Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 23 of 325
Found at i:8743924 original size:119 final size:119
Alignment explanation
Indices: 8743776--8744075 Score: 469
Period size: 119 Copynumber: 2.5 Consensus size: 119
8743766 TTATTAGTTA
* * * *
8743776 TAATTATTTTAAATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTA
1 TAATTA-TTAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-
*
8743840 AAATTT-TATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
64 -AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
* * *
8743896 TAATTATTAAAATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTAT
1 TAATTATTAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
*
8743961 TTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATAT
66 TTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
8744015 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 TAATTATTAA-AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
8744076 ATTTAAATAT
Statistics
Matches: 166, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
118 4 0.02
119 106 0.64
120 56 0.34
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (119 bp):
TAATTATTAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
TTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
Found at i:8743933 original size:18 final size:17
Alignment explanation
Indices: 8743907--8743941 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8743897 AATTATTAAA
8743907 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
8743924 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
8743942 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:8744055 original size:18 final size:18
Alignment explanation
Indices: 8744027--8744077 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
8744017 ATTATTAAGA
8744027 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
8744044 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
8744060 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
8744078 TTAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:8744177 original size:147 final size:149
Alignment explanation
Indices: 8744015--8744289 Score: 491
Period size: 147 Copynumber: 1.9 Consensus size: 149
8744005 ATAAGAATAT
*
8744015 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
*
8744080 AAATATGATTAAATTATTTATTATTAAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTAATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
8744143 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
*
8744162 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
* *
8744227 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTAATAATAAATAATCTTATTAAAATTTAAATAACAATAA
8744290 CAATAATCAT
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
147 89 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
AAATATGATTAAATTATTTATTATTAATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:8744202 original size:18 final size:17
Alignment explanation
Indices: 8744174--8744208 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8744164 ATTATTAAGA
*
8744174 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8744191 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8744209 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8744419 original size:44 final size:45
Alignment explanation
Indices: 8744370--8744464 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
8744360 TTACACCTCT
* *
8744370 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
8744414 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
8744459 ATTACA
1 ATTACA
8744465 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:8744464 original size:16 final size:16
Alignment explanation
Indices: 8744445--8744496 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
8744435 GATTTGCTAT
* *
8744445 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
8744461 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8744477 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8744493 TACA
1 TACA
8744497 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:8748788 original size:14 final size:16
Alignment explanation
Indices: 8748760--8748794 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8748750 AATCTCTCTC
8748760 TCTCTCTTCCTATTTT
1 TCTCTCTTCCTATTTT
* *
8748776 TCTCTCTTCATTTTTT
1 TCTCTCTTCCTATTTT
8748792 TCT
1 TCT
8748795 TTAGTAGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.66
Consensus pattern (16 bp):
TCTCTCTTCCTATTTT
Found at i:8753421 original size:20 final size:20
Alignment explanation
Indices: 8753382--8753421 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8753372 CCCTCAAAAC
*
8753382 AATATTAGTTACTTTATAAT
1 AATATTAGATACTTTATAAT
8753402 AATATTAGAT-CTTTAGTAAT
1 AATATTAGATACTTTA-TAAT
8753422 TTCACAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
AATATTAGATACTTTATAAT
Found at i:8753669 original size:16 final size:16
Alignment explanation
Indices: 8753645--8753675 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8753635 TTGAATCAAT
*
8753645 TTTTTTTAAAAAAATA
1 TTTTATTAAAAAAATA
8753661 TTTTATTAAAAAAAT
1 TTTTATTAAAAAAAT
8753676 TAATAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTATTAAAAAAATA
Found at i:8761944 original size:62 final size:62
Alignment explanation
Indices: 8761847--8761970 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
8761837 TGGAAGGCAT
8761847 CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
1 CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
8761909 CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
1 CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
8761971 GGAAATTTGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (62 bp):
CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
Found at i:8765721 original size:6 final size:6
Alignment explanation
Indices: 8765710--8765750 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
8765700 ATAATTTAAT
8765710 AAATAA AAATAA AAATATA AAACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATA-A AAA-TAA AAATAA AAATAA AAA
8765751 CATATAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 23 0.70
7 8 0.24
8 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:8765729 original size:26 final size:26
Alignment explanation
Indices: 8765687--8765766 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
8765677 CAACCTAATC
* *
8765687 ATAAAAATTACAA-ATAATTTAATAA
1 ATAAAAATAAAAATATAATTTAATAA
**
8765712 ATAAAAATAAAAATATAAAACTAA-AA
1 ATAAAAATAAAAATAT-AATTTAATAA
*
8765738 ATAAAAATAAAAACATATAATTTTATAA
1 ATAAAAAT-AAAA-ATATAATTTAATAA
8765766 A
1 A
8765767 AATAATTCGG
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
25 11 0.26
26 12 0.28
27 13 0.30
28 7 0.16
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (26 bp):
ATAAAAATAAAAATATAATTTAATAA
Found at i:8765738 original size:20 final size:19
Alignment explanation
Indices: 8765713--8765751 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
8765703 ATTTAATAAA
8765713 TAAAAATAAAAATATAAAAC
1 TAAAAATAAAAATA-AAAAC
8765733 TAAAAATAAAAATAAAAAC
1 TAAAAATAAAAATAAAAAC
8765752 ATATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (19 bp):
TAAAAATAAAAATAAAAAC
Found at i:8765783 original size:9 final size:9
Alignment explanation
Indices: 8765769--8765863 Score: 138
Period size: 9 Copynumber: 10.6 Consensus size: 9
8765759 TTTATAAAAA
8765769 TAATTCGGT
1 TAATTCGGT
8765778 TAATTCGGT
1 TAATTCGGT
* *
8765787 TAATTTGGG
1 TAATTCGGT
8765796 TAATTCGGT
1 TAATTCGGT
*
8765805 TAATTCGAT
1 TAATTCGGT
8765814 TAATTCAGG-
1 TAATTC-GGT
8765823 TAATTCGGT
1 TAATTCGGT
*
8765832 TAATTCGAT
1 TAATTCGGT
8765841 TAATTCGGT
