Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 436 of 438
Found at i:134517804 original size:11 final size:12
Alignment explanation
Indices: 134517776--134517821 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
134517766 TTTTAAAAAT
134517776 TAAA-TTTTTTA
1 TAAATTTTTTTA
*
134517787 TATATTTTTTTA
1 TAAATTTTTTTA
134517799 -AAATTTTTTTA
1 TAAATTTTTTTA
* *
134517810 TGAATATTTTTA
1 TAAATTTTTTTA
134517822 ATTTTTATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 13 0.45
12 16 0.55
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
TAAATTTTTTTA
Found at i:134520363 original size:67 final size:67
Alignment explanation
Indices: 134520288--134520418 Score: 201
Period size: 67 Copynumber: 2.0 Consensus size: 67
134520278 AACAAATTAC
*
134520288 TCAAAATGATCTAAACCCATGATGATTC-AAATTAAAAGACTTAAGCTTAAAACTCGAATGACAT
1 TCAAAATGATCTAAACCCATAATGA-TCAAAATTAAAAGACTTAAGCTTAAAACTCGAATGACAT
134520352 GAT
65 GAT
** * *
134520355 TCAAAATGATCTAAACCTGTAATGATCAAAATTAAAAGACTTAAGTTTCAAACTCGAATGACAT
1 TCAAAATGATCTAAACCCATAATGATCAAAATTAAAAGACTTAAGCTTAAAACTCGAATGACAT
134520419 AACATAGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 2 0.03
67 56 0.97
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.27
Consensus pattern (67 bp):
TCAAAATGATCTAAACCCATAATGATCAAAATTAAAAGACTTAAGCTTAAAACTCGAATGACATG
AT
Found at i:134522970 original size:3 final size:3
Alignment explanation
Indices: 134522962--134522987 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
134522952 CAGCATTCTG
134522962 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
134522988 GCCGTTCATC
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:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:134532789 original size:9 final size:9
Alignment explanation
Indices: 134532775--134532842 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
134532765 ATAAGTATAA
*
134532775 AATTAACTG
1 AATTAACCG
*
134532784 AATTAATCG
1 AATTAACCG
*
134532793 AATTAATCG
1 AATTAACCG
*
134532802 AATTACCCG
1 AATTAACCG
*
134532811 AATTACCCG
1 AATTAACCG
134532820 AATTAACCG
1 AATTAACCG
*
134532829 AATTAATCG
1 AATTAACCG
134532838 AATTA
1 AATTA
134532843 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:134532876 original size:5 final size:6
Alignment explanation
Indices: 134532861--134532901 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
134532851 AATTATATGT
*
134532861 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
134532902 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:134536892 original size:17 final size:17
Alignment explanation
Indices: 134536870--134536903 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
134536860 TGACCCATGT
134536870 GTCCATAGGAACCTATA
1 GTCCATAGGAACCTATA
134536887 GTCCATAGGAACCTATA
1 GTCCATAGGAACCTATA
134536904 AATAATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
GTCCATAGGAACCTATA
Found at i:134538518 original size:17 final size:18
Alignment explanation
Indices: 134538487--134538521 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
134538477 TTGGGAAACG
*
134538487 ATTCAACTCATTTCACTC
1 ATTCAACTCACTTCACTC
134538505 ATTC-ACTCACTTCACTC
1 ATTCAACTCACTTCACTC
134538522 CACCATTACT
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:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTCAACTCACTTCACTC
Found at i:134542732 original size:29 final size:30
Alignment explanation
Indices: 134542674--134542732 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
134542664 TTATAGGGAC
* *
134542674 TGGATCAAAATTAGCTCTTCTATTATTAAA
1 TGGATCAAAATTAGCTCTTCTACTAGTAAA
*
134542704 TGGATC-AAATTAG-TTTCTCTACTAGTAAA
1 TGGATCAAAATTAGCTCT-TCTACTAGTAAA
134542733 ACGAATACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 2 0.08
29 17 0.68
30 6 0.24
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (30 bp):
TGGATCAAAATTAGCTCTTCTACTAGTAAA
Found at i:134544792 original size:12 final size:12
Alignment explanation
Indices: 134544771--134544806 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
134544761 AAGAAGCATT
134544771 AAAAAT-TTAAA
1 AAAAATATTAAA
134544782 AAAAATATT--A
1 AAAAATATTAAA
134544792 AAAAATATTAAA
1 AAAAATATTAAA
134544804 AAA
1 AAA
134544807 TAGTTTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAAATATTAAA
Found at i:134544814 original size:12 final size:10
Alignment explanation
Indices: 134544781--134544808 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
134544771 AAAAATTTAA
134544781 AAAAAATATT
1 AAAAAATATT
134544791 AAAAAATATT
1 AAAAAATATT
134544801 AAAAAATA
1 AAAAAATA
134544809 GTTTAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAAAATATT
Found at i:134550685 original size:99 final size:99
Alignment explanation
Indices: 134550547--134551278 Score: 554
Period size: 101 Copynumber: 7.3 Consensus size: 99
134550537 TCTCCCAGAG
* * * * *
134550547 GGGAGACAAGTGGACTATATACAATCTACACGTGACTTTTAAAT-CT-CACGTATTTGTCCTATG
1 GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTCCAC--ACTTGTCCTATG
* * **
134550610 AGATTTGATGGTTATAAGTCTTCCATCATAGTTTGA
64 AGATTTGATGGTTATAAGCCTCCCATCATAACTTGA
* * * * **
134550646 GGGAGACAAATGAACTATACACGA-CTTACGCGTGGCTTTTACATGCTCCACACTTGTCCCACAA
1 GGGAGACAAATGAACTATACACGATC-TACACGTGACTTTTAAATGCTCCACACTTGTCCTATGA
* * * *
134550710 GAATTGATGGCTAAATATGCCTCCCATAATAACTTGA
65 GATTTGATGG-T-TATAAGCCTCCCATCATAACTTGA
* * ** *
134550747 GGGAGAAAAATGAACTATACACGATCTACACATGACAATTAAATGCTACACACTTGTACC-ATGA
1 GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTCCACACTTGT-CCTATGA
* * *
134550811 GATTTGAGGGCATATAAGCCTCCCATTATAA-TTGA
65 GATTTGATGG-TTATAAGCCTCCCATCATAACTTGA
* *
134550846 GGGCAGACAAATGGACTATACACGATCTACACGTGACTTTTAAAT-C-CCAGGCACTTGTCTTAT
1 GGG-AGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTCCA--CACTTGTCCTAT
* * ***
134550909 GAGATTTGATGGCTAAAAGCCTCCCATCATGGTTTGA
63 GAGATTTGATGGTTATAAGCCTCCCATCATAACTTGA
* * * * *
134550946 GGGAGACAAATGAACTATACACGA-CTTGCATGTGGCTTTTACATGCTCCACACTTGT-CTCATA
1 GGGAGACAAATGAACTATACACGATC-TACACGTGACTTTTAAATGCTCCACACTTGTCCT-ATG
* *
134551009 AGACTTGATGCTATATAAAGCCTCCCATCATAACTTGA
64 AGATTTGATGGT-TAT-AAGCCTCCCATCATAACTTGA
* * * * * ** * * *
134551047 GGGAGACAAGTGAACTATACACAATCTACACGTGACCTTTACATGTTGTATACATGTCCTACGAG
1 GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTCCACACTTGTCCTATGAG
* * * *** * *
134551112 ATTTGAAGGGCATATAAGGCTTTTATTATAA-TCAGA
66 ATTTG-ATGG-TTATAAGCCTCCCATCATAACT-TGA
* * * * * *
134551148 GGGAGACAAGTGGACAATACATGATCTACACGTGACTTTTATATG-TCACACACTTGTCCTACGA
1 GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTC-CACACTTGTCCTATGA
* * *
134551212 GATTTGATGGCTAT-A-TCTCCCATCATAATTTGA
65 GATTTGATGGTTATAAGCCTCCCATCATAACTTGA
* ** * *
134551245 GGTAGACAAGCGAACTATGCACGATCTATACGTG
1 GGGAGACAAATGAACTATACACGATCTACACGTG
134551279 GCCTTTACGT
Statistics
Matches: 498, Mismatches: 110, Indels: 52
0.75 0.17 0.08
Matches are distributed among these distances:
97 37 0.07
98 7 0.01
99 132 0.27
100 90 0.18
101 221 0.44
102 11 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (99 bp):
GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTCCACACTTGTCCTATGAG
ATTTGATGGTTATAAGCCTCCCATCATAACTTGA
Found at i:134550920 original size:201 final size:197
Alignment explanation
Indices: 134550607--134551087 Score: 497
Period size: 201 Copynumber: 2.4 Consensus size: 197
134550597 TATTTGTCCT
* * * *
134550607 ATGAGATTTGATGG-TTATAAGTCTTCCATCATAGTTTGAGGGAGACAAATGAACTATACACGA-
1 ATGAGATTTGA-GGCATATAAGCCTCCCATCATA-ATTGAGGGAGACAAATGAACTATACACGAT
* * *
134550670 CTTACGCGTGGCTTTTACATGCTCCACACTTGTCCCACAAGAATTGATGGCTAAATATGCCTCCC
64 C-TACACGTGACTTTTAAATGCTCCACACTTGTCCCACAAGAATTGATGGCTAAA-A-GCCTCCC
134550735 ATAATAACTTGAGGGAGAAAAATGAACTATACACGA-TCTACACATGACAATTAAATGCTACACA
126 ATAATAACTTGAGGGAGAAAAATGAACTATACACGACT-TACACATGACAATTAAATGCTACACA
134550799 CTTGTAC-C
190 CTTGT-CTC
* *
134550807 ATGAGATTTGAGGGCATATAAGCCTCCCATTATAATTGAGGGCAGACAAATGGACTATACACGAT
1 ATGAGATTTGA-GGCATATAAGCCTCCCATCATAATTGAGGG-AGACAAATGAACTATACACGAT
** ** *
134550872 CTACACGTGACTTTTAAAT-C-CCAGGCACTTGTCTTATGAGATTTGATGGCTAAAAGCCTCCCA
64 CTACACGTGACTTTTAAATGCTCCA--CACTTGTCCCACAAGAATTGATGGCTAAAAGCCTCCCA
* *** * * ** * ** * *
134550935 TCATGGTTTGAGGGAGACAAATGAACTATACACGACTTGCATGTGGCTTTTACATGCTCCACACT
127 TAATAACTTGAGGGAGAAAAATGAACTATACACGACTTACACATGACAATTAAATGCTACACACT
134551000 TGTCTC
192 TGTCTC
* * * * *
134551006 ATAAGACTTGATGCTATATAAAGCCTCCCATCATAACTTGAGGGAGACAAGTGAACTATACACAA
1 ATGAGATTTGAGGC-ATAT-AAGCCTCCCATCATAA-TTGAGGGAGACAAATGAACTATACACGA
*
134551071 TCTACACGTGACCTTTA
63 TCTACACGTGACTTTTA
134551088 CATGTTGTAT
Statistics
Matches: 235, Mismatches: 36, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
198 3 0.01
199 78 0.33
200 72 0.31
201 81 0.34
202 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (197 bp):
ATGAGATTTGAGGCATATAAGCCTCCCATCATAATTGAGGGAGACAAATGAACTATACACGATCT
