Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_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: 4817204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 18
Found at i:2751863 original size:37 final size:39
Alignment explanation
Indices: 2751773--2751986 Score: 314
Period size: 39 Copynumber: 5.6 Consensus size: 39
2751763 TATATAAAAT
* *
2751773 TTTTGAAAATATATGTATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATATAATATATAGTTTTTTAAAACA
2751812 TTTTGAAAATATATATATAATATATAGTTTTTTAAAACA
1 TTTTGAAAATATATATATAATATATAGTTTTTTAAAACA
*
2751851 TTTTAAAAATATATATATAATATATAGTTTTTTAAAACA
1 TTTTGAAAATATATATATAATATATAGTTTTTTAAAACA
*
2751890 TTTTG-AAA-ATATATATAATATATAGTTTTTTAAAAAA
1 TTTTGAAAATATATATATAATATATAGTTTTTTAAAACA
*
2751927 TTTTGAAAA-AGTATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATA-TATATATAATATATAGTTTTTTAAAACA
* *
2751966 -TATG--TATATATATATAATATA
1 TTTTGAAAATATATATATAATATA
2751987 GTTTTTGAAA
Statistics
Matches: 163, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
36 14 0.09
37 34 0.21
38 10 0.06
39 105 0.64
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (39 bp):
TTTTGAAAATATATATATAATATATAGTTTTTTAAAACA
Found at i:2751976 original size:34 final size:35
Alignment explanation
Indices: 2751781--2752012 Score: 136
Period size: 39 Copynumber: 6.3 Consensus size: 35
2751771 ATTTTTGAAA
* *
2751781 ATATATGTATAAT-ATATAGTTTTTGAAAACATTTTGAAA
1 ATATATATATAATAATATAGTTTTTGAAAACA---T--AT
* *
2751820 ATATATATATAAT-ATATAGTTTTTTAAAACATTTTAAAA
1 ATATATATATAATAATATAGTTTTTGAAAACA---T--AT
* *
2751859 ATATATATATAAT-ATATAGTTTTTTAAAACATTTT
1 ATATATATATAATAATATAGTTTTTGAAAACA-TAT
* * * *
2751894 GAAAATATATATAAT-ATATAGTTTTTTAAAAAATTTTGAA
1 --ATATATATATAATAATATAGTTTTTGAAAACA---T-AT
*
2751934 AAAGTATATATAAT-ATATAGTTTTTGAAAACATAT
1 ATA-TATATATAATAATATAGTTTTTGAAAACATAT
* *
2751969 GTATATATAT-ATAATATAGTTTTTGAAAATATAT
1 ATATATATATAATAATATAGTTTTTGAAAACATAT
2752003 ATAT-TATATA
1 ATATATATATA
2752013 GTTTTTGAAA
Statistics
Matches: 169, Mismatches: 16, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
33 7 0.04
34 30 0.18
35 2 0.01
36 1 0.01
37 31 0.18
38 3 0.02
39 95 0.56
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (35 bp):
ATATATATATAATAATATAGTTTTTGAAAACATAT
Found at i:2752003 original size:26 final size:26
Alignment explanation
Indices: 2751971--2752032 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
2751961 AAACATATGT
2751971 ATATATATATAATATAGTTTTTGAAA
1 ATATATATATAATATAGTTTTTGAAA
*
2751997 ATATATATATTATATAGTTTTTGAAA
1 ATATATATATAATATAGTTTTTGAAA
*
2752023 ATATTTATAT
1 ATATATATAT
2752033 GTATATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (26 bp):
ATATATATATAATATAGTTTTTGAAA
Found at i:2752050 original size:18 final size:18
Alignment explanation
Indices: 2752023--2752121 Score: 66
Period size: 20 Copynumber: 5.5 Consensus size: 18
2752013 GTTTTTGAAA
2752023 ATAT-TTATATGTATATT
1 ATATATTATATGTATATT
* *
2752040 ATATATTATAT-TGTA-C
1 ATATATTATATGTATATT
2752056 ATATATTATAGTGTAGTATT
1 ATATATTATA-TGTA-TATT
2752076 ATAT-TATATAT-TAT-TT
1 ATATAT-TATATGTATATT
*
2752092 ATTATATTATTATGGTTTATT
1 A-TATATTA-TAT-GTATATT
*
2752113 ATTTATTAT
1 ATATATTAT
2752122 TTTCTTTTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 22
0.70 0.07 0.24
Matches are distributed among these distances:
16 13 0.20
17 14 0.22
18 13 0.20
19 5 0.08
20 16 0.25
21 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (18 bp):
ATATATTATATGTATATT
Found at i:2752061 original size:16 final size:17
Alignment explanation
Indices: 2752040--2752084 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
2752030 TATGTATATT
2752040 ATATATTATATTGTA-C
1 ATATATTATATTGTAGC
* *
2752056 ATATATTATAGTGTAGT
1 ATATATTATATTGTAGC
2752073 ATTATATTATAT
1 A-TATATTATAT
2752085 ATTATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 1 0.04
18 9 0.38
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (17 bp):
ATATATTATATTGTAGC
Found at i:2752065 original size:34 final size:33
Alignment explanation
Indices: 2751997--2752087 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 33
2751987 GTTTTTGAAA
*
2751997 ATATATATATTATATAGTT-T-TTGAAAATATTT
1 ATATGTATATTATATA-TTATATTGAAAATATTT
* *
2752029 ATATGTATATTATATATTATATTGTACATATATT
1 ATATGTATATTATATATTATATTGAAAATAT-TT
2752063 ATAGTGTAGTATTATAT-TATATATT
1 ATA-TGTA-TATTATATAT-TATATT
2752088 ATTTATTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
31 2 0.04
32 16 0.32
33 8 0.16
34 5 0.10
35 5 0.10
36 14 0.28
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (33 bp):
ATATGTATATTATATATTATATTGAAAATATTT
Found at i:2752117 original size:7 final size:7
Alignment explanation
Indices: 2752072--2752150 Score: 51
Period size: 7 Copynumber: 11.1 Consensus size: 7
2752062 TATAGTGTAG
2752072 TATTATAT
1 TATT-TAT
*
2752080 TATATAT
1 TATTTAT
2752087 TATTTAT
1 TATTTAT
2752094 TATATTAT
1 TAT-TTAT
2752102 TATGGTTTAT
1 TA---TTTAT
2752112 TATTTAT
1 TATTTAT
2752119 TATTT-T
1 TATTTAT
2752125 CT-TTT-T
1 -TATTTAT
*
2752131 CATTT-T
1 TATTTAT
2752137 TATTT-T
1 TATTTAT
2752143 TATTTAT
1 TATTTAT
2752150 T
1 T
2752151 TTCTTTCCTT
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
6 19 0.32
7 25 0.42
8 9 0.15
10 6 0.10
11 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (7 bp):
TATTTAT
Found at i:2753396 original size:19 final size:19
Alignment explanation
Indices: 2753362--2753407 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
2753352 GAATTAGATC
*
2753362 TTTTTTTATTTTTTTATCT
1 TTTTTTTATTTTTTTAACT
2753381 ATTTTTTTA-TTTTTTAACT
1 -TTTTTTTATTTTTTTAACT
2753400 TTTTTTTA
1 TTTTTTTA
2753408 AATTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTATTTTTTTAACT
Found at i:2759359 original size:33 final size:33
Alignment explanation
Indices: 2759317--2759383 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
2759307 CCTAGTACAG
*
2759317 ATGGTGGACACGACCTTATGTGTCATATGGATT
1 ATGGTGGACACGACCTTATGTGTCATACGGATT
2759350 ATGGTGGACACGACCTTATGTGTCATACGGATT
1 ATGGTGGACACGACCTTATGTGTCATACGGATT
2759383 A
1 A
2759384 GCACTATGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (33 bp):
ATGGTGGACACGACCTTATGTGTCATACGGATT
Found at i:2768574 original size:23 final size:23
Alignment explanation
Indices: 2768540--2768583 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
2768530 AAAAGGGTTC
2768540 ACTAACCATTCTAGATTCTAAGA
1 ACTAACCATTCTAGATTCTAAGA
2768563 ACTAA-CATTTCTAGATTCTAA
1 ACTAACCA-TTCTAGATTCTAA
2768584 AAGTTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (23 bp):
ACTAACCATTCTAGATTCTAAGA
Found at i:2773366 original size:18 final size:18
Alignment explanation
Indices: 2773345--2773379 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2773335 TTACATTCGG
*
2773345 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2773363 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2773380 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2778116 original size:27 final size:27
Alignment explanation
Indices: 2778085--2778145 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
2778075 GTTTCCTTAA
2778085 GATCTATTCAGTAATGATTCCGAAGAT
1 GATCTATTCAGTAATGATTCCGAAGAT
*
2778112 GATCTATTCAGTGATGATTCCGAAGAT
1 GATCTATTCAGTAATGATTCCGAAGAT
2778139 GATCTAT
1 GATCTAT
2778146 GGATAAGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (27 bp):
GATCTATTCAGTAATGATTCCGAAGAT
Found at i:2778647 original size:24 final size:24
Alignment explanation
Indices: 2778620--2778690 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
2778610 TCCTATTTGA
2778620 ATTCTATTATGATACCTGACCTGG
1 ATTCTATTATGATACCTGACCTGG
* * *
2778644 ATTCTAATCTGATACTTGACCTGG
1 ATTCTATTATGATACCTGACCTGG
* *
2778668 ATTCTGTTATGATATCTGACCTG
1 ATTCTATTATGATACCTGACCTG
2778691 AATTATCTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (24 bp):
ATTCTATTATGATACCTGACCTGG
Found at i:2784860 original size:34 final size:34
Alignment explanation
Indices: 2784817--2784885 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
2784807 ATGCTGTCTT
*
2784817 GTGTAAGACTGAATTTTCTAAGGGAAAGTTGTCA
1 GTGTAAGACTGAATTTTCCAAGGGAAAGTTGTCA
2784851 GTGTAAGACTGAATTTTCCAAGGGAAAGTTGTCA
1 GTGTAAGACTGAATTTTCCAAGGGAAAGTTGTCA
2784885 G
1 G
2784886 ATGAGAACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (34 bp):
GTGTAAGACTGAATTTTCCAAGGGAAAGTTGTCA
Found at i:2790016 original size:58 final size:58
Alignment explanation
Indices: 2789894--2790016 Score: 142
Period size: 58 Copynumber: 2.1 Consensus size: 58
2789884 CTATTTTATA
* * * *
2789894 ACTTTTAATAGTCGGGGGACTCAACAAAGTAACGCTTTATAGTCGAAGACCATTTAGT
1 ACTTTAAATAGTCGGGGGACTCAACAAAGCAACGCCTTATAGTAGAAGACCATTTAGT
* * *
2789952 AGCTTTAAATAGTC-GGGGCCTCAACAAAGCAACGCCTTATAGTTAG-GGACCATTTGTGT
1 A-CTTTAAATAGTCGGGGGACTCAACAAAGCAACGCCTTATAG-TAGAAGACCATTT-AGT
2790011 ACTTTA
1 ACTTTA
2790017 CCCTTATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
58 39 0.71
59 16 0.29
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (58 bp):
ACTTTAAATAGTCGGGGGACTCAACAAAGCAACGCCTTATAGTAGAAGACCATTTAGT
Found at i:2791125 original size:46 final size:46
Alignment explanation
Indices: 2791074--2791215 Score: 223
Period size: 46 Copynumber: 3.1 Consensus size: 46
2791064 ACTATTCTTT
* * *
2791074 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTTATGT
1 ATTTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGC
*
2791120 ATTTTCATTTATGACATCATTTCATGCCTATAATGCACCGTTATGC
1 ATTTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGC
*
2791166 ATTTTCATTTACGACATCCTTTCAT-CCTATTAATGCACCGTTATGC
1 ATTTTCATTTATGACATCCTTTCATGCCTA-TAATGCACCGTTATGC
2791212 ATTT
1 ATTT
2791216 CTTATTCTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.04
46 85 0.96
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.44
Consensus pattern (46 bp):
ATTTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGC
Found at i:2791372 original size:214 final size:214
Alignment explanation
Indices: 2791003--2791430 Score: 820
Period size: 214 Copynumber: 2.0 Consensus size: 214
2790993 ATCATCGAAA
2791003 TTATTCTTAGTATGCCCAACACACCTATATTTATGTATATTTCCCCCATTATTCTTTAGTAACTA
1 TTATTCTTAGTATGCCCAACACACCTATATTTATGTATATTTCCCCCATTATTCTTTAGTAACTA
2791068 TTCTTTATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTTATGTATTTTCATTTATG
66 TTCTTTATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTTATGTATTTTCATTTATG
* *
2791133 ACATCATTTCATGCCTATAATGCACCGTTATGCATTTTCATTTACGACATCCTTTCATCCTATTA
131 ACATCATTTCATGCCTATAATGCACCGTTATACATTTTCATTTACGACATCCTTTCATCCCATTA
2791198 ATGCACCGTTATGCATTTC
196 ATGCACCGTTATGCATTTC
* *
2791217 TTATTCTTAGTATGTCCAACACACCTATATTTATGTATATTTCCCCTATTATTCTTTAGTAACTA
1 TTATTCTTAGTATGCCCAACACACCTATATTTATGTATATTTCCCCCATTATTCTTTAGTAACTA
2791282 TTCTTTATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTTATGTATTTTCATTTATG
66 TTCTTTATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTTATGTATTTTCATTTATG
2791347 ACATCATTTCATGCCTATAATGCACCGTTATACATTTTCATTTACGACATCCTTTCATCCCATTA
131 ACATCATTTCATGCCTATAATGCACCGTTATACATTTTCATTTACGACATCCTTTCATCCCATTA
2791412 ATGCACCGTTATGCATTTC
196 ATGCACCGTTATGCATTTC
2791431 ATTTATGACA
Statistics
Matches: 210, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
214 210 1.00
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.45
Consensus pattern (214 bp):
TTATTCTTAGTATGCCCAACACACCTATATTTATGTATATTTCCCCCATTATTCTTTAGTAACTA
TTCTTTATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTTATGTATTTTCATTTATG
ACATCATTTCATGCCTATAATGCACCGTTATACATTTTCATTTACGACATCCTTTCATCCCATTA
ATGCACCGTTATGCATTTC
Found at i:2791449 original size:45 final size:45
Alignment explanation
Indices: 2791290--2791842 Score: 752
Period size: 45 Copynumber: 12.2 Consensus size: 45
2791280 TATTCTTTAT
* * *
2791290 TTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTTATGTA
1 TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
* *
2791335 TTTTCATTTATGACATCATTTCATGCCTATAATGCACCGTTATACA