1 TAATTCGGT
8765850 TAATTCGGT
1 TAATTCGGT
8765859 TAATT
1 TAATT
8765864 TTATACTTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
8 2 0.03
9 73 0.96
10 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:8765807 original size:27 final size:27
Alignment explanation
Indices: 8765769--8765863 Score: 154
Period size: 27 Copynumber: 3.5 Consensus size: 27
8765759 TTTATAAAAA
* *
8765769 TAATTCGGTTAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTCGATTAATTCGGG
*
8765796 TAATTCGGTTAATTCGATTAATTCAGG
1 TAATTCGGTTAATTCGATTAATTCGGG
*
8765823 TAATTCGGTTAATTCGATTAATTCGGT
1 TAATTCGGTTAATTCGATTAATTCGGG
8765850 TAATTCGGTTAATT
1 TAATTCGGTTAATT
8765864 TTATACTTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.44
Consensus pattern (27 bp):
TAATTCGGTTAATTCGATTAATTCGGG
Found at i:8766177 original size:24 final size:24
Alignment explanation
Indices: 8766145--8766192 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
8766135 TTTTTCTATC
8766145 TTTCTTTTTGCAATTATATGATGA
1 TTTCTTTTTGCAATTATATGATGA
8766169 TTTCTTTTTGCAATTATATGATGA
1 TTTCTTTTTGCAATTATATGATGA
8766193 GATATGCTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.54
Consensus pattern (24 bp):
TTTCTTTTTGCAATTATATGATGA
Found at i:8766351 original size:31 final size:31
Alignment explanation
Indices: 8766310--8766378 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
8766300 TGCCTAAACT
* * **
8766310 CGACCCGGATAAAAATGCTAAATTTTGAGTC
1 CGACCTGGATAAAAATGCTAAAATCCGAGTC
*
8766341 CGACCTGGATAAAAATGTTAAAATCCGAGTC
1 CGACCTGGATAAAAATGCTAAAATCCGAGTC
8766372 CGACCTG
1 CGACCTG
8766379 ACCTGCCCGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (31 bp):
CGACCTGGATAAAAATGCTAAAATCCGAGTC
Found at i:8766445 original size:18 final size:18
Alignment explanation
Indices: 8766422--8766461 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8766412 TATAATTTTA
*
8766422 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
8766440 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
8766458 AAAA
1 AAAA
8766462 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:8781628 original size:10 final size:11
Alignment explanation
Indices: 8781552--8781628 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
8781542 AAACAATAAC
8781552 AACAAAATAGT
1 AACAAAATAGT
* *
8781563 AACAACATATT
1 AACAAAATAGT
** *
8781574 AGTAAAATTGT
1 AACAAAATAGT
* *
8781585 AGCAAAATAAT
1 AACAAAATAGT
*
8781596 AAGAAAATAGT
1 AACAAAATAGT
8781607 AACAAAATAGT
1 AACAAAATAGT
*
8781618 AA-AAAAAAGT
1 AACAAAATAGT
8781628 A
1 A
8781629 TATAAAAAAA
Statistics
Matches: 51, Mismatches: 15, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
10 8 0.16
11 43 0.84
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.21
Consensus pattern (11 bp):
AACAAAATAGT
Found at i:8790978 original size:30 final size:29
Alignment explanation
Indices: 8790942--8791015 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 29
8790932 ACACATTCTC
8790942 TTTTTCTTTTATTTTCATATTTCTTTTGTT
1 TTTTTCTTTTATTTTCATATTTCTTTT-TT
*
8790972 TTTTTCTTTTATTTTCTTATTTCTTTTTT
1 TTTTTCTTTTATTTTCATATTTCTTTTTT
*
8791001 TTACTT-TTTTATTTT
1 TT-TTTCTTTTATTTT
8791016 GTTCCTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 13 0.32
30 28 0.68
ACGTcount: A:0.09, C:0.09, G:0.01, T:0.80
Consensus pattern (29 bp):
TTTTTCTTTTATTTTCATATTTCTTTTTT
Found at i:8791012 original size:21 final size:20
Alignment explanation
Indices: 8790965--8791015 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
8790955 TTCATATTTC
*
8790965 TTTTGTTTTTTTCTTTTATT
1 TTTTATTTTTTTCTTTTATT
8790985 TTCTTATTTCTTTT-TTTTACTT
1 TT-TTATTT-TTTTCTTTTA-TT
8791007 TTTTATTTT
1 TTTTATTTT
8791016 GTTCCTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 16 0.59
22 8 0.30
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTATTTTTTTCTTTTATT
Found at i:8791015 original size:17 final size:17
Alignment explanation
Indices: 8790937--8791015 Score: 60
Period size: 17 Copynumber: 4.8 Consensus size: 17
8790927 GCCTGACACA
8790937 TTCTCTTTTTCTTTTATT
1 TTCT-TTTTTCTTTTATT
* *
8790955 TTCATATTTC--TT-TT
1 TTCTTTTTTCTTTTATT
*
8790969 GT-TTTTTTCTTTTATT
1 TTCTTTTTTCTTTTATT
*
8790985 TTCTTATTTCTTTT-TT
1 TTCTTTTTTCTTTTATT
*
8791001 TTACTTTTTTATTTT
1 TT-CTTTTTTCTTTT
8791016 GTTCCTTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
13 5 0.11
14 3 0.06
15 4 0.09
16 7 0.15
17 25 0.53
18 3 0.06
ACGTcount: A:0.09, C:0.11, G:0.01, T:0.78
Consensus pattern (17 bp):
TTCTTTTTTCTTTTATT
Found at i:8791046 original size:45 final size:44
Alignment explanation
Indices: 8790984--8791101 Score: 114
Period size: 45 Copynumber: 2.7 Consensus size: 44
8790974 TTTCTTTTAT
*
8790984 TTTCTTATTTCTTTTTTTTACTTTTTTATTTTGTTCCTTAATAAA
1 TTTCTT-TTTATTTTTTTTACTTTTTTATTTTGTTCCTTAATAAA
** * * * * **
8791029 TTGTCTTTTTATTTTTTTCCCTTTTTGATTTTTTTTCTTATTTCA
1 TT-TCTTTTTATTTTTTTTACTTTTTTATTTTGTTCCTTAATAAA
8791074 TTT-TTTTTATTTTGTTTTA-TTTTTTATT
1 TTTCTTTTTATTTT-TTTTACTTTTTTATT
8791102 ATTAACTTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
43 18 0.31
44 4 0.07
45 33 0.56
46 4 0.07
ACGTcount: A:0.13, C:0.09, G:0.03, T:0.75
Consensus pattern (44 bp):
TTTCTTTTTATTTTTTTTACTTTTTTATTTTGTTCCTTAATAAA
Found at i:8791156 original size:23 final size:21
Alignment explanation
Indices: 8791130--8791180 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
8791120 GTAATGTATA
8791130 TTTAAAATGTTTTATAATATT-TT
1 TTTAAAA--TTTTA-AATATTATT
*
8791153 TTTAAAATTTTAATTATTATT
1 TTTAAAATTTTAAATATTATT
8791174 TTTAAAA
1 TTTAAAA
8791181 ATATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 14 0.54
23 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTAAAATTTTAAATATTATT
Found at i:8791268 original size:23 final size:24
Alignment explanation
Indices: 8791241--8791291 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
8791231 TTTAAAAATG
*
8791241 TATTTTTCAA-ATTAATTTTTGAAA
1 TATTTTTAAATATTAATTTTT-AAA
8791265 -A-TTTTAAATATTAATTTTTAAA
1 TATTTTTAAATATTAATTTTTAAA
8791287 TATTT
1 TATTT
8791292 ATCATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
22 9 0.39
23 12 0.52
24 2 0.09
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TATTTTTAAATATTAATTTTTAAA
Found at i:8791282 original size:36 final size:36
Alignment explanation
Indices: 8791212--8791287 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
8791202 TATATTTGTG
* *
8791212 AAATTAATTTTTTATATATTTTAAAAATGTATTTTT
1 AAATTAATTTTTGATAAATTTTAAAAATGTATTTTT
*
8791248 CAAATTAATTTTTGA-AAATTTTAAATAT-TAATTTTT
1 -AAATTAATTTTTGATAAATTTTAAAAATGT-ATTTTT
8791284 AAAT
1 AAAT
8791288 ATTTATCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 5 0.14
36 17 0.49
37 13 0.37
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (36 bp):
AAATTAATTTTTGATAAATTTTAAAAATGTATTTTT
Found at i:8791298 original size:23 final size:23
Alignment explanation
Indices: 8791244--8791299 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
8791234 AAAAATGTAT
*
8791244 TTTTCAAATTAATTTTTGAAA-A
1 TTTTCATATTAATTTTTGAAATA
*
8791266 TTTTAAATATTAATTTTT-AAATA
1 TTTT-CATATTAATTTTTGAAATA
8791289 TTTATCATATT
1 TTT-TCATATT
8791300 TTTAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 7 0.25
23 20 0.71
24 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTCATATTAATTTTTGAAATA
Found at i:8791369 original size:21 final size:20
Alignment explanation
Indices: 8791344--8791390 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
8791334 TTGTAAATAC
8791344 AATTTCTTT-AATTTCTTTTTA
1 AATTT-TTTAAATTT-TTTTTA
8791365 AATTTTTTAAATTTTTTTT-
1 AATTTTTTAAATTTTTTTTA
8791384 AATTTTT
1 AATTTTT
8791391 GAAAAGTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 8 0.32
21 10 0.40
