Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 107 of 345
Found at i:28805290 original size:92 final size:90
Alignment explanation
Indices: 28805114--28805597 Score: 358
Period size: 92 Copynumber: 5.3 Consensus size: 90
28805104 GAACCTCAAG
* * * * * *
28805114 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAAAATCAGCTCATATT
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTT-TGTTTTTC--AAAAAAATCAACTCATATT
*
28805179 GCGAGTGGTGAGTTGAGCCTTGACTCAC
63 GCGAGAGGTGAGTTGAGCCTTGACTCAC
*
28805207 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATATTGTTTTTCCAAAAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTTGTTTTT-CAAAAAAATCAACTCATATTG
* * **
28805272 CGAGAGGTGAGTTCAGCC-TCA-GGAC
64 CGAGAGGTGAGTTGAGCCTTGACTCAC
* ** * * *
28805297 ACGTTGATATATTTTCAATTTCTTTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATAT
1 ACGCTGAGGTATTTTCAAATTC---TGTTTTTCAATTT-TGTTTTTCAAAAAAATCAACTCATAT
* *
28805362 TGCGAGAGGTGAGTTGAGCC-TCAGGTCAC
62 TGCGAGAGGTGAGTTGAGCCTTGA-CTCAC
* * * * *
28805391 ACGCCGAGGTATTTTCAATTGATT-TTTTTTTTAATTTATGCTTTGC--AAAAATCAACTCATAT
1 ACGCTGAGGTATTTTCAA---ATTCTGTTTTTCAATTT-TGTTTTTCAAAAAAATCAACTCATAT
* * * ** *
28805453 TACGAAAGGTGAGTTGAGCCTCGGGTCAT
62 TGCGAGAGGTGAGTTGAGCCTTGACTCAC
** * * * * *
28805482 ATACCGAGATATTTTCAAAATCTGTTTTACAAATTTTG-TTTT---AAAAATTAACTCATATTGC
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTTGTTTTTCAAAAAAATCAACTCATATTGC
* * *
28805543 GAGAAGTGAGTTGAGCCTTGGCTAAC
65 GAGAGGTGAGTTGAGCCTTGACTCAC
** * *
28805569 GTGCTGAGCTATTTTCAATTTCTGTTTTT
1 ACGCTGAGGTATTTTCAAATTCTGTTTTT
28805598 AATGTCTAGT
Statistics
Matches: 317, Mismatches: 60, Indels: 34
0.77 0.15 0.08
Matches are distributed among these distances:
87 59 0.19
88 5 0.02
89 7 0.02
90 25 0.08
91 55 0.17
92 80 0.25
93 63 0.20
94 21 0.07
97 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (90 bp):
ACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTTGTTTTTCAAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTTGACTCAC
Found at i:28805582 original size:87 final size:87
Alignment explanation
Indices: 28805346--28805596 Score: 202
Period size: 87 Copynumber: 2.8 Consensus size: 87
28805336 TGTTTGTCAA
* * * ** *
28805346 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGCCGAGGTATTTTCAAT
1 AAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTC-GGCTAACATACCGAGATATTTTCAA-
* * *** *
28805410 TGAT-TTTTTTTTTAATTTATGCTTTGC
64 -AATCTGTTTTACAAATTT-TG-TTT-T
* * *
28805437 AAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGGTCATATACCGAGATATTTTCAAAA
1 AAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGCTAACATACCGAGATATTTTCAAAA
28805502 TCTGTTTTACAAATTTTGTTTT
66 TCTGTTTTACAAATTTTGTTTT
* * * * * * * *
28805524 AAAAATTAACTCATATTGCGAGAA-GTGAGTTGAGCCTTGGCTAACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTACGA-AAGGTGAGTTGAGCCTCGGCTAACATACCGAGATATTTTCAAA
*
28805588 TTCTGTTTT
65 ATCTGTTTT
28805597 TAATGTCTAG
Statistics
Matches: 133, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
87 58 0.44
88 5 0.04
89 4 0.03
90 12 0.09
91 54 0.41
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGCTAACATACCGAGATATTTTCAAAA
TCTGTTTTACAAATTTTGTTTT
Found at i:28806313 original size:30 final size:30
Alignment explanation
Indices: 28806277--28806375 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
28806267 CTAGCCTTTG
28806277 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
28806307 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
28806337 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
28806367 CCACCACCA
1 CCACCACCA
28806376 CTTGTACCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:28806941 original size:25 final size:26
Alignment explanation
Indices: 28806901--28806974 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
28806891 ATTCTAAATT
* *
28806901 CTATATTACGTATATATATATATTATA
1 CTATATTATGTATATATATAT-TAATA
* *
28806928 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
*
28806953 CTATATTATTTATATATATATT
1 CTATATTATGTATATATATATT
28806975 TTTTACATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 20 0.51
26 3 0.08
27 16 0.41
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:28807014 original size:22 final size:22
Alignment explanation
Indices: 28806984--28807025 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
28806974 TTTTTACATG
*
28806984 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
28807006 TTATATTATGTATGTATTTT
1 TTATATTATGTATATATTTT
28807026 TTTACACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:28807014 original size:27 final size:26
Alignment explanation
Indices: 28806922--28807040 Score: 91
Period size: 26 Copynumber: 4.4 Consensus size: 26
28806912 ATATATATAT
*
28806922 ATTATACTATTTTATGTATATATCTTTA
1 ATTATATTA-TTTATGTATATAT-TTTA
*
28806950 ATACTATATTATTTATATATATATTTT-
1 AT--TATATTATTTATGTATATATTTTA
*
28806977 -TTACATGTTATCTTATGTATATATTTTA
1 ATT--ATATTAT-TTATGTATATATTTTA
* *
28807005 ATTATATTATGTATGTAT-TTTTTTA
1 ATTATATTATTTATGTATATATTTTA
*
28807030 CACTATATTAT
1 -ATTATATTAT
28807041 GTACATATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
24 1 0.01
25 6 0.08
26 23 0.31
27 20 0.27
28 5 0.07
29 14 0.19
30 6 0.08
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTATATTATTTATGTATATATTTTA
Found at i:28807036 original size:26 final size:25
Alignment explanation
Indices: 28806990--28807052 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
28806980 CATGTTATCT
* *
28806990 TATGTATATATTTTAATTATATTATG
1 TATGTAT-TTTTTTAACTATATTATG
28807016 TATGTATTTTTTTACACTATATTATG
1 TATGTATTTTTTTA-ACTATATTATG
**
28807042 TACATATTTTT
1 TATGTATTTTT
28807053 AATATTACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (25 bp):
TATGTATTTTTTTAACTATATTATG
Found at i:28807232 original size:16 final size:15
Alignment explanation
Indices: 28807208--28807242 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
28807198 TAATTATTAT
28807208 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
28807224 TATTTTAATATTTTA
1 TATTCTAATATTTTA
28807239 TATT
1 TATT
28807243 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:28808911 original size:2 final size:2
Alignment explanation
Indices: 28808904--28808938 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
28808894 ATTATTCTTT
28808904 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
28808939 GCATTAACCT
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:28809083 original size:20 final size:20
Alignment explanation
Indices: 28809058--28809102 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
28809048 ATTATAGTAA
*
28809058 TTTTAC-ATATTCTTATAATT
1 TTTTACGATATT-TAATAATT
*
28809078 TTTTACGATATTTAATTATT
1 TTTTACGATATTTAATAATT
28809098 TTTTA
1 TTTTA
28809103 ACGTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTACGATATTTAATAATT
Found at i:28813304 original size:25 final size:24
Alignment explanation
Indices: 28813263--28813309 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
28813253 AAAAATTTAT
*
28813263 TATTCAATTTCGATCCTTAAATAA
1 TATTCAATTTCGATCCTAAAATAA
28813287 TATTCTAATTTC-ACTCCTAAAAT
1 TATTC-AATTTCGA-TCCTAAAAT
28813310 TATGTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (24 bp):
TATTCAATTTCGATCCTAAAATAA
Found at i:28816067 original size:30 final size:29
Alignment explanation
Indices: 28816031--28816089 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
28816021 AATTATATAT
*
28816031 ATAGATTTAAAAGAAAATATATAAACATAA
1 ATAGATTTAAAAGAAAATACATAAA-ATAA
28816061 ATAGATTTAAAAGAAAATACATAAAATAA
1 ATAGATTTAAAAGAAAATACATAAAATAA
28816090 TACAAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.25
Consensus pattern (29 bp):
ATAGATTTAAAAGAAAATACATAAAATAA
Found at i:28816078 original size:16 final size:16
Alignment explanation
Indices: 28816031--28816079 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
28816021 AATTATATAT
28816031 ATAGATTTAAAAGAAA
1 ATAGATTTAAAAGAAA
* *
28816047 AT--ATATAAACA-TAA
1 ATAGATTTAAA-AGAAA
28816061 ATAGATTTAAAAGAAA