1 -TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
* *
2791381 TTTTCATTTACGACATCCTTTCAT-CCCATTAATGCACCGTTATGCA
1 -TTTCATTTATGACATCCTTTCATGCCTA-TAATGCACCGTTATGCA
* * *
2791427 TTTCATTTATGACATCCATTCATGTCGATAATGCACCGTTATGCA
1 TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
* * *
2791472 TTTCATTTATGTCATCCTTTCATGTCGATAATGCACCGTTATGCA
1 TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
* * *
2791517 TTTAATTTATGGCATCCTTTCATGCCTATAATGCATCGTTATGCA
1 TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
* *
2791562 TTTCATTTATGACATCCTTTAATGCCGATAATGCACCGTTATGCA
1 TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
* * * *
2791607 TTTCATTTATGGCATCCTTTCATGTCGATAATACACCGTTATGCA
1 TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
* * * * * *
2791652 TTTTATTTATGGCATCCTTTAATGCCGATAATACATCGTTATGCA
1 TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
2791697 TTTCATTTATTG-CATCCTTTCATGCCTATAATGCACCGTTATGCA
1 TTTCATTTA-TGACATCCTTTCATGCCTATAATGCACCGTTATGCA
* *
2791742 TGTCATTTATGGA-ATCCTTTCATGCCTATAATGCACGGTTATGCA
1 TTTCATTTAT-GACATCCTTTCATGCCTATAATGCACCGTTATGCA
*
2791787 TTTCATTTATGACATCCTTTCTTGCCTATAATGCACCGTTATGCA
1 TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
2791832 TTTTCATTTAT
1 -TTTCATTTAT
2791843 TCATTCATTT
Statistics
Matches: 457, Mismatches: 43, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
44 3 0.01
45 362 0.79
46 92 0.20
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (45 bp):
TTTCATTTATGACATCCTTTCATGCCTATAATGCACCGTTATGCA
Found at i:2797645 original size:45 final size:45
Alignment explanation
Indices: 2797489--2798086 Score: 836
Period size: 45 Copynumber: 13.2 Consensus size: 45
2797479 TATTCTTTAT
* * * *
2797489 TTTCATTTATGACATCCTTTCATGCCTATAATGCACTGCTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * * **
2797534 TTTTCATTTATGACATCCTTTCATTCCTATAATGCACTATTATGCA
1 -TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * * *
2797580 TTTTCATTTACGACATCCTTTCATGCCGTTAATGCACCATTATGCA
1 -TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* *
2797626 TTTCATTTATGGCATCCTTTCATGCCGATAATACATCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * * *
2797671 TTTCATTTATGGCATCCTTTTATTCCGATAATGAACCGTTATGGA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
*
2797716 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGTA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * *
2797761 TTTCATTTATGGCATCGTTTCATGCCGGTAATACACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * *
2797806 ATTCATTTATGGTATCCTTTCATGCCAATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
*
2797851 TTTCATTTATGGCATCCTTTCATGCCGGTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
*
2797896 TTTCATTTATGGCATCCTTTCATGCAGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
** * * *
2797941 TTTCATTTATTACATCATTTCTTGACGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
*
2797986 TTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * *
2798031 TTTCATTTATGGTATCATTTCATGCCTATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
2798076 TTTTCATTTAT
1 -TTTCATTTAT
2798087 TCATTCATTT
Statistics
Matches: 497, Mismatches: 54, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
45 404 0.81
46 93 0.19
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
Found at i:2799396 original size:38 final size:38
Alignment explanation
Indices: 2799333--2799421 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 38
2799323 ATTTTGTTCG
* *
2799333 GGTCGGGTCAGG-TTTTTTAAGTGTGATATTCGGGT-T
1 GGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCA
2799369 GAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCA
1 G-GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCA
2799408 GGTCGGGTCGGGTT
1 GGTCGGGTCGGGTT
2799422 CAGGGTGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 1 0.02
37 10 0.21
38 36 0.75
39 1 0.02
ACGTcount: A:0.12, C:0.10, G:0.39, T:0.38
Consensus pattern (38 bp):
GGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCA
Found at i:2800012 original size:16 final size:18
Alignment explanation
Indices: 2799991--2800036 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
2799981 TATAGAATTG
2799991 GATTCCAATTCC-T-ACA
1 GATTCCAATTCCTTCACA
2800007 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
2800025 GATTCCAATTCC
1 GATTCCAATTCC
2800037 CTCGTAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 12 0.43
17 1 0.04
18 15 0.54
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:2802684 original size:29 final size:28
Alignment explanation
Indices: 2802652--2802776 Score: 135
Period size: 29 Copynumber: 4.4 Consensus size: 28
2802642 TGTCACTTTT
* *
2802652 TTTTTTAAAATAATTCCCAGAGTGTCACC
1 TTTTTCAAAATAATTCCCA-AATGTCACC
* * *
2802681 TTTTACGAAATAATTCCCAATATGTTACC
1 TTTTTCAAAATAATTCCCAA-ATGTCACC
* *
2802710 TTTTTCGAAATATTTCCCATAATGTCACC
1 TTTTTCAAAATAATTCCCA-AATGTCACC
2802739 -TTTTCAAAATAATTCCCAAAATGTCACC
1 TTTTTCAAAATAATTCCC-AAATGTCACC
*
2802767 TTTATCAAAA
1 TTTTTCAAAA
2802777 GTTTTCCAGA
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
28 25 0.31
29 55 0.68
30 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (28 bp):
TTTTTCAAAATAATTCCCAAATGTCACC
Found at i:2802757 original size:57 final size:58
Alignment explanation
Indices: 2802631--2802769 Score: 163
Period size: 58 Copynumber: 2.4 Consensus size: 58
2802621 AACATTTGAA
* ** * *
2802631 AATTCCCAAAATGTCACTTTTTTTTTTAAAATAATTCCCAGAGTGTCACCTTTTACGAAAT
1 AATTCCCAAAATGTCAC---CTTTTTCGAAATAATTCCCAGAATGTCACCTTTTACAAAAT
* * * *
2802692 AATTCCCAATATGTTACCTTTTTCGAAATATTTCCCATAATGTCACCTTTT-CAAAAT
1 AATTCCCAAAATGTCACCTTTTTCGAAATAATTCCCAGAATGTCACCTTTTACAAAAT
2802749 AATTCCCAAAATGTCACCTTT
1 AATTCCCAAAATGTCACCTTT
2802770 ATCAAAAGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 24 0.36
58 28 0.42
61 15 0.22
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.39
Consensus pattern (58 bp):
AATTCCCAAAATGTCACCTTTTTCGAAATAATTCCCAGAATGTCACCTTTTACAAAAT
Found at i:2802783 original size:57 final size:58
Alignment explanation
Indices: 2802631--2802795 Score: 165
Period size: 57 Copynumber: 2.8 Consensus size: 58
2802621 AACATTTGAA
* * * * * *
2802631 AATTCCCAAAATGTCACTTTTTTTTTTAAAATAATTCCCAGAGTGTCACCTTTTACGAAAT
1 AATTCCCAAAATGTCAC---CTTTATCAAAATATTTCCCAGAATGTCACCTTTTACAAAAT
* * * * *
2802692 AATTCCCAATATGTTACCTTTTTCGAAATATTTCCCATAATGTCACCTTTT-CAAAAT
1 AATTCCCAAAATGTCACCTTTATCAAAATATTTCCCAGAATGTCACCTTTTACAAAAT
*
2802749 AATTCCCAAAATGTCACCTTTATCAAAAGT-TTT-CCAGAATATCACCT
1 AATTCCCAAAATGTCACCTTTATCAAAA-TATTTCCCAGAATGTCACCT
2802796 AACAACAATT
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
56 12 0.14
57 32 0.36
58 29 0.33
61 15 0.17
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (58 bp):
AATTCCCAAAATGTCACCTTTATCAAAATATTTCCCAGAATGTCACCTTTTACAAAAT
Found at i:2809380 original size:29 final size:29
Alignment explanation
Indices: 2809341--2809480 Score: 133
Period size: 29 Copynumber: 4.8 Consensus size: 29
2809331 CATTTTTTTA
* *
2809341 AAATAATTCCCAGAGTGTCACCTTTAACG
1 AAATAATTCCCAGAATGTCACCTTTATCG
* * * *
2809370 AAATAATTCCCA-ATTTGTTACATTTTTCG
1 AAATAATTCCCAGA-ATGTCACCTTTATCG
* *
2809399 AAATATTTCCCATAATGTCACCCTTT-TC-
1 AAATAATTCCCAGAATGTCA-CCTTTATCG
*
2809427 AAACTAATTCCCAAAATGTCACCTTTATCG
1 AAA-TAATTCCCAGAATGTCACCTTTATCG
* *
2809457 AAATATTTCCCAGAATATCACCTT
1 AAATAATTCCCAGAATGTCACCTT
2809481 ACAACAATTA
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
28 9 0.10
29 74 0.81
30 8 0.09
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (29 bp):
AAATAATTCCCAGAATGTCACCTTTATCG
Found at i:2809409 original size:58 final size:57
Alignment explanation
Indices: 2809317--2809484 Score: 162
Period size: 58 Copynumber: 2.9 Consensus size: 57
2809307 AACATTTGAA
* * ** * *
2809317 AATTCCCAAAATGTCA-TTTTTTTAAAATAATTCCCAGAGTGTCACCTTTAACGAAA-T
1 AATTCCCAAAATGTCACATTTATCGAAATATTTCCCAGAATGTCACCTTT-AC-AAACT
** * * * *
2809374 AATTCCCAATTTGTTACATTTTTCGAAATATTTCCCATAATGTCACCCTTTTCAAACT
1 AATTCCCAAAATGTCACATTTATCGAAATATTTCCCAGAATGTCA-CCTTTACAAACT
* *
2809432 AATTCCCAAAATGTCACCTTTATCGAAATATTTCCCAGAATATCACC-TTACAA
1 AATTCCCAAAATGTCACATTTATCGAAATATTTCCCAGAATGTCACCTTTACAA
2809485 CAATTATTTA
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
56 5 0.06
57 18 0.20
58 62 0.69
59 5 0.06
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.36
Consensus pattern (57 bp):
AATTCCCAAAATGTCACATTTATCGAAATATTTCCCAGAATGTCACCTTTACAAACT
Found at i:2815676 original size:228 final size:230
Alignment explanation
Indices: 2815277--2815691 Score: 629
Period size: 228 Copynumber: 1.8 Consensus size: 230
2815267 GTACGTTGTT
* *
2815277 GAAACCCTAGTTTTTTTAGTATTATAGTAATAAAAAAATAGAGGTTAAGTTTATGGGTTTTGAGT
1 GAAACCCTAGTTTTTTTAGTATTACAGTAATAAAAAAATAGAGGTTAAGTTTATGGGTTTGGAGT
* * *
2815342 TTTCGAAGTAAAGAAGCATTTGAGATCGATTATAGGTAGAAAGTGATATTCTATGTAGAAAATAA
66 TTTCGAAGTAAAGAAGCATTTGAGACCAATTATAGGTAGAAAGTGATATTCTAGGTAGAAAATAA
2815407 ATATCGATACTTTTACATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAAGGTACCAA
131 ATATCGATACTTTTACATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAAGGTACCAA
2815472 TACTTGTAATAGAGAGTATTCTAATTCCTTTGAAG
196 TACTTGTAATAGAGAGTATTCTAATTCCTTTGAAG
* **** * *
2815507 GAAACCCTAGTTTTTTTAGTATTACA-TTATTTGGAAATAG-GGATTAGGTTTATGGGTTTGGGG
1 GAAACCCTAGTTTTTTTAGTATTACAGTAATAAAAAAATAGAGG-TTAAGTTTATGGGTTTGGAG
* * * *
2815570 TTTTTGAAGTAAAGAAGGATTTGGGACCAATTA-AGTTAGAAAGTGATATTCTAGGTAGAAAATA
65 TTTTCGAAGTAAAGAAGCATTTGAGACCAATTATAGGTAGAAAGTGATATTCTAGGTAGAAAATA
* * *
2815634 AATATCGATACTTTTATATCATATTATAGGTAGGAAATGATATTGTAGGTTGTATAAA
130 AATATCGATACTTTTACATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAA
2815692 TGTATTGATA
Statistics
Matches: 165, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
228 86 0.52
229 54 0.33
230 25 0.15
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37
Consensus pattern (230 bp):
GAAACCCTAGTTTTTTTAGTATTACAGTAATAAAAAAATAGAGGTTAAGTTTATGGGTTTGGAGT
TTTCGAAGTAAAGAAGCATTTGAGACCAATTATAGGTAGAAAGTGATATTCTAGGTAGAAAATAA
ATATCGATACTTTTACATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAAGGTACCAA
TACTTGTAATAGAGAGTATTCTAATTCCTTTGAAG
Found at i:2823043 original size:6 final size:6
Alignment explanation
Indices: 2823032--2823057 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2823022 TATTCTTTCC
2823032 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
2823058 GTTTTGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:2829052 original size:9 final size:9
Alignment explanation
Indices: 2829006--2829046 Score: 82
Period size: 9 Copynumber: 4.6 Consensus size: 9
2828996 GATAGAGGAT
2829006 GAAGAGAAG
1 GAAGAGAAG
2829015 GAAGAGAAG
1 GAAGAGAAG
2829024 GAAGAGAAG
1 GAAGAGAAG
2829033 GAAGAGAAG
1 GAAGAGAAG
2829042 GAAGA
1 GAAGA
2829047 AGAGGAGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (9 bp):
GAAGAGAAG
Found at i:2844698 original size:199 final size:200
Alignment explanation
Indices: 2844279--2845439 Score: 1505
Period size: 199 Copynumber: 5.8 Consensus size: 200
2844269 CTTTTCATAT
* * *
2844279 AAGTATCGATACACGTATCACAAGTATCGATTCTTATAACTTTGAAACCGATTACTTTAAAGTAA
1 AAGTATAGATACACGTATCACAAGTATCGATTCTTACAACTTCGAAACCGATTACTTTAAAGTAA
* * *
2844344 TAGGTAAATTAACAGTGTAAGCGGTTAAAATATATC-GATTTAATGACAAAATGA-GTAAACATA
66 TAGGTAAATTTACAATGTAAGCGGTAAAAATATATCAG-TTTAATGACAAAAT-ATGTAAACATA
* * * *
2844407 AAGTTTTGATACTTTTTGTATATGTATCGATACTTTTGGTCCAATATGCTTCTCAAACGAGATGA
129 AAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATGC
** *
2844472 AAACACA
194 ATGCAGA
* * * *
2844479 AAGTATCAG-TACA-ATATCACAAGTATCAATTCTTATAACTTTGAAACCGATTACTTTAAAGTA
1 AAGTAT-AGATACACGTATCACAAGTATCGATTCTTACAACTTCGAAACCGATTACTTTAAAGTA
* * **
2844542 ATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGGTTTAATGACAAAATACATAAACATAA
65 ATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCAGTTTAATGACAAAATATGTAAACATAA
* * * *
