Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009397.1 Hibiscus syriacus cultivar Beakdansim tig00113302_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: 510949
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:3617 original size:17 final size:17
Alignment explanation
Indices: 3595--3629 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3585 CAAATGTCCC
3595 ATTTATTCAACATACAA
1 ATTTATTCAACATACAA
3612 ATTTATTCAACATACAA
1 ATTTATTCAACATACAA
3629 A
1 A
3630 CATTCACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTATTCAACATACAA
Found at i:7199 original size:29 final size:29
Alignment explanation
Indices: 7151--7215 Score: 71
Period size: 32 Copynumber: 2.1 Consensus size: 29
7141 ATAAATGAAG
7151 AAAATATTAAATTTCAAAAA-AAAAATAAT
1 AAAATATTAAATTT-AAAAAGAAAAATAAT
7180 AAAATATTAAAATATTAAAAGAGAAATAA-AAT
1 AAAATATT-AAAT-TTAAAA-AGAAA-AATAAT
7212 AAAA
1 AAAA
7216 CAAATAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
29 8 0.26
30 8 0.26
31 3 0.10
32 10 0.32
33 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.25
Consensus pattern (29 bp):
AAAATATTAAATTTAAAAAGAAAAATAAT
Found at i:7220 original size:14 final size:14
Alignment explanation
Indices: 7203--7229 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7193 ATTAAAAGAG
7203 AAATAAAATAAAAC
1 AAATAAAATAAAAC
7217 AAATAAAATAAAA
1 AAATAAAATAAAA
7230 AGAAGTGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAATAAAATAAAAC
Found at i:7341 original size:12 final size:12
Alignment explanation
Indices: 7292--7343 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
7282 AAGAAAGAAA
*
7292 AAAAT-AAAGGT
1 AAAATAAAAGAT
*
7303 AAAATAAAAGGT
1 AAAATAAAAGAT
*
7315 ATAAT-AAA-AT
1 AAAATAAAAGAT
7325 AAAATAAAAGAT
1 AAAATAAAAGAT
7337 AAAATAA
1 AAAATAA
7344 TAAATAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 5 0.14
11 11 0.31
12 19 0.54
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (12 bp):
AAAATAAAAGAT
Found at i:7352 original size:22 final size:22
Alignment explanation
Indices: 7292--7343 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
7282 AAGAAAGAAA
* *
7292 AAAATAAAGGTAAAATAAAAGGT
1 AAAATAAA-ATAAAATAAAAGAT
*
7315 ATAATAAAATAAAATAAAAGAT
1 AAAATAAAATAAAATAAAAGAT
7337 AAAATAA
1 AAAATAA
7344 TAAATAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAAGAT
Found at i:7407 original size:18 final size:18
Alignment explanation
Indices: 7384--7426 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7374 GTTGTTTTTA
*
7384 AAATAAAATATAAA-AATT
1 AAATAAAAGA-AAATAATT
7402 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAATAATT
7420 AAATAAA
1 AAATAAA
7427 TAATCTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
AAATAAAAGAAAATAATT
Found at i:8877 original size:224 final size:223
Alignment explanation
Indices: 8514--9072 Score: 780
Period size: 224 Copynumber: 2.5 Consensus size: 223
8504 GTGAAACTAA
* * *
8514 GTCAATTTTTTGGGTATGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGATCCTTCGCTGTG
1 GTCAATCTTTTGGGTACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGG-TCATTCGCTGTG
* * * * *
8579 AAGTTAAACTTCGAATTGGATG-TCATTCGTTGTGAAATTGAATTCCAAAATTGCATTGCTTTCG
65 AAGTTAAGCTTTGAATTGGATGTTC-TTCGTTGTGAAGTTGAAATCCAAAATTGCATTGCTTCCG
* * *
8643 AGTTCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGTTTTTCATTGTTATG
129 AGTTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAACGAAACTGGTTTTTCATTGTTATG
* *
8708 TCTCAGATGACTCATTCGTCGTGAAGTTGG
194 TCACAAATGACTCATTCGTCGTGAAGTTGG
*
8738 GTCAATCTTTTGGGTACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCCCTGTG
1 GTCAATCTTTTGGGTACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGG-TCATTCGCTGTG
* *
8803 AAGTTAAGTTTTGAATTGGATGTTCTTCGTTGTGAAGTTAAAATCCAAAATTGCATTGCTTCCGA
65 AAGTTAAGCTTTGAATTGGATGTTCTTCGTTGTGAAGTTGAAATCCAAAATTGCATTGCTTCCGA
* *
8868 GTTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAACGAAACTGGTTTTTCATTTTTGTGT
130 GTTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAACGAAACTGGTTTTTCATTGTTATGT
8933 CACAAATGACTCATTCGTCGTGAAGTTGG
195 CACAAATGACTCATTCGTCGTGAAGTTGG
* * * * * * ** *
8962 ATCAATCTTTCGGGTACAATATCATTTGTTGTGAAGTCAAAATCGTAGG-TGGTCATTCGTTGTG
1 GTCAATCTTTTGGGTACGATATCCTTCGTCGTGAAGTTGAAATCGT-GGATGGTCATTCGCTGTG
* * * * *
9026 AAGTTGAGCTTTGAATTGAATATCCTTCATTGTGAAGTTGAAATCCA
65 AAGTTAAGCTTTGAATTGGATGTTCTTCGTTGTGAAGTTGAAATCCA
9073 GTCTTGTAAA
Statistics
Matches: 297, Mismatches: 36, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
223 50 0.17
224 243 0.82
225 4 0.01
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (223 bp):
GTCAATCTTTTGGGTACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGTCATTCGCTGTGA
AGTTAAGCTTTGAATTGGATGTTCTTCGTTGTGAAGTTGAAATCCAAAATTGCATTGCTTCCGAG
TTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAACGAAACTGGTTTTTCATTGTTATGTC
ACAAATGACTCATTCGTCGTGAAGTTGG
Found at i:9061 original size:21 final size:21
Alignment explanation
Indices: 9037--9088 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
9027 AGTTGAGCTT
*
9037 TGAATTGAATATCC-TTCATTG
1 TGAATTGAATATCCAGTC-TTG
9058 TGAAGTTGAA-ATCCAGTCTTG
1 TGAA-TTGAATATCCAGTCTTG
*
9079 TAAATTGAAT
1 TGAATTGAAT
9089 TGCTTTGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.19
21 14 0.54
22 7 0.27
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
TGAATTGAATATCCAGTCTTG
Found at i:9200 original size:122 final size:122
Alignment explanation
Indices: 8979--9242 Score: 356
Period size: 122 Copynumber: 2.2 Consensus size: 122
8969 TTTCGGGTAC
* *
8979 AATATCATTTGTTGTGAAGTCAAAATCGTAGGTGGTCATTCGTTGTGAAGTTGAGCTTTGAATTG
1 AATATCATTCGTTGTGAAGTCAAAATCGTAGATGGTCATTCGTTGTGAAGTTGAGCTTTGAATTG
* * *
9044 AATATCCTTCATTGTGAAGTTGAAATCCAGTCTTGTAAATTGA-ATT-GCTTTGAGATT
66 AATATCCTTCATTGTGAAGTTGAAATCCAATCTTGAAAATT-ACATTAGC-TCGAGATT
** *
9101 AATAT-ATTCGTTGTGAAGTTGAAATTGTAGATGGCTCATTCGCTT-TGAAGTTGAGCTTTGAAT
1 AATATCATTCGTTGTGAAGTCAAAATCGTAGATGG-TCATTCG-TTGTGAAGTTGAGCTTTGAAT
* * *
9164 TGGATGTCCTTCATTGTGAAGTTGAAATCCAATCTTGAAAATTACATTAGCTCGAGTTT
64 TGAATATCCTTCATTGTGAAGTTGAAATCCAATCTTGAAAATTACATTAGCTCGAGATT
*
9223 AATATCCTTCGTTGTGAAGT
1 AATATCATTCGTTGTGAAGT
9243 GGACATTGAC
Statistics
Matches: 125, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
121 25 0.20
122 83 0.66
123 17 0.14
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.39
Consensus pattern (122 bp):
AATATCATTCGTTGTGAAGTCAAAATCGTAGATGGTCATTCGTTGTGAAGTTGAGCTTTGAATTG
AATATCCTTCATTGTGAAGTTGAAATCCAATCTTGAAAATTACATTAGCTCGAGATT
Found at i:16815 original size:5 final size:5
Alignment explanation
Indices: 16773--16856 Score: 57
Period size: 5 Copynumber: 16.4 Consensus size: 5
16763 AATTTTAAAG
* * * * *
16773 AAAAT ACAAT GAAAG AAAA- AAAAT AAAGGT ATAAT AAAAT AAAAT AAAAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT -AAA-AT
16825 AAAAT --AAT AAAAT AAAAT AAAAGAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT -AAA-AT AAAAT AA
16857 TAAATAATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 36 0.58
6 15 0.24
7 4 0.06
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:16826 original size:20 final size:18
Alignment explanation
Indices: 16803--16863 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 18
16793 AAATAAAGGT
16803 ATAATAAAATAAAATAAAA
1 ATAA-AAAATAAAATAAAA
16822 GATAAAATAATAAAAT-AAA
1 -ATAAAA-AATAAAATAAAA
*
16841 ATAAAAGATAAAATAATAA
1 ATAAAAAATAAAATAA-AA
16860 ATAA
1 ATAA
16864 TAATAGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 7 0.19
18 7 0.19
19 11 0.30
20 12 0.32
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAAATAAAATAAAA
Found at i:16828 original size:12 final size:12
Alignment explanation
Indices: 16811--16880 Score: 79
Period size: 12 Copynumber: 5.5 Consensus size: 12
16801 GTATAATAAA
16811 ATAAAATAAAAG
1 ATAAAATAAAAG
*
16823 ATAAAATAATAAA
1 ATAAAATAA-AAG
16836 ATAAAATAAAAG
1 ATAAAATAAAAG
16848 ATAAAATAATAA-
1 ATAAAATAA-AAG
16860 ATAATAATAGTAAAG
1 ATAA-AATA--AAAG
16875 ATAAAA
1 ATAAAA
16881 AGGCATTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
12 24 0.48
13 17 0.34
14 4 0.08
15 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (12 bp):
ATAAAATAAAAG
Found at i:16831 original size:25 final size:25
Alignment explanation
Indices: 16803--16880 Score: 122
Period size: 25 Copynumber: 3.0 Consensus size: 25
16793 AAATAAAGGT
16803 ATAATAAAATAAAATAAAAGATAAA
1 ATAATAAAATAAAATAAAAGATAAA
16828 ATAATAAAATAAAATAAAAGATAAA
1 ATAATAAAATAAAATAAAAGATAAA
16853 ATAAT-AAATAATAATAGTAAAGATAAA
1 ATAATAAAATAA-AATA--AAAGATAAA
16880 A
1 A
16881 AGGCATTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
24 6 0.12
25 34 0.68
27 10 0.20
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (25 bp):
ATAATAAAATAAAATAAAAGATAAA
Found at i:16929 original size:18 final size:18
Alignment explanation
Indices: 16906--16948 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
16896 TTATTTTTTA
*
16906 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
16924 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
16942 AAATAAA
1 AAATAAA
16949 TAATATAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:17587 original size:86 final size:86
Alignment explanation
Indices: 17432--17612 Score: 208
Period size: 86 Copynumber: 2.1 Consensus size: 86
17422 TTCAAATTCT
* * * ** *
17432 TAAAAATAAACTAAAGATAATTTTTAAAATAATATATTTTATCGTAATTAAAAGACTTAAAACTT
1 TAAAAATAAAATAAAAATAATATTTAAAATAATATATTAAATCGTAATTAAAAGACTTAAAACTA
