Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 168 of 292
Found at i:49895022 original size:17 final size:18
Alignment explanation
Indices: 49894991--49895024 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49894981 AGTTAGTTCA
*
49894991 AAGATTAATTCATTGTTT
1 AAGATTAATTAATTGTTT
49895009 AAGA-TAATTAATTGTT
1 AAGATTAATTAATTGTT
49895025 ATTATTTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (18 bp):
AAGATTAATTAATTGTTT
Found at i:49895887 original size:18 final size:18
Alignment explanation
Indices: 49895864--49895909 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
49895854 CAACTCCCTA
49895864 TTCCAGAAGAGGTAATTG
1 TTCCAGAAGAGGTAATTG
49895882 TTCCAGAAGAGGTAATTG
1 TTCCAGAAGAGGTAATTG
49895900 TTCCAGAAGA
1 TTCCAGAAGA
49895910 ACAAATTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (18 bp):
TTCCAGAAGAGGTAATTG
Found at i:49895916 original size:18 final size:18
Alignment explanation
Indices: 49895877--49895916 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49895867 CAGAAGAGGT
***
49895877 AATTGTTCCAGAAGAGGT
1 AATTGTTCCAGAAGAACA
49895895 AATTGTTCCAGAAGAACA
1 AATTGTTCCAGAAGAACA
49895913 AATT
1 AATT
49895917 CAACAACCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (18 bp):
AATTGTTCCAGAAGAACA
Found at i:49896951 original size:22 final size:22
Alignment explanation
Indices: 49896924--49896965 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
49896914 TATTTCAGTT
*
49896924 TACAGATATTAAGTTTATTTTC
1 TACAGAAATTAAGTTTATTTTC
49896946 TACAGAAATTAAGTTTATTT
1 TACAGAAATTAAGTTTATTT
49896966 GGTTTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (22 bp):
TACAGAAATTAAGTTTATTTTC
Found at i:49899203 original size:13 final size:15
Alignment explanation
Indices: 49899174--49899206 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
49899164 GGTGGAGAAA
49899174 ATAAATATTTGACAT
1 ATAAATATTTGACAT
49899189 ATAAATA-TT-ACAT
1 ATAAATATTTGACAT
49899202 ATAAA
1 ATAAA
49899207 AGAAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (15 bp):
ATAAATATTTGACAT
Found at i:49902849 original size:15 final size:15
Alignment explanation
Indices: 49902829--49902858 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49902819 CAATTAGAAG
*
49902829 TCCTTAATTTTAGTT
1 TCCTTAATTATAGTT
49902844 TCCTTAATTATAGTT
1 TCCTTAATTATAGTT
49902859 CTCATTCTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (15 bp):
TCCTTAATTATAGTT
Found at i:49903608 original size:29 final size:30
Alignment explanation
Indices: 49903571--49903634 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
49903561 GAATTAATGA
* * *
49903571 TTAGAAGCTCCCTTCAATGAGTTC-CAAGG
1 TTAGGAGCTCCCTTCAAAGAGTTCTAAAGG
*
49903600 TTAGGAGCTCTCTTCAAAGAGTTCTAAAGG
1 TTAGGAGCTCCCTTCAAAGAGTTCTAAAGG
49903630 TTAGG
1 TTAGG
49903635 TTCTTCACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (30 bp):
TTAGGAGCTCCCTTCAAAGAGTTCTAAAGG
Found at i:49911196 original size:58 final size:58
Alignment explanation
Indices: 49911090--49911208 Score: 152
Period size: 58 Copynumber: 2.1 Consensus size: 58
49911080 TTTGTCATGA
* *
49911090 CTTCATTAATCATCATTACGCAATAACACTTTTAACAAGAAGAGTTCATGCCTTGGAC
1 CTTCATCAATCATCATTACGCAATAACACTTTTAACAAGAAGAGTTCATACCTTGGAC
* * **
49911148 CTTCATCAATCATTATTATGCAATAACACTTTTAGTAGTAGAA-A-TTCATACCTTGGAC
1 CTTCATCAATCATCATTACGCAATAACACTTTTA--ACAAGAAGAGTTCATACCTTGGAC
49911206 CTT
1 CTT
49911209 AATATTTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 47 0.89
59 1 0.02
60 5 0.09
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (58 bp):
CTTCATCAATCATCATTACGCAATAACACTTTTAACAAGAAGAGTTCATACCTTGGAC
Found at i:49913099 original size:7 final size:6
Alignment explanation
Indices: 49913071--49913121 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
49913061 ACCCAATCCA
* *
49913071 AAAATT AAAATT AAAATCT ACAAATT ACAATT -AAATT AATATAT AAAATT
1 AAAATT AAAATT AAAAT-T A-AAATT AAAATT AAAATT AAAAT-T AAAATT
49913121 A
1 A
49913122 TTTAATAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.11
6 20 0.54
7 9 0.24
8 4 0.11
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:49913128 original size:17 final size:18
Alignment explanation
Indices: 49913106--49913140 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49913096 TACAATTAAA
*
49913106 TTAATATATAAAA-TTAT
1 TTAATAGATAAAAGTTAT
49913123 TTAATAGATAAAAGTTAT
1 TTAATAGATAAAAGTTAT
49913141 ATGGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
TTAATAGATAAAAGTTAT
Found at i:49913755 original size:21 final size:21
Alignment explanation
Indices: 49913731--49913771 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49913721 TTTTGTTTTA
* *
49913731 TAAATAATAAATCTTAAAAAG
1 TAAAAAATAAATATTAAAAAG
*
49913752 TAAAAAATATATATTAAAAA
1 TAAAAAATAAATATTAAAAA
49913772 TCAACTAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAAATAAATATTAAAAAG
Found at i:49917738 original size:28 final size:28
Alignment explanation
Indices: 49917707--49917761 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
49917697 GTTAGTTTTA
*
49917707 ATATATAATCGACTTTGCCGCCTGAATG
1 ATATATAATCGACTCTGCCGCCTGAATG
**
49917735 ATATATGGTCGACTCTGCCGCCTGAAT
1 ATATATAATCGACTCTGCCGCCTGAAT
49917762 ATTATAGTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (28 bp):
ATATATAATCGACTCTGCCGCCTGAATG
Found at i:49923632 original size:27 final size:24
Alignment explanation
Indices: 49923575--49923632 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 24
49923565 TAATAAAAAG
49923575 CTTTTTTTAATAAAAAAAACTAAA
1 CTTTTTTTAATAAAAAAAACTAAA
*
49923599 CTATTTTTTAATTTAAAAAAAACGTTAA
1 CT-TTTTTTAA--TAAAAAAAAC-TAAA
49923627 CTTTTT
1 CTTTTT
49923633 GAATCTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 8 0.28
27 14 0.48
28 5 0.17
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (24 bp):
CTTTTTTTAATAAAAAAAACTAAA
Found at i:49937026 original size:11 final size:10
Alignment explanation
Indices: 49936996--49937029 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
49936986 GGAGAGTACC
49936996 AAGAGTCAAA
1 AAGAGTCAAA
*
49937006 AAGAGCCAAA
1 AAGAGTCAAA
49937016 AATGAGTCAAA
1 AA-GAGTCAAA
49937027 AAG
1 AAG
49937030 GGACAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.59, C:0.12, G:0.21, T:0.09
Consensus pattern (10 bp):
AAGAGTCAAA
Found at i:49937036 original size:21 final size:21
Alignment explanation
Indices: 49936998--49937037 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49936988 AGAGTACCAA
*
49936998 GAGTCAAAAAGAGCCAAAAAT
1 GAGTCAAAAAGAGACAAAAAT
*
49937019 GAGTCAAAAAGGGACAAAA
1 GAGTCAAAAAGAGACAAAA
49937038 TAGACCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.12, G:0.23, T:0.07
Consensus pattern (21 bp):
GAGTCAAAAAGAGACAAAAAT
Found at i:49942404 original size:22 final size:23
Alignment explanation
Indices: 49942379--49942430 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
49942369 CAAAAATTAC
49942379 AAAAGAAATTC-AAAATA-ATTTT
1 AAAA-AAATTCAAAAATATATTTT
*
49942401 -AAAAAATTCAAAAATATCTTTT
1 AAAAAAATTCAAAAATATATTTT
49942423 AAAAAAAT
1 AAAAAAAT
49942431 ATCTTCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 4 0.15
23 7 0.27
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAAAATTCAAAAATATATTTT
Found at i:49942407 original size:20 final size:22
Alignment explanation
Indices: 49942384--49942428 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
49942374 ATTACAAAAG
49942384 AAATTC-AAAATA-ATTTTAAA
1 AAATTCAAAAATATATTTTAAA
*
49942404 AAATTCAAAAATATCTTTTAAA
1 AAATTCAAAAATATATTTTAAA
49942426 AAA
1 AAA
49942429 ATATCTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTCAAAAATATATTTTAAA
Found at i:49952652 original size:73 final size:74
Alignment explanation
Indices: 49952565--49952710 Score: 240
Period size: 73 Copynumber: 2.0 Consensus size: 74
49952555 GGCAAACTTA
*
49952565 AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAACAGGC-AAAGAAATAAAAC
1 AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAACAGCCAAAAGAAATAAAAC
49952629 ATAACATTG
66 ATAACATTG
* * **
49952638 AAAATTATTACCATCACCATGATAGTGCTTAGAAGAAACCAAGAAATAGCCAAAAGAAATAATGC
1 AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAACAGCCAAAAGAAATAAAAC
49952703 ATAACATT
66 ATAACATT
49952711 ACCACTGATG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 48 0.72
74 19 0.28
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (74 bp):
AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAACAGCCAAAAGAAATAAAAC
ATAACATTG
Found at i:49953063 original size:16 final size:16
Alignment explanation
Indices: 49953038--49953093 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
49953028 TTTAAACATC
49953038 AAAAAAAAAAAAA-AA
1 AAAAAAAAAAAAACAA
* *
49953053 AAAAAACAAAAAGCAA
1 AAAAAAAAAAAAACAA
* *