ACACGTGACTTTTAAATGCTCCACACTTGTCCCACAAGAATTGATGGCTAAAAGCCTCCCATAAT
AACTTGAGGGAGAAAAATGAACTATACACGACTTACACATGACAATTAAATGCTACACACTTGTC
TC
Found at i:134551115 original size:300 final size:301
Alignment explanation
Indices: 134550542--134551304 Score: 919
Period size: 300 Copynumber: 2.5 Consensus size: 301
134550532 ATAAGTCTCC
* * * *
134550542 CAGAGGGGAGACAAGTGGACTATATACAATCTACACGTGACTTTTAAATCTCACGTATTTGTCCT
1 CAGA-GGGAGACAAGTGGACTATACACGATCTACACGTGACTTTTAAATCTCACGCACTTGTCCT
* * *
134550607 ATGAGATTTGATGGTTATAAGTCTTCCATCATAGTTTGAGGGAGACAAATGAACTATACACGACT
65 ATGAGATTTGATGGCTAAAAGTCTCCCATCATAGTTTGAGGGAGACAAATGAACTATACACGACT
* *
134550672 TACGCGTGGCTTTTACATGCTCCACACTTGTCCCACAAGAATTGATGGCTAAATATGCCTCCCAT
130 TACACGTGGCTTTTACATGCTCCACACTTGTCCCACAAGAATTGATGGCTAAATAAGCCTCCCAT
* *
134550737 AATAACTTGAGGGAGAAAAATGAACTATACACGATCTACACATGACAATTAAATGCTACACACTT
195 AATAACTTGAGGGAGAAAAATGAACTATACACAATCTACACATGACAATTAAATGCTACACACAT
*
134550802 GTACCATGAGATTTG-AGGGCATATAAGCCTCCCATTATAAT
260 GTACCACGAGATTTGAAGGGCATATAAGCCTCCCATTATAAT
* * * * *
134550843 -TGAGGGCAGACAAATGGACTATACACGATCTACACGTGACTTTTAAATCCCAGGCACTTGTCTT
1 CAGAGGG-AGACAAGTGGACTATACACGATCTACACGTGACTTTTAAATCTCACGCACTTGTCCT
* *
134550907 ATGAGATTTGATGGCTAAAAGCCTCCCATCATGGTTTGAGGGAGACAAATGAACTATACACGACT
65 ATGAGATTTGATGGCTAAAAGTCTCCCATCATAGTTTGAGGGAGACAAATGAACTATACACGACT
* * * * * *
134550972 TGCATGTGGCTTTTACATGCTCCACACTTGTCTCATAAGACTTGAT-GCTATATAAAGCCTCCCA
130 TACACGTGGCTTTTACATGCTCCACACTTGTCCCACAAGAATTGATGGCTAAAT-AAGCCTCCCA
* * * * ** * * ** *
134551036 TCATAACTTGAGGGAGACAAGTGAACTATACACAATCTACACGTGACCTTTACATGTTGTATACA
194 TAATAACTTGAGGGAGAAAAATGAACTATACACAATCTACACATGACAATTAAATGCTACACACA
* ***
134551101 TGT-CCTACGAGATTTGAAGGGCATATAAGGCTTTTATTATAAT
259 TGTACC-ACGAGATTTGAAGGGCATATAAGCCTCCCATTATAAT
* * * * *
134551144 CAGAGGGAGACAAGTGGACAATACATGATCTACACGTGACTTTTATATGTCACACACTTGTCCTA
1 CAGAGGGAGACAAGTGGACTATACACGATCTACACGTGACTTTTAAATCTCACGCACTTGTCCTA
* * * * ** *
134551209 CGAGATTTGATGGCT-ATA-TCTCCCATCATAATTTGAGGTAGACAAGCGAACTATGCACGA-TC
66 TGAGATTTGATGGCTAAAAGTCTCCCATCATAGTTTGAGGGAGACAAATGAACTATACACGACT-
* * * * *
134551271 TATACGTGGCCTTTACGTGCTCTACACTTATCCC
130 TACACGTGGCTTTTACATGCTCCACACTTGTCCC
134551305 TCAAAATCTA
Statistics
Matches: 389, Mismatches: 67, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
298 1 0.00
299 72 0.19
300 226 0.58
301 85 0.22
302 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (301 bp):
CAGAGGGAGACAAGTGGACTATACACGATCTACACGTGACTTTTAAATCTCACGCACTTGTCCTA
TGAGATTTGATGGCTAAAAGTCTCCCATCATAGTTTGAGGGAGACAAATGAACTATACACGACTT
ACACGTGGCTTTTACATGCTCCACACTTGTCCCACAAGAATTGATGGCTAAATAAGCCTCCCATA
ATAACTTGAGGGAGAAAAATGAACTATACACAATCTACACATGACAATTAAATGCTACACACATG
TACCACGAGATTTGAAGGGCATATAAGCCTCCCATTATAAT
Found at i:134552072 original size:23 final size:23
Alignment explanation
Indices: 134552049--134552094 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
134552039 AATTTTCATA
*
134552049 TATTTATATTTTTCTAAAAAATAT
1 TATTTATAATTTT-TAAAAAATAT
*
134552073 TTTTTATAATTTTTAAAAAATA
1 TATTTATAATTTTTAAAAAATA
134552095 AATTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTATAATTTTTAAAAAATAT
Found at i:134552238 original size:21 final size:22
Alignment explanation
Indices: 134552195--134552239 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
134552185 AACCATTAGT
*
134552195 ATTAATGTGTCGAGTAACGAAA
1 ATTAATGTGACGAGTAACGAAA
* *
134552217 ATTAATG-GACGAGTGACTAAA
1 ATTAATGTGACGAGTAACGAAA
134552238 AT
1 AT
134552240 ATAACAACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (22 bp):
ATTAATGTGACGAGTAACGAAA
Found at i:134555974 original size:30 final size:30
Alignment explanation
Indices: 134555940--134556023 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 30
134555930 TAAGGGGTCC
134555940 AATTTTTTTTATCAACTTTTAATGGGCC-CA
1 AATTTTTTTTATCAACTTTTAA-GGGCCTCA
* **
134555970 AATTTATTTTT-TTAGTTTTTAAGGGCCTCA
1 AATTT-TTTTTATCAACTTTTAAGGGCCTCA
*
134556000 AA-TTTTTTTACCAACTTTTAAGGG
1 AATTTTTTTTATCAACTTTTAAGGG
134556024 ACTTAAAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
28 5 0.11
29 17 0.39
30 17 0.39
31 5 0.11
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (30 bp):
AATTTTTTTTATCAACTTTTAAGGGCCTCA
Found at i:134556996 original size:5 final size:5
Alignment explanation
Indices: 134556986--134557018 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
134556976 ATATACCTCA
134556986 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
134557019 TGAAGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:134563398 original size:19 final size:19
Alignment explanation
Indices: 134563374--134563411 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
134563364 GTCAATTTTG
134563374 GTCGGAACCGACATGGTGA
1 GTCGGAACCGACATGGTGA
134563393 GTCGGAACCGACATGGTGA
1 GTCGGAACCGACATGGTGA
134563412 ATTTGAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.37, T:0.16
Consensus pattern (19 bp):
GTCGGAACCGACATGGTGA
Found at i:134565274 original size:28 final size:28
Alignment explanation
Indices: 134565242--134565301 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
134565232 TTTCTAAAAC
*
134565242 TTTAGAAAATATATA-ATTTTGTTTAATT
1 TTTAGAAAATATATAGATTTT-TTAAATT
**
134565270 TTTAGAATTTATATAGATTTTTTAAATT
1 TTTAGAAAATATATAGATTTTTTAAATT
134565298 TTTA
1 TTTA
134565302 AGTGATAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (28 bp):
TTTAGAAAATATATAGATTTTTTAAATT
Found at i:134566983 original size:18 final size:19
Alignment explanation
Indices: 134566942--134566984 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
134566932 CTAGAACTAT
134566942 CCATAATCTCTTCCTAGCC
1 CCATAATCTCTTCCTAGCC
134566961 CCATAATCTCTTCCTAG-C
1 CCATAATCTCTTCCTAGCC
134566979 CCATAA
1 CCATAA
134566985 ATAAGAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.26, C:0.40, G:0.05, T:0.30
Consensus pattern (19 bp):
CCATAATCTCTTCCTAGCC
Found at i:134568071 original size:16 final size:16
Alignment explanation
Indices: 134568052--134568095 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
134568042 TTTTGTTGAG
*
134568052 TCATTTTAGGTTT-AGA
1 TCATTTTGGGTTTCA-A
*
134568068 TCATTTCGGGTTTCAA
1 TCATTTTGGGTTTCAA
134568084 TCATTTTGGGTT
1 TCATTTTGGGTT
134568096 ATTTGTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.50
Consensus pattern (16 bp):
TCATTTTGGGTTTCAA
Found at i:134570104 original size:2 final size:2
Alignment explanation
Indices: 134570097--134570142 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
134570087 TATCAAACTT
134570097 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
134570139 TA TA
1 TA TA
134570143 GAATGATGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:134570439 original size:2 final size:2
Alignment explanation
Indices: 134570432--134570457 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
134570422 AATAATAGTG
134570432 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
134570458 ATTCACTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:134571792 original size:15 final size:15
Alignment explanation
Indices: 134571764--134571826 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 15
134571754 TTAGATTCAG
134571764 AAAATGATCCAAATA
1 AAAATGATCCAAATA
* * *
134571779 AAAATTATCTAAATTT
1 AAAATGATCCAAA-TA
* *
134571795 AAAATAATCCAAATTC
1 AAAATGATCCAAA-TA
*
134571811 AAAATGATTCAAATA
1 AAAATGATCCAAATA
134571826 A
1 A
134571827 GTAATCTAAC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
15 13 0.34
16 25 0.66
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAATGATCCAAATA
Found at i:134574990 original size:21 final size:21
Alignment explanation
Indices: 134574939--134574992 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
134574929 TTTAAAATTT
134574939 ATATTTTAAAAAATATATAAA
1 ATATTTTAAAAAATATATAAA
* * * *
134574960 AAATTCTAAAAAAT-TCTTTAA
1 ATATTTTAAAAAATAT-ATAAA
134574981 ATATTTTAAAAA
1 ATATTTTAAAAA
134574993 TTTTCTAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATTTTAAAAAATATATAAA
Found at i:134575003 original size:21 final size:20
Alignment explanation
Indices: 134574939--134575004 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
134574929 TTTAAAATTT
* *
134574939 ATATTTTAAAAAATATATAAA
1 ATATTTT-AAAAATTTTTAAA
* *
134574960 AAATTCTAAAAAATTCTTT-AA
1 ATATT-TTAAAAATT-TTTAAA
134574981 ATATTTTAAAAATTTTCTAAA
1 ATATTTTAAAAATTTT-TAAA
134575002 ATA
1 ATA
134575005 ATAATTTTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 2 0.06
20 9 0.26
21 21 0.60
22 3 0.09
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATTTTAAAAATTTTTAAA
Found at i:134575106 original size:16 final size:16
Alignment explanation
Indices: 134575087--134575117 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
134575077 TTGAATTTTT
134575087 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
134575103 TTTCAAATTTATATG
1 TTTCAAATATATATG
134575118 CTTTAACATG
