Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 116 of 213
Found at i:33232862 original size:13 final size:13
Alignment explanation
Indices: 33232844--33232886 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
33232834 TAGATTTTTC
33232844 CTAAATATTATCA
1 CTAAATATTATCA
*
33232857 CTAAATA--AT-T
1 CTAAATATTATCA
33232867 CTAAATATTATCA
1 CTAAATATTATCA
33232880 CTAAATA
1 CTAAATA
33232887 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:33232874 original size:23 final size:23
Alignment explanation
Indices: 33232844--33232894 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
33232834 TAGATTTTTC
33232844 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
33232867 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
33232890 -TAAAT
1 CTAAAT
33232895 TTTAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:33235435 original size:19 final size:19
Alignment explanation
Indices: 33235411--33235506 Score: 156
Period size: 19 Copynumber: 4.9 Consensus size: 19
33235401 ATAATTTTTG
33235411 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
33235430 ATGATATGCAATCCTAGAT
1 ATGATATGCAATCTTAGAT
33235449 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33235468 ATGATATATGCAATCTTAGAT
1 ATG--ATATGCAATCTTAGAT
*
33235489 ATGATATGTAATCTTAGA
1 ATGATATGCAATCTTAGA
33235507 AGATATGATT
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 53 0.74
21 19 0.26
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:33235488 original size:40 final size:38
Alignment explanation
Indices: 33235411--33235513 Score: 156
Period size: 40 Copynumber: 2.7 Consensus size: 38
33235401 ATAATTTTTG
33235411 ATGATATGCAATCTTAGATATGATATGCAATCCTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCCTAGAT
*
33235449 ATGATATGCAATCTTAGATATGATATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATG--ATATGCAATCCTAGAT
*
33235489 ATGATATGTAATCTTAGA-A-GATATG
1 ATGATATGCAATCTTAGATATGATATG
33235514 ATTTTGTAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 5 0.08
38 23 0.38
39 1 0.02
40 32 0.52
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGCAATCCTAGAT
Found at i:33235532 original size:22 final size:22
Alignment explanation
Indices: 33235445--33235529 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 22
33235435 ATGCAATCCT
*
33235445 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
33235466 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
33235485 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
* *
33235507 AGATATGATTTTGTAATTTTAGA
1 AGATATGA-TATGTAATCTTAGA
33235530 GATTTAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 12 0.23
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:33235539 original size:22 final size:23
Alignment explanation
Indices: 33235495--33235539 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33235485 AGATATGATA
*
33235495 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
* *
33235518 TGTAATTTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
33235540 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:33236708 original size:19 final size:20
Alignment explanation
Indices: 33236669--33236708 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
33236659 TTCTAGGCCT
* *
33236669 TTGTAATATTTATTATTGCA
1 TTGTAATATTTAATATAGCA
33236689 TTGT-ATATTTAATATAGCA
1 TTGTAATATTTAATATAGCA
33236708 T
1 T
33236709 CACATCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
TTGTAATATTTAATATAGCA
Found at i:33237072 original size:98 final size:98
Alignment explanation
Indices: 33236952--33237146 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
33236942 CTAAAAACAA
* *
33236952 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
33237017 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
33237050 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
33237115 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
33237147 ATTTTATTGT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:33240257 original size:2 final size:2
Alignment explanation
Indices: 33240250--33240282 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
33240240 AACTATGTAA
33240250 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
33240283 TTGTTATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:33243123 original size:100 final size:101
Alignment explanation
Indices: 33242949--33243164 Score: 299
Period size: 100 Copynumber: 2.1 Consensus size: 101
33242939 CAATTATTCA
* * *
33242949 AACGTAAGATCATGGTTGGATCATGGCAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
1 AACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
* * * *
33243014 ATGATGATAAGATCATAA-TTGGTTATGGCACTATG
66 ATGATGATAAGACCATAACTAGGTTATGACACTACG
* * * *
33243049 GACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATT
1 AACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
* *
33243114 CTGATGATAAGACCATAACTAGGTTATTACACTACG
66 ATGATGATAAGACCATAACTAGGTTATGACACTACG
*
33243150 AATGTAAGACCATGG
1 AACGTAAGACCATGG
33243165 CAGGGCCATG
Statistics
Matches: 100, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 74 0.74
101 26 0.26
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATT
ATGATGATAAGACCATAACTAGGTTATGACACTACG
Found at i:33245887 original size:17 final size:17
Alignment explanation
Indices: 33245865--33245905 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
33245855 TGTGGAGGGG
33245865 CACACGCCCGTGTGGGA
1 CACACGCCCGTGTGGGA
*
33245882 CACACGCTCGTGTGGGA
1 CACACGCCCGTGTGGGA
33245899 CACACGC
1 CACACGC
33245906 ACATGTGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.37, G:0.32, T:0.12
Consensus pattern (17 bp):
CACACGCCCGTGTGGGA
Found at i:33245912 original size:17 final size:17
Alignment explanation
Indices: 33245865--33245913 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
33245855 TGTGGAGGGG
*
33245865 CACACGCCCGTGTGGGA
1 CACACGCACGTGTGGGA
*
33245882 CACACGCTCGTGTGGGA
1 CACACGCACGTGTGGGA
*
33245899 CACACGCACATGTGG
1 CACACGCACGTGTGG
33245914 CCACTCGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.14
Consensus pattern (17 bp):
CACACGCACGTGTGGGA
Found at i:33246506 original size:16 final size:16
Alignment explanation
Indices: 33246482--33246512 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33246472 TTTACTTCCA
33246482 AAAAATAAAATAAATT
1 AAAAATAAAATAAATT
*
33246498 AAAATTAAAATAAAT
1 AAAAATAAAATAAAT
33246513 AACTAAATGA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATAAAATAAATT
Found at i:33250145 original size:101 final size:101
Alignment explanation
Indices: 33249970--33250190 Score: 309
Period size: 101 Copynumber: 2.2 Consensus size: 101
33249960 TTCAAACATC
* * *
33249970 AGACCATGGTTGGACCATGATAGTGTTTATATGTAAGACCATAGCTAGGCTATGGCATTATGATG
1 AGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATTATAATG
* *
33250035 ATAAAACCATAACCT-GGTTATAGCACTATGGACGTA
66 ATAAAACCATAA-CTAGGTTATAGCACTACGAACGTA
* * *
33250071 AGACCATGGTTGGACTATGACAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTAATG
1 AGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATTATAATG
* * *
33250136 ATAAGACCATAACTAGGTTATGGCACTACGAATGTA
66 ATAAAACCATAACTAGGTTATAGCACTACGAACGTA
* *
33250172 AGACCATGGTAGGGCCATG
1 AGACCATGGTTGGACCATG
33250191 GCAATGCATA
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
100 2 0.02
101 103 0.98
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
AGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATTATAATG
ATAAAACCATAACTAGGTTATAGCACTACGAACGTA
Found at i:33250146 original size:33 final size:35
Alignment explanation
Indices: 33250068--33250146 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
33250058 CACTATGGAC
* * *
33250068 GTAAGACCATGGTTGGACTATGACAGTGTTTATAT
1 GTAAGACCATAGCTGGACTATGACAGTGTCTATAT
*
33250103 GTAAGACCATAGCTGGGCTATGACA-T-TCTA-AT
1 GTAAGACCATAGCTGGACTATGACAGTGTCTATAT
33250135 GATAAGACCATA
1 G-TAAGACCATA
33250147 ACTAGGTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 3 0.08
33 13 0.33
34 1 0.03
35 22 0.56
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (35 bp):
GTAAGACCATAGCTGGACTATGACAGTGTCTATAT
Found at i:33250174 original size:33 final size:32
Alignment explanation
Indices: 33250101--33250178 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
33250091 CAGTGTTTAT
* * * *
33250101 ATGTAAGACCATAGCTGGGCTATGACATTCTA
1 ATGTAAGACCATAACTAGGCTATGACATACGA
* *
33250133 ATGATAAGACCATAACTAGGTTATGGCACTACGA
1 ATG-TAAGACCATAACTAGGCTATGACA-TACGA
33250167 ATGTAAGACCAT
1 ATGTAAGACCAT
33250179 GGTAGGGCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 29 0.76
34 6 0.16
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (32 bp):
ATGTAAGACCATAACTAGGCTATGACATACGA
Found at i:33256077 original size:49 final size:49
Alignment explanation
Indices: 33256023--33256119 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
33256013 AGAAAAGTAA
33256023 TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACATG
1 TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACATG
33256072 TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACAT
1 TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACAT
33256120 TTATTGGGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (49 bp):
TTAATTAAAATTAATTTATAATTTTTATTTTAGAAAATAGAAAAACATG
Found at i:33259025 original size:28 final size:30
Alignment explanation
Indices: 33258967--33259026 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
33258957 CTTTTCAAAG
* *
33258967 CTCAATTGATTGCTAACTTTCGATTAGAAA
1 CTCAATTGATTGCTAACTTTCAATTAAAAA
*
33258997 CTCAATTGATTG-TGA-TTTCAATTAAAAA
1 CTCAATTGATTGCTAACTTTCAATTAAAAA
33259025 CT
1 CT
33259027 TAATGAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.48
29 2 0.07
30 12 0.44
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (30 bp):
CTCAATTGATTGCTAACTTTCAATTAAAAA
Found at i:33262284 original size:18 final size:18
Alignment explanation
Indices: 33262257--33262293 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33262247 CTGGTGCGTT
*
33262257 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
33262275 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
33262293 T
1 T
33262294 TCTTTTCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:33262752 original size:25 final size:25
Alignment explanation
Indices: 33262724--33262771 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
33262714 TATTTTGATA
33262724 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
33262749 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
33262772 ATTTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:33262952 original size:44 final size:44
Alignment explanation
Indices: 33262828--33263280 Score: 425
Period size: 44 Copynumber: 10.0 Consensus size: 44
33262818 AACAATTAAT
* * * * *
33262828 ACCCTTAAGTTAAAAACTCTAACATAATTTAATTAAAAACCTTAA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-A
* *
33262873 ACCATTAACTTAAAAACCTTAGACCTAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTA-ACCTAATTAAATTAAAAACCCTA
* **
33262918 ACCCTTAACTTAAAAACCATAACCTAATTAAATTAAAAATTCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
33262962 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * * *
33263006 ACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* ***
33263050 ACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAAATTTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * * *
33263096 GCCTAATTAAATTAAAAACCCTAGCCTAATTAAATT-AAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
33263141 ACCTAATTTAA-TTAAAAA-CCTAAAACCCTAAACCCTAAACTTAAAAACCCTA
1 ACC---CTTAACTTAAAAACCCT--AA-CCT-AA--TTAAA-TTAAAAACCCTA
* * *
33263193 ACCCTTAACTTAAAAACACTAAACC--CTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCT-AACCTAATTAAATTAAAAACCCTA
*
33263236 ACCCTTAACTTAAAAACCCTAACCGAATTAAATTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
33263280 A
1 A
33263281 ATGAAATTAA
Statistics
Matches: 347, Mismatches: 43, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
42 4 0.01
43 31 0.09
44 129 0.37
45 52 0.15
46 90 0.26
47 3 0.01
48 2 0.01
49 6 0.02
50 14 0.04
51 4 0.01
52 12 0.03
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (44 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
Found at i:33262994 original size:67 final size:67
Alignment explanation
Indices: 33262828--33263280 Score: 426
Period size: 67 Copynumber: 6.7 Consensus size: 67
33262818 AACAATTAAT
* * * * *
33262828 ACCCTTAAGTTAAAAACTCTAACATAATTTAA-TTAAAAACCTTAAACC--ATTAACTTAAAAA-
1 ACCCTTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-AACCTAATTAAATTAAAAAT
33262889 CCTTA
64 CC-TA
* * * *
33262894 GACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCATAACCTAATTAAATTAAAAA
1 -ACC--CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAA
*
33262957 TTCTA
63 TCCTA
*
33262962 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAATCC
33263027 TA
66 TA
33263029 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAAAT-
1 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATT-AAAAATC
*
33263093 TTA
65 CTA
* * * * * *
33263096 GCCTAATTAAATTAAAAACCCTAGCCTAATTAAATT-AAAACCCTAACCTAATTTAATTAAAAAC
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAA-
33263160 CTAAAACCCTAA
63 -T-----CCT-A
* * * * * *
33263172 ACCCTAAACTTAAAAACCCTAACC--CTTAACTTAAAAACACTAAACC--CTTAACTTAAAAACC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCT-AACCTAATTAAATTAAAAATC
33263233 CTA
65 CTA
* *
33263236 ACCCTTAACTTAAAAACCCTAACCGAATTAAATTAAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAA
33263281 ATGAAATTAA
Statistics
Matches: 323, Mismatches: 39, Indels: 50
0.78 0.09 0.12
Matches are distributed among these distances:
64 24 0.07
65 24 0.07
66 22 0.07
67 119 0.37
68 40 0.12
69 46 0.14
72 16 0.05
73 7 0.02
74 21 0.07
75 1 0.00
76 3 0.01
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (67 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAATCC
TA
Found at i:33263085 original size:28 final size:23
Alignment explanation
Indices: 33262832--33263280 Score: 403
Period size: 23 Copynumber: 19.8 Consensus size: 23
33262822 ATTAATACCC
* * *
33262832 TTAAGTTAAAAACTCTAACATAA
1 TTAACTTAAAAACCCTAACCTAA
*
33262855 TTTAA-TTAAAAACCTTAAACC--A
1 -TTAACTTAAAAACCCT-AACCTAA
*
33262877 TTAACTTAAAAACCTTAGACCTAA
1 TTAACTTAAAAACCCTA-ACCTAA
* *
33262901 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
*
33262922 TTAACTTAAAAACCATAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* ** *
33262945 TTAAATTAAAAATTCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
33262966 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
33262989 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
33263012 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
33263033 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
33263056 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *** *
33263079 TTAAATTAAAAAATTTAGCCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
33263102 TTAAATTAAAAACCCTAGCCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
33263125 TTAAATT-AAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
33263147 TTTAA-TTAAAAA-CCTAAAACCCTAAA
1 -TTAACTTAAAAACCCT--AA-CCT-AA
* *
33263173 CCCTAAACTTAAAAACCCTAACC--C
1 ---TTAACTTAAAAACCCTAACCTAA
* *
33263197 TTAACTTAAAAACACTAAACC--C
1 TTAACTTAAAAACCCT-AACCTAA
*
33263219 TTAACTTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
*
33263240 TTAACTTAAAAACCCTAACCGAA
1 TTAACTTAAAAACCCTAACCTAA
*
33263263 TTAAATTAAAAACCCTAA
1 TTAACTTAAAAACCCTAA
33263281 ATGAAATTAA
Statistics
Matches: 362, Mismatches: 39, Indels: 49
0.80 0.09 0.11
Matches are distributed among these distances:
21 98 0.27
22 54 0.15
23 163 0.45
24 25 0.07
25 3 0.01
26 2 0.01
27 2 0.01
28 5 0.01
29 7 0.02
30 3 0.01
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.27
Consensus pattern (23 bp):
TTAACTTAAAAACCCTAACCTAA
Found at i:33263190 original size:22 final size:22
Alignment explanation
Indices: 33263162--33263281 Score: 165
Period size: 21 Copynumber: 5.5 Consensus size: 22
33263152 TTAAAAACCT
*
33263162 AAAACCCTAAACCCTAAACTTA
1 AAAACCCTAAACCCTTAACTTA
33263184 AAAACCCT-AACCCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
*
33263205 AAAACACTAAACCCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
33263227 AAAACCCT-AACCCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
* *
33263248 AAAACCCT-AACCGAATTAAATTA
1 AAAACCCTAAACC--CTTAACTTA
33263271 AAAACCCTAAA
1 AAAACCCTAAA
33263282 TGAAATTAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
21 44 0.49
22 28 0.31
23 15 0.17
24 2 0.02
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (22 bp):
AAAACCCTAAACCCTTAACTTA
Found at i:33263215 original size:43 final size:43
Alignment explanation
Indices: 33263162--33263257 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
33263152 TTAAAAACCT
33263162 AAAACCCTAAACCCTAAACTTAAAAACCCTAACCCTTAACTTA
1 AAAACCCTAAACCCTAAACTTAAAAACCCTAACCCTTAACTTA
* *
33263205 AAAACACTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTA
1 AAAACCCTAAACCCTAAACTTAAAAACCCTAACCCTTAACTTA
33263248 AAAACCCTAA
1 AAAACCCTAA
33263258 CCGAATTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (43 bp):
AAAACCCTAAACCCTAAACTTAAAAACCCTAACCCTTAACTTA
Found at i:33263494 original size:116 final size:116
Alignment explanation
Indices: 33263285--33263524 Score: 392
Period size: 116 Copynumber: 2.1 Consensus size: 116
33263275 CCCTAAATGA
* * **
33263285 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTAGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGAGTTGGAAAAATGTTTTTGACTAGTACTAACAAT
* *
33263350 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 TAATAATTTTATATAATCTGATAATTTTACTAACCATTAATACAATTTATC
* *
33263401 AATTAATAATTTTACATTCACATAATGTTAGAGTTGGAAAAATG-TTTTGACTGGTATTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGAGTTGGAAAAATGTTTTTGACTAGTACTAACAAT
33263465 TAATAATTTTATATAATCTGATAATTTTTACTAACCATTAATACAATTTATC
66 TAATAATTTTATATAATCTGATAA-TTTTACTAACCATTAATACAATTTATC
33263517 AATTAATA
1 AATTAATA
33263525 GTTTCACAAA
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
115 39 0.34
116 76 0.66
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGAGTTGGAAAAATGTTTTTGACTAGTACTAACAAT
TAATAATTTTATATAATCTGATAATTTTACTAACCATTAATACAATTTATC
Found at i:33266761 original size:125 final size:125
Alignment explanation