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
AATTTTTTAAATTTTTTTTA
Found at i:8791380 original size:10 final size:10
Alignment explanation
Indices: 8791344--8791390 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
8791334 TTGTAAATAC
*
8791344 AATTTCTTTA
1 AATTTTTTTA
*
8791354 ATTTCTTTTTA
1 AATT-TTTTTA
8791365 AA-TTTTTTA
1 AATTTTTTTA
*
8791374 AATTTTTTTT
1 AATTTTTTTA
8791384 AATTTTT
1 AATTTTT
8791391 GAAAAGTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 8 0.26
10 17 0.55
11 6 0.19
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:8791553 original size:36 final size:38
Alignment explanation
Indices: 8791504--8791579 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 38
8791494 AAATTTTGTC
8791504 TTTTTCTTAATTTT-TTTTCTTT-TTTAAGTTTTATATTA
1 TTTTTCTTAATTTTGTTTTCTTTATTTAA--TTTATATTA
*
8791542 TTTTT-TT-ATTTTGTTTTGTTTATTTAATTTATATTA
1 TTTTTCTTAATTTTGTTTTCTTTATTTAATTTATATTA
8791578 TT
1 TT
8791580 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 16 0.46
37 9 0.26
38 10 0.29
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (38 bp):
TTTTTCTTAATTTTGTTTTCTTTATTTAATTTATATTA
Found at i:8791656 original size:15 final size:14
Alignment explanation
Indices: 8791636--8791665 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
8791626 TTATAAATTT
8791636 AAATTATTATTTTTA
1 AAATTATT-TTTTTA
8791651 AAATTATTTTTTTA
1 AAATTATTTTTTTA
8791665 A
1 A
8791666 CTTTAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AAATTATTTTTTTA
Found at i:8791726 original size:37 final size:35
Alignment explanation
Indices: 8791621--8791732 Score: 129
Period size: 34 Copynumber: 3.2 Consensus size: 35
8791611 ATGTTTTACA
8791621 ATTTTTTATAAATTTAAAT-TATTATTTTTAAAATT
1 ATTTTTTATAAATTTAAATATA-TATTTTTAAAATT
* * * *
8791656 ATTTTTT-TAACTTTAGATATATATTTGTGAAATT
1 ATTTTTTATAAATTTAAATATATATTTTTAAAATT
*
8791690 ATTTTTTTATAAATTTTAAATATATATTTTTCAAATT
1 A-TTTTTTATAAA-TTTAAATATATATTTTTAAAATT
*
8791727 AGTTTT
1 ATTTTT
8791733 GAAATTATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
34 21 0.33
35 15 0.23
36 7 0.11
37 21 0.33
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (35 bp):
ATTTTTTATAAATTTAAATATATATTTTTAAAATT
Found at i:8791823 original size:8 final size:8
Alignment explanation
Indices: 8791810--8791835 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8791800 TAAATTAGGA
8791810 TTTTTTAT
1 TTTTTTAT
8791818 TTTTTTAT
1 TTTTTTAT
8791826 TTTTTTAT
1 TTTTTTAT
8791834 TT
1 TT
8791836 GAAGTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:8791881 original size:18 final size:19
Alignment explanation
Indices: 8791837--8791875 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
8791827 TTTTTATTTG
8791837 AAGTAAATTTTAAAAACATA
1 AAGTAAATTTT-AAAACATA
8791857 AAGTAAATTTT-AAACATA
1 AAGTAAATTTTAAAACATA
8791875 A
1 A
8791876 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
AAGTAAATTTTAAAACATA
Found at i:8791993 original size:36 final size:36
Alignment explanation
Indices: 8791947--8792056 Score: 136
Period size: 36 Copynumber: 3.1 Consensus size: 36
8791937 TAATAATTTC
* *
8791947 AAAATTAATTTGAAAAATATATATTTAAATTTATAA
1 AAAAATAATTTCAAAAATATATATTTAAATTTATAA
* * *
8791983 AAAAATAATTTCACAAATATATATCTAAA-GT-TAA
1 AAAAATAATTTCAAAAATATATATTTAAATTTATAA
*
8792017 AAAAATAATTTTAAAAATA-ATAATTTAAATTTATAA
1 AAAAATAATTTCAAAAATATAT-ATTTAAATTTATAA
8792053 AAAA
1 AAAA
8792057 TTGTAAAACA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
33 2 0.03
34 26 0.42
35 2 0.03
36 32 0.52
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (36 bp):
AAAAATAATTTCAAAAATATATATTTAAATTTATAA
Found at i:8792018 original size:34 final size:36
Alignment explanation
Indices: 8791984--8792056 Score: 80
Period size: 34 Copynumber: 2.1 Consensus size: 36
8791974 AATTTATAAA
*
8791984 AAAATAATTTCACAAATATATATCTAAA-GT-TAAA
1 AAAATAATTTCAAAAATATATATCTAAATGTATAAA
* * *
8792018 AAAATAATTTTAAAAATA-ATAATTTAAATTTATAAA
1 AAAATAATTTCAAAAATATAT-ATCTAAATGTATAAA
8792054 AAA
1 AAA
8792057 TTGTAAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
33 2 0.06
34 22 0.69
35 1 0.03
36 7 0.22
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (36 bp):
AAAATAATTTCAAAAATATATATCTAAATGTATAAA
Found at i:8792032 original size:14 final size:15
Alignment explanation
Indices: 8792013--8792042 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8792003 ATATCTAAAG
8792013 TTAAAAA-AATAATT
1 TTAAAAATAATAATT
8792027 TTAAAAATAATAATT
1 TTAAAAATAATAATT
8792042 T
1 T
8792043 AAATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAAAATAATAATT
Found at i:8792139 original size:36 final size:35
Alignment explanation
Indices: 8792099--8792198 Score: 109
Period size: 36 Copynumber: 2.8 Consensus size: 35
8792089 TTTTAAAATT
8792099 AATAATATAAATTAAATAAACAAAATAAAATAAGAA
1 AATAATATAAATTAAATAAA-AAAATAAAATAAGAA
*
8792135 AATAATATAAAACTTAAA-AAAGAAAA-AAATTAAGAA
1 AATAATAT-AAA-TTAAATAAA-AAAATAAAATAAGAA
*
8792171 AA-AGATA-AAATTAAATAAAAAAGTAAAA
1 AATA-ATATAAATTAAATAAAAAAATAAAA
8792199 AAAAATAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
33 8 0.15
34 9 0.16
35 1 0.02
36 22 0.40
37 10 0.18
38 5 0.09
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (35 bp):
AATAATATAAATTAAATAAAAAAATAAAATAAGAA
Found at i:8792144 original size:18 final size:18
Alignment explanation
Indices: 8792094--8792146 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
8792084 AAATTTTTTA
* *
8792094 AAATTAATAATATAAATT
1 AAATAAATAATATAAAAT
* *
8792112 AAATAAACAAAATAAAAT
1 AAATAAATAATATAAAAT
8792130 AAGA-AAATAATATAAAA
1 AA-ATAAATAATATAAAA
8792147 CTTAAAAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AAATAAATAATATAAAAT
Found at i:8792190 original size:18 final size:17
Alignment explanation
Indices: 8792102--8792198 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 17
8792092 TAAAATTAAT
8792102 AATATAAATTAAATAAACAA
1 AATA-AAATTAAA-AAAC-A
*
8792122 AATAAAA-TAAGAAAATA
1 AATAAAATTAA-AAAACA
*
8792139 ATATAAAACTTAAAAAAGA
1 A-ATAAAA-TTAAAAAACA
8792158 AA-AAAATTAAGAAAA-A
1 AATAAAATTAA-AAAACA
*
8792174 GATAAAATTAAATAAA-A
1 AATAAAATTAAA-AAACA
8792191 AAGTAAAA
1 AA-TAAAA
8792199 AAAAATAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
16 7 0.11
17 23 0.35
18 18 0.28
19 10 0.15
20 7 0.11
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (17 bp):
AATAAAATTAAAAAACA
Found at i:8792204 original size:18 final size:19
Alignment explanation
Indices: 8792169--8792206 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
8792159 AAAAATTAAG
**
8792169 AAAAAGATAAAATTAAATA
1 AAAAAGATAAAAAAAAATA
8792188 AAAAAG-TAAAAAAAAATA
1 AAAAAGATAAAAAAAAATA
8792206 A
1 A
8792207 TAATGGTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAAGATAAAAAAAAATA
Found at i:8792397 original size:14 final size:14
Alignment explanation
Indices: 8792378--8792404 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8792368 AAAAATATGG
8792378 TTAATATTTAAAAA
1 TTAATATTTAAAAA
8792392 TTAATATTTAAAA
1 TTAATATTTAAAA
8792405 TTTTCAAAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:8792419 original size:37 final size:37
Alignment explanation
Indices: 8792383--8792458 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
8792373 TATGGTTAAT
* *
8792383 ATTT-AAAAATTA-ATATTTAAAAT-TTTCAAAAATTA
1 ATTTGAAAAA-TACATATTTAAAATATATAAAAAATTA
*
8792418 ATTTGAAAAATACATTTTTAAAATATATAAAAAATTA
1 ATTTGAAAAATACATATTTAAAATATATAAAAAATTA
8792455 ATTT
1 ATTT
8792459 CACATATCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 6 0.17
36 15 0.43
37 14 0.40
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (37 bp):
ATTTGAAAAATACATATTTAAAATATATAAAAAATTA
Found at i:8792531 original size:23 final size:22
