378 original size:13 final size:13
Alignment explanation
Indices: 260324--260374 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
260314 AACTTAGTGC
260324 TCAAAGTCAACAA
1 TCAAAGTCAACAA
*
260337 TCAAAGTCAAAAA
1 TCAAAGTCAACAA
***
260350 TCAAAGTCAATGG
1 TCAAAGTCAACAA
260363 TCAAAGTCAACA
1 TCAAAGTCAACA
260375 GTCACCGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.18
Consensus pattern (13 bp):
TCAAAGTCAACAA
Found at i:264352 original size:13 final size:13
Alignment explanation
Indices: 264297--264346 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
264287 AACTTAGTGC
264297 TCAAAGTCAACAA
1 TCAAAGTCAACAA
264310 TCAAAGTCAACAA
1 TCAAAGTCAACAA
**
264323 TCAAAGTCAACGG
1 TCAAAGTCAACAA
264336 TCAAAGTCAAC
1 TCAAAGTCAAC
264347 GGTCAACGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.16
Consensus pattern (13 bp):
TCAAAGTCAACAA
Found at i:267880 original size:7 final size:7
Alignment explanation
Indices: 267868--267895 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
267858 TCTTTTTAAT
267868 AACCCTA
1 AACCCTA
267875 AACCCTA
1 AACCCTA
267882 AACCCTA
1 AACCCTA
267889 AACCCTA
1 AACCCTA
267896 CAATAGCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
AACCCTA
Found at i:268340 original size:13 final size:13
Alignment explanation
Indices: 268300--268342 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
268290 AACTTAATGC
**
268300 TCAAAGTCAACAA
1 TCAAAGTCAACGG
*
268313 TCAAAGTCAATGG
1 TCAAAGTCAACGG
268326 TCAAAGTCAACGG
1 TCAAAGTCAACGG
268339 TCAA
1 TCAA
268343 CGGTTTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (13 bp):
TCAAAGTCAACGG
Found at i:274093 original size:29 final size:29
Alignment explanation
Indices: 274049--274158 Score: 148
Period size: 29 Copynumber: 3.8 Consensus size: 29
274039 GATCTCATGC
* *
274049 AGAAATAGGATAAGGATCAAATCCCAAGA
1 AGAAATAGGATGAGGATAAAATCCCAAGA
* * *
274078 AGAAAAAGGACGAGGATAAAATCCTAAGA
1 AGAAATAGGATGAGGATAAAATCCCAAGA
* *
274107 AGAAATACGATGAGGATAAAATCCCATGA
1 AGAAATAGGATGAGGATAAAATCCCAAGA
*
274136 AGAAATAGGATGAGGATTAAATC
1 AGAAATAGGATGAGGATAAAATC
274159 TCATGTAGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.15
Consensus pattern (29 bp):
AGAAATAGGATGAGGATAAAATCCCAAGA
Found at i:274163 original size:29 final size:29
Alignment explanation
Indices: 274044--274172 Score: 141
Period size: 29 Copynumber: 4.4 Consensus size: 29
274034 TAGATGATCT
* * *
274044 CATGCAGAAATAGGATAAGGATCAAATCC
1 CATGAAGAAATAGGATGAGGATAAAATCC
* * *
274073 CAAGAAGAAAAAGGACGAGGATAAAATCC
1 CATGAAGAAATAGGATGAGGATAAAATCC
* * *
274102 TAAGAAGAAATACGATGAGGATAAAATCC
1 CATGAAGAAATAGGATGAGGATAAAATCC
* *
274131 CATGAAGAAATAGGATGAGGATTAAATCT
1 CATGAAGAAATAGGATGAGGATAAAATCC
*
274160 CATGTAGATAATA
1 CATGAAGA-AATA
274173 TAAATGTATC
Statistics
Matches: 83, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 79 0.95
30 4 0.05
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.18
Consensus pattern (29 bp):
CATGAAGAAATAGGATGAGGATAAAATCC
Found at i:278915 original size:21 final size:21
Alignment explanation
Indices: 278890--278937 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
278880 TATTATATTA
* * *
278890 TATTATCATTACTTTTATCAT
1 TATTATCATTAATGTCATCAT
*
278911 TATTATTATTAATGTCATCAT
1 TATTATCATTAATGTCATCAT
278932 TATTAT
1 TATTAT
278938 TAATATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTATCATTAATGTCATCAT
Found at i:278928 original size:18 final size:18
Alignment explanation
Indices: 278907--278941 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
278897 ATTACTTTTA
*
278907 TCATTATTATTATTAATG
1 TCATCATTATTATTAATG
278925 TCATCATTATTATTAAT
1 TCATCATTATTATTAAT
278942 ATAATTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (18 bp):
TCATCATTATTATTAATG
Found at i:281184 original size:132 final size:131
Alignment explanation
Indices: 281016--281380 Score: 401
Period size: 131 Copynumber: 2.8 Consensus size: 131
281006 CGATATTCAG
* * * * * *
281016 AATAATAATATCTTTTTATTTCAGTCGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
1 AATAATAATATCTCTTCATTTCAATTGGAGTAATAAATGACTGATTTAAGGCAAGAGAGGTCATT
* * * * *
281081 TATTCTCGATTGGAAATAATTTGATATTGTCGTTTTTCTCTCGAATTAATATT-ACTTTTTAAGA
66 TATTCTCGATTGGAAATAATTAGATATTATCG-TTTTCGCTCGAATCAATATTGA-ATTTTAAGA
281145 AGA
129 AGA
** * * ** *
281148 AATAATGGTATCTCTTCATTTCGATTGGAGTAATAAATGATTGATTTAAGATAAGAGATGTCATT
1 AATAATAATATCTCTTCATTTCAATTGGAGTAATAAATGACTGATTTAAGGCAAGAGAGGTCATT
** * * *
281213 TATTCTCGATTGGAAACCATTAGATATTATTGTTTTCGCTTGAATCAATATTGAATTTTAAGATG
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCGCTCGAATCAATATTGAATTTTAAGAAG
281278 A
131 A
* * * * * * *
281279 AATAGTAATATCTCTTTATTTCAATTGGGGTAATAATTGACT-ATTTTAATGCACGAAAGGTCAT
1 AATAATAATATCTCTTCATTTCAATTGGAGTAATAAATGACTGA-TTTAAGGCAAGAGAGGTCAT
* *
281343 TTATTCTCGACTGGAAATAATTAGATATTATCATTTTC
65 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTC
281381 ACTCATAAAA
Statistics
Matches: 189, Mismatches: 42, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
130 1 0.01
131 108 0.57
132 80 0.42
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (131 bp):
AATAATAATATCTCTTCATTTCAATTGGAGTAATAAATGACTGATTTAAGGCAAGAGAGGTCATT
TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCGCTCGAATCAATATTGAATTTTAAGAAG
A
Found at i:282985 original size:419 final size:419
Alignment explanation
Indices: 282207--283045 Score: 1642
Period size: 419 Copynumber: 2.0 Consensus size: 419
282197 TGAGCTAAAA
282207 CCCCGCTTTGTCCTATTTAAGTAGGAGTGAGAAGCTACTCCATCATGTGTTTTTCACCTCCGTAT
1 CCCCGCTTTGTCCTATTTAAGTAGGAGTGAGAAGCTACTCCATCATGTGTTTTTCACCTCCGTAT
282272 GGACATAAGGAGGTGTGTCCCCTCGAATTGAACTCGATTTGAAAGCCTGTGATGGGTCAAGATTC
66 GGACATAAGGAGGTGTGTCCCCTCGAATTGAACTCGATTTGAAAGCCTGTGATGGGTCAAGATTC
*
282337 AGGGTTCAGCAACCCAATGAGGCATCAGCAAGGATAATGCGAGGACCTCTTACTTTAGAACTGAA
131 AGGGTTCAGCAACCCAATGAGGCATCAGCAAGGATAATGCGAGGACCTCTTACTTTAGAAATGAA
282402 CCCAACGTGTAGTAAACTTTGAACCCAGATAGAGCCTTACCCAGATCATAAAAATCGTATGAAGA
196 CCCAACGTGTAGTAAACTTTGAACCCAGATAGAGCCTTACCCAGATCATAAAAATCGTATGAAGA
282467 GAATACACAAGGAAAAGCTTATTTAAGCCTTTTAATTTTTGTAGTGTAATTTTTTATTCCTGAAT
261 GAATACACAAGGAAAAGCTTATTTAAGCCTTTTAATTTTTGTAGTGTAATTTTTTATTCCTGAAT
282532 AAATGTATGCGAACTATATATCATACGGTTAGGTTTTTTTTCAAACAAGCATGCGAACTAGAGGG
326 AAATGTATGCGAACTATATATCATACGGTTAGGTTTTTTTTCAAACAAGCATGCGAACTAGAGGG
282597 CATGAGGTTAGAATTTTCTATAAACAAAG
391 CATGAGGTTAGAATTTTCTATAAACAAAG
282626 CCCCGCTTTGTCCTATTTAAGTAGGAGTGAGAAGCTACTCCATCATGTGTTTTTCACCTCCGTAT
1 CCCCGCTTTGTCCTATTTAAGTAGGAGTGAGAAGCTACTCCATCATGTGTTTTTCACCTCCGTAT
*
282691 GGACATAAGGAGGTGTGTCCCCTCGAATTGAACTCGATTTGAAAGCCTGTGATGGGTCAAGATTT
66 GGACATAAGGAGGTGTGTCCCCTCGAATTGAACTCGATTTGAAAGCCTGTGATGGGTCAAGATTC
*
282756 AGGGTTCAGCAACCCAATGAGGCATCAGCAAGGATAATTCGAGGACCTCTTACTTTAGAAATGAA
131 AGGGTTCAGCAACCCAATGAGGCATCAGCAAGGATAATGCGAGGACCTCTTACTTTAGAAATGAA
282821 CCCAACGTGTAGTAAACTTTGAACCCAGATAGAGCCTTACCCAGATCATAAAAATCGTATGAAGA
196 CCCAACGTGTAGTAAACTTTGAACCCAGATAGAGCCTTACCCAGATCATAAAAATCGTATGAAGA
282886 GAATACACAAGGAAAAGCTTATTTAAGCCTTTTAATTTTTGTAGTGTAATTTTTTATTCCTGAAT
261 GAATACACAAGGAAAAGCTTATTTAAGCCTTTTAATTTTTGTAGTGTAATTTTTTATTCCTGAAT
*
282951 AAATGTATGCGAACTATATATCATACGGTTAGGTTTTTTTTCAAACAAGCATGCTAACTAGAGGG