Indices: 33266539--33266915 Score: 625
Period size: 125 Copynumber: 3.0 Consensus size: 125
33266529 CCCAAACATG
*
33266539 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
33266604 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
*
33266664 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
*
33266729 CTAAAAGCGATTTTATACTATTTACTCAGAAACGTC-AAAAAAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* *
33266788 CTACTGTAGCAAAAGCGTGTCCACTAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *** *
33266852 TTAGAAGCGATTTTATACTATTTGA-TCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 CTAGAAGCGATTTTATACTATTT-ACTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGAC
33266913 CTA
1 CTA
33266916 AAAACCCTAA
Statistics
Matches: 237, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
123 62 0.26
124 56 0.24
125 119 0.50
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:33269081 original size:9 final size:10
Alignment explanation
Indices: 33269057--33269085 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
33269047 CACATGTGAC
33269057 AAAAAAATAT
1 AAAAAAATAT
33269067 AAAAAAATA-
1 AAAAAAATAT
33269076 AAAAAAATAT
1 AAAAAAATAT
33269086 TAAACTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:33269081 original size:19 final size:19
Alignment explanation
Indices: 33269057--33269109 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
33269047 CACATGTGAC
33269057 AAAAAAATATAAAAAAATA
1 AAAAAAATATAAAAAAATA
* ***
33269076 AAAAAAATATTAAACTTTA
1 AAAAAAATATAAAAAAATA
*
33269095 ATAAAAATATAAAAA
1 AAAAAAATATAAAAA
33269110 TATTTAAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAAAATATAAAAAAATA
Found at i:33269109 original size:28 final size:29
Alignment explanation
Indices: 33269060--33269149 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 29
33269050 ATGTGACAAA
*
33269060 AAAATATAA-AAAAATAAAAAAAATA-TT
1 AAAATTTAATAAAAATAAAAAAAATATTT
* *
33269087 AAACTTTAATAAAAAT-ATAAAAATATTT
1 AAAATTTAATAAAAATAAAAAAAATATTT
*
33269115 AAAATTTACTAAAAATTAGAAAAAAA-ATTGT
1 AAAATTTAATAAAAA-TA-AAAAAAATATT-T
33269146 AAAA
1 AAAA
33269150 ATTGTAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 15 0.29
28 21 0.41
29 1 0.02
30 3 0.06
31 11 0.22
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAATTTAATAAAAATAAAAAAAATATTT
Found at i:33269176 original size:19 final size:19
Alignment explanation
Indices: 33269161--33269198 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
33269151 TTGTAAAATT
33269161 TTATGAAAAT-CATAAAAAA
1 TTAT-AAAATGCATAAAAAA
33269180 TTATAAAATGCATAAAAAA
1 TTATAAAATGCATAAAAAA
33269199 AGGTCATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
TTATAAAATGCATAAAAAA
Found at i:33269455 original size:10 final size:10
Alignment explanation
Indices: 33269442--33269496 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
33269432 ATTTATAAAA
33269442 TTTTATATAT
1 TTTTATATAT
*
33269452 TTTTCTATAT
1 TTTTATATAT
*
33269462 TTCTATATA-
1 TTTTATATAT
33269471 TTTTATA-AT
1 TTTTATATAT
33269480 TTTTA-ATGAT
1 TTTTATAT-AT
33269490 TTTTATA
1 TTTTATA
33269497 ATCTTTTTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 2 0.05
9 11 0.30
10 23 0.62
11 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:33277242 original size:22 final size:23
Alignment explanation
Indices: 33277207--33277253 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
33277197 ACATATACAT
**
33277207 TGATTCTATGATGTAA-AAAAAA
1 TGATTCTACAATGTAAGAAAAAA
*
33277229 TGATTCTACAATGTAAGAAAGAA
1 TGATTCTACAATGTAAGAAAAAA
33277252 TG
1 TG
33277254 GAGTGATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (23 bp):
TGATTCTACAATGTAAGAAAAAA
Found at i:33287552 original size:236 final size:235
Alignment explanation
Indices: 33287132--33287572 Score: 695
Period size: 236 Copynumber: 1.9 Consensus size: 235
33287122 GAGGGCTGAA
* * *
33287132 TTCAAACAGAAATCAATGATAGACTGGATACAAAGGGCAACTTAACACGAAATTGGTTCATATGA
1 TTCAAACAGAAATCAATAATAGACTGGATACAAAGGGCAACTCAACACAAAATTGGTTCATATGA
* * * *
33287197 TGGTCAAAAGCAAGCACTGTAGGGCCACTATAAGGATATTAACTGATTTGGTGGGGAATAAATTG
66 TGGTCAAAAGCAAGCACTGTAGGGACACTATAAGCATATTAACTGATTTGGAGGGAAATAAATTG
* *
33287262 GAAACTTCGCAGCAGATTGCAAGGGAAGTCACAATGTTCTTCAAGCAGTTGTTGGCTACTGCAGA
131 GAAACTTCCCAGCAGATTGCAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGCAGA
*
33287327 TGGCCAGATTCAAAGAGTTGAACTGGCCGAGGAATGTTTC
196 CGGCCAGATTCAAAGAGTTGAACTGGCCGAGGAATGTTTC
*
33287367 TTCAAACAGAAATCAATAATAGACTGGATACAAATGGGCAACTCAACACAAAATTGTTTCATATG
1 TTCAAACAGAAATCAATAATAGACTGGATACAAA-GGGCAACTCAACACAAAATTGGTTCATATG
* * * *
33287432 ATGGTCAAAAGCAAGCACTTTAGGGACACTATAA-CATTTTTATCTGATTTGGAGGTAAATAAAT
65 ATGGTCAAAAGCAAGCACTGTAGGGACACTATAAGCA-TATTAACTGATTTGGAGGGAAATAAAT
** *
33287496 TGGAAACTTCCCAGCAGATTTTAAGGGAAGTCACAATGTTCTTCAAGTAATTGTTGGCTACTGCA
129 TGGAAACTTCCCAGCAGATTGCAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGCA
33287561 GACGGCCAGATT
194 GACGGCCAGATT
33287573 ACAGGATGCA
Statistics
Matches: 186, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
235 34 0.18
236 152 0.82
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (235 bp):
TTCAAACAGAAATCAATAATAGACTGGATACAAAGGGCAACTCAACACAAAATTGGTTCATATGA
TGGTCAAAAGCAAGCACTGTAGGGACACTATAAGCATATTAACTGATTTGGAGGGAAATAAATTG
GAAACTTCCCAGCAGATTGCAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGCAGA
CGGCCAGATTCAAAGAGTTGAACTGGCCGAGGAATGTTTC
Found at i:33290574 original size:108 final size:108
Alignment explanation
Indices: 33290380--33290583 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 108
33290370 ACCAATAACA
* *
33290380 TTAAATACTACTAGAAACTCAGCATTTACAATAAAGAAAACCAAATAATCAATGAAAATTAACAA
1 TTAAACACTACTAGAAACTCAGCATTTACAATAAAAAAAACCAAATAATCAATGAAAATTAACAA
* *
33290445 TCCTCAGACCAATGATATTCCAATCAGTAAACAGCAGCTAATT
66 TCATCAGACCAATAATATTCCAATCAGTAAACAGCAGCTAATT
* *
33290488 TTAAACACTACTAGAAACTTAGCATTTACAATAAAAAAAACCAAATAATCAATTAAAATTAACAA
1 TTAAACACTACTAGAAACTCAGCATTTACAATAAAAAAAACCAAATAATCAATGAAAATTAACAA
*
33290553 TCAT-AGGACCAATAA-ATTTCCATTCAGTAAA
66 TCATCA-GACCAATAATA-TTCCAATCAGTAAA
33290584 TTTATAAACC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 85 0.98
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.25
Consensus pattern (108 bp):
TTAAACACTACTAGAAACTCAGCATTTACAATAAAAAAAACCAAATAATCAATGAAAATTAACAA
TCATCAGACCAATAATATTCCAATCAGTAAACAGCAGCTAATT
Found at i:33292532 original size:27 final size:27
Alignment explanation
Indices: 33292502--33292556 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
33292492 AGTAGCAGAA
*
33292502 CAAACATTATATGCAATCTCTCAGTTT
1 CAAACATTATATGCAATCGCTCAGTTT
33292529 CAAACATTATATGCAATCGCTCAGTTT
1 CAAACATTATATGCAATCGCTCAGTTT
33292556 C
1 C
33292557 TCTTATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (27 bp):
CAAACATTATATGCAATCGCTCAGTTT
Found at i:33293484 original size:13 final size:13
Alignment explanation
Indices: 33293462--33293498 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
33293452 TAAAGTACCC
*
33293462 GTGTCTGACACTT
1 GTGTCCGACACTT
33293475 GTGTCCGACACTT
1 GTGTCCGACACTT
*
33293488 GTGTCCAACAC
1 GTGTCCGACAC
33293499 ATGAATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.30
Consensus pattern (13 bp):
GTGTCCGACACTT
Found at i:33315657 original size:16 final size:16
Alignment explanation
Indices: 33315636--33315675 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
33315626 ATGGAATATG
33315636 GCTGTAATAGAATAAA
1 GCTGTAATAGAATAAA
* *
33315652 GTTGTAATAGAATGAA
1 GCTGTAATAGAATAAA
33315668 GCTGTAAT
1 GCTGTAAT
33315676 TAGTAATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (16 bp):
GCTGTAATAGAATAAA
Found at i:33315877 original size:55 final size:61
Alignment explanation
Indices: 33315817--33315985 Score: 201
Period size: 55 Copynumber: 2.8 Consensus size: 61
33315807 TTTTTTTACG
33315817 TATAATTATTATTAAATATAATTTAATAAAAATAAATAAT-T-TAA-TT-AT-AC-T-TTAA
1 TATAATTATTATTAAATATAATTTAATAAAAAT-AATAATATATAATTTAATAACATCTTAA
* *
33315872 TATAATTATTATTAAATATAATTTAACAAAGATAATAATATATAATTTAATAACATTCTTAA
1 TATAATTATTATTAAATATAATTTAATAAAAATAATAATATATAATTTAATAACA-TCTTAA
* *
33315934 TATAATTATTATCAAAATATGAA-TTAATAAAAATCATAATATATAATATTAA
1 TATAATTATTAT-TAAATAT-AATTTAATAAAAATAATAATATATAAT-TTAA
33315986 AAAATAATAT
Statistics
Matches: 97, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
54 6 0.06
55 32 0.33
56 3 0.03
57 2 0.02
58 2 0.02
59 2 0.02
61 1 0.01
62 16 0.16
63 27 0.28
64 6 0.06
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (61 bp):
TATAATTATTATTAAATATAATTTAATAAAAATAATAATATATAATTTAATAACATCTTAA
Found at i:33318976 original size:17 final size:18
Alignment explanation
Indices: 33318950--33318984 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33318940 AGGCCAATCT
*
33318950 GGGCGTGTGGG-CCACAC
1 GGGCGCGTGGGCCCACAC
33318967 GGGCGCGTGGGCCCACAC
1 GGGCGCGTGGGCCCACAC
33318985 AGGCATGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.34, G:0.46, T:0.09
Consensus pattern (18 bp):
GGGCGCGTGGGCCCACAC
Found at i:33319451 original size:13 final size:13
Alignment explanation
Indices: 33319435--33319472 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
33319425 GGGGGTAGAA
*