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:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:134581948 original size:2 final size:2
Alignment explanation
Indices: 134581941--134581968 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
134581931 GGTGTCATTC
134581941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134581969 GGATGGTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134584955 original size:30 final size:31
Alignment explanation
Indices: 134584919--134584977 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
134584909 TTAATTTATT
*
134584919 ATTTGGTACCT-GCTTTGAATTCAATGTTCA
1 ATTTGGTACCTAGATTTGAATTCAATGTTCA
**
134584949 ATTTGGTACCTAGATTTGGTTTCAATGTT
1 ATTTGGTACCTAGATTTGAATTCAATGTT
134584978 GGTACCGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.46
Consensus pattern (31 bp):
ATTTGGTACCTAGATTTGAATTCAATGTTCA
Found at i:134585011 original size:21 final size:21
Alignment explanation
Indices: 134584945--134585012 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
134584935 GAATTCAATG
*
134584945 TTCAATTTGGTACCTAGATTTGGT
1 TTCAATTTGGTA-CTAGAATT--T
*
134584969 TTCAATGTTGGTAC-CGAATTT
1 TTCAAT-TTGGTACTAGAATTT
* *
134584990 TTCAATTTGGTACTTGAGTTT
1 TTCAATTTGGTACTAGAATTT
134585011 TT
1 TT
134585013 TTTTTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.18
21 14 0.37
23 4 0.11
24 7 0.18
25 6 0.16
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.49
Consensus pattern (21 bp):
TTCAATTTGGTACTAGAATTT
Found at i:134585363 original size:39 final size:39
Alignment explanation
Indices: 134585309--134585387 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
134585299 TATGTAGCAT
134585309 AGTTATCAGCCTAAAGATGATGATTGAACTGATGGAACG
1 AGTTATCAGCCTAAAGATGATGATTGAACTGATGGAACG
134585348 AGTTATCAGCCTAAAGATGATGATTGAACTGATGGAACG
1 AGTTATCAGCCTAAAGATGATGATTGAACTGATGGAACG
134585387 A
1 A
134585388 TCTGATTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (39 bp):
AGTTATCAGCCTAAAGATGATGATTGAACTGATGGAACG
Found at i:134585818 original size:2 final size:2
Alignment explanation
Indices: 134585813--134585844 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
134585803 ATATATATAT
*
134585813 AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
134585845 TTTTTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:134585957 original size:6 final size:6
Alignment explanation
Indices: 134585946--134585976 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
134585936 TTTCATCTGA
134585946 TTAATT TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTAATT T
134585977 ATTCATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:134595488 original size:15 final size:15
Alignment explanation
Indices: 134595468--134595501 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
134595458 AATTGATACT
134595468 TAAACTTGAAAATCG
1 TAAACTTGAAAATCG
134595483 TAAACTTGAAAATCG
1 TAAACTTGAAAATCG
134595498 TAAA
1 TAAA
134595502 TTAATTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (15 bp):
TAAACTTGAAAATCG
Found at i:134601782 original size:33 final size:33
Alignment explanation
Indices: 134601718--134601786 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
134601708 ATATAAAATG
* ***
134601718 ACAACAAAACAATTGAAAAACGGTAAAAAAACA
1 ACAACAAAACAATGGAAAAACAACAAAAAAACA
*
134601751 ACAACAAAACAATGGAAAAACAACAATAAAACA
1 ACAACAAAACAATGGAAAAACAACAAAAAAACA
134601784 ACA
1 ACA
134601787 GTTTTTCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.68, C:0.17, G:0.07, T:0.07
Consensus pattern (33 bp):
ACAACAAAACAATGGAAAAACAACAAAAAAACA
Found at i:134604734 original size:194 final size:194
Alignment explanation
Indices: 134604352--134605013 Score: 797
Period size: 194 Copynumber: 3.3 Consensus size: 194
134604342 ATTCTTTATA
* * * *
134604352 TAATTCTGGT-CAGTAACATCATCAATTATTAGTTTTTTAGAATGACCAATAGAGGCATGAAGTT
1 TAATTCTGGTCCA-TAACAACATCAATTATTAG-TGTTTA-AATGATCAATAGAGGAATGAAGTT
* * * *
134604416 TTTTGCGT-GGTCTGTGCTTTGTTGTACCTTCTCAGGGCTGCTATAAGTAGTTTTGTTCTTGTGT
63 TTTTGC-TCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGT
* * *
134604480 GTTTATGTTGAAGTTATTTGTTGTAACTATATAGTTCATTTATTGTTTTAAGCTTATCAACCATG
127 GTTTATGTTGAAGTTATATGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATG
134604545 TGG
192 TGG
* * *
134604548 TAGTTCTGGTCCATAACAACATCATTTATTAGTGATTAAATGATCAATAGAGGAATGAAGTTTTT
1 TAATTCTGGTCCATAACAACATCAATTATTAGTGTTTAAATGATCAATAGAGGAATGAAGTTTTT
**
134604613 TGCTCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTCGGTTCTTGTGTGTTT
66 TGCTCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTTT
*
134604678 ATGTTGAAGTTATATGCTGTAATTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
131 ATGTTGAAGTTATATGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
* * * *
134604742 TAATCCCGGTCAATAACAACATCAATTATTAGAGTTTAGAATATGATCAATAGAGGAATGAAGTT
1 TAATTCTGGTCCATAACAACATCAATTATTAGTGTTT--AA-ATGATCAATAGAGGAATGAAGTT
** * *
134604807 TTTTGCTCGGTTCATGCTTCGTTTCACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
63 TTTTGCTCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
* * * * * * *
134604872 TTTATGTTGAAGACTTGAAGTTATTTGCTGTAACTATACAGTTCGTTTGTCGGTCTAAGCACATC
128 TTTATGTTGAAG--TT--A--TA--TGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATC
* *
134604937 AACAATATGG
185 AACCATGTGG
* ** * * * *
134604947 TAATTCTGGTCAATAATGACGTCAATTATTACTGTTTCGAATGATCAGTAGAGGAATGAAGTTTT
1 TAATTCTGGTCCATAACAACATCAATTATTAGTGTTT-AAATGATCAATAGAGGAATGAAGTTTT
134605012 TT
65 TT
134605014 TTCTTGGTTT
Statistics
Matches: 403, Mismatches: 50, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
193 1 0.00
194 172 0.43
195 4 0.01
196 28 0.07
197 96 0.24
199 2 0.00
201 1 0.00
203 28 0.07
204 1 0.00
205 70 0.17
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (194 bp):
TAATTCTGGTCCATAACAACATCAATTATTAGTGTTTAAATGATCAATAGAGGAATGAAGTTTTT
TGCTCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTTT
ATGTTGAAGTTATATGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
Found at i:134607166 original size:7 final size:8
Alignment explanation
Indices: 134607149--134607173 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
134607139 ATTTGATAAT
134607149 AAAGAAAA
1 AAAGAAAA
134607157 AAAGAAAA
1 AAAGAAAA
134607165 AAAGAAAA
1 AAAGAAAA
134607173 A
1 A
134607174 GGGTTATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:134614677 original size:24 final size:24
Alignment explanation
Indices: 134614648--134614696 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
134614638 TAATAATAGA
134614648 CTTGAAAAATTCGAGTCTCGAGCT
1 CTTGAAAAATTCGAGTCTCGAGCT
134614672 CTTGAAAAATTCGAGTCTCGAGCT
1 CTTGAAAAATTCGAGTCTCGAGCT
134614696 C
1 C
134614697 AAATGACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
CTTGAAAAATTCGAGTCTCGAGCT
Found at i:134619285 original size:13 final size:13
Alignment explanation
Indices: 134619267--134619291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134619257 TGTACTTAAG
134619267 TTTAATTTTAATA
1 TTTAATTTTAATA
134619280 TTTAATTTTAAT
1 TTTAATTTTAAT
134619292 GTTCAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAATTTTAATA
Found at i:134619551 original size:31 final size:31
Alignment explanation
Indices: 134619508--134619566 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
134619498 TTTGGTCTGG
* *
134619508 GTACTAAATTGAACATTAAAGCTAAATTTAA
1 GTACCAAATTGAACATTAAAGATAAATTTAA
134619539 GTACCAAATTGAACATTAAAGATAAATT
1 GTACCAAATTGAACATTAAAGATAAATT
134619567 CAAATATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (31 bp):
GTACCAAATTGAACATTAAAGATAAATTTAA
Found at i:134623199 original size:2 final size:2
Alignment explanation
Indices: 134623192--134623216 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
134623182 AAAGAAGAGA
134623192 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
134623217 CACATAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:134626572 original size:19 final size:19
Alignment explanation
Indices: 134626550--134626588 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
134626540 TATATTATAA
* *
134626550 ATTACATAATATATAAAAT
1 ATTACAAAATATAAAAAAT
*
134626569 ATTACAAAATTTAAAAAAT
1 ATTACAAAATATAAAAAAT
134626588 A
1 A
134626589 ACGTGCAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTACAAAATATAAAAAAT
Found at i:134636417 original size:60 final size:61
Alignment explanation
Indices: 134636304--134636422 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 61
134636294 AAAAAAGTAA
* * **
134636304 TTAATTAGAACAAAAAAAAAACTTAATTACCAAATTGAACATTGAAGTTAAACTCAGGTGC
1 TTAATTAGAACAAAAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAGGTGC
* * * * *
134636365 TTAATTGGAAC-AATAAAAAACTCAAGTACCAACTTGAATATTGAAGCCAAACTTAGGT
1 TTAATTAGAACAAAAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAGGT
134636423 ACCAATTTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
60 39 0.80
61 10 0.20