49953069 AAAACAAAAAAGACAA
1 AAAAAAAAAAAAACAA
49953085 AAAACAAAA
1 AAAA-AAAA
49953094 GAGAGGCAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 11 0.34
16 18 0.56
17 3 0.09
ACGTcount: A:0.88, C:0.09, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAACAA
Found at i:49953070 original size:23 final size:23
Alignment explanation
Indices: 49953037--49953093 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
49953027 ATTTAAACAT
49953037 CAAAAAA-AAAAAAAAAAAAAAA
1 CAAAAAACAAAAAAAAAAAAAAA
* * *
49953059 CAAAAAGCAAAAAACAAAAAAGA
1 CAAAAAACAAAAAAAAAAAAAAA
49953082 CAAAAAACAAAA
1 CAAAAAACAAAA
49953094 GAGAGGCAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.86, C:0.11, G:0.04, T:0.00
Consensus pattern (23 bp):
CAAAAAACAAAAAAAAAAAAAAA
Found at i:49953094 original size:14 final size:14
Alignment explanation
Indices: 49953039--49953095 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
49953029 TTAAACATCA
* * *
49953039 AAAAAAAAAAAAAA
1 AAAAAACAAAAGAC
49953053 AAAAAACAAAA-AGC
1 AAAAAACAAAAGA-C
49953067 AAAAAACAAAAAAGAC
1 AAAAAAC--AAAAGAC
49953083 AAAAAACAAAAGA
1 AAAAAACAAAAGA
49953096 GAGGCAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 1 0.03
14 23 0.62
16 12 0.32
17 1 0.03
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAGAC
Found at i:49955529 original size:22 final size:24
Alignment explanation
Indices: 49955486--49955529 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
49955476 ATTATATTGT
*
49955486 TAAATTGATATTTATAAATATTTA
1 TAAATTGATATTTAGAAATATTTA
*
49955510 TAAATT-A-ATTTAGAATTATT
1 TAAATTGATATTTAGAAATATT
49955530 AATTATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 1 0.06
24 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (24 bp):
TAAATTGATATTTAGAAATATTTA
Found at i:49955685 original size:18 final size:19
Alignment explanation
Indices: 49955641--49955685 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
49955631 AAAAAATTCT
*
49955641 TAATTATTTTTATTTGTTA
1 TAATTATTTTTATTTGTCA
*
49955660 TAAGTATTTTTATTT-TCA
1 TAATTATTTTTATTTGTCA
*
49955678 TATTTATT
1 TAATTATT
49955686 AATCAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TAATTATTTTTATTTGTCA
Found at i:49956425 original size:24 final size:24
Alignment explanation
Indices: 49956381--49956427 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49956371 TTTCAACTTC
*
49956381 TTTTATTTATAAAATATTATTTAT
1 TTTTATTTATAAAATAATATTTAT
49956405 TTTTAATTTATAAAA-AATATTTA
1 TTTT-ATTTATAAAATAATATTTA
49956428 CCTGCAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATTTATAAAATAATATTTAT
Found at i:49956484 original size:30 final size:30
Alignment explanation
Indices: 49956450--49956506 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
49956440 GTAGGTGAGA
49956450 AAGAAATATATGGAAACATTGACTTGTAAG
1 AAGAAATATATGGAAACATTGACTTGTAAG
*
49956480 AAGAAATATATGGAAACATTGAGTTGT
1 AAGAAATATATGGAAACATTGACTTGT
49956507 GAGATAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (30 bp):
AAGAAATATATGGAAACATTGACTTGTAAG
Found at i:49959194 original size:7 final size:7
Alignment explanation
Indices: 49959182--49959214 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
49959172 GAGTCGATTC
49959182 GTATTTA
1 GTATTTA
49959189 GTATTTA
1 GTATTTA
*
49959196 ATATTTA
1 GTATTTA
49959203 GTATTTA
1 GTATTTA
49959210 GTATT
1 GTATT
49959215 ATGTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:49959775 original size:30 final size:30
Alignment explanation
Indices: 49959674--49959776 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 30
49959664 AGAAGGGATG
*
49959674 ATCACGCGGGCTCATCAACAGCG-CCACACA
1 ATCAC-CGGGCCCATCAACAGCGCCCACACA
* * * ** *
49959704 ATTACCGGGCCTATCAATAATGCCCATACA
1 ATCACCGGGCCCATCAACAGCGCCCACACA
*
49959734 ATCACCAGGCCCATCAACAGCGCCCACACA
1 ATCACCGGGCCCATCAACAGCGCCCACACA
* *
49959764 GTCACTGGGCCCA
1 ATCACCGGGCCCA
49959777 ATACTTTAAC
Statistics
Matches: 55, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
29 12 0.22
30 43 0.78
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.14
Consensus pattern (30 bp):
ATCACCGGGCCCATCAACAGCGCCCACACA
Found at i:49960377 original size:54 final size:55
Alignment explanation
Indices: 49960295--49960420 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 55
49960285 TATTGTTTCA
* * * *
49960295 TTTAATAAAATAAAAGTTGTTTTGAATAAAG-TA-ATTGT-AATTTACTTTTATATT
1 TTTAATAAAATAAAATTTCTTTTAAATAAAGCAATATTGTGAA--TACTTTTATATT
* * *
49960349 TTTAATAAAATAAAATTTCTTTTAAATAAGGCAATATTTTGAATATTTTTATATT
1 TTTAATAAAATAAAATTTCTTTTAAATAAAGCAATATTGTGAATACTTTTATATT
49960404 TTTAATAAAATATAAAT
1 TTTAATAAAATA-AAAT
49960421 AATGCAACAT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
54 27 0.44
55 24 0.39
56 8 0.13
57 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (55 bp):
TTTAATAAAATAAAATTTCTTTTAAATAAAGCAATATTGTGAATACTTTTATATT
Found at i:49963732 original size:124 final size:126
Alignment explanation
Indices: 49963426--49963795 Score: 588
Period size: 125 Copynumber: 3.0 Consensus size: 126
49963416 GCCAAATAGG
* ** * *
49963426 AACTACTGTAGAAAAAGAGCGTCTTCATGGGAGCTTTTTTCAGTACTTTTGTTGACA-TGCATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
49963490 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTTTCAAA
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTTTCAAA
*
49963551 AACTACTGTAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTTG-ATC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAG-TGCATC
* *
49963615 CTGCTTGAAGCGTTTTTGACACTATTT-TTCAGAAACAT-TTTCTCAAAATTATTTTTTTAGA
65 CTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTT-TCAAAATTATTTTTTCAAA
49963676 AACTACTGTA-AAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * *
49963740 TGCTTGAAGCGTTTTTGACACTATTTGTTCATAAACATCTTTTTAAAATTATTTTT
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTT
49963796 CAGATACATC
Statistics
Matches: 229, Mismatches: 10, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
123 2 0.01
124 79 0.34
125 113 0.49
126 33 0.14
127 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (126 bp):
AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTTTCAAA
Found at i:49966743 original size:38 final size:38
Alignment explanation
Indices: 49966688--49966764 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
49966678 TAGGTGTTAG
*
49966688 GGACATCTCACTCTTTCGGCTTAAATTCCCCACTTTTT
1 GGACATATCACTCTTTCGGCTTAAATTCCCCACTTTTT
*
49966726 GGACATATCACTTTTTCGGCTTAAATTCCCCACTTTTT
1 GGACATATCACTCTTTCGGCTTAAATTCCCCACTTTTT
49966764 G
1 G
49966765 ACAATTCTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (38 bp):
GGACATATCACTCTTTCGGCTTAAATTCCCCACTTTTT
Found at i:49966762 original size:22 final size:22
Alignment explanation
Indices: 49966696--49966763 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
49966686 AGGGACATCT
*
49966696 CACTCTTTCGGCTTAAATTCCC
1 CACTTTTTCGGCTTAAATTCCC
*
49966718 CACTTTTT-GG---ACATAT---
1 CACTTTTTCGGCTTAAAT-TCCC
49966734 CACTTTTTCGGCTTAAATTCCC
1 CACTTTTTCGGCTTAAATTCCC
49966756 CACTTTTT
1 CACTTTTT
49966764 GACAATTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 16
0.65 0.06 0.30
Matches are distributed among these distances:
16 8 0.23
17 2 0.06
18 3 0.09
19 2 0.06
20 3 0.09
21 2 0.06
22 15 0.43
ACGTcount: A:0.19, C:0.29, G:0.09, T:0.43
Consensus pattern (22 bp):
CACTTTTTCGGCTTAAATTCCC
Found at i:49974965 original size:20 final size:20
Alignment explanation
Indices: 49974940--49974981 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
49974930 TGGGTTAGAG
49974940 ACACGGGCGTGTCCCAAACC
1 ACACGGGCGTGTCCCAAACC
49974960 ACACGGGCGTGTCCCAAACC
1 ACACGGGCGTGTCCCAAACC
49974980 AC
1 AC
49974982 CCATGCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.40, G:0.24, T:0.10
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAACC
Found at i:49978223 original size:20 final size:20
Alignment explanation
Indices: 49978176--49978223 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
49978166 GTAACAAAAT
*
49978176 AAAAT-AAAATAGATTCAAA
1 AAAATAAAAATAAATTCAAA
* * *
49978195 AATACAAAAATAAATTTAAA
1 AAAATAAAAATAAATTCAAA
49978215 AAAATAAAA
1 AAAATAAAA
49978224 TCAATTGGTA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAATAAAAATAAATTCAAA
Found at i:49986072 original size:37 final size:37
Alignment explanation
Indices: 49986002--49986109 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
49985992 AGCTCAGATG
* * *
49986002 AAATCTCCACACGAAGT-TTCTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
49986038 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49986075 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49986110 ATATATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 16 0.24
37 51 0.76