1 ATAGATTTAAAAGAAA
28816077 ATA
1 ATA
28816080 CATAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 13 0.52
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (16 bp):
ATAGATTTAAAAGAAA
Found at i:28818546 original size:62 final size:61
Alignment explanation
Indices: 28818480--28818648 Score: 178
Period size: 62 Copynumber: 2.7 Consensus size: 61
28818470 GTTTGGGTTG
* ** * *
28818480 TAAAACCACACGGTCAGAGACATAAGCGTGTGCCCAGGCCGTGTAACTTACTGTTCATAGT
1 TAAAACCACACGGCCAGAGACATGGGCGTGTGCCCAGGCCGTGTAACTCACTGTTCATACT
* * * * * * *
28818541 ATAAAACCACATGGCCAGGGAAATGGGCATGTGCCCAGGCCATGTGACTCACTGTTTATACT
1 -TAAAACCACACGGCCAGAGACATGGGCGTGTGCCCAGGCCGTGTAACTCACTGTTCATACT
*
28818603 TAAAATCCACACGGCCA-AGGCACATGGGCGTTTGCCCAGGCCGTGT
1 TAAAA-CCACACGGCCAGA-G-ACATGGGCGTGTGCCCAGGCCGTGT
28818649 GGCAAGATGT
Statistics
Matches: 86, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
61 5 0.06
62 60 0.70
63 21 0.24
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (61 bp):
TAAAACCACACGGCCAGAGACATGGGCGTGTGCCCAGGCCGTGTAACTCACTGTTCATACT
Found at i:28824799 original size:13 final size:12
Alignment explanation
Indices: 28824773--28824818 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
28824763 TTCCCTCATC
* *
28824773 TTTTTCTCTATT
1 TTTTTCTTTCTT
28824785 TTTTTCTTTCTT
1 TTTTTCTTTCTT
*
28824797 TTTTTATTTACTT
1 TTTTTCTTT-CTT
28824810 TTTTTCTTT
1 TTTTTCTTT
28824819 TTCGATTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:28825742 original size:62 final size:61
Alignment explanation
Indices: 28825493--28825744 Score: 226
Period size: 62 Copynumber: 4.1 Consensus size: 61
28825483 TGCATGGTTT
* ** ** * **
28825493 ACACGGCCAGGGACACGAATGTGTGCCCAGGCCGTGTAACTCACTGTGGGGGCGTAAAACC
1 ACACGACCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTGTATAAAACC
* * * *
28825554 ACACGGCCAGGGACACGGGTGTGTGCCTAGGCCGTGTAACTCACTGTTCAT-TGTATAAAACC
1 ACACGACCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTT--TGTGTATAAAACC
* * * **
28825616 ACAC-AGCCAGGTACA-TAGGCGTGTACCCTA-GCCGTGTAACTCACTGTTAATAGTATAAAACC
1 ACACGA-CCAGGGACACGA-GCGTGTGCCC-AGGCCGTGTAACTCACTGTTTGT-GTATAAAACC
* *
28825678 ACACGACCAGGGACACGAGCGTGTGCCCAGGCCGTGTGACACACTGTTTGTGCT-TAAAATCC
1 ACACGACCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTG-TATAAAA-CC
28825740 ACACG
1 ACACG
28825745 GCCAAGGTAC
Statistics
Matches: 156, Mismatches: 23, Indels: 23
0.77 0.11 0.11
Matches are distributed among these distances:
61 52 0.33
62 101 0.65
63 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (61 bp):
ACACGACCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTGTATAAAACC
Found at i:28827945 original size:18 final size:18
Alignment explanation
Indices: 28827922--28827956 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
28827912 AGAAAATATT
*
28827922 CACTTGGTATCATTATAG
1 CACTTGATATCATTATAG
28827940 CACTTGATATCATTATA
1 CACTTGATATCATTATA
28827957 ACAGTGTAAC
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:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (18 bp):
CACTTGATATCATTATAG
Found at i:28832157 original size:45 final size:45
Alignment explanation
Indices: 28832016--28832149 Score: 173
Period size: 45 Copynumber: 3.0 Consensus size: 45
28832006 CCGATTTCAC
28832016 AGATAAAAT-TAGCCACTGGGCTGTGGATACACAACAAAA-ATCCAT
1 AGATAAAATCTA-CCACTGGGCTGTGGATACACAACAAAATAT-CAT
* * * * *
28832061 AGATGAAATCTACCACTAGGCTGTGGGTGCACAGCAAAATATCAT
1 AGATAAAATCTACCACTGGGCTGTGGATACACAACAAAATATCAT
* *
28832106 AGATAAAATCTTCCACTGGGCTGTGAATACACAACAAAATATCA
1 AGATAAAATCTACCACTGGGCTGTGGATACACAACAAAATATCA
28832150 AAAATAAATT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
45 71 0.95
46 4 0.05
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (45 bp):
AGATAAAATCTACCACTGGGCTGTGGATACACAACAAAATATCAT
Found at i:28832452 original size:38 final size:38
Alignment explanation
Indices: 28832362--28832461 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
28832352 GTAATGGAAT
* * * * *
28832362 AATTCAACACTAGCAATAAACATGTATAACATGTACTC
1 AATTCATCACTAACAGTAGACATGTATAACATATACTC
* *
28832400 AATTCATCACTAACAGTAGTCATGTTTAACATATACTC
1 AATTCATCACTAACAGTAGACATGTATAACATATACTC
** * *
28832438 AATTTGTTATTAACAGTAGACATG
1 AATTCATCACTAACAGTAGACATG
28832462 CTTATCATGT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (38 bp):
AATTCATCACTAACAGTAGACATGTATAACATATACTC
Found at i:28834045 original size:17 final size:18
Alignment explanation
Indices: 28834023--28834056 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
28834013 TTGAATTGAT
28834023 TTTAT-AAATTTTAAATA
1 TTTATAAAATTTTAAATA
28834040 TTTATAAAATTTTAAAT
1 TTTATAAAATTTTAAAT
28834057 TTAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATAAAATTTTAAATA
Found at i:28837960 original size:40 final size:40
Alignment explanation
Indices: 28837916--28838025 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
28837906 TTCACAATTT
* *
28837916 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
28837956 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
28837996 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
28838026 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:28846014 original size:40 final size:40
Alignment explanation
Indices: 28845970--28846079 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
28845960 TTCACAATTT
* *
28845970 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
28846010 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
28846050 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
28846080 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:28848229 original size:12 final size:11
Alignment explanation
Indices: 28848209--28848248 Score: 71
Period size: 11 Copynumber: 3.5 Consensus size: 11
28848199 TAAAACATAA
28848209 AAAAAATATAC
1 AAAAAATATAC
28848220 AAAAAGATATAC
1 AAAAA-ATATAC
28848232 AAAAAATATAC
1 AAAAAATATAC
28848243 AAAAAA
1 AAAAAA
28848249 AAAAATTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (11 bp):
AAAAAATATAC
Found at i:28848249 original size:12 final size:12
Alignment explanation
Indices: 28848208--28848249 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
28848198 TTAAAACATA
28848208 AAAAAAATATAC
1 AAAAAAATATAC
*
28848220 AAAAAGATATAC
1 AAAAAAATATAC
28848232 -AAAAAATATAC
1 AAAAAAATATAC
28848243 AAAAAAA
1 AAAAAAA
28848250 AAAATTACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAAAATATAC
Found at i:28848851 original size:3 final size:3
Alignment explanation
Indices: 28848843--28848888 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
28848833 TGCATTTCAA
28848843 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
28848889 GAAATACATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:28848998 original size:3 final size:3
Alignment explanation
Indices: 28848990--28849025 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
28848980 TGTGTTTCAA
28848990 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
28849026 ATATCCTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:28849298 original size:33 final size:30
Alignment explanation
Indices: 28849240--28849312 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
28849230 TAATATTATG
*
28849240 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
28849270 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
28849303 TATATATTTT
1 TATATATTTT
28849313 CTTAGTACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:28851219 original size:44 final size:44
Alignment explanation
Indices: 28851130--28851219 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
28851120 TAATATTAAT
* * * * * **
28851130 ATAACCTATACTAATTAGAGTTTAAGTGAGAAACTGATATTAAA
1 ATAACCTACACTAATCAAAGTTTAAGTGAGAAACTAAAAACAAA
28851174 ATAACCTACACTAATCAAAGTTTAAGTG-GTAAACTAAAAACAAA
1 ATAACCTACACTAATCAAAGTTTAAGTGAG-AAACTAAAAACAAA
28851218 AT
1 AT
28851220 TTAATTGGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (44 bp):
ATAACCTACACTAATCAAAGTTTAAGTGAGAAACTAAAAACAAA
Found at i:28852217 original size:13 final size:13