2844607 AGTTTCGATAC-TTTTATATATGTATCGATAGTTTTGGTCCAGTATGCTTCCCAAACAAGATGCT
130 AGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATGCA
2844671 TGCAGA
195 TGCAGA
* * * * * *
2844677 AATTATAGGTACATGTATCACAAGTATCGATTCTTACAACTTTGAAACCAATAACTTTAAAGTAA
1 AAGTATAGATACACGTATCACAAGTATCGATTCTTACAACTTCGAAACCGATTACTTTAAAGTAA
* *
2844742 TAGGTAAATTTACAATGTAAGCGGTAAAAATATACCAGTTTAATGACAAAATGTGTAAACATAAA
66 TAGGTAAATTTACAATGTAAGCGGTAAAAATATATCAGTTTAATGACAAAATATGTAAACATAAA
* * * ** * *
2844807 GTTTTGATACTTTTTGTATATATATCGATACTTTTAGTCTTGTATGCTTCCCAAATGAGATGTAT
131 GTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATGCAT
*
2844872 GCACA
196 GCAGA
* * * *
2844877 AAATATTGATACACGTACCACAAGTATCGATTCTTACAACTTCAAAACCGATTACTTTAAAGTAA
1 AAGTATAGATACACGTATCACAAGTATCGATTCTTACAACTTCGAAACCGATTACTTTAAAGTAA
* * * * * *
2844942 TAGGTAAATTTACAATGTAAGCTGTAAAAATCTGTC-GATTTAATGACAACATACGTAAGCATAA
66 TAGGTAAATTTACAATGTAAGCGGTAAAAATATATCAG-TTTAATGACAAAATATGTAAACATAA
* * *
2845006 AGTTTCAATACTTTTTGTATATGTATCGATACTTTTGTTCCAGTATGCTTCCCAAATGAGATGAA
130 AGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATG--
2845071 CAT--AGA
193 CATGCAGA
* * * ** *
2845077 AAGTATCGATACACGTATCACAAATATCAATTCTTACAACTTCCTAACCAATTACTTTAAAGTAA
1 AAGTATAGATACACGTATCACAAGTATCGATTCTTACAACTTCGAAACCGATTACTTTAAAGTAA
* * *
2845142 TAGGTAAATTTACAATGTAAGCGGT-AAAATATATCAGTTTAATAACAGAATGTGTAAACATAAA
66 TAGGTAAATTTACAATGTAAGCGGTAAAAATATATCAGTTTAATGACAAAATATGTAAACATAAA
* * * *
2845206 GTTTTGATACTTTTTGTATATGTATCGATAATTTTGGTCTAGTATGCTTCCCAAACGAGATGCAC
131 GTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATGCAT
*
2845271 GTAGA
196 GCAGA
* *
2845276 AAGTATCGATACACGTATCACAAGTATCGATTCTTACAACTTCAAAACC-AGTTACTTTAAAGTA
1 AAGTATAGATACACGTATCACAAGTATCGATTCTTACAACTTCGAAACCGA-TTACTTTAAAGTA
* ** *
2845340 ACAGGTAAATTTACAATGTAAGTTGTAAAAATATATCAGTTTAATGACAAAATGTGTAAACATAA
65 ATAGGTAAATTTACAATGTAAGCGGTAAAAATATATCAGTTTAATGACAAAATATGTAAACATAA
* *
2845405 AGTTTCGATACTTTTTGCATATGTATCGATCCTTT
130 AGTTTCGATACTTTTTGTATATGTATCGATACTTT
2845440 CGATCTAAAT
Statistics
Matches: 841, Mismatches: 106, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
197 4 0.00
198 60 0.07
199 398 0.47
200 376 0.45
201 1 0.00
202 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (200 bp):
AAGTATAGATACACGTATCACAAGTATCGATTCTTACAACTTCGAAACCGATTACTTTAAAGTAA
TAGGTAAATTTACAATGTAAGCGGTAAAAATATATCAGTTTAATGACAAAATATGTAAACATAAA
GTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATGCAT
GCAGA
Found at i:2845173 original size:399 final size:398
Alignment explanation
Indices: 2844279--2845439 Score: 1643
Period size: 399 Copynumber: 2.9 Consensus size: 398
2844269 CTTTTCATAT
* *
2844279 AAGTATCGATACACGTATCACAAGTATCGATTCTTATAACTTTGAAACCGATTACTTTAAAGTAA
1 AAGTATCGATACACGTATCACAAGTATCGATTCTTACAACTTTGAAACCAATTACTTTAAAGTAA
* * *
2844344 TAGGTAAATTAACAGTGTAAGCGGTTAAAATATATC-GATTTAATGACAAAATGAGTAAACATAA
66 TAGGTAAATTTACAATGTAAGCGG-TAAAATATATCAG-TTTAATGACAAAATGTGTAAACATAA
* * *
2844408 AGTTTTGATACTTTTTGTATATGTATCGATACTTTTGGTCCAATATGCTTCTCAAACGAGATGAA
129 AGTTTTGATACTTTTTGTATATGTATCGATACTTTTGGTCTAGTATGCTTCCCAAACGAGATGAA
* * * * * **
2844473 AACACAAAGTA-TCAGTACA-ATATCACAAGTATCAATTCTTATAACTTTGAAACCGATTACTTT
194 AGCACAAAGTATTGA-TACACGTATCACAAGTATCGATTCTTACAACTTCAAAACCGATTACTTT
* *
2844536 AAAGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGGTTTAATGACAAAATACATAA
258 AAAGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGATTTAATGACAAAATACGTAA
* *
2844601 ACATAAAGTTTCGATAC-TTTTATATATGTATCGATAGTTTTGGTCCAGTATGCTTCCCAAACAA
323 ACATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACAA
*
2844665 GATGCTTGCAGA
388 GATGCAT-CAGA
* * * * *
2844677 AATTATAGGTACATGTATCACAAGTATCGATTCTTACAACTTTGAAACCAATAACTTTAAAGTAA
1 AAGTATCGATACACGTATCACAAGTATCGATTCTTACAACTTTGAAACCAATTACTTTAAAGTAA
*
2844742 TAGGTAAATTTACAATGTAAGCGGTAAAAATATACCAGTTTAATGACAAAATGTGTAAACATAAA
66 TAGGTAAATTTACAATGTAAGCGGT-AAAATATATCAGTTTAATGACAAAATGTGTAAACATAAA
* * * * * *
2844807 GTTTTGATACTTTTTGTATATATATCGATACTTTTAGTCTTGTATGCTTCCCAAATGAGATGTAT
130 GTTTTGATACTTTTTGTATATGTATCGATACTTTTGGTCTAGTATGCTTCCCAAACGAGATGAAA
* *
2844872 GCACAAAATATTGATACACGTACCACAAGTATCGATTCTTACAACTTCAAAACCGATTACTTTAA
195 GCACAAAGTATTGATACACGTATCACAAGTATCGATTCTTACAACTTCAAAACCGATTACTTTAA
* * * *
2844937 AGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATCTGTCGATTTAATGACAACATACGTAAGC
260 AGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGATTTAATGACAAAATACGTAAAC
* * **
2845002 ATAAAGTTTCAATACTTTTTGTATATGTATCGATACTTTTGTTCCAGTATGCTTCCCAAATGAGA
325 ATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACAAGA
2845067 TGAACAT-AGA
390 TG--CATCAGA
* * ***
2845077 AAGTATCGATACACGTATCACAAATATCAATTCTTACAACTTCCTAACCAATTACTTTAAAGTAA
1 AAGTATCGATACACGTATCACAAGTATCGATTCTTACAACTTTGAAACCAATTACTTTAAAGTAA
* *
2845142 TAGGTAAATTTACAATGTAAGCGGTAAAATATATCAGTTTAATAACAGAATGTGTAAACATAAAG
66 TAGGTAAATTTACAATGTAAGCGGTAAAATATATCAGTTTAATGACAAAATGTGTAAACATAAAG
* * *
2845207 TTTTGATACTTTTTGTATATGTATCGATAATTTTGGTCTAGTATGCTTCCCAAACGAGATGCACG
131 TTTTGATACTTTTTGTATATGTATCGATACTTTTGGTCTAGTATGCTTCCCAAACGAGATGAAAG
* * *
2845272 TAGAAAGTATCGATACACGTATCACAAGTATCGATTCTTACAACTTCAAAACC-AGTTACTTTAA
196 CACAAAGTATTGATACACGTATCACAAGTATCGATTCTTACAACTTCAAAACCGA-TTACTTTAA
* * **
2845336 AGTAACAGGTAAATTTACAATGTAAGTTGTAAAAATATATC-AGTTTAATGACAAAATGTGTAAA
260 AGTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGA-TTTAATGACAAAATACGTAAA
* *
2845400 CATAAAGTTTCGATACTTTTTGCATATGTATCGATCCTTT
324 CATAAAGTTTCGATACTTTTTGTATATGTATCGATACTTT
2845440 CGATCTAAAT
Statistics
Matches: 676, Mismatches: 78, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
397 1 0.00
398 185 0.27
399 359 0.53
400 129 0.19
402 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (398 bp):
AAGTATCGATACACGTATCACAAGTATCGATTCTTACAACTTTGAAACCAATTACTTTAAAGTAA
TAGGTAAATTTACAATGTAAGCGGTAAAATATATCAGTTTAATGACAAAATGTGTAAACATAAAG
TTTTGATACTTTTTGTATATGTATCGATACTTTTGGTCTAGTATGCTTCCCAAACGAGATGAAAG
CACAAAGTATTGATACACGTATCACAAGTATCGATTCTTACAACTTCAAAACCGATTACTTTAAA
GTAATAGGTAAATTTACAATGTAAGCTGTAAAAATATATCGATTTAATGACAAAATACGTAAACA
TAAAGTTTCGATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACAAGAT
GCATCAGA
Found at i:2848080 original size:15 final size:15
Alignment explanation
Indices: 2848060--2848090 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2848050 AGACTATTAG
2848060 AACATTGTTATGTAT
1 AACATTGTTATGTAT
*
2848075 AACATTGTTTTGTAT
1 AACATTGTTATGTAT
2848090 A
1 A
2848091 TATGTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (15 bp):
AACATTGTTATGTAT
Found at i:2848420 original size:6 final size:6
Alignment explanation
Indices: 2848409--2848484 Score: 91
Period size: 6 Copynumber: 12.7 Consensus size: 6
2848399 TTTATGTAGT
* *
2848409 TTTCAA TTTCAA TTT-AA GATTGAA TTTCAA TTTCAA TTTCAA TTTCAA
1 TTTCAA TTTCAA TTTCAA -TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
* * *
2848457 TTTGAG TTTAAA TTTCAA TTTCAA TTTC
1 TTTCAA TTTCAA TTTCAA TTTCAA TTTC
2848485 GGCTCCACTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 2 0.03
6 56 0.93
7 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (6 bp):
TTTCAA
Found at i:2848445 original size:30 final size:30
Alignment explanation
Indices: 2848409--2848484 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
2848399 TTTATGTAGT
*
2848409 TTTCAATTTCAATTT-AAGATTGAATTTCAA
1 TTTCAATTTCAATTTCAA-ATTGAATTTAAA
* *
2848439 TTTCAATTTCAATTTCAATTTGAGTTTAAA
1 TTTCAATTTCAATTTCAAATTGAATTTAAA
2848469 TTTCAATTTCAATTTC
1 TTTCAATTTCAATTTC
2848485 GGCTCCACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
30 40 0.95
31 2 0.05
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (30 bp):
TTTCAATTTCAATTTCAAATTGAATTTAAA
Found at i:2850090 original size:21 final size:21
Alignment explanation
Indices: 2850064--2850111 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
2850054 CGTAAACATA
*
2850064 AAGTATCGATATTTATTATTC
1 AAGTATCGATACTTATTATTC
2850085 AAGTATCGATACTTATTATTC
1 AAGTATCGATACTTATTATTC
*
2850106 CAGTAT
1 AAGTAT
2850112 GCATCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (21 bp):
AAGTATCGATACTTATTATTC
Found at i:2850509 original size:20 final size:20
Alignment explanation
Indices: 2850463--2850535 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
2850453 ACATGTAACG
* * *
2850463 AATTTGACAAAACCGATTGGA
1 AATTTGACAAAATCGGTT-AA
2850484 AA-TTGACAAAATCGGTTAA
1 AATTTGACAAAATCGGTTAA
* * *
2850503 AATTTGAAAAAATTGGTAAA
1 AATTTGACAAAATCGGTTAA
**
2850523 AAAGTGACAAAAT
1 AATTTGACAAAAT
2850536 TGATTAAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
19 3 0.07
20 37 0.88
21 2 0.05
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (20 bp):
AATTTGACAAAATCGGTTAA
Found at i:2853644 original size:108 final size:107
Alignment explanation
Indices: 2853455--2854326 Score: 517
Period size: 108 Copynumber: 7.8 Consensus size: 107
2853445 ACATAAGCGC
* * * * * *
2853455 TACCTAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACC-AGTTATCTTATCATTAGAT
1 TACCTAATATGTGATAAT-ATTGATAACAAATCAAGTAATTAACCTA-TTATGTTATCGTCAGAT
* *
2853519 TTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTCGGCAT
64 TTCTAAGGCCCCATCAGCTTAAAATTTGGTAACATTTTCGGCAT
* * * * * *
2853563 TACCTAATATGCTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATT
1 TACCTAATATG-TGATAATATTGATAACAAATCAAGTAATTAACCTATTATGTTATCGTCAGATT
** * * ***
2853628 TCTAAGGCCCCATCAGCTTTAAAAAGGTGCTACCTATTATGTTACATAAGT
65 TCTAAGGCCCCATCAGC-TT-AAAATTTGGTAAC-A-T-T-TT-CGGCA-T
* * * * * * ** *
2853679 GCTGCCTAATATGTTATTATGGTTGATAACAAATCATGTAATTAGCCGGTTATATTATCGTCAGA
1 --TACCTAATATGTGATAAT-ATTGATAACAAATCAAGTAATTAACCTATTATGTTATCGTCAGA
* * ** * * *
2853744 TTTCTAATGCTCCATCAATTTAAACTTTGGTAACATTTTAGGCGT
63 TTTCTAAGGCCCCATCAGCTTAAAATTTGGTAACATTTTCGGCAT
* * * * *
2853789 TA-CTAATATGGTGATAATACTGATAACAAATTAAGTAAGTAACCTATTTTATTATCGTCAGATT
1 TACCTAATAT-GTGATAATATTGATAACAAATCAAGTAATTAACCTATTATGTTATCGTCAGATT
*** * * * **
2853853 TCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACGTTACATAAGCGC
65 TCTAAGGCCCCATCAGC-TT-AAAATTTGGTAAC-ATT---TT-C---GGCAT
* * * * ** * * *
2853906 TACCTATTATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATTGTAATATT
1 TACCTAATATGTGATAAT-ATTGATAACAAATCAAGTAATTAACCTATTATGTTATCGTCAGATT
* * * *
2853971 TCTAGGGCTCCATCAGCTTAAAATTTGGTAACATTTTAGGTAT
65 TCTAAGGCCCCATCAGCTTAAAATTTGGTAACATTTTCGGCAT
* * * * * * *
2854014 TACCTAATATATTGATAATACTGATAAAAAATTAAGTAATTAACCTATTTTATTATCGTCGGATT
1 TACCTAATAT-GTGATAATATTGATAACAAATCAAGTAATTAACCTATTATGTTATCGTCAGATT
* * *** * * * **
2854079 TCTAAAGCCCCATTAGCTTAAAAAGCCGCTACCTATTACGTTACATAAGCGC
65 TCTAAGGCCCCATCAGCTT-AAAATTTGGTAAC-ATT---TT-C---GGCAT
* * * **
2854131 TACCTAATATGCT-TTTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGAT
1 TACCTAATATG-TGATAAT-ATTGATAACAAATCAAGTAATTAACCTATTATGTTATCGTCAGAT
* * * *
2854195 TTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCTT
64 TTCTAAGGCCCCATCAGCTTAAAATTTGGTAACATTTTCGGCAT
* * * * *
2854239 TACCTAATATGTTGATAATATTGATAACAAATTAACTAATTAACCTATTTTGTTATTGTTAGATT
1 TACCTAATATG-TGATAATATTGATAACAAATCAAGTAATTAACCTATTATGTTATCGTCAGATT
*
2854304 TCTAAGGCCCCATCAACTTAAAA
65 TCTAAGGCCCCATCAGCTTAAAA
2854327 AGGCGCTACC
Statistics
Matches: 557, Mismatches: 168, Indels: 78
0.69 0.21 0.10
Matches are distributed among these distances:
107 57 0.10
108 203 0.36
109 31 0.06
110 15 0.03
111 1 0.00
112 7 0.01
113 6 0.01
114 3 0.01
115 9 0.02
116 27 0.05
117 85 0.15
118 113 0.20
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (107 bp):
TACCTAATATGTGATAATATTGATAACAAATCAAGTAATTAACCTATTATGTTATCGTCAGATTT
CTAAGGCCCCATCAGCTTAAAATTTGGTAACATTTTCGGCAT
Found at i:2853850 original size:451 final size:452
Alignment explanation
Indices: 2853007--2854382 Score: 2044
Period size: 451 Copynumber: 3.1 Consensus size: 452
2852997 ATGTACATGG
* * * * *
2853007 TAATATGTTGATAAAGGTTGATAACAAATCAAGTAAATAATCGGTTATGTTATCGTCAGATTTCT