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (61 bp):
TTAATTAGAACAAAAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAGGTGC
Found at i:134636425 original size:31 final size:30
Alignment explanation
Indices: 134636390--134636496 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 30
134636380 AAAAACTCAA
134636390 GTACCAACTTGAATATTGAAGCCAAACTTAG
1 GTACCAA-TTGAATATTGAAGCCAAACTTAG
* *
134636421 GTACCAATTTGAATATTGAAGCCAAACTCAA
1 GTACCAA-TTGAATATTGAAGCCAAACTTAG
* * *
134636452 GTACCAAATTGAACATTAAAACCAAACTTAG
1 GTACC-AATTGAATATTGAAGCCAAACTTAG
*
134636483 ATACCAATT-AATAT
1 GTACCAATTGAATAT
134636497 ATTAACCCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 4 0.06
30 4 0.06
31 55 0.85
32 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (30 bp):
GTACCAATTGAATATTGAAGCCAAACTTAG
Found at i:134636499 original size:62 final size:62
Alignment explanation
Indices: 134636382--134636499 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 62
134636372 GAACAATAAA
* * * * * *
134636382 AAACTCAAGTACCAACTTGAATATTGAAGCCAAACTTAGGTACCAATTTGAATATTGAAGCC
1 AAACTCAAGTACCAAATTGAACATTAAAACCAAACTTAGATACCAATTTAAATATTGAAGCC
134636444 AAACTCAAGTACCAAATTGAACATTAAAACCAAACTTAGATACCAA-TTAATATATT
1 AAACTCAAGTACCAAATTGAACATTAAAACCAAACTTAGATACCAATTTAA-ATATT
134636500 AACCCAATTG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
61 3 0.06
62 46 0.94
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (62 bp):
AAACTCAAGTACCAAATTGAACATTAAAACCAAACTTAGATACCAATTTAAATATTGAAGCC
Found at i:134638261 original size:18 final size:19
Alignment explanation
Indices: 134638238--134638283 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
134638228 TGAATCGGTT
134638238 AAATTATTAGT-ATTGTTA
1 AAATTATTAGTAATTGTTA
*
134638256 AAATTAAT-GTAATTGTTA
1 AAATTATTAGTAATTGTTA
* *
134638274 GAATAATTAG
1 AAATTATTAG
134638284 ATATGAACAC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.09
18 19 0.86
19 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (19 bp):
AAATTATTAGTAATTGTTA
Found at i:134641238 original size:350 final size:351
Alignment explanation
Indices: 134640603--134641280 Score: 1028
Period size: 350 Copynumber: 1.9 Consensus size: 351
134640593 AAGACGGATT
* * * *
134640603 ACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGTTATACTCTATAGTTTTTGGATGATGACA
1 ACTAAGCTGTAGCCCTTACCTCGAAGTAATTTAAGGCTATACTATATAGTTCTTGGATGATGACA
*
134640668 ATCTATGGAAGTAATTGCGAGTAACTTCTCATGATATATTTCTATATATAATGTTTGCTGGTTGA
66 ATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTTGA
* * * *
134640733 TCATGAGACTTCGATAGGGACTTAAGGGGTTAGTTTTGCTTATATAGAAACTCTGGGAAATGTTG
131 TCATGAGACTTCGATAGGGACTTAAGGAGTTAGCTTTGCTTATAAAGAAACTCTGGAAAATGTTG
* * *
134640798 ATGGTTGTTTCTGCTGAAATCATACCTATTTCAGCCATTTTATTTGTTGATTTCCTAGCTTGTGA
196 ATGGTTGTTTCTGCTAAAATCAAACATATTTCAGCCATTTTATTTGTTGATTTCCTAGCTTGTGA
* * * * *
134640863 TTTTTTTGCTCCGTTGTAGATTTTCCTATGCAGAATTCTGCTAGGTGGTTGAGTTTCCTTGTAGA
261 TTTTTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATGCTAGGTGGTCGAGATTCATTGTAGA
134640928 ACTTTAGCCACTACCAATAATGAATC
326 ACTTTAGCCACTACCAATAATGAATC
*
134640954 ACTAAGCTGTAGCCCTTACCTTGAAGTAATTTAAGGCTATACTATATAG-TCTTGGATGATGACA
1 ACTAAGCTGTAGCCCTTACCTCGAAGTAATTTAAGGCTATACTATATAGTTCTTGGATGATGACA
* *
134641018 ATCTATGGAAGTAATTGTGAGTAAATTCTCATGATGTATTTCTATATATAATGTTTGCTGGTTGA
66 ATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTTGA
134641083 TCATGAGACTTCGATA-GGACTT-AGGAAG-TAGACTTT-CTTATAAAGAAACTCTGCGAAAAT-
131 TCATGAGACTTCGATAGGGACTTAAGG-AGTTAG-CTTTGCTTATAAAGAAACTCTG-GAAAATG
* *
134641143 TTGATGGTTGTTTCTGCTAAAATCAAACATATTTCCGCCATTTTATTTGTTGATTTCGTAGCTTG
193 TTGATGGTTGTTTCTGCTAAAATCAAACATATTTCAGCCATTTTATTTGTTGATTTCCTAGCTTG
* * *
134641208 TGA-TTTTTTGCTCTGTTGTCGATTATTTTCCTACGCAGAATTATGTTAGGTGGTCGAGATTCAT
258 TGATTTTTTTGCTCCGTTGT--A-GATTTTCCTACGCAGAATTATGCTAGGTGGTCGAGATTCAT
134641272 TGTAGAACT
320 TGTAGAACT
134641281 ATAGGTTTGA
Statistics
Matches: 296, Mismatches: 25, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
347 15 0.05
348 85 0.29
349 16 0.05
350 135 0.46
351 45 0.15
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (351 bp):
ACTAAGCTGTAGCCCTTACCTCGAAGTAATTTAAGGCTATACTATATAGTTCTTGGATGATGACA
ATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTTGA
TCATGAGACTTCGATAGGGACTTAAGGAGTTAGCTTTGCTTATAAAGAAACTCTGGAAAATGTTG
ATGGTTGTTTCTGCTAAAATCAAACATATTTCAGCCATTTTATTTGTTGATTTCCTAGCTTGTGA
TTTTTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATGCTAGGTGGTCGAGATTCATTGTAGA
ACTTTAGCCACTACCAATAATGAATC
Found at i:134654891 original size:75 final size:74
Alignment explanation
Indices: 134654794--134655060 Score: 417
Period size: 75 Copynumber: 3.6 Consensus size: 74
134654784 ATGGGAACTG
* * * * *
134654794 GGGTGCTGACCTAACTGTCTCTCTTGTATTCTGGCCCATATTTTGTGGTGGCTGTCGTGGCGGAT
1 GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGG-TGTCGTGGTGGAT
134654859 TTTGGAACCA
65 TTTGGAACCA
* *
134654869 GGATTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGGTTTCCGTGGTGGAT
1 GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGGTGT-CGTGGTGGAT
134654934 TTTGGAACCA
65 TTTGGAACCA
* *
134654944 GGGTTCTGACCTGACTGACTCTCTTGTATCCTGGCCCATATTTTGAGGTGGTTGCCGTGGTGGAT
1 GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGG-TGTCGTGGTGGAT
134655009 TTTGGAACCA
65 TTTGGAACCA
*
134655019 GGGTTCTGACCTGACTGACTCTCTTGTACTCTGGCCCATATT
1 GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATT
134655061 AGGTTGTTCC
Statistics
Matches: 177, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
74 2 0.01
75 174 0.98
76 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.27, T:0.36
Consensus pattern (74 bp):
GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGGTGTCGTGGTGGATT
TTGGAACCA
Found at i:134659006 original size:15 final size:14
Alignment explanation
Indices: 134658990--134659033 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
134658980 ATCCATATAT
134658990 TTTATGTTTAAATA
1 TTTATGTTTAAATA
134659004 TTT-T-TTTAAATA
1 TTTATGTTTAAATA
*
134659016 ATTATGTTTAAATA
1 TTTATGTTTAAATA
134659030 TTTA
1 TTTA
134659034 CTTTACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 10 0.38
13 2 0.08
14 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (14 bp):
TTTATGTTTAAATA
Found at i:134662692 original size:2 final size:2
Alignment explanation
Indices: 134662685--134662711 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
134662675 CTTTAACTTT
134662685 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
134662712 TTATCCTAAA
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:134665198 original size:10 final size:9
Alignment explanation
Indices: 134665185--134665236 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
134665175 ATATTTCATA
134665185 AAAAAAATT
1 AAAAAAATT
*
134665194 AAAAAGA-T
1 AAAAAAATT
134665202 AAAAAAATT
1 AAAAAAATT
*
134665211 CAAAAAAGTTT
1 -AAAAAA-ATT
*
134665222 ATAAAAATT
1 AAAAAAATT
134665231 AAAAAA
1 AAAAAA
134665237 CATATTTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 7 0.21
9 14 0.41
10 11 0.32
11 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (9 bp):
AAAAAAATT
Found at i:134665205 original size:18 final size:17
Alignment explanation
Indices: 134665185--134665235 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
134665175 ATATTTCATA
134665185 AAAAAAATTAAAAAGAT
1 AAAAAAATTAAAAAGAT
*
134665202 AAAAAAATTCAAAAAAGTTT
1 AAAAAAATT--AAAAAG-AT
*
134665222 ATAAAAATTAAAAA
1 AAAAAAATTAAAAA
134665236 ACATATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 9 0.31
18 5 0.17
19 6 0.21
20 9 0.31
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (17 bp):
AAAAAAATTAAAAAGAT
Found at i:134666869 original size:2 final size:2
Alignment explanation
Indices: 134666862--134666896 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
134666852 CAGCTAGGAT
134666862 TA TA TA TA 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 TA TA TA TA T
134666897 TAATTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:134676535 original size:15 final size:15
Alignment explanation
Indices: 134676517--134676547 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
134676507 ATTTACTTGC
*
134676517 TGATGCTGAGGTTAT
1 TGATGCTAAGGTTAT
134676532 TGATGCTAAGGTTAT
1 TGATGCTAAGGTTAT
134676547 T
1 T
134676548 TCTTGTCACC
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:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (15 bp):
TGATGCTAAGGTTAT
Found at i:134681725 original size:78 final size:78
Alignment explanation
Indices: 134681596--134681752 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
134681586 GGAAAGTAAG
134681596 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
1 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
*
134681661 CCGCGGAAAATAT
66 CCGCAGAAAATAT
134681674 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
1 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