Alignment explanation
Indices: 28852199--28852224 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28852189 TTGACCAAAA
28852199 TATATATATATAT
1 TATATATATATAT
28852212 TATATATATATAT
1 TATATATATATAT
28852225 AATAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:28852236 original size:15 final size:17
Alignment explanation
Indices: 28852195--28852237 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
28852185 AGTCTTGACC
28852195 AAAATATATATATATAT
1 AAAATATATATATATAT
* *
28852212 TATATATATATATA-AT
1 AAAATATATATATATAT
28852228 AAAAT-TATAT
1 AAAATATATAT
28852238 TTTGAGTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 5 0.23
16 5 0.23
17 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATATATATATAT
Found at i:28862773 original size:17 final size:19
Alignment explanation
Indices: 28862728--28862775 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
28862718 AGGGTTAATT
*
28862728 ACTTAAATTAAGTAAATCA
1 ACTTAAATTAAGAAAATCA
28862747 ACTATGAAATTAA-AAAATCA
1 ACT-T-AAATTAAGAAAATCA
28862767 A-TTAAATTA
1 ACTTAAATTA
28862776 GGATTTAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.23
18 1 0.04
19 4 0.15
20 8 0.31
21 7 0.27
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (19 bp):
ACTTAAATTAAGAAAATCA
Found at i:28862809 original size:22 final size:23
Alignment explanation
Indices: 28862784--28862828 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
28862774 TAGGATTTAG
*
28862784 GATT-TTTTAAGG-TTAGGGTTTT
1 GATTGTTTT-AGGATTAGAGTTTT
28862806 GATTGTTTTAGGATTAGAGTTTT
1 GATTGTTTTAGGATTAGAGTTTT
28862829 AGTGGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (23 bp):
GATTGTTTTAGGATTAGAGTTTT
Found at i:28862958 original size:16 final size:17
Alignment explanation
Indices: 28862927--28862960 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
28862917 AAAAACTAAA
28862927 TTAGGGTTTAGAGTTTT
1 TTAGGGTTTAGAGTTTT
*
28862944 TTAGGG-TTAGGGTTTT
1 TTAGGGTTTAGAGTTTT
28862960 T
1 T
28862961 ATTGTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (17 bp):
TTAGGGTTTAGAGTTTT
Found at i:28863111 original size:16 final size:17
Alignment explanation
Indices: 28863083--28863115 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
28863073 ATCAATTAAA
28863083 TTAGGGTTTAGGGTTTT
1 TTAGGGTTTAGGGTTTT
28863100 TTAGGG-TTAGGGTTTT
1 TTAGGGTTTAGGGTTTT
28863116 GATTGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (17 bp):
TTAGGGTTTAGGGTTTT
Found at i:28863124 original size:23 final size:22
Alignment explanation
Indices: 28863098--28863152 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
28863088 GTTTAGGGTT
* *
28863098 TTTTAGGGTTAGGGTTTTGATTG
1 TTTTAGGGTTAGGATTTT-AGTG
*
28863121 TTTTAGGATTAGGATTTTAGTG
1 TTTTAGGGTTAGGATTTTAGTG
*
28863143 GTTTAGGGTT
1 TTTTAGGGTT
28863153 TTAGTGTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (22 bp):
TTTTAGGGTTAGGATTTTAGTG
Found at i:28863271 original size:17 final size:18
Alignment explanation
Indices: 28863238--28863272 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
28863228 ATCAACTAAA
28863238 TTAGGGTTTAGGATTTTT
1 TTAGGGTTTAGGATTTTT
*
28863256 TTAGGG-TTAGGGTTTTT
1 TTAGGGTTTAGGATTTTT
28863273 ATTATTTTAG
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:0.14, C:0.00, G:0.31, T:0.54
Consensus pattern (18 bp):
TTAGGGTTTAGGATTTTT
Found at i:28863521 original size:158 final size:158
Alignment explanation
Indices: 28862663--28864213 Score: 2114
Period size: 156 Copynumber: 9.8 Consensus size: 158
28862653 GTTCCGTTAG
*
28862663 TTTAG-GG-TTAGGGTTTTAATGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* * * * *
28862726 TTACTTAAATTAAGTAAATCAACTATGAAATTAAAAAATCAATTAAATTAGGATTTAGGATTTTT
66 TTAATTAAATTAACT--ATGAA-AAT--AA--AAAAAATCAATTAAATTAGGGTTTAGG-TTTTT
* *
28862791 TAAGGTTAGGG-TTTTGATTGTTTTAGGAT-TAGAGT
123 TAAGGTTAGGGTTTTTTATTGTTTTAGGATCAAG-GT
*
28862826 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGAGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28862891 TTAATTAAATTAACTATGAAATTAAAAAAAA-C---TAAATTAGGGTTTAGAGTTTTTTAGGGTT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAG-GTTTTTTAAGGTT
28862952 AGGG-TTTTTATTGTTTTAGGATCAAGGT
130 AGGGTTTTTTATTGTTTTAGGATCAAGGT
* * * * *
28862980 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGAGAAAATTTAATTTAATTGGAGCTGAGCGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28863045 TTAATTAAATTAACTATG-AAAT-TAAAAAATCAATTAAATTAGGGTTTAGGGTTTTTTAGGGTT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTA-GGTTTTTTAAGGTT
* *
28863108 AGGG-TTTTGATTGTTTTAGGAT-TAGGAT
130 AGGGTTTTTTATTGTTTTAGGATCAAGG-T
28863136 TTTAGTGGTTTAGGGTTTTAGTG-TTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* * *
28863200 TTAATTAAATTAACTATG-AAAT-TAAAAAATCAACTAAATTAGGGTTTAGGATTTTTTTAGGGT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAGG--TTTTTTAAGGT
*
28863263 TAGGG-TTTTTATTATTTTAGGATCAAGGT
129 TAGGGTTTTTTATTGTTTTAGGATCAAGGT
* *
28863292 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAAAGTTGATGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28863357 TTAATTAAATTAACTGTGAAAATAAAAAAAATTAATTAAATTAGGGTTTATGGTTTTTTAAGGTT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTA-GGTTTTTTAAGGTT
*
28863422 AGGGTTTTTTATTGTTTTAGGATCAATGT
130 AGGGTTTTTTATTGTTTTAGGATCAAGGT
* * *
28863451 TTTAGTAGTTTAGGGTTTTAGTG-TTTTTAAGGGAAAATTTAATTTAAGTAGAGTTGAGGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
**
28863515 TTAATTAAATTAACTATGAACGT-AAAAAAATCAATTAAATTA-GGTTTATGGTTTTTTAAGGTT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTA-GGTTTTTTAAGGTT
*
28863578 AGGGTTTTTGATTGTTTTAGGAT-AAGGGT
130 AGGGTTTTTTATTGTTTTAGGATCAA-GGT
* * *
28863607 TTTTGTGGTTTA-GGTTTTAGTGTTTTTTAAAGGAAAAATTAAATTAATTAGAGTTG-GGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28863670 TTAATTAAATTAACTATGAAAATAAAAAAAGTCAATTAGATTAGGGTTTAAGG-TTTTTAAGGTT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTT-AGGTTTTTTAAGGTT
* *
28863734 AGGTTTTTTTTTTATTGTTTTAGGATCAGGGT
130 AGG---GTTTTTTATTGTTTTAGGATCAAGGT
* *
28863766 TTTAGTGGTTTAGGGTTTTAGT-ATTTTTAAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28863830 TTAATTAAATTAACTATGAAAATAAAAAAAAACAAATAAATTAGGGTTTAGGGTTTTTTAAGGTT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTA-GGTTTTTTAAGGTT
* *
28863895 AGGGTTTTTTATTATTTTAGGATCAGGGT
130 AGGGTTTTTTATTGTTTTAGGATCAAGGT
* * *
28863924 TTTAGTAGTTTAGAGTTTTAGT-ATTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28863988 TTACTTAAATTAACTATGAAAATTAATAAAAAAATCAATTAAATTAGGGTTTAGAG-TTTTTAAA
66 TTAATTAAATTAACTATGAAAA-T-A-AAAAAAATCAATTAAATTAGGGTTTAG-GTTTTTTAAG
* * *
28864052 GTTAAGGTTTTTGATTGTTTTAGGATCATGGT
127 GTTAGGGTTTTTTATTGTTTTAGGATCAAGGT
*
28864084 TTTAGTGGTTTAGGGTTTTAGTATTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* * *
28864149 TTAATTAAATTAACTATGAAATTTAAAAAAATTAATTAAATTA-GGTTTAGGGTTTTTTTAAGGT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTA-GG-TTTTTTAAGGT
28864213 T
129 T
28864214 TATTAATTAA
Statistics
Matches: 1257, Mismatches: 92, Indels: 82
0.88 0.06 0.06
Matches are distributed among these distances:
152 6 0.00
153 4 0.00
154 128 0.10
155 129 0.10
156 243 0.19
157 93 0.07
158 208 0.17
159 141 0.11
160 126 0.10
161 100 0.08
162 1 0.00
163 9 0.01
164 2 0.00
165 67 0.05
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (158 bp):
TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAGGTTTTTTAAGGTTA
GGGTTTTTTATTGTTTTAGGATCAAGGT
Found at i:28863598 original size:315 final size:312
Alignment explanation
Indices: 28862663--28864213 Score: 2139
Period size: 315 Copynumber: 4.9 Consensus size: 312
28862653 GTTCCGTTAG
*
28862663 TTTAG-GG-TTAGGGTTTTAATGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* * * * *
28862726 TTACTTAAATTAAGTAAATCAACTATGAAATTAAAAAATCAATTAAATTAGGATTTAGGATTTTT
66 TTAATTAAATTAACT--ATGAA-AAT--AA--AAAAAATCAATTAAATTAGGGTTTAGG-TTTTT
*
28862791 TAAGGTTAGGG-TTTTGATTGTTTTAGGAT-TAGAGTTTTAGTGGTTTAGGGTTTTAGTGTTTTT
123 TAAGGTTAGGGTTTTTGATTGTTTTAGGATCAAG-GTTTTAGTGGTTTAGGGTTTTAGTG-TTTT
* *