Alignment explanation
Indices: 8792478--8792571 Score: 61
Period size: 22 Copynumber: 4.2 Consensus size: 22
8792468 AAAGTTAAAA
8792478 AAAATATTTTTAAAAATAATAAT
1 AAAA-ATTTTTAAAAATAATAAT
* *
8792501 TAAAATTTTTAAAAA-ATATTAT
1 AAAAATTTTTAAAAATA-ATAAT
*
8792523 AAAACA-TTTTAAATATACAT--T
1 AAAA-ATTTTTAAAAATA-ATAAT
* **
8792544 ACAAATTTTTTAAAGTTAATAAT
1 A-AAAATTTTTAAAAATAATAAT
8792567 AAAAA
1 AAAAA
8792572 ATAAAACAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
21 5 0.09
22 41 0.75
23 9 0.16
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (22 bp):
AAAAATTTTTAAAAATAATAAT
Found at i:8792589 original size:9 final size:8
Alignment explanation
Indices: 8792567--8792635 Score: 50
Period size: 9 Copynumber: 7.8 Consensus size: 8
8792557 AGTTAATAAT
8792567 AAAAAATAA
1 AAAAAAT-A
8792576 AACAAAATA
1 AA-AAAATA
8792585 AACAAAATGA
1 AA-AAAAT-A
*
8792595 AATAAGA-A
1 AA-AAAATA
8792603 AAAAAATCA
1 AAAAAAT-A
8792612 AAAAAAGTAA
1 AAAAAA-T-A
8792622 AAAAAATA
1 AAAAAATA
8792630 AAAAAA
1 AAAAAA
8792636 CAATTTATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.06
8 10 0.20
9 19 0.37
10 19 0.37
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:8792679 original size:11 final size:11
Alignment explanation
Indices: 8792659--8792721 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
8792649 AACAAAATAA
*
8792659 AAAAGTAAAAT
1 AAAAGGAAAAT
8792670 AAAAGGAAAAT
1 AAAAGGAAAAT
8792681 AAAAGGAAAA-
1 AAAAGGAAAAT
* *
8792691 AAAA-CAAAAG
1 AAAAGGAAAAT
*
8792701 AAATATGAAAAT
1 AAA-AGGAAAAT
8792713 AAAA-GAAAA
1 AAAAGGAAAA
8792722 AGAGAATGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
9 4 0.09
10 12 0.27
11 22 0.49
12 7 0.16
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.10
Consensus pattern (11 bp):
AAAAGGAAAAT
Found at i:8794479 original size:16 final size:16
Alignment explanation
Indices: 8794435--8794484 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
8794425 TCATGACCGG
8794435 TAAAATTTT-AATTT-
1 TAAAATTTTAAATTTA
**
8794449 TAATTTTTTATAATTTA
1 TAAAATTTTA-AATTTA
*
8794466 TAAAATTTTAAATTAA
1 TAAAATTTTAAATTTA
8794482 TAA
1 TAA
8794485 TAATAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 7 0.25
16 13 0.46
17 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAAAATTTTAAATTTA
Found at i:8806245 original size:24 final size:22
Alignment explanation
Indices: 8806217--8806261 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8806207 CATCTCTATG
8806217 TAAAAATATAAAAAATATATATAT
1 TAAAAAT-T-AAAAATATATATAT
*
8806241 TAAAAATTCAAAATATATATA
1 TAAAAATTAAAAATATATATA
8806262 ATCTAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 1 0.05
24 7 0.35
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAATTAAAAATATATATAT
Found at i:8808560 original size:30 final size:30
Alignment explanation
Indices: 8808526--8808587 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
8808516 AACTTATTTC
*
8808526 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
* * *
8808556 TTGTTATTTTTATTATTATTTTAGAGTCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
8808586 TT
1 TT
8808588 ACTTGTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:8809385 original size:9 final size:9
Alignment explanation
Indices: 8809356--8809384 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8809346 ACGTTTAATT
8809356 AAATTTTAA
1 AAATTTTAA
8809365 AAATTTTAA
1 AAATTTTAA
8809374 AAA-TTTAA
1 AAATTTTAA
8809382 AAA
1 AAA
8809385 AGTAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AAATTTTAA
Found at i:8815621 original size:23 final size:24
Alignment explanation
Indices: 8815595--8815644 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
8815585 TGGAATTTGA
* *
8815595 TGAAAC-GTATAAGTTAAATTGTT
1 TGAAACTGTAAAAGTTAAATTGCT
8815618 TG-AACTGTAAAAGTTAAATTGCT
1 TGAAACTGTAAAAGTTAAATTGCT
8815641 TGAA
1 TGAA
8815645 CAGGTTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 19 0.83
24 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (24 bp):
TGAAACTGTAAAAGTTAAATTGCT
Found at i:8821152 original size:19 final size:19
Alignment explanation
Indices: 8821128--8821164 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8821118 TATTTCATAA
*
8821128 TATAATATAATATAATTAT
1 TATAATATAACATAATTAT
*
8821147 TATAATTTAACATAATTA
1 TATAATATAACATAATTA
8821165 AATTTATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TATAATATAACATAATTAT
Found at i:8831665 original size:15 final size:16
Alignment explanation
Indices: 8831638--8831668 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8831628 CTTCGGAAAA
8831638 AAATTATTGATTTGTG
1 AAATTATTGATTTGTG
8831654 AAATTA-TGATTTGTG
1 AAATTATTGATTTGTG
8831669 CGGTAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (16 bp):
AAATTATTGATTTGTG
Found at i:8832294 original size:3 final size:3
Alignment explanation
Indices: 8832286--8832311 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8832276 AAGAAATGTT
8832286 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
8832312 GTTTATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8834432 original size:18 final size:16
Alignment explanation
Indices: 8834391--8834445 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
8834381 GAATAATTTT
8834391 AAAA-AAATTAATATA
1 AAAACAAATTAATATA
*
8834406 AAAACAAATTAATTTA
1 AAAACAAATTAATATA
*
8834422 ACAATACAAA-TAAAATA
1 A-AA-ACAAATTAATATA
8834439 AATAACA
1 AA-AACA
8834446 TGTAAGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 4 0.12
16 15 0.45
17 9 0.27
18 5 0.15
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAACAAATTAATATA
Found at i:8837328 original size:36 final size:36
Alignment explanation
Indices: 8837288--8837379 Score: 166
Period size: 36 Copynumber: 2.6 Consensus size: 36
8837278 TTTATAGCCT
*
8837288 CCCAAAACGACATCGTTTTAAGGGCTGCCTTTTAAA
1 CCCAAAACGACGTCGTTTTAAGGGCTGCCTTTTAAA
*
8837324 CCCAAAACGACGTCGTTTTAGGGGCTGCCTTTTAAA
1 CCCAAAACGACGTCGTTTTAAGGGCTGCCTTTTAAA
8837360 CCCAAAACGACGTCGTTTTA
1 CCCAAAACGACGTCGTTTTA
8837380 CTTGACCCGG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (36 bp):
CCCAAAACGACGTCGTTTTAAGGGCTGCCTTTTAAA
Found at i:8837787 original size:21 final size:22
Alignment explanation
Indices: 8837755--8837807 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
8837745 ATTAATGGTA
*
8837755 GTATATGTTTT-AT-TATATAT
1 GTATATATTTTAATATATATAT
8837775 GTATATATCTTTAATATATATAT
1 GTATATAT-TTTAATATATATAT
8837798 GTATATATTT
1 GTATATATTT
8837808 ATGTAGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 3 0.10
22 4 0.14
23 15 0.52
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (22 bp):
GTATATATTTTAATATATATAT
Found at i:8837936 original size:23 final size:22
Alignment explanation
Indices: 8837906--8837949 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
8837896 ATTTTATGTA
8837906 TATATTTCTAATACTATATATTG
1 TATATTTCTAATACTAT-TATTG
8837929 TATATTTCTAATACTATTATT
1 TATATTTCTAATACTATTATT
8837950 ATTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (22 bp):
TATATTTCTAATACTATTATTG
Found at i:8838091 original size:27 final size:25
Alignment explanation
Indices: 8838036--8838219 Score: 155
Period size: 25 Copynumber: 7.4 Consensus size: 25
8838026 ATATCATGTA
* *
8838036 TATATGATTTTTTATA-TGTATTATG
1 TATAT-ATTTTTAATACTATATTATG
* *
8838061 TATATATCTTTAATACTATATTATA
1 TATATATTTTTAATACTATATTATG
** * *
8838086 TATATA-TTTGCATATTATCTTATG
1 TATATATTTTTAATACTATATTATG
8838110 TATATATTTTTTAATAACTATATTATG
1 TATATA-TTTTTAAT-ACTATATTATG
* *
8838137 TATGTATTTTTAACACTATATTATG
1 TATATATTTTTAATACTATATTATG
* *
8838162 TATATACTTTTT-ATTCTTATTATTACG
1 TATATA-TTTTTAATAC-TA-TATTATG
*
8838189 TATATA-TTTTAATA-TATA-TACG
1 TATATATTTTTAATACTATATTATG