33319435 ATCTGTATATCTG
1 ATCTGCATATCTG
33319448 ATCTGCATATCTG
1 ATCTGCATATCTG
33319461 ATCTGCATATCT
1 ATCTGCATATCT
33319473 ATAACTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (13 bp):
ATCTGCATATCTG
Found at i:33322859 original size:20 final size:19
Alignment explanation
Indices: 33322830--33322881 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 19
33322820 CATGAGCCTA
33322830 GGCCGTAATGGGCCACATTG
1 GGCCG-AATGGGCCACATTG
33322850 GGCCGAAATGGGCCACATTG
1 GGCCG-AATGGGCCACATTG
33322870 GGCCGAATGGGC
1 GGCCGAATGGGC
33322882 TCGTGAGTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.21, C:0.25, G:0.38, T:0.15
Consensus pattern (19 bp):
GGCCGAATGGGCCACATTG
Found at i:33323323 original size:26 final size:26
Alignment explanation
Indices: 33323250--33323324 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
33323240 AAGTATACTG
* *
33323250 TACTGGCAGCTTTGCCATA-TATACTGT
1 TACTGGCAGCTTTG-C-TACGATACTAT
* * *
33323277 TACTGGCAGCTTCGTTGCGATACTAT
1 TACTGGCAGCTTTGCTACGATACTAT
*
33323303 TATTGGCAGCTTTGCTACGATA
1 TACTGGCAGCTTTGCTACGATA
33323325 TTGGTGTGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 1 0.03
26 24 0.63
27 13 0.34
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTACGATACTAT
Found at i:33325244 original size:10 final size:11
Alignment explanation
Indices: 33325219--33325243 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33325209 GAGTTCTTCT
33325219 AAAAGGCCTAA
1 AAAAGGCCTAA
33325230 AAAAGGCCTAA
1 AAAAGGCCTAA
33325241 AAA
1 AAA
33325244 GAATGTCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (11 bp):
AAAAGGCCTAA
Found at i:33326650 original size:33 final size:33
Alignment explanation
Indices: 33326602--33326665 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
33326592 TGCATTATTG
33326602 CACTATACTGATACTGTATT-GGGCTAAGGCCCA
1 CACTATACTGATACTG-ATTAGGGCTAAGGCCCA
* * *
33326635 CACTGTACTGTTACTGATTAGGGCTCAGGCC
1 CACTATACTGATACTGATTAGGGCTAAGGCC
33326666 TGGACTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (33 bp):
CACTATACTGATACTGATTAGGGCTAAGGCCCA
Found at i:33330921 original size:31 final size:31
Alignment explanation
Indices: 33330886--33330966 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
33330876 TTCATGTATC
33330886 ATTATATTAAATTATTTAAATATTATTCATT
1 ATTATATTAAATTATTTAAATATTATTCATT
* *
33330917 ATTATATTAAATTATTTAAATCTTATTTATT
1 ATTATATTAAATTATTTAAATATTATTCATT
*
33330948 ATTATATTTAATT-TTTAAA
1 ATTATATTAAATTATTTAAA
33330967 ATAGTTTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 6 0.13
31 41 0.87
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTATATTAAATTATTTAAATATTATTCATT
Found at i:33332101 original size:43 final size:43
Alignment explanation
Indices: 33332040--33332125 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
33332030 TATTATATTT
33332040 CTATTACCATAATATAAATGACCTAAATTGATAAGTGCTAAAA
1 CTATTACCATAATATAAATGACCTAAATTGATAAGTGCTAAAA
* * *
33332083 CTATTACGATAATTTAAATGACCTAAATTGATAAGTGTTAAAA
1 CTATTACCATAATATAAATGACCTAAATTGATAAGTGCTAAAA
33332126 GAAACATGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (43 bp):
CTATTACCATAATATAAATGACCTAAATTGATAAGTGCTAAAA
Found at i:33333441 original size:20 final size:20
Alignment explanation
Indices: 33333418--33333461 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33333408 TAATTTAGCC
*
33333418 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTTTTAATTTAAT
*
33333438 ATTTTTGTTTTTAATTTAAT
1 ATTTTTATTTTTAATTTAAT
33333458 -TTTT
1 ATTTT
33333462 ACATTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
ATTTTTATTTTTAATTTAAT
Found at i:33342733 original size:13 final size:13
Alignment explanation
Indices: 33342715--33342739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33342705 TAATGGTATA
33342715 TTGAATCCATGAC
1 TTGAATCCATGAC
33342728 TTGAATCCATGA
1 TTGAATCCATGA
33342740 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:33344298 original size:47 final size:47
Alignment explanation
Indices: 33344239--33344547 Score: 555
Period size: 47 Copynumber: 6.6 Consensus size: 47
33344229 GAAATGATAG
*
33344239 TAAGGCCTAATGGCCGATGTGATGACTGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
33344286 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG-A
* *
33344334 TAGGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
33344381 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
33344428 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
33344475 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
33344522 TAAGGCTTAATGGCCGATGTGATGAA
1 TAAGGCCTAATGGCCGATGTGATGAA
33344548 GTGTATATAT
Statistics
Matches: 252, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 208 0.83
48 44 0.17
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:33361381 original size:11 final size:10
Alignment explanation
Indices: 33361363--33361411 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 10
33361353 GAGCATTTGA
33361363 GAGC-AAAAT
1 GAGCAAAAAT
*
33361372 GAGCGAAAAAC
1 GAGC-AAAAAT
33361383 GAGC-AAAAT
1 GAGCAAAAAT
33361392 GAGCACAAAAT
1 GAGCA-AAAAT
33361403 GAGCAAAAA
1 GAGCAAAAA
33361412 CCAAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 12 0.35
10 4 0.12
11 18 0.53
ACGTcount: A:0.57, C:0.14, G:0.22, T:0.06
Consensus pattern (10 bp):
GAGCAAAAAT
Found at i:33361388 original size:20 final size:20
Alignment explanation
Indices: 33361363--33361410 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
33361353 GAGCATTTGA
33361363 GAGCAAAATGAGCGA-AAAAC
1 GAGCAAAATGAGC-ACAAAAC
*
33361383 GAGCAAAATGAGCACAAAAT
1 GAGCAAAATGAGCACAAAAC
33361403 GAGCAAAA
1 GAGCAAAA
33361411 ACCAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.56, C:0.15, G:0.23, T:0.06
Consensus pattern (20 bp):
GAGCAAAATGAGCACAAAAC
Found at i:33361543 original size:17 final size:17
Alignment explanation
Indices: 33361523--33361569 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
33361513 ACCACACGGC
*
33361523 CATGTGAGCTACACAGT
1 CATGTGAGCCACACAGT
*
33361540 CATGTGAGCCACACGGT
1 CATGTGAGCCACACAGT
*
33361557 CGTGTGAGCCACA
1 CATGTGAGCCACA
33361570 TGGGCTACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.19
Consensus pattern (17 bp):
CATGTGAGCCACACAGT
Found at i:33361732 original size:9 final size:9
Alignment explanation
Indices: 33361715--33361751 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33361705 TGAGTTTTCG
33361715 AATTCGAAT
1 AATTCGAAT
*
33361724 AACTCGAAT
1 AATTCGAAT
*
33361733 ATTTCGAAT
1 AATTCGAAT
33361742 AATTCGAAT
1 AATTCGAAT
33361751 A
1 A
33361752 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33361740 original size:18 final size:18
Alignment explanation
Indices: 33361717--33361752 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33361707 AGTTTTCGAA
33361717 TTCGAATAACTCGAATAT
1 TTCGAATAACTCGAATAT
*
33361735 TTCGAATAATTCGAATAT
1 TTCGAATAACTCGAATAT
33361753 CAAACTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (18 bp):
TTCGAATAACTCGAATAT
Found at i:33361847 original size:29 final size:29
Alignment explanation
Indices: 33361802--33361857 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
33361792 ACTTTTTACT
*
33361802 TTTCCCTCAAAACTTTACT-CCTTCCCAC
1 TTTCCCCCAAAACTTTACTCCCTTCCCAC
*
33361830 TTTCCCCCAAAACTTTTATTCCCTTCCC
1 TTTCCCCCAAAAC-TTTACTCCCTTCCC
33361858 CTCCCAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 5 0.21
30 7 0.29
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTCCCCCAAAACTTTACTCCCTTCCCAC
Found at i:33362010 original size:30 final size:30
Alignment explanation
Indices: 33361963--33362021 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33361953 AACCTTTTAT
* *
33361963 TTTTCTCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
33361992 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
33362022 TCTCACCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.42
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:33362128 original size:17 final size:17
Alignment explanation
Indices: 33362101--33362158 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
33362091 CTCCCCCCTA
*
33362101 TTTACTTTCCCTTAAACT
1 TTTATTTTCCC-TAAACT
*
33362119 TTTA-TTTCCCAAAACTT
1 TTTATTTTCCCTAAAC-T
33362136 TTTATTTTTCCCCTAAACT
1 TTTA-TTTT-CCCTAAACT
33362155 TTTA
1 TTTA
33362159 CTTCTCACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 4 0.12
17 11 0.32
18 4 0.12
19 8 0.24
20 7 0.21
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTATTTTCCCTAAACT
Found at i:33364472 original size:20 final size:20
Alignment explanation
Indices: 33364449--33364497 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
33364439 AAGATTTAGT
33364449 AAAGAACTTAAAGTTCTATG
1 AAAGAACTTAAAGTTCTATG
*
33364469 AAAGAACTTAAAGTTTTATG
1 AAAGAACTTAAAGTTCTATG
*
33364489 AAAAAACTT
1 AAAGAACTT
33364498 GAGAAGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (20 bp):
AAAGAACTTAAAGTTCTATG
Found at i:33369384 original size:3 final size:3
Alignment explanation
Indices: 33369376--33369401 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33369366 TTTTGTGATT
33369376 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
33369402 GAATTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:33370173 original size:17 final size:17