28862854 TAAGGGAAAAATTAATTTAATTAGAGTTGAGAGTTAATTAATTAAATTAACTATGAAATTAAAAA
186 TAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATAAAAAA
* *
28862919 A--AACTAAATTAGGGTTTAGAGTTTTTTAGGGTTAGGGTTTTTATTGTTTTAGGATCAAGGT
251 ATCAACTAAATTAGGGTTTAG-GTTTTTTAAGGTTAGGGTTTTTATTATTTTAGGATCAAGGT
* * * * *
28862980 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGAGAAAATTTAATTTAATTGGAGCTGAGCGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28863045 TTAATTAAATTAACTATG-AAAT-TAAAAAATCAATTAAATTAGGGTTTAGGGTTTTTTAGGGTT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTA-GGTTTTTTAAGGTT
*
28863108 AGGG-TTTTGATTGTTTTAGGAT-TAGGATTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAA
130 AGGGTTTTTGATTGTTTTAGGATCAAGG-TTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAA
*
28863171 AAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAAAAAATCAACTA
194 AAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATAAAAAAATCAACTA
*
28863236 AATTAGGGTTTAGGATTTTTTTAGGGTTAGGGTTTTTATTATTTTAGGATCAAGGT
259 AATTAGGGTTTAGG--TTTTTTAAGGTTAGGGTTTTTATTATTTTAGGATCAAGGT
* *
28863292 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAAAGTTGATGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28863357 TTAATTAAATTAACTGTGAAAATAAAAAAAATTAATTAAATTAGGGTTTATGGTTTTTTAAGGTT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTA-GGTTTTTTAAGGTT
* * *
28863422 AGGGTTTTTTATTGTTTTAGGATCAATGTTTTAGTAGTTTAGGGTTTTAGTGTTTTTAAGGGAAA
130 AGGGTTTTTGATTGTTTTAGGATCAAGGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAAA
* * * *
28863487 ATTTAATTTAAGTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAACGTAAAAAAATCAATTA
195 AATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAA-ATAAAAAAATCAACTA
*
28863552 AATTA-GGTTTATGGTTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGAT-AAGGGT
259 AATTAGGGTTTA-GGTTTTTTAAGGTTAGGGTTTTT-ATTATTTTAGGATCAA-GGT
* * *
28863607 TTTTGTGGTTTA-GGTTTTAGTGTTTTTTAAAGGAAAAATTAAATTAATTAGAGTTG-GGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28863670 TTAATTAAATTAACTATGAAAATAAAAAAAGTCAATTAGATTAGGGTTTAAGG-TTTTTAAGGTT
66 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTT-AGGTTTTTTAAGGTT
* * * * *
28863734 AGGTTTTTTTTTTATTGTTTTAGGATCAGGGTTTTAGTGGTTTAGGGTTTTAGTATTTTTAAGGA
130 AGG---GTTTTTGATTGTTTTAGGATCAAGGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGG
*
28863799 AAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAAAACA
192 AAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATG-AAAT-AAAAAAATCA
* *
28863864 AATAAATTAGGGTTTAGGGTTTTTTAAGGTTAGGGTTTTTTATTATTTTAGGATCAGGGT
255 ACTAAATTAGGGTTTA-GGTTTTTTAAGGTTAGGG-TTTTTATTATTTTAGGATCAAGGT
* * *
28863924 TTTAGTAGTTTAGAGTTTTAGT-ATTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
1 TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
* *
28863988 TTACTTAAATTAACTATGAAAATTAATAAAAAAATCAATTAAATTAGGGTTTAGAG-TTTTTAAA
66 TTAATTAAATTAACTATGAAAA-T-A-AAAAAAATCAATTAAATTAGGGTTTAG-GTTTTTTAAG
* * *
28864052 GTTAAGGTTTTTGATTGTTTTAGGATCATGGTTTTAGTGGTTTAGGGTTTTAGTATTTTTTAAGG
127 GTTAGGGTTTTTGATTGTTTTAGGATCAAGGTTTTAGTGGTTTAGGGTTTTAGT-GTTTTTAAGG
*
28864117 GAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTTAAAAAAATT
191 GAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAA--TAAAAAAATC
*
28864182 AATTAAATTA-GGTTTAGGGTTTTTTTAAGGTT
254 AACTAAATTAGGGTTTA-GG-TTTTTTAAGGTT
28864214 TATTAATTAA
Statistics
Matches: 1119, Mismatches: 80, Indels: 68
0.88 0.06 0.05
Matches are distributed among these distances:
309 70 0.06
310 85 0.08
311 20 0.02
312 128 0.11
313 57 0.05
314 105 0.09
315 234 0.21
316 42 0.04
317 87 0.08
318 101 0.09
319 150 0.13
320 4 0.00
321 36 0.03
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (312 bp):
TTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAA
TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATTAGGGTTTAGGTTTTTTAAGGTTA
GGGTTTTTGATTGTTTTAGGATCAAGGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAAAA
ATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATAAAAAAATCAACTAAA
TTAGGGTTTAGGTTTTTTAAGGTTAGGGTTTTTATTATTTTAGGATCAAGGT
Found at i:28864393 original size:126 final size:126
Alignment explanation
Indices: 28864234--28864538 Score: 520
Period size: 126 Copynumber: 2.4 Consensus size: 126
28864224 ATTAATTATT
* * *
28864234 AATTACGGAAAAAACCTCCTACGTGGATGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * *
28864299 GAGAAGATGTTTTTGAATAAATAGTATAAAAAAGGCTTCAAGAAGGATGCACTGTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTATAAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
*
28864360 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTAAAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* *
28864425 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTATAAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
*
28864486 AATTACGGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGA
28864539 AAAGCTTTAG
Statistics
Matches: 168, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 168 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
GAGAAGATGTTTCTGAACAAATAGTATAAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
Found at i:28868182 original size:18 final size:18
Alignment explanation
Indices: 28868155--28868192 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
28868145 GGGAAGGGAA
*
28868155 ACATAAAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
*
28868173 ACATATAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
28868191 AC
1 AC
28868193 GCACTTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:28869975 original size:21 final size:21
Alignment explanation
Indices: 28869945--28869991 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
28869935 ACGGCTTTTT
28869945 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
28869965 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
28869987 TTTGA
1 TTTGA
28869992 GAGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:28871152 original size:69 final size:69
Alignment explanation
Indices: 28871072--28871212 Score: 237
Period size: 69 Copynumber: 2.0 Consensus size: 69
28871062 ATATTATTTT
* *
28871072 TAAATTTCAAACTTAAATTCTCTTTTAGAAAATATAATATATCTTACCATTATATTTAATATTCG
1 TAAATTTCAAACTTAAATTCTCTTTTAAAAAATATAATATATCTTACCATTATATTCAATATTCG
28871137 ATAA
66 ATAA
* * *
28871141 TAAATTTCAAACTTGAATTTTCTTTTAAAAAATATAATATATGTTACCATTATATTCAATATTCG
1 TAAATTTCAAACTTAAATTCTCTTTTAAAAAATATAATATATCTTACCATTATATTCAATATTCG
28871206 ATAA
66 ATAA
28871210 TAA
1 TAA
28871213 TAAATCTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (69 bp):
TAAATTTCAAACTTAAATTCTCTTTTAAAAAATATAATATATCTTACCATTATATTCAATATTCG
ATAA
Found at i:28873072 original size:26 final size:26
Alignment explanation
Indices: 28873035--28873196 Score: 288
Period size: 26 Copynumber: 6.2 Consensus size: 26
28873025 TGATACAAAT
*
28873035 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
28873061 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
28873087 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
28873113 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
28873139 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
28873165 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
28873191 TGATAA
1 TGATAA
28873197 GAATTTCATG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:28875226 original size:136 final size:136
Alignment explanation
Indices: 28874982--28875266 Score: 509
Period size: 136 Copynumber: 2.1 Consensus size: 136
28874972 GAGTAGTCTC
*
28874982 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
28875047 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
28875112 CTGTTA
131 CTGTTA
*
28875118 CCCAAATGGGCTTG-ATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCCTAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
28875182 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
28875247 ACTGTTA
130 ACTGTTA
**
28875254 CCTGAATGGGCTT
1 CCCAAATGGGCTT
28875267 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