17497 TTTAAACTAAAATACCTAAAA
66 TTTAAACTAAAATACCTAAAA
* * * *
17518 TAAAGATAAAATAAAAATAATATTTAAAATAATATCTTAAATCTTAATTAAAATA-TTAATATA-
1 TAAAAATAAAATAAAAATAATATTTAAAATAATATATTAAATCGTAATTAAAAGACTTAA-A-AC
17581 TATTTAAACTAAAATA--TAAAGA
64 TATTTAAACTAAAATACCTAAA-A
17603 TAAAATATAA
1 TAAAA-ATAA
17613 TATTATATAT
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
84 4 0.05
85 9 0.11
86 66 0.82
87 1 0.01
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.35
Consensus pattern (86 bp):
TAAAAATAAAATAAAAATAATATTTAAAATAATATATTAAATCGTAATTAAAAGACTTAAAACTA
TTTAAACTAAAATACCTAAAA
Found at i:21504 original size:2 final size:2
Alignment explanation
Indices: 21497--21522 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21487 TTTGGTTCAT
21497 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
21523 CTTTAAATAC
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:22482 original size:22 final size:23
Alignment explanation
Indices: 22456--22505 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
22446 ATTATATTAT
22456 ATTATAAA-TTTAAGAACAAAAA
1 ATTATAAACTTTAAGAACAAAAA
* *
22478 ATTATAAAGCTTTAAGAATATAAA
1 ATTATAAA-CTTTAAGAACAAAAA
22502 ATTA
1 ATTA
22506 GATCATTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.33
24 16 0.67
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (23 bp):
ATTATAAACTTTAAGAACAAAAA
Found at i:24368 original size:20 final size:21
Alignment explanation
Indices: 24343--24435 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
24333 TTTTCCCAAT
*
24343 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
24363 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
24384 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
24404 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
24425 TCGCAATGCGA
1 TCGCAATGCGA
24436 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:24388 original size:41 final size:41
Alignment explanation
Indices: 24343--24435 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
24333 TTTTCCCAAT
24343 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
24384 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
24425 TCGCAATGCGA
1 TCGCAATGCGA
24436 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:24448 original size:41 final size:41
Alignment explanation
Indices: 24362--24496 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
24352 GAATAAGTAA
* *
24362 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
24403 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
24444 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
24485 TTCGCAACGCGA
1 ATCGCAACGCGA
24497 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:24449 original size:20 final size:20
Alignment explanation
Indices: 24424--24538 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
24414 AATTGGGAAA
*
24424 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
24444 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
24465 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
24485 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
24505 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
24525 TTTGCAACGCGATA
1 ATCGCAACGCGATA
24539 ATACATAATC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 63 0.79
21 13 0.16
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:24497 original size:41 final size:41
Alignment explanation
Indices: 24421--24558 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
24411 GCGAATTGGG
* * *
24421 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
24462 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** * *
24504 --TTTCGCAACGCGATTCTGACTTTTGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
24543 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
24559 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.38
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:25050 original size:20 final size:20
Alignment explanation
Indices: 25025--25062 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25015 CGATTCTCTC
25025 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
25045 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
25063 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:26402 original size:18 final size:18
Alignment explanation
Indices: 26381--26425 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
26371 TCCACTTCGG
*
26381 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
26399 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
26417 GAGCCATCA
1 GAGCCATCA
26426 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:26956 original size:19 final size:20
Alignment explanation
Indices: 26902--26968 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
26892 TAGTTTACTT
* *
26902 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
26922 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
* **
26942 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
26961 TCGCAACG
1 TCGCAACG
26969 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 15 0.37
20 26 0.63
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:27059 original size:12 final size:12
Alignment explanation
Indices: 27028--27062 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
27018 TTTGTGTTTC
27028 GCGTTGCGATTT
1 GCGTTGCGATTT
*
27040 -CATTGCGATTT
1 GCGTTGCGATTT
27051 GCGTTGCGATTT
1 GCGTTGCGATTT
27063 TCATTTCGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.11, C:0.17, G:0.29, T:0.43
Consensus pattern (12 bp):
GCGTTGCGATTT
Found at i:27078 original size:19 final size:19
Alignment explanation
Indices: 27047--27117 Score: 99
Period size: 19 Copynumber: 3.8 Consensus size: 19
27037 TTTCATTGCG
**
27047 ATTT-GCGTTGCGATTTTC
1 ATTTCGCGTTGCGATAGTC
* *
27065 ATTTCGCATTGCGATAGCC
1 ATTTCGCGTTGCGATAGTC
27084 ATTTCGCGTTGCGATAGTC
1 ATTTCGCGTTGCGATAGTC
27103 ATTTCGCGTTGCGAT
1 ATTTCGCGTTGCGAT
27118 TTTAAGTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
18 4 0.09
19 42 0.91
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (19 bp):
ATTTCGCGTTGCGATAGTC
Found at i:29005 original size:14 final size:14
Alignment explanation
Indices: 28973--29007 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
28963 GATTGTTTAA
28973 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
28987 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
29001 TTGATTT
1 TTGATTT
29008 TTTAATTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:30297 original size:24 final size:24
Alignment explanation
Indices: 30270--30323 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
30260 GTATTCGAAA
* *
30270 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
30294 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
30318 TTTGAT
1 TTTGAT
30324 GATGTTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:30514 original size:12 final size:12
Alignment explanation
Indices: 30497--30521 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30487 ATATAATCCT
30497 GAAGAAGAAAAA
1 GAAGAAGAAAAA
30509 GAAGAAGAAAAA
1 GAAGAAGAAAAA
30521 G
1 G
30522 TCCCGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:32834 original size:33 final size:33
Alignment explanation
Indices: 32792--32917 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
32782 GGAAATTACT
32792 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
32825 ATCGCAATGCGAAAT-AAAATCGTAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
32856 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
32890 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
32918 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
31 1 0.01
32 26 0.32
33 53 0.65
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:32897 original size:65 final size:66
Alignment explanation
Indices: 32793--32924 Score: 230
Period size: 65 Copynumber: 2.0 Consensus size: 66
32783 GAAATTACTA
* *
32793 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT-AAAATCGTAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
32857 T
66 T
*
32858 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
32923 T
66 T
32924 T
1 T
32925 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 46 0.73
66 17 0.27
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:33097 original size:14 final size:14
Alignment explanation
Indices: 33078--33114 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
33068 CATCAATTAA
33078 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
33092 ACAAATCACCTTTT
1 ACAAATCAACTTTT
33106 ACAAATCAA
1 ACAAATCAA
33115 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:34531 original size:21 final size:21
Alignment explanation
Indices: 34465--34531 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
34455 GTGAATCGGG
*
34465 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
34485 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
34507 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
34528 CTCT
1 CTCT
34532 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:34550 original size:42 final size:41
Alignment explanation
Indices: 34465--34587 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
34455 GTGAATCGGG
* * * *
34465 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
34507 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
34549 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