Alignment explanation
Indices: 33370151--33370185 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
33370141 GCGTTTTTAG
*
33370151 GAGAGAGAAATGAAAAC
1 GAGAGAAAAATGAAAAC
33370168 GAGAGAAAAATGAAAAC
1 GAGAGAAAAATGAAAAC
33370185 G
1 G
33370186 CGTCCTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.06, G:0.29, T:0.06
Consensus pattern (17 bp):
GAGAGAAAAATGAAAAC
Found at i:33370180 original size:58 final size:58
Alignment explanation
Indices: 33370110--33370226 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
33370100 GTTGTTTTTG
* * * *
33370110 GAGAGAGAAATGAAAACGCATCATGTAGGACGCGTTTTTAGGAGAGAGAAATGAAAAC
1 GAGAGAAAAATGAAAACGCATCATGAAGAACGCGTTTTTAGGAGAGAAAAATGAAAAC
* * *
33370168 GAGAGAAAAATGAAAACGCGTCCTGAAGAACGTGTTTTTAGGAGAGAAAAATGAAAAC
1 GAGAGAAAAATGAAAACGCATCATGAAGAACGCGTTTTTAGGAGAGAAAAATGAAAAC
33370226 G
1 G
33370227 CGTCCTGCAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.17
Consensus pattern (58 bp):
GAGAGAAAAATGAAAACGCATCATGAAGAACGCGTTTTTAGGAGAGAAAAATGAAAAC
Found at i:33373818 original size:16 final size:17
Alignment explanation
Indices: 33373799--33373832 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
33373789 AAAATAGAAT
33373799 TTTAAAAAAAATT-ATA
1 TTTAAAAAAAATTGATA
*
33373815 TTTATAAAAAATTGATA
1 TTTAAAAAAAATTGATA
33373832 T
1 T
33373833 AAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TTTAAAAAAAATTGATA
Found at i:33375296 original size:12 final size:11
Alignment explanation
Indices: 33375268--33375308 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
33375258 AGAAGGGGCG
33375268 TTTT-TTTTTA
1 TTTTCTTTTTA
*
33375278 TGTT-TTTTTA
1 TTTTCTTTTTA
33375288 TTTTCTTTTTA
1 TTTTCTTTTTA
33375299 TTTTCGTTTT
1 TTTTC-TTTT
33375309 GAAAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 12 0.44
11 11 0.41
12 4 0.15
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTA
Found at i:33375303 original size:11 final size:10
Alignment explanation
Indices: 33375268--33375302 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
33375258 AGAAGGGGCG
33375268 TTTTTTTTTA
1 TTTTTTTTTA
*
33375278 TGTTTTTTTA
1 TTTTTTTTTA
33375288 TTTTCTTTTTA
1 TTTT-TTTTTA
33375299 TTTT
1 TTTT
33375303 CGTTTTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:33378304 original size:20 final size:21
Alignment explanation
Indices: 33378271--33378314 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
33378261 GTACTCGTCG
33378271 AAAGACTAAGGAAA-TGGACC
1 AAAGACTAAGGAAACTGGACC
*
33378291 AAAGACT-AGAGAAACTGGAGC
1 AAAGACTAAG-GAAACTGGACC
33378312 AAA
1 AAA
33378315 TGCAAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 11 0.52
21 8 0.38
ACGTcount: A:0.52, C:0.14, G:0.25, T:0.09
Consensus pattern (21 bp):
AAAGACTAAGGAAACTGGACC
Found at i:33380722 original size:20 final size:19
Alignment explanation
Indices: 33380693--33380741 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
33380683 AGATTCAATC
33380693 AAAAAAAAATCAAAAA-CAA
1 AAAAAAAAAT-AAAAATCAA
33380712 AAAATAAAAATAAAAATCAA
1 AAAA-AAAAATAAAAATCAA
33380732 AAACAAAAAA
1 AAA-AAAAAA
33380742 GGAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.33
20 17 0.63
21 1 0.04
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (19 bp):
AAAAAAAAATAAAAATCAA
Found at i:33380730 original size:26 final size:25
Alignment explanation
Indices: 33380693--33380751 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
33380683 AGATTCAATC
33380693 AAAAAAAAATCAAAAACAAAAAATA
1 AAAAAAAAATCAAAAACAAAAAATA
**
33380718 AAAATAAAAATCAAAAACAAAAAAGG
1 AAAA-AAAAATCAAAAACAAAAAATA
33380744 AAAAAAAA
1 AAAAAAAA
33380752 TTTCAAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (25 bp):
AAAAAAAAATCAAAAACAAAAAATA
Found at i:33386806 original size:32 final size:33
Alignment explanation
Indices: 33386734--33386810 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 33
33386724 AATGAATCAA
**
33386734 AGTTAATTGGTTCATGTAACAACAAAAAAAAATT
1 AGTTAATTGGTTCATGTAAC-ACAAAAAAAAAAG
*
33386768 AATTAATTGGTTCATGTAAC-CAAAAAAAAAAG
1 AGTTAATTGGTTCATGTAACACAAAAAAAAAAG
33386800 AGTTAA-TGGTT
1 AGTTAATTGGTT
33386811 TCAAAATCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
31 5 0.13
32 15 0.38
34 19 0.49
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (33 bp):
AGTTAATTGGTTCATGTAACACAAAAAAAAAAG
Found at i:33389771 original size:20 final size:19
Alignment explanation
Indices: 33389745--33389802 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
33389735 ATAAAAGCAA
33389745 ATGAGCTTAAAATGAGCT-G
1 ATGAGC-TAAAATGAGCTCG
*
33389764 ATTGAGCTAAGAGTGAGCTCG
1 A-TGAGCTAA-AATGAGCTCG
33389785 ATGAGCTAAAATTGAGCT
1 ATGAGCTAAAA-TGAGCT
33389803 AAATGAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 5 0.15
20 26 0.79
21 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (19 bp):
ATGAGCTAAAATGAGCTCG
Found at i:33389808 original size:20 final size:19
Alignment explanation
Indices: 33389743--33389808 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
33389733 ATATAAAAGC
33389743 AAATGAGCTTAAAATGAGCT
1 AAATGAGC-TAAAATGAGCT
* * *
33389763 GATTGAGCTAAGAGTGAGCT
1 AAATGAGCTAA-AATGAGCT
**
33389783 CGATGAGCTAAAATTGAGCT
1 AAATGAGCTAAAA-TGAGCT
33389803 AAATGA
1 AAATGA
33389809 ACTTGAAGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (19 bp):
AAATGAGCTAAAATGAGCT
Found at i:33391051 original size:18 final size:19
Alignment explanation
Indices: 33391030--33391065 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33391020 AAAGCGAAAA
*
33391030 GAGATTGA-AAAAGAATTT
1 GAGATTGAGAAAAAAATTT
33391048 GAGATTGAGAAAAAAATT
1 GAGATTGAGAAAAAAATT
33391066 GACAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (19 bp):
GAGATTGAGAAAAAAATTT
Found at i:33395404 original size:8 final size:8
Alignment explanation
Indices: 33395393--33395435 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
33395383 ATTTTAAAAT
33395393 TTTTTATA
1 TTTTTATA
33395401 TTTTTATA
1 TTTTTATA
33395409 TTTTTGA-A
1 TTTTT-ATA
33395417 -TTTTATA
1 TTTTTATA
*
33395424 TTTATATA
1 TTTTTATA
33395432 TTTT
1 TTTT
33395436 AAAATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 1 0.03
7 5 0.17
8 23 0.77
9 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTTATA
Found at i:33395434 original size:15 final size:15
Alignment explanation
Indices: 33395395--33395436 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33395385 TTTAAAATTT
33395395 TTTATAT-TTTTATA
1 TTTATATATTTTATA
*
33395409 TTTTTGA-ATTTTATA
1 TTTAT-ATATTTTATA
33395424 TTTATATATTTTA
1 TTTATATATTTTA
33395437 AAATATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTATATATTTTATA
Found at i:33398931 original size:62 final size:62
Alignment explanation
Indices: 33398858--33398984 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
33398848 ATTTTTTTCC
33398858 ATTTTTTCTTTTTCACTTTCTTTCCCATTTCTCCTCTCAATCAAGCATACCCTAAAGATTTA
1 ATTTTTTCTTTTTCACTTTCTTTCCCATTTCTCCTCTCAATCAAGCATACCCTAAAGATTTA
33398920 ATTTTTTCTTTTTCACTTTCTTTCCCATTTCTCCTCTCAATCAAGCATACCCTAAAGATTTA
1 ATTTTTTCTTTTTCACTTTCTTTCCCATTTCTCCTCTCAATCAAGCATACCCTAAAGATTTA
33398982 ATT
1 ATT
33398985 GATAAAGTGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.23, C:0.27, G:0.03, T:0.47
Consensus pattern (62 bp):
ATTTTTTCTTTTTCACTTTCTTTCCCATTTCTCCTCTCAATCAAGCATACCCTAAAGATTTA
Found at i:33399127 original size:19 final size:21
Alignment explanation
Indices: 33399094--33399132 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
33399084 TAGAGTTTGT
33399094 AAAATGAGATGAATTTTAAAA
1 AAAATGAGATGAATTTTAAAA
33399115 AAAAT-AGAT-AATTTTAAA
1 AAAATGAGATGAATTTTAAA
33399133 TTAACATACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAATGAGATGAATTTTAAAA
Found at i:33413910 original size:106 final size:106
Alignment explanation
Indices: 33413725--33413931 Score: 292
Period size: 106 Copynumber: 2.0 Consensus size: 106
33413715 AGTTTGGCCT
* *
33413725 TTATTATATGCTTTTTCCTGGGGTAGCTATCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
1 TTATTATATGCTTTTTCATGGGGTAGCTACCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
* *
33413790 TCCTCTTTGCTTTTGGCAAAACATAGTGATAGCTTTAGCCA
66 TCATCTTTGCTTTTGGCAAAACATAATGATAGCTTTAGCCA
*** *
33413831 TTATTATATGCTTTTTCAT-GGGTGAGCTACCATTTTGGTTAAAATTGCTT-TAACTTAATGGTC
1 TTATTATATGCTTTTTCATGGGGT-AGCTACCATTTTGGTTAAAAAAACTTAT-ACTCAATGGTC
* *
33413894 TCTTATCTTTGCTTTTGGCAAAGCATAATGATAGCTTT
64 TCTCATCTTTGCTTTTGGCAAAACATAATGATAGCTTT
33413932 GGTTGAGGCC
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
105 5 0.06
106 84 0.94
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (106 bp):
TTATTATATGCTTTTTCATGGGGTAGCTACCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
TCATCTTTGCTTTTGGCAAAACATAATGATAGCTTTAGCCA
Found at i:33415737 original size:91 final size:91
Alignment explanation
Indices: 33415604--33415811 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 91
33415594 TTGATTTTAG
* *
33415604 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
33415669 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
33415696 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
33415761 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