135 5 0.03
136 138 0.97
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
CTGTTA
Found at i:28878822 original size:3 final size:3
Alignment explanation
Indices: 28878816--28878862 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
28878806 ATTACTATTA
28878816 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
28878863 ACTTATATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:28893245 original size:44 final size:44
Alignment explanation
Indices: 28893180--28893330 Score: 149
Period size: 44 Copynumber: 3.4 Consensus size: 44
28893170 CATGGCAAAT
* *
28893180 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCATTAAC
1 CTTATCTCCCTGAAGTAGTAGTGGAGCAGATTAAAGCCATTAAC
* ** * ** * *
28893224 CTTATCTCCCTGAAGTAGTAGTAGAGCAGGCTGAAGATAGTAAAT
1 CTTATCTCCCTGAAGTAGTAGTGGAGCAGATTAAAGCCA-TTAAC
* * * * * *
28893269 TTTATTTCCCTGAAGTTGCAGTGAAACAGATTAAAGCCATTAAC
1 CTTATCTCCCTGAAGTAGTAGTGGAGCAGATTAAAGCCATTAAC
28893313 CTTATCTCCCTGAAGTAG
1 CTTATCTCCCTGAAGTAG
28893331 CAGTAGAATA
Statistics
Matches: 79, Mismatches: 27, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
44 49 0.62
45 30 0.38
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTAGTAGTGGAGCAGATTAAAGCCATTAAC
Found at i:28893337 original size:89 final size:89
Alignment explanation
Indices: 28893174--28893394 Score: 307
Period size: 89 Copynumber: 2.5 Consensus size: 89
28893164 ATCTACCATG
* * *
28893174 GCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCATTAACCTTATCTCCCTGAAG
1 GCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCCATTAACCTTATCTCCCTGAAG
* * *
28893239 TAGTAGTAGAGCAGGCTGAAGATA
66 TAGCAGTAGAACAGGCTAAAGATA
* * * *
28893263 GTAAATTTTATTTCCCTGAAGTTGCAGTGAAACAGATTAAAGCCATTAACCTTATCTCCCTGAAG
1 GCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCCATTAACCTTATCTCCCTGAAG
* *
28893328 TAGCAGTAGAATAGGTTAAAGATA
66 TAGCAGTAGAACAGGCTAAAGATA
** *
28893352 GCGGATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTTAAGC
1 GCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
28893395 TGTAATAGCC
Statistics
Matches: 113, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 113 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (89 bp):
GCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCCATTAACCTTATCTCCCTGAAG
TAGCAGTAGAACAGGCTAAAGATA
Found at i:28893347 original size:44 final size:44
Alignment explanation
Indices: 28893180--28893348 Score: 142
Period size: 44 Copynumber: 3.8 Consensus size: 44
28893170 CATGGCAAAT
* * * * * *
28893180 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCATTAAC
1 CTTATCTCCCTGAAGTAGCAGTAGAACAGGTTAAAGCCATTAAC
* * * * ** * *
28893224 CTTATCTCCCTGAAGTAGTAGTAGAGCAGGCTGAAGATAGTAAAT
1 CTTATCTCCCTGAAGTAGCAGTAGAACAGGTTAAAGCCA-TTAAC
* * * *
28893269 TTTATTTCCCTGAAGTTGCAGT-GAAACAGATTAAAGCCATTAAC
1 CTTATCTCCCTGAAGTAGCAGTAG-AACAGGTTAAAGCCATTAAC
*
28893313 CTTATCTCCCTGAAGTAGCAGTAGAATAGGTTAAAG
1 CTTATCTCCCTGAAGTAGCAGTAGAACAGGTTAAAG
28893349 ATAGCGGATC
Statistics
Matches: 95, Mismatches: 27, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
44 64 0.67
45 31 0.33
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTAGCAGTAGAACAGGTTAAAGCCATTAAC
Found at i:28893461 original size:26 final size:26
Alignment explanation
Indices: 28893432--28893484 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
28893422 AGAAATAGTG
28893432 GTTCAAAACCACCAAATCTGAAAAAT
1 GTTCAAAACCACCAAATCTGAAAAAT
28893458 GTTCAAAACCACCAAATCTGAAAAAT
1 GTTCAAAACCACCAAATCTGAAAAAT
28893484 G
1 G
28893485 AACTCGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (26 bp):
GTTCAAAACCACCAAATCTGAAAAAT
Found at i:28897413 original size:12 final size:12
Alignment explanation
Indices: 28897379--28897413 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
28897369 TTAAAAAAAC
28897379 TATTTTATTTAA
1 TATTTTATTTAA
* *
28897391 TATTCTGTTTAA
1 TATTTTATTTAA
28897403 TATTTTATTTA
1 TATTTTATTTA
28897414 TTTATTCCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTATTTAA
Found at i:28897545 original size:3 final size:3
Alignment explanation
Indices: 28897537--28897568 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
28897527 AATTGTAGAT
28897537 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
28897569 GTTGTTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:28897573 original size:3 final size:3
Alignment explanation
Indices: 28897567--28897613 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
28897557 ATTATTATTA
28897567 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
28897614 ACTTATATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:28898807 original size:19 final size:19
Alignment explanation
Indices: 28898760--28898821 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
28898750 ATTACAAAAT
28898760 AATTCAAAATAATTTTCAAA
1 AATTCAAAAT-ATTTTCAAA
* **
28898780 AATTTAAAATATTTTTTAA
1 AATTCAAAATATTTTCAAA
*
28898799 GATTCAAAATATTTAT-AAA
1 AATTCAAAATATTT-TCAAA
28898818 AATT
1 AATT
28898822 TTATATTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 24 0.71
20 10 0.29
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (19 bp):
AATTCAAAATATTTTCAAA
Found at i:28901332 original size:15 final size:16
Alignment explanation
Indices: 28901308--28901347 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
28901298 GTTATTTTTA
*
28901308 TTATTATTATGCCTTT
1 TTATTATTATCCCTTT
28901324 TTATT-TTATCCC-TT
1 TTATTATTATCCCTTT
28901338 TTATTATTAT
1 TTATTATTAT
28901348 TATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 10 0.45
16 5 0.23
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (16 bp):
TTATTATTATCCCTTT
Found at i:28901346 original size:3 final size:3
Alignment explanation
Indices: 28901338--28901398 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
28901328 TTTATCCCTT
28901338 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28901386 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
28901399 GGTAGTAATC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:28903209 original size:2 final size:2
Alignment explanation
Indices: 28903202--28903237 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
28903192 ACATGGAATA
*
28903202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28903238 GACTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:28903704 original size:3 final size:3
Alignment explanation
Indices: 28903690--28903753 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
28903680 AAACATAAAC
28903690 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
28903736 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
28903754 GAAGAAGAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:28904896 original size:32 final size:32
Alignment explanation
Indices: 28904854--28904914 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
28904844 TCGGCTGATT
* * * *
28904854 AGGGTTTTGGGGTTTTGGGTTTTGGGTTTGTA
1 AGGGGTTTGGGCTTCTGGGTATTGGGTTTGTA
*
28904886 AGGGGTTTGGGCTTCTGTGTATTGGGTTT
1 AGGGGTTTGGGCTTCTGGGTATTGGGTTT
28904915 TGTGGGTCAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.07, C:0.03, G:0.43, T:0.48
Consensus pattern (32 bp):
AGGGGTTTGGGCTTCTGGGTATTGGGTTTGTA
Found at i:28906025 original size:15 final size:15
Alignment explanation
Indices: 28906005--28906034 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28905995 TTAATAGGGG
*
28906005 AATTTATATATAAAT
1 AATTTATATAGAAAT
28906020 AATTTATATAGAAAT
1 AATTTATATAGAAAT
28906035 TTTTCATAAC
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:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
AATTTATATAGAAAT
Found at i:28906035 original size:27 final size:27
Alignment explanation
Indices: 28905980--28906036 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
28905970 TTTAAGGGGG
* *
28905980 TTTACATATAAATAATTAATAGGGGAA
1 TTTACATATAAATAATTAATAGAGAAA
* * *
28906007 TTTATATATAAATAATTTATATAGAAA
1 TTTACATATAAATAATTAATAGAGAAA
28906034 TTT
1 TTT
28906037 TTCATAACGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