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49986310 original size:48 final size:48
Alignment explanation
Indices: 49986251--49986539 Score: 497
Period size: 48 Copynumber: 6.0 Consensus size: 48
49986241 TATACACACG
* * * *
49986251 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
49986299 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
49986347 TCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
49986395 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
49986443 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
49986491 TCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
49986539 T
1 T
49986540 ATTTATCTTG
Statistics
Matches: 230, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 230 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:49991845 original size:13 final size:13
Alignment explanation
Indices: 49991827--49991869 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
49991817 AAGATTTTTC
49991827 CTAAATATTATTA
1 CTAAATATTATTA
49991840 CTAAATA--ATT-
1 CTAAATATTATTA
*
49991850 CTAAATATTATCA
1 CTAAATATTATTA
49991863 CTAAATA
1 CTAAATA
49991870 ATTCTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 2 0.08
13 14 0.54
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:49991857 original size:23 final size:23
Alignment explanation
Indices: 49991827--49991878 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
49991817 AAGATTTTTC
*
49991827 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
49991850 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
49991873 CTAAAT
1 CTAAAT
49991879 TTAAAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:49991891 original size:23 final size:23
Alignment explanation
Indices: 49991827--49991891 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
49991817 AAGATTTTTC
** *
49991827 CTAAATATTATTACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
** *
49991850 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
49991873 CTAAAT-TTAAAAATCAAAT
1 CTAAATATTAAAAAT-AAAT
49991892 TTAAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTAAAAATAAATAATT
Found at i:49992608 original size:22 final size:22
Alignment explanation
Indices: 49992566--49992608 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49992556 ATTAATGAAT
* *
49992566 ATTATAAAAATTAAATGGATTC
1 ATTAAAAAAATTAAATAGATTC
*
49992588 ATTAAAAAAATTAATTAGATT
1 ATTAAAAAAATTAAATAGATT
49992609 TTTTTTTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTAAAAAAATTAAATAGATTC
Found at i:49992918 original size:30 final size:30
Alignment explanation
Indices: 49992859--49992918 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
49992849 TATATATTAT
*
49992859 ATTAAAAGGTCTAAGATCTTAACTGATGTG
1 ATTAAAAGGTCTAAGATCTTAACTAATGTG
* *
49992889 ATTATAAGGTCTAAGATCTTAATTAATGTG
1 ATTAAAAGGTCTAAGATCTTAACTAATGTG
49992919 GACGCCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (30 bp):
ATTAAAAGGTCTAAGATCTTAACTAATGTG
Found at i:49998349 original size:56 final size:56
Alignment explanation
Indices: 49998289--49998436 Score: 260
Period size: 56 Copynumber: 2.6 Consensus size: 56
49998279 TCTCATATAG
** *
49998289 GGTCTTACTCATACACATATATCGAAATCACATATCGATGCCAGCGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
*
49998345 GGTCTTACTCGCACACATATATTGAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
49998401 GGTCTTACTCGCACACATATATCGAAATCACATATC
1 GGTCTTACTCGCACACATATATCGAAATCACATATC
49998437 ACAAGTCGAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 87 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:50000851 original size:21 final size:21
Alignment explanation
Indices: 50000825--50000868 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
50000815 ATATCGGTAA
50000825 TAGAATATGAAAGAGAATTTG
1 TAGAATATGAAAGAGAATTTG
50000846 TAGAATATGAAAGAGAATTTG
1 TAGAATATGAAAGAGAATTTG
50000867 TA
1 TA
50000869 TGACTCAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.30
Consensus pattern (21 bp):
TAGAATATGAAAGAGAATTTG
Found at i:50003750 original size:15 final size:15
Alignment explanation
Indices: 50003730--50003760 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50003720 GAGATATATC
50003730 AGATTTTGTTTCTAA
1 AGATTTTGTTTCTAA
50003745 AGATTTTGTTTCTAA
1 AGATTTTGTTTCTAA
50003760 A
1 A
50003761 TGTTTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (15 bp):
AGATTTTGTTTCTAA
Found at i:50009485 original size:15 final size:15
Alignment explanation
Indices: 50009461--50009491 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50009451 TAATGTCTTG
50009461 CAACTAGGATAAAAA
1 CAACTAGGATAAAAA
*
50009476 CAACTGGGATAAAAA
1 CAACTAGGATAAAAA
50009491 C
1 C
50009492 TTCTGTGTAG
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:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (15 bp):
CAACTAGGATAAAAA
Found at i:50009737 original size:36 final size:36
Alignment explanation
Indices: 50009697--50009769 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
50009687 CACTTTCCAT
** *
50009697 TTTGCCTCATTGGCAACACTTTCAAAACT-TGTTGGG
1 TTTGCCTCATTAACAACACCTTCAAAA-TATGTTGGG
50009733 TTTGCCTCATTAACAACACCTTCAAAATATGTTGGG
1 TTTGCCTCATTAACAACACCTTCAAAATATGTTGGG
50009769 T
1 T
50009770 CATAATATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (36 bp):
TTTGCCTCATTAACAACACCTTCAAAATATGTTGGG
Found at i:50010999 original size:74 final size:74
Alignment explanation
Indices: 50010878--50011025 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
50010868 TTATGAATCT
*
50010878 ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATGCG
1 ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATCCG
50010943 TGACTTGTA
66 TGACTTGTA
50010952 ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATCCG
1 ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATCCG
50011017 TGACTTGTA
66 TGACTTGTA
50011026 CACTTTAATT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (74 bp):
ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATCCG
TGACTTGTA
Found at i:50013289 original size:28 final size:27
Alignment explanation
Indices: 50013255--50013318 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
50013245 GTATTGTGAT
* *
50013255 TGTACTGTTTTGGGCATAGGCCCATAC
1 TGTACTGTTTAGGGCATAGGCCCAGAC
** *
50013282 TGTTACTGCATAGGGCTTAGGCCCAGAC
1 TG-TACTGTTTAGGGCATAGGCCCAGAC
50013310 TGTACTGTT
1 TGTACTGTT
50013319 AATGAATAGG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.33
Consensus pattern (27 bp):
TGTACTGTTTAGGGCATAGGCCCAGAC
Found at i:50013328 original size:33 final size:33
Alignment explanation
Indices: 50013279--50013341 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
50013269 CATAGGCCCA
* * *
50013279 TACTGTTACTGCATAGGGCTTAGGCCCAGACTG
1 TACTGTTAATGAATAGGGCTCAGGCCCAGACTG
50013312 TACTGTTAATGAATAGGGCTCAGGCCCAGA
1 TACTGTTAATGAATAGGGCTCAGGCCCAGA
50013342 ACGTTACTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (33 bp):
TACTGTTAATGAATAGGGCTCAGGCCCAGACTG
Found at i:50014659 original size:68 final size:67
Alignment explanation
Indices: 50014582--50014708 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 67
50014572 TTAGATTAAA
*
50014582 TTTAATATTAAATCTTATTAAAATA-ATGT-AGATAAACATTAAATTAAATTTAATATTAAGATA
1 TTTAATATT-AAT-TTAATAAAATACAT-TAAGATAAACATTAAATTAAATTTAATATTAAGATA
50014645 TTCAC
63 TTCAC
**
50014650 TTTAATATTAATTTAATAAAATACTATTAAGATAAGTATTAAATTAAATTTAATATTAA
1 TTTAATATTAATTTAATAAAATAC-ATTAAGATAAACATTAAATTAAATTTAATATTAA
50014709 ACTATTAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
66 10 0.19
67 4 0.08
68 39 0.74
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (67 bp):
TTTAATATTAATTTAATAAAATACATTAAGATAAACATTAAATTAAATTTAATATTAAGATATTC
AC
Found at i:50016936 original size:48 final size:48
Alignment explanation
Indices: 50016881--50016978 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
50016871 ATTTCTCCAT
50016881 TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
1 TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
50016929 TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
1 TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
50016977 TT
1 TT
50016979 TCATTCATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (48 bp):
TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
Found at i:50019578 original size:41 final size:41
Alignment explanation
Indices: 50019504--50019691 Score: 186
Period size: 40 Copynumber: 4.6 Consensus size: 41
50019494 ATACTAGAAT
* * * *
50019504 TCTCACACATTAAGTGCCAAAACATAGCTGAAGCTATTTTAA
1 TCTCGCACACTAAGTGCC-ATATATAGCTGAAGCTATTTTAA
* * * *
50019546 TCTCGCACACTAAGTGCC-TTTCATAGCCGAAGCTATCTTAG
1 TCTCGCACACTAAGTGCCATAT-ATAGCTGAAGCTATTTTAA
* *
50019587 TCTCGCACACTAAGTGCCACATATAGCTGAAGCTATTTCGAA