33415787 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
33415812 GTTATAATTA
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 86 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:33415932 original size:63 final size:61
Alignment explanation
Indices: 33415865--33416057 Score: 170
Period size: 63 Copynumber: 3.2 Consensus size: 61
33415855 AAATATATTT
33415865 AATATTAATTATTTCAAATTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
1 AATATTAATTATTT-AAATTTTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * * * **
33415928 AATATTAATTATTAAGAATTTTATTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTT-TTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
33415982 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAA---ATTTTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
33416047 G
61 G
33416048 AATATTAATT
1 AATATTAATT
33416058 CTTAAGAATT
Statistics
Matches: 99, Mismatches: 15, Indels: 29
0.69 0.10 0.20
Matches are distributed among these distances:
54 12 0.12
55 6 0.06
56 4 0.04
57 7 0.07
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 2 0.02
63 22 0.22
64 4 0.04
65 4 0.04
66 9 0.09
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (61 bp):
AATATTAATTATTTAAATTTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:33415984 original size:15 final size:15
Alignment explanation
Indices: 33415949--33416000 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
33415939 TTAAGAATTT
*
33415949 TATTAAATTAT-ATA
1 TATTTAATTATAATA
33415963 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
33415977 TATTTAATAATAAT-
1 TATTTAATTATAATA
33415991 TATGTTAATT
1 TAT-TTAATT
33416001 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:33416055 original size:120 final size:118
Alignment explanation
Indices: 33415827--33416123 Score: 490
Period size: 120 Copynumber: 2.5 Consensus size: 118
33415817 AATTATTTTA
* * * *
33415827 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTTTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTCAAATATTTTAC
33415891 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
33415944 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTCAA---ATATTT
*
33416008 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTCTTAAG
63 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
33416064 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTCAAATAT
33416124 GATTAAATTA
Statistics
Matches: 168, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
117 49 0.29
118 6 0.04
120 111 0.66
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (118 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTCAAATATTTTAC
AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:33416093 original size:18 final size:17
Alignment explanation
Indices: 33416065--33416099 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33416055 ATTCTTAAGA
*
33416065 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33416082 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33416100 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33416290 original size:39 final size:40
Alignment explanation
Indices: 33416247--33416351 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
33416237 TTCCATTATG
33416247 CTATTACACCTCTATTCCATTCAACCAAACACTAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACTAGATTTA
** * * *
33416286 CTATTATGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACTAGATTTA
33416331 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
33416352 ACACCTCTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
39 14 0.26
40 5 0.09
44 18 0.34
45 16 0.30
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.36
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACTAGATTTA
Found at i:33416346 original size:45 final size:44
Alignment explanation
Indices: 33416245--33416354 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
33416235 TTTTCCATTA
33416245 TGCTATTACACCTCTATT-C----CATTCAACCAAACACTAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACTAGAT
* ** * *
33416284 TACTATTATGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACTAGA-T
33416329 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
33416355 CCTCTATTCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 15 0.26
40 1 0.02
44 17 0.30
45 24 0.42
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACTAGAT
Found at i:33416354 original size:16 final size:16
Alignment explanation
Indices: 33416333--33416386 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
33416323 TTGATTTGCT
33416333 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33416349 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
33416365 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
33416381 AATACA
1 ATTACA
33416387 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:33418072 original size:25 final size:25
Alignment explanation
Indices: 33418044--33418126 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
33418034 CAGCTCTTAT
*
33418044 GAGCGTCCTGA-TATATGGCTCTTCG
1 GAGCTTCCTGATTA-ATGGCTCTTCG
* * *
33418069 GAGCTTCCCGATTAAAGGCTCTTTCAT
1 GAGCTTCCTGATTAATGGCTC-TTC-G
*
33418096 GAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTCCTGATTAATGGCTCTTCG
33418121 GAGCTT
1 GAGCTT
33418127 TCGATATTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
25 21 0.45
26 7 0.15
27 19 0.40
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTTCG
Found at i:33418222 original size:14 final size:14
Alignment explanation
Indices: 33418203--33418231 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33418193 GGGCTTCCCG
33418203 TTTACATGTTTTCA
1 TTTACATGTTTTCA
33418217 TTTACATGTTTTCA
1 TTTACATGTTTTCA
33418231 T
1 T
33418232 GAGCATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTACATGTTTTCA
Found at i:33420648 original size:62 final size:61
Alignment explanation
Indices: 33420562--33420689 Score: 175
Period size: 62 Copynumber: 2.1 Consensus size: 61
33420552 GTACACGCTT
* * * * *
33420562 GTGTCCCTAGCCGTGTGGTTTTGTACAAAAAATAGTGAGTTACACGGCCTGGACATATGCCC
1 GTGTCCCTAGCCGTGTGGTATTGTACAAAAAACAGTGAGTTACA-GGCCTAGACACACGCCC
* * *
33420624 GTGTCCCTAGCCGTGTGGTATTGTACCACAAACAGTGAGTTACATGCCTAGACACACGCCC
1 GTGTCCCTAGCCGTGTGGTATTGTACAAAAAACAGTGAGTTACAGGCCTAGACACACGCCC
33420685 GTGTC
1 GTGTC
33420690 TATTGCCCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
61 18 0.31
62 40 0.69
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (61 bp):
GTGTCCCTAGCCGTGTGGTATTGTACAAAAAACAGTGAGTTACAGGCCTAGACACACGCCC
Found at i:33423427 original size:19 final size:19
Alignment explanation
Indices: 33423403--33423439 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
33423393 ATTTTGATGT
33423403 TGTGGTATG-ATAGTTTAAA
1 TGTGGTATGTAT-GTTTAAA
33423422 TGTGGTATGTATGTTTAA
1 TGTGGTATGTATGTTTAA
33423440 TTCCATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (19 bp):
TGTGGTATGTATGTTTAAA
Found at i:33430088 original size:13 final size:12
Alignment explanation
Indices: 33430070--33430128 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
33430060 TGGGAAAGAA
33430070 AAAGATATGAGAG
1 AAAGATA-GAGAG
33430083 AAAGATAGAG-G
1 AAAGATAGAGAG
* *
33430094 AACGAGAGAGA-
1 AAAGATAGAGAG
*
33430105 AAGAGATATGGGAG
1 AA-AGATA-GAGAG
33430119 AAAGATAGAG
1 AAAGATAGAG
33430129 GGTTAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
11 11 0.31
12 8 0.22
13 15 0.42
14 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.36, T:0.10
Consensus pattern (12 bp):
AAAGATAGAGAG
Found at i:33430128 original size:19 final size:19
Alignment explanation
Indices: 33430072--33430128 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
33430062 GGAAAGAAAA
33430072 AGATATGAGAGAAAGATAG
1 AGATATGAGAGAAAGATAG
* *
33430091 AGGA-ACGAGAG--AGAAAG
1 A-GATATGAGAGAAAGATAG
*
33430108 AGATATGGGAGAAAGATAG
1 AGATATGAGAGAAAGATAG
33430127 AG
1 AG
33430129 GGTTAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
16 2 0.07
17 11 0.38
19 14 0.48
20 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.37, T:0.11
Consensus pattern (19 bp):
AGATATGAGAGAAAGATAG
Found at i:33431071 original size:35 final size:35
Alignment explanation
Indices: 33431025--33431095 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
33431015 AAAAAATTCA
*
33431025 AGCCAATATTTTAATAATAATAAAGTATTTAAACT
1 AGCCAATATTTTAATAAGAATAAAGTATTTAAACT
* *
33431060 AGCCAATATTTTAATAAGATTAAATTATTTAAACT
1 AGCCAATATTTTAATAAGAATAAAGTATTTAAACT
33431095 A
1 A
33431096 ACTAATGACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (35 bp):
AGCCAATATTTTAATAAGAATAAAGTATTTAAACT
Found at i:33433070 original size:34 final size:34
Alignment explanation
Indices: 33433032--33433109 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
33433022 GCAATATGAC
* * *
33433032 ATGCTTATAACAGA-TCAATATGGTAGCAATTTAT
1 ATGCTTATAACA-ATTCAATACGGTAGCAAATAAT
* *
33433066 ATGCTAATAACAATTCGATACGGTAGCAAATAAT
1 ATGCTTATAACAATTCAATACGGTAGCAAATAAT
33433100 ATGCTTATAA
1 ATGCTTATAA
33433110 TGGACCAACG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (34 bp):
ATGCTTATAACAATTCAATACGGTAGCAAATAAT
Found at i:33444069 original size:21 final size:21
Alignment explanation