8838211 TATATATTT
1 TATATATTT
8838220 ATGTATTGTT
Statistics
Matches: 129, Mismatches: 21, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
22 10 0.08
23 4 0.03
24 28 0.22
25 40 0.31
26 21 0.16
27 26 0.20
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.55
Consensus pattern (25 bp):
TATATATTTTTAATACTATATTATG
Found at i:8838186 original size:52 final size:49
Alignment explanation
Indices: 8838054--8838236 Score: 117
Period size: 52 Copynumber: 3.6 Consensus size: 49
8838044 TTTTTATATG
* * ** *
8838054 TATTATGTATATATCTTTAATACTATATTA-TA--TATATATTTGCATATTA
1 TATTATGTATATAT-TTTTATTCT-TATTATTACGTATATATTTTAACA-TA
* * * *
8838103 TCTTATGTATATATTTTTTAATAAC-TA-TATTATGTATGTATTTTTAACACTA
1 TATTATGTATATA-TTTTT-AT-TCTTATTATTACGTATATA-TTTTAACA-TA
*
8838155 TATTATGTATATACTTTTTATTCTTATTATTACGTATATATTTTAATATA
1 TATTATGTATATA-TTTTTATTCTTATTATTACGTATATATTTTAACATA
* *
8838205 TA-TACGTATATATTTATGTATTGTTATTATTA
1 TATTATGTATATATTT-T-TATTCTTATTATTA
8838237 GTTATTTTTT
Statistics
Matches: 108, Mismatches: 15, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
48 5 0.05
49 29 0.27
50 21 0.19
51 18 0.17
52 35 0.32
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.55
Consensus pattern (49 bp):
TATTATGTATATATTTTTATTCTTATTATTACGTATATATTTTAACATA
Found at i:8844326 original size:66 final size:66
Alignment explanation
Indices: 8844220--8844352 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
8844210 TGAATTAAAT
8844220 TCATTTTAAACTTAAATTATGTTATACATGGTTTCAGTTTTCTCGCTACAGTACTGATGTTTACC
1 TCATTTTAAACTTAAATTATGTTATACATGGTTTCAGTTTTCTCGCTACAGTACTGATGTTTACC
8844285 G
66 G
8844286 TCATTTTAAACTTAAATTATGTTATACATGGTTTCAGTTTTCTCGCTACAGTACTGATGTTTACC
1 TCATTTTAAACTTAAATTATGTTATACATGGTTTCAGTTTTCTCGCTACAGTACTGATGTTTACC
8844351 G
66 G
8844352 T
1 T
8844353 TTTATGTTGC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (66 bp):
TCATTTTAAACTTAAATTATGTTATACATGGTTTCAGTTTTCTCGCTACAGTACTGATGTTTACC
G
Found at i:8846630 original size:20 final size:20
Alignment explanation
Indices: 8846605--8846648 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
8846595 TTCATAGGAA
8846605 AAAAATCGATACCTTAATTC
1 AAAAATCGATACCTTAATTC
8846625 AAAAATCGATACCTTAATTC
1 AAAAATCGATACCTTAATTC
8846645 AAAA
1 AAAA
8846649 TTTGACTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAATCGATACCTTAATTC
Found at i:8849844 original size:15 final size:16
Alignment explanation
Indices: 8849826--8849859 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
8849816 TTATATAATC
8849826 AAATCATATT-ATATT
1 AAATCATATTAATATT
*
8849841 AAATTATATTAATATT
1 AAATCATATTAATATT
8849857 AAA
1 AAA
8849860 AAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATCATATTAATATT
Found at i:8857680 original size:19 final size:20
Alignment explanation
Indices: 8857648--8857709 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
8857638 TAATTTATTT
8857648 TAATTTTAAAAAATATATAAA
1 TAATTTT-AAAAATATATAAA
8857669 T-ATTTTAAAAATATA-ATAA
1 TAATTTTAAAAATATATA-AA
*
8857688 TAAATTT-AAAATATAT-AA
1 TAATTTTAAAAATATATAAA
8857706 TAAT
1 TAAT
8857710 AATAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 6 0.17
19 20 0.56
20 9 0.25
21 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATTTTAAAAATATATAAA
Found at i:8857694 original size:21 final size:21
Alignment explanation
Indices: 8857649--8857711 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 21
8857639 AATTTATTTT
8857649 AATTTTAAAAA-ATATATAA-A
1 AATTTTAAAAATATA-ATAATA
*
8857669 TATTTTAAAAATATAATAATA
1 AATTTTAAAAATATAATAATA
8857690 AA-TTTAAAATATATAATAATA
1 AATTTTAAAA-ATATAATAATA
8857711 A
1 A
8857712 TAAATAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 21 0.55
21 17 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTTTAAAAATATAATAATA
Found at i:8858325 original size:20 final size:19
Alignment explanation
Indices: 8858280--8858336 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
8858270 ATTTAATATT
**
8858280 AATATTATTATACAATTTAA
1 AATATTATTATA-TTTTTAA
*
8858300 ATTATTATTATATTTTTAAA
1 AATATTATTATATTTTT-AA
8858320 AATATT-TATATATTTTT
1 AATATTAT-TATATTTTT
8858337 TTTGAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTATTATATTTTTAA
Found at i:8859536 original size:20 final size:20
Alignment explanation
Indices: 8859499--8859541 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8859489 TTGATAAAAA
* *
8859499 AATATTTTAAATAGTTAAGT
1 AATATTTTAAAGAGTTAAAT
8859519 AATATTTTATAAGA-TTAAAT
1 AATATTTTA-AAGAGTTAAAT
8859539 AAT
1 AAT
8859542 CAGAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
AATATTTTAAAGAGTTAAAT
Found at i:8859874 original size:27 final size:28
Alignment explanation
Indices: 8859818--8859868 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
8859808 ATTTAATCTA
8859818 ATTTTAACAATTATAATATATATTTGTT
1 ATTTTAACAATTATAATATATATTTGTT
8859846 ATTTT-ACAATTA-AAT-TATATTTG
1 ATTTTAACAATTATAATATATATTTG
8859869 AATTATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.35
26 3 0.13
27 7 0.30
28 5 0.22
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (28 bp):
ATTTTAACAATTATAATATATATTTGTT
Found at i:8865122 original size:22 final size:22
Alignment explanation
Indices: 8865097--8865139 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
8865087 AATGGGCTGT
8865097 CCTAAGTTCATTATTGGCAAAG
1 CCTAAGTTCATTATTGGCAAAG
8865119 CCTAAGTTCATTATTGGCAAA
1 CCTAAGTTCATTATTGGCAAA
8865140 TGCTTTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (22 bp):
CCTAAGTTCATTATTGGCAAAG
Found at i:8865401 original size:4 final size:4
Alignment explanation
Indices: 8865392--8865420 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
8865382 CCTGTCAATC
8865392 TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA T
8865421 GTATATAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:8871921 original size:24 final size:22
Alignment explanation
Indices: 8871873--8871928 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
8871863 AATCATTAAT
*
8871873 TTAAAAAA-TTGTTAGAAATTT
1 TTAAAAAATTTGTTAGAAATTA
*
8871894 TTAAAAAATTTGTATTGAAAATTA
1 TTAAAAAATTTGT-TAG-AAATTA
*
8871918 TTAATAAATTT
1 TTAAAAAATTT
8871929 AGGAAGAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.28
22 4 0.14
23 2 0.07
24 15 0.52
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TTAAAAAATTTGTTAGAAATTA
Found at i:8887537 original size:21 final size:23
Alignment explanation
Indices: 8887497--8887546 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
8887487 TAAAATGAAA
*
8887497 TTTTTTAAATATGAATACTT-GT
1 TTTTTTAAATATGAATACTTAAT
8887519 TTTTTTAAA-A-GAATGACTTAAT
1 TTTTTTAAATATGAAT-ACTTAAT
8887541 TTTTTT
1 TTTTTT
8887547 TTGAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 5 0.20
22 16 0.64
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (23 bp):
TTTTTTAAATATGAATACTTAAT
Found at i:8899650 original size:4 final size:4
Alignment explanation
Indices: 8899636--8899665 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
8899626 TTGGTGGTAC
*
8899636 TAAA AAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
8899666 CAACTTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:8901387 original size:60 final size:60
Alignment explanation
Indices: 8901319--8901439 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
8901309 AAAATAATAC
8901319 TCACTTAATAGTCATATAATAAAAAAATTATGTTATAATGGACTTGAATTTAACAAATGA
1 TCACTTAATAGTCATATAATAAAAAAATTATGTTATAATGGACTTGAATTTAACAAATGA
8901379 TCACTTAATAGTCATATAATAAAAAAATTATGTTATAATGGACTTGAATTTAACAAATGA
1 TCACTTAATAGTCATATAATAAAAAAATTATGTTATAATGGACTTGAATTTAACAAATGA
8901439 T
1 T
8901440 AAAATTTAAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (60 bp):