326 AAATGTATGCGAACTATATATCATACGGTTAGGTTTTTTTTCAAACAAGCATGCGAACTAGAGGG
283016 CATGAGGTTAGAATTTTCTATAAACAAAG
391 CATGAGGTTAGAATTTTCTATAAACAAAG
283045 C
1 C
283046 ATATGGGTAG
Statistics
Matches: 416, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
419 416 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (419 bp):
CCCCGCTTTGTCCTATTTAAGTAGGAGTGAGAAGCTACTCCATCATGTGTTTTTCACCTCCGTAT
GGACATAAGGAGGTGTGTCCCCTCGAATTGAACTCGATTTGAAAGCCTGTGATGGGTCAAGATTC
AGGGTTCAGCAACCCAATGAGGCATCAGCAAGGATAATGCGAGGACCTCTTACTTTAGAAATGAA
CCCAACGTGTAGTAAACTTTGAACCCAGATAGAGCCTTACCCAGATCATAAAAATCGTATGAAGA
GAATACACAAGGAAAAGCTTATTTAAGCCTTTTAATTTTTGTAGTGTAATTTTTTATTCCTGAAT
AAATGTATGCGAACTATATATCATACGGTTAGGTTTTTTTTCAAACAAGCATGCGAACTAGAGGG
CATGAGGTTAGAATTTTCTATAAACAAAG
Found at i:286029 original size:2 final size:2
Alignment explanation
Indices: 286018--286092 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
286008 TAAAGGCGAT
286018 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
286059 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
286093 CAATAAAGTT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 71 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:287991 original size:134 final size:133
Alignment explanation
Indices: 287819--288521 Score: 665
Period size: 134 Copynumber: 5.3 Consensus size: 133
287809 ACAAATCAAA
* * * * * * * *
287819 CTCGATTCAATCTTCCCAGAGTGACAATAGAATTAATCAATATCACCAGATCTGATTTTCCCTAA
1 CTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACATC-CCAGATCTAATTTTCCCTCA
* ** * * * * *
287884 AGAAGAGGTGGGTCAAATCCATCTCTTCCAAGATTTGATATTCCCTAAGTAACAGTGGAACAAGT
65 AGAAGAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGT
287949 CTAC
130 CTAC
* * * *
287953 CTCGATTTAATCTTCCCTGAGTGATAGTTGAATGAATCAA-ATCCTCCATATCTAATTTTCCCTT
1 CTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACAT-C-CCAGATCTAATTTTCCCTC
** * *
288017 ATTAAGAAGTGGAACATATACCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
64 AAGAAGAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAG
*
288082 TCTGC
129 TCTAC
* * * * * * * *
288087 CTCAATTCAATATTCCCTGAGTG-TAGTGGAATGAATCAACATCTCTAAATATGATATTCCCTCC
1 CTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACATC-CCAGATCTAATTTTCCCTCA
* ** * **
288151 AGAAAAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACATTAAAACAAGT
65 AGAAGAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGT
*
288216 CTAT
130 CTAC
* * * ** * * *
288220 CTCGATTCAATCTTCCCTGAGTGAAAGTAGAATGGATTTACTCTCCCAGATCTAATTTTCCATCG
1 CTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAAC-ATCCCAGATCTAATTTTCCCTCA
* * ** * * * * * *
288285 AGACGAGGCAGAACAAATCCCTCTCTTTTAAAATTTGATATTCCCTGAGTGACATTAGAACAACT
65 AGAAGAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGT
288350 CTAC
130 CTAC
* * * * * * * * *
288354 CTCGATTCAATCTTCCCTAAGTGACAATGGAATGGATTAACGTCCCTAGATCTTATATTCCCTCC
1 CTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACATCCC-AGATCTAATTTTCCCTCA
*
288419 AGAAGAAGTGGAACATATCCCTCTTCTTT-AAGATTTGATATTCCCTGAGTGATAGTGGAACAAG
65 AGAAGAAGTGGAACATATCCCTC-TCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAG
* *
288483 TGTGC
129 TCTAC
* * *
288488 CTAGATTCAATCTTACTTGAGTGATAGTGGAATG
1 CTCGATTCAATCTTCCCTGAGTGATAGTGGAATG
288522 GTCAACTCTA
Statistics
Matches: 467, Mismatches: 96, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
133 114 0.24
134 346 0.74
135 7 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (133 bp):
CTCGATTCAATCTTCCCTGAGTGATAGTGGAATGAATCAACATCCCAGATCTAATTTTCCCTCAA
GAAGAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTC
TAC
Found at i:288275 original size:267 final size:268
Alignment explanation
Indices: 287900--288521 Score: 676
Period size: 267 Copynumber: 2.3 Consensus size: 268
287890 GGTGGGTCAA
* * * * ** *
287900 ATCCATCTCTTCCAAGATTTGATATTCCCTAAGTAACAGTGGAACAAGTCTACCTCGATTTAATC
1 ATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTAAAACAAGTCTACCTCGATTCAATC
* * * * * * **
287965 TTCCCTGAGTGATAGTTGAATGAATCAAATCCTCCATATCTAATTTTCCCT-TATTAAGAAGTGG
66 TTCCCTGAGTGAAAGTAGAATGAATCAAATCCTCCAGATCTAATTTTCCATCGA-GAAGAAGCAG
* * * * *
288029 AACATATACCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCCTCAATT
130 AACAAATACCTCTCTTTCAAAATTTGATATTCCCTGAGTAACAGTAGAACAACTCTACCTCAATT
* * * *
288094 CAATATTCCCTGAGTG-TAGTGGAATGAATCAACATCTCTAAATATGATATTCCCTCCAGAAAAA
195 CAATATTCCCTAAGTGACAATGGAATGAATCAACATCCCTAAATATGATATTCCCTCCAGAAAAA
288158 GCAGAACAT
260 GCAGAACAT
* *
288167 ATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACATTAAAACAAGTCTATCTCGATTCAATC
1 ATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTAAAACAAGTCTACCTCGATTCAATC
* ** * * *
288232 TTCCCTGAGTGAAAGTAGAATGGATTTACT-CTCCCAGATCTAATTTTCCATCGAGACGAGGCAG
66 TTCCCTGAGTGAAAGTAGAATGAATCAAATCCT-CCAGATCTAATTTTCCATCGAGAAGAAGCAG
* * * * *
288296 AACAAATCCCTCTCTTTTAAAATTTGATATTCCCTGAGTGACATTAGAACAACTCTACCTCGATT
130 AACAAATACCTCTCTTTCAAAATTTGATATTCCCTGAGTAACAGTAGAACAACTCTACCTCAATT
* * * * * * * *
288361 CAATCTTCCCTAAGTGACAATGGAATGGATTAACGTCCCTAGATCTTATATTCCCTCCAGAAGAA
195 CAATATTCCCTAAGTGACAATGGAATGAATCAACATCCCTAAATATGATATTCCCTCCAGAAAAA
**
288426 GTGGAACAT
260 GCAGAACAT
* ** * * *
288435 ATCCCTCTTCTTT-AAGATTTGATATTCCCTGAGTGATAGTGGAACAAGTGTGCCTAGATTCAAT
1 ATCCCTC-TCTTTCAAGATTTGATATTCCCTGAGTGACAGTAAAACAAGTCTACCTCGATTCAAT
* * * *
288499 CTTACTTGAGTGATAGTGGAATG
65 CTTCCCTGAGTGAAAGTAGAATG
288522 GTCAACTCTA
Statistics
Matches: 292, Mismatches: 59, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
266 2 0.01
267 170 0.58
268 115 0.39
269 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (268 bp):
ATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTAAAACAAGTCTACCTCGATTCAATC
TTCCCTGAGTGAAAGTAGAATGAATCAAATCCTCCAGATCTAATTTTCCATCGAGAAGAAGCAGA
ACAAATACCTCTCTTTCAAAATTTGATATTCCCTGAGTAACAGTAGAACAACTCTACCTCAATTC
AATATTCCCTAAGTGACAATGGAATGAATCAACATCCCTAAATATGATATTCCCTCCAGAAAAAG
CAGAACAT
Found at i:289299 original size:89 final size:90
Alignment explanation
Indices: 289198--289366 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 90
289188 TATAAGGCAT
* *
289198 CCATATGCATTTCAATTATATCATCATTTCATGCCTAA-AATGTACCC-TATGCATTTCAATTAT
1 CCATATGCATTTCAATTATAGCATCATTTCATGCC-AATAATGCACCCATATGCATTTCAATTAT
289261 GGCATCATTTCATGCCAATAATTTAC
65 GGCATCATTTCATGCCAATAATTTAC
* *
289287 CCATATGCATTTCAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTTCAATTATG
1 CCATATGCATTTCAATTATAGCATCATTTCATGCCAATAATGCACCCATATGCATTTCAATTATG
*
289352 GCATCCTTTCATGCC
66 GCATCATTTCATGCC
289367 TATTATACAA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
88 2 0.03
89 40 0.55
90 31 0.42
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (90 bp):
CCATATGCATTTCAATTATAGCATCATTTCATGCCAATAATGCACCCATATGCATTTCAATTATG
GCATCATTTCATGCCAATAATTTAC
Found at i:289308 original size:45 final size:45
Alignment explanation
Indices: 289198--289366 Score: 261
Period size: 45 Copynumber: 3.8 Consensus size: 45
289188 TATAAGGCAT
**
289198 CCATATGCATTTCAATTATATCATCATTTCATGCCTAA-AATGTAC
1 CCATATGCATTTCAATTATGGCATCATTTCATGCC-AATAATGTAC
*
289243 CC-TATGCATTTCAATTATGGCATCATTTCATGCCAATAATTTAC
1 CCATATGCATTTCAATTATGGCATCATTTCATGCCAATAATGTAC