34588 CGAGTCGGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:36643 original size:14 final size:14
Alignment explanation
Indices: 36624--36660 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
36614 GGAAATGACT
* *
36624 ATCGCAATGATAGA
1 ATCGCAACGAAAGA
36638 ATCGCAACGAAAGA
1 ATCGCAACGAAAGA
36652 ATCGCAACG
1 ATCGCAACG
36661 CGAAATGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.14
Consensus pattern (14 bp):
ATCGCAACGAAAGA
Found at i:36688 original size:47 final size:48
Alignment explanation
Indices: 36601--36693 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 48
36591 CGAGATAATG
* ** * *
36601 AGAATTGCAACGCGGAAATGACTATCGCAATGATAGAATCGCAACGAA
1 AGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGAA
*
36649 AGAATCGCAACGC-GAAATGACTATCGCGACCAGACAATCGCAACG
1 AGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACG
36694 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 27 0.69
48 12 0.31
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.14
Consensus pattern (48 bp):
AGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGAA
Found at i:36706 original size:19 final size:19
Alignment explanation
Indices: 36684--36773 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
36674 GCGACCAGAC
36684 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
36703 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
36723 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
36742 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
36761 AATCGCAATGCGA
1 AATCGCAACGCGA
36774 TTTTTGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 49 0.73
20 18 0.27
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:36727 original size:39 final size:38
Alignment explanation
Indices: 36684--36773 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
36674 GCGACCAGAC
36684 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
36723 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
36761 AATCGCAATGCGA
1 AATCGCAACGCGA
36774 TTTTTGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:37385 original size:20 final size:20
Alignment explanation
Indices: 37360--37412 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
37350 GCGCTATGTA
37360 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
37380 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
37400 TATCTCGTTGCGA
1 AATCGCGTTGCGA
37413 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:37473 original size:41 final size:41
Alignment explanation
Indices: 37381--37475 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
37371 GAAAGTCAGA
* * * * ** *
37381 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
*
37422 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
37464 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
37476 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:41216 original size:31 final size:31
Alignment explanation
Indices: 41178--41238 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
41168 CAAGAGTTTG
41178 GGAGTTCCTAGTGAGAA-GAACATATTGAATA
1 GGAGTTCCTAGTGAGAATG-ACATATTGAATA
41209 GGAGTTCCTAGTGAGAATGACATATTGAAT
1 GGAGTTCCTAGTGAGAATGACATATTGAAT
41239 TCACCGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (31 bp):
GGAGTTCCTAGTGAGAATGACATATTGAATA
Found at i:47338 original size:6 final size:6
Alignment explanation
Indices: 47327--47364 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
47317 GATATTTTTC
47327 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
47365 AATACGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
GTCGTG
Found at i:47467 original size:20 final size:20
Alignment explanation
Indices: 47442--47481 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47432 TTTTTAACTA
*
47442 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
47462 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
47482 CTCTCAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.17, G:0.17, T:0.53
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:47497 original size:20 final size:20
Alignment explanation
Indices: 47474--47724 Score: 241
Period size: 20 Copynumber: 12.4 Consensus size: 20
47464 CTTTTTAACG
* *
47474 TTGCGATTCTCTCAATCGCA
1 TTGCGATTCTATAAATCGCA
*
47494 TTGCGATTCTATAAATCGCG
1 TTGCGATTCTATAAATCGCA
* *
47514 CTGCGATTCTATAAATCGCG
1 TTGCGATTCTATAAATCGCA
* *
47534 CTGCGATTCTATAAATCGCG
1 TTGCGATTCTATAAATCGCA
* *
47554 CTGCGATTCTATAAATCGCG
1 TTGCGATTCTATAAATCGCA
* *
47574 CTGCGATTCTATAAATCGCG
1 TTGCGATTCTATAAATCGCA
* * * *
47594 CTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATAAATCGCA
* * *
47614 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATAAATCGCA
* * *
47634 TTGCGATTTTCTTCTAAATCACG
1 TTGCGA--TTC-TATAAATCGCA
* * *
47657 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTATAAATCGCA
47677 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATAAATCGCA
*
47697 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATAAATCGCA
*
47717 TTGTGATT
1 TTGCGATT
47725 TTCTTCTAAA
Statistics
Matches: 206, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
20 188 0.91
21 2 0.01
22 3 0.01
23 13 0.06
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (20 bp):
TTGCGATTCTATAAATCGCA
Found at i:47541 original size:60 final size:60
Alignment explanation
Indices: 47475--47715 Score: 302
Period size: 60 Copynumber: 4.0 Consensus size: 60
47465 TTTTTAACGT
*
47475 TGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCGCTGCGATTCTATAAATCGCGC
1 TGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCACTGCGATTCTATAAATCGCGC
* * ** *
47535 TGCGATTCTATAAATCGCGCTGCGATTCTATAAATCGCGCTGCGATTCTATAAATCGCGC
1 TGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCACTGCGATTCTATAAATCGCGC
* * * * * * * *
47595 TGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCACGT
1 TGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCACTGCGA--TTC-TATAAATCGCGC
* * *
47658 TGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGC
1 TGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCACTGCGATTCTATAAATCGC
47716 ATTGTGATTT
Statistics
Matches: 153, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
60 98 0.64
61 3 0.02
62 3 0.02
63 49 0.32
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (60 bp):
TGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCACTGCGATTCTATAAATCGCGC
Found at i:47784 original size:20 final size:20
Alignment explanation
Indices: 47759--47812 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
47749 TGGAAGCTCG
* *
47759 CGTTGCAATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
47779 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
47799 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
47813 AAATCGCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.19, G:0.17, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:47839 original size:19 final size:20
Alignment explanation
Indices: 47799--47849 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
47789 TTCTTTTTAA
*
47799 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
47819 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
47838 CGTTGCGATTTT
1 CGTTGCGATTTT
47850 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:50468 original size:5 final size:5
Alignment explanation
Indices: 50453--50495 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
50443 AAGCTCTCTC
*
50453 TTTCTT TTTCT TTTC- TTTCT TTTTT TTTCT TTTCT GTTTCT TT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT -TTTCT TT
50496 GCTGCGTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
4 4 0.12
5 20 0.61
6 9 0.27
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:50471 original size:15 final size:15
Alignment explanation
Indices: 50451--50495 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
50441 GTAAGCTCTC
50451 TCTTTCTTTTTCTTT
1 TCTTTCTTTTTCTTT
50466 TCTTTCTTTTT-TTT
1 TCTTTCTTTTTCTTT
*
50480 TCTTTTCTGTTTCTTT
1 TC-TTTCTTTTTCTTT
50496 GCTGCGTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 19 0.70
16 3 0.11
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (15 bp):
TCTTTCTTTTTCTTT
Found at i:50479 original size:19 final size:19
Alignment explanation
Indices: 50451--50487 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
50441 GTAAGCTCTC
50451 TCTTTCTTTTTCTTTTCTT
1 TCTTTCTTTTTCTTTTCTT
*
50470 TCTTTTTTTTTCTTTTCT
1 TCTTTCTTTTTCTTTTCT
50488 GTTTCTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TCTTTCTTTTTCTTTTCTT
Found at i:50958 original size:13 final size:12
Alignment explanation
Indices: 50942--51024 Score: 50
Period size: 12 Copynumber: 6.8 Consensus size: 12
50932 TTTTGGGCTG
50942 TATATA-AATAA
1 TATATATAATAA
50953 TATATATTAATAA
1 TATATA-TAATAA
50966 -ATA-ATAATAA
1 TATATATAATAA
50976 TTATTATTATTAATAA
1 -TA-TA-TA-TAATAA
*
50992 TA-ATAATTATAA
1 TATAT-ATAATAA
51004 TA-ATAATAATAA
1 TATAT-ATAATAA
*
51016 TATAAATAA
1 TATATATAA
51025 CATTAAAATG
Statistics
Matches: 59, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
10 6 0.10
11 7 0.12
12 27 0.46
13 10 0.17
15 3 0.05
16 6 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATATAATAA
Found at i:50971 original size:3 final size:3
Alignment explanation
Indices: 50948--51017 Score: 68
Period size: 3 Copynumber: 22.3 Consensus size: 3
50938 GCTGTATATA
* * * *
50948 AAT AAT ATAT ATT AAT AAAT AAT AAT AATT ATT ATT ATT AAT AAT AAT