TCACTTAATAGTCATATAATAAAAAAATTATGTTATAATGGACTTGAATTTAACAAATGA
Found at i:8901854 original size:104 final size:106
Alignment explanation
Indices: 8901660--8901854 Score: 243
Period size: 104 Copynumber: 1.9 Consensus size: 106
8901650 GGTCGACGTC
* * * *
8901660 AGTGAAATATAGGGATCAAAACTGAAATATAATCATAAAAAATTAGAGGTATTAGAATTAAAATT
1 AGTGAAATATAAGGATCAAAACTAAAATATAACCATAAAAAATTAGAGGTATTAAAATTAAAATT
* * * ** * *
8901725 TAGCTATTATCTTCTTTATGTAAAAAAAAGAAAGAAATTTG
66 TAACCATTATCTTATCAAAGAAAAAAAAAGAAAGAAATTTG
* *
8901766 AGTGAAATATAAGGATC-AAACTAAAATTTAACCATAAAAAATT-GTAGG-ATTAAAATTGAAAT
1 AGTGAAATATAAGGATCAAAACTAAAATATAACCATAAAAAATTAG-AGGTATTAAAATTAAAAT
8901828 TTAACCATTATCTTATCAAAGAAAAAA
65 TTAACCATTATCTTATCAAAGAAAAAA
8901855 GAAACATTGG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
104 33 0.44
105 26 0.35
106 16 0.21
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (106 bp):
AGTGAAATATAAGGATCAAAACTAAAATATAACCATAAAAAATTAGAGGTATTAAAATTAAAATT
TAACCATTATCTTATCAAAGAAAAAAAAAGAAAGAAATTTG
Found at i:8902039 original size:25 final size:25
Alignment explanation
Indices: 8902011--8902058 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
8902001 CCTTTGGCGG
* *
8902011 CGTTTTTAAGTGTCGCAAAAAATGC
1 CGTTTTTAAGCGCCGCAAAAAATGC
8902036 CGTTTTTAAGCGCCGCAAAAAAT
1 CGTTTTTAAGCGCCGCAAAAAAT
8902059 ACCGCTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (25 bp):
CGTTTTTAAGCGCCGCAAAAAATGC
Found at i:8902164 original size:38 final size:38
Alignment explanation
Indices: 8902116--8902239 Score: 138
Period size: 38 Copynumber: 3.4 Consensus size: 38
8902106 TAAAGGTCAT
*
8902116 AAAATTTAAAAAAAAATAAAATATTATAAAAGTCATGA
1 AAAATATAAAAAAAAATAAAATATTATAAAAGTCATGA
* *
8902154 AAAATATAAAAAAAAAATTAAAAT-TCAT-----T-AT-T
1 AAAATAT-AAAAAAAAA-TAAAATATTATAAAAGTCATGA
*
8902186 AAAATTTAAAAAAAAATAAAATATTATAAAAGTCATGA
1 AAAATATAAAAAAAAATAAAATATTATAAAAGTCATGA
8902224 AAAATATAAAAAAAAA
1 AAAATATAAAAAAAAA
8902240 ATTAAAATTC
Statistics
Matches: 69, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
30 6 0.09
31 12 0.17
32 6 0.09
33 2 0.03
34 1 0.01
36 1 0.01
37 2 0.03
38 21 0.30
39 12 0.17
40 6 0.09
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (38 bp):
AAAATATAAAAAAAAATAAAATATTATAAAAGTCATGA
Found at i:8902246 original size:30 final size:31
Alignment explanation
Indices: 8902142--8902201 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
8902132 TAAAATATTA
8902142 TAAAAGTCATGA-AAAATATAAAAAAAAAAT
1 TAAAAGTCATGATAAAATATAAAAAAAAAAT
* * *
8902172 TAAAATTCATTATTAAAATTTAAAAAAAAA
1 TAAAAGTCATGA-TAAAATATAAAAAAAAA
8902202 TAAAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
32 15 0.60
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (31 bp):
TAAAAGTCATGATAAAATATAAAAAAAAAAT
Found at i:8902247 original size:70 final size:70
Alignment explanation
Indices: 8902115--8902260 Score: 283
Period size: 70 Copynumber: 2.1 Consensus size: 70
8902105 CTAAAGGTCA
8902115 TAAAATTTAAAAAAAAATAAAATATTATAAAAGTCATGAAAAATATAAAAAAAAAATTAAAATTC
1 TAAAATTTAAAAAAAAATAAAATATTATAAAAGTCATGAAAAATATAAAAAAAAAATTAAAATTC
8902180 ATTAT
66 ATTAT
8902185 TAAAATTTAAAAAAAAATAAAATATTATAAAAGTCATGAAAAATATAAAAAAAAAATTAAAATTC
1 TAAAATTTAAAAAAAAATAAAATATTATAAAAGTCATGAAAAATATAAAAAAAAAATTAAAATTC
8902250 ATTAT
66 ATTAT
*
8902255 CAAAAT
1 TAAAAT
8902261 ATTGAGAAGA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (70 bp):
TAAAATTTAAAAAAAAATAAAATATTATAAAAGTCATGAAAAATATAAAAAAAAAATTAAAATTC
ATTAT
Found at i:8905979 original size:16 final size:18
Alignment explanation
Indices: 8905955--8905991 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8905945 GCCACTATTA
8905955 TTTAATTTT-A-ATTTTT
1 TTTAATTTTAACATTTTT
*
8905971 TTTATTTTTAACATTTTT
1 TTTAATTTTAACATTTTT
8905989 TTT
1 TTT
8905992 CTATTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTAATTTTAACATTTTT
Found at i:8906121 original size:8 final size:7
Alignment explanation
Indices: 8906108--8906177 Score: 59
Period size: 8 Copynumber: 9.3 Consensus size: 7
8906098 ATATTAAATA
8906108 TTAAGTTT
1 TTAA-TTT
8906116 TTAAGTTT
1 TTAA-TTT
8906124 TTAAGTTT
1 TTAA-TTT
*
8906132 TTTATTT
1 TTAATTT
8906139 TTAAATTT
1 TT-AATTT
*
8906147 TTTATTT
1 TTAATTT
*
8906154 TTTATTT
1 TTAATTT
*
8906161 TTTATTT
1 TTAATTT
8906168 TTAAATTT
1 TT-AATTT
8906176 TT
1 TT
8906178 TTGAAGATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
7 25 0.45
8 31 0.55
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (7 bp):
TTAATTT
Found at i:8906139 original size:15 final size:15
Alignment explanation
Indices: 8906121--8906178 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
8906111 AGTTTTTAAG
*
8906121 TTTTTAAGTTTTTTA
1 TTTTTAAATTTTTTA
8906136 TTTTTAAATTTTTTA
1 TTTTTAAATTTTTTA
*
8906151 TTTTT-TATTTTTTA
1 TTTTTAAATTTTTTA
8906165 TTTTTAAATTTTTT
1 TTTTTAAATTTTTT
8906179 TGAAGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
14 13 0.33
15 26 0.67
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTAAATTTTTTA
Found at i:8906147 original size:14 final size:14
Alignment explanation
Indices: 8906130--8906177 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
8906120 GTTTTTAAGT
8906130 TTTTTATTTTTAAA
1 TTTTTATTTTTAAA
* *
8906144 TTTTTTATTTTTTAT
1 -TTTTTATTTTTAAA
8906159 TTTTTATTTTTAAA
1 TTTTTATTTTTAAA
8906173 TTTTT
1 TTTTT
8906178 TTGAAGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTATTTTTAAA
Found at i:8906203 original size:8 final size:8
Alignment explanation
Indices: 8906108--8906203 Score: 56
Period size: 8 Copynumber: 11.9 Consensus size: 8
8906098 ATATTAAATA
*
8906108 TTAAGTTT
1 TTAAATTT
*
8906116 TTAAGTTT
1 TTAAATTT
*
8906124 TTAAGTTT
1 TTAAATTT
*
8906132 TT-TATTT
1 TTAAATTT
8906139 TTAAATTT
1 TTAAATTT
*
8906147 TT-TATTT
1 TTAAATTT
*
8906154 TT-TATTT
1 TTAAATTT
*
8906161 TT-TATTT
1 TTAAATTT
8906168 TTAAATTTTT
1 TTAAA--TTT
8906178 TTGAAGATTT
1 TT-AA-ATTT
8906188 TTATAATTT
1 TTA-AATTT
8906197 TTAAATT
1 TTAAATT
8906204 ACCATATAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
7 25 0.33
8 29 0.38
9 8 0.11
10 11 0.14
11 2 0.03
12 1 0.01
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (8 bp):
TTAAATTT
Found at i:8906571 original size:21 final size:21
Alignment explanation
Indices: 8906547--8906591 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8906537 CTAATAATTA
*
8906547 AACCCCAAATCCTAAACCATG
1 AACCCCAAAACCTAAACCATG
* *
8906568 AACCCTAAAACCTAGACCATG
1 AACCCCAAAACCTAAACCATG
8906589 AAC
1 AAC
8906592 ATATATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.36, G:0.07, T:0.13
Consensus pattern (21 bp):
AACCCCAAAACCTAAACCATG
Found at i:8908138 original size:53 final size:53
Alignment explanation
Indices: 8908057--8908207 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
8908047 CTTACACGGT
* *
8908057 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
8908112 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
8908165 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
8908208 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:8911564 original size:22 final size:22
Alignment explanation
Indices: 8911530--8911572 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8911520 ATTTTCATGT
*
8911530 TATACACACATATATATATATA
1 TATACACAAATATATATATATA
*
8911552 TATATACAAATATATATATAT
1 TATACACAAATATATATATAT
8911573 TCATATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TATACACAAATATATATATATA
Found at i:8911580 original size:2 final size:2
Alignment explanation
Indices: 8911539--8911572 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
8911529 TTATACACAC
* *
8911539 AT AT AT AT AT AT AT AT AT AC AA AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8911573 TCATATATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8916716 original size:10 final size:9