* *
289287 CCATATGCATTTCAATTATGGCATCCTTTCATGCCAATAATGCAC
1 CCATATGCATTTCAATTATGGCATCATTTCATGCCAATAATGTAC
*
289332 CCATATGCATTTCAATTATGGCATCCTTTCATGCC
1 CCATATGCATTTCAATTATGGCATCATTTCATGCC
289367 TATTATACAA
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
43 2 0.02
44 38 0.33
45 76 0.66
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (45 bp):
CCATATGCATTTCAATTATGGCATCATTTCATGCCAATAATGTAC
Found at i:289324 original size:22 final size:22
Alignment explanation
Indices: 289299--289372 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
289289 ATATGCATTT
289299 CAATTATGGCATCCTTTCATGC
1 CAATTATGGCATCCTTTCATGC
* * * **
289321 CAATAAT-GCACCCATATGCATTT
1 CAATTATGGCATCC-T-TTCATGC
289344 CAATTATGGCATCCTTTCATGC
1 CAATTATGGCATCCTTTCATGC
*
289366 CTATTAT
1 CAATTAT
289373 ACAACTTTAT
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
21 5 0.13
22 17 0.45
23 11 0.29
24 5 0.13
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (22 bp):
CAATTATGGCATCCTTTCATGC
Found at i:289384 original size:90 final size:89
Alignment explanation
Indices: 289198--289387 Score: 247
Period size: 90 Copynumber: 2.1 Consensus size: 89
289188 TATAAGGCAT
* *
289198 CCATATGCATTTCAATTATATCATCATTTCATGCCTAAAATGTACCCTATGCATTTCAATTATGG
1 CCATATGCATTTCAATTATAGCATCATTTCATGCCTAAAATGCACCCTATGCATTTCAATTATGG
** *
289263 CATCATTTCATGCCAATAATTTAC
66 CATCATTTCATGCCAATAATACAA
* *
289287 CCATATGCATTTCAATTATGGCATCCTTTCATGCC-AATAATGCACCCATATGCATTTCAATTAT
1 CCATATGCATTTCAATTATAGCATCATTTCATGCCTAA-AATGCACCC-TATGCATTTCAATTAT
* * *
289351 GGCATCCTTTCATGCCTATTATACAA
64 GGCATCATTTCATGCCAATAATACAA
**
289377 CTTTATGCATT
1 CCATATGCATT
289388 GTTATAAATC
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
88 2 0.02
89 40 0.46
90 45 0.52
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (89 bp):
CCATATGCATTTCAATTATAGCATCATTTCATGCCTAAAATGCACCCTATGCATTTCAATTATGG
CATCATTTCATGCCAATAATACAA
Found at i:289502 original size:81 final size:80
Alignment explanation
Indices: 289401--289665 Score: 311
Period size: 81 Copynumber: 3.3 Consensus size: 80
289391 ATAAATCTAG
* * *
289401 TCTTTTACTAAAAGGCATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAGTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTC-TCTAACTGGCATAATTGACACATTTCTGTCAAGTGC
289466 ACAGCTAGGCCATAAA
65 ACAGCTAGGCCATAAA
* * * * *
289482 TCTTTTACTCAATGGTATTTAACC-GT-T-TAACTGACATAATTGACACTTTTCTATCAAGTGCA
1 TCTTTTACTCAAAGGTATTTAACCTTTCTCTAACTGGCATAATTGACACATTTCTGTCAAGTGCA
*
289544 CAGCTAGACCATAAA
66 CAGCTAGGCCATAAA
* * * * * * * * *
289559 TCTTTTACTCAACGATATTTAGCCGTTCCTCCAATTGGCATAATTGATACCTTTATGTCAAGTGC
1 TCTTTTACTCAAAGGTATTTAACC-TTTCTCTAACTGGCATAATTGACACATTTCTGTCAAGTGC
* *
289624 ACAACTAGGCCATTAA
65 ACAGCTAGGCCATAAA
289640 TCTTTTACTCAAAGGTATTTAACCTT
1 TCTTTTACTCAAAGGTATTTAACCTT
289666 CACTGACACC
Statistics
Matches: 153, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
77 66 0.43
78 1 0.01
80 4 0.03
81 82 0.54
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (80 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCTCTAACTGGCATAATTGACACATTTCTGTCAAGTGCA
CAGCTAGGCCATAAA
Found at i:289778 original size:68 final size:68
Alignment explanation
Indices: 289669--290040 Score: 510
Period size: 68 Copynumber: 5.5 Consensus size: 68
289659 TAACCTTCAC
* * * * *
289669 TGACACCTTCCTGTCACATGCACAGTCAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAA
1 TGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAT
289734 GAT
66 GAT
* * *
289737 TGACACCTTTCTATCAATTGCACAGTTAGACCTCAAAGGCACTTAGCCTTTCATCTAACTGACAT
1 TGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAT
289802 GAT
66 GAT
* * * * * *
289805 TGTCACATTTATGTCAAATGCACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTGGTAT
1 TGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAT
289870 GAT
66 GAT
* *
289873 TGACATCTTTCTATCAAATGCACAGTTATGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAT
1 TGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAT
289938 GAT
66 GAT
* * * **
289941 TGGCATCTTTCTATCAAATGCACACTTAGGCCTCAAAGATACTTAGCCTTTCATCTAACTGGCAT
1 TGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAT
290006 GAT
66 GAT
* * * * *
290009 TGGCACCTTTATGTCAAATTCAGAGTTAGGCC
1 TGACACCTTTCTATCAAATGCACAGTTAGGCC
290041 ATTAATATCG
Statistics
Matches: 268, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 268 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (68 bp):
TGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAT
GAT
Found at i:290310 original size:55 final size:55
Alignment explanation
Indices: 290253--290455 Score: 309
Period size: 55 Copynumber: 3.7 Consensus size: 55
290243 ACATTTATTT
* * *
290253 CCCATACAGAAATTAATACACTTAATATGAATTTCTTAGTTCTGCACACATAGTT
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTCTGCACACATAGTG
*
290308 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTCTGCACACATAGTG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTCTGCACACATAGTG
* * * *
290363 CCCATACAAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGTACACCTAGTG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTCTGCACACATAGTG
* *
290418 CCCATA-GGAAATTCATACACTTAGTATTAATTTCTTAG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAG
290456 CTTTTTGCAC
Statistics
Matches: 136, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 29 0.21
55 107 0.79
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (55 bp):
CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTCTGCACACATAGTG
Found at i:291886 original size:134 final size:134
Alignment explanation
Indices: 291748--292553 Score: 774
Period size: 134 Copynumber: 6.0 Consensus size: 134
291738 GATCCCTTTT
* * * * * *
291748 TTTCAAGATTTGATATTCCATGAGTGATAGTGGAACAAGTGTACTTCGATTCAATCTTCCCTCAA
1 TTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAG
* *
291813 TGACAAG-GGAATGGATTAACATCTCC-ATATCTGATATTCCCTCCAGAAGAAGCGGAACATATC
66 TGAC-AGTGGAATGGATCAACATCTCCTAGATCTGATATTCCCTCCAGAAGAAGCGGAACATATC
291876 ACTCTC
130 -CTCTC
* * * ** *
291882 TTTCAAGATTTGATATTCCTTGAGTGACACTGGAACAAGTCTGCCAAGATTCAATCTTTCCTGAG
1 TTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAG
* * ** * * * * * *
291947 TAACAGTGGATTTAATCAAC-TC-CCTTAGATATGATTTTCCCTCAAGAAGAAGTGGAACAGACC
66 TGACAGTGGAATGGATCAACATCTCC-TAGATCTGATATTCCCTCCAGAAGAAGCGGAACATATC
292010 ACTCTC
130 -CTCTC
* * * ** * *
292016 TTTGAAGATTTAATATTCCCTGAGTGACAATGGAGTAAGTCTTCTTCGATTCAATCTTCCCT-AT
1 TTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGA-
* * * * * * * * *
292080 GTGATAGTGGAATGAACCAACATC-CCTAGATATGATATACTCTCCAGAATAAGTGGAACAAATC
65 GTGACAGTGGAATGGATCAACATCTCCTAGATCTGATATTCCCTCCAGAAGAAGCGGAACATAT-
*
292144 CCTCTT
129 CCTCTC
**
292150 TTTCAAGATTTGATATTCCCT-ATGTGTTAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGA
1 TTTCAAGATTTGATATTCCCTGA-GTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGA
* * * *
292214 GAGACAGTGGAATGAAT-AA-ATGTCCCTAGATCTGATATTCCCTCTAGAAGAAGCGGAACATAT
65 GTGACAGTGGAATGGATCAACATCT-CCTAGATCTGATATTCCCTCCAGAAGAAGCGGAACATAT
292277 CCTTCTC
129 CC-TCTC
* * * *
292284 TTCCAAGATTTGATATTCCCTGAGTAACAGTGGAATAAGTCTTCCTCGATTC-ATCTTCCCTGAG
1 TTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAG
* * * **
292348 TTAAAGTGGAATTGATCAATGTCT-CTAGATCTGATATTCCCTCCA-AATGAAGCGGAACATATC
66 TGACAGTGGAATGGATCAACATCTCCTAGATCTGATATTCCCTCCAGAA-GAAGCGGAACATATC
*
292411 CCCTTC
130 CTC-TC
* * *
292417 TTTCAAGATTTGATATTCCCTGAGTGACAGTGGAAAAAGTCTGCCCCGATTCAATCTTCCCTGAG
1 TTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAG
* ** * ** ** **
292482 TGATAGTGGAATAAATCAACATC-CCCAGATCCAATATTCTATCCAGAAGAAGTAGAACATATCA
66 TGACAGTGGAATGGATCAACATCTCCTAGATCTGATATTCCCTCCAGAAGAAGCGGAACATATC-
292546 CTCATC
130 CTC-TC
292552 TT
1 TT
292554 ATTCTAAAGC
Statistics
Matches: 549, Mismatches: 103, Indels: 39
0.79 0.15 0.06
Matches are distributed among these distances:
132 7 0.01
133 118 0.21
134 407 0.74
135 17 0.03
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (134 bp):
TTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAG
TGACAGTGGAATGGATCAACATCTCCTAGATCTGATATTCCCTCCAGAAGAAGCGGAACATATCC
TCTC
Found at i:292186 original size:268 final size:266
Alignment explanation
Indices: 291696--292511 Score: 867
Period size: 268 Copynumber: 3.0 Consensus size: 266
291686 GGGTATTACA
* * ** * * * * *
291696 AACTCCATCAGATATGATATTACCTTTAGAAGAATCGAAACAGATCCCTTTTTTTCAAGATTTGA
1 AACTCCCT-AGATATGATATTCCCTCAAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGA
* * * * * *
291761 TATTCCATGAGTGATAGTGGAACAAGTGTACTTCGATTCAATCTTCCCTCAATGACAAG-GGAAT
65 TATTCCCTGAGTGACAGTGGAATAAGTCTTCTTCGATTCAATCTTCCCTCAGTGA-AAGTGGAAT
* * * * *
291825 GGATTAACATCTCC-ATATCTGATATTCCCTCCAGAAGAAGCGGAACATATCACTCTCTTTCAAG
129 -GATCAACATC-CCTAGATCTGATATTCCCTCCAGAATAAGCGGAACATATCCCTCTTTTTCAAG
* * * *
291889 ATTTGATATTCCTTGAGTGACACTGGAACAAGTCTGCCAAGATTCAATCTTTCCTGAGTAACAGT
192 ATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCACGATTCAATCTTCCCTGAGTAACAGT
* *
291954 GGATTTAATC
257 GGAATAAATC
* * ** *
291964 AACTCCCTTAGATATGATTTTCCCTCAAGAAGAAGTGGAACAGA-CCACTCTCTTTGAAGATTTA
1 AACTCCC-TAGATATGATATTCCCTCAAGAAGAAGCGGAACAGATCC-CTCTCTTCCAAGATTTG
* * *
292028 ATATTCCCTGAGTGACAATGGAGTAAGTCTTCTTCGATTCAATCTTCCCT-ATGTGATAGTGGAA
64 ATATTCCCTGAGTGACAGTGGAATAAGTCTTCTTCGATTCAATCTTCCCTCA-GTGAAAGTGGAA
* * * * * *
292092 TGAACCAACATCCCTAGATATGATATACTCTCCAGAATAAGTGGAACAAATCCCTCTTTTTCAAG
128 TG-ATCAACATCCCTAGATCTGATATTCCCTCCAGAATAAGCGGAACATATCCCTCTTTTTCAAG
** * *
292157 ATTTGATATTCCCT-ATGTGTTAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAG-AGACA
192 ATTTGATATTCCCTGA-GTGACAGTGGAACAAGTCTGCCACGATTCAATCTTCCCTGAGTA-ACA
* *
292220 GTGGAATGAATA
255 GTGGAATAAATC
* * * * *
292232 AATGTCCCTAGATCTGATATTCCCTCTAGAAGAAGCGGAACATATCCTTCTCTTCCAAGATTTGA
1 AA-CTCCCTAGATATGATATTCCCTCAAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGA
* * * *
292297 TATTCCCTGAGTAACAGTGGAATAAGTCTTCCTCGATTC-ATCTTCCCTGAGTTAAAGTGGAATT
65 TATTCCCTGAGTGACAGTGGAATAAGTCTTCTTCGATTCAATCTTCCCTCAGTGAAAGTGGAA-T
** *
292361 GATCAATGTCTCTAGATCTGATATTCCCTCCA-AATGAAGCGGAACATATCCC-CTTCTTTCAAG
129 GATCAACATCCCTAGATCTGATATTCCCTCCAGAAT-AAGCGGAACATATCCCTCTT-TTTCAAG
* * * *
292424 ATTTGATATTCCCTGAGTGACAGTGGAAAAAGTCTGCCCCGATTCAATCTTCCCTGAGTGATAGT
192 ATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCACGATTCAATCTTCCCTGAGTAACAGT
292489 GGAATAAATC
257 GGAATAAATC
*
292499 AACATCCCCAGAT
1 AAC-TCCCTAGAT
292512 CCAATATTCT
Statistics
Matches: 452, Mismatches: 79, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
266 6 0.01
267 147 0.33
268 292 0.65
269 7 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (266 bp):
AACTCCCTAGATATGATATTCCCTCAAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGAT
ATTCCCTGAGTGACAGTGGAATAAGTCTTCTTCGATTCAATCTTCCCTCAGTGAAAGTGGAATGA
TCAACATCCCTAGATCTGATATTCCCTCCAGAATAAGCGGAACATATCCCTCTTTTTCAAGATTT
GATATTCCCTGAGTGACAGTGGAACAAGTCTGCCACGATTCAATCTTCCCTGAGTAACAGTGGAA
TAAATC
Found at i:292681 original size:3 final size:3
Alignment explanation
Indices: 292673--292749 Score: 77
Period size: 3 Copynumber: 26.0 Consensus size: 3
292663 TTCGTCCCGC
* *
292673 TAT TAT TA- TAT TAT TAT TACT T-T TAT CAT TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
292717 CAA TAT TAT TAT TAA TAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
292750 ATTTTTATAT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
2 4 0.07
3 53 0.90
4 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:292705 original size:18 final size:18
Alignment explanation
Indices: 292673--292749 Score: 86
Period size: 18 Copynumber: 4.3 Consensus size: 18
292663 TTCGTCCCGC
292673 TATTATTAT-ATTATTAT
1 TATTATTATCATTATTAT
292690 TACTT-TTATCATTATTAT
1 TA-TTATTATCATTATTAT
* *
292708 TATTAATATCAATATTAT
1 TATTATTATCATTATTAT
* * *
292726 TATTAATATTATTAATAT
1 TATTATTATCATTATTAT
292744 TATTAT
1 TATTAT
292750 ATTTTTATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
17 8 0.16
18 43 0.84
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTATTATCATTATTAT
Found at i:295098 original size:131 final size:130
Alignment explanation
Indices: 294887--295126 Score: 279
Period size: 131 Copynumber: 1.8 Consensus size: 130
294877 AAATGACTAC
* * * * *
294887 TTTAAGGCATGAGAGGTTATTTATTCTCGATTAGAAATAGTTTGATATTGTCATTTTTCTTTCGA
1 TTTAAGGCATGAGAGGTCATTTAATCTCGATTAGAAATAGTTAGATATTAT-ATTTTTCCTTCGA
* * * *
294952 ATTAATATTGTTTTTATGAAGGAATAGTGATATATCTTCATTTCGAGTGGATCAATAAATATATG
65 ATTAATATTGATTTTAAGAAGAAATAGTAATATATCTTCATTTCGAGTGGATCAATAAATATATG
295017 A
130 A
* *
295018 TTTAAGGTATGAGAGGTCATTTAATCTCGATTGGAAATCA-TTAGATATTAT-TGTTTTCACTT-
1 TTTAAGGCATGAGAGGTCATTTAATCTCGATTAGAAAT-AGTTAGATATTATAT-TTTTC-CTTC
* * * *
295080 GAATTGATATTGAATTTTAAGACGAAATAGTAATATCTCTTTATTTC
63 GAATTAATATTG-ATTTTAAGAAGAAATAGTAATATATCTTCATTTC
295127 AATTGGGGTA
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
129 1 0.01
130 16 0.18
131 72 0.80
132 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (130 bp):
TTTAAGGCATGAGAGGTCATTTAATCTCGATTAGAAATAGTTAGATATTATATTTTTCCTTCGAA
TTAATATTGATTTTAAGAAGAAATAGTAATATATCTTCATTTCGAGTGGATCAATAAATATATGA
Found at i:296352 original size:23 final size:23
Alignment explanation
Indices: 296318--296386 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
296308 CAACACAGCT
*
296318 CGTATAAA-TGCACTGAAGTGCCA
1 CGTA-AAATTGCACCGAAGTGCCA
* *
296341 CGTAAAATTGCACCGAAGTGTCG
1 CGTAAAATTGCACCGAAGTGCCA
* *
296364 CGTAGAATTACACCGAAGTGCCA
1 CGTAAAATTGCACCGAAGTGCCA
296387 TATAAAATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 3 0.08
23 35 0.92
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (23 bp):
CGTAAAATTGCACCGAAGTGCCA
Found at i:305747 original size:132 final size:130
Alignment explanation
Indices: 305438--305697 Score: 434
Period size: 132 Copynumber: 2.0 Consensus size: 130
305428 GAACTGTATT
305438 TTATCGACTGACTCTAAAAGTGCATCTTAATAACTCACATAACTTGTATTCTCATTTGTATACAT
1 TTATC-AC-GACTCTAAAAGTGCATCTTAATAACTCACATAACTTGTATTCTCATTTGTATACAT
* **
305503 TAGGGTATGACATAAAAGAAATTTTGAAAATTGTAAGTTATGATAGATAAGTGGGAAAGTCTGTA
64 TAGGATATGACATAAAAGAAATTTTGAAAATTGTAAGTTATGATAGATAAGTGGGAAAGTCTACA
*
305568 TT
129 TC
305570 TTATCGACTGACTCTAAAAGTGCATCTTAATAACTCACATAACTTGTATTCTCATTTGTATACAT
1 TTATC-AC-GACTCTAAAAGTGCATCTTAATAACTCACATAACTTGTATTCTCATTTGTATACAT
305635 TAGGATATGACAT-AAAGAAATTTTGAAAATTGTAAGTTATGATAGATAAGTGGGAAAGT-TACA