1 TCTCGCACACTAAGTGCCATATATAGCTGAAGCTATTT-TAA
* *
50019629 --TCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCAA
1 TCTCGCACACTAAGTGCCATATATAGCTGAAGCTATTTTAA
* * *
50019668 -ATCACACATTAAGTGCCATATATA
1 TCTCGCACACTAAGTGCCATATATA
50019692 TATCCAAATC
Statistics
Matches: 123, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.02
40 55 0.45
41 48 0.39
42 18 0.15
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCATATATAGCTGAAGCTATTTTAA
Found at i:50019653 original size:81 final size:82
Alignment explanation
Indices: 50019504--50019664 Score: 211
Period size: 81 Copynumber: 2.0 Consensus size: 82
50019494 ATACTAGAAT
* * *
50019504 TCTCACACATTAAGTGCCAAAACATAGCTGAAGCTATTTTAATCTCGCACACTAAGTGCCTTTCA
1 TCTCACACACTAAGTGCCAAAACATAGCTGAAGCTATTTGAA-CTCGCACACTAAGTGCCTATCA
50019569 TAGCCGAAGCTATCTTAG
65 TAGCCGAAGCTATCTTAG
* * *
50019587 TCTCGCACACTAAGTGCC-ACATATAGCTGAAGCTATTTCGAA-TCGCACACTAAGTGCCATAT-
1 TCTCACACACTAAGTGCCAAAACATAGCTGAAGCTATTT-GAACTCGCACACTAAGTGCC-TATC
*
50019649 ATAGCTGAAGCTATCT
64 ATAGCCGAAGCTATCT
50019665 CAAATCACAC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
81 31 0.45
82 20 0.29
83 18 0.26
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (82 bp):
TCTCACACACTAAGTGCCAAAACATAGCTGAAGCTATTTGAACTCGCACACTAAGTGCCTATCAT
AGCCGAAGCTATCTTAG
Found at i:50020918 original size:35 final size:35
Alignment explanation
Indices: 50020872--50020938 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
50020862 AAAATCTTAC
* *
50020872 TAGTGAATAGGTTAGGGTATTGTTTTCTCATACCT
1 TAGTGAATAGGTTAGGGTACTATTTTCTCATACCT
50020907 TAGTGAATAGGTTAGGGTACTATTTTCTCATA
1 TAGTGAATAGGTTAGGGTACTATTTTCTCATA
50020939 GCATTCTCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.42
Consensus pattern (35 bp):
TAGTGAATAGGTTAGGGTACTATTTTCTCATACCT
Found at i:50026230 original size:32 final size:32
Alignment explanation
Indices: 50026188--50026260 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
50026178 ACGCCAGAGG
50026188 ACACACGGCCGTGCAACATGACCGTGTGTCAC
1 ACACACGGCCGTGCAACATGACCGTGTGTCAC
*
50026220 ACACATGGCCGTGCAACATGACCGTGTGTCAC
1 ACACACGGCCGTGCAACATGACCGTGTGTCAC
50026252 ACACACGGC
1 ACACACGGC
50026261 TGAGACACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.26, C:0.34, G:0.25, T:0.15
Consensus pattern (32 bp):
ACACACGGCCGTGCAACATGACCGTGTGTCAC
Found at i:50026277 original size:32 final size:32
Alignment explanation
Indices: 50026188--50026278 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
50026178 ACGCCAGAGG
* *
50026188 ACACACGGCCGTGCAACATGACCGTGTGTCAC
1 ACACACGGCCGAGCAACACGACCGTGTGTCAC
* * *
50026220 ACACATGGCCGTGCAACATGACCGTGTGTCAC
1 ACACACGGCCGAGCAACACGACCGTGTGTCAC
* *
50026252 ACACACGGCTGAG-ACACACGTCCGTGT
1 ACACACGGCCGAGCA-ACACGACCGTGT
50026279 CTCTGTCCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 1 0.02
32 51 0.98
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.16
Consensus pattern (32 bp):
ACACACGGCCGAGCAACACGACCGTGTGTCAC
Found at i:50027189 original size:41 final size:41
Alignment explanation
Indices: 50027132--50027277 Score: 183
Period size: 40 Copynumber: 3.6 Consensus size: 41
50027122 ATACTCGAAT
*
50027132 TCTCGCACACTAAGTGCC-TTTCATAGCCGAAGCTATCTCAG
1 TCTCGCACACTAAGTGCCATAT-ATAGCCGAAGCTATCTCAG
* * * *
50027173 TCTCGTACACTAAGTGCCACATATAGCCGAAGCTATTTCAAA
1 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTC-AG
50027215 T-T-GCACACTAAGTGCCATATATAGCCGAAGCTATCTC-G
1 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAG
**
50027253 GATCGCACACTAAGTGCCATATATA
1 TCTCGCACACTAAGTGCCATATATA
50027278 TATCCAAATC
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 53 0.58
41 34 0.37
42 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAG
Found at i:50028616 original size:90 final size:90
Alignment explanation
Indices: 50028439--50028698 Score: 324
Period size: 90 Copynumber: 2.9 Consensus size: 90
50028429 CTGTTTTGGG
* ** * * *
50028439 TTTATTCCTGCCGTTCAACGGATTTTATTTTTGGTTTTGATTTTTATTTCTAGAAGTGAGTTTTT
1 TTTATTCCCGCCGTTCAACGGATTTTA-TTCCGGTTTTGATTTTTATTTCCAAAAATGAG-TTTT
50028504 TAAATTAGAATAAAATCTGTTTC-GATA
64 TAAATTAGAATAAAATCTGTTTCAGA-A
*
50028531 TTTATTCCCGCCGTTTAACGGATTTTATTCCGGTTTTGATTTTTATTTCCAAAAATGAGTTTTTA
1 TTTATTCCCGCCGTTCAACGGATTTTATTCCGGTTTTGATTTTTATTTCCAAAAATGAGTTTTTA
50028596 AATTAGAATAAAATCTGTTTCAGAA
66 AATTAGAATAAAATCTGTTTCAGAA
* ** * * * ** * *
50028621 TTTATTACCATCGCTCAATGGATTTTTTTCCAATTTTTATTTTTATTTCCAAAAATAAGTTTTTA
1 TTTATTCCCGCCGTTCAACGGATTTTATTCCGGTTTTGATTTTTATTTCCAAAAATGAGTTTTTA
*
50028686 AATTTGAATAAAA
66 AATTAGAATAAAA
50028699 ATTTTTTCGC
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
90 94 0.64
91 29 0.20
92 25 0.17
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (90 bp):
TTTATTCCCGCCGTTCAACGGATTTTATTCCGGTTTTGATTTTTATTTCCAAAAATGAGTTTTTA
AATTAGAATAAAATCTGTTTCAGAA
Found at i:50035924 original size:34 final size:34
Alignment explanation
Indices: 50035886--50035951 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
50035876 TTTCGGAGAG
*
50035886 TTTGATCTGATACTGGGGATGGATTGGTTGGTTA
1 TTTGATCTGATACTAGGGATGGATTGGTTGGTTA
50035920 TTTGATCTGATACTAGGGATGGATTGGTTGGT
1 TTTGATCTGATACTAGGGATGGATTGGTTGGT
50035952 CAAGCAACGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.18, C:0.06, G:0.35, T:0.41
Consensus pattern (34 bp):
TTTGATCTGATACTAGGGATGGATTGGTTGGTTA
Found at i:50037495 original size:21 final size:21
Alignment explanation
Indices: 50037469--50037509 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
50037459 TGGTAAGGAT
*
50037469 AATGTAGTGGCTGACGCACTG
1 AATGTAGTGGCTAACGCACTG
50037490 AATGTAGTGGCTAACGCACT
1 AATGTAGTGGCTAACGCACT
50037510 TAGCCGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (21 bp):
AATGTAGTGGCTAACGCACTG
Found at i:50041979 original size:13 final size:13
Alignment explanation
Indices: 50041961--50041987 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50041951 GCTCGGCAAG
50041961 GACACGCCCGTGT
1 GACACGCCCGTGT
50041974 GACACGCCCGTGT
1 GACACGCCCGTGT
50041987 G
1 G
50041988 CGATTACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:50042683 original size:18 final size:18
Alignment explanation
Indices: 50042660--50042742 Score: 100
Period size: 18 Copynumber: 4.6 Consensus size: 18
50042650 ATAATAAGTG
50042660 ACGTTTTGAAAGTAAATA
1 ACGTTTTGAAAGTAAATA
50042678 ACGTTTTGAAAGTAAATA
1 ACGTTTTGAAAGTAAATA
50042696 ACGTTTTGAAAG-AGAATA
1 ACGTTTTGAAAGTA-AATA
* *
50042714 AC-TTTGTGATAA-TGAATT
1 ACGTTT-TGA-AAGTAAATA
50042732 ACGTTTTGAAA
1 ACGTTTTGAAA
50042743 ATGAATGACA
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.10
18 47 0.81
19 5 0.09
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (18 bp):
ACGTTTTGAAAGTAAATA
Found at i:50042703 original size:36 final size:36
Alignment explanation
Indices: 50042650--50042742 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 36
50042640 AAAAGCTTCC
* *
50042650 ATAATAAGTGACGTTTTGAAAGTA-AATAACGTTT-TG
1 ATAATAAATAACGTTTTGAAAG-AGAATAAC-TTTGTG
50042686 A-AAGTAAATAACGTTTTGAAAGAGAATAACTTTGTG
1 ATAA-TAAATAACGTTTTGAAAGAGAATAACTTTGTG
* *
50042722 ATAATGAATTACGTTTTGAAA
1 ATAATAAATAACGTTTTGAAA
50042743 ATGAATGACA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
35 6 0.12
36 41 0.84
37 2 0.04
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.34
Consensus pattern (36 bp):
ATAATAAATAACGTTTTGAAAGAGAATAACTTTGTG
Found at i:50045634 original size:20 final size:19
Alignment explanation
Indices: 50045606--50045675 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
50045596 AAAGTTAAAA
*
50045606 AAAAATCAAAATAATTTTC
1 AAAATTCAAAATAATTTTC
*
50045625 AAATATTCAAAATAATTTTT
1 AAA-ATTCAAAATAATTTTC
*
50045645 AAAATTCAAAAT-ATTTATA
1 AAAATTCAAAATAATTT-TC
50045664 AAAATTCTAAAA
1 AAAATTC-AAAA
50045676 ATTATATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.09
19 20 0.44
20 21 0.47
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:50045653 original size:19 final size:19
Alignment explanation
Indices: 50045606--50045690 Score: 82
Period size: 19 Copynumber: 4.2 Consensus size: 19
50045596 AAAGTTAAAA
* *
50045606 AAAAATCAAAATAATTTTC
1 AAAATTCAAAATAATTTTT
50045625 AAATATTCAAAATAATTTTT
1 AAA-ATTCAAAATAATTTTT
*
50045645 AAAATTCAAAAT-ATTTATA
1 AAAATTCAAAATAATTT-TT
50045664 AAAATTCTAAAAATTATATTTTT
1 AAAATTC--AAAA-TA-ATTTTT
50045687 AAAA
1 AAAA
50045691 AATTATAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.07
19 20 0.36
20 17 0.31
21 4 0.07
22 1 0.02
23 5 0.09
24 4 0.07
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:50047797 original size:13 final size:13
Alignment explanation
Indices: 50047779--50047807 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
50047769 AGCACTCATT
50047779 AGTCAATATGAAA
1 AGTCAATATGAAA