Alignment explanation
Indices: 8916696--8916767 Score: 56
Period size: 10 Copynumber: 7.6 Consensus size: 9
8916686 TTGAAACAGC
8916696 TTATAAAAA
1 TTATAAAAA
8916705 TTATATAAAA
1 TTATA-AAAA
8916715 TTATAAAAA
1 TTATAAAAA
**
8916724 TTCATACAAGC
1 TT-ATA-AAAA
8916735 TTAT-AAAA
1 TTATAAAAA
*
8916743 TTCTTAAAAA
1 TT-ATAAAAA
*
8916753 GTATAAAAAA
1 TTAT-AAAAA
8916763 TTATA
1 TTATA
8916768 TTCTAAAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
8 4 0.08
9 14 0.29
10 27 0.55
11 4 0.08
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:8916745 original size:19 final size:20
Alignment explanation
Indices: 8916693--8916742 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
8916683 AAATTGAAAC
*
8916693 AGCTTATAAAAATT-ATATA
1 AGCTTATAAAAATTCATACA
**
8916712 AAATTATAAAAATTCATACA
1 AGCTTATAAAAATTCATACA
8916732 AGCTTATAAAA
1 AGCTTATAAAA
8916743 TTCTTAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (20 bp):
AGCTTATAAAAATTCATACA
Found at i:8919175 original size:52 final size:48
Alignment explanation
Indices: 8919099--8919257 Score: 178
Period size: 47 Copynumber: 3.2 Consensus size: 48
8919089 CCATGGCAGC
* * * * *
8919099 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCATC-G-G
*
8919150 AAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 --ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
8919200 -TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
8919247 -TGTGATATGTG
1 ATGTGATATGTG
8919258 ACCATTGCTG
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
47 54 0.56
50 1 0.01
51 1 0.01
52 29 0.30
53 11 0.11
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:8919262 original size:35 final size:36
Alignment explanation
Indices: 8919222--8919296 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
8919212 TACTGTATAA
8919222 GACCATAT-CTGGGATATGGCATCAG-TGTGATATGT
1 GACCAT-TGCTGGGATATGGCATCAGATGTGATATGT
* * *
8919257 GACCATTGCTGGGCTATGGCCTCGGTATGTGATATGT
1 GACCATTGCTGGGATATGGCATCAG-ATGTGATATGT
8919294 GAC
1 GAC
8919297 TATGTGCAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 1 0.03
35 20 0.59
37 13 0.38
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (36 bp):
GACCATTGCTGGGATATGGCATCAGATGTGATATGT
Found at i:8924747 original size:15 final size:16
Alignment explanation
Indices: 8924727--8924756 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8924717 TGAAATAGAC
8924727 TAAT-AAAATAAAAAA
1 TAATAAAAATAAAAAA
8924742 TAATAAAAATAAAAA
1 TAATAAAAATAAAAA
8924757 TAAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAATAAAAATAAAAAA
Found at i:8926427 original size:9 final size:8
Alignment explanation
Indices: 8926401--8926426 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8926391 CATTTGCTTC
8926401 TTCTTTTT
1 TTCTTTTT
8926409 TTCTTTTT
1 TTCTTTTT
8926417 TTCTTTTT
1 TTCTTTTT
8926425 TT
1 TT
8926427 TTAACATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTCTTTTT
Found at i:8928371 original size:25 final size:26
Alignment explanation
Indices: 8928337--8928390 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
8928327 TTGAATGAAA
*
8928337 GTCTGCCGTA-TTGGCATGTTTCTTT
1 GTCTGCCGTATTTGGCACGTTTCTTT
8928362 GTCTGCCGTATTTTGGCACGTTTCTTT
1 GTCTGCCGTA-TTTGGCACGTTTCTTT
8928389 GT
1 GT
8928391 TTTTCTGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 10 0.38
27 16 0.62
ACGTcount: A:0.07, C:0.20, G:0.24, T:0.48
Consensus pattern (26 bp):
GTCTGCCGTATTTGGCACGTTTCTTT
Found at i:8935714 original size:16 final size:17
Alignment explanation
Indices: 8935693--8935727 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8935683 TAATGTCTAG
8935693 GAAAATTA-TTAATTGA
1 GAAAATTACTTAATTGA
8935709 GAAAATTATCTTAATTGA
1 GAAAATTA-CTTAATTGA
8935727 G
1 G
8935728 GGGTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (17 bp):
GAAAATTACTTAATTGA
Found at i:8936921 original size:31 final size:31
Alignment explanation
Indices: 8936832--8936923 Score: 139
Period size: 31 Copynumber: 3.0 Consensus size: 31
8936822 CAAGGACAAA
*
8936832 TGATCAGTGAAAAGTGGTAGCTCCAGCTACC
1 TGATCAGTGAAAAGTGGTAGCTCCGGCTACC
*
8936863 TGATCAGTGAAAAATGGTAGCTCCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTCCGGCTACC
* * *
8936894 TGATCAATGAATAGTGGTAGCTTCGGCTAC
1 TGATCAGTGAAAAGTGGTAGCTCCGGCTAC
8936924 AAGTGACAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (31 bp):
TGATCAGTGAAAAGTGGTAGCTCCGGCTACC
Found at i:8937140 original size:42 final size:43
Alignment explanation
Indices: 8937081--8937196 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
8937071 GATATGTGAT
*
8937081 TATGTGTAAGACCATAGCTGGGCTATGGCATCAATGTATGAA-
1 TATGTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAG
* * *
8937123 TATGTGTAAGACCATAGCTGGGCTATGACATCATTATGTGAAG
1 TATGTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAG
* **
8937166 T-TGTGTAAGACCATAGTTGAACTATGGCATC
1 TATGTGTAAGACCATAGCTGGGCTATGGCATC
8937197 GAGAAAATGA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
42 64 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (43 bp):
TATGTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAG
Found at i:8938718 original size:93 final size:93
Alignment explanation
Indices: 8938606--8938777 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
8938596 GCCCATAAGT
* *
8938606 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
8938671 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
8938699 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
8938764 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
8938778 CAAACATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:8938773 original size:46 final size:46
Alignment explanation
Indices: 8938598--8938773 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
8938588 TGTAACCCGC
* * *
8938598 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
8938644 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
8938694 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
8938737 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
8938774 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 65 0.59
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:8940943 original size:29 final size:30
Alignment explanation
Indices: 8940900--8940979 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 30
8940890 CTTGAGCCAC
* * *
8940900 AATTAGAGTTTCATGTGTATAATTACACA-A
1 AATTAAAG-TTCATGTATAAAATTACACATA
8940930 AATTAAAGTTCATGTATAAAATTACACATTA
1 AATTAAAGTTCATGTATAAAATTACACA-TA
* *
8940961 AATCAAAGTTCACGTATAA
1 AATTAAAGTTCATGTATAA
8940980 TTTTAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 18 0.42
30 7 0.16
31 18 0.42
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (30 bp):
AATTAAAGTTCATGTATAAAATTACACATA
Found at i:8940981 original size:29 final size:27
Alignment explanation
Indices: 8940916--8940981 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 27
8940906 AGTTTCATGT
* *
8940916 GTATAATTACACAAAATTAAAGTTCAT
1 GTATAATTACACAAAATCAAAGTTCAC
8940943 GTATAAAATTACACATTAAATCAAAGTTCAC
1 GTAT--AATTACACA--AAATCAAAGTTCAC
8940974 GTATAATT
1 GTATAATT
8940982 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 4 0.12
29 13 0.39
31 16 0.48
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (27 bp):
GTATAATTACACAAAATCAAAGTTCAC
Found at i:8943007 original size:12 final size:12
Alignment explanation
Indices: 8942990--8943015 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8942980 CTCTGAAACC
8942990 TTTTTATTTTGG
1 TTTTTATTTTGG
8943002 TTTTTATTTTGG
1 TTTTTATTTTGG
8943014 TT
1 TT
8943016 GCTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (12 bp):