64 TAGGATATGACATAAAAGAAATTTTGAAAATTGTAAGTTATGATAGATAAGTGGGAAAGTCTACA
305698 CTTTCCATTC
Statistics
Matches: 125, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
130 2 0.02
131 46 0.37
132 77 0.62
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (130 bp):
TTATCACGACTCTAAAAGTGCATCTTAATAACTCACATAACTTGTATTCTCATTTGTATACATTA
GGATATGACATAAAAGAAATTTTGAAAATTGTAAGTTATGATAGATAAGTGGGAAAGTCTACATC
Found at i:318128 original size:35 final size:35
Alignment explanation
Indices: 318030--318130 Score: 175
Period size: 35 Copynumber: 2.9 Consensus size: 35
318020 CGTCACGTCC
*
318030 AGTAAGGCCCTGAGCACACAGCCGAGGACCCGATA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGATA
318065 AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGATA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGATA
* *
318100 AGTAAGGCCTTAAGCACACAGCCGAGGAGCC
1 AGTAAGGCCCTGAGCACACAGCCGAGGAGCC
318131 TTCAGGTATA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 63 1.00
ACGTcount: A:0.32, C:0.30, G:0.30, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGATA
Found at i:318266 original size:24 final size:23
Alignment explanation
Indices: 318239--318296 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
318229 CAGATCAGAT
*
318239 TCCATGTCAAGTATCATATAAAAA
1 TCCA-GTCAAGTACCATATAAAAA
*
318263 TCCAGATCAAGTACCATATCAAAA
1 TCCAG-TCAAGTACCATATAAAAA
318287 TCCACGTCAA
1 TCCA-GTCAA
318297 AAATCAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (23 bp):
TCCAGTCAAGTACCATATAAAAA
Found at i:319034 original size:29 final size:29
Alignment explanation
Indices: 318996--319177 Score: 140
Period size: 29 Copynumber: 6.4 Consensus size: 29
318986 TTTTTTTAAC
* * *
318996 ATTACGAAAATAGCACCATTTTGATATTA
1 ATTACCAAAATAGCACCATTTTGAAAATA
* *
319025 ATTACCAAAATAGCATCATTTTTAAAATA
1 ATTACCAAAATAGCACCATTTTGAAAATA
* * * *
319054 ATTACTAAAATATCACTCTTTTTAAAAAT-
1 ATTACCAAAATAGCAC-CATTTTGAAAATA
* * * *
319083 TTTA-CAAAATTGTCA-C-TTTTAAAAAAA
1 ATTACCAAAATAG-CACCATTTTGAAAATA
* *
319110 ATTACAAAAATAGCA-CATTTTCAAAATA
1 ATTACCAAAATAGCACCATTTTGAAAATA
* ***
319138 ATTACCAGAATAGCACCATTTCCCAAATA
1 ATTACCAAAATAGCACCATTTTGAAAATA
319167 ATTACCAAAAT
1 ATTACCAAAAT
319178 GTCACCCGAT
Statistics
Matches: 122, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
26 9 0.07
27 7 0.06
28 33 0.27
29 63 0.52
30 10 0.08
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (29 bp):
ATTACCAAAATAGCACCATTTTGAAAATA
Found at i:319181 original size:84 final size:85
Alignment explanation
Indices: 319024--319182 Score: 189
Period size: 84 Copynumber: 1.9 Consensus size: 85
319014 TTTTGATATT
* * * * * * *
319024 AATTACCAAAATAGCATCATTTTTAAAATAATTACTAAAATATCACTCTTTTTAAAAATTTTACA
1 AATTACAAAAATAGCATCATTTTCAAAATAATTACCAAAATAGCACTCATTTCAAAAATATTACA
319089 AAATTGTCACTTTTAAAAAA
66 AAATTGTCACTTTTAAAAAA
* **
319109 AATTACAAAAATAGCA-CATTTTCAAAATAATTACCAGAATAGCAC-CATTTCCCAAATAATTAC
1 AATTACAAAAATAGCATCATTTTCAAAATAATTACCAAAATAGCACTCATTTCAAAAAT-ATTA-
319172 CAAAA-TGTCAC
64 CAAAATTGTCAC
319183 CCGATCAACG
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
83 8 0.13
84 34 0.55
85 20 0.32
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (85 bp):
AATTACAAAAATAGCATCATTTTCAAAATAATTACCAAAATAGCACTCATTTCAAAAATATTACA
AAATTGTCACTTTTAAAAAA
Found at i:319215 original size:18 final size:18
Alignment explanation
Indices: 319192--319226 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
319182 CCCGATCAAC
319192 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
319210 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
319227 AAAACCGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.23, G:0.49, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:319219 original size:13 final size:13
Alignment explanation
Indices: 319203--319228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
319193 GTCAACGGGT
319203 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
319216 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
319229 AACCGGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:324926 original size:24 final size:24
Alignment explanation
Indices: 324899--324956 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
324889 CATATCAGAT
*
324899 TCCATGTCAAGTATCATATAAAAA
1 TCCACGTCAAGTATCATATAAAAA
* *
324923 TCCAGGTCAAGTATCATATCAAAA
1 TCCACGTCAAGTATCATATAAAAA
324947 TCCACGTCAA
1 TCCACGTCAA
324957 AATTCAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (24 bp):
TCCACGTCAAGTATCATATAAAAA
Found at i:325696 original size:29 final size:29
Alignment explanation
Indices: 325658--325841 Score: 124
Period size: 29 Copynumber: 6.4 Consensus size: 29
325648 ATTTTTTAAC
* * *
325658 ATTACGAAAATAGCACCATTTTGAAATTA
1 ATTACCAAAATAGCACCATTTTCAAAATA
*
325687 ATTACCAAAATAGCATCATTTTCAAAATA
1 ATTACCAAAATAGCACCATTTTCAAAATA
* * * *
325716 ATTACTAAAATATCACTCTTTTTAAAAAT-
1 ATTACCAAAATAGCAC-CATTTTCAAAATA
* * * * *
325745 TTTA-CGAAATTGTCA-CATTTTTAAAAAA
1 ATTACCAAAATAG-CACCATTTTCAAAATA
* * *
325773 ATTACAAAAATAACACCCTTTTCAAAATA
1 ATTACCAAAATAGCACCATTTTCAAAATA
** * * *
325802 ATTTTCAGAATATCACTATTTCTC-AAATA
1 ATTACCAAAATAGCACCATTT-TCAAAATA
325831 ATTACCAAAAT
1 ATTACCAAAAT
325842 GTCACCCGGT
Statistics
Matches: 114, Mismatches: 35, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
27 9 0.08
28 9 0.08
29 84 0.74
30 12 0.11
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.35
Consensus pattern (29 bp):
ATTACCAAAATAGCACCATTTTCAAAATA
Found at i:325845 original size:86 final size:85
Alignment explanation
Indices: 325686--325846 Score: 182
Period size: 86 Copynumber: 1.9 Consensus size: 85
325676 TTTTGAAATT
* * * * * *
325686 AATTACCAAAATAGCATCATTTTCAAAATAATTACTAAAATATCACTCTTTTTAAAAATTTTACG
1 AATTACAAAAATAACACCATTTTCAAAATAATTACTAAAATATCACTATTTTCAAAAA-TTTACC
*
325751 AAATTGTCACATTTTTAAAAA
65 AAAATGTCACATTTTTAAAAA
* * *
325772 AATTACAAAAATAACACCCTTTTCAAAATAATT-TTCAGAATATCACTATTTCTCAAATAA-TTA
1 AATTACAAAAATAACACCATTTTCAAAATAATTACT-AAAATATCACTATTT-TCAAA-AATTTA
325835 CCAAAATGTCAC
63 CCAAAATGTCAC
325847 CCGGTCAACG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
85 1 0.02
86 55 0.89
87 4 0.06
88 2 0.03
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (85 bp):
AATTACAAAAATAACACCATTTTCAAAATAATTACTAAAATATCACTATTTTCAAAAATTTACCA
AAATGTCACATTTTTAAAAA
Found at i:327173 original size:128 final size:129
Alignment explanation
Indices: 326928--327273 Score: 527
Period size: 128 Copynumber: 2.7 Consensus size: 129
326918 TTTTAAGAAT
* *
326928 GAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGA-TCTCTCATGCCTTAAAGCATTC
1 GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACT-TCTCATGCCTTAAAGCAATC
* * * *
326992 ATTTATTACTCCGATCGAAATGAAGATATATCACTATTTTGTCTTAAATTCAATATTGA-CGAGA
65 ATTTATTACTCCAATCGAAATGAAGATATATCACTATTTGGTCTAAAAATCAATATTGATCGAGA
* * *
327056 GAAAATGATAATATCTAATTATTTCCAATCTAGAATAAATGACTTCTCATGCCTTAAAGCAGTCA
1 GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACTTCTCATGCCTTAAAGCAATCA
*
327121 TTTATTACTCCAATCGAAATGAAGA-GTATCACTATTTGGTCATAAAAATCAATATTGATTCGAG
66 TTTATTACTCCAATCGAAATGAAGATATATCACTATTTGGTC-TAAAAATCAATATTGA-TCGAG
327185 A
129 A
* *