1 AAT AAT A-AT AAT AAT -AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
*
50996 AAT TAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
51018 TAAATAACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
3 50 0.86
4 8 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:51863 original size:15 final size:15
Alignment explanation
Indices: 51845--51902 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
51835 CGACTTAACC
*
51845 CAACTCGAACCGAGT
1 CAACCCGAACCGAGT
*
51860 CAACCCGAATCGAGT
1 CAACCCGAACCGAGT
51875 CAACCCGAACCGAGT
1 CAACCCGAACCGAGT
*
51890 CAACCCGACCCGA
1 CAACCCGAACCGA
51903 CCTGTTGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.33, C:0.40, G:0.19, T:0.09
Consensus pattern (15 bp):
CAACCCGAACCGAGT
Found at i:51936 original size:7 final size:7
Alignment explanation
Indices: 51924--51974 Score: 57
Period size: 7 Copynumber: 6.7 Consensus size: 7
51914 GTCTGACTCG
51924 TTGACCA
1 TTGACCA
51931 TTGACCGA
1 TTGACC-A
51939 TTTGACCA
1 -TTGACCA
51947 TTGACCA
1 TTGACCA
51954 TTGACCGA
1 TTGACC-A
*
51962 TATGACCG
1 T-TGACCA
51970 TTGAC
1 TTGAC
51975 TTTGACCAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
7 23 0.59
8 5 0.13
9 11 0.28
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (7 bp):
TTGACCA
Found at i:51945 original size:16 final size:15
Alignment explanation
Indices: 51924--51974 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
51914 GTCTGACTCG
51924 TTGACCATTGACCGA
1 TTGACCATTGACCGA
51939 TTTGACCATTGACC-A
1 -TTGACCATTGACCGA
51954 TTGACCGATATGACCG-
1 TTGACC-AT-TGACCGA
51970 TTGAC
1 TTGAC
51975 TTTGACCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.19
15 3 0.09
16 23 0.72
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (15 bp):
TTGACCATTGACCGA
Found at i:51954 original size:23 final size:23
Alignment explanation
Indices: 51924--51974 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
51914 GTCTGACTCG
*
51924 TTGACCATTGACCGATTTGACCA
1 TTGACCATTGACCGATATGACCA
*
51947 TTGACCATTGACCGATATGACCG
1 TTGACCATTGACCGATATGACCA
51970 TTGAC
1 TTGAC
51975 TTTGACCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (23 bp):
TTGACCATTGACCGATATGACCA
Found at i:56259 original size:22 final size:22
Alignment explanation
Indices: 56232--56284 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
56222 TTGACCCATT
56232 GACCGTTGACTTTGAACGGTCA
1 GACCGTTGACTTTGAACGGTCA
* *
56254 GACCGTTAACTTTGACCGGTCA
1 GACCGTTGACTTTGAACGGTCA
*
56276 AACCGTTGA
1 GACCGTTGA
56285 TCGTTGACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (22 bp):
GACCGTTGACTTTGAACGGTCA
Found at i:62268 original size:20 final size:21
Alignment explanation
Indices: 62227--62278 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
62217 ATGCCTATAG
*
62227 GTATCGATACT-ATCCCTCGA
1 GTATCGATACTCATCCCTAGA
*
62247 GTATCGATACTCCT-CCTAGA
1 GTATCGATACTCATCCCTAGA
*
62267 GTATCGAAACTC
1 GTATCGATACTC
62279 TATTGCCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (21 bp):
GTATCGATACTCATCCCTAGA
Found at i:63813 original size:39 final size:40
Alignment explanation
Indices: 63769--63847 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
63759 GTTGATATTG
* ** *
63769 TTTTGAACCAGGGTAT-GGTACTATCCTGAGTATCAATAC
1 TTTTGAACAAGGGTATCAATACTATCCTAAGTATCAATAC
*
63808 TTTTGAACAAGGGTATCAATATTATCCTAAGTATCAATAC
1 TTTTGAACAAGGGTATCAATACTATCCTAAGTATCAATAC
63848 CAAAATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 15 0.44
40 19 0.56
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (40 bp):
TTTTGAACAAGGGTATCAATACTATCCTAAGTATCAATAC
Found at i:72833 original size:38 final size:38
Alignment explanation
Indices: 72791--72868 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
72781 ACTCCTAAAT
* *
72791 TATTGTAGAATACCTACGTTAATTGCTCTTTTGAAAAC
1 TATTGTAGAATACCTACATTAATTCCTCTTTTGAAAAC
72829 TATTGTAGAATACCTACATTAATTCCTCTTTTGAAAAC
1 TATTGTAGAATACCTACATTAATTCCTCTTTTGAAAAC
72867 TA
1 TA
72869 ATTTCCTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (38 bp):
TATTGTAGAATACCTACATTAATTCCTCTTTTGAAAAC
Found at i:74785 original size:2 final size:2
Alignment explanation
Indices: 74778--74805 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
74768 TCATGTTTAA
74778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74806 GCATTGTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89756 original size:15 final size:15
Alignment explanation
Indices: 89715--89757 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
89705 GAAATTTAAA
*
89715 AATTCAAAATATATTT
1 AATTCAAAAT-TAATT
*
89731 AATTCATAATTAATT
1 AATTCAAAATTAATT
*
89746 ATTTCAAAATTA
1 AATTCAAAATTA
89758 TAATTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTCAAAATTAATT
Found at i:89790 original size:26 final size:27
Alignment explanation
Indices: 89756--89808 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
89746 ATTTCAAAAT
89756 TATAATTATAAA-AAAATATTAATTTA
1 TATAATTATAAATAAAATATTAATTTA
* *
89782 TATATTTATAAATAAAATATTTATTTA
1 TATAATTATAAATAAAATATTAATTTA
89809 GAAATATCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TATAATTATAAATAAAATATTAATTTA
Found at i:91423 original size:3 final size:3
Alignment explanation
Indices: 91415--91498 Score: 109
Period size: 3 Copynumber: 27.7 Consensus size: 3
91405 GGCCTGTTTG
**
91415 TAA TAA TAA TAA TTT TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
91460 TAA TATA TAA -AA TAA TAA TAA TAA TAAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
91499 GAAAATGGGG
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
2 4 0.06
3 59 0.82
4 9 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:91786 original size:116 final size:116
Alignment explanation
Indices: 91640--91917 Score: 305
Period size: 119 Copynumber: 2.4 Consensus size: 116
91630 GTTGAATAAA
* * **** *
91640 TTCTTC-TCCTTCTTCAGATGAGTTCATCTCATTATGAACTTTCCGCTGGGGATGATA-A-TATC
1 TTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTTCCGCAAAAGATGATACACTACC
* * * *
91702 TCCTTCTGTGAT-GTAATTTGGATAAGGGTTGAAC-AAGTTCTTCTCATTATGAAC
65 TCCTTCTATGATAGTAA--T-GAAAAAGGTTGAACAAAATT-TTCTCATTATGAAC
* * * *
91756 TTCTTCTTCCTCTTTAGATAAGTTCTTCTCATTATGAACTTTCTGGAAAAGTTGATACTGATCTA
1 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCCGCAAAAGATGATAC--A-CTA
*
91821 CCTCCTTCTATGATAGTCATGAAAAAGGTTGAACAAAATTTTCTCATTATGAAC
63 CCTCCTTCTATGATAGTAATGAAAAAGGTTGAACAAAATTTTCTCATTATGAAC
91875 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTC
1 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTC
91918 TGGAAAAGTT
Statistics
Matches: 137, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
116 43 0.31
117 3 0.02
119 69 0.50
120 5 0.04
121 14 0.10
122 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (116 bp):
TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCCGCAAAAGATGATACACTACCT
CCTTCTATGATAGTAATGAAAAAGGTTGAACAAAATTTTCTCATTATGAAC
Found at i:92190 original size:113 final size:113
Alignment explanation
Indices: 91843--92367 Score: 773
Period size: 113 Copynumber: 4.7 Consensus size: 113
91833 ATAGTCATGA
*
91843 AAAAGGTTGAACAAAATT-TTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCA
1 AAAAGGTTGAAC-AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
91906 TTATGAAC-TT-TCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
65 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
*
91953 AAAAAGTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * *
92014 CATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
63 CATTATGAACT-TTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
*
92065 AAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
92130 TATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGC
66 TATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
*
92178 GAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 -AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * *
92242 TTATGAACTCTTTCACTGGGGATGCTGATCCATCAAATGATGAATTCAAAC
65 TTATGAA--CTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
*
92293 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
92358 TATGAACTTT
66 TATGAACTTT
92368 AACTGGCACT
Statistics
Matches: 375, Mismatches: 23, Indels: 31
0.87 0.05 0.07
Matches are distributed among these distances:
106 1 0.00
107 14 0.04
108 1 0.00
109 5 0.01
110 43 0.11
112 66 0.18
113 121 0.32
114 9 0.02
115 104 0.28
116 11 0.03
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
Found at i:92346 original size:228 final size:227
Alignment explanation
Indices: 91729--92396 Score: 849
Period size: 228 Copynumber: 2.9 Consensus size: 227
91719 TTGGATAAGG
* *
91729 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTTAGATAAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* ** ** * * ** * * *
91793 ACT-TTCTGGAAAAGTTGATACTGATCTACCTC-CTTCTATGATAGTCATGA-AAAAGGTTGAAC
66 ACTCTT-T--CACTGGCGATGCTGATC--CATCAAAT-GATGA-ATTCA-AACAAAAGGTTGAAC
*
91855 AAAATT-TTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAAC-TTT
123 -AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTT
*
91917 CTGGAAAAGTTGATCCATCAAATGATGAATTCAAACAAAAA
187 CTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAAA
*
91958 GTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTA
* * * *
92019 TGAACTC-TAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTCGAACAAATT
63 TGAACTCTTTCACTGGCGATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATT
92082 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