50047792 AGTCAATATGAAA
1 AGTCAATATGAAA
50047805 AGT
1 AGT
50047808 TATTACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.24
Consensus pattern (13 bp):
AGTCAATATGAAA
Found at i:50048020 original size:2 final size:2
Alignment explanation
Indices: 50048013--50048039 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50048003 ACAAGTGAAG
50048013 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50048040 TTTAAGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50053635 original size:3 final size:3
Alignment explanation
Indices: 50053622--50053663 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
50053612 CAAGTTAATT
50053622 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
50053664 ATTTACTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50056699 original size:55 final size:55
Alignment explanation
Indices: 50056600--50056739 Score: 140
Period size: 55 Copynumber: 2.5 Consensus size: 55
50056590 TACGACATGG
* ** * *
50056600 CCGTGGAC-GAACCTGCCAAAACAACACGGGCGTGCGACAAGCCCGTGCCTTA-AAA
1 CCGTGG-CTGAACCTGTCAAATTAACACGGGCATGAGACAAGCCCGTGCC-TAGAAA
* * * * *
50056655 CCGTGGCTGAACCTGTCAAATTAACATGGGCATGAGACACGCCCGTGTCTAGCAC
1 CCGTGGCTGAACCTGTCAAATTAACACGGGCATGAGACAAGCCCGTGCCTAGAAA
* *
50056710 CCGTGGTTGAACCTGTTAAATTAACACGGG
1 CCGTGGCTGAACCTGTCAAATTAACACGGG
50056740 TGTGGGCCTA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 3 0.04
55 67 0.96
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.18
Consensus pattern (55 bp):
CCGTGGCTGAACCTGTCAAATTAACACGGGCATGAGACAAGCCCGTGCCTAGAAA
Found at i:50057279 original size:23 final size:23
Alignment explanation
Indices: 50057253--50057299 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
50057243 CATTCTATTG
*
50057253 TCATGCCCATGCCATTACTATGC
1 TCATGCCCATGCCATTACCATGC
* * *
50057276 TCATTCTCATGCTATTACCATGC
1 TCATGCCCATGCCATTACCATGC
50057299 T
1 T
50057300 AATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (23 bp):
TCATGCCCATGCCATTACCATGC
Found at i:50062926 original size:37 final size:37
Alignment explanation
Indices: 50062820--50062928 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
50062810 AGCTCAGACG
* * * *
50062820 AAATCTCCACATGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
50062857 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
50062894 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
50062929 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:50063147 original size:46 final size:46
Alignment explanation
Indices: 50063079--50063259 Score: 131
Period size: 46 Copynumber: 3.9 Consensus size: 46
50063069 TATATATACA
* * *
50063079 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
50063125 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT-
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * * * *
50063170 -AT-TCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCCATATATG
1 CATCTCA--TACACA-TC-TCACATTAGCCATTCGGCCTTA-CCACATATC
* * *
50063219 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACA
50063260 CATACGTAAG
Statistics
Matches: 111, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
43 3 0.03
44 2 0.02
45 7 0.06
46 69 0.62
47 20 0.18
48 7 0.06
50 2 0.02
51 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:50063207 original size:47 final size:47
Alignment explanation
Indices: 50063143--50063477 Score: 501
Period size: 47 Copynumber: 7.1 Consensus size: 47
50063133 ACACGTTTCG
* * * **
50063143 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
50063190 CATTGGCCATTCAGCCTTATC-CATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
50063236 CATTGGCCATTCGGCCTTATCACACATACGTAAGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
50063283 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
50063330 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
50063381 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
50063428 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
50063475 CAT
1 CAT
50063478 AAAATCCTAA
Statistics
Matches: 265, Mismatches: 18, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
46 44 0.17
47 177 0.67
51 44 0.17
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:50063412 original size:98 final size:96
Alignment explanation
Indices: 50063143--50063455 Score: 494
Period size: 98 Copynumber: 3.3 Consensus size: 96
50063133 ACACGTTTCG
* * *
50063143 CATTAGCCATTCGGCCTTA-C-CACATATAT-TCATGTTCACATTCATCACATTGGCCATTCAGC
1 CATTGGCCATTCGGCCTTATCACACATATATAT-ACGTTCACATTCATCACATTGGCCATTCGGC
* *
50063205 CTTATC-CATATATGCATGTTCACATTCATCA
65 CTTATCACACATACGCATGTTCACATTCATCA
**
50063236 CATTGGCCATTCGGCCTTATCACACATACGTA-A-GTTCACATTCATCACATTGGCCATTCGGCC
1 CATTGGCCATTCGGCCTTATCACACATATATATACGTTCACATTCATCACATTGGCCATTCGGCC
50063299 TTATCACACATACGCATGTTCACATTCATCA
66 TTATCACACATACGCATGTTCACATTCATCA
50063330 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATAC--GTTCACATTCATCACATTGGCCATTCGG
50063395 CCTTATCACACATACGCATGTTCACATTCATCA
64 CCTTATCACACATACGCATGTTCACATTCATCA
50063428 CATTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
50063456 CGCATGTTCA
Statistics
Matches: 204, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
93 52 0.25
94 55 0.27
95 8 0.04
98 89 0.44
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (96 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACGTTCACATTCATCACATTGGCCATTCGGCC
TTATCACACATACGCATGTTCACATTCATCA
Found at i:50063418 original size:145 final size:140
Alignment explanation
Indices: 50063143--50063477 Score: 517
Period size: 145 Copynumber: 2.4 Consensus size: 140
50063133 ACACGTTTCG
* * * **
50063143 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCAGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTT
* * *
50063208 ATCCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGTAAGTTC
66 ATCCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAAGTTC
50063273 ACATTCATCA
131 ACATTCATCA
*
50063283 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTT
*
50063348 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 AT--C-C--ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
*
50063413 TGTTCACATTCATCA
126 AGTTCACATTCATCA
*
50063428 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
50063478 AAAATCCTAA
Statistics
Matches: 178, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
140 61 0.34
142 1 0.01
143 1 0.01
145 115 0.65
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (140 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTT
ATCCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAAGTTC
ACATTCATCA
Found at i:50070557 original size:31 final size:31
Alignment explanation
Indices: 50070502--50070579 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
50070492 CTCAACATAT
*
50070502 ACTGGGCTGAAGCC-TTTCATAATTCATAAC
1 ACTGGGCTGAAGCCTTTTCAAAATTCATAAC
** *
50070532 ACTGGGCCAAAGCCTTTTCAAAATTCATATC
1 ACTGGGCTGAAGCCTTTTCAAAATTCATAAC
50070563 ACTGGGCTGAAGCCTTT
1 ACTGGGCTGAAGCCTTT
50070580 ACTGTAAGCG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 12 0.29
31 29 0.71
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCTGAAGCCTTTTCAAAATTCATAAC
Found at i:50070818 original size:24 final size:25
Alignment explanation
Indices: 50070771--50070819 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
50070761 CTGCTTTATC
**
50070771 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCAAAGCCTCTTTTA
*
50070796 ATAACTGG-GGCAAAGCCTTTTTTA
1 ATAACTGGAGGCAAAGCCTCTTTTA
50070820 CACTTCCTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (25 bp):
ATAACTGGAGGCAAAGCCTCTTTTA
Found at i:50070901 original size:11 final size:10
Alignment explanation
Indices: 50070885--50070921 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
50070875 CATCTCGTAA
50070885 CATATCATGT
1 CATATCATGT
50070895 GCATATCATGT
1 -CATATCATGT
50070906 CATATCATGT
1 CATATCATGT
50070916 -ATATCA
1 CATATCA
50070922 AAATCCATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:50070909 original size:21 final size:21
Alignment explanation
Indices: 50070865--50070915 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
50070855 TATAATGAGT
* *
50070865 ATATCATGTGCATCTCGTAAC
1 ATATCATGTGCATATCATAAC
**
50070886 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
50070907 ATATCATGT
1 ATATCATGT
50070916 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:50070997 original size:25 final size:25
Alignment explanation
Indices: 50070951--50070999 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
50070941 ATAATTAAAC
* * *
50070951 CCTAGGGGTACAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
*
50070976 CCTAGGGGCAAAATAGTTATTTTT
1 CCTAGGGGCAAAATAGTCATTTTT