1 TAATATGTT-ATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTAAGATTTCT
** * * **
2853072 AAGAATTCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATATTGATAGCACTGAT
65 AAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCATTACCTAATATATTGATAATACTGAT
* ** **
2853137 AACAAATTAAGTAATTAACCTATTTTGTTATCTTTAGATTTCTAAGGCAACATCAG-TTTAAAAA
130 AACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAA
*
2853201 GACGCTACCTATTACGTTACATAAGTGCTACCTAATATGTTATTATGAG-TGATAACAAATCAAA
195 GACGCTACCTATTACGTTACATAAGTGCTACCTAATATGTTATTATG-GTTGATAACAAATCAAG
* * * *
2853265 TAATTAACCTGTTATGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAATTTTGGTAACATTT
259 TAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTT
* * *
2853330 TAGGCGTTACCTAAAATGTTGATAATACTTATAACAAATTATGTAATTAACCTATTTTGTTATCG
324 TAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCG
* * * * *
2853395 TCAGATTTCGAAGGTCGCATCATCTTTAAAAAGGCACTACCTATTACGTTACATAAGCGCTACC
389 TCAGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTACC
* * * *
2853459 TAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACCAGTTATCTTATCATTAGATTTCTA
1 TAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTAAGATTTCTA
* ** *
2853524 AGGCTCCATCAGCTTAAACTTTGGTAACATTTTCGGCATTACCTAATATGCTGATAATACTAATA
66 AGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCATTACCTAATATATTGATAATACTGATA
2853589 ACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAG
131 ACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAG
** * * *
2853654 GTGCTACCTATTATGTTACATAAGTGCTGCCTAATATGTTATTATGGTTGATAACAAATCATGTA
196 ACGCTACCTATTACGTTACATAAGTGCTACCTAATATGTTATTATGGTTGATAACAAATCAAGTA
* * * **
2853719 ATTAGCCGGTTATATTATCGTCAGATTTCTAATGCTCCATCAATTTAAACTTTGGTAACATTTTA
261 ATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTA
* * *
2853784 GGCGTTA-CTAATATGGTGATAATACTGATAACAAATTAAGTAAGTAACCTATTTTATTATCGTC
326 GGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTC
* *
2853848 AGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACGTTACATAAGCGCTACC
391 AGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTACC
* * *
2853910 TATTATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATTGTAATATTTCTA
1 TAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTAAGATTTCTA
* * *
2853975 GGGCTCCATCAGCTTAAAATTTGGTAACATTTTAGGTATTACCTAATATATTGATAATACTGATA
66 AGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCATTACCTAATATATTGATAATACTGATA
* * * * *
2854040 AAAAATTAAGTAATTAACCTATTTTATTATCGTCGGATTTCTAAAGCCCCATTAGC-TTAAAAAG
131 ACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAG
* *
2854104 CCGCTACCTATTACGTTACATAAGCGCTACCTAATATGCTT-TTATGGTTGATAACAAATCAAGT
196 ACGCTACCTATTACGTTACATAAGTGCTACCTAATATG-TTATTATGGTTGATAACAAATCAAGT
2854168 AATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTT
260 AATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTT
* * * *
2854233 AGGCTTTACCTAATATGTTGATAATATTGATAACAAATTAACTAATTAACCTATTTTGTTATTGT
325 AGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGT
* *
2854298 TAGATTTCTAAGGCCCCATCAAC-TTAAAAAGGCGCTACCTATTATGTTACATAAGCGCTACC
390 CAGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTACC
2854360 TAATATGTTATTATGGTTGATAA
1 TAATATGTTATTATGGTTGATAA
2854383 TGTTTCCAGT
Statistics
Matches: 828, Mismatches: 92, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
450 189 0.23
451 501 0.61
452 138 0.17
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (452 bp):
TAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTAAGATTTCTA
AGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCATTACCTAATATATTGATAATACTGATA
ACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAG
ACGCTACCTATTACGTTACATAAGTGCTACCTAATATGTTATTATGGTTGATAACAAATCAAGTA
ATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTA
GGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTC
AGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTACC
Found at i:2854410 original size:225 final size:226
Alignment explanation
Indices: 2853007--2854382 Score: 2008
Period size: 225 Copynumber: 6.1 Consensus size: 226
2852997 ATGTACATGG
* * * *
2853007 TAATATGTTGATAAAGGTTGATAACAAATCAAGTAAATAATCGGTTATGTTATCGTCAGATTTCT
1 TAATATGTT-ATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCT
** * * **
2853072 AAGAATTCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATATTGATAGCACTGAT
65 AAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGAT
* * **
2853137 AACAAATTAAGTAATTAACCTATTTTGTTATCTTTAGATTTCTAAGGCAACATCAG-TTTAAAAA
130 AACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAA
* *
2853201 GACGCTACCTATTACGTTACATAAGTGCTACC
195 GGCGCTACCTATTACGTTACATAAGCGCTACC
* * * *
2853233 TAATATGTTATTATGAG-TGATAACAAATCAAATAATTAACCTGTTATGTTATCATCGGATTTCT
1 TAATATGTTATTATG-GTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCT
* * *
2853297 AAGGCTCCATCAGCTTAAATTTTGGTAACATTTTAGGCGTTACCTAAAATGTTGATAATACTTAT
65 AAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGAT
* * * * *
2853362 AACAAATTATGTAATTAACCTATTTTGTTATCGTCAGATTTCGAAGGTCGCATCATCTTTAAAAA
130 AACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAA
*
2853427 GGCACTACCTATTACGTTACATAAGCGCTACC
195 GGCGCTACCTATTACGTTACATAAGCGCTACC
* * * *
2853459 TAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACCAGTTATCTTATCATTAGATTTCTA
1 TAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTA
* * * *
2853524 AGGCTCCATCAGCTTAAACTTTGGTAACATTTTCGGCATTACCTAATATGCTGATAATACTAATA
66 AGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATA
* *
2853589 ACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAG
131 ACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAG
* * * *
2853654 GTGCTACCTATTATGTTACATAAGTGCTGCC
196 GCGCTACCTATTACGTTACATAAGCGCTACC
* * *
2853685 TAATATGTTATTATGGTTGATAACAAATCATGTAATTAGCCGGTTATATTATCGTCAGATTTCTA
1 TAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTA
* ** *
2853750 ATGCTCCATCAATTTAAACTTTGGTAACATTTTAGGCGTTA-CTAATATGGTGATAATACTGATA
66 AGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATA
* *
2853814 ACAAATTAAGTAAGTAACCTATTTTATTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAG
131 ACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAG
*
2853879 ACGCTACCTATTACGTTACATAAGCGCTACC
196 GCGCTACCTATTACGTTACATAAGCGCTACC
* * * *
2853910 TATTATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATTGTAATATTTCTA
1 TAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTA
* * ** *
2853975 GGGCTCCATCAGCTTAAAATTTGGTAACATTTTAGGTATTACCTAATATATTGATAATACTGATA
66 AGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATA
* * * * *
2854040 AAAAATTAAGTAATTAACCTATTTTATTATCGTCGGATTTCTAAAGCCCCATTAGC-TTAAAAAG
131 ACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAG
*
2854104 CCGCTACCTATTACGTTACATAAGCGCTACC
196 GCGCTACCTATTACGTTACATAAGCGCTACC
2854135 TAATATGCTT-TTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCT
1 TAATATG-TTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCT
* *
2854199 AAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCTTTACCTAATATGTTGATAATATTGAT
65 AAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGAT
* * * *
2854264 AACAAATTAACTAATTAACCTATTTTGTTATTGTTAGATTTCTAAGGCCCCATCAAC-TTAAAAA
130 AACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAA
*
2854328 GGCGCTACCTATTATGTTACATAAGCGCTACC
195 GGCGCTACCTATTACGTTACATAAGCGCTACC
2854360 TAATATGTTATTATGGTTGATAA
1 TAATATGTTATTATGGTTGATAA
2854383 TGTTTCCAGT
Statistics
Matches: 1028, Mismatches: 116, Indels: 13
0.89 0.10 0.01
Matches are distributed among these distances:
224 2 0.00
225 609 0.59
226 417 0.41
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (226 bp):
TAATATGTTATTATGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTA
AGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATA
ACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAG
GCGCTACCTATTACGTTACATAAGCGCTACC
Found at i:2854939 original size:2 final size:2
Alignment explanation
Indices: 2854932--2854994 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
2854922 TTATTATGTT
2854932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2854974 TA TC TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2854995 GATTAATTAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2856477 original size:158 final size:158
Alignment explanation
Indices: 2856189--2856504 Score: 632
Period size: 158 Copynumber: 2.0 Consensus size: 158
2856179 TTATAAAATA
2856189 TGAATTTTGGATTTATCTCCATGAGAGGAGAAAATGACATTGGAAGGAAAATTTGATAATATCCT
1 TGAATTTTGGATTTATCTCCATGAGAGGAGAAAATGACATTGGAAGGAAAATTTGATAATATCCT
2856254 TATAAGATGAGAAAATGGACTTATATAAGACAAAATTTCAAGAGAAATTTTAAAAGCATCATCGT
66 TATAAGATGAGAAAATGGACTTATATAAGACAAAATTTCAAGAGAAATTTTAAAAGCATCATCGT
2856319 AAGAGGGAAATCAAAACTTCTTATTTTT
131 AAGAGGGAAATCAAAACTTCTTATTTTT
2856347 TGAATTTTGGATTTATCTCCATGAGAGGAGAAAATGACATTGGAAGGAAAATTTGATAATATCCT
1 TGAATTTTGGATTTATCTCCATGAGAGGAGAAAATGACATTGGAAGGAAAATTTGATAATATCCT
2856412 TATAAGATGAGAAAATGGACTTATATAAGACAAAATTTCAAGAGAAATTTTAAAAGCATCATCGT
66 TATAAGATGAGAAAATGGACTTATATAAGACAAAATTTCAAGAGAAATTTTAAAAGCATCATCGT
2856477 AAGAGGGAAATCAAAACTTCTTATTTTT
131 AAGAGGGAAATCAAAACTTCTTATTTTT
2856505 CATGTGATGA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (158 bp):
TGAATTTTGGATTTATCTCCATGAGAGGAGAAAATGACATTGGAAGGAAAATTTGATAATATCCT
TATAAGATGAGAAAATGGACTTATATAAGACAAAATTTCAAGAGAAATTTTAAAAGCATCATCGT
AAGAGGGAAATCAAAACTTCTTATTTTT
Found at i:2860340 original size:18 final size:18
Alignment explanation
Indices: 2860317--2860359 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
2860307 TCTATTGTAT
2860317 GTGCATTGAGAGTCATAG
1 GTGCATTGAGAGTCATAG
2860335 GTGCATTGAGAGTCATAG
1 GTGCATTGAGAGTCATAG
2860353 GTGCATT
1 GTGCATT
2860360 TTGACATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.30
Consensus pattern (18 bp):
GTGCATTGAGAGTCATAG
Found at i:2869144 original size:24 final size:26
Alignment explanation
Indices: 2869095--2869145 Score: 88
Period size: 24 Copynumber: 2.0 Consensus size: 26
2869085 TGCAAGTGTG
2869095 AGAAATAAAGGGAATCAAAAACAGAA
1 AGAAATAAAGGGAATCAAAAACAGAA
2869121 AGAAAT-AAGGGAATC-AAAACAGAA
1 AGAAATAAAGGGAATCAAAAACAGAA
2869145 A
1 A
2869146 ATGAATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 10 0.40
25 9 0.36
26 6 0.24
ACGTcount: A:0.65, C:0.08, G:0.20, T:0.08
Consensus pattern (26 bp):
AGAAATAAAGGGAATCAAAAACAGAA
Found at i:2871156 original size:2 final size:2
Alignment explanation
Indices: 2871149--2871174 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2871139 TTTAGTAAAT
2871149 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
2871175 AGATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2871532 original size:24 final size:23
Alignment explanation
Indices: 2871505--2871585 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
2871495 CATTTAAATG
* *
2871505 ATAAACGAACAAAAATTAACGAAC
1 ATAAACGAAC-AAAATAAAAGAAC
* ** *
2871529 ATAAACAAACGAATGTAAATGAAC
1 ATAAACGAAC-AAAATAAAAGAAC
*
2871553 ATAAACGAACACAATAAAAGAAC
1 ATAAACGAACAAAATAAAAGAAC
2871576 ATAAACGAAC
1 ATAAACGAAC
2871586 GTAAACGAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 19 0.41
24 27 0.59
ACGTcount: A:0.62, C:0.16, G:0.10, T:0.12
Consensus pattern (23 bp):
ATAAACGAACAAAATAAAAGAAC
Found at i:2871562 original size:10 final size:10
Alignment explanation
Indices: 2871544--2871600 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
2871534 CAAACGAATG
*
2871544 TAAATGAACA
1 TAAACGAACA
2871554 TAAACGAACACAA
1 TAAACG-A-AC-A
*
2871567 TAAAAGAACA
1 TAAACGAACA
*
2871577 TAAACGAACG
1 TAAACGAACA
*
2871587 TAAACGAATA
1 TAAACGAACA
2871597 TAAA
1 TAAA
2871601 TAAAATTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 26 0.68
11 3 0.08
12 3 0.08
13 6 0.16
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (10 bp):
TAAACGAACA
Found at i:2871808 original size:14 final size:14
Alignment explanation