128 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-TCTGGA
* *
92147 AAAGTTGATCCATCGAATGATGAATTCAAGCGAAAA
192 AAAGTTGATCCATCGAATGATGAATTCAAACAAAAA
92183 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
92248 ACTCTTTCACTGGGGATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTT
66 ACTCTTTCACTGGCGATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTT
* * * **
92313 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGATTTCTTCTCATTATGAACTTTAACTGGCACT
131 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-TCTGGAAAA
*
92378 GTTGATCCATTGAATGATG
195 GTTGATCCATCGAATGATG
92397 GATTTAAATC
Statistics
Matches: 386, Mismatches: 36, Indels: 35
0.84 0.08 0.08
Matches are distributed among these distances:
221 6 0.02
222 39 0.10
223 35 0.09
224 3 0.01
225 73 0.19
226 35 0.09
227 4 0.01
228 134 0.35
229 57 0.15
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (227 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCTTTCACTGGCGATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTT
CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTCTGGAAAAG
TTGATCCATCGAATGATGAATTCAAACAAAAA
Found at i:93258 original size:114 final size:114
Alignment explanation
Indices: 93095--93311 Score: 335
Period size: 114 Copynumber: 1.9 Consensus size: 114
93085 GATCATGCAG
* * * * * *
93095 TTCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
93160 ACACTACCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTACCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
93209 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
93274 ATACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTA
66 ACACTACCAGAAGATGCTATTGGGTCTCCTTATTTCTA
93312 TTACGAGAAC
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 92 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTACCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:94015 original size:9 final size:9
Alignment explanation
Indices: 93996--94088 Score: 89
Period size: 10 Copynumber: 9.4 Consensus size: 9
93986 GACCCCCTCT
93996 TTTTTTCTTC
1 TTTTTT-TTC
94006 TTTTTTTTC
1 TTTTTTTTC
94015 TCTTTTTTT-
1 T-TTTTTTTC
94024 TCTTTTTTTC
1 T-TTTTTTTC
94034 TTTTTTTTTC
1 -TTTTTTTTC
94044 TTTTTTTTTC
1 -TTTTTTTTC
*
94054 TTATTTTTC
1 TTTTTTTTC
94063 TTATTTTTCTTC
1 -T-TTTTT-TTC
94075 TTCTTTTTTC
1 TT-TTTTTTC
94085 TTTT
1 TTTT
94089 CTTCTTTTCA
Statistics
Matches: 74, Mismatches: 2, Indels: 15
0.81 0.02 0.16
Matches are distributed among these distances:
9 23 0.31
10 38 0.51
11 10 0.14
12 3 0.04
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:94028 original size:31 final size:29
Alignment explanation
Indices: 93993--94107 Score: 142
Period size: 31 Copynumber: 3.8 Consensus size: 29
93983 CTTGACCCCC
93993 TCTTTTTTTCTTCTTTTTTTTCTCTTTTTTT
1 TCTTTTTTTCTT-TTTTTTTTCT-TTTTTTT
94024 TCTTTTTTTC-TTTTTTTTTCTTTTTTTT
1 TCTTTTTTTCTTTTTTTTTTCTTTTTTTT
* *
94052 TCTTATTTTTCTTATTTTTCTTCTTCTTTTT
1 TCTT-TTTTTCTT-TTTTTTTTCTTTTTTTT
*
94083 TCTTTTCTTCTTTTCATTTTTTCTT
1 TCTTTTTTTCTTTT--TTTTTTCTT
94108 CAAGCATAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
28 11 0.15
29 18 0.24
30 9 0.12
31 37 0.49
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (29 bp):
TCTTTTTTTCTTTTTTTTTTCTTTTTTTT
Found at i:94031 original size:18 final size:18
Alignment explanation
Indices: 94008--94107 Score: 85
Period size: 21 Copynumber: 5.1 Consensus size: 18
93998 TTTTCTTCTT
94008 TTTTTTCTCTTTTTTTTC
1 TTTTTTCTCTTTTTTTTC
94026 TTTTTT-TCTTTTTTTTTC
1 TTTTTTCTC-TTTTTTTTC
* *
94044 TTTTTTTTTCTTATTTTTC
1 -TTTTTTCTCTTTTTTTTC
94063 TTATTTTTCTTCTTCTTTTTTC
1 -T-TTTTTC-TCTT-TTTTTTC
*
94085 TTTTCTTCTTTTCATTTTTTC
1 TTTT-TTCTCTT--TTTTTTC
94106 TT
1 TT
94108 CAAGCATAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.03
18 15 0.22
19 16 0.23
20 13 0.19
21 17 0.25
22 6 0.09
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTCTCTTTTTTTTC
Found at i:94038 original size:28 final size:28
Alignment explanation
Indices: 93997--94096 Score: 130
Period size: 28 Copynumber: 3.4 Consensus size: 28
93987 ACCCCCTCTT
93997 TTTTTCTTCTTTTTTTTCTCTTTTTTTTC
1 TTTTT-TTCTTTTTTTTCTCTTTTTTTTC
94026 TTTTTTTCTTTTTTTT-TCTTTTTTTTTC
1 TTTTTTTCTTTTTTTTCTC-TTTTTTTTC
*
94054 TTATTTTTCTTATTTTTCTTCTTCTTTTTTC
1 TT-TTTTTCTTTTTTTTC-TCTT-TTTTTTC
*
94085 TTTTCTTCTTTT
1 TTTTTTTCTTTT
94097 CATTTTTTCT
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
29 18 0.29
30 10 0.16
31 11 0.17
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (28 bp):
TTTTTTTCTTTTTTTTCTCTTTTTTTTC
Found at i:94070 original size:1 final size:1
Alignment explanation
Indices: 93995--94052 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
93985 TGACCCCCTC
* * * * * * *
93995 TTTTTTTCTTCTTTTTTTTCTCTTTTTTTTCTTTTTTTCTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
94053 CTTATTTTTC
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:105231 original size:26 final size:27
Alignment explanation
Indices: 105195--105247 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
105185 ATTTCAAAAT
105195 TATAATTATAAA-AAAATATTAATTTA
1 TATAATTATAAATAAAATATTAATTTA
* *
105221 TATATTTATAAATAAAATATTTATTTA
1 TATAATTATAAATAAAATATTAATTTA
105248 GAAATATCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TATAATTATAAATAAAATATTAATTTA
Found at i:106855 original size:3 final size:3
Alignment explanation
Indices: 106847--106927 Score: 112
Period size: 3 Copynumber: 26.7 Consensus size: 3
106837 GGCCTGTTTG
*
106847 TAA TAA TAA TAA T-T TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
106891 TATA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TA
1 TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
106928 GAAAATGGAG
Statistics
Matches: 71, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
2 3 0.04
3 59 0.83
4 9 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:106901 original size:19 final size:18
Alignment explanation
Indices: 106847--106927 Score: 112
Period size: 19 Copynumber: 4.4 Consensus size: 18
106837 GGCCTGTTTG
*
106847 TAATAATAATAAT-TTAA
1 TAATAATAATAATAATAA
106864 TAATAATAAATAA-AATAA
1 TAATAAT-AATAATAATAA
106882 TAATAATAATATATAATAA
1 TAATAATAATA-ATAATAA
106901 TAATAATAATAATAAATAA
1 TAATAATAATAAT-AATAA
106920 TAATAATA
1 TAATAATA
106928 GAAAATGGAG
Statistics
Matches: 58, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
17 11 0.19
18 18 0.31
19 29 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATAATAATAATAATAA
Found at i:109123 original size:62 final size:63
Alignment explanation
Indices: 109025--109149 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 63
109015 GGTTGAGGAA
* *
109025 GAAAGGTCATTGTTTAAACTGAGTTGGTCATCGGCTTATGTAAAAGTGAGTACTTTAATTGAT
1 GAAAGGTCATTGTTTAAACTGAGTTGGTCATCGGCTTATGCAAAAGTGAATACTTTAATTGAT
* * *
109088 GAAAGGTCATTGTTTAATC-GAGTTGGTCATCGGCTTGTGCAAAAGTGAATATTTTAATTGAT
1 GAAAGGTCATTGTTTAAACTGAGTTGGTCATCGGCTTATGCAAAAGTGAATACTTTAATTGAT
109150 ACTCTGTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
62 39 0.68
63 18 0.32
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.37
Consensus pattern (63 bp):
GAAAGGTCATTGTTTAAACTGAGTTGGTCATCGGCTTATGCAAAAGTGAATACTTTAATTGAT
Found at i:110961 original size:29 final size:29
Alignment explanation
Indices: 110900--110961 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
110890 GGGGGTAGGT
**
110900 CGCCATGCACGCCCAGCGACCTACCAGGT
1 CGCCATGCACGCCCAGCGACCTACCAGCA
110929 CGCCATGCACGCCCAGCGACCT-CCATGCA
1 CGCCATGCACGCCCAGCGACCTACCA-GCA
110958 CGCC
1 CGCC
110962 CAGCTCGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.19, C:0.48, G:0.23, T:0.10
Consensus pattern (29 bp):
CGCCATGCACGCCCAGCGACCTACCAGCA
Found at i:111315 original size:29 final size:28
Alignment explanation
Indices: 111268--111351 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 28
111258 TGCAACGTGG
*
111268 GTAGGTCGCCAAGGAATCCCAGCGACATT
1 GTAGGTCGCC-AGGGATCCCAGCGACATT
111297 GTAGGTCGCCAGGGCATCCCAGCGACATT
1 GTAGGTCGCCAGGG-ATCCCAGCGACATT
*
111326 GTAGGTCGCCAAGGGATCCCAACGAC
1 GTAGGTCGCC-AGGGATCCCAGCGAC
111352 CTATGCCTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.06
29 44 0.86
30 4 0.08
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.15
Consensus pattern (28 bp):
GTAGGTCGCCAGGGATCCCAGCGACATT
Found at i:111596 original size:15 final size:15
Alignment explanation
Indices: 111576--111606 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
111566 AAAGAAAGGG
111576 AGAAAATAGCAAAGA
1 AGAAAATAGCAAAGA
*
111591 AGAAAATAGCAGAGA
1 AGAAAATAGCAAAGA
111606 A
1 A
111607 AAGATGAGGA
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:0.65, C:0.06, G:0.23, T:0.06
Consensus pattern (15 bp):
AGAAAATAGCAAAGA
Found at i:111684 original size:8 final size:9
Alignment explanation
Indices: 111654--111691 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
111644 GGTAAGTTTT
111654 TTTTAATTA
1 TTTTAATTA
111663 TTTTAATTA
1 TTTTAATTA
*
111672 GTTT-ATTA
1 TTTTAATTA
111680 TTTTAAATTA
1 TTTT-AATTA
111690 TT
1 TT
111692 AGTTTGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 12 0.48
10 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTAATTA
Found at i:111812 original size:28 final size:27
Alignment explanation
Indices: 111773--111825 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
111763 TATATTAAAA
111773 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