50071000 CATATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:50078978 original size:6 final size:6
Alignment explanation
Indices: 50078967--50079088 Score: 181
Period size: 6 Copynumber: 20.3 Consensus size: 6
50078957 TGTTATTTTC
50078967 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * * *
50079015 ATTATT ATTATT ATTATT ATTATT ATTCTT ATTCTT ATTCTT ATTCTT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * *
50079063 ATTCTT ATTCTT ATTCTT ATTATT AT
1 ATTATT ATTATT ATTATT ATTATT AT
50079089 GTGCTTTTGT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 114 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTATT
Found at i:50079199 original size:3 final size:3
Alignment explanation
Indices: 50079191--50079218 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
50079181 ATATTTCAAC
50079191 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
50079219 CCAATGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:50079250 original size:25 final size:26
Alignment explanation
Indices: 50079222--50079271 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
50079212 ATTATTACCA
* *
50079222 ATGTTTATATATGT-TTTATGTATAT
1 ATGTATATATATGTATTTACGTATAT
50079247 ATGTATATATATGTATTTACGTATA
1 ATGTATATATATGTATTTACGTATA
50079272 GGCTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (26 bp):
ATGTATATATATGTATTTACGTATAT
Found at i:50083925 original size:10 final size:10
Alignment explanation
Indices: 50083910--50083938 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
50083900 AGTTATGAAA
50083910 AAAAAAAAAC
1 AAAAAAAAAC
50083920 AAAAAAAAAC
1 AAAAAAAAAC
50083930 AAAAAAAAA
1 AAAAAAAAA
50083939 AAAGGACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:50083947 original size:26 final size:25
Alignment explanation
Indices: 50083907--50083963 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 25
50083897 GACAGTTATG
50083907 AAAAAAAAAAAACAA-AAAAAAACA
1 AAAAAAAAAAAACAAGAAAAAAACA
50083931 AAAAAAAAAAAGGACAAGAAAAAAACA
1 AAAAAAAAAAA--ACAAGAAAAAAACA
50083958 AAAAAA
1 AAAAAA
50083964 GAAATCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 11 0.37
26 4 0.13
27 15 0.50
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAACAAGAAAAAAACA
Found at i:50083961 original size:1 final size:1
Alignment explanation
Indices: 50083907--50083941 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
50083897 GACAGTTATG
* *
50083907 AAAAAAAAAAAACAAAAAAAAACAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
50083942 GGACAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:50086425 original size:145 final size:145
Alignment explanation
Indices: 50086150--50086889 Score: 1367
Period size: 145 Copynumber: 5.1 Consensus size: 145
50086140 TAATGCTTTT
50086150 ATTTCTG--TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGCTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
50086213 GTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
65 GTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
50086278 CGTTGAGGTATTTTCA
130 CATTGAGGTATTTTCA
50086294 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
50086359 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
50086424 GTTGAGGTATTTTCA
131 ATTGAGGTATTTTCA
50086439 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
50086504 TAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
50086569 ATTGAGGTATTTTCA
131 ATTGAGGTATTTTCA
* *
50086584 ATTTTTTCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
50086649 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
* *
50086714 ATTGAGCTATTTTTA
131 ATTGAGGTATTTTCA
*
50086729 ATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
50086794 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
50086859 ATTGAGGTATTTTCA
131 ATTGAGGTATTTTCA
**
50086874 AAATCTGCTTTTCAAA
1 ATTTCTGCTTTTCAAA
50086890 TTAAGTTTCA
Statistics
Matches: 581, Mismatches: 13, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
144 7 0.01
145 570 0.98
146 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (145 bp):
ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
ATTGAGGTATTTTCA
Found at i:50086891 original size:72 final size:72
Alignment explanation
Indices: 50086150--50086889 Score: 1275
Period size: 72 Copynumber: 10.2 Consensus size: 72
50086140 TAATGCTTTT
50086150 ATTTCTG-TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
50086214 TAATTTCA
65 TAATTTCA
50086222 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
*
50086287 ATTTTCA
66 AATTTCA
50086294 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
50086359 TAATTTCA
65 TAATTTCA
50086367 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
*
50086432 ATTTTCA
66 AATTTCA
50086439 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
50086504 TAATTTCA
65 TAATTTCA
* *
50086512 ATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
*
50086577 ATTTTCA
66 AATTTCA
* *
50086584 ATTTTTTCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 A-TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
50086649 TAATTTCA
65 TAATTTCA
* *
50086657 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGCT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* *
50086722 ATTTTTA
66 AATTTCA
*
50086729 ATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
50086794 TAATTTCA
65 TAATTTCA
*
50086802 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
*
50086867 ATTTTCA
66 AATTTCA
**
50086874 AAATCTGCTTTTCAAA
1 ATTTCTG-TTTTCAAA
50086890 TTAAGTTTCA
Statistics
Matches: 636, Mismatches: 26, Indels: 11
0.95 0.04 0.02
Matches are distributed among these distances:
72 347 0.55
73 289 0.45
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
AATTTCA
Found at i:50086958 original size:54 final size:54
Alignment explanation
Indices: 50086895--50087152 Score: 453
Period size: 54 Copynumber: 4.8 Consensus size: 54
50086885 TCAAATTAAG
50086895 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCCTGTT
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCCTGTT
* * *
50086950 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCCTGTT
* *
50087004 TTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTCCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCCTGTT
*
50087058 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCCTGTT
50087112 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
50087153 CGGGTCACAT
Statistics
Matches: 194, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
54 190 0.98
55 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (54 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCCTGTT
Found at i:50088836 original size:3 final size:3
Alignment explanation
Indices: 50088828--50088911 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
50088818 GTTATTTTCA
50088828 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50088876 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50088912 GTGCTTTTGT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:50089071 original size:25 final size:26
Alignment explanation
Indices: 50089043--50089092 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
50089033 ATTATTACCA
* *
50089043 ATGTTTATATATGT-TTTATGTATAT
1 ATGTATATATATGTATTTACGTATAT
50089068 ATGTATATATATGTATTTACGTATA
1 ATGTATATATATGTATTTACGTATA
50089093 GGCTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (26 bp):
ATGTATATATATGTATTTACGTATAT
Found at i:50089350 original size:12 final size:11
Alignment explanation
Indices: 50089319--50089378 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 11
50089309 TGTTATATAC
50089319 GTATATATT-T
1 GTATATATTAT
50089329 -TATATATTAT
1 GTATATATTAT
50089339 GTATATTATTAT
1 GTATA-TATTAT
*
50089351 -T-TTTATTA-
1 GTATATATTAT
*
50089359 -TACATATTAT
1 GTATATATTAT
50089369 GTATATATTA
1 GTATATATTA
50089379 AATATCGTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 1 0.03
9 18 0.45
10 2 0.05
11 13 0.32
12 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (11 bp):
GTATATATTAT
Found at i:50098642 original size:47 final size:47
Alignment explanation
Indices: 50098588--50098923 Score: 456
Period size: 47 Copynumber: 7.1 Consensus size: 47
50098578 TTAGGATTTT
** * *
50098588 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
50098635 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATAT--GTGATAAGGCCGAATGGCCA
** * *
50098686 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
50098733 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*** *
50098780 ATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
** *
50098827 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
50098874 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
50098921 ATG
1 ATG
50098924 CGAAATGTGT
Statistics