Indices: 2871767--2871837 Score: 61
Period size: 14 Copynumber: 5.1 Consensus size: 14
2871757 AGATTGAGCT
2871767 AAACATAAATGAAC
1 AAACATAAATGAAC
** * *
2871781 GCACATGAACGAAC
1 AAACATAAATGAAC
2871795 AAACATAAATGAAC
1 AAACATAAATGAAC
* * *
2871809 GAATATAAATGAAT
1 AAACATAAATGAAC
* *
2871823 GAACATAAACGAAC
1 AAACATAAATGAAC
2871837 A
1 A
2871838 TATTACCGAA
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.58, C:0.15, G:0.13, T:0.14
Consensus pattern (14 bp):
AAACATAAATGAAC
Found at i:2871827 original size:28 final size:28
Alignment explanation
Indices: 2871767--2871836 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
2871757 AGATTGAGCT
* *
2871767 AAACATAAATGAACGCACATGAACGAAC
1 AAACATAAATGAACGAACATAAACGAAC
* * *
2871795 AAACATAAATGAACGAATATAAATGAAT
1 AAACATAAATGAACGAACATAAACGAAC
* *
2871823 GAACATAAACGAAC
1 AAACATAAATGAAC
2871837 ATATTACCGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.57, C:0.16, G:0.13, T:0.14
Consensus pattern (28 bp):
AAACATAAATGAACGAACATAAACGAAC
Found at i:2874502 original size:27 final size:27
Alignment explanation
Indices: 2874462--2874542 Score: 144
Period size: 27 Copynumber: 3.0 Consensus size: 27
2874452 TTGGAAGTAC
*
2874462 TGATGATTGTATAATATAGGATGGTAT
1 TGATGATTGCATAATATAGGATGGTAT
2874489 TGATGATTGCATAATATAGGATGGTAT
1 TGATGATTGCATAATATAGGATGGTAT
*
2874516 AGATGATTGCATAATATAGGATGGTAT
1 TGATGATTGCATAATATAGGATGGTAT
2874543 CACAATTAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (27 bp):
TGATGATTGCATAATATAGGATGGTAT
Found at i:2881336 original size:17 final size:17
Alignment explanation
Indices: 2881314--2881347 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2881304 GGTGGTAAAT
2881314 CTTTCCCCTATCACTCC
1 CTTTCCCCTATCACTCC
*
2881331 CTTTCCCCTTTCACTCC
1 CTTTCCCCTATCACTCC
2881348 TAAAATAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.53, G:0.00, T:0.38
Consensus pattern (17 bp):
CTTTCCCCTATCACTCC
Found at i:2886488 original size:5 final size:5
Alignment explanation
Indices: 2886487--2886529 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
2886477 ATAAAAAGAA
2886487 AAAAG AAAAAG AAAAG -AAAG AAAAG -AAAG AAAAG AAAAG AAAA
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
2886530 ATAAAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.23
5 22 0.63
6 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2886496 original size:14 final size:13
Alignment explanation
Indices: 2886469--2886548 Score: 74
Period size: 13 Copynumber: 6.1 Consensus size: 13
2886459 TATTACGTTT
*
2886469 AAAG-AAAAATAA
1 AAAGAAAAAAAAA
*
2886481 AAAGAAAAAAGAA
1 AAAGAAAAAAAAA
*
2886494 AAAGAAAAGAAAGA
1 AAAGAAAA-AAAAA
*
2886508 AAAGAAAGAAAAGA
1 AAAGAAA-AAAAAA
*
2886522 AAAG-AAAAATAA
1 AAAGAAAAAAAAA
2886534 AAAGAAAAAAGAAA
1 AAAGAAAAAA-AAA
2886548 A
1 A
2886549 TAAAAAGGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
12 12 0.21
13 22 0.39
14 22 0.39
15 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAAAAA
Found at i:2886508 original size:9 final size:9
Alignment explanation
Indices: 2886480--2886529 Score: 66
Period size: 9 Copynumber: 5.4 Consensus size: 9
2886470 AAGAAAAATA
2886480 AAAAGAAA-
1 AAAAGAAAG
*
2886488 AAAGAAAAAG
1 AAA-AGAAAG
2886498 AAAAGAAAG
1 AAAAGAAAG
2886507 AAAAGAAAG
1 AAAAGAAAG
2886516 AAAAGAAAAG
1 AAAAG-AAAG
2886526 AAAA
1 AAAA
2886530 ATAAAAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 3 0.08
9 23 0.62
10 11 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:2886549 original size:18 final size:18
Alignment explanation
Indices: 2886469--2886555 Score: 92
Period size: 18 Copynumber: 4.8 Consensus size: 18
2886459 TATTACGTTT
2886469 AAAGAAAAATAAAAAGAAA
1 AAAG-AAAATAAAAAGAAA
2886488 AAAGAAAA-AGAAAAGAAA
1 AAAGAAAATA-AAAAGAAA
*
2886506 GAAA-AGAAA-GAAAAGAAA
1 -AAAGA-AAATAAAAAGAAA
*
2886524 AGA-AAAATAAAAAGAAA
1 AAAGAAAATAAAAAGAAA
2886541 AAAGAAAATAAAAAG
1 AAAGAAAATAAAAAG
2886556 GGGTTCAAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
16 3 0.05
17 14 0.24
18 32 0.54
19 10 0.17
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (18 bp):
AAAGAAAATAAAAAGAAA
Found at i:2886554 original size:6 final size:6
Alignment explanation
Indices: 2886469--2886548 Score: 78
Period size: 6 Copynumber: 13.3 Consensus size: 6
2886459 TATTACGTTT
*
2886469 AAAGAA AAATAA AAAGAAA AAAGAA AAAG-A AAAGAA AGAA-AA GAAAG-A
1 AAAGAA AAAGAA AAAG-AA AAAGAA AAAGAA AAAGAA A-AAGAA -AAAGAA
*
2886517 AAAG-A AAAGAA AAATAA AAAGAAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AA
2886549 TAAAAAGGGG
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
5 14 0.22
6 34 0.54
7 15 0.24
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:2887274 original size:19 final size:19
Alignment explanation
Indices: 2887224--2887264 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
2887214 TGCCAAGGAA
*
2887224 AAAGAAAAATAAAGAAGAAG
1 AAAGAATAA-AAAGAAGAAG
2887244 AAAGAATAAAAAGAA-AAG
1 AAAGAATAAAAAGAAGAAG
2887262 AAA
1 AAA
2887265 ATATGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 6 0.30
20 8 0.40
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (19 bp):
AAAGAATAAAAAGAAGAAG
Found at i:2894750 original size:18 final size:18
Alignment explanation
Indices: 2894729--2894766 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2894719 CCTTACACAC
2894729 TTTGCCACAACAACACCA
1 TTTGCCACAACAACACCA
* *
2894747 TTTGCCACGACAACGCCA
1 TTTGCCACAACAACACCA
2894765 TT
1 TT
2894767 CATACTTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.21
Consensus pattern (18 bp):
TTTGCCACAACAACACCA
Found at i:2903591 original size:3 final size:3
Alignment explanation
Indices: 2903583--2903627 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
2903573 AAATATTAAA
*
2903583 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAAT TAGT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TA-T TAT TAT TA
2903628 CAAATGATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.81
4 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2903604 original size:12 final size:12
Alignment explanation
Indices: 2903569--2903611 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
2903559 TGGCCAAAAA
*
2903569 TATTAAATATTAAA
1 TATT-AATATT-AT
*
2903583 TATTATTATTAT
1 TATTAATATTAT
2903595 TATTAATATTAT
1 TATTAATATTAT
2903607 TATTA
1 TATTA
2903612 TTAATTAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 17 0.65
13 5 0.19
14 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTAATATTAT
Found at i:2903606 original size:15 final size:15
Alignment explanation
Indices: 2903586--2903616 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2903576 TATTAAATAT
2903586 TATTATTATTATTAA
1 TATTATTATTATTAA
2903601 TATTATTATTATTAA
1 TATTATTATTATTAA
2903616 T
1 T
2903617 TAGTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTATTATTAA
Found at i:2905815 original size:15 final size:15
Alignment explanation
Indices: 2905788--2905828 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
2905778 ATACCAACTT
2905788 TTTTTCTTAAAAATG
1 TTTTTCTTAAAAATG
2905803 ATTTTTCTTAAAAATG
1 -TTTTTCTTAAAAATG
2905819 TTTTT-TTAAA
1 TTTTTCTTAAA
2905829 GACGTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 15 0.60
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (15 bp):
TTTTTCTTAAAAATG
Found at i:2905835 original size:14 final size:15
Alignment explanation
Indices: 2905788--2905837 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
2905778 ATACCAACTT
*
2905788 TTTTTCTTAAAAATG
1 TTTTTCTTAAAAACG
*
2905803 ATTTTTCTTAAAAATG
1 -TTTTTCTTAAAAACG
*
2905819 TTTTT-TTAAAGACG
1 TTTTTCTTAAAAACG
2905833 TTTTT
1 TTTTT
2905838 AGGTATTCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 12 0.38
15 5 0.16
16 15 0.47
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (15 bp):
TTTTTCTTAAAAACG
Found at i:2910221 original size:23 final size:23
Alignment explanation
Indices: 2910191--2910235 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
2910181 GATCAAAATG
2910191 CCAAACCTAAAAAGAGAGGCATA
1 CCAAACCTAAAAAGAGAGGCATA
2910214 CCAAACCTAAAAAGAGAGGCAT
1 CCAAACCTAAAAAGAGAGGCAT
2910236 GCTATGATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.22, G:0.18, T:0.09
Consensus pattern (23 bp):
CCAAACCTAAAAAGAGAGGCATA
Found at i:2911269 original size:32 final size:32
Alignment explanation
Indices: 2911233--2911301 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
2911223 CAATGAGGGA
2911233 ATCTTTAAAGATTCAACACCAAATATTGAGAC
1 ATCTTTAAAGATTCAACACCAAATATTGAGAC
** * * * *
2911265 ATCTTTGGAGATTCAACATCGAATATTGGGGC
1 ATCTTTAAAGATTCAACACCAAATATTGAGAC
2911297 ATCTT
1 ATCTT
2911302 CGGGGATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (32 bp):
ATCTTTAAAGATTCAACACCAAATATTGAGAC
Found at i:2911315 original size:32 final size:32
Alignment explanation
Indices: 2911241--2911316 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
2911231 GAATCTTTAA
* * *
2911241 AGATTCAACACCAAATATTGAGACATCTTTGG
1 AGATTCAACATCGAATATTGAGACATCTTCGG
* *
2911273 AGATTCAACATCGAATATTGGGGCATCTTCGG
1 AGATTCAACATCGAATATTGAGACATCTTCGG
* *
2911305 GGATTTAACATC
1 AGATTCAACATC
2911317 CTGATGCGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (32 bp):
AGATTCAACATCGAATATTGAGACATCTTCGG
Found at i:2912027 original size:125 final size:124
Alignment explanation
Indices: 2911566--2912020 Score: 613
Period size: 126 Copynumber: 3.6 Consensus size: 124
2911556 TGAAACCAAA
* * * * * * *
2911566 ATCACCTATAGATGGGCAAGACTCATGAACAGATGAACAGTTTTATCACCTGACCATATCTCCTC
1 ATCACCTTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACTAGATCTCCTC
* * *
2911631 ATTATGTATGAATTGTGTCAACTTAGATAACCAGCCGTCCCCAGCAGAGTGGAACTGTGTT
66 ATTATGTAGGAGTTGTGTCAACTTAGATAACCAGCCGT-CCCATCAGAGTGGAACT-TGTT
* *
2911692 ATCACCCTTAGATGGCCAAGACTCATGAACAAATGAGCAGTGTCATCACCTGACTAGATCTCCTC
1 ATCACCTTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACTAGATCTCCTC
* * * * *
2911757 GTTATATAGGAGTTGTGTCAACTTAGATAACTAGCCGTCCTCATCAGTGTGGAACCGTGTT
66 ATTATGTAGGAGTTGTGTCAACTTAGATAACCAGCCGTCC-CATCAGAGTGGAA-CTTGTT
* *
2911818 ATCACCTTTAGATGGCCATGACTCATGAACAGATGAGCAGTGTCATCACCTGACAAGATCTCCTC
1 ATCACCTTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACTAGATCTCCTC
* *
2911883 ATTATGTAGGAGTTGTGTCAACTTAAATAACCAGCCATCCCATCAGAGTGGAACATTGTT
66 ATTATGTAGGAGTTGTGTCAACTTAGATAACCAGCCGTCCCATCAGAGTGGAAC-TTGTT
* * * * * * *
2911943 ATAACCTTTATATGGCCAAGACTCATGAACAGATGAGCAATATCATCCCCTGACTATATATCCTC
1 ATCACCTTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACTAGATCTCCTC
2912008 ATTATGTAGGAGT
66 ATTATGTAGGAGT
2912021 CTTGTCACCC
Statistics
Matches: 289, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
124 1 0.00
125 87 0.30
126 200 0.69
127 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (124 bp):
ATCACCTTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACTAGATCTCCTC
ATTATGTAGGAGTTGTGTCAACTTAGATAACCAGCCGTCCCATCAGAGTGGAACTTGTT
Found at i:2914780 original size:5 final size:5
Alignment explanation
Indices: 2914770--2914813 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
2914760 TTTGAGATGA
* * * *
2914770 AAAAT AAAAT AAAAT AAGAT AAAAT AAAAC AAAAC AAAAC AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
2914814 CTTTTATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (5 bp):
AAAAT
Found at i:2931314 original size:11 final size:11
Alignment explanation
Indices: 2931298--2931338 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2931288 GCTATTTTTT
2931298 CAAAAAAAAGG
1 CAAAAAAAAGG
* *
2931309 C-AAAAAATGA
1 CAAAAAAAAGG
2931319 CAAAAAAAAGG
1 CAAAAAAAAGG
2931330 CAAAAAAAA
1 CAAAAAAAA
2931339 AAGAAGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.76, C:0.10, G:0.12, T:0.02
Consensus pattern (11 bp):
CAAAAAAAAGG
Found at i:2950561 original size:95 final size:95
Alignment explanation
Indices: 2950398--2950587 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
2950388 ACTTATTTGA