134681739 CCGCAGAAAATAT
66 CCGCAGAAAATAT
134681752 G
1 G
134681753 GAGCACAGAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (78 bp):
GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
CCGCAGAAAATAT
Found at i:134685010 original size:7 final size:7
Alignment explanation
Indices: 134684989--134685025 Score: 53
Period size: 6 Copynumber: 5.7 Consensus size: 7
134684979 TTCACCCTAC
134684989 TTTTG-T
1 TTTTGTT
134684995 TTTTG-T
1 TTTTGTT
134685001 TTTTGTT
1 TTTTGTT
134685008 TTTTGTT
1 TTTTGTT
134685015 TTTT-TT
1 TTTTGTT
134685021 TTTTG
1 TTTTG
134685026 GTGCAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (7 bp):
TTTTGTT
Found at i:134685012 original size:13 final size:13
Alignment explanation
Indices: 134684989--134685025 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
134684979 TTCACCCTAC
134684989 TTTTG-TTTTTGT
1 TTTTGTTTTTTGT
134685001 TTTTGTTTTTTGT
1 TTTTGTTTTTTGT
*
134685014 TTTTTTTTTTTG
1 TTTTGTTTTTTG
134685026 GTGCAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TTTTGTTTTTTGT
Found at i:134689192 original size:16 final size:18
Alignment explanation
Indices: 134689173--134689209 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
134689163 ATTTTAACTA
*
134689173 TTATTAATT-TAAAAT-T
1 TTATAAATTATAAAATAT
134689189 TTATAAATTATAAAATAT
1 TTATAAATTATAAAATAT
134689207 TTA
1 TTA
134689210 AATAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATAAATTATAAAATAT
Found at i:134689211 original size:16 final size:16
Alignment explanation
Indices: 134689171--134689212 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
134689161 TAATTTTAAC
*
134689171 TATTATTAATTTAAAA
1 TATTATAAATTTAAAA
*
134689187 TTTTATAAATTATAAAA
1 TATTATAAATT-TAAAA
134689204 TATT-TAAAT
1 TATTATAAAT
134689213 AAACAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTATAAATTTAAAA
Found at i:134699203 original size:14 final size:15
Alignment explanation
Indices: 134699168--134699206 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
134699158 ATAGTAAAAA
134699168 TATAATTTTATCATTT
1 TATAA-TTTATCATTT
134699184 TAATAATTTAT-ATTT
1 T-ATAATTTATCATTT
134699199 TATAATTT
1 TATAATTT
134699207 TTAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 6 0.27
17 4 0.18
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TATAATTTATCATTT
Found at i:134699237 original size:29 final size:29
Alignment explanation
Indices: 134699195--134699264 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
134699185 AATAATTTAT
*
134699195 ATTTTATAATTTTTAA-ATAATTAA-ATCAA
1 ATTTTATTA-TTTTAATA-AATTAATATCAA
**
134699224 ATTTTTATTATTTTAATAAATTAATATTTA
1 A-TTTTATTATTTTAATAAATTAATATCAA
134699254 ATTTTATTATT
1 ATTTTATTATT
134699265 ACTAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 23 0.66
30 12 0.34
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
ATTTTATTATTTTAATAAATTAATATCAA
Found at i:134701397 original size:102 final size:101
Alignment explanation
Indices: 134701235--134701437 Score: 388
Period size: 102 Copynumber: 2.0 Consensus size: 101
134701225 AAGACCAAGT
*
134701235 TGAAGGACTAAATGTTATTTTATCCCTAAAAAGCCTAATTATAAAAGTTTAAAGAATACGAGGAT
1 TGAAGGACTAAATGTTATTTTATCCCTAAAAAGCCTAATTATAAAAGTTTAAAGAATACGAAGAT
134701300 TGATACCATAATTAAACCTTAATTTTAAATATAACA
66 TGATACCATAATTAAACCTTAATTTTAAATATAACA
134701336 TGAAGGACTAAATGTTATTTTATCCCTAAAAAAGCCTAATTATAAAAGTTTAAAGAATACGAAGA
1 TGAAGGACTAAATGTTATTTTATCCCT-AAAAAGCCTAATTATAAAAGTTTAAAGAATACGAAGA
134701401 TTGATACCATAATTAAACCTTAATTTTAAATATAACA
65 TTGATACCATAATTAAACCTTAATTTTAAATATAACA
134701438 GTACCAGAGT
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
101 27 0.27
102 73 0.73
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (101 bp):
TGAAGGACTAAATGTTATTTTATCCCTAAAAAGCCTAATTATAAAAGTTTAAAGAATACGAAGAT
TGATACCATAATTAAACCTTAATTTTAAATATAACA
Found at i:134705677 original size:24 final size:26
Alignment explanation
Indices: 134705644--134705691 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
134705634 TATCTTTATA
*
134705644 AAAACTTTTATTT-TTTTTTTTTCCT
1 AAAACTTTTATTTATTTATTTTTCCT
134705669 AAAA-TTTTATTTATTTATTTTTC
1 AAAACTTTTATTTATTTATTTTTC
134705692 AAAATATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (26 bp):
AAAACTTTTATTTATTTATTTTTCCT
Found at i:134708703 original size:20 final size:21
Alignment explanation
Indices: 134708656--134708704 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
134708646 GTAAAGAATG
134708656 GTATTTTCCGAAAAATTTATA
1 GTATTTTCCGAAAAATTTATA
134708677 GTATTTTCCGAAAAATTTATA
1 GTATTTTCCGAAAAATTTATA
*
134708698 GTTTTTT
1 GTATTTT
134708705 TGGGTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (21 bp):
GTATTTTCCGAAAAATTTATA
Found at i:134709617 original size:18 final size:18
Alignment explanation
Indices: 134709596--134709636 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
134709586 CGTCATTGCT
* *
134709596 ATCATCGCCATCATTGTC
1 ATCATCACCATCATTATC
*
134709614 ATCATCACCGTCATTATC
1 ATCATCACCATCATTATC
134709632 ATCAT
1 ATCAT
134709637 TGGACCAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (18 bp):
ATCATCACCATCATTATC
Found at i:134717149 original size:12 final size:13
Alignment explanation
Indices: 134717134--134717162 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
134717124 ATAATATTAT
134717134 AATAAATAA-AAA
1 AATAAATAATAAA
134717146 AATAAATAATAAA
1 AATAAATAATAAA
134717159 AATA
1 AATA
134717163 TTTTGTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:134717448 original size:30 final size:31
Alignment explanation
Indices: 134717386--134717449 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
134717376 CAAGAAGTTT
* *
134717386 AAAAAGCTAAAGACAATTTTTTTTTATAACA
1 AAAAAGCTAAAGACAATTTGTTGTTATAACA
134717417 AAAAAGCTAAAGACAA-TTGTTGTTACT-ACA
1 AAAAAGCTAAAGACAATTTGTTGTTA-TAACA
134717447 AAA
1 AAA
134717450 GGCACGTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (31 bp):
AAAAAGCTAAAGACAATTTGTTGTTATAACA
Found at i:134719034 original size:21 final size:20
Alignment explanation
Indices: 134719000--134719040 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
134718990 GATGAAGCGG
* *
134719000 TTTATAATTTTTTAGTAATT
1 TTTATAATTATTTACTAATT
134719020 TTTATAAATTATTTACTAATT
1 TTTAT-AATTATTTACTAATT
134719041 ATTGAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATAATTATTTACTAATT
Found at i:134719255 original size:15 final size:16
Alignment explanation
Indices: 134719237--134719266 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
134719227 TGTTTTTTAT
134719237 GATCAAATT-AAATTA
1 GATCAAATTGAAATTA
134719252 GATCAAATTGAAATT
1 GATCAAATTGAAATT
134719267 TAAGTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (16 bp):
GATCAAATTGAAATTA
Found at i:134720688 original size:85 final size:85
Alignment explanation
Indices: 134720545--134720705 Score: 322
Period size: 85 Copynumber: 1.9 Consensus size: 85
134720535 GCGGTAAATG
134720545 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
1 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
134720610 TAAGAAAAGTATGCTAGATT
66 TAAGAAAAGTATGCTAGATT
134720630 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
1 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
134720695 TAAGAAAAGTA
66 TAAGAAAAGTA
134720706 ATTGGTACGC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (85 bp):
ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
TAAGAAAAGTATGCTAGATT
Found at i:134729664 original size:31 final size:31
Alignment explanation
Indices: 134729629--134729691 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
134729619 ATAGGAAGTA
134729629 AATTTTGAATTTGTGAAGAGTAGAAGGACTT
1 AATTTTGAATTTGTGAAGAGTAGAAGGACTT
134729660 AATTTTGAATTTGTGAAGAGTAGAAGGACTT
1 AATTTTGAATTTGTGAAGAGTAGAAGGACTT
134729691 A
1 A
134729692 TATCAGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (31 bp):
AATTTTGAATTTGTGAAGAGTAGAAGGACTT
Found at i:134732853 original size:13 final size:13
Alignment explanation
Indices: 134732837--134732861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134732827 CCTAAAAACC
134732837 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
134732850 ACAAAAAAAAAA
1 ACAAAAAAAAAA
134732862 CAAAAAGGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:134732855 original size:11 final size:11
Alignment explanation
Indices: 134732841--134732867 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
134732831 AAAACCACAA
134732841 AAAAAAAAAAC
1 AAAAAAAAAAC
134732852 AAAAAAAAAAC
1 AAAAAAAAAAC
134732863 AAAAA
1 AAAAA
134732868 GGATGGCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:134747351 original size:24 final size:24
Alignment explanation
Indices: 134747324--134747370 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
134747314 TGACTATATG
134747324 ATATAATAACAATAACAACAATTC
1 ATATAATAACAATAACAACAATTC
* * **
134747348 ATATCATCACTTTAACAACAATT
1 ATATAATAACAATAACAACAATT