111801 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
111826 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:111831 original size:27 final size:29
Alignment explanation
Indices: 111772--111836 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
111762 ATATATTAAA
111772 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
111801 -AATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
111827 AAATAGTTAA
1 AAATAATTAA
111837 GTTATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:114022 original size:14 final size:14
Alignment explanation
Indices: 114003--114050 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
113993 TTCAAGTCGT
114003 AAATCATTACTATC
1 AAATCATTACTATC
114017 AAATCATTAC--T-
1 AAATCATTACTATC
*
114028 AAATTATTACTATC
1 AAATCATTACTATC
114042 AAATCATTA
1 AAATCATTA
114051 AATATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 9 0.31
12 1 0.03
13 1 0.03
14 18 0.62
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:114122 original size:49 final size:49
Alignment explanation
Indices: 114022--115156 Score: 583
Period size: 60 Copynumber: 21.3 Consensus size: 49
114012 CTATCAAATC
* * *
114022 ATTACTAAATTATTACTATCAAATCATTAAATATTAATAATAAATT-ATT
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
114071 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T
114129 CATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 -ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
114180 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T
114238 CATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 -ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
114289 ATTACTAATCATTACTATCAAATTATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* ** * *
114338 ATTACTAATCATTACTTATC-AAT-ACTAATCATTACT-ATCAA-ATCATT
1 ATTACTAATCATTAC-TATCAAATCATTAAAAATTAATAAT-AATTTCATT
** * * * * * ** * * * *
114385 AAAAATTAAT-AATAATTTC--ATTATTACTAATCATTACTAA-ATCATT
1 -ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* * * ** * * * *
114431 ATTATCAAATCATTA--A--AAATTAATAATGATT--TCATTATTACTAAAT
1 ATTA-CTAATCATTACTATCAAATCATTAAAAATTAATAATAATT--TCATT
* * * * ** * * *
114477 ATTACT-ATCA--AATCATTAAA-AATTAATAA-TAATTTCTTTATTACTAATC
1 ATTACTAATCATTACT-ATCAAATCATTAAAAATTAA--TAATAATT--TCATT
*
114526 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCAAT
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
114576 ATTACTAATCATTACTAAATCATTAAT-ATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACT--ATCA--AATCATTAAA-AATT--A-A-TAA---TAATTTCATT
* * *
114636 ATTACTAATCATTAGTAAATCATTAAT-ATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACT--ATCA--AATCATTAAA-AATT--A-A-TAA---TAATTTCATT
114696 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
114745 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T
*
114803 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTTATT
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
114853 ATTACTAATCATTACTAAATCATTAAT-ATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACT--ATCA--AATCATTAAA-AATT--A-A-TAA---TAATTTCATT
* * *
114913 ATTACTAATCATTCCTAAATCATTAAT-ATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACT--ATCA--AATCATTAAA-AATT--A-A-TAA---TAATTTCATT
114973 ATTACTAAT-ATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
115021 ATTACTAATCATTACTAAATCATTATATCAAATCATTAAAAATTAATAATAATTTTATT
1 ATTACTAATCA-T--T--A-C----TATCAAATCATTAAAAATTAATAATAATTTCATT
*
115080 ATTACTAATCATTACTATCAAATTACTATCAAATCATTAAATATTAATAATAATTTCATC
1 ATTACTAATCATTACTATCAAA-T-C-AT----T-A--AAA-ATTAATAATAATTTCATT
115140 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
115157 AATCTTATAA
Statistics
Matches: 906, Mismatches: 72, Indels: 205
0.77 0.06 0.17
Matches are distributed among these distances:
42 1 0.00
43 3 0.00
44 4 0.00
45 16 0.02
46 35 0.04
47 17 0.02
48 72 0.08
49 208 0.23
50 33 0.04
51 18 0.02
52 28 0.03
53 27 0.03
54 8 0.01
55 12 0.01
56 18 0.02
57 16 0.02
58 14 0.02
59 103 0.11
60 273 0.30
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Found at i:114185 original size:39 final size:43
Alignment explanation
Indices: 114138--114334 Score: 124
Period size: 49 Copynumber: 3.9 Consensus size: 43
114128 TCATTACTAA
114138 ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 ATCATTACTATCAAATCATTAAAAATTAATAATAATTTC-----TACT
114186 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 -ATCATTACTATCAAATCATTAAAAATTAATAATAATTTC-----TACT
114235 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 -ATCA-T--TA--------CTATCAAATCATTAAAAATTAATAATAATTTC-----TACT
*
114295 AATCATTACTATCAAATTATTAAAAATTAATAATAATTTC
1 -ATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
114335 ATTATTACTA
Statistics
Matches: 136, Mismatches: 1, Indels: 22
0.86 0.01 0.14
Matches are distributed among these distances:
49 84 0.62
50 1 0.01
52 2 0.01
57 2 0.01
59 1 0.01
60 46 0.34
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (43 bp):
ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCTACT
Found at i:114213 original size:109 final size:109
Alignment explanation
Indices: 114018--115160 Score: 1427
Period size: 109 Copynumber: 10.1 Consensus size: 109
114008 ATTACTATCA
* * *
114018 AATCATTACTAAATTATTACTATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
114082 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
66 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
114126 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
114191 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
66 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
114235 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
*
114300 TTACTATCAAATTATTAAAAATTAATAATAATTTCATTATTACT
66 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
114344 AATCATTACTTATCAATACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
1 AATC---A-TTA-C--TA--AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
* * * * *
114409 TACTAATCATTAC--T-AAATCATTATTATCAAATCATTAAAAATTAATAATGATT--T
57 TACTAATCATTACTATCAAATCATTA--A--AAATTAATAATAATT--TCATTATTACT
* *
114463 CATTATTACTAAAT-ATTACTATCAAATCATTAAAAATTAATAATAATTTCTTTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T-A
*
114527 TTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCAATATTACT
56 TTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
114582 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
* * * * * * *
114647 TTA--GT-AAATCATT-AATATCAAATCATTAA-AT-ATTAATAAT
66 TTACTATCAAATCATTAAAAAT-TAAT-AATAATTTCATTATTACT
*
114687 AATTTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTA
1 AA--TCATTACTA--AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTA
114752 ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
62 ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
*
114800 AAT-ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTTATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
*
114864 TTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
66 -T--T--A-C-----TATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* * *
114919 AATCATTCCTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAAT-A
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
114983 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
66 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
*
115027 AATCATTACTAAATCATTA-TATCAAATCATTAAAAATTAATAATAATTTTATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
*
115091 TTACTATCAAATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACT
66 TTACTATCAAA-T-C-AT----T-A--AAA-ATTAATAATAATTTCATTATTACT
115146 AATCATTACTAAATC
1 AATCATTACTAAATC
115161 TTATAAATAC
Statistics
Matches: 914, Mismatches: 52, Indels: 127
0.84 0.05 0.12
Matches are distributed among these distances:
105 12 0.01
106 12 0.01
107 54 0.06
108 169 0.18
109 271 0.30
110 16 0.02
111 10 0.01
112 15 0.02
113 19 0.02
114 5 0.01
115 13 0.01
116 7 0.01
117 6 0.01
118 63 0.07
119 127 0.14
120 98 0.11
121 7 0.01
122 1 0.00
123 9 0.01
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (109 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:114351 original size:10 final size:10
Alignment explanation
Indices: 114338--114374 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
114328 TAATTTCATT
114338 ATTACTAATC
1 ATTACTAATC
*
114348 ATTACTTATC
1 ATTACTAATC
*
114358 AATACTAATC
1 ATTACTAATC
114368 ATTACTA
1 ATTACTA
114375 TCAAATCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:114366 original size:69 final size:69
Alignment explanation
Indices: 114291--114422 Score: 255
Period size: 69 Copynumber: 1.9 Consensus size: 69
114281 ATTTCATTAT
*
114291 TACTAATCATTACTATCAAATTATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTTA
1 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTTA
114356 TCAA
66 TCAA
114360 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
1 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
114423 AAATCATTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.42
Consensus pattern (69 bp):
TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTTA
TCAA
Found at i:114378 original size:19 final size:20
Alignment explanation
Indices: 114340--114378 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
114330 ATTTCATTAT
114340 TACTAATCATTACTTATCAA
1 TACTAATCATTACTTATCAA
114360 TACTAATCATTAC-TATCAA
1 TACTAATCATTACTTATCAA