2950398 GCATGACCATCCATTTCTAGTATCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATGTAGG
1 GCATGACCATCCATTTCTAGTATCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATGTAGG
2950463 AAGGACAAATCCTATCTTAATCATACACAC
66 AAGGACAAATCCTATCTTAATCATACACAC
2950493 GCATGACCATCCATTTCTAGTATCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATGTAGG
1 GCATGACCATCCATTTCTAGTATCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATGTAGG
2950558 AAGGACAAATCCTATCTTAATCATACACAC
66 AAGGACAAATCCTATCTTAATCATACACAC
2950588 TCCACTACAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (95 bp):
GCATGACCATCCATTTCTAGTATCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATGTAGG
AAGGACAAATCCTATCTTAATCATACACAC
Found at i:2968577 original size:2 final size:2
Alignment explanation
Indices: 2968570--2968610 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
2968560 TCACATCATA
* * *
2968570 AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2968611 GTTTTCATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2969120 original size:31 final size:31
Alignment explanation
Indices: 2969057--2969122 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
2969047 TCACATGTGG
* * **
2969057 ATTTTAAATAAAATATCATTTTTATTTTTAA
1 ATTTTAAATAAAATATCAATTTGATTCCTAA
* *
2969088 ATTTTAGATGAAATATCAATTTGATTCCTAA
1 ATTTTAAATAAAATATCAATTTGATTCCTAA
2969119 ATTT
1 ATTT
2969123 GTCCAAATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (31 bp):
ATTTTAAATAAAATATCAATTTGATTCCTAA
Found at i:2974066 original size:21 final size:22
Alignment explanation
Indices: 2974042--2974083 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2974032 TTATTATATA
2974042 TATATATGAT-TTTATCATGAT
1 TATATATGATGTTTATCATGAT
*
2974063 TATATATGATGTTTATTATGA
1 TATATATGATGTTTATCATGA
2974084 ATGTTACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (22 bp):
TATATATGATGTTTATCATGAT
Found at i:2974322 original size:41 final size:41
Alignment explanation
Indices: 2974277--2974357 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
2974267 GGAAGGCACA
2974277 ACCTTATGTGTCATATCCGGATTAGCACTAGAGTGTAAACG
1 ACCTTATGTGTCATATCCGGATTAGCACTAGAGTGTAAACG
*
2974318 ACCTTATGTGTCATATCTGGATTAGCACTAGAGTGTAAAC
1 ACCTTATGTGTCATATCCGGATTAGCACTAGAGTGTAAAC
2974358 CTTATGTAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (41 bp):
ACCTTATGTGTCATATCCGGATTAGCACTAGAGTGTAAACG
Found at i:2975594 original size:3 final size:3
Alignment explanation
Indices: 2975586--2975623 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2975576 CGAATAACTA
2975586 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2975624 ATAAGTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2977886 original size:20 final size:20
Alignment explanation
Indices: 2977861--2977905 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2977851 TGCAAAATGG
*
2977861 GTATCGATACTGGTACAGTA
1 GTATCGATACTGCTACAGTA
*
2977881 GTATCGATATTGCTACAGTA
1 GTATCGATACTGCTACAGTA
2977901 GTATC
1 GTATC
2977906 AAGCACAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:2980662 original size:20 final size:20
Alignment explanation
Indices: 2980634--2980679 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2980624 ATGCAGAATG
*
2980634 AGTACCGATACTACTACAGC
1 AGTATCGATACTACTACAGC
* *
2980654 AGTATCGATATTGCTACAGC
1 AGTATCGATACTACTACAGC
2980674 AGTATC
1 AGTATC
2980680 AAGCCCAACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (20 bp):
AGTATCGATACTACTACAGC
Found at i:2990167 original size:44 final size:44
Alignment explanation
Indices: 2990018--2990196 Score: 154
Period size: 44 Copynumber: 4.1 Consensus size: 44
2990008 TCGATCGTAC
* * * * *
2990018 TGATCCACCTCCTTCTTTGATGGAA--TA-AAAAAATGTCGATGC
1 TGATCCACCTCTTTCTGTGATGGAATCTAGCAAAAAGGT-GATGT
* * *
2990060 TAATCTACCTCTTTCTGTGATGGAATCGAGCAAAAAGGTGATGT
1 TGATCCACCTCTTTCTGTGATGGAATCTAGCAAAAAGGTGATGT
* * *
2990104 TGATTCAACT-TCTTATGTGATGGAATCTAGCAAAAAGG-GAATGT
1 TGATCCACCTCT-TTCTGTGATGGAATCTAGCAAAAAGGTG-ATGT
* * *
2990148 TGATCCACCTCTTTCTGTGATGGAACCTAAC-AAAATGTCGATGT
1 TGATCCACCTCTTTCTGTGATGGAATCTAGCAAAAAGGT-GATGT
2990192 TGATC
1 TGATC
2990197 TATCTCATTC
Statistics
Matches: 109, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
42 21 0.19
43 7 0.06
44 72 0.66
45 9 0.08
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (44 bp):
TGATCCACCTCTTTCTGTGATGGAATCTAGCAAAAAGGTGATGT
Found at i:2991860 original size:19 final size:19
Alignment explanation
Indices: 2991800--2991872 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
2991790 CCTTGCATCA
*
2991800 CTTTTTTCTTTTTTTGTTCTCT
1 CTTTTTTC-TTTTTT-CTCT-T
* * *
2991822 CTATTTTATTTCTTCTTCTT
1 CTTTTTTCTTTTTTC-TCTT
2991842 CTTTTTTCTTTTTTCTCTT
1 CTTTTTTCTTTTTTCTCTT
*
2991861 CTTTTTCCTTTT
1 CTTTTTTCTTTT
2991873 CCTTTTTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 15 0.36
20 13 0.31
21 8 0.19
22 6 0.14
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.75
Consensus pattern (19 bp):
CTTTTTTCTTTTTTCTCTT
Found at i:2991863 original size:22 final size:22
Alignment explanation
Indices: 2991800--2991920 Score: 72
Period size: 22 Copynumber: 5.5 Consensus size: 22
2991790 CCTTGCATCA
*
2991800 CTTTTTTCTTTTTT-TGTTC-T
1 CTTTTTTCTTTTTTCTCTTCTT
* * *
2991820 CTCTATT-TTATTTCTTCTTCTT
1 CTTTTTTCTTTTTTC-TCTTCTT
2991842 CTTTTTTCTTTTTTCTCTTCTT
1 CTTTTTTCTTTTTTCTCTTCTT
* *
2991864 TTTCCTTTTCCTTTTTT-TATTCTCT
1 CTT--TTTT-CTTTTTTCTCTTCT-T
* * *
2991889 CTTTTTCCTTTATTCTTCTT-AT
1 CTTTTTTCTTTTTTC-TCTTCTT
2991911 CTTTTTTCTT
1 CTTTTTTCTT
2991921 CTTCAAGTGT
Statistics
Matches: 76, Mismatches: 15, Indels: 18
0.70 0.14 0.17
Matches are distributed among these distances:
19 5 0.07
20 5 0.07
21 4 0.05
22 31 0.41
23 9 0.12
24 12 0.16
25 10 0.13
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.74
Consensus pattern (22 bp):
CTTTTTTCTTTTTTCTCTTCTT
Found at i:2999505 original size:21 final size:18
Alignment explanation
Indices: 2999472--2999513 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 18
2999462 ATGGCAGCTT
2999472 GCTTAATCATTCATTTGTA
1 GCTTAATCATTCATTT-TA
2999491 GCTTAAGTGCATTCATTTTA
1 GCTTAA-T-CATTCATTTTA
2999511 GCT
1 GCT
2999514 CTTAGGTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 6 0.29
21 9 0.43
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (18 bp):
GCTTAATCATTCATTTTA
Found at i:3004626 original size:192 final size:193
Alignment explanation
Indices: 3004271--3004679 Score: 482
Period size: 192 Copynumber: 2.1 Consensus size: 193
3004261 GTGTTTTTCT
** * *
3004271 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAATTATCA
1 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATAAAAATCATCA
** *
3004336 ATAACGAAATCATATTTAATTTAGTGACGTAACCAACTGTCATTGAATATAAATTATAAAGTGAT
66 ATAACGAAATCATACATAATTTAGTGACATAACCAACTGTCATTGAATATAAATTATAAAGTGAT
* * * * **
3004401 GTTATGCATAAACGTCATTCATAATATTATTAGGTAAC-ATTTA-TATTTTCACTAAAAATGTG
131 GTTATACATAAACGTCATCCATAATACTATTAGGTAACGATATACTACGTT-ACTAAAAATGTG
* *
3004463 ACAATATCTCTTTCGTCACATATAGGTTGATTTTAATGTATTATCCGTGACAATAAAAATCATCA
1 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATAAAAATCATCA
* ** ** ** * * *
3004528 ATAACGAATTTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATTTTATAGTGAT
66 ATAACGAAATCATACATAATTTAGTGACATAACCAACTGTCATTGAATATAAATTATAAAGTGAT
* * ** * *
3004593 GTTATATATAAATGTCATCCATGCTACTATTAGGTGACGATATACTACGTTACTAACAATGTG
131 GTTATACATAAACGTCATCCATAATACTATTAGGTAACGATATACTACGTTACTAAAAATGTG
* *
3004656 ACAAT-TTTCTTTTCGTCACGTATA
1 ACAATATCTC-TTTCGTCACATATA
3004680 CAATGAAATT
Statistics
Matches: 181, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
192 144 0.80
193 33 0.18
194 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (193 bp):
ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATAAAAATCATCA
ATAACGAAATCATACATAATTTAGTGACATAACCAACTGTCATTGAATATAAATTATAAAGTGAT
GTTATACATAAACGTCATCCATAATACTATTAGGTAACGATATACTACGTTACTAAAAATGTG
Found at i:3005888 original size:206 final size:207
Alignment explanation
Indices: 3005534--3005947 Score: 805
Period size: 206 Copynumber: 2.0 Consensus size: 207
3005524 TTTCATCATG
3005534 TTCAAACGCTAAAGAAGTTTAAGACAAGTTGGAGGTGACTCATGAAGAAACAAGCAAAGTCAAGA
1 TTCAAACGCTAAAGAAGTTTAAGACAAGTTGGAGGTGACTCATGAAGAAACAAGCAAAGTCAAGA
3005599 AATAAAAAATTGGCATCCTCACTCTCAATTATATGAATTTTAAGATGAAGCCTGATGAAGACATA
66 AATAAAAAATTGGCATCCTCACTCTCAATTATATGAATTTTAAGATGAAGCCTGATGAAGACATA
3005664 AAGACAATGTCCGATTGATTCACCGCCATTATC-ATGAGTT-AAGGGTTTTGGGAAGGTCTATCC
131 AAGACAATGTCCGATTGATTCACCGCCATTATCAATGAGTTAAAGGGTTTTGGGAAGGTCTAT-C
3005727 CAAATGAAGAGGT
195 CAAATGAAGAGGT
3005740 TTCAAACGCTAAAGAAGTTTAAGACAAGTTGGAGGTGACTCATGAAGAAACAAGCAAAGTCAAGA
1 TTCAAACGCTAAAGAAGTTTAAGACAAGTTGGAGGTGACTCATGAAGAAACAAGCAAAGTCAAGA
3005805 AATAAAAAATTGGCATCCTCACTCTCAATTATATGAATTTTAAGATGAAGCCTGATGAAGACATA
66 AATAAAAAATTGGCATCCTCACTCTCAATTATATGAATTTTAAGATGAAGCCTGATGAAGACATA
3005870 AAGACAATGTCCGATTGATTCACCGCCATTATCAATGAGTTAAAGGGTTTTGGGAAGGTCTATCC
131 AAGACAATGTCCGATTGATTCACCGCCATTATCAATGAGTTAAAGGGTTTTGGGAAGGTCTATCC
3005935 AAATGAAGAGGT
196 AAATGAAGAGGT
3005947 T
1 T
3005948 GTGAGGAAGT
Statistics
Matches: 206, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
206 163 0.79
207 22 0.11
208 21 0.10
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (207 bp):
TTCAAACGCTAAAGAAGTTTAAGACAAGTTGGAGGTGACTCATGAAGAAACAAGCAAAGTCAAGA
AATAAAAAATTGGCATCCTCACTCTCAATTATATGAATTTTAAGATGAAGCCTGATGAAGACATA
AAGACAATGTCCGATTGATTCACCGCCATTATCAATGAGTTAAAGGGTTTTGGGAAGGTCTATCC
AAATGAAGAGGT
Found at i:3010033 original size:20 final size:20
Alignment explanation
Indices: 3010008--3010060 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3009998 TTTTTGGCTC
3010008 AAAGGATCGATC-CCTAAGTA
1 AAAGGATCGATCACCT-AGTA
*
3010028 AAAGGATCGATCACCTTGTA
1 AAAGGATCGATCACCTAGTA
*
3010048 AAAGAATCGATCA
1 AAAGGATCGATCA
3010061 TTCAGATTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAGGATCGATCACCTAGTA
Found at i:3011802 original size:17 final size:17
Alignment explanation
Indices: 3011780--3011812 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3011770 AGCTTTGAAA
3011780 AAAAGTCAAATTTTATG
1 AAAAGTCAAATTTTATG
3011797 AAAAGTCAAATTTTAT
1 AAAAGTCAAATTTTAT
3011813 ATTTTTCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAAAGTCAAATTTTATG
Found at i:3029730 original size:72 final size:72
Alignment explanation
Indices: 3029614--3029754 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
3029604 GAACACCAAG
3029614 TTAAGGGAGGATTTATCTTTTACTTGCATGAATTTGCATGAGAATTTAAAAG-TTGCATAATATT
1 TTAAGGGAGGATTTATCTTTTACTTGCATGAATTTGCATGAGAATTTAAAAGTTTGCATAATATT
3029678 CATTAGT
66 CATTAGT
3029685 TTAAGGGAGGATTTTATCTTTTACTTGCATGAATTTGCATGAGAATTTAAAAGTTTGCATAATAT
1 TTAAGGGAGGA-TTTATCTTTTACTTGCATGAATTTGCATGAGAATTTAAAAGTTTGCATAATAT
3029750 TCATT
65 TCATT
3029755 TCTTTTAATA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 11 0.16
72 41 0.60
73 16 0.24
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (72 bp):
TTAAGGGAGGATTTATCTTTTACTTGCATGAATTTGCATGAGAATTTAAAAGTTTGCATAATATT
CATTAGT
Found at i:3029896 original size:18 final size:17
Alignment explanation
Indices: 3029849--3029930 Score: 103
Period size: 17 Copynumber: 4.8 Consensus size: 17
3029839 TAGGTCACTG
*
3029849 ATTAAACTAGTTCATTC
1 ATTAAACTAGTTCATTA
*
3029866 ATCAAACTAGTTCATTGA
1 ATTAAACTAGTTCATT-A
*
3029884 A-TAAAGTTAGTTCATTA
1 ATTAAA-CTAGTTCATTA
*
3029901 ATTAAACTAGTTCATTC
1 ATTAAACTAGTTCATTA
3029918 ATTAAACTAGTTC
1 ATTAAACTAGTTC
3029931 GTTTGCTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
17 42 0.75
18 14 0.25
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (17 bp):
ATTAAACTAGTTCATTA
Found at i:3032110 original size:19 final size:19
Alignment explanation
Indices: 3032086--3032138 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 19
3032076 AAGAAGAATC
*
3032086 GAGAGTTGAAAAAGACATT
1 GAGAGTTGAAAAAGAAATT
*
3032105 GAGAGTGAAGAAAAAGAAATT
1 GAGAGT--TGAAAAAGAAATT
3032126 G-GAGTT-AAAAAGA
1 GAGAGTTGAAAAAGA