327186 GAAAACAATAATATATAATTATTTCCAATCGAGAATAAATGACTTCTCATGCCTTAAAGCAATCA
1 GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACTTCTCATGCCTTAAAGCAATCA
*
327251 TTTATTACTCCAACCGAAATGAA
66 TTTATTACTCCAATCGAAATGAA
327274 AAGATATTAT
Statistics
Matches: 199, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
127 14 0.07
128 97 0.49
129 1 0.01
130 87 0.44
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (129 bp):
GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACTTCTCATGCCTTAAAGCAATCA
TTTATTACTCCAATCGAAATGAAGATATATCACTATTTGGTCTAAAAATCAATATTGATCGAGA
Found at i:329300 original size:13 final size:14
Alignment explanation
Indices: 329282--329316 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
329272 TTGTAACCTG
329282 AAAATAAAAT-AAT
1 AAAATAAAATAAAT
329295 AAAATAAAATAAAT
1 AAAATAAAATAAAT
329309 AATAATAA
1 AA-AATAA
329317 TACTATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 5 0.25
15 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:329312 original size:3 final size:3
Alignment explanation
Indices: 329284--329347 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
329274 GTAACCTGAA
* *
329284 AAT AA- AAT AAT AA- AAT AA- AAT AAAT AAT AAT AAT ACT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* *
329327 AAT AAT AAT AAC AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
329348 GTCAGGACGA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.12
3 43 0.83
4 3 0.06
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:331664 original size:197 final size:197
Alignment explanation
Indices: 331329--331684 Score: 615
Period size: 197 Copynumber: 1.8 Consensus size: 197
331319 TTAAATCTGA
* * * *
331329 TGATATATTTATAACCTATATATACTCAGATCTCACCTCGTTATTAAGTATTGATGTGATACAAT
1 TGATATATTAATAACCTATATATACTCAGATCTCACCTCCTTATTAAGTATTGATATAATACAAT
* * *
331394 ATGATACAAATATATCCTCTTCACTGAGATACATATTCTTAATAACAATATTGCTCTTCTTCACC
66 ATGATACAAATATATCCTCTTCACCGAGATACATATTCTTAATAACAATATTCCTCATCTTCACC
331459 AAGACCAAAGTCATAAAAACTTTACTCTGCAGTAGACCTTATGAAATGTCAATTAGATTCAACCT
131 AAGACCAAAGTCATAAAAACTTTACTCTGCAGTAGACCTTATGAAATGTCAATTAGATTCAACCT
331524 GG
196 GG
331526 TGATATATTAATAACCTATATATACTCAGATCTCACCTCCTTATTAAGTATTGATATAATACAAT
1 TGATATATTAATAACCTATATATACTCAGATCTCACCTCCTTATTAAGTATTGATATAATACAAT
* *
331591 ATGATA-AATATATATCCTCTTCACCGAGATACATATTCTTAATAACAATATTCCTCATCTTTAT
66 ATGATACAA-ATATATCCTCTTCACCGAGATACATATTCTTAATAACAATATTCCTCATCTTCAC
331655 CAAGACCAAAGTCATAAAAACTTTACTCTG
130 CAAGACCAAAGTCATAAAAACTTTACTCTG
331685 TTATAAACCT
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
196 2 0.01
197 147 0.99
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (197 bp):
TGATATATTAATAACCTATATATACTCAGATCTCACCTCCTTATTAAGTATTGATATAATACAAT
ATGATACAAATATATCCTCTTCACCGAGATACATATTCTTAATAACAATATTCCTCATCTTCACC
AAGACCAAAGTCATAAAAACTTTACTCTGCAGTAGACCTTATGAAATGTCAATTAGATTCAACCT
GG
Found at i:332332 original size:16 final size:15
Alignment explanation
Indices: 332306--332335 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
332296 TTCCGATACA
332306 ATCAAATTTGTTCGT
1 ATCAAATTTGTTCGT
332321 ATCAATATTTGTTCG
1 ATCAA-ATTTGTTCG
332336 ATTTTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
ATCAAATTTGTTCGT
Found at i:334447 original size:18 final size:18
Alignment explanation
Indices: 334424--334459 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
334414 AATGGGGTTG
334424 GTAAAAATATATTAAATA
1 GTAAAAATATATTAAATA
*
334442 GTAAAAATATATTGAATA
1 GTAAAAATATATTAAATA
334460 AAAGGCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
GTAAAAATATATTAAATA
Found at i:334931 original size:19 final size:19
Alignment explanation
Indices: 334894--334930 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
334884 TGACCAAAGT
334894 CAATCTTTGATTTCGAAAA
1 CAATCTTTGATTTCGAAAA
*
334913 CAAT-TTTGATTTTGAAAA
1 CAATCTTTGATTTCGAAAA
334931 AAAAAACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
CAATCTTTGATTTCGAAAA
Found at i:336013 original size:23 final size:23
Alignment explanation
Indices: 335987--336033 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
335977 AAACATGCCA
335987 AAAGACATAA-GAAAACGTGTCAT
1 AAAGACA-AATGAAAACGTGTCAT
*
336010 AAAGACAAATGAAAATGTGTCAT
1 AAAGACAAATGAAAACGTGTCAT
336033 A
1 A
336034 CATGAAGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (23 bp):
AAAGACAAATGAAAACGTGTCAT
Found at i:338075 original size:27 final size:28
Alignment explanation
Indices: 338037--338089 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
338027 TTATTTCATT
*
338037 CATTGTCCTTATCT-TTCATTGTCTTTA
1 CATTATCCTTATCTATTCATTGTCTTTA
*
338064 CATTATCCTTATCTATTCGTTGTCTT
1 CATTATCCTTATCTATTCATTGTCTT
338090 AATCTCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.55
Consensus pattern (28 bp):
CATTATCCTTATCTATTCATTGTCTTTA
Found at i:338868 original size:20 final size:20
Alignment explanation
Indices: 338839--338894 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
338829 TTTGTGGAAG
*
338839 AAGTGGAGAATATGTTC-TCA
1 AAGTGAAGAAT-TGTTCGTCA
**
338859 AAGTGAAGAACTTGTTCGTTG
1 AAGTGAAGAA-TTGTTCGTCA
338880 AAGTGAAGAATTGTT
1 AAGTGAAGAATTGTT
338895 TTTGTTGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (20 bp):
AAGTGAAGAATTGTTCGTCA
Found at i:340279 original size:54 final size:54
Alignment explanation
Indices: 340216--340335 Score: 186
Period size: 54 Copynumber: 2.2 Consensus size: 54
340206 ATAAGTCCGT
* * *
340216 TGGGGTGCACACGTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTATG
1 TGGGTTGCACACGTAATACCGATACGGTCGTTCATAAACATATTATGAATTATG
* * *
340270 TGGGTTGCACACTTAATACTGATACGGTCGTTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACGTAATACCGATACGGTCGTTCATAAACATATTATGAATTATG
340324 TGGGTTGCACAC
1 TGGGTTGCACAC
340336 TTAGGTGGTG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (54 bp):
TGGGTTGCACACGTAATACCGATACGGTCGTTCATAAACATATTATGAATTATG
Found at i:340336 original size:54 final size:54
Alignment explanation
Indices: 340236--340338 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
340226 ACGTAGTGCC
340236 GATACGGTCGTTCATAAACATATTATGAATTATGTGGGTTGCACACTTAATACT
1 GATACGGTCGTTCATAAACATATTATGAATTATGTGGGTTGCACACTTAATACT
*
340290 GATACGGTCGTTCATAAACTTATTATGAATTATGTGGGTTGCACACTTA
1 GATACGGTCGTTCATAAACATATTATGAATTATGTGGGTTGCACACTTA
340339 GGTGGTGTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (54 bp):
GATACGGTCGTTCATAAACATATTATGAATTATGTGGGTTGCACACTTAATACT
Found at i:340337 original size:27 final size:27
Alignment explanation
Indices: 340256--340338 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
340246 TTCATAAACA
340256 TATTATGAATTATGTGGGTTGCACACT
1 TATTATGAATTATGTGGGTTGCACACT
* * * *
340283 TAATACTG-A-TACG-GTCGTT-CATAAACT
1 TATTA-TGAATTATGTG-GGTTGC--ACACT
340310 TATTATGAATTATGTGGGTTGCACACT
1 TATTATGAATTATGTGGGTTGCACACT
340337 TA
1 TA
340339 GGTGGTGTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
25 2 0.05
26 8 0.20
27 20 0.50
28 8 0.20
29 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (27 bp):
TATTATGAATTATGTGGGTTGCACACT
Found at i:340685 original size:19 final size:20
Alignment explanation
Indices: 340663--340713 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
340653 TTTAGATAAA
*
340663 TTTAATAATTTTATAA-TCT