Matches: 266, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 218 0.82
49 11 0.04
51 37 0.14
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:50098762 original size:25 final size:24
Alignment explanation
Indices: 50098687--50098764 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
50098677 GAATGGCCAA
50098687 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATG-GTATG
* * *
50098712 TGTGAT-AAGGCTG-A-ATGGCCA-A
1 TGTGATGAATG-TGAACATGG-TATG
50098734 TGTGATGAATGTGAACATGTGTATG
1 TGTGATGAATGTGAACATG-GTATG
50098759 TGTGAT
1 TGTGAT
50098765 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 15 0.38
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (24 bp):
TGTGATGAATGTGAACATGGTATG
Found at i:50098856 original size:141 final size:143
Alignment explanation
Indices: 50098588--50098923 Score: 532
Period size: 141 Copynumber: 2.3 Consensus size: 143
50098578 TTAGGATTTT
** *
50098588 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
*
50098653 TGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 --TATACATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
*
50098718 AAGGCTGAATGGCCA
129 AAGGCCGAATGGCCA
* * *
50098733 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
* *
50098797 -ATACGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAA
66 TATACATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAA
50098861 GGCCGAATGGCCA
131 GGCCGAATGGCCA
* *
50098874 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCAAATG
50098924 CGAAATGTGT
Statistics
Matches: 177, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
141 119 0.67
144 1 0.01
145 57 0.32
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (143 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
TATACATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAA
GGCCGAATGGCCA
Found at i:50099079 original size:46 final size:46
Alignment explanation
Indices: 50098897--50099061 Score: 267
Period size: 46 Copynumber: 3.6 Consensus size: 46
50098887 GAACATGTAT
* * *
50098897 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATAG
*
50098943 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGCGTATGAGATAG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATAG
*
50098989 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATAG
* *
50099035 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGAGGTAAAGCCGAATGGCTAATG
50099062 TGAGATATGT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 111 1.00
ACGTcount: A:0.35, C:0.11, G:0.31, T:0.23
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATAG
Found at i:50106734 original size:40 final size:40
Alignment explanation
Indices: 50106670--50106752 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
50106660 AATAACTGAA
* * * * *
50106670 TGATTGCACATACGTGTCCTTATTTGTACTTGGGTACCCC
1 TGATTACACATACATGCCCCTATTTGTACTTCGGTACCCC
*
50106710 TGATTACACATACATGCCCCTATTTGTACTTCGGTACGCC
1 TGATTACACATACATGCCCCTATTTGTACTTCGGTACCCC
50106750 TGA
1 TGA
50106753 ACTCAATTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (40 bp):
TGATTACACATACATGCCCCTATTTGTACTTCGGTACCCC
Found at i:50141060 original size:23 final size:23
Alignment explanation
Indices: 50141034--50141080 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
50141024 TTAGGGTTGT
50141034 TACATTTATTGGTATTAGAACTA
1 TACATTTATTGGTATTAGAACTA
50141057 TACATTTATTGGTATTAGAACTA
1 TACATTTATTGGTATTAGAACTA
50141080 T
1 T
50141081 GGTTTAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.45
Consensus pattern (23 bp):
TACATTTATTGGTATTAGAACTA
Found at i:50143164 original size:28 final size:28
Alignment explanation
Indices: 50143094--50143164 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
50143084 GCAATCAAAT
* * *
50143094 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
50143122 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
50143150 ATGTCACTTAGTGTG
1 ATGGCACTTAGTGTG
50143165 AAAAATATCG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:50143172 original size:28 final size:28
Alignment explanation
Indices: 50143111--50143172 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
50143101 TCAGTGTACG
**
50143111 AAATATTGAGAATGGCACTTAGTGTGCG
1 AAATATTGAGAATGGCACTTAGTGTGAA
* *
50143139 AGATATTGAGAATGTCACTTAGTGTGAA
1 AAATATTGAGAATGGCACTTAGTGTGAA
50143167 AAATAT
1 AAATAT
50143173 CGAATGATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGGCACTTAGTGTGAA
Found at i:50146208 original size:18 final size:18
Alignment explanation
Indices: 50146185--50146221 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50146175 AGAGTATATA
50146185 TGGCATATATAGCTAGAT
1 TGGCATATATAGCTAGAT
50146203 TGGCATATATAGCTAGAT
1 TGGCATATATAGCTAGAT
50146221 T
1 T
50146222 CTCATACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (18 bp):
TGGCATATATAGCTAGAT
Found at i:50146227 original size:18 final size:18
Alignment explanation
Indices: 50146187--50146227 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
50146177 AGTATATATG
*
50146187 GCATATATAGCTAGATTG
1 GCATATATAGCTAGATTC
50146205 GCATATATAGCTAGATTC
1 GCATATATAGCTAGATTC
*
50146223 TCATA
1 GCATA
50146228 CAAGCTACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (18 bp):
GCATATATAGCTAGATTC
Found at i:50157112 original size:40 final size:40
Alignment explanation
Indices: 50157075--50157164 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
50157065 TTGTGGCATG
* * *
50157075 TAGTGTGTGATTCGACATAGCTTTGGCTATATATGGCACT
1 TAGTGTGCGATTCGACATAGCTTCGACTATATATGGCACT
* * *
50157115 TAGTGTGCGATTTGAGATAGCTTCGACTATGTATGGCACT
1 TAGTGTGCGATTCGACATAGCTTCGACTATATATGGCACT
50157155 TAGTGTGCGA
1 TAGTGTGCGA
50157165 GATATCGAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (40 bp):
TAGTGTGCGATTCGACATAGCTTCGACTATATATGGCACT
Found at i:50157211 original size:28 final size:28
Alignment explanation
Indices: 50157145--50157215 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
50157135 CTTCGACTAT
50157145 GTATGGCACTTAGTGTGCGAGATATCGA
1 GTATGGCACTTAGTGTGCGAGATATCGA
* * * *
50157173 GTGTGGTACTTAGTGTGTGTGATATCGA
1 GTATGGCACTTAGTGTGCGAGATATCGA
*
50157201 GTATGACACTTAGTG
1 GTATGGCACTTAGTG
50157216 CGAGGCATTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.34
Consensus pattern (28 bp):
GTATGGCACTTAGTGTGCGAGATATCGA
Found at i:50159984 original size:27 final size:28
Alignment explanation
Indices: 50159923--50160282 Score: 156
Period size: 27 Copynumber: 13.3 Consensus size: 28
50159913 TTTAGTTTAC
* *
50159923 AAAATTACTGAAATA-CCCTCGATTTTGT
1 AAAATTACTAAAATACCCCTAGA-TTTGT
50159951 AAAATTACTAAAATACCCCTAG-TTTGT
1 AAAATTACTAAAATACCCCTAGATTTGT
50159978 AAAATTACTAAAATACCCCCT-GATTTGT
1 AAAATTACTAAAATA-CCCCTAGATTTGT
* * *
50160006 AAAATTACTGAAATA-CCCTCGACTTGT
1 AAAATTACTAAAATACCCCTAGATTTGT
* * * *
50160033 AAAATTACCAAAGTA-CCCTCGATTTAT
1 AAAATTACTAAAATACCCCTAGATTTGT
* **** * * **
50160060 AGAATTACTGTTTTA-CTCTTGATTTAC
1 AAAATTACTAAAATACCCCTAGATTTGT
* **** * **
50160087 AGAATTACTGTTTTA-CCCTCGATTTAC
1 AAAATTACTAAAATACCCCTAGATTTGT
***** *
50160114 AAAATTACCGTTTTA-CCCTCGA-TTGT
1 AAAATTACTAAAATACCCCTAGATTTGT
* * * **
50160140 GAAATTACTGAAATACCCCTATA-GGGT
1 AAAATTACTAAAATACCCCTAGATTTGT
* *
50160167 AGAATTACCAAAATACCCCTAG-TTTGT
1 AAAATTACTAAAATACCCCTAGATTTGT
* * *
50160194 AAAATTACCAAAATACCACT-GGTTTGT
1 AAAATTACTAAAATACCCCTAGATTTGT
* ** *
50160221 GAAATTACCGAAATA-CCCTCA-ATTTTT
1 AAAATTACTAAAATACCCCT-AGATTTGT
* *
50160248 AAAATTACCAAAATACCCCT-GATTTAT
1 AAAATTACTAAAATACCCCTAGATTTGT
50160275 AAAATTAC
1 AAAATTAC
50160283 AGAAAAACCC
Statistics
Matches: 271, Mismatches: 50, Indels: 23
0.79 0.15 0.07
Matches are distributed among these distances:
26 20 0.07
27 204 0.75
28 42 0.15
29 5 0.02
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCTAGATTTGT
Found at i:50159992 original size:55 final size:55
Alignment explanation
Indices: 50159923--50160057 Score: 175
Period size: 55 Copynumber: 2.5 Consensus size: 55
50159913 TTTAGTTTAC
* *
50159923 AAAATTACTGAAATACCCTCGATTTTGTAAAATTACTAAAATACCCCTAG-TTTGT
1 AAAATTACTAAAATACCCTCGATTTTGTAAAATTACTAAAATA-CCCTAGACTTGT
* * *
50159978 AAAATTACTAAAATACCCCCTGA-TTTGTAAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACTAAAATACCCTC-GATTTTGTAAAATTACTAAAATACCCTAGACTTGT
* *
50160033 AAAATTACCAAAGTACCCTCGATTT
1 AAAATTACTAAAATACCCTCGATTT
50160058 ATAGAATTAC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
54 7 0.10
55 60 0.87
56 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (55 bp):
AAAATTACTAAAATACCCTCGATTTTGTAAAATTACTAAAATACCCTAGACTTGT
Found at i:50160280 original size:54 final size:54
Alignment explanation
Indices: 50159923--50160293 Score: 198
Period size: 54 Copynumber: 6.9 Consensus size: 54
50159913 TTTAGTTTAC