3032139 TTGAAAGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 7 0.24
19 6 0.21
20 4 0.14
21 12 0.41
ACGTcount: A:0.53, C:0.02, G:0.28, T:0.17
Consensus pattern (19 bp):
GAGAGTTGAAAAAGAAATT
Found at i:3034875 original size:20 final size:20
Alignment explanation
Indices: 3034850--3034892 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3034840 TCTAAGAGCC
* *
3034850 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
3034870 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
3034890 CAT
1 CAT
3034893 GAGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:3035161 original size:27 final size:27
Alignment explanation
Indices: 3035123--3035174 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
3035113 TGTTTTCACG
3035123 GGATCTCTGATCATGACCGAGAAATTC
1 GGATCTCTGATCATGACCGAGAAATTC
3035150 GGATCTCTGATCATGACCGAGAAAT
1 GGATCTCTGATCATGACCGAGAAAT
3035175 CTTCCTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (27 bp):
GGATCTCTGATCATGACCGAGAAATTC
Found at i:3042585 original size:13 final size:13
Alignment explanation
Indices: 3042564--3042598 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
3042554 CCCACTTACT
3042564 TTTCACTTTTCAC
1 TTTCACTTTTCAC
* *
3042577 TTTCTCTTTTTAC
1 TTTCACTTTTCAC
3042590 TTTCACTTT
1 TTTCACTTT
3042599 CTAGTTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTCACTTTTCAC
Found at i:3045507 original size:27 final size:27
Alignment explanation
Indices: 3045469--3045520 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
3045459 TGTTTTCACG
3045469 GGATCTCTGATCATGACCGAGAAATTC
1 GGATCTCTGATCATGACCGAGAAATTC
3045496 GGATCTCTGATCATGACCGAGAAAT
1 GGATCTCTGATCATGACCGAGAAAT
3045521 CTGCCTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (27 bp):
GGATCTCTGATCATGACCGAGAAATTC
Found at i:3047462 original size:601 final size:604
Alignment explanation
Indices: 3046315--3047520 Score: 1544
Period size: 601 Copynumber: 2.0 Consensus size: 604
3046305 AGGTTAGATG
* * * *
3046315 TTAATGCTGCCGCAAAAAGGTATTGCCGAGATATATCCTATTAGCTGAACCAATAGGGTCACTGC
1 TTAATGCTGCCGCAAAAAGGTATTGCCGAGACATATCCTATTAGCTGAACCAATAAGATCACTGA
* * *
3046380 TAGGGTTTACGCCAATCGGTTTTGCCAGGGCATCTTTAGTCTGTCGAGTCCCTTACTAGAGATAG
66 TAGGGTTTACGCCAACCGGTTTTGCCAGGGCATCTTCAATCTGTCGAGTCCCTTACTAGAGATAG
*
3046445 CATAGGGCACATCAGTAGACTCTGTCGGGCAGGGTAAGCATAGAAGAAGCACCATTCAAAGAAAT
131 CATAGGGCACATCAGTAGACTCTGTCGGGCAGAGTAAGCATAGAAGAAGCACCATTCAAAGAAAT
* * * * * ** * *
3046510 AAACTTAGGTTTTCCTTGTGTCTCCCATCACTCATTTCCATTGCTGCTTGTCTTGTGAGAAAGCT
196 AAACTTAGATTTTCCTTGTGACTCACACCACTCATTCCCAAAGCTGCTTGTCGTGTGAGAAAGCC
* * *
3046575 AAAGTCCTACATATATTAAATCTAGTATTTGCATTTTTATTTTTGCCTTGACATTTCCATTTGTT
261 AAAGTCCTACATATATCAAATCTAGTATTTACATTTTTATTTTTGCCTTGAAATTT-CATTTGTT
* * * * *
3046640 TTCACGTATGACAATTTAATTTGCCACGACATATCCATCTGCTACCACACTATCACCACTCTATT
325 TGCACGTATGACAATCTAATTTGCCACGACATATCCATCTGCTACCACACTACCACCACTCCACT
* * **
3046705 TCCACTACGTCCATTACATTTTGCCACTGCATTCTCATCTGTATATACCATAACTAACTTTACTT
390 TCCAATACGTCCATTACATATTGCCACAACATTCTCATCTGTATATACCATAACTAACTTTACTT
* * * *
3046770 ATGTGACAAAGTAAAGTGCCTTGACAAACCTATTTGAGTTCCCCAATTCCCTGTGGAGACGATAC
455 AGGTAAAAAACTAAAGTGCCTTGACAAACCTATTTGAGTTCCCCAATTCCCTGTGGAGACGATAC
*
3046835 TCTACTTATCACTTTATTACTTGTTCGATTGTGTATACTTACACAAATATCCGC-ATCATATTTT
520 TCTACTTATCACTTTATTAATTGTTCGATTGTGTATACTTACACAAATATCCGCGATCATA-TTT
3046899 AGTACTCACAAACAGCGGACA
584 AGTACTCACAAACAGCGGACA
* * ** *
3046920 TTAATGCTGCTGCAAAAAGGTATTGCTGAGACATATCCTATTATTTGGACCAATAAGATCACT-A
1 TTAATGCTGCCGCAAAAAGGTATTGCCGAGACATATCCTATTAGCTGAACCAATAAGATCACTGA
*
3046984 TAGGGGTTTACGCCAACCGGTTTTGCCAGGGCATCTTCAATCTGTCGAGTCCCTTACTAGAGATT
66 TA-GGGTTTACGCCAACCGGTTTTGCCAGGGCATCTTCAATCTGTCGAGTCCCTTACTAGAGATA
* * * * * ** **
3047049 GCATAGGGCACCTTAGTATACTCTGTCGGGCAGAAG-AGGCATAGAGATAAG-ACTGTTCGGAGA
130 GCATAGGGCACATCAGTAGACTCTGTCGGGCAG-AGTAAGCATAGA-AGAAGCACCATTCAAAGA
* *
3047112 AGTAAACTTAGATTTT-CTTAGGTGACTCATACCACTCATTCCCAAAG-TAGCTTGTCGTGTGAG
193 AATAAACTTAGATTTTCCTT--GTGACTCACACCACTCATTCCCAAAGCT-GCTTGTCGTGTGAG
* *
3047175 AAAGCCAAAGTCTTA-TTA-ATCAAATCATA-TATTTACA-TTTTA-TTTTGCCTTGAAATGTT-
255 AAAGCCAAAGTCCTACATATATCAAATC-TAGTATTTACATTTTTATTTTTGCCTTGAAAT-TTC
* * * * *
3047234 ATTTGTTTGCA-TTAAAT-ACAATCTATTTTGCCACGACATATCCATTTGCTACCACATTACCAT
318 ATTTGTTTGCACGT--ATGACAATCTAATTTGCCACGACATATCCATCTGCTACCACACTACCAC
** * * *
3047297 CGTTCCACTTCCAA-ATCTGT-CATTTCATATTGCCACAACATTCTCATTTGTATATACCATCAC
381 CACTCCACTTCCAATA-C-GTCCATTACATATTGCCACAACATTCTCATCTGTATATACCATAAC
* * *
3047360 TAACTTTACTTAGGTAAAAAACTAAAGTGCCTTGGCAAACTTATTTGAGTTCTCCAATTCCCTGT
444 TAACTTTACTTAGGTAAAAAACTAAAGTGCCTTGACAAACCTATTTGAGTTCCCCAATTCCCTGT
* *
3047425 GGAGACGATACTCTACTTATCACTTTATTAATTGTTCGATTGTGTATACTTGCACACATATCCGC
509 GGAGACGATACTCTACTTATCACTTTATTAATTGTTCGATTGTGTATACTTACACAAATATCCGC
* *
3047490 GCTCATATTTAGTACTCACAAAGAGCGGACA
574 GATCATATTTAGTACTCACAAACAGCGGACA
3047521 AGTTTTTAGC
Statistics
Matches: 518, Mismatches: 70, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
600 2 0.00
601 240 0.46
602 22 0.04
603 7 0.01
604 19 0.04
605 178 0.34
606 50 0.10
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (604 bp):
TTAATGCTGCCGCAAAAAGGTATTGCCGAGACATATCCTATTAGCTGAACCAATAAGATCACTGA
TAGGGTTTACGCCAACCGGTTTTGCCAGGGCATCTTCAATCTGTCGAGTCCCTTACTAGAGATAG
CATAGGGCACATCAGTAGACTCTGTCGGGCAGAGTAAGCATAGAAGAAGCACCATTCAAAGAAAT
AAACTTAGATTTTCCTTGTGACTCACACCACTCATTCCCAAAGCTGCTTGTCGTGTGAGAAAGCC
AAAGTCCTACATATATCAAATCTAGTATTTACATTTTTATTTTTGCCTTGAAATTTCATTTGTTT
GCACGTATGACAATCTAATTTGCCACGACATATCCATCTGCTACCACACTACCACCACTCCACTT
CCAATACGTCCATTACATATTGCCACAACATTCTCATCTGTATATACCATAACTAACTTTACTTA
GGTAAAAAACTAAAGTGCCTTGACAAACCTATTTGAGTTCCCCAATTCCCTGTGGAGACGATACT
CTACTTATCACTTTATTAATTGTTCGATTGTGTATACTTACACAAATATCCGCGATCATATTTAG
TACTCACAAACAGCGGACA
Found at i:3047628 original size:12 final size:12
Alignment explanation
Indices: 3047585--3047635 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
3047575 ATGGCATTTG
3047585 TATTTTACTTGTT
1 TATTTTACTTG-T
*
3047598 TATTTT-TTTGT
1 TATTTTACTTGT
3047609 ATAGTTTTACTTGT
1 -TA-TTTTACTTGT
3047623 TATTTTACTTGT
1 TATTTTACTTGT
3047635 T
1 T
3047636 TTTCAGGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
11 1 0.03
12 16 0.48
13 12 0.36
14 4 0.12
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.69
Consensus pattern (12 bp):
TATTTTACTTGT
Found at i:3058245 original size:15 final size:15
Alignment explanation
Indices: 3058221--3058250 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3058211 GATGTAGTGC
3058221 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
3058236 AAAAAGAAAAAAAAA
1 AAAAA-AAAAAAAAA
3058251 ACACAAAACA
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:3080347 original size:39 final size:39
Alignment explanation
Indices: 3080299--3080377 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
3080289 ATTTTATGGA
* *
3080299 GATATCAAAGATTTTGGTCGGTAACTATGGAGGGTTTTG
1 GATAGCAAAGATTTTGGTCGGAAACTATGGAGGGTTTTG
3080338 GATAGCAAAGATTTTGGTCGGAAACTATGGAGGGTTTTG
1 GATAGCAAAGATTTTGGTCGGAAACTATGGAGGGTTTTG
3080377 G
1 G
3080378 TGAAAAAGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.33
Consensus pattern (39 bp):
GATAGCAAAGATTTTGGTCGGAAACTATGGAGGGTTTTG
Found at i:3082065 original size:22 final size:22
Alignment explanation
Indices: 3082037--3082096 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
3082027 CGAGTACGTA
*
3082037 GTCCTTCGGGACATATACAGAG
1 GTCCTTCGGGACAAATACAGAG
* *
3082059 GTCCTTCGAGACAAATACATAG
1 GTCCTTCGGGACAAATACAGAG
* *
3082081 GTTCTTTGGGACAAAT
1 GTCCTTCGGGACAAAT
3082097 TTCACATGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
GTCCTTCGGGACAAATACAGAG
Found at i:3088758 original size:195 final size:197
Alignment explanation
Indices: 3088426--3088820 Score: 751
Period size: 195 Copynumber: 2.0 Consensus size: 197
3088416 ATGTACAGAT
3088426 CACCAAAAGATGATGGGAAAGGTCCCATAAAATCAGTTCCCCATACTTCGAAGAGTTCGACCTCC
1 CACCAAAAGATGATGGGAAAGGTCCCATAAAATCAGTTCCCCATACTTCGAAGAGTTCGACCTCC
3088491 AAAATCTTTTTCCATGGCATCTCGTTTCTTTTCGATATATTCCTAGTGTCTTAGCAATGATCACA
66 AAAATCTTTTTCCATGGCATCTCGTTTCTTTTCGATATATTCCTAGTGTCTTAGCAATGATCACA
3088556 TTACTTATAGAAGTC-GCGTATCCTTGAATAA-GTGAGCCAGTAGGAAACT-GATTCGAGGACCT
131 TTACTTATAGAAGTCGGCGTATCCTTGAATAAGGTGAGCCAGTA-GAAACTGGATTCGAGGACCT
3088618 TTG
195 TTG
3088621 CACCAAAAGATGATGGGAAAGGTCCCATAAAATCAGTTCCCCATACTTCGAAGAGTTCGACCTCC
1 CACCAAAAGATGATGGGAAAGGTCCCATAAAATCAGTTCCCCATACTTCGAAGAGTTCGACCTCC
3088686 AAAATCTTTTTCCATGGCATCTCGTTTCTTTTCGATATATTCCTAGTGTCTTAGCAATGATCACA
66 AAAATCTTTTTCCATGGCATCTCGTTTCTTTTCGATATATTCCTAGTGTCTTAGCAATGATCACA
3088751 TTACTTATAGAAGTCGTGCGTATCCTTGAATAAGGTGAGCCAGTAGAAACTGGATTCGAGGACCT
131 TTACTTATAGAAGTCG-GCGTATCCTTGAATAAGGTGAGCCAGTAGAAACTGGATTCGAGGACCT
3088816 TTG
195 TTG
3088819 CA
1 CA
3088821 ACAGTCCTTG
Statistics
Matches: 196, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
195 145 0.74
197 22 0.11
198 29 0.15
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (197 bp):
CACCAAAAGATGATGGGAAAGGTCCCATAAAATCAGTTCCCCATACTTCGAAGAGTTCGACCTCC
AAAATCTTTTTCCATGGCATCTCGTTTCTTTTCGATATATTCCTAGTGTCTTAGCAATGATCACA
TTACTTATAGAAGTCGGCGTATCCTTGAATAAGGTGAGCCAGTAGAAACTGGATTCGAGGACCTT
TG
Found at i:3092218 original size:21 final size:19
Alignment explanation
Indices: 3092185--3092225 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
3092175 TGTATCAAGG
3092185 TCTTTGTTGAGGCCATGAAA
1 TCTTTGTTGAGGCCAT-AAA
*
3092205 TCTTTTTTCGAGGCCATAAA
1 TCTTTGTT-GAGGCCATAAA
3092225 T
1 T
3092226 TCCTGCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (19 bp):
TCTTTGTTGAGGCCATAAA
Found at i:3095254 original size:82 final size:82
Alignment explanation
Indices: 3095157--3095320 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
3095147 TGCCAAATTG
3095157 TAACCCCCCAAATCCATAGTTACTCGTTGTTCCATTTACCGAATAGGCCATCAATTGGCCATCGT
1 TAACCCCCCAAATCCATAGTTACTCGTTGTTCCATTTACCGAATAGGCCATCAATTGGCCATCGT
3095222 TTAGCCCACCGTTGCCA
66 TTAGCCCACCGTTGCCA
3095239 TAACCCCCCAAATCCATAGTTACTCGTTGTTCCATTTACCGAATAGGCCATCAATTGGCCATCGT
1 TAACCCCCCAAATCCATAGTTACTCGTTGTTCCATTTACCGAATAGGCCATCAATTGGCCATCGT
3095304 TTAGCCCACCGTTGCCA
66 TTAGCCCACCGTTGCCA
3095321 CCATTGTCTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (82 bp):
TAACCCCCCAAATCCATAGTTACTCGTTGTTCCATTTACCGAATAGGCCATCAATTGGCCATCGT
TTAGCCCACCGTTGCCA
Found at i:3103626 original size:90 final size:90
Alignment explanation
Indices: 3103473--3103653 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
3103463 TTCTTTCATT
3103473 ATCTTTATGATTTCATTGCCTATTCTCATATTCGTTCTTTATTGTAGCTAGTTCTTTCTTTACTC
1 ATCTTTATGATTTCATTGCCTATTCTCATATTCGTTCTTTATTGTAGCTAGTTCTTTCTTTACTC
3103538 ACATCGTTCTTCCAACCAAGACCCA
66 ACATCGTTCTTCCAACCAAGACCCA
3103563 ATCTTTATGATTTCATTGCCTATTCTCATATTCGTTCTTTATTGTAGCTAGTTCTTTCTTTACTC
1 ATCTTTATGATTTCATTGCCTATTCTCATATTCGTTCTTTATTGTAGCTAGTTCTTTCTTTACTC
3103628 ACATCGTTCTTCCAACCAAGACCCA
66 ACATCGTTCTTCCAACCAAGACCCA
3103653 A
1 A
3103654 ATTATTTCAG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.22, C:0.25, G:0.09, T:0.44
Consensus pattern (90 bp):
ATCTTTATGATTTCATTGCCTATTCTCATATTCGTTCTTTATTGTAGCTAGTTCTTTCTTTACTC
ACATCGTTCTTCCAACCAAGACCCA
Found at i:3108369 original size:56 final size:56
Alignment explanation
Indices: 3108283--3108398 Score: 232
Period size: 56 Copynumber: 2.1 Consensus size: 56
3108273 CATTTCCTAC
3108283 ATGAGGTCATTTAGATGATGTTTGCATTCCTGCAACATGATTCTAAGGACTGAAAA
1 ATGAGGTCATTTAGATGATGTTTGCATTCCTGCAACATGATTCTAAGGACTGAAAA
3108339 ATGAGGTCATTTAGATGATGTTTGCATTCCTGCAACATGATTCTAAGGACTGAAAA
1 ATGAGGTCATTTAGATGATGTTTGCATTCCTGCAACATGATTCTAAGGACTGAAAA
3108395 ATGA
1 ATGA
3108399 AGTAAATGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.32
Consensus pattern (56 bp):
ATGAGGTCATTTAGATGATGTTTGCATTCCTGCAACATGATTCTAAGGACTGAAAA
Found at i:3113603 original size:15 final size:15
Alignment explanation