134747371 TACAATGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (24 bp):
ATATAATAACAATAACAACAATTC
Found at i:134754656 original size:20 final size:20
Alignment explanation
Indices: 134754631--134754672 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
134754621 AATAAAACTT
134754631 GATCCATTTAATAATAAAGA
1 GATCCATTTAATAATAAAGA
134754651 GATCCATTTAATAATAAAGA
1 GATCCATTTAATAATAAAGA
134754671 GA
1 GA
134754673 CTAATTTGAT
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:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (20 bp):
GATCCATTTAATAATAAAGA
Found at i:134759064 original size:14 final size:14
Alignment explanation
Indices: 134759045--134759079 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
134759035 CTCTTATTCT
134759045 AGTAAACTACTAAA
1 AGTAAACTACTAAA
134759059 AGTAAACTACTAAA
1 AGTAAACTACTAAA
134759073 AGATAAA
1 AG-TAAA
134759080 ATAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (14 bp):
AGTAAACTACTAAA
Found at i:134763011 original size:42 final size:42
Alignment explanation
Indices: 134762952--134763040 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
134762942 TCCTAATTGG
134762952 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
134762994 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
134763036 TAAAA
1 GAAAA
134763041 ATATTTCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:134763087 original size:19 final size:18
Alignment explanation
Indices: 134763065--134763101 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
134763055 TGAATAAAAC
134763065 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAA-AAGAT
134763084 TTATCTACCTAAAAAGAT
1 TTATCTACCTAAAAAGAT
134763102 ATATACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (18 bp):
TTATCTACCTAAAAAGAT
Found at i:134770629 original size:11 final size:11
Alignment explanation
Indices: 134770613--134770655 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
134770603 TAGAATATAT
134770613 CCCATACCTTG
1 CCCATACCTTG
*
134770624 CCCATACCTTT
1 CCCATACCTTG
*
134770635 CCCATACC-TA
1 CCCATACCTTG
134770645 CCCATACCTTG
1 CCCATACCTTG
134770656 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:134770640 original size:22 final size:21
Alignment explanation
Indices: 134770612--134770654 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
134770602 TTAGAATATA
*
134770612 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
134770634 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
134770655 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:134776297 original size:18 final size:18
Alignment explanation
Indices: 134776245--134776299 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
134776235 CAATCCCAAC
*
134776245 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
*
134776263 TACTGTATACGTAAATAG
1 TACTGTATACGTGAATAG
134776281 TA-TCGTATACGTGAATAG
1 TACT-GTATACGTGAATAG
134776299 T
1 T
134776300 GCCGTAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:134776305 original size:18 final size:18
Alignment explanation
Indices: 134776249--134776305 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
134776239 CCCAACTACT
* *
134776249 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTACC
* *
134776267 GTATACGTAAATAGTATC
1 GTATACGTGAATAGTACC
*
134776285 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
134776303 GTA
1 GTA
134776306 AATGGTCGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:134785129 original size:17 final size:16
Alignment explanation
Indices: 134785104--134785158 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
134785094 ATAGCTTAAG
134785104 AAAATTAATATAAAATCT
1 AAAA-TAATATAAAAT-T
*
134785122 AAAATAATA-ATAATT
1 AAAATAATATAAAATT
*
134785137 AAAAATAA-ATAAACTT
1 -AAAATAATATAAAATT
134785153 AAAATA
1 AAAATA
134785159 GAATTTCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 5 0.16
18 4 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:134787124 original size:17 final size:16
Alignment explanation
Indices: 134787099--134787153 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
134787089 ATAGCTTAAG
134787099 AAAATTAATATAAAATCT
1 AAAA-TAATATAAAAT-T
*
134787117 AAAATAATA-ATAATT
1 AAAATAATATAAAATT
*
134787132 AAAAATAA-ATAAACTT
1 -AAAATAATATAAAATT
134787148 AAAATA
1 AAAATA
134787154 GAATTTCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 5 0.16
18 4 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:134791937 original size:42 final size:42
Alignment explanation
Indices: 134791874--134792000 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
134791864 CTTCGTTTTC
** * *
134791874 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATGA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
134791917 T-GATGCCATAGCCCGGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
134791958 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
134791999 TC
1 TC
134792001 TCACTGATGC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.14
42 62 0.84
43 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:134792062 original size:47 final size:48
Alignment explanation
Indices: 134791957--134792084 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 48
134791947 ATATTCATAT
* * * *
134791957 ATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 ATCGATGCCATATCCCAGTTATGGTCTTATACGAATCACATATATCAC
*
134792005 -T-GATGCCATATCCCAGTTATGGTCTTATAC-AGT-AGCATATATCAC
1 ATCGATGCCATATCCCAGTTATGGTCTTATACGAATCA-CATATATCAC
*
134792050 ATCGATGCCATATCCCA-TATATGATCTTATACGAA
1 ATCGATGCCATATCCCAGT-TATGGTCTTATACGAA
134792085 AATCACTTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 1 0.01
45 11 0.16
46 28 0.41
47 27 0.40
48 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (48 bp):
ATCGATGCCATATCCCAGTTATGGTCTTATACGAATCACATATATCAC
Found at i:134792142 original size:31 final size:31
Alignment explanation
Indices: 134792107--134792348 Score: 353
Period size: 31 Copynumber: 7.8 Consensus size: 31
134792097 CTTGTCACTT
*
134792107 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
134792138 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
134792169 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
134792200 GTAGCCGGAA-CTACCACTTTACACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
* * *
134792231 GTAGCAGAAGCTACCATTTTTCACTGAGCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
134792262 GTAGCTGAAGCTATCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
134792293 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
134792324 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
134792349 TGTCATTTGT
Statistics
Matches: 190, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
30 6 0.03
31 179 0.94
32 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:134801430 original size:17 final size:17
Alignment explanation
Indices: 134801410--134801446 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
134801400 CCTTGTTTCG
134801410 TTCTATTCTCTGTTCTT
1 TTCTATTCTCTGTTCTT
* *
134801427 TTCTATTCTTTTTTCTT
1 TTCTATTCTCTGTTCTT
134801444 TTC
1 TTC
134801447 CTTTATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.05, C:0.22, G:0.03, T:0.70
Consensus pattern (17 bp):
TTCTATTCTCTGTTCTT
Found at i:134818496 original size:20 final size:20
Alignment explanation
Indices: 134818454--134818493 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
134818444 CAATATTTTT
134818454 AATTACTACAAATAGAAATA
1 AATTACTACAAATAGAAATA
134818474 AATTACTACAAA-A-AAATA
1 AATTACTACAAATAGAAATA
134818492 AA
1 AA
134818494 AATAAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 12 0.60
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AATTACTACAAATAGAAATA
Found at i:134825898 original size:47 final size:46
Alignment explanation
Indices: 134825746--134825919 Score: 167
Period size: 47 Copynumber: 3.7 Consensus size: 46
134825736 TGTAACCCAC
* * * * * *
134825746 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGACATTCACAT
*
134825792 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC---TGAC-A-TTCACAT
* * * *
134825842 -C-TCA-CGAACTCAGACTCAACTCAATGAGTTCTGACATTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGACATT-CACAT
134825886 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
134825920 GGATGTTCAA
Statistics
Matches: 103, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 7 0.07
45 1 0.01
46 34 0.33
47 48 0.47
48 2 0.02
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGACATTCACAT
Found at i:134826378 original size:30 final size:30
Alignment explanation
Indices: 134826344--134826403 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
134826334 CCTTAATACG
134826344 AACTTCGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTCGGCAAAATTACAC-TTTTGCCCCTA
** *
134826374 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTCGGCAAAATTACACTTTTGCCCCTA
134826404 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTCGGCAAAATTACACTTTTGCCCCTA