TTTACATATAAATAATTAATAGAGAAA
Found at i:28907515 original size:2 final size:2
Alignment explanation
Indices: 28907508--28907546 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
28907498 TTGTCATAAT
28907508 TA TA 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 TA TA T
28907547 TTGTTTACCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28907692 original size:3 final size:3
Alignment explanation
Indices: 28907684--28907871 Score: 59
Period size: 3 Copynumber: 62.7 Consensus size: 3
28907674 ATTTTTAAAG
** **
28907684 TTA TTA TTA CCA TTA TTA TTA TTA TTA CCA TT- TT- TTA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * *
28907728 TTA TT- TGTA TTA TTG TTG TTA TTA TTA TTC TTGA TT- TTA TTAA TGCA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA
* * * ** * **
28907775 TTA TAA TTC TTCA TT- TTT TGTA TTA TTA TTA TCC TTG TTA ACA -TA
1 TTA TTA TTA TT-A TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
28907820 TT- TTA TTA TTA TTT TCTA TTA TCG TTA TCA TTA ATA -TA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28907864 TTA TTA TT
1 TTA TTA TT
28907872 CCTATTACTA
Statistics
Matches: 134, Mismatches: 36, Indels: 30
0.67 0.18 0.15
Matches are distributed among these distances:
2 14 0.10
3 104 0.78
4 16 0.12
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:28909337 original size:31 final size:31
Alignment explanation
Indices: 28909302--28909365 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
28909292 TCATAAATCA
28909302 TTTCATATCCCATAACACTGGGCCGAAGCCT
1 TTTCATATCCCATAACACTGGGCCGAAGCCT
** **
28909333 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATCCCATAACACTGGGCCGAAGCCT
28909364 TT
1 TT
28909366 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (31 bp):
TTTCATATCCCATAACACTGGGCCGAAGCCT
Found at i:28909608 original size:24 final size:24
Alignment explanation
Indices: 28909557--28909699 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
28909547 GCTTTATCAT
*
28909557 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
28909582 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
28909606 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
28909629 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
28909653 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
28909677 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28909700 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:28909636 original size:47 final size:48
Alignment explanation
Indices: 28909557--28909698 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
28909547 GCTTTATCAT
* *
28909557 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
28909606 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
28909653 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
28909699 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:28909657 original size:71 final size:72
Alignment explanation
Indices: 28909556--28909699 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
28909546 TGCTTTATCA
*
28909556 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
28909621 GCCCTTT
66 GCCCTTT
* * **
28909628 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
28909691 AGCCCTTT
65 AGCCCTTT
28909699 T
1 T
28909700 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:28909774 original size:20 final size:20
Alignment explanation
Indices: 28909749--28909809 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
28909739 TTATGATTAC
28909749 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
28909769 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
28909789 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
28909809 A
1 A
28909810 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:28909880 original size:25 final size:25
Alignment explanation
Indices: 28909852--28909899 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28909842 ATACATAAAC
* * *
28909852 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
28909877 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
28909900 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28917269 original size:20 final size:20
Alignment explanation
Indices: 28917245--28917289 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
28917235 ACAAATGTAT
28917245 TAAAATCATTAATTAAAATAA
1 TAAAAT-ATTAATTAAAATAA
**
28917266 -AAAATATTTTTTAAAATAA
1 TAAAATATTAATTAAAATAA
28917285 TAAAA
1 TAAAA
28917290 ATGGGTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATATTAATTAAAATAA
Found at i:28919169 original size:104 final size:104
Alignment explanation
Indices: 28918989--28919288 Score: 359
Period size: 104 Copynumber: 2.9 Consensus size: 104
28918979 CATTCGATTC
* * * * ** * *
28918989 TCACAACTAATTTTATTAAGGCTAGATGAGTTAATATCGCAGTTTCCAATT-TTATGAGCTAGTT
1 TCACAACTAATTTTACTAAGGCTAGCTGAATTAAGATCGCAGCCTCCGATTATTA-GAGTTAGTT
* * * **
28919053 GATTTAAGATCGCAACTCCTAACAGCTTATTGGCCTACGT
65 GATTTAATATCGCAACTCCTAACAGCTCACTGAACTACGT
* *
28919093 TCACAACTAATTTTACTAAGGCTAGCTGATTTAAGATCGCAACCTCCGATTATTAGAGTTAGTTG
1 TCACAACTAATTTTACTAAGGCTAGCTGAATTAAGATCGCAGCCTCCGATTATTAGAGTTAGTTG
* *
28919158 GTTTAATATCGCAACTCCTAACAGCTCGCTGAACTACGT
66 ATTTAATATCGCAACTCCTAACAGCTCACTGAACTACGT
* * * ** * *
28919197 TCACAACTGATTTTACTAAGGCTAGCTAAATTAAGATTGCAGCCTATGATAATTTGAGTTAGTTG
1 TCACAACTAATTTTACTAAGGCTAGCTGAATTAAGATCGCAGCCTCCGATTATTAGAGTTAGTTG
*
28919262 ATTTAATATTGCAACTCCTAACAGCTC
66 ATTTAATATCGCAACTCCTAACAGCTC
28919289 GATGACCTAT
Statistics
Matches: 168, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
104 165 0.98
105 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (104 bp):
TCACAACTAATTTTACTAAGGCTAGCTGAATTAAGATCGCAGCCTCCGATTATTAGAGTTAGTTG
ATTTAATATCGCAACTCCTAACAGCTCACTGAACTACGT
Found at i:28919289 original size:104 final size:104
Alignment explanation
Indices: 28919043--28919318 Score: 347
Period size: 104 Copynumber: 2.7 Consensus size: 104
28919033 TCCAATTTTA
* * * * *
28919043 TGAGCTAGTTGATTTAAGATCGCAACTCCTAACAGCT-TATTGGCCTACGTTCACAACTAATTTT
1 TGAGTTAGTTGATTTAATATCGCAACTCCTAACAGCTCGA-TGACCTACGTTCACAACTGATTTT
* * * *
28919107 ACTAAGGCTAGCTGATTTAAGATCGCAACCTCCGATTATT
65 ACTAAGGCTAGCTAAATTAAGATCGCAACCTACGATAATT
* * * *
28919147 AGAGTTAGTTGGTTTAATATCGCAACTCCTAACAGCTCGCTGAACTACGTTCACAACTGATTTTA
1 TGAGTTAGTTGATTTAATATCGCAACTCCTAACAGCTCGATGACCTACGTTCACAACTGATTTTA
* * *
28919212 CTAAGGCTAGCTAAATTAAGATTGCAGCCTATGATAATT
66 CTAAGGCTAGCTAAATTAAGATCGCAACCTACGATAATT
* ** * *
28919251 TGAGTTAGTTGATTTAATATTGCAACTCCTAACAGCTCGATGACCTATATTCACAGCTGGTTTTA
1 TGAGTTAGTTGATTTAATATCGCAACTCCTAACAGCTCGATGACCTACGTTCACAACTGATTTTA
28919316 CTA
66 CTA
28919319 GGTCAGCCTC
Statistics
Matches: 146, Mismatches: 25, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
104 146 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (104 bp):
TGAGTTAGTTGATTTAATATCGCAACTCCTAACAGCTCGATGACCTACGTTCACAACTGATTTTA
CTAAGGCTAGCTAAATTAAGATCGCAACCTACGATAATT
Found at i:28922202 original size:29 final size:29
Alignment explanation
Indices: 28922169--28922231 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
28922159 TTTATTTTCA
28922169 TCACT-AAATTATAAAAAATTATAATTTAG
1 TCACTAAAATT-TAAAAAATTATAATTTAG
** **
28922198 TCACTAAAATTTTTAAAATTATTTTTTAG
1 TCACTAAAATTTAAAAAATTATAATTTAG
28922227 TCACT
1 TCACT
28922232 CATCTGTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (29 bp):
TCACTAAAATTTAAAAAATTATAATTTAG
Found at i:28926297 original size:11 final size:11
Alignment explanation
Indices: 28926249--28926302 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
28926239 AAGGAAACAC
28926249 AATAAT-ATAGT
1 AATAATAATA-T
*
28926260 AATAGTAATAT
1 AATAATAATAT
28926271 AA-AATTAATGAT
1 AATAA-TAAT-AT
28926283 -ATAATAATAT
1 AATAATAATAT
28926293 AATAATAATA
1 AATAATAATA
28926303 AGCATAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
10 3 0.08
11 26 0.72
12 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (11 bp):
AATAATAATAT
Found at i:28926300 original size:14 final size:14
Alignment explanation