Indices: 3113585--3113634 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
3113575 TTGGCTTTGC
3113585 TTTCTTTAATTTCTT
1 TTTCTTTAATTTCTT
3113600 TTTCTTT--TCTTCTT
1 TTTCTTTAAT-TTCTT
*
3113614 TTTTTTCTAATTT-TT
1 TTTCTT-TAATTTCTT
3113629 TTTCTT
1 TTTCTT
3113635 CTTTTTGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 10 0.34
15 15 0.52
16 2 0.07
17 1 0.03
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTAATTTCTT
Found at i:3113621 original size:12 final size:12
Alignment explanation
Indices: 3113594--3113640 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
3113584 CTTTCTTTAA
*
3113594 TTTCTT-TTTCT
1 TTTCTTCTTTTT
3113605 TTTCTTCTTTTT
1 TTTCTTCTTTTT
**
3113617 TTTCTAATTTTT
1 TTTCTTCTTTTT
3113629 TTTCTTCTTTTT
1 TTTCTTCTTTTT
3113641 GTCTTTTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 6 0.20
12 24 0.80
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTCTTCTTTTT
Found at i:3113647 original size:16 final size:17
Alignment explanation
Indices: 3113628--3113659 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3113618 TTCTAATTTT
3113628 TTTTC-TTCTTTTTGTC
1 TTTTCTTTCTTTTTGTC
3113644 TTTTCTTTCTTTTTGT
1 TTTTCTTTCTTTTTGT
3113660 ACTCCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTCTTTCTTTTTGTC
Found at i:3114401 original size:21 final size:21
Alignment explanation
Indices: 3114377--3114416 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3114367 TTTTCAAAGG
3114377 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
* *
3114398 CATGCATCTATGCATCAAT
1 CATGCACCGATGCATCAAT
3114417 GAATAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:3114466 original size:19 final size:19
Alignment explanation
Indices: 3114442--3114480 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3114432 TCGAATGCAT
3114442 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
3114461 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
3114480 T
1 T
3114481 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:3114505 original size:64 final size:65
Alignment explanation
Indices: 3114377--3114606 Score: 197
Period size: 64 Copynumber: 3.5 Consensus size: 65
3114367 TTTTCAAAGG
* * * *
3114377 CATGCACCGATGCA-TCAATACCATGCATCTATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGC
3114440 ATTC
62 ATTC
* *
3114444 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAGTGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTC
* ** * *
3114508 GATGC-CTCGATGCACAATCCATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCA
1 CATGCAC-CGATGCACTCTCCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA
*
3114569 CTC
63 TTC
* * *
3114572 CATGCATCGATGCACTCT-TAGTGCACCGATGCACT
1 CATGCACCGATGCACTCTCCA-TGCATCGATGCACT
3114607 AGGAGTCCAA
Statistics
Matches: 134, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
63 3 0.02
64 94 0.70
65 14 0.10
66 7 0.05
67 14 0.10
68 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTC
Found at i:3120126 original size:24 final size:22
Alignment explanation
Indices: 3120098--3120177 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 22
3120088 CACTTAACAA
3120098 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
3120122 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
3120142 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
3120166 TGCATCGATGCA
1 TGCATCGATGCA
3120178 CAAGACCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
20 4 0.08
21 12 0.25
22 2 0.04
23 13 0.27
24 17 0.35
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:3122826 original size:19 final size:19
Alignment explanation
Indices: 3122802--3122840 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3122792 TCGAATGCAT
3122802 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
* *
3122821 TCCATGCATCGATTCACTC
1 TCCATGCACCGATGCACTC
3122840 T
1 T
3122841 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.38, G:0.13, T:0.28
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:3131542 original size:24 final size:24
Alignment explanation
Indices: 3131504--3131551 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3131494 ATTCGTGTAC
*
3131504 ATTCTACGTGGCACT-TTATGTGCA
1 ATTCTACGTGACACTATT-TGTGCA
*
3131528 ATTCTATGTGACACTATTTGTGCA
1 ATTCTACGTGACACTATTTGTGCA
3131552 TACAGGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTACGTGACACTATTTGTGCA
Found at i:3139653 original size:45 final size:45
Alignment explanation
Indices: 3139560--3139774 Score: 288
Period size: 45 Copynumber: 4.7 Consensus size: 45
3139550 TGTTAAAGAA
* * * *
3139560 AAATGCATATGGGTGCATTATTAACAGAAAAAAGTATGCTAAAGTTG
1 AAATGTATATGGGTACATTATCAACAG--AAAAGTATACTAAAGTTG
*
3139607 AAATGTATATGGGTACATTATCAACAGAAAAGTATACTAGAGTTG
1 AAATGTATATGGGTACATTATCAACAGAAAAGTATACTAAAGTTG
* * **
3139652 AAATGTATATGGATACATTATCAACAGAAAAAGTGTACTATGGTTG
1 AAATGTATATGGGTACATTATCAACAG-AAAAGTATACTAAAGTTG
* *
3139698 AAATGTATATGGGTACATTGTCAACATAAAAGTATACTAAAGTTG
1 AAATGTATATGGGTACATTATCAACAGAAAAGTATACTAAAGTTG
3139743 AAATGTATATGGG-AGCATTATCAACAGAAAAG
1 AAATGTATATGGGTA-CATTATCAACAGAAAAG
3139775 ATGTTAGAAT
Statistics
Matches: 149, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.01
45 85 0.57
46 39 0.26
47 24 0.16
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (45 bp):
AAATGTATATGGGTACATTATCAACAGAAAAGTATACTAAAGTTG
Found at i:3139716 original size:91 final size:91
Alignment explanation
Indices: 3139560--3139773 Score: 304
Period size: 91 Copynumber: 2.3 Consensus size: 91
3139550 TGTTAAAGAA
* * * *
3139560 AAATGCATATGGGTGCATTATTAACAGAAAAAAGTATGCTAAAGTTGAAATGTATATGGGTACAT
1 AAATGTATATGGATGCATTATCAACAG-AAAAAGTATACTAAAGTTGAAATGTATATGGGTACAT
*
3139625 TATCAACAGAAAAGTATACTAGAGTTG
65 TATCAACAGAAAAGTATACTAAAGTTG
* * **
3139652 AAATGTATATGGATACATTATCAACAGAAAAAGTGTACTATGGTTGAAATGTATATGGGTACATT
1 AAATGTATATGGATGCATTATCAACAGAAAAAGTATACTAAAGTTGAAATGTATATGGGTACATT
* *
3139717 GTCAACATAAAAGTATACTAAAGTTG
66 ATCAACAGAAAAGTATACTAAAGTTG
3139743 AAATGTATATGGGA-GCATTATCAACAGAAAA
1 AAATGTATAT-GGATGCATTATCAACAGAAAA
3139774 GATGTTAGAA
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
91 83 0.76
92 26 0.24
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.29
Consensus pattern (91 bp):
AAATGTATATGGATGCATTATCAACAGAAAAAGTATACTAAAGTTGAAATGTATATGGGTACATT
ATCAACAGAAAAGTATACTAAAGTTG
Found at i:3148809 original size:194 final size:197
Alignment explanation
Indices: 3148477--3148867 Score: 761
Period size: 194 Copynumber: 2.0 Consensus size: 197
3148467 GGTTACTATT
3148477 CATTACTACAGTAATTGATATCAAGTTACCAATTTGTTTCCAAATTAATTCAACAAAACAAATTT
1 CATTACTACAGTAATTGATATCAAGTTACCAATTTGTTTCCAAATTAATTCAACAAAACAAATTT
3148542 AACATTTTAAAATTATATGCCACTATCTAAATCATATTGCGTCATAGGATGTCTTACTGATATTG
66 AACATTTTAAAATTATATGCCACTATCTAAATCATATTGCGTCATAGGATGTCTTACTGATATTG
3148607 ATGCTTGATGTCATTCCGAACTCTTTATTCGACTACTGGCTTTTCACCTACATGTGAAAATCATC
131 ATGCTTGATGTCATTCCGAACTCTTTATTCGACTACTGGCTTTTCACCTACATGTGAAAATCATC
3148672 AC
196 AC
3148674 CATTACTACAGTAATTGATATCAAGTTACCAA-TTGTTTCCAAATTAATTCAAC-AAACAAATTT
1 CATTACTACAGTAATTGATATCAAGTTACCAATTTGTTTCCAAATTAATTCAACAAAACAAATTT
3148737 AACATTTT-AAATTATATGCCACTATCTAAATCATATTGCGTCATAGGATGTCTTACTGATATTG
66 AACATTTTAAAATTATATGCCACTATCTAAATCATATTGCGTCATAGGATGTCTTACTGATATTG
3148801 ATGCTTGATGTCATTCCGAACTCTTTATTCGACTACTGGCTTTTCACCTACATGTGAAAATCATC
131 ATGCTTGATGTCATTCCGAACTCTTTATTCGACTACTGGCTTTTCACCTACATGTGAAAATCATC
3148866 AC
196 AC
3148868 ACGCTATGTA
Statistics
Matches: 194, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
194 123 0.63
195 18 0.09
196 21 0.11
197 32 0.16
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (197 bp):
CATTACTACAGTAATTGATATCAAGTTACCAATTTGTTTCCAAATTAATTCAACAAAACAAATTT
AACATTTTAAAATTATATGCCACTATCTAAATCATATTGCGTCATAGGATGTCTTACTGATATTG
ATGCTTGATGTCATTCCGAACTCTTTATTCGACTACTGGCTTTTCACCTACATGTGAAAATCATC
AC
Found at i:3149103 original size:45 final size:44
Alignment explanation
Indices: 3149036--3149148 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 44
3149026 TACAATTTAA
* * *
3149036 TCCATAATCTTGTAAGCTTATTTTACCAACATACTTATCATTTAT
1 TCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCA-TTAT
* * *
3149081 TCTATAAGCTCGTAAACTTATTTTACCAATATACTTACCATTAT
1 TCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCATTAT
*
3149125 TCCATAAGCTCATAAGCTTATTTT
1 TCCATAAGCTCGTAAGCTTATTTT
3149149 CATACTTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 25 0.42
45 34 0.58
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.42
Consensus pattern (44 bp):
TCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCATTAT
Found at i:3162495 original size:14 final size:14
Alignment explanation
Indices: 3162450--3162501 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
3162440 AAGTTAACGG
* *
3162450 GTTGACTCTGACTA
1 GTTGACTCAGACAA
* * *
3162464 GTTAACTGAGACTGA
1 GTTGACTCAGAC-AA
3162479 GTTGACTCAGACAA
1 GTTGACTCAGACAA
3162493 GTTGACTCA
1 GTTGACTCA
3162502 ATCCGTTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (14 bp):
GTTGACTCAGACAA
Found at i:3165779 original size:31 final size:31
Alignment explanation
Indices: 3165744--3165853 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 31
3165734 TTAGGTCCAT
3165744 AAGGAATTACCAATCGGTGCTGAACCTATAA
1 AAGGAATTACCAATCGGTGCTGAACCTATAA
* *
3165775 AAGGAATTACCAATAGCG-ACTGAACCTGCCA-AGA
1 AAGGAATTACCAATCG-GTGCTGAACCT---ATA-A
* *
3165809 GATAGGAATTACCAGTCGGTGCAT-AACCTATAC
1 -A-AGGAATTACCAATCGGTGC-TGAACCTATAA
3165842 AAGGAATTACCA
1 AAGGAATTACCA
3165854 GCAGCGACTG
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
31 34 0.54
32 2 0.03
33 2 0.03
34 3 0.05
35 2 0.03
36 19 0.30
37 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (31 bp):
AAGGAATTACCAATCGGTGCTGAACCTATAA
Found at i:3165853 original size:67 final size:67
Alignment explanation
Indices: 3165745--3165872 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 67
3165735 TAGGTCCATA
* *
3165745 AGGAATTACCAATCGGTGCTGAACCTATAAAAGGAATTACCAATAGCGACTGAACCTGCCAAGAG
1 AGGAATTACCAATCGGTGCTGAACCTATAAAAGGAATTACCAACAGCGACTGAACATGCCAAGAG
3165810 AT
66 AT
* * *
3165812 AGGAATTACCAGTCGGTGCAT-AACCTATACAAGGAATTACCAGCAGCGACTGAACATGCCA
1 AGGAATTACCAATCGGTGC-TGAACCTATAAAAGGAATTACCAACAGCGACTGAACATGCCA
3165873 GAGTCTTCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 54 0.98
68 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (67 bp):
AGGAATTACCAATCGGTGCTGAACCTATAAAAGGAATTACCAACAGCGACTGAACATGCCAAGAG
AT
Found at i:3167736 original size:15 final size:15
Alignment explanation
Indices: 3167716--3167768 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
3167706 ACTCTGACAC
3167716 TTGACTCAGACCAAG
1 TTGACTCAGACCAAG
*
3167731 TTGACTCAGA-CAGG
1 TTGACTCAGACCAAG
*
3167745 TTGACTC-GAACCGAG
1 TTGACTCAG-ACCAAG
3167760 TTGACTCAG
1 TTGACTCAG
3167769 TGACTAGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.03
14 11 0.34
15 19 0.59
16 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (15 bp):
TTGACTCAGACCAAG
Found at i:3167749 original size:14 final size:13
Alignment explanation
Indices: 3167703--3167751 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 13
3167693 AATCAACGGA
* *
3167703 TTGACTCTGACAC
1 TTGACTCAGACAG
3167716 TTGACTCAGACCAAG
1 TTGACTCAGA-C-AG
3167731 TTGACTCAGACAGG
1 TTGACTCAGACA-G
3167745 TTGACTC
1 TTGACTC
3167752 GAACCGAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 10 0.32
14 10 0.32
15 11 0.35
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (13 bp):
TTGACTCAGACAG
Found at i:3167761 original size:29 final size:28
Alignment explanation
Indices: 3167703--3167768 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
3167693 AATCAACGGA
*
3167703 TTGACTCTGACACTTGACTCAGACCAAG
1 TTGACTCAGACACTTGACTCAGACCAAG
* *
3167731 TTGACTCAGACAGGTTGACTC-GAACCGAG
1 TTGACTCAGACA-CTTGACTCAG-ACCAAG
3167760 TTGACTCAG
1 TTGACTCAG
3167769 TGACTAGATC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (28 bp):
TTGACTCAGACACTTGACTCAGACCAAG
Done.