* ** *
50159923 AAAATTACTGAAATA-CCCTCGATTTTGTAAAATTACTAAAATACCC-CTAGTTTGT
1 AAAATTACTAAAATACCCCT-GA-TTTGTAAAATTACCGAAATACCCTC-AATTTGT
* * *
50159978 AAAATTACTAAAATACCCCCTGATTTGTAAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACTAAAATA-CCCCTGATTTGTAAAATTACCGAAATACCCTCAATTTGT
* * * * * *** * ** **
50160033 AAAATTACCAAAGTA-CCCTCGATTTATAGAATTACTGTTTTACTCTTGATTTAC
1 AAAATTACTAAAATACCCCT-GATTTGTAAAATTACCGAAATACCCTCAATTTGT
* **** ** *** *
50160087 AGAATTACTGTTTTA-CCCTCGATTTACAAAATTACCGTTTTACCCTCGA-TTGT
1 AAAATTACTAAAATACCCCT-GATTTGTAAAATTACCGAAATACCCTCAATTTGT
* * ** * * *
50160140 GAAATTACTGAAATACCCCT-ATAGGGTAGAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACTAAAATACCCCTGAT-TTGTAAAATTACCGAAATACCCTC-AATTTGT
* * * * *
50160194 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTTT
1 AAAATTACTAAAATACCCCTGATTTGTAAAATTACCGAAATACCCTCAATTTGT
* * * *
50160248 AAAATTACCAAAATACCCCTGATTTATAAAATTACAGAAAAACCCT
1 AAAATTACTAAAATACCCCTGATTTGTAAAATTACCGAAATACCCT
50160294 TGACTTTCTA
Statistics
Matches: 242, Mismatches: 64, Indels: 21
0.74 0.20 0.06
Matches are distributed among these distances:
52 3 0.01
53 29 0.12
54 148 0.61
55 55 0.23
56 3 0.01
57 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (54 bp):
AAAATTACTAAAATACCCCTGATTTGTAAAATTACCGAAATACCCTCAATTTGT
Found at i:50160355 original size:27 final size:27
Alignment explanation
Indices: 50160248--50160355 Score: 76
Period size: 27 Copynumber: 3.9 Consensus size: 27
50160238 CTCAATTTTT
** * * *
50160248 AAAATTACCAAAATACCCCTGATTTAT
1 AAAATTACTGAAATACCCTTGGTTTAC
* * *
50160275 AAAATTACAGAAAAACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
* *
50160302 TAAAAATTA-TAGAAATACCATTAGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
50160331 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
50160356 GTAGATTTAA
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
27 38 0.61
28 7 0.11
29 17 0.27
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:50160439 original size:27 final size:27
Alignment explanation
Indices: 50160396--50160469 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
50160386 AAATTACTAC
*
50160396 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
50160423 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
50160450 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
50160470 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:50160473 original size:27 final size:27
Alignment explanation
Indices: 50160409--50160473 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
50160399 ACCCCTAATA
*
50160409 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
50160436 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
50160463 GGTAAAATGAC
1 GGTAAAATGAC
50160474 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:50161126 original size:25 final size:25
Alignment explanation
Indices: 50161097--50161144 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
50161087 TTATAATGTG
50161097 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACTGTTTTGCCCCTAGGTA
*
50161122 AAAATGACTGTTTTGCCCTTAGG
1 AAAATGACTGTTTTGCCCCTAGG
50161145 GTTTAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
AAAATGACTGTTTTGCCCCTAGGTA
Found at i:50161205 original size:20 final size:20
Alignment explanation
Indices: 50161171--50161246 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
50161161 GATACGTGGG
50161171 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
50161188 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
* *
50161209 GCATGATATGGACATGATAT
1 GTATGATATGCACATGATAT
*
50161229 GTATGAAATGCACATGAT
1 GTATGATATGCACATGAT
50161247 GAATTCATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.16
20 39 0.78
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:50161207 original size:11 final size:10
Alignment explanation
Indices: 50161173--50161229 Score: 66
Period size: 9 Copynumber: 5.8 Consensus size: 10
50161163 TACGTGGGGT
50161173 ATGATAT-AC
1 ATGATATGAC
*
50161182 ATGAT-TGAT
1 ATGATATGAC
50161191 ATGATATGCAC
1 ATGATATG-AC
50161202 ATGATATG-C
1 ATGATATGAC
50161211 ATGATATGGAC
1 ATGATAT-GAC
50161222 ATGATATG
1 ATGATATG
50161230 TATGAAATGC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 1 0.02
9 19 0.46
10 4 0.10
11 17 0.41
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (10 bp):
ATGATATGAC
Found at i:50161393 original size:25 final size:26
Alignment explanation
Indices: 50161296--50161418 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
50161286 GAGGAAGTGC
*
50161296 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
50161322 AAAAGGACTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
50161348 AAAAGGCCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
50161374 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
50161399 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
50161419 ATTAAAGAGG
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 33 0.37
26 57 0.63
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:50161622 original size:42 final size:42
Alignment explanation
Indices: 50161563--50161654 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
50161553 TAGTCTCCCC
*
50161563 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
50161605 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
50161647 AAATGGGC
1 AAATGGGC
50161655 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:50168169 original size:39 final size:40
Alignment explanation
Indices: 50168113--50168219 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
50168103 TCGATGAAAA
* * *
50168113 TCGGCTATTTGTGGCACTTAGTGTGTGA-TCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
* * *
50168152 TTGGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
*
50168192 TCGGCTATGTATGGCACTTAGTGTGCGA
1 TCGGCTATATATGGCACTTAGTGTGCGA
50168220 GATATCGAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 24 0.41
40 35 0.59
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.36
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
Found at i:50168243 original size:28 final size:28
Alignment explanation
Indices: 50168200--50168276 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
50168190 CTTCGGCTAT
50168200 GTATGGCACTTAGTGTGCGAGATATCGAA
1 GTATGGCACTTAGTGTGCGAGATATC-AA
* *
50168229 -TGTGGCACTTAGTGTGTGAGATATCAA
1 GTATGGCACTTAGTGTGCGAGATATCAA
50168256 GTATGGCACTTAGTGTGCGAG
1 GTATGGCACTTAGTGTGCGAG
50168277 GCATTGAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.05
28 41 0.95
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (28 bp):
GTATGGCACTTAGTGTGCGAGATATCAA
Found at i:50173206 original size:24 final size:25
Alignment explanation
Indices: 50173174--50173241 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
50173164 CAAGCTTTCT
50173174 TGGTTCTTTGTGAGCTTCCCAA-TA
1 TGGTTCTTTGTGAGCTTCCCAATTA
*
50173198 TGGTTCTTTGTGAACTTCCCAATTA
1 TGGTTCTTTGTGAGCTTCCCAATTA
* *
50173223 TGGCTC-TTATGAGCTTCCC
1 TGGTTCTTTGTGAGCTTCCC
50173242 GTTATATAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 32 0.82
25 7 0.18
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (25 bp):
TGGTTCTTTGTGAGCTTCCCAATTA
Found at i:50181085 original size:18 final size:18
Alignment explanation
Indices: 50181062--50181120 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
50181052 TAGCCCATTT
*
50181062 CAGTAACAGTCATCAGTG
1 CAGTAACAGTAATCAGTG
* *
50181080 CAGTAACCA-TGATCAATG
1 CAGTAA-CAGTAATCAGTG
* *
50181098 TAGTAATAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
50181116 CAGTA
1 CAGTA
50181121 TGCAAGCAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 29 0.91
19 2 0.06
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:50181404 original size:23 final size:23
Alignment explanation
Indices: 50181378--50181427 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
50181368 ACCCCATGCA
50181378 ATGCAACATA-ATATCATACATGG-
1 ATGCAACATACATAT-A-ACATGGC
50181401 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
50181424 ATGC
1 ATGC
50181428 TCAAATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:50181576 original size:27 final size:27
Alignment explanation
Indices: 50181463--50181578 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 27
50181453 AAAAAATCTA
* ** * *
50181463 TCATTTTACCATATCGGGGTATTACAG
1 TCATTTTACCCTATAAGGGTATTTCGG
* * *
50181490 TCATTCTACCCAACAAGGGTATTTCGG
1 TCATTTTACCCTATAAGGGTATTTCGG
* *
50181517 TCATTCTACCCTATTAGGGTATTTCGG
1 TCATTTTACCCTATAAGGGTATTTCGG
*
50181544 TCATTTTACCCTATAAGGGTATTTTGG
1 TCATTTTACCCTATAAGGGTATTTCGG
*
50181571 TTATTTTA
1 TCATTTTA
50181579 TCACATAAGG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATAAGGGTATTTCGG
Done.