TTTTTATTTTGG
Found at i:8945085 original size:2 final size:2
Alignment explanation
Indices: 8945078--8945107 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8945068 TTTGGAATCT
8945078 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8945108 AGTACTTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8961594 original size:19 final size:20
Alignment explanation
Indices: 8961556--8961595 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8961546 ATAAAATAAT
* *
8961556 ATTTATTAATAATTATATTA
1 ATTTATGAATAATTAAATTA
8961576 ATTTATGAA-AATTAAATTA
1 ATTTATGAATAATTAAATTA
8961595 A
1 A
8961596 ATAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTTATGAATAATTAAATTA
Found at i:8961822 original size:41 final size:41
Alignment explanation
Indices: 8961765--8961844 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
8961755 AAAGTTATTT
* *
8961765 TTTTTTTTCCTTTAACCTCGAATGAATGAATCTCAAACTAC
1 TTTTTTTTCCGTTAACCTCAAATGAATGAATCTCAAACTAC
8961806 TTTTTTTTCCGTTAACCTCAAATGAATGAATCTCAAACT
1 TTTTTTTTCCGTTAACCTCAAATGAATGAATCTCAAACT
8961845 TCAAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (41 bp):
TTTTTTTTCCGTTAACCTCAAATGAATGAATCTCAAACTAC
Found at i:8964015 original size:27 final size:27
Alignment explanation
Indices: 8963985--8964039 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
8963975 AAAGCTGGTG
*
8963985 CAGCAGCAGCCACCCCAGGGTTAAACC
1 CAGCAGCAGCAACCCCAGGGTTAAACC
* *
8964012 CAGCAGCAGCAACTCCAGGGTTGAACC
1 CAGCAGCAGCAACCCCAGGGTTAAACC
8964039 C
1 C
8964040 CACTCCCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.38, G:0.24, T:0.09
Consensus pattern (27 bp):
CAGCAGCAGCAACCCCAGGGTTAAACC
Found at i:8965022 original size:6 final size:6
Alignment explanation
Indices: 8965013--8965094 Score: 76
Period size: 6 Copynumber: 13.7 Consensus size: 6
8965003 CTCCTCTTCC
** * *
8965013 TCCTCT TCCTCT TCCTCT TCCTCT TCCAGT TCCACT TCCTCT TCTTCT
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT
** * *
8965061 TCAACC TCCTCT T-CTACT TCCTCT TCCACT TCCT
1 TCCTCT TCCTCT TCCT-CT TCCTCT TCCTCT TCCT
8965095 GTAGTTTCTG
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
5 2 0.03
6 57 0.93
7 2 0.03
ACGTcount: A:0.07, C:0.46, G:0.01, T:0.45
Consensus pattern (6 bp):
TCCTCT
Found at i:8971009 original size:2 final size:2
Alignment explanation
Indices: 8971004--8971029 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8970994 TATATATATA
8971004 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
8971030 CGCGCTAGAG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8973524 original size:15 final size:15
Alignment explanation
Indices: 8973504--8973536 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8973494 CTAAGCTACC
8973504 AAAAAG-AGAAAGAAA
1 AAAAAGAAG-AAGAAA
8973519 AAAAAGAAGAAGAAA
1 AAAAAGAAGAAGAAA
8973534 AAA
1 AAA
8973537 CTGCAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAGAAA
Found at i:8989741 original size:15 final size:14
Alignment explanation
Indices: 8989673--8989801 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
8989663 TTATTCCTAT
8989673 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
8989687 TATTTATATTTAT-
1 TATTTTTATTTATC
*
8989700 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
8989716 TATTATTATTTATC
1 TATTTTTATTTATC
8989730 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
8989745 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
8989760 TATTATTATATT-TC
1 TATTTTTAT-TTATC
*
8989774 TATTTATTATATT-TT
1 TATTT-TTAT-TTATC
*
8989789 TATTTCTATTTAT
1 TATTTTTATTTAT
8989802 ATACTAATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 32 0.35
15 37 0.40
16 4 0.04
17 7 0.08
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:8989754 original size:29 final size:28
Alignment explanation
Indices: 8989673--8989780 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 28
8989663 TTATTCCTAT
*
8989673 TATTTTTATGTTTCTATTTATATTTAT-
1 TATTTTTATATTTCTATTTATATTTATC
* * * *
8989700 TTTGTTATTCTAATACTA-TTATTATTTATC
1 TAT-TT-TTATATTTCTATTTA-TATTTATC
*
8989730 TAATTTTTAT-TTATCTATTTATATTTCTAC
1 T-ATTTTTATATT-TCTATTTATATTTAT-C
*
8989760 TATTATTATATTTCTATTTAT
1 TATTTTTATATTTCTATTTAT
8989781 TATATTTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 42 0.69
30 10 0.16
31 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (28 bp):
TATTTTTATATTTCTATTTATATTTATC
Found at i:8989786 original size:23 final size:24
Alignment explanation
Indices: 8989713--8989827 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 24
8989703 GTTATTCTAA
8989713 TACTATTATTAT-TTATCTAATTT-T
1 TACTATTATTATATT-TCT-ATTTAT
* * *
8989737 TA-T-TTA-TCTATTTATATTT-C
1 TACTATTATTATATTTCTATTTAT
8989757 TACTATTATTATATTTCTATTTAT
1 TACTATTATTATATTTCTATTTAT
8989781 TA-TATT-TT-TATTTCTATTTAT
1 TACTATTATTATATTTCTATTTAT
*
8989802 ATACTAATATTAT-TTTC-A-TTAT
1 -TACTATTATTATATTTCTATTTAT
8989824 TACT
1 TACT
8989828 TTTTTTCTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
20 6 0.08
21 22 0.29
22 16 0.21
23 20 0.27
24 10 0.13
25 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (24 bp):
TACTATTATTATATTTCTATTTAT
Found at i:8991145 original size:31 final size:32
Alignment explanation
Indices: 8991100--8991165 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
8991090 TTTTTTAGCT
*
8991100 AAATTTACTCATTAA-CTTCTT-AAAAAGAGTC
1 AAATTTACTCATTAATCTT-TTGAAAAAGAGCC
8991131 AAATTTGACT-ATTAATCTTTTGAAAAAGAGCC
1 AAATTT-ACTCATTAATCTTTTGAAAAAGAGCC
8991163 AAA
1 AAA
8991166 ATGATAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (32 bp):
AAATTTACTCATTAATCTTTTGAAAAAGAGCC
Found at i:8991315 original size:20 final size:21
Alignment explanation
Indices: 8991263--8991317 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
8991253 AATTATGAAC
*
8991263 TTTTTATATATTTTTATTTTTA
1 TTTTTATA-ATTTGTATTTTTA
*
8991285 TTTTGATTAATTTGT-TTTTTA
1 TTTTTA-TAATTTGTATTTTTA
8991306 TTTTTATAATTT
1 TTTTTATAATTT
8991318 TTGAATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 6 0.21
21 11 0.38
22 10 0.34
23 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTTATAATTTGTATTTTTA
Found at i:8998260 original size:12 final size:12
Alignment explanation
Indices: 8998243--8998267 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8998233 TGAACTGTTG
8998243 TCAAGATTTTTC
1 TCAAGATTTTTC
8998255 TCAAGATTTTTC
1 TCAAGATTTTTC
8998267 T
1 T
8998268 AACTTCAAAC
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:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TCAAGATTTTTC
Found at i:9008171 original size:2 final size:2
Alignment explanation
Indices: 9008164--9008202 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9008154 AGTGGCAAAA
9008164 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9008203 AAACAAGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9017734 original size:11 final size:11
Alignment explanation
Indices: 9017720--9017759 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
9017710 GTTTTCTCCA
*
9017720 TATTTTGCTAC
1 TATTTTGCTAT
*
9017731 TATTTTACTAT
1 TATTTTGCTAT
*
9017742 TATATTGCTAT
1 TATTTTGCTAT
9017753 TATTTTG
1 TATTTTG
9017760 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:9017846 original size:29 final size:31
Alignment explanation
Indices: 9017796--9017857 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
9017786 ATTTATTTTC
9017796 TTGTTAATTTTTTTATTTA-TTTAAAGGCAT
1 TTGTTAATTTTTTTATTTATTTTAAAGGCAT
*
9017826 TTGTTAATTTTTTTA-TTATTTTAGAGGCAT
1 TTGTTAATTTTTTTATTTATTTTAAAGGCAT
9017856 TT
1 TT
9017858 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.61
Consensus pattern (31 bp):
TTGTTAATTTTTTTATTTATTTTAAAGGCAT
Done.