1 TTTAATAATTTTATAAGTAT
*
340682 TTTAATAAATTTAATAAGTAT
1 TTTAAT-AATTTTATAAGTAT
340703 TTT-ATAATTTT
1 TTTAATAATTTT
340714 TTAACTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 11 0.41
20 11 0.41
21 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAATAATTTTATAAGTAT
Found at i:340697 original size:28 final size:30
Alignment explanation
Indices: 340653--340717 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
340643 TATTTTAGTA
340653 TTTAGATAAATTTAAT-A-ATTTTATAATCT
1 TTTA-ATAAATTTAATAAGATTTTATAATCT
*
340682 TTTAATAAATTTAATAAGTATTTTATAATTT
1 TTTAATAAATTTAATAAG-ATTTTATAATCT
340713 TTTAA
1 TTTAA
340718 CTTTATTGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 11 0.34
29 5 0.16
31 16 0.50
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (30 bp):
TTTAATAAATTTAATAAGATTTTATAATCT
Found at i:341445 original size:30 final size:29
Alignment explanation
Indices: 341411--341485 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
341401 TAAAAAATTA
*
341411 TAAAAATACTTATTAAATTTAT-TAAAATAT
1 TAAAAATA-TTATTAAATTTATCT-AAATAC
*
341441 TAAAAATTATTAATAAATTTATCTAAATAC
1 TAAAAA-TATTATTAAATTTATCTAAATAC
*
341471 TATAAATAATTATTA
1 TAAAAAT-ATTATTA
341486 TATTATCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 34 0.89
31 3 0.08
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
TAAAAATATTATTAAATTTATCTAAATAC
Found at i:341865 original size:54 final size:54
Alignment explanation
Indices: 341779--342113 Score: 467
Period size: 54 Copynumber: 6.2 Consensus size: 54
341769 CAAACACCAC
* * *
341779 CTTAGTGTCGATACGGTTGTTCATAAATATATTATGAATTTCGTGGGTTGCACA
1 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACA
* * *
341833 CTTAGTGCCAATACGGTTGTTCATAAAAATATTATGAATTTCGTGGGTTGCACA
1 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACA
* * * *
341887 CTTAGTGCTGATACTGTCATTCATAAAC--ATTATGAATTCCGTGGGTTGCACA
1 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACA
* *
341939 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGTACA
1 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACA
* * *
341993 CTTAGTGCCAATATGGTGGTTCATAAACATATTATGAATTTCGTGGGTTGCACA
1 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACA
* * * * *
342047 CTTAGTGTCGATACGATCATTCATAAACATATTATGAATTCCGTGGGTTACACA
1 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACA
*
342101 CTTAGTTCCGATA
1 CTTAGTGCCGATA
342114 GTGCACATAG
Statistics
Matches: 248, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
52 48 0.19
54 200 0.81
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (54 bp):
CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACA
Found at i:341971 original size:106 final size:107
Alignment explanation
Indices: 341798--342106 Score: 433
Period size: 106 Copynumber: 2.9 Consensus size: 107
341788 GATACGGTTG
* * * *
341798 TTCATAAATATATTATGAATTTCGTGGGTTGCACACTTAGTGCCAATACGGTTGTTCATAAAAAT
1 TTCATAAACA-ATTATGAATTTCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACAT
**
341863 ATTATGAATTTCGTGGGTTGCACACTTAGTGCTGATACT-GTCA
65 ATTATGAATTTCGTGGGTTGCACACTTAGTGCCAATA-TGGTCA
*
341906 TTCATAAAC-ATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATA
1 TTCATAAACAATTATGAATTTCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATA
* * **
341970 TTATGAATTTTGTGGGTTGTACACTTAGTGCCAATATGGTGG
66 TTATGAATTTCGTGGGTTGCACACTTAGTGCCAATATGGTCA
* * *
342012 TTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGATCATTCATAAACAT
1 TTCATAAACA-ATTATGAATTTCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACAT
* *
342077 ATTATGAATTCCGTGGGTTACACACTTAGT
65 ATTATGAATTTCGTGGGTTGCACACTTAGT
342107 TCCGATAGTG
Statistics
Matches: 179, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
105 1 0.01
106 94 0.53
108 84 0.47
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (107 bp):
TTCATAAACAATTATGAATTTCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATA
TTATGAATTTCGTGGGTTGCACACTTAGTGCCAATATGGTCA
Found at i:342043 original size:160 final size:161
Alignment explanation
Indices: 341779--342113 Score: 532
Period size: 160 Copynumber: 2.1 Consensus size: 161
341769 CAAACACCAC
* * *
341779 CTTAGTGTCGATACGGTTGTTCATAAATATATTATGAATTTCGTGGGTTGCACACTTAGTGCCAA
1 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTGCCAA
*
341844 TACGGTTGTTCATAAAAATATTATGAATTTCGTGGGTTGCACACTTAGTG-CTGATACTG-TCAT
66 TACGGTGGTTCATAAAAATATTATGAATTTCGTGGGTTGCACACTTAGTGTC-GATAC-GATCAT
*
341907 TCATAAAC-ATTATGAATTCCGTGGGTTGCACA
129 TCATAAACAATTATGAATTCCGTGGGTTACACA
* *
341939 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGTACACTTAGTGCCAA
1 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTGCCAA
* *
342004 TATGGTGGTTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGATCATTC
66 TACGGTGGTTCATAAAAATATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGATCATTC
342069 ATAAACATATTATGAATTCCGTGGGTTACACA
131 ATAAACA-ATTATGAATTCCGTGGGTTACACA
*
342101 CTTAGTTCCGATA
1 CTTAGTGCCGATA
342114 GTGCACATAG
Statistics
Matches: 161, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
159 1 0.01
160 124 0.77
161 1 0.01
162 35 0.22
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (161 bp):
CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTGCCAA
TACGGTGGTTCATAAAAATATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGATCATTC
ATAAACAATTATGAATTCCGTGGGTTACACA
Found at i:342881 original size:15 final size:15
Alignment explanation
Indices: 342861--342941 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
342851 TTCCGGAAAA
*
342861 TGAATTACTGGAGTT
1 TGAATTACTGGAATT
342876 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
342891 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
342906 TGAATTACTGGAATT
1 TGAATTACTGGAATT
*
342921 TGAATT-CTGGAA-A
1 TGAATTACTGGAATT
342934 TGAATTAC
1 TGAATTAC
342942 ATTTCTGGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
13 6 0.10
14 7 0.12
15 46 0.78
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:342906 original size:45 final size:43
Alignment explanation
Indices: 342855--342941 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 43
342845 TTGGTTTTCC
* *
342855 GGAAAATGAATTACTGGAGTTTGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATT-CTGGAA-ATGAATTACT
342900 GGAAAATGAATTACTGGAATTTGAATTCTGGAAATGAATTAC
1 GGAAAATGAATTACTGGAATTTGAATTCTGGAAATGAATTAC
342942 ATTTCTGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 8 0.20
44 6 0.15
45 26 0.65
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (43 bp):
GGAAAATGAATTACTGGAATTTGAATTCTGGAAATGAATTACT
Found at i:342956 original size:20 final size:20
Alignment explanation
Indices: 342925--342973 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
342915 GGAATTTGAA
342925 TTCTGG-AAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
342944 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
342964 TTCTGGAAAA
1 TTCTGGAAAA
342974 CATCTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:343224 original size:29 final size:27
Alignment explanation
Indices: 343191--343259 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 27
343181 AATATTATTC
343191 ATTATTAAATATATAAAAAATTTAT-TTAT
1 ATTATTAAATATA-AAAAAA--TATCTTAT
*