Indices: 28926249--28926303 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
28926239 AAGGAAACAC
*
28926249 AATAATATAGTAAT
1 AATAATATAATAAT
*
28926263 AGTAATATAA-AATT
1 AATAATATAATAA-T
*
28926277 AATGATATAATAAT
1 AATAATATAATAAT
28926291 -ATAATAATAATAA
1 AATAAT-ATAATAA
28926304 GCATAAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
13 6 0.18
14 25 0.76
15 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:28928289 original size:44 final size:44
Alignment explanation
Indices: 28928234--28928606 Score: 191
Period size: 44 Copynumber: 8.3 Consensus size: 44
28928224 AATTCGACCT
* * * *
28928234 ACTGTAACTTCAAAGG-TATAGGATTTGTTGCCTT-AATCTGCTCC
1 ACTGCAACTTC-AAGGAGATAGGATTGGTAG-CTTCAATCTGCTCC
*
28928278 ACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATCTGCTCC
1 ACTGCAACTTCAAGGAGATAGGATTGGTAGCTTCAATCTGCTCC
* * * * * *
28928322 GCTGCAACTTTAGGGAGATAAGATTGGTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAAGGAGATAGGATTGGTAGCTTCAATCTGCTCC
* * ** * *
28928366 ACTGCAACTCCAGAGAGAGA-AGAATT-GTAATTTCAACCTGCTCT
1 ACTGCAACTTCA-AG-GAGATAGGATTGGTAGCTTCAATCTGCTCC
* * * * * *
28928410 ATTGCAACTTC-AGAAAGATAAGGTTTGCTATCTTCAATTTGCTCC
1 ACTGCAACTTCAAG-GAGAT-AGGATTGGTAGCTTCAATCTGCTCC
* * **
28928455 ACTGCAACTTCAAGGAGATAAGATTTGTAAGTTGCAGCTTTAATCTATTCC
1 ACTGCAACTTCAAGGAGATAGGA-TTG---G-T--AGCTTCAATCTGCTCC
* * * * * * * *
28928506 ACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCT
1 ACTGCAACTTCAAGGAGATAGGATT-GGTAGCTTCAATCTGCTCC
* * * * * **
28928551 ACTGTAACTTTAGGGAGATAAGGCTT-GTAGCTTAAATCTATTCC
1 ACTGCAACTTCAAGGAGAT-AGGATTGGTAGCTTCAATCTGCTCC
28928595 ACTGCAACTTCA
1 ACTGCAACTTCA
28928607 GGGAACTAGA
Statistics
Matches: 247, Mismatches: 65, Indels: 34
0.71 0.19 0.10
Matches are distributed among these distances:
42 6 0.02
43 6 0.02
44 128 0.52
45 61 0.25
46 10 0.04
47 1 0.00
49 1 0.00
50 2 0.01
51 32 0.13
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTGCAACTTCAAGGAGATAGGATTGGTAGCTTCAATCTGCTCC
Found at i:28928328 original size:141 final size:141
Alignment explanation
Indices: 28928065--28928346 Score: 449
Period size: 141 Copynumber: 2.0 Consensus size: 141
28928055 CCATGCAACC
* *
28928065 TGTAGTTATAGTAGATTTAATTCGACCTACTGCAACTTCAGAGGTATAGGATTTGTCACTTTAAT
1 TGTAGTTATAGTAGATTTAATTCGACCTACTGCAACTTCAAAGGTATAGGATTTGTCACCTTAAT
* * *
28928130 CCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGTTCCGTTGCAA-TTTCAG
66 CCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTT-AG
*
28928194 GGTGATAAGATT
130 GGAGATAAGATT
* **
28928206 TGTAGTTATAGTAGATTTAATTCGACCTACTGTAACTTCAAAGGTATAGGATTTGTTGCCTTAAT
1 TGTAGTTATAGTAGATTTAATTCGACCTACTGCAACTTCAAAGGTATAGGATTTGTCACCTTAAT
* *
28928271 CTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATCTGCTCCGCTGCAACTTTAGG
66 CCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTTAGG
28928336 GAGATAAGATT
131 GAGATAAGATT
28928347 GGTATCTTCA
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 126 0.98
142 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (141 bp):
TGTAGTTATAGTAGATTTAATTCGACCTACTGCAACTTCAAAGGTATAGGATTTGTCACCTTAAT
CCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTTAGG
GAGATAAGATT
Found at i:28928408 original size:88 final size:89
Alignment explanation
Indices: 28928268--28928474 Score: 222
Period size: 88 Copynumber: 2.3 Consensus size: 89
28928258 TTGTTGCCTT
* * * * * *
28928268 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATCTGCTCCGCTGCAACTTT
1 AATCTGCTCCACTGCAACTCCAGGGAGATAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTC
** *
28928333 AGGGAGATAA-GATTGGTATCTTC
66 AGAAAGATAAGGATTGCTATCTTC
* * * *
28928356 AGTCTGCTCCACTGCAACTCCAGAGAGAGA-AGAATT-GTAATTTCAACCTGCTCTATTGCAACT
1 AATCTGCTCCACTGCAACTCCAG-G-GAGATAGAATTGGTAACTTCAACCTGCTCCACTGCAACT
*
28928419 TCAGAAAGATAAGGTTTGCTATCTTC
64 TCAGAAAGATAAGGATTGCTATCTTC
* * *
28928445 AATTTGCTCCACTGCAACTTCAAGGAGATA
1 AATCTGCTCCACTGCAACTCCAGGGAGATA
28928475 AGATTTGTAA
Statistics
Matches: 97, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
87 4 0.04
88 53 0.55
89 36 0.37
90 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (89 bp):
AATCTGCTCCACTGCAACTCCAGGGAGATAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTC
AGAAAGATAAGGATTGCTATCTTC
Found at i:28928703 original size:100 final size:100
Alignment explanation
Indices: 28928574--28928769 Score: 331
Period size: 100 Copynumber: 2.0 Consensus size: 100
28928564 GGAGATAAGG
28928574 CTTGTAGCTTAAATCTATTCCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAAT-C
1 CTTGTAGCTTAAATCTATTCCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAATCC
* * *
28928638 AGTCCTACTGTAACTTTAGAGGTATAAGATTTATGA
66 A-TCCCACTGCAACTTCAGAGGTATAAGATTTATGA
28928674 CTTGTAGCTTAAATCTATTCCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAATCC
1 CTTGTAGCTTAAATCTATTCCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAATCC
* *
28928739 ATCCCACTGCAACTTCAGGGGTATAGGATTT
66 ATCCCACTGCAACTTCAGAGGTATAAGATTT
28928770 GTTAGTTGTC
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 88 0.98
101 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (100 bp):
CTTGTAGCTTAAATCTATTCCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAATCC
ATCCCACTGCAACTTCAGAGGTATAAGATTTATGA
Found at i:28928746 original size:49 final size:49
Alignment explanation
Indices: 28928593--28928758 Score: 167
Period size: 49 Copynumber: 3.3 Consensus size: 49
28928583 TAAATCTATT
28928593 CCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAAT-CAGTC
1 CCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAATCCA-TC
* * * * * * * * * * *
28928642 CTACTGTAACTTTAGAGGTA-TAAGATTTATGACTTG-TAGCTTAAATCTATT
1 CCACTGCAACTTCAG-GGAACT-AGA-TT-CGCCATGATAACTTCAATCCATC
28928693 CCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAATCCATC
1 CCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAATCCATC
28928742 CCACTGCAACTTCAGGG
1 CCACTGCAACTTCAGGG
28928759 GTATAGGATT
Statistics
Matches: 88, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
48 4 0.05
49 43 0.49
50 12 0.14
51 24 0.27
52 5 0.06
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (49 bp):
CCACTGCAACTTCAGGGAACTAGATTCGCCATGATAACTTCAATCCATC
Found at i:28929764 original size:21 final size:22
Alignment explanation
Indices: 28929730--28929773 Score: 56
Period size: 20 Copynumber: 2.0 Consensus size: 22
28929720 GAATGAACCC
28929730 AAAATCAGAGAATCAGAAAACAA
1 AAAATCAGAGAATC-GAAAACAA
*
28929753 AAAATCA-A-AATCGGAAACAA
1 AAAATCAGAGAATCGAAAACAA
28929773 A
1 A
28929774 GGTGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
22 1 0.05
23 7 0.35
ACGTcount: A:0.66, C:0.14, G:0.11, T:0.09
Consensus pattern (22 bp):
AAAATCAGAGAATCGAAAACAA
Found at i:28929935 original size:92 final size:95
Alignment explanation
Indices: 28929779--28929966 Score: 330
Period size: 92 Copynumber: 2.0 Consensus size: 95
28929769 ACAAAGGTGA
28929779 TTTTTTTATTTCTAATCGATTTCTCTTTTTTCTTCCTACTCATAAACATATAC-A-A-ATATATA
1 TTTTTTTATTTCTAATCGATTTCTCTTTTTTCTTCCTACTCATAAACATATACAATATATATATA
28929841 TATATATTT-AAAAAAAAATTACATTTTCC
66 TATATATTTAAAAAAAAAATTACATTTTCC
28929870 TTTTTTTATTTCTAATCGATTTCTCTTTTTTTCTTCCTACTCATAAACATATACAAATATATATA
1 TTTTTTTATTTCTAATCGATTTCTC-TTTTTTCTTCCTACTCATAAACATATAC-AATATATATA
28929935 TATATATATTTAAAAAAAAAATTACATTTTCC
64 TATATATATTTAAAAAAAAAATTACATTTTCC
28929967 GGCCACCGTG
Statistics
Matches: 91, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
91 25 0.27
92 28 0.31
94 1 0.01
95 1 0.01
96 16 0.18
97 20 0.22
ACGTcount: A:0.36, C:0.15, G:0.01, T:0.48
Consensus pattern (95 bp):
TTTTTTTATTTCTAATCGATTTCTCTTTTTTCTTCCTACTCATAAACATATACAATATATATATA
TATATATTTAAAAAAAAAATTACATTTTCC
Found at i:28930580 original size:3 final size:3
Alignment explanation
Indices: 28930574--28930707 Score: 69
Period size: 3 Copynumber: 44.0 Consensus size: 3
28930564 TTTTTGTTTT
* * *
28930574 TTA TTA TCA TTA TTA -TA TTA TTA TTA TTT TTCA TGTA CATA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA -TTA TTA TTA
* * * * * *