Found at i:134836704 original size:37 final size:37
Alignment explanation
Indices: 134836663--134836736 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
134836653 GTATATGAGT
134836663 TAGCAATAAACTAATTTCAATCAATAATTTTTAGCCA
1 TAGCAATAAACTAATTTCAATCAATAATTTTTAGCCA
134836700 TAGCAATAAACTAATTTCAATCAATAATTTTTAGCCA
1 TAGCAATAAACTAATTTCAATCAATAATTTTTAGCCA
134836737 CTCACGTGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (37 bp):
TAGCAATAAACTAATTTCAATCAATAATTTTTAGCCA
Found at i:134850282 original size:19 final size:21
Alignment explanation
Indices: 134850247--134850285 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
134850237 TTTTTAAGTG
134850247 ATGTCATGGTACAATCTAAGA
1 ATGTCATGGTACAATCTAAGA
134850268 ATGTCAT-GT-CAATCTAAG
1 ATGTCATGGTACAATCTAAG
134850286 CTCATGGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (21 bp):
ATGTCATGGTACAATCTAAGA
Found at i:134851708 original size:2 final size:2
Alignment explanation
Indices: 134851695--134851727 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
134851685 AAAATAGTAG
*
134851695 TA TA TA TG 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 TA TA TA T
134851728 GAGACAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:134851824 original size:15 final size:15
Alignment explanation
Indices: 134851804--134851834 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
134851794 CTTTATTTTA
134851804 TGATTTATGTATATT
1 TGATTTATGTATATT
134851819 TGATTTATGTATATT
1 TGATTTATGTATATT
134851834 T
1 T
134851835 AAATAGGATA
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:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (15 bp):
TGATTTATGTATATT
Found at i:134858303 original size:63 final size:62
Alignment explanation
Indices: 134858203--134858328 Score: 166
Period size: 63 Copynumber: 2.0 Consensus size: 62
134858193 ATAGTTATCC
*
134858203 AAGTTAATATTTAATTTAAAAAATTATTAAATAATTATT-AAAT-TTTAAAAAAAATTATTT
1 AAGTTAATATTTAATTTAAAAAATTATCAAATAATTATTGAAATATTTAAAAAAAATTATTT
* * * *
134858263 AAGTTAATATTTATATCTTTAAAAAGTTATCAAATCATTATTGAATTATTTAAAAAAATTTATTT
1 AAGTTAATATTTA-A--TTTAAAAAATTATCAAATAATTATTGAAATATTTAAAAAAAATTATTT
134858328 A
1 A
134858329 TAAAATTAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
60 13 0.23
61 1 0.02
63 22 0.39
64 3 0.05
65 17 0.30
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (62 bp):
AAGTTAATATTTAATTTAAAAAATTATCAAATAATTATTGAAATATTTAAAAAAAATTATTT
Found at i:134863653 original size:61 final size:61
Alignment explanation
Indices: 134863588--134863705 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 61
134863578 TGATCCTAAA
* * * *
134863588 TATAAAAAATTCAACAAATTTAGTCCTTAAT-TTT-TACAAAATTTGTCATTTTAGTTCGAAT
1 TATAAAAAATTCAACAAATTAAGCCCTCAATATTTATA-AAAATTT-TCACTTTAGTTCGAAT
*
134863649 TATAAAAAATTCAATAAATTAAGCCCTCAATATTTATAAAAATTTTCACTTTAGTTC
1 TATAAAAAATTCAACAAATTAAGCCCTCAATATTTATAAAAATTTTCACTTTAGTTC
134863706 TAGTTCTAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 38 0.76
62 10 0.20
63 2 0.04
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.41
Consensus pattern (61 bp):
TATAAAAAATTCAACAAATTAAGCCCTCAATATTTATAAAAATTTTCACTTTAGTTCGAAT
Found at i:134865597 original size:22 final size:22
Alignment explanation
Indices: 134865572--134865616 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
134865562 CTTTAATAAA
134865572 TAAA-AAATATATATTAAAT-TAT
1 TAAATAAAT-TATA-TAAATATAT
134865594 TAAATAAATTATATAAATATAT
1 TAAATAAATTATATAAATATAT
134865616 T
1 T
134865617 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAATAAATTATATAAATATAT
Found at i:134865624 original size:22 final size:21
Alignment explanation
Indices: 134865572--134865625 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
134865562 CTTTAATAAA
134865572 TAAAAAATATATATTAAATTAT
1 TAAAAAAT-TATATTAAATTAT
134865594 TAAATAAATTATA-TAAATATATT
1 TAAA-AAATTATATTAAAT-TA-T
*
134865617 TTAAAAATT
1 TAAAAAATT
134865626 TTTAAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 5 0.18
22 15 0.54
23 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAAAATTATATTAAATTAT
Found at i:134875583 original size:22 final size:21
Alignment explanation
Indices: 134875558--134875605 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
134875548 TACAAATTAA
134875558 ATCTCCAAGATTATAAAATCAT
1 ATCTCCAAGATTAT-AAATCAT
* * *
134875580 ATCTTCTAAGATTGTATATCAT
1 ATC-TCCAAGATTATAAATCAT
134875602 ATCT
1 ATCT
134875606 AAGATTGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 12 0.55
23 9 0.41
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (21 bp):
ATCTCCAAGATTATAAATCAT
Found at i:134875642 original size:35 final size:35
Alignment explanation
Indices: 134875584--134875726 Score: 241
Period size: 35 Copynumber: 4.0 Consensus size: 35
134875574 AATCATATCT
134875584 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
134875621 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
134875656 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
134875691 TTTAAGATTGTATCATATCTAAGATTACATATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
134875727 GAAGATTATA
Statistics
Matches: 103, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 87 0.84
36 6 0.06
37 10 0.10
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:134880340 original size:35 final size:35
Alignment explanation
Indices: 134880249--134880343 Score: 172
Period size: 35 Copynumber: 2.7 Consensus size: 35
134880239 CATGGAAAAG
* *
134880249 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
134880284 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
134880319 TGTGAAATGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATC
134880344 AAATCCATAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.36
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
Found at i:134880350 original size:40 final size:36
Alignment explanation
Indices: 134880249--134880381 Score: 171
Period size: 35 Copynumber: 3.6 Consensus size: 36
134880239 CATGGAAAAG
134880249 TGTGAAATGTAGGTATGGTA-TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTCATCCATACTGAGT
*
134880284 TGTGAAATGTAGGTATGGTATT-ATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTCATCCATACTGAGT
134880319 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-TC--ATCCATACTGAGT
***
134880359 TAAAAAAATGTAGGTATGGTATT
1 T-GTGAAATGTAGGTATGGTATT
134880382 TCAATGAGGA
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
35 52 0.60
36 2 0.02
37 1 0.01
39 1 0.01
40 14 0.16
41 16 0.19
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (36 bp):
TGTGAAATGTAGGTATGGTATTCATCCATACTGAGT
Found at i:134885755 original size:22 final size:22
Alignment explanation
Indices: 134885725--134885768 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
134885715 TAGTCATATA
134885725 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
134885747 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
134885769 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:134885866 original size:15 final size:15
Alignment explanation
Indices: 134885846--134885902 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
134885836 ATTCAATATT
134885846 AATATTTTAATAATA
1 AATATTTTAATAATA
*
134885861 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
134885880 AATATATTAATAATA
1 AATATTTTAATAATA
*
134885895 AATGTTTT
1 AATATTTT
134885903 GTAATATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:134888399 original size:40 final size:40
Alignment explanation
Indices: 134888344--134888424 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
134888334 ACCGTACCCC
* *
134888344 TGAAGTTCACCTTCTCCATCACCTTGCCAAATTTCGACAA
1 TGAAGTTCACCTTCTCCATCACCATGCCAAATTCCGACAA
*
134888384 TGAAGTTCACCTTCTCCGTCACCATGCCAAATTCCGACAA
1 TGAAGTTCACCTTCTCCATCACCATGCCAAATTCCGACAA
134888424 T
1 T
134888425 CAAATCGTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.28
Consensus pattern (40 bp):
TGAAGTTCACCTTCTCCATCACCATGCCAAATTCCGACAA
Found at i:134888670 original size:16 final size:16
Alignment explanation
Indices: 134888649--134888704 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
134888639 GTTTGGTTCA
* *
134888649 CTGTAATGGAATAGGG
1 CTGTAATAGAATAGAG
*
134888665 CTGTAATTGAATAGAG
1 CTGTAATAGAATAGAG
*
134888681 CTGTAATAGAATAGAA
1 CTGTAATAGAATAGAG
134888697 CTGTAATA
1 CTGTAATA
134888705 AGTAATTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:134888775 original size:44 final size:46
Alignment explanation
Indices: 134888689--134888778 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
134888679 AGCTGTAATA
134888689 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
***
134888735 GAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
134888779 ATGTTGTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 23 0.56
45 3 0.07
46 15 0.37
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.36
Consensus pattern (46 bp):
GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:134889135 original size:14 final size:14
Alignment explanation
Indices: 134889097--134889135 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
134889087 GTTTGCCAGT
* *
134889097 AAAATATTTTCTGG
1 AAAATAATTTATGG
134889111 AAAATAATTTATGG
1 AAAATAATTTATGG
*
134889125 AAAATGATTTA
1 AAAATAATTTA
134889136 CTTTTCTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38
Consensus pattern (14 bp):
AAAATAATTTATGG
Found at i:134889498 original size:18 final size:18
Alignment explanation
Indices: 134889475--134889509 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
134889465 ACGTGGTAGT
*
134889475 CCAACTAGATTTTAAGTG
1 CCAACTAGATCTTAAGTG
134889493 CCAACTAGATCTTAAGT
1 CCAACTAGATCTTAAGT
134889510 ATATCTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (18 bp):
CCAACTAGATCTTAAGTG
Found at i:134889568 original size:40 final size:40
Alignment explanation
Indices: 134889517--134889761 Score: 373
Period size: 40 Copynumber: 6.1 Consensus size: 40
134889507 AGTATATCTG
* * *
134889517 TTAATACATACTTCATCCGGGTAAATTATACAATTTTCTG
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
*
134889557 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* * *
134889597 TTAATACATACTTCATCCGGATAAATTATACAGTTTTCTG
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
*
134889637 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* *
134889677 TTAATACATACTTTACCCGGGTAAATTATCCAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* * *
134889717 TTAATATATACTTCATCCGGATAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
134889757 TTAAT
1 TTAAT
134889762 GTGCTTGTGA
Statistics
Matches: 187, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (40 bp):
TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
Found at i:134889728 original size:120 final size:120
Alignment explanation
Indices: 134889513--134889761 Score: 435
Period size: 120 Copynumber: 2.1 Consensus size: 120
134889503 CTTAAGTATA
* *
134889513 TCTGTTAATACATACTTCATCCGGGTAAATTATACAATTTTCTGTTAATACATACTTTACCCGGG
1 TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
134889578 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
* *
134889633 TCTGTTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTATTAATACATACTTTACCCGGG
1 TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
* *
134889698 TAAATTATCCAGTTTTCTATTAATATATACTTCATCCGGATAAATTATACAGTTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
*
134889753 TCTATTAAT
1 TCTGTTAAT
134889762 GTGCTTGTGA
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (120 bp):
TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
Found at i:134892219 original size:22 final size:20
Alignment explanation
Indices: 134892177--134892219 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
134892167 CTTTAATAAA
134892177 TAAAAAATATATTAAATTAT
1 TAAAAAATATATTAAATTAT
134892197 TAAATAAAT-TATATAAATATAT
1 TAAA-AAATATAT-TAAAT-TAT
134892219 T
1 T
134892220 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAAATATATTAAATTAT
Found at i:134900561 original size:16 final size:16
Alignment explanation
Indices: 134900540--134900580 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
134900530 TTTAATGTTA
134900540 ATTAATTAAATTAAAT
1 ATTAATTAAATTAAAT
134900556 ATTAATTAAA--AAAT
1 ATTAATTAAATTAAAT
134900570 A--AATTAAATTA
1 ATTAATTAAATTA
134900581 GGGTTTAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 7 0.30
14 6 0.26
16 10 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTAATTAAATTAAAT
Found at i:134901400 original size:126 final size:126
Alignment explanation
Indices: 134900689--134901458 Score: 985
Period size: 125 Copynumber: 6.1 Consensus size: 126
134900679 ACTTTTTATT
* * * * *
134900689 TTTTTCTACAATAGTATCTAAAAAAATAATTTTGAAAAGACATTTCTAAACAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCCAAA
* * * ** * *
134900754 ACGCTTCAAGTAAGATGCATTGTCAGCAAAATTACTGAAAAAAAGCTCTTATGTGAACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTG-AAAAAAGCTCCCATGTGGACGATC
* * *
134900816 TTTTTCTACAATAGTATCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCCAAA
* **
134900881 ACACTTCAAGCAGGATGCGTTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGAC-ACTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGA-TC
* * * *
134900942 TTTTTCTACAGTAGTATTTAAAAAAAATAATTTTGAG--GACGTTTTTGAACAAATAGTGTCCAA
1 TTTTTCTACAGTAGTATCT-GAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCCAA
* * * * *
134901005 AACGCTTCAAGCGGGATGTACTATCAGCAAAATTACTGGAAAAAGCTCCCATGTGGATGATC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGATC
* * * *
134901067 TTTTTTTACAGTAGTATCTG-AAAAATAATTTTAAGAAGACGTTTCTGAACAATTAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCCAAA
* * * * *
134901131 ACGCTTCAAGCTA-GATGCAATGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
66 ACGCTTCAAGC-AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGATC
* * * * *
134901192 TTTTTCTACAGTAGTATCTG-AAAAATAATTTTGAAAAGACATTTATAAATAAATAATGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCCAAA
* * *
134901256 ACGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGAACGATC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGATC
*
134901317 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCCAAA
* * * * * * *
134901382 ACGCTTCAAGCAGAATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCAATATAGAAGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCC-ATGTGGACGATC
134901444 TTTTTCTACAGTAGT
1 TTTTTCTACAGTAGT
134901459 TCCTATTTGG
Statistics
Matches: 562, Mismatches: 72, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
123 14 0.02
124 1 0.00
125 296 0.53
126 121 0.22
127 130 0.23
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCCAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGATC
Found at i:134904607 original size:9 final size:9
Alignment explanation
Indices: 134904590--134904621 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
134904580 TTGTACAAAT
134904590 ATATTAAAA
1 ATATTAAAA
134904599 ATA-TAAAA
1 ATATTAAAA
134904607 ATATTAAAA
1 ATATTAAAA
134904616 ATATTA
1 ATATTA
134904622 CCTCATTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
ATATTAAAA
Found at i:134904734 original size:147 final size:146
Alignment explanation
Indices: 134904456--134904746 Score: 510
Period size: 147 Copynumber: 2.0 Consensus size: 146
134904446 TATATTTTAG
* *
134904456 TAAAAATATAAAAATATTACCTTATTCAAAAAAACTTTTATTTTATTAAAAATATAAAATGTAAA
1 TAAAAATATAAAAATATTACCTCATTCAAAAAAACATTTATTTTATTAAAAATATAAAATGTAAA
* *
134904521 TTACAATTAAAATATTAAAAGCAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTGTAC
66 TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
134904586 AAATATATTAAAAATA
131 AAATATATTAAAAATA
*
134904602 TAAAAATATTAAAAATATTACCTCATTCAGAAAAACATTTATTTTATTAAAAATATAAAATGTAA
1 TAAAAATA-TAAAAATATTACCTCATTCAAAAAAACATTTATTTTATTAAAAATATAAAATGTAA
* *
134904667 ATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAATAATATAAAAACGTTTATA
65 ATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATA
134904732 CAAATATATTAAAAA
130 CAAATATATTAAAAA
134904747 ATTAATGTTG
Statistics
Matches: 137, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
146 8 0.06
147 129 0.94
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (146 bp):
TAAAAATATAAAAATATTACCTCATTCAAAAAAACATTTATTTTATTAAAAATATAAAATGTAAA
TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
AAATATATTAAAAATA
Found at i:134904871 original size:21 final size:21
Alignment explanation
Indices: 134904827--134904881 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
134904817 TGGTTCAGTT
* *
134904827 TCCAACGGGGGTTGTGATTGC
1 TCCAACGGGGATTGTGATTCC
* *
134904848 TCCAGCGGGGATTGTGGTTCC
1 TCCAACGGGGATTGTGATTCC
*
134904869 TCCTACAGGGGAT
1 TCCAAC-GGGGAT
134904882 CTGGTTGTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.15, C:0.22, G:0.36, T:0.27
Consensus pattern (21 bp):
TCCAACGGGGATTGTGATTCC
Found at i:134905155 original size:18 final size:18
Alignment explanation
Indices: 134905129--134905171 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
134905119 GACTGGAAAA
* * *
134905129 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
134905147 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
134905165 AGGATAC
1 AGGATAC
134905172 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:134906827 original size:75 final size:73
Alignment explanation
Indices: 134906739--134906910 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
134906729 GGTTTTCCTC
*** * * **
134906739 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
134906803 TCAGTATGG
65 TCAGTATGG
*
134906812 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
134906877 CTCAGTATGG
64 CTCAGTATGG
134906887 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
134906911 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Done.