114379 ATCATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (20 bp):
TACTAATCATTACTTATCAA
Found at i:114450 original size:24 final size:24
Alignment explanation
Indices: 114402--114450 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
114392 AATAATAATT
* *
114402 TCATTATTACTAATCATTACTAAA
1 TCATTATTACAAATCATTACAAAA
114426 TCATTATTATCAAATCATTA-AAAA
1 TCATTATTA-CAAATCATTACAAAA
114450 T
1 T
114451 TAATAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (24 bp):
TCATTATTACAAATCATTACAAAA
Found at i:114598 original size:11 final size:10
Alignment explanation
Indices: 114516--114600 Score: 50
Period size: 10 Copynumber: 8.4 Consensus size: 10
114506 TAATTTCTTT
114516 ATTACTAATC
1 ATTACTAATC
114526 ATTACTAAATC
1 ATTACT-AATC
114537 ATTACT-ATC
1 ATTACTAATC
* * **
114546 AAATCATTAAAA
1 --ATTACTAATC
* *
114558 ATTAATAATA
1 ATTACTAATC
*
114568 ATTTC-AAT-
1 ATTACTAATC
114576 ATTACTAATC
1 ATTACTAATC
114586 ATTACTAAATC
1 ATTACT-AATC
114597 ATTA
1 ATTA
114601 ATATCAAATC
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
8 4 0.07
9 9 0.16
10 22 0.38
11 22 0.38
12 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTACTAATC
Found at i:114622 original size:21 final size:21
Alignment explanation
Indices: 114591--114684 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
114581 TAATCATTAC
114591 TAAATCATTAATATCAAATCAT
1 TAAAT-ATTAATATCAAATCAT
114613 TAAATATTAATA--ATAAT--T
1 TAAATATTAATATCA-AATCAT
* * * * *
114631 TCATTATTACTAATC--ATTAG
1 TAAATATTAAT-ATCAAATCAT
114651 TAAATCATTAATATCAAATCAT
1 TAAAT-ATTAATATCAAATCAT
114673 TAAATATTAATA
1 TAAATATTAATA
114685 ATAATTTCAT
Statistics
Matches: 54, Mismatches: 9, Indels: 19
0.66 0.11 0.23
Matches are distributed among these distances:
18 11 0.20
19 2 0.04
20 9 0.17
21 19 0.35
22 13 0.24
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (21 bp):
TAAATATTAATATCAAATCAT
Found at i:114750 original size:39 final size:43
Alignment explanation
Indices: 114654--114790 Score: 148
Period size: 49 Copynumber: 2.9 Consensus size: 43
114644 TCATTAGTAA
* *
114654 ATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 ATCATTACTATCAAATCATTAAAAATTAATAATAATTTC-----TACT
114702 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 -ATCATTACTATCAAATCATTAAAAATTAATAATAATTTC-----TACT
114751 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 -ATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
114791 ATTATTACTA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (43 bp):
ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCTACT
Found at i:114899 original size:21 final size:20
Alignment explanation
Indices: 114868--114961 Score: 61
Period size: 21 Copynumber: 4.6 Consensus size: 20
114858 TAATCATTAC
114868 TAAATCATTAATATCAAATCAT
1 TAAAT-ATTAATATCAAATC-T
114890 TAAATATTAATA--ATAAT-T
1 TAAATATTAATATCA-AATCT
* * * * *
114908 TCATTATTACTAATC-ATTCC
1 TAAATATTAAT-ATCAAATCT
114928 TAAATCATTAATATCAAATCAT
1 TAAAT-ATTAATATCAAATC-T
114950 TAAATATTAATA
1 TAAATATTAATA
114962 ATAATTTCAT
Statistics
Matches: 54, Mismatches: 10, Indels: 17
0.67 0.12 0.21
Matches are distributed among these distances:
18 9 0.17
19 4 0.07
20 9 0.17
21 22 0.41
22 10 0.19
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAATATTAATATCAAATCT
Found at i:115117 original size:60 final size:59
Alignment explanation
Indices: 114973--115158 Score: 288
Period size: 59 Copynumber: 3.2 Consensus size: 59
114963 TAATTTCATT
*
114973 ATTACT-AATATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAACATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
115031 ATTACTAAATCATTA-TATCAAATCATTAAAAATTAATAATAATTTTATTATTACTAATC
1 ATTACTAAA-CATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
115090 ATTACTATCAA-ATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTA--AACATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
115150 ATTACTAAA
1 ATTACTAAA
115159 TCTTATAAAT
Statistics
Matches: 118, Mismatches: 5, Indels: 10
0.89 0.04 0.08
Matches are distributed among these distances:
58 8 0.07
59 56 0.47
60 52 0.44
61 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (59 bp):
ATTACTAAACATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:115194 original size:167 final size:166
Alignment explanation
Indices: 114345--115196 Score: 941
Period size: 169 Copynumber: 5.1 Consensus size: 166
114335 ATTATTACTA
* * *
114345 ATCATTACTTATCAATACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
1 ATCATTACTAATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTAT
* * * *
114409 TACTAATCATTACTAAATCATTATTATCAAATCATTAAAAATTAATAATGATTTCATTATTACTA
66 TACTAATCATTACTAAA-CATTAATATCAAATCATTAAATATTAATAATAATTTCATCATTACT-
* *
114474 AATATTACTATCAAATCATTAAAAATTAATAATAATTTC
129 AATATTAC-ATCAAATCATTAAAAAATAATAATAATATC
* * * *
114513 TTTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCAATAT
1 ATCATTACTAATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTAT
*
114578 TACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTA
66 TACTAATCATTACTAAA-CATTAATATCAAATCATTAAATATTAATAATAATTTCATCATTACTA
* * * *
114643 ATCATTA-GT-AAATCATTAATATCAAATCATTAAATATTAATA
130 AT-ATTACATCAAATCATTAA-A--AAAT-AAT-AATAAT-ATC
* * * *
114685 ATAATT--TCATTATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
1 ATCATTACTAATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTAT
* * * * * * *
114747 TACTAATCATTACT-ATCA--AATCATTAAA-AATT-AATAATAATTTCATTATTACTAAT-ATT
66 TACTAATCATTACTAAACATTAAT-ATCAAATCATTAAATATTAA--TAATAATT--TCATCATT
* * *
114806 ACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTT
126 ACT-AAT-ATTAC-ATCAAATCATTAAAAAATAATAATAATATC
* *
114850 ATTATTACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTAT
1 ATCATTACTAATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTAT
* *
114915 TACTAATCATTCCTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTA
66 TACTAATCATTACTAAA-CATTAATATCAAATCATTAAATATTAATAATAATTTCATCATTACTA
* *
114980 ATATTACTATCAAATCATTAAAAATTAATAATAATTTC
130 ATATTAC-ATCAAATCATTAAAAAATAATAATAATATC
* *
115018 ATTATTACTAATCATTACTAAATCATT-ATATCAAATCATTAAAAATTAATAATAATTTTATTAT
1 ATCATTACTAATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTAT
*
115082 TACTAATCATTACTATCAA-ATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACT
66 TACTAATCATTACTA--AACATTAATATCAAATCATTAAATATTAATAATAATTTCATCATTACT
115146 AATCATTAC-T-AAATC-TTATAAATACATAGA-AATACATAT-
129 AAT-ATTACATCAAATCATTA-AAA-A-ATA-ATAATA-ATATC
115185 ATCATTACTAAT
1 ATCATTACTAAT
115197 GATGAGGCCT
Statistics
Matches: 595, Mismatches: 54, Indels: 71
0.83 0.08 0.10
Matches are distributed among these distances:
164 10 0.02
165 20 0.03
166 28 0.05
167 133 0.22
168 160 0.27
169 179 0.30
170 21 0.04
171 26 0.04
172 11 0.02
173 7 0.01
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (166 bp):
ATCATTACTAATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTAT
TACTAATCATTACTAAACATTAATATCAAATCATTAAATATTAATAATAATTTCATCATTACTAA
TATTACATCAAATCATTAAAAAATAATAATAATATC
Found at i:118239 original size:28 final size:28
Alignment explanation
Indices: 118205--118258 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
118195 ATAATCTAAT
*
118205 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
118233 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
118259 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:118265 original size:28 final size:28
Alignment explanation
Indices: 118201--118265 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
118191 TTTTATAATC
*
118201 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
118229 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
118257 TAATTTATA
1 TAATATATA
118266 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:118268 original size:21 final size:21
Alignment explanation
Indices: 118235--118283 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
118225 TTAATATAAT
118235 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
118256 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
118277 ATTAACT
1 A-TAACT
118284 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:119004 original size:29 final size:29
Alignment explanation
Indices: 118956--119039 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
118946 CTACCATCTT
* * *
118956 GGTCGCCGGGATTGCTTGGCGGCCTACAA
1 GGTCGCTGGGAGTGCTTGGCGACCTACAA
* ***
118985 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCTTGGCGACCTACAA
*
119014 GGTCGCTTGGAGTGCTTGGCGACCTA
1 GGTCGCTGGGAGTGCTTGGCGACCTA
119040 TGGTTGGGTG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.13, C:0.24, G:0.39, T:0.24
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCTTGGCGACCTACAA
Found at i:122124 original size:24 final size:26
Alignment explanation
Indices: 122097--122157 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
122087 ATATATATAT
*
122097 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
122121 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
122145 AT-ATATATATATA
1 ATAATATAAATATA
122158 CCCGGCCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 18 0.58
25 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:122139 original size:19 final size:19
Alignment explanation
Indices: 122115--122154 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
122105 AATAAATTTA
122115 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
122134 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