Indices: 33444043--33444084 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
33444033 TACACATGTG
33444043 GAGTATTTAGGACACATCATC
1 GAGTATTTAGGACACATCATC
33444064 GAGTATTTAGGACACATCATC
1 GAGTATTTAGGACACATCATC
33444085 TCGAAGGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (21 bp):
GAGTATTTAGGACACATCATC
Found at i:33449871 original size:45 final size:47
Alignment explanation
Indices: 33449782--33449874 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 47
33449772 TATAAACAAA
*
33449782 TATTTATATTTATGTAAAAACACCAGATTTAAATAAAAAATTAAATAAT
1 TATTTATATTTATGTAAAAACACCAGATTT--AGAAAAAATTAAATAAT
* *
33449831 TATTTGTATTTATGT-AAAACACCAGATTT-GAAACAATTAAATAA
1 TATTTATATTTATGTAAAAACACCAGATTTAGAAAAAATTAAATAA
33449875 ACCAGGTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
45 13 0.32
48 14 0.34
49 14 0.34
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (47 bp):
TATTTATATTTATGTAAAAACACCAGATTTAGAAAAAATTAAATAAT
Found at i:33458087 original size:12 final size:11
Alignment explanation
Indices: 33458058--33458093 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
33458048 TTTTGAATAA
33458058 AATATTTTTTT
1 AATATTTTTTT
*
33458069 TATATTTTTTT
1 AATATTTTTTT
33458080 AATAATTTTTTT
1 AAT-ATTTTTTT
33458092 AA
1 AA
33458094 AAAAATACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:33458134 original size:5 final size:5
Alignment explanation
Indices: 33458124--33458149 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33458114 GGTCAACGGA
33458124 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
33458150 GGCGCCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:33458194 original size:27 final size:27
Alignment explanation
Indices: 33458164--33458230 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
33458154 CCTATTAGGT
33458164 AGGCGCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
*
33458191 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
33458218 AGGCGCCAATGAA
1 AGGCGCCAATGAA
33458231 TATTGTAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.31, C:0.24, G:0.33, T:0.12
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:33458329 original size:21 final size:21
Alignment explanation
Indices: 33458300--33458343 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
33458290 TGGATTAGTA
*
33458300 TTTTGTATGAATACTGTAATT
1 TTTTATATGAATACTGTAATT
*
33458321 TTTTATATGAATATTGTAATT
1 TTTTATATGAATACTGTAATT
33458342 TT
1 TT
33458344 GTGTTTGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTATATGAATACTGTAATT
Found at i:33458476 original size:16 final size:16
Alignment explanation
Indices: 33458431--33458476 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
33458421 ACAAAATAAA
*
33458431 ATAAAAAAT-AATTAT
1 ATAAAAATTAAATTAT
* *
33458446 ATAAAAGTTACATTAT
1 ATAAAAATTAAATTAT
33458462 ATAAAAATTAAATTA
1 ATAAAAATTAAATTA
33458477 GTTAACAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
ATAAAAATTAAATTAT
Found at i:33458552 original size:38 final size:38
Alignment explanation
Indices: 33458509--33458590 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
33458499 AAAAAGTCAG
33458509 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
*
33458547 TTATAATTAAACTTTTAATAAGATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
33458585 TTATAA
1 TTATAA
33458591 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:33458716 original size:60 final size:60
Alignment explanation
Indices: 33458623--33458744 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
33458613 ATATTAAACT
* * * *
33458623 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATTT-T-AAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATT--ATTTATAAAATAATTAC
*
33458683 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTATTTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTATTTATAAAATAATTAC
33458743 AA
1 AA
33458745 TATTCATACA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 4 0.07
59 1 0.02
60 50 0.91
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTATTTATAAAATAATTAC
Found at i:33458763 original size:21 final size:21
Alignment explanation
Indices: 33458732--33458898 Score: 104
Period size: 27 Copynumber: 7.2 Consensus size: 21
33458722 AATTATTTAT
33458732 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
33458754 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
*** *
33458780 TCGACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
33458801 --AAAATTACAATATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
*
33458824 ATACAAAATTATAATATTACAATATTC
1 A-A-AAAATTACAATATT-C-ATA--C
*
33458851 ATACAAAATTACAATATTCATAT
1 A-A-AAAATTACAATATTCATAC
33458874 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
33458895 AAAA
1 AAAA
33458899 TACTAATCCA
Statistics
Matches: 122, Mismatches: 10, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
19 12 0.10
20 1 0.01
21 38 0.31
22 9 0.07
23 2 0.02
25 7 0.06
26 14 0.11
27 39 0.32
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:33458772 original size:8 final size:8
Alignment explanation
Indices: 33458759--33458889 Score: 61
Period size: 8 Copynumber: 15.4 Consensus size: 8
33458749 CATACAAAAA
33458759 ATTACAAT
1 ATTACAAT
33458767 ATTACAAT
1 ATTACAAT
* * *
33458775 ATATCTCGAC
1 AT-T-ACAAT
33458785 ATTACAAT
1 ATTACAAT
*
33458793 ATTCATACAAA
1 A-T--TACAAT
33458804 ATTACAAT
1 ATTACAAT
33458812 ATTACAAT
1 ATTACAAT
*
33458820 ATTCATACAAA
1 A-T--TACAAT
*
33458831 ATTATAAT
1 ATTACAAT
33458839 ATTACAAT
1 ATTACAAT
*
33458847 ATTCATACAAA
1 A-T--TACAAT
33458858 ATTACAAT
1 ATTACAAT
33458866 ATT-C-AT
1 ATTACAAT
* *
33458872 A-TAAAAA
1 ATTACAAT
33458879 ATTACAAT
1 ATTACAAT
33458887 ATT
1 ATT
33458890 CATACAAAAT
Statistics
Matches: 91, Mismatches: 18, Indels: 28
0.66 0.13 0.20
Matches are distributed among these distances:
5 1 0.01
6 3 0.03
7 3 0.03
8 54 0.59
9 5 0.05
10 7 0.08
11 18 0.20
ACGTcount: A:0.50, C:0.14, G:0.01, T:0.35
Consensus pattern (8 bp):
ATTACAAT
Found at i:33458809 original size:19 final size:19
Alignment explanation
Indices: 33458785--33458972 Score: 108
Period size: 19 Copynumber: 9.7 Consensus size: 19
33458775 ATATCTCGAC
33458785 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
33458804 ATTACAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
33458821 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
33458839 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
33458858 ATTACAATATTCATATAAAAA
1 ATTACAATATTC--ATACAAA
33458879 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* * *
33458898 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
33458918 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
33458940 ATTACAATATTAATACAAA
1 ATTACAATATTCATACAAA
33458959 ATTACAATATTCAT
1 ATTACAATATTCAT
33458973 TGGCGCCTCT
Statistics
Matches: 131, Mismatches: 17, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
16 13 0.10
17 7 0.05
18 9 0.07
19 56 0.43
20 13 0.10
21 21 0.16
22 5 0.04
23 5 0.04
25 2 0.02
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:33458821 original size:27 final size:27
Alignment explanation
Indices: 33458785--33458889 Score: 159
Period size: 27 Copynumber: 4.1 Consensus size: 27
33458775 ATATCTCGAC
33458785 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
33458812 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
33458839 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
33458866 ATT-C-ATA-T-A-A-AAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
33458887 ATT
1 ATT
33458890 CATACAAAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
21 14 0.18
22 1 0.01
23 1 0.01
24 1 0.01
25 3 0.04
26 1 0.01
27 55 0.72
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:33458922 original size:67 final size:60
Alignment explanation
Indices: 33458812--33458960 Score: 138
Period size: 67 Copynumber: 2.4 Consensus size: 60
33458802 AAATTACAAT
** * **
33458812 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAATTACAATATTCATATAAA
1 ATTACAATATTCATACAAAA-TATAATACCAAAATATAAATAC-AAATT--AA-ATT-ATA-AAA
33458877 AA
59 AA
* *
33458879 ATTACAATATTCATACAAAATACTAAT-CCAAAACTATAAATACAAATTTAATTATAAAATA
1 ATTACAATATTCATACAAAATA-TAATACCAAAA-TATAAATACAAATTAAATTATAAAAAA
*
33458940 ATTACAATATTAATACAAAAT
1 ATTACAATATTCATACAAAAT
33458961 TACAATATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
61 24 0.33
62 3 0.04
63 3 0.04
64 1 0.01
66 10 0.14
67 31 0.43
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
ATTACAATATTCATACAAAATATAATACCAAAATATAAATACAAATTAAATTATAAAAAA
Found at i:33459006 original size:27 final size:27
Alignment explanation
Indices: 33458968--33459034 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
33458958 AATTACAATA
*
33458968 TTCATTGGCGCCTCTGTATGAGACACC
1 TTCATTGGCGCCTCTCTATGAGACACC
* *
33458995 TTCATTGGCGCCTCTCTGTGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGACACC
33459022 TTCATTGGCGCCT
1 TTCATTGGCGCCT
33459035 ACCTGATAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.13, C:0.31, G:0.24, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGACACC
Found at i:33459045 original size:27 final size:27
Alignment explanation