343220 ATTATTAAATA-AAATAAATATCTTAT
1 ATTATTAAATATAAAAAAATATCTTAT
*
343246 ATTATTATATATAA
1 ATTATTAAATATAA
343260 TTGATTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 3 0.08
26 14 0.39
27 7 0.19
28 1 0.03
29 11 0.31
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTATTAAATATAAAAAAATATCTTAT
Found at i:343387 original size:28 final size:27
Alignment explanation
Indices: 343349--343527 Score: 91
Period size: 28 Copynumber: 6.9 Consensus size: 27
343339 TTTACTAAAA
343349 TATTGAAATATATAAATAATATTAT-TCAT
1 TATT-AAATATATAAATAAT-TTATAT-AT
*
343378 TATTAAATATATAAAAAATTTATATAT
1 TATTAAATATATAAATAATTTATATAT
** *
343405 TATTAAA-ATA-AAATAAAATATCTTAT
1 TATTAAATATATAAATAATTTAT-ATAT
* * * *
343431 TATTATAATA-ATTGATTATTTTATATAA
1 TATTA-AATATA-TAAATAATTTATATAT
343459 TATTAAA-ATATAATATAA--TAT-TAT
1 TATTAAATATATAA-ATAATTTATATAT
343483 TA-TAAATAT-T-AATAA---ATATAT
1 TATTAAATATATAAATAATTTATATAT
* * *
343504 T-TTAAATATTTTAATAATTAATAT
1 TATTAAATATATAAATAATTTATAT
343528 TTTGATGAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 35
0.70 0.09 0.21
Matches are distributed among these distances:
20 2 0.02
21 15 0.13
22 2 0.02
23 10 0.08
24 6 0.05
25 11 0.09
26 18 0.15
27 21 0.18
28 23 0.19
29 10 0.08
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (27 bp):
TATTAAATATATAAATAATTTATATAT
Found at i:343408 original size:27 final size:28
Alignment explanation
Indices: 343349--343425 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 28
343339 TTTACTAAAA
*
343349 TATTGAAATATATAAATAATATTATTCAT
1 TATT-AAATATATAAAAAATATTATTCAT
343378 TATTAAATATATAAAAAAT-TTATAT-AT
1 TATTAAATATATAAAAAATATTAT-TCAT
*
343405 TATTAAA-ATAAAATAAAATAT
1 TATTAAATATATAA-AAAATAT
343426 CTTATTATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
26 5 0.12
27 18 0.42
28 16 0.37
29 4 0.09
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TATTAAATATATAAAAAATATTATTCAT
Found at i:343426 original size:185 final size:183
Alignment explanation
Indices: 343105--343467 Score: 601
Period size: 185 Copynumber: 2.0 Consensus size: 183
343095 TTTATTAAAG
343105 TAATGCTATATTATATTTTTAAAATATTAATTAGTATATTTTAAATATCTTTACTAAAATATTTT
1 TAATGCTATATTATATTTTTAAAATATTAATTAG-ATATTTTAAATATCTTTACTAAAATA-TTT
343170 GAAATATAAATAATATTATTCATTATTAAATATATAAAAAATTTATTTATATTATTAAATAAAAT
64 GAAATATAAATAATATTATTCATTATTAAATATATAAAAAATTTA-TTATATTATTAAATAAAAT
343235 AAATATCTTATATTATTATATATAATTGATTATTTTATATAATATTAAAATTAAAGTAA
128 AAATATC-T-TATTATTATA-ATAATTGATTATTTTATATAATATTAAAATTAAAGTAA
343294 TAATGCTATA-T-TATTTTTAAAATATTAATTAG-TATTTTAAATATCTTTACTAAAATA-TTGA
1 TAATGCTATATTATATTTTTAAAATATTAATTAGATATTTTAAATATCTTTACTAAAATATTTG-
343355 AATATATAAATAATATTATTCATTATTAAATATATAAAAAATTTA-TATATTATTAAAATAAAAT
65 AA-ATATAAATAATATTATTCATTATTAAATATATAAAAAATTTATTATATTATT-AAATAAAAT
343419 AAAATATCTTATTATTATAATAATTGATTATTTTATATAATATTAAAAT
128 -AAATATCTTATTATTATAATAATTGATTATTTTATATAATATTAAAAT
343468 ATAATATAAT
Statistics
Matches: 170, Mismatches: 0, Indels: 15
0.92 0.00 0.08
Matches are distributed among these distances:
182 30 0.18
183 22 0.13
184 12 0.07
185 74 0.44
187 21 0.12
188 1 0.01
189 10 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (183 bp):
TAATGCTATATTATATTTTTAAAATATTAATTAGATATTTTAAATATCTTTACTAAAATATTTGA
AATATAAATAATATTATTCATTATTAAATATATAAAAAATTTATTATATTATTAAATAAAATAAA
TATCTTATTATTATAATAATTGATTATTTTATATAATATTAAAATTAAAGTAA
Found at i:343497 original size:21 final size:22
Alignment explanation
Indices: 343458--343513 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
343448 ATTTTATATA
*
343458 ATATTA-AAATATAATAT-AAT
1 ATATTATAAATATTATATAAAT
343478 ATTATTATAAATATTA-ATAAAT
1 A-TATTATAAATATTATATAAAT
*
343500 ATATTTTAAATATT
1 ATATTATAAATATT
343514 TTAATAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.03
21 19 0.61
22 11 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTATAAATATTATATAAAT
Found at i:343505 original size:54 final size:54
Alignment explanation
Indices: 343396--343507 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
343386 ATATAAAAAA
* * * * *
343396 TTTATATATTATTAAAATAAAATAAAATATCTTATTATTATAATAATTGATTAT
1 TTTATATAATATTAAAATAAAATAAAATATATTATAAATATAATAAATGATTAT
* *
343450 TTTATATAATATTAAAATATAATATAATATTATTATAAATATTAATAAAT-A-TAT
1 TTTATATAATATTAAAATAAAATAAAATA-TATTATAAATA-TAATAAATGATTAT
343504 TTTA
1 TTTA
343508 AATATTTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
54 33 0.67
55 9 0.18
56 7 0.14
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (54 bp):
TTTATATAATATTAAAATAAAATAAAATATATTATAAATATAATAAATGATTAT
Found at i:343512 original size:33 final size:30
Alignment explanation
Indices: 343447--343521 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 30
343437 AATAATTGAT
343447 TATTTTATATAATATTAAAATATAATATAA
1 TATTTTATATAATATTAAAATATAATATAA
* *
343477 TATTATTATA-AATATTAATAAATATATTTTAAA
1 TATT-TTATATAATATT-A-AAATATAATAT-AA
343510 TATTTTA-ATAAT
1 TATTTTATATAAT
343522 TAATATTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
30 10 0.26
31 7 0.18
32 15 0.39
33 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TATTTTATATAATATTAAAATATAATATAA
Found at i:343518 original size:23 final size:21
Alignment explanation
Indices: 343464--343513 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
343454 TATAATATTA
*
343464 AAATA-TAATATAATATTATTAT
1 AAATATTAATA-AATA-TATTTT
343486 AAATATTAATAAATATATTTT
1 AAATATTAATAAATATATTTT
343507 AAATATT
1 AAATATT
343514 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTAATAAATATATTTT
Found at i:343761 original size:42 final size:42
Alignment explanation
Indices: 343702--343816 Score: 221
Period size: 42 Copynumber: 2.7 Consensus size: 42
343692 ATGAATTACA
*
343702 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
343744 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
343786 TTCCGGAAAACGAATTACGTGAAACAAACAC
1 TTCCGGAAAACGAATTACGTGAAACAAACAC
343817 TGAAATTCGG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:344462 original size:25 final size:24
Alignment explanation
Indices: 344411--344467 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
344401 AAAACCATTT
*
344411 AAATATTAAATTAATATAAAATAAA
1 AAATATTAAATAAATATAAAAT-AA
* * * *
344436 AAATATTTAATAAATTTAAACTTA
1 AAATATTAAATAAATATAAAATAA
344460 AAATATTA
1 AAATATTA
344468 GCCATCAAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATATTAAATAAATATAAAATAA
Found at i:351474 original size:2 final size:2
Alignment explanation
Indices: 351467--351497 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
351457 AAACCAATAA
351467 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
351498 AAAATAATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:351555 original size:25 final size:25
Alignment explanation
Indices: 351498--351555 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
351488 TATATATATA
*
351498 AAAATAATA-ATGAAAGTAATAATT
1 AAAATAATATATAAAAGTAATAATT
* *
351522 TACAT-ATATATTAAAAGTAATAA-T
1 AAAATAATATA-TAAAAGTAATAATT
351546 AAAATAATAT
1 AAAATAATAT
351556 TGCAAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
23 3 0.12
24 8 0.31
25 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (25 bp):
AAAATAATATATAAAAGTAATAATT
Done.