122153 AT
1 AT
122155 ATACCCGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:122185 original size:12 final size:12
Alignment explanation
Indices: 122155--122208 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
122145 ATATATATAT
*
122155 ATACCCGGCCCG
1 ATACCCGGCCCA
*
122167 ATTCCCGGCCCA
1 ATACCCGGCCCA
* *
122179 ATACCCGACCTA
1 ATACCCGGCCCA
122191 ATACCC-GCCCA
1 ATACCCGGCCCA
122202 ATACCCG
1 ATACCCG
122209 TTTAAATAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.24, C:0.48, G:0.15, T:0.13
Consensus pattern (12 bp):
ATACCCGGCCCA
Found at i:123127 original size:30 final size:29
Alignment explanation
Indices: 123058--123128 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
123048 ATGGATTTAG
* * *
123058 TTAGTTACCAAATTATAAATTTGTAAAGT
1 TTAGGTACCAAAGTATAAATTTGAAAAGT
*
123087 TT-TGTGACCAAAGTATAAATTTTGAAAAGT
1 TTAGGT-ACCAAAGTATAAA-TTTGAAAAGT
123117 TTAGGTACCAAA
1 TTAGGTACCAAA
123129 ATGGTAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 14 0.41
30 17 0.50
31 2 0.06
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (29 bp):
TTAGGTACCAAAGTATAAATTTGAAAAGT
Found at i:125555 original size:36 final size:36
Alignment explanation
Indices: 125513--125650 Score: 242
Period size: 36 Copynumber: 3.9 Consensus size: 36
125503 AGTTGAGTAT
*
125513 TATCAGCTTTGGTACATTCGTGTATCAATGTTATTA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
125549 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCG
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
125585 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
125621 TATCA-CTTTGATACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
125651 CCAGCACTGT
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
35 24 0.24
36 74 0.76
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:125826 original size:36 final size:36
Alignment explanation
Indices: 125779--125851 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
125769 CTCAAAAGTA
*
125779 TTATCATATCAGCTTTGGTACATTCGTGTATCAATG
1 TTATCATATCAGCTTTGATACATTCGTGTATCAATG
125815 TTATCATATCAGCTTTGATACATTCGTGTATCAATG
1 TTATCATATCAGCTTTGATACATTCGTGTATCAATG
125851 T
1 T
125852 CCAGCACCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (36 bp):
TTATCATATCAGCTTTGATACATTCGTGTATCAATG
Found at i:125936 original size:201 final size:200
Alignment explanation
Indices: 125579--125981 Score: 743
Period size: 201 Copynumber: 2.0 Consensus size: 200
125569 TGTATCAATG
*
125579 TTATCGTATCAGCTTTGGTACATTCGTGTATCAATGTTATCATATCACTTTGATACATTCGTGTA
1 TTATCATATCAGCTTTGGTACATTCGTGTATCAATGTTATCATATCACTTTGATACATTCGTGTA
* *
125644 TCAATGTCCAGCACTGTTGGTACTTATTCAGGTTGTGATGGCACTGAAGTGCATCATATATCAGT
66 TCAATGTCCAGCACCGTTGGTACTTATTCAGGTTATGATGGCACTGAAGTGCATCATATATCAGT
*
125709 ATCAGTTACAATTTGCACTATGTTGTGCATAGTGCGCACCTTACTCACATATATTTAGTTCTCAA
131 ATCAGTTACAATTTGCACTATGTTGTGCATAGTGCGCACCTTAATCACATATATTTAGTTCTCAA
125774 AAGTA
196 AAGTA
125779 TTATCATATCAGCTTTGGTACATTCGTGTATCAATGTTATCATATCAGCTTTGATACATTCGTGT
1 TTATCATATCAGCTTTGGTACATTCGTGTATCAATGTTATCATATCA-CTTTGATACATTCGTGT
125844 ATCAATGTCCAGCACCGTTGGTACTTATTCAGGTTATGATGGCACTGAAGTGCATCATATATCAG
65 ATCAATGTCCAGCACCGTTGGTACTTATTCAGGTTATGATGGCACTGAAGTGCATCATATATCAG
* *
125909 TATCAGTTACGATTTGCACTGTGTTGTGCATAGTGCGCACCTTAATCACATATATTTAGTTCTCA
130 TATCAGTTACAATTTGCACTATGTTGTGCATAGTGCGCACCTTAATCACATATATTTAGTTCTCA
125974 AAAGTA
195 AAAGTA
125980 TT
1 TT
125982 CATGGGCTAT
Statistics
Matches: 196, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
200 46 0.23
201 150 0.77
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (200 bp):
TTATCATATCAGCTTTGGTACATTCGTGTATCAATGTTATCATATCACTTTGATACATTCGTGTA
TCAATGTCCAGCACCGTTGGTACTTATTCAGGTTATGATGGCACTGAAGTGCATCATATATCAGT
ATCAGTTACAATTTGCACTATGTTGTGCATAGTGCGCACCTTAATCACATATATTTAGTTCTCAA
AAGTA
Found at i:131483 original size:30 final size:31
Alignment explanation
Indices: 131449--131509 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
131439 TATAAAATTT
*
131449 GGGGACC-ATTGTG-TAATTTTTGAAAAGTTA
1 GGGGACCAATT-TGATAATTTTGGAAAAGTTA
131479 GGGGACCAATTTGATAATTTTGGAAAAGTTA
1 GGGGACCAATTTGATAATTTTGGAAAAGTTA
131510 TGAATAGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (31 bp):
GGGGACCAATTTGATAATTTTGGAAAAGTTA
Found at i:132968 original size:36 final size:36
Alignment explanation
Indices: 132916--133054 Score: 199
Period size: 36 Copynumber: 3.9 Consensus size: 36
132906 AGTTGAGTAT
*
132916 TATCAGCTTTGGTACATTCGTGTATCAATGTTAATA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTAATA
* *
132952 TATCAACTTTGATACATTCATGTATCAATGTT-ATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTAAT-A
* *
132988 TATCAGCTTTGGTACATTCGTGTATCAATGTTATTA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTAATA
* *
133024 TATCAGCTTTGATATATTTGTGTATCAATGT
1 TATCAGCTTTGATACATTCGTGTATCAATGT
133055 CCACATCGTT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
35 2 0.02
36 88 0.97
37 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (36 bp):
TATCAGCTTTGATACATTCGTGTATCAATGTTAATA
Found at i:133034 original size:72 final size:72
Alignment explanation
Indices: 132916--133054 Score: 233
Period size: 72 Copynumber: 1.9 Consensus size: 72
132906 AGTTGAGTAT
132916 TATCAGCTTTGGTACATTCGTGTATCAATGTTAATATATCAACTTTGATACATTCATGTATCAAT
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTAATATATCAACTTTGATACATTCATGTATCAAT
132981 GTTATCA
66 GTTATCA
* * * **
132988 TATCAGCTTTGGTACATTCGTGTATCAATGTTATTATATCAGCTTTGATATATTTGTGTATCAAT
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTAATATATCAACTTTGATACATTCATGTATCAAT
133053 GT
66 GT
133055 CCACATCGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (72 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTAATATATCAACTTTGATACATTCATGTATCAAT
GTTATCA
Found at i:134345 original size:22 final size:23
Alignment explanation
Indices: 134317--134363 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
134307 TTTGTTCAGT
134317 TTGTTTAT-GTTCACGAACAAGC
1 TTGTTTATAGTTCACGAACAAGC
*
134339 TTGTTTATAAGTTCATGAACAAGC
1 TTGTTTAT-AGTTCACGAACAAGC
134363 T
1 T
134364 CATTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
24 14 0.64
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (23 bp):
TTGTTTATAGTTCACGAACAAGC
Found at i:135403 original size:30 final size:29
Alignment explanation
Indices: 135329--135413 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 29
135319 AGCACATTCA
*
135329 AAAATAAACAAAACGAACATGAACAAGATATT
1 AAAATAAAC-AAACGAACATGAAC-ACAT-TT
**
135361 AAAA-AATTAAACGAACATGAACACATTT
1 AAAATAAACAAACGAACATGAACACATTT
*
135389 AAAACTAAACAAACGAACACGAACA
1 AAAA-TAAACAAACGAACATGAACA
135414 TAGTTTGTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
28 6 0.13
29 3 0.07
30 30 0.67
31 2 0.04
32 4 0.09
ACGTcount: A:0.61, C:0.16, G:0.08, T:0.14
Consensus pattern (29 bp):
AAAATAAACAAACGAACATGAACACATTT
Found at i:136372 original size:2 final size:2
Alignment explanation
Indices: 136365--136421 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
136355 GAAGATGTTT
* *
136365 TA TA TA TA TA TG T- TT TA -A 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
136405 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
136422 TTAGAATATC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:136437 original size:15 final size:16
Alignment explanation
Indices: 136419--136453 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
136409 TATATATATA
136419 TATTTAGAATAT-CAT
1 TATTTAGAATATACAT
136434 TATTTAGAATATACAT
1 TATTTAGAATATACAT
136450 TATT
1 TATT
136454 CAAATAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (16 bp):
TATTTAGAATATACAT
Found at i:143604 original size:23 final size:23
Alignment explanation
Indices: 143578--143644 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
143568 CACCACAGCT
*
143578 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
143601 CGTAGAATTACACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
143624 CGTAGAAATGCACTGAAGTGC
1 CGTAGAAATGCACCGAAGTGC
143645 AATATAAGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:144121 original size:2 final size:2
Alignment explanation
Indices: 144114--144151 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
144104 ACTCATAGTC
*
144114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
144152 CTTTTTACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:145661 original size:16 final size:18
Alignment explanation
Indices: 145640--145672 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
145630 TTACATGATA
145640 TATGTGA-AAAC-ATGTT
1 TATGTGATAAACTATGTT
145656 TATGTGATAAACTATGT
1 TATGTGATAAACTATGT
145673 GAACTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (18 bp):
TATGTGATAAACTATGTT
Found at i:145672 original size:28 final size:28
Alignment explanation
Indices: 145640--145726 Score: 98
Period size: 28 Copynumber: 3.3 Consensus size: 28
145630 TTACATGATA
145640 TATGTGAAAACATGTTTATGTGATAAAC
1 TATGTGAAAACATGTTTATGTGATAAAC
*
145668 TATGTG--AAC-TAGTATA-GATGAT---C
1 TATGTGAAAACAT-GTTTATG-TGATAAAC
145691 TATGTGAAAACATGTTTATGTGATAAAC
1 TATGTGAAAACATGTTTATGTGATAAAC
145719 TATGTGAA
1 TATGTGAA
145727 CTAGTATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
23 7 0.15
25 13 0.27
26 13 0.27
28 15 0.31
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.36
Consensus pattern (28 bp):
TATGTGAAAACATGTTTATGTGATAAAC
Done.