Indices: 33458968--33459045 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
33458958 AATTACAATA
*
33458968 TTCATTGGCGCCT-CTGTATGAGACACC
1 TTCATTGGCGCCTCCTG-ATGAGGCACC
33458995 TTCATTGGCGCCTCTCTG-TGAGGCACC
1 TTCATTGGCGCCTC-CTGATGAGGCACC
33459022 TTCATTGGCGCCTACCTGAT-AGGC
1 TTCATTGGCGCCT-CCTGATGAGGC
33459046 GCCACCCGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
27 41 0.89
28 2 0.04
29 3 0.07
ACGTcount: A:0.15, C:0.31, G:0.24, T:0.29
Consensus pattern (27 bp):
TTCATTGGCGCCTCCTGATGAGGCACC
Found at i:33459401 original size:15 final size:15
Alignment explanation
Indices: 33459377--33459406 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33459367 TAAAATTATA
33459377 AAAAAATTGAATATT
1 AAAAAATTGAATATT
*
33459392 AAAAATTTGAATATT
1 AAAAAATTGAATATT
33459407 TTTATACAAT
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:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AAAAAATTGAATATT
Found at i:33460541 original size:34 final size:34
Alignment explanation
Indices: 33460476--33460541 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
33460466 TTAGAGTTTT
* *
33460476 TTTTAAATAATTATAAAAATTATTTAATTTTAAA
1 TTTTAAATAATTATAAAAATAATATAATTTTAAA
* *
33460510 TTTTAAATAAATTTTAAAAA-AATATATTTTTA
1 TTTTAAAT-AATTATAAAAATAATATAATTTTA
33460542 GGATTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 17 0.63
35 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (34 bp):
TTTTAAATAATTATAAAAATAATATAATTTTAAA
Found at i:33461206 original size:3 final size:3
Alignment explanation
Indices: 33461198--33461223 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33461188 GCAAAAAGTG
33461198 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
33461224 GGGTACGCAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:33462543 original size:40 final size:40
Alignment explanation
Indices: 33462372--33462687 Score: 298
Period size: 41 Copynumber: 7.8 Consensus size: 40
33462362 TAACCTTTCG
* *
33462372 GGGCTTTAGCGGCGCTTTTAAAGAAGCGCCGCTAGTGCTCA
1 GGGCTTTAGCGGCGTTTTTAAA-AAGCGCCGCTAATGCTCA
* * *
33462413 GAGCTTTAGCAGCGTTTTTAAAGAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAAA-AAGCGCCGCTAATGCTCA
* * * * * *
33462454 GAGCTTTAGCGGCATTTTTGAAGAAGCGCTGCTAATGTTCG
1 GGGCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCA
*
33462495 GGGTTTTAGCGGCGTTTTTAAAAAGCGCCGC-AACTGCTCA
1 GGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAA-TGCTCA
** * * * *
33462535 AAGCTTTAGCGCCGTTTTTAAGGAAGCGCCACTAATACTC-
1 GGGCTTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCA
* **
33462575 GAGGTTTTAGCGGCGTTTTTGGAAAGCGCCGCTAATGCTC-
1 G-GGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCA
* * *
33462615 GTGGTTTTAGCGGCGTTTTTTGAAAAGCGCCGTTAATGCTC-
1 G-GGCTTTAGCGGCG-TTTTTAAAAAGCGCCGCTAATGCTCA
*
33462656 GGGATTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTT-AAAAAGCGCCGC
33462688 AAAAACATTT
Statistics
Matches: 227, Mismatches: 41, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
39 7 0.03
40 82 0.36
41 134 0.59
42 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
GGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCA
Found at i:33462553 original size:81 final size:81
Alignment explanation
Indices: 33462374--33462687 Score: 339
Period size: 81 Copynumber: 3.9 Consensus size: 81
33462364 ACCTTTCGGG
* * * * * * *
33462374 GCTTTAGCGGCGCTTTTAAAGAAGCGCCGCTAGTGCTCAGAGCTTTAGCAGCGTTTTTAAAGAAG
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAAA-AAG
* *
33462439 CGTCGCTAATGCTCAGA
65 CGCCGCTAATGCTCAAA
* * *
33462456 GCTTTAGCGGCATTTTTGAAGAAGCGCTGCTAATGTTCGGGGTTTTAGCGGCGTTTTTAAAAAGC
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAAAAAGC
33462521 GCCGC-AACTGCTCAAA
66 GCCGCTAA-TGCTCAAA
* * * * **
33462537 GCTTTAGCGCCGTTTTT-AAGGAAGCGCCACTAATACTCGAGGTTTTAGCGGCGTTTTTGGAAAG
1 GCTTTAGCGGCGTTTTTGAA-GAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAAAAAG
***
33462601 CGCCGCTAATGCTCGTG
65 CGCCGCTAATGCTCAAA
* * *
33462618 GTTTTAGCGGCGTTTTTTGAA-AAGCGCCGTTAATGCTC-GGGATTTAGCGGCGTTTTTGAAAAA
1 GCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTT-AAAAA
33462681 GCGCCGC
64 GCGCCGC
33462688 AAAAACATTT
Statistics
Matches: 193, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
80 21 0.11
81 112 0.58
82 58 0.30
83 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (81 bp):
GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAAAAAGC
GCCGCTAATGCTCAAA
Found at i:33462586 original size:122 final size:121
Alignment explanation
Indices: 33462368--33462646 Score: 355
Period size: 122 Copynumber: 2.3 Consensus size: 121
33462358 TTTGTAACCT
* * * * *
33462368 TTCGGGGCTTTAGCGGCGCTTTTAAAGAAGCGCCGCTAGTGCTCAGAGCTTTAGCAGCGTTTTTA
1 TTCGGGGTTTTAGCGGCGTTTTTAAA-AAGCGCCGCAACTGCTCAAAGCTTTAGCAGCGTTTTTA
* * * *
33462433 AAGAAGCGTCGCTAATGCTCAGAGCTTTAGCGGCATTTTTGAAGAAGCGCTGCTAATG
65 AAGAAGCGCCACTAATACTCAGAGCTTTAGCGGCATTTTTGAA-AAGCGCCGCTAATG
33462491 TTCGGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGCAACTGCTCAAAGCTTTAGC-GCCGTTTTTA
1 TTCGGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGCAACTGCTCAAAGCTTTAGCAG-CGTTTTTA
* * * *
33462555 AGGAAGCGCCACTAATACTC-GAGGTTTTAGCGGCGTTTTTGGAAAGCGCCGCTAATG
65 AAGAAGCGCCACTAATACTCAGA-GCTTTAGCGGCATTTTTGAAAAGCGCCGCTAATG
* * *
33462612 CTCGTGGTTTTAGCGGCGTTTTTTGAAAAGCGCCG
1 TTCGGGGTTTTAGCGGCG-TTTTTAAAAAGCGCCG
33462647 TTAATGCTCG
Statistics
Matches: 137, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
121 32 0.23
122 81 0.59
123 24 0.18
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (121 bp):
TTCGGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGCAACTGCTCAAAGCTTTAGCAGCGTTTTTAA
AGAAGCGCCACTAATACTCAGAGCTTTAGCGGCATTTTTGAAAAGCGCCGCTAATG
Found at i:33462655 original size:122 final size:121
Alignment explanation
Indices: 33462369--33462685 Score: 347
Period size: 122 Copynumber: 2.6 Consensus size: 121
33462359 TTGTAACCTT
* * * *
33462369 TCGGGGCTTTAGCGGCGCTTTTAAAGAAGCGCCGCTAGTGCTCAGAGCTTTAGCAGCGTTTTTAA
1 TCGGGGTTTTAGCGGCGTTTTTAAA-AAGCGCCG-TAATGCTCAAAGCTTTAGCAGCGTTTTTAA
* * * * *
33462434 AGAAGCGTCGCTAATGCTCAGAGCTTTAGCGGCATTTTTGAAGAAGCGCTGCTAATGT
64 AGAAGCGCCACTAATACTCAGAGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
*
33462492 TCGGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGCAACTGCTCAAAGCTTTAGC-GCCGTTTTTAA
1 TCGGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGTAA-TGCTCAAAGCTTTAGCAG-CGTTTTTAA
* * * *
33462556 GGAAGCGCCACTAATACTC-GAGGTTTTAGCGGCGTTTTTGGA-AAGCGCCGCTAATGC
64 AGAAGCGCCACTAATACTCAGA-GCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
* * ** * *
33462613 TCGTGGTTTTAGCGGCGTTTTTTGAAAAGCGCCGTTAATGCTC-GGGATTTAGCGGCGTTTTTGA
1 TCGGGGTTTTAGCGGCG-TTTTTAAAAAGCGCCG-TAATGCTCAAAGCTTTAGCAGCGTTTTT-A
33462677 AA-AAGCGCC
63 AAGAAGCGCC
33462686 GCAAAAACAT
Statistics
Matches: 166, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
121 54 0.33
122 87 0.52
123 25 0.15
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (121 bp):
TCGGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGTAATGCTCAAAGCTTTAGCAGCGTTTTTAAAG
AAGCGCCACTAATACTCAGAGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
Found at i:33463171 original size:21 final size:21
Alignment explanation
Indices: 33463147--33463197 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
33463137 GGTTGTAATT
* *
33463147 TAAGATTTATGGGTTAGGGGC
1 TAAGAGTTATGGGTTAGAGGC
* *
33463168 TAAGGGTTATGGGTTAGAGGT
1 TAAGAGTTATGGGTTAGAGGC
33463189 TAAGAGTTA
1 TAAGAGTTA
33463198 GGGATTTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.33
Consensus pattern (21 bp):
TAAGAGTTATGGGTTAGAGGC
Found at i:33463303 original size:7 final size:7
Alignment explanation
Indices: 33463291--33463354 Score: 60
Period size: 7 Copynumber: 9.3 Consensus size: 7
33463281 AGGGGTTGAA
33463291 GTTAGGG
1 GTTAGGG
33463298 GTTAGGG
1 GTTAGGG
**
33463305 GTT-GAA
1 GTTAGGG
33463311 GTTAGGG
1 GTTAGGG
33463318 GTTAGGG
1 GTTAGGG
*
33463325 GTTGGGG
1 GTTAGGG
33463332 GTT-GGAG
1 GTTAGG-G
*
33463339 GTTGGGG
1 GTTAGGG
*
33463346 GTTAAGG
1 GTTAGGG
33463353 GT
1 GT
33463355 CGAGTTAGAG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
6 6 0.13
7 39 0.83
8 2 0.04
ACGTcount: A:0.14, C:0.00, G:0.56, T:0.30
Consensus pattern (7 bp):
GTTAGGG
Found at i:33463304 original size:20 final size:20
Alignment explanation
Indices: 33463279--33463328 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
33463269 TAAATAAGGT
33463279 TTAGGGGTTGAAGTTAGGGG
1 TTAGGGGTTGAAGTTAGGGG
33463299 TTAGGGGTTGAAGTTAGGGG
1 TTAGGGGTTGAAGTTAGGGG
33463319 TTAGGGGTTG
1 TTAGGGGTTG
33463329 GGGGTTGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (20 bp):
TTAGGGGTTGAAGTTAGGGG
Found at i:33463472 original size:21 final size:21
Alignment explanation
Indices: 33463434--33463490 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
33463424 TTAGTGGTTA
* * *
33463434 ATTAGTGGTTTGGGGTTAGAG
1 ATTAGAGGTTTAGAGTTAGAG
*
33463455 ATTAGAGGTTTAGAGTTAGTG
1 ATTAGAGGTTTAGAGTTAGAG
33463476 ATTTA-AGGTTTAGAG
1 A-TTAGAGGTTTAGAG
33463491 ATTCGGGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 28 0.90
22 3 0.10
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (21 bp):
ATTAGAGGTTTAGAGTTAGAG
Done.