28930620 TATA TTA TTT TTA TGA TTA TTA TTA TT- GTA TTTA TTT TTA CTA CTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * *
28930666 TTA -TA TTTA TTA TTA GTA TTA GTA TTA TAA TTA CTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28930708 CACTCATATG
Statistics
Matches: 97, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
2 6 0.06
3 81 0.84
4 9 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:28930643 original size:27 final size:28
Alignment explanation
Indices: 28930571--28930680 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 28
28930561 TTTTTTTTGT
* *
28930571 TTTTTATTATCATTATTATATTATTATTA
1 TTTTTATGATTATTATTAT-TTATTATTA
*
28930600 TTTTTCATG--TACATATTATTTA-TATTA
1 TTTTT-ATGATTA-TTATTATTTATTATTA
28930627 TTTTTATGATTATTATTATTGTA-T-TTA
1 TTTTTATGATTATTATTATT-TATTATTA
*
28930654 TTTTTACT-ACTATTA-TATTTATTATTA
1 TTTTTA-TGATTATTATTATTTATTATTA
28930681 GTATTAGTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
25 2 0.03
26 8 0.12
27 35 0.51
28 10 0.15
29 11 0.16
30 2 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTTTATGATTATTATTATTTATTATTA
Found at i:28930798 original size:22 final size:22
Alignment explanation
Indices: 28930771--28930857 Score: 86
Period size: 22 Copynumber: 3.8 Consensus size: 22
28930761 TATCATCATC
*
28930771 TTAATATTAATAGTATTTATTT
1 TTAATATTATTAGTATTTATTT
*
28930793 TTAATA-TATGTATGTATATATTT
1 TTAATATTAT-TA-GTATTTATTT
*
28930816 ATGTAATATTATTAATATTTATTT
1 -T-TAATATTATTAGTATTTATTT
* *
28930840 TTAACATTATTATTATTT
1 TTAATATTATTAGTATTT
28930858 CTTAGATGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.04
22 23 0.43
23 10 0.19
24 9 0.17
25 7 0.13
26 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.59
Consensus pattern (22 bp):
TTAATATTATTAGTATTTATTT
Found at i:28930989 original size:64 final size:58
Alignment explanation
Indices: 28930921--28931037 Score: 128
Period size: 64 Copynumber: 1.9 Consensus size: 58
28930911 TATATATTTT
*
28930921 TTTTACAT-GTATTATGTGCATATTTTCAATAACTATATCATATGTATATATTTTATGTACATAC
1 TTTTA-ATAGTATTATGTACATATTTT---TAA-TATAT-ATATGTATATA-TTTATGTACATAC
* **
28930985 TTTTAATATTATTATGTATTTATTTTTAATATATATATGTATATATTTATGTA
1 TTTTAATAGTATTATGTACATATTTTTAATATATATATGTATATATTTATGTA
28931038 GTATTATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
58 8 0.17
59 11 0.23
60 5 0.10
61 3 0.06
63 2 0.04
64 19 0.40
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.54
Consensus pattern (58 bp):
TTTTAATAGTATTATGTACATATTTTTAATATATATATGTATATATTTATGTACATAC
Found at i:28931026 original size:23 final size:23
Alignment explanation
Indices: 28930968--28931046 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
28930958 TCATATGTAT
* *
28930968 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTATATATTTTTA
*
28930990 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTATATATTTTTA
28931013 ATA-TATATATGTATATATTTATGTA
1 ATATTAT-TATGTATATATTT-T-TA
*
28931038 GTATTATTA
1 ATATTATTA
28931047 ATAGTCATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
22 8 0.17
23 29 0.62
24 1 0.02
25 6 0.13
26 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTATATATTTTTA
Found at i:28931116 original size:24 final size:22
Alignment explanation
Indices: 28931073--28931133 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 22
28931063 TTCTAATATG
* * *
28931073 TATATACTATGTAAATATTTTAA
1 TATATATTATGTATACATTTT-A
*
28931096 TACTATATTATGTATACATTTTT
1 TA-TATATTATGTATACATTTTA
*
28931119 TATATATTACGTATA
1 TATATATTATGTATA
28931134 TATATCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 12 0.38
23 4 0.12
24 16 0.50
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
TATATATTATGTATACATTTTA
Found at i:28931243 original size:27 final size:26
Alignment explanation
Indices: 28931213--28931284 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
28931203 ACATATTATC
28931213 TTATGTATATATTTTTTAATAACTATA
1 TTATGTATATA-TTTTTAATAACTATA
* * **
28931240 TTATGTATGTACTTTTAA-CGCTATA
1 TTATGTATATATTTTTAATAACTATA
*
28931265 TTATGTACATATTTTTAATA
1 TTATGTATATATTTTTAATA
28931285 TTATGTATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
25 20 0.56
26 6 0.17
27 10 0.28
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (26 bp):
TTATGTATATATTTTTAATAACTATA
Found at i:28951315 original size:73 final size:72
Alignment explanation
Indices: 28951225--28951415 Score: 278
Period size: 73 Copynumber: 2.6 Consensus size: 72
28951215 TGATGTTTTT
*
28951225 ATTTCTG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-AGAACACGTTGAGG
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAG-ACACGCTGAGG
*
28951288 TACTTTCA
65 TAATTTCA
*
28951296 ATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
1 ATTTCTGT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGG
*
28951361 TAATTTTA
65 TAATTTCA
* *
28951369 ATTTCTGTTCATCAAAAAATCAACTCATATTACGAGAGGTGAGTTAA
1 ATTTCTGTT-TTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTAA
28951416 ACCCCGGCTC
Statistics
Matches: 108, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
71 7 0.06
72 1 0.01
73 67 0.62
74 33 0.31
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGT
AATTTCA
Found at i:28951570 original size:71 final size:71
Alignment explanation
Indices: 28951453--28951605 Score: 245
Period size: 71 Copynumber: 2.1 Consensus size: 71
28951443 CAATTTCTAT
* *
28951453 TTTTCAATTTCTGTTCGTCAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGACACGC
1 TTTTCAATTTATGTTC-TCAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGAGACACGC
28951518 TGAGGTA
65 TGAGGTA
* *
28951525 TTTTCAATTTATGTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGC
1 TTTTCAATTTATGTTCTC-AAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGAGACACGC
28951589 TGAGGTA
65 TGAGGTA
28951596 TTTTCAATTT
1 TTTTCAATTT
28951606 CCGTTTTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
70 2 0.03
71 60 0.79
72 14 0.18
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (71 bp):
TTTTCAATTTATGTTCTCAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGAGACACGCT
GAGGTA
Found at i:28952217 original size:20 final size:20
Alignment explanation
Indices: 28952181--28952223 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
28952171 GGCCTTTTAC
*
28952181 AAAAATAAACCATTACAACT
1 AAAAATAAACCATTACAAAT
*
28952201 AAAATTAAACCCA-TACAAAT
1 AAAAATAAA-CCATTACAAAT
28952221 AAA
1 AAA
28952224 CCCAAGACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAATAAACCATTACAAAT
Found at i:28953335 original size:3 final size:3
Alignment explanation
Indices: 28953329--28953462 Score: 69
Period size: 3 Copynumber: 44.0 Consensus size: 3
28953319 TTTTTGTTTT
* * *
28953329 TTA TTA TCA TTA TTA -TA TTA TTA TTA TTT TTCA TGTA CATA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA -TTA TTA TTA
* * * * * *
28953375 TATA TTA TTT TTA TGA TTA TTA TTA TT- GTA TTTA TTT TTA CTA CTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * *
28953421 TTA -TA TTTA TTA TTA GTA TTA GTA TTA TAA TTA CTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28953463 CACTTATATG
Statistics
Matches: 97, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
2 6 0.06
3 81 0.84
4 9 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:28953398 original size:27 final size:28
Alignment explanation
Indices: 28953326--28953435 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 28
28953316 CTTTTTTTGT
* *
28953326 TTTTTATTATCATTATTATATTATTATTA
1 TTTTTATGATTATTATTAT-TTATTATTA
*
28953355 TTTTTCATG--TACATATTATTTA-TATTA
1 TTTTT-ATGATTA-TTATTATTTATTATTA
28953382 TTTTTATGATTATTATTATTGTA-T-TTA
1 TTTTTATGATTATTATTATT-TATTATTA
*
28953409 TTTTTACT-ACTATTA-TATTTATTATTA
1 TTTTTA-TGATTATTATTATTTATTATTA
28953436 GTATTAGTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
25 2 0.03
26 8 0.12
27 35 0.51
28 10 0.15
29 11 0.16
30 2 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTTTATGATTATTATTATTTATTATTA
Found at i:28953550 original size:23 final size:23
Alignment explanation
Indices: 28953524--28953613 Score: 87
Period size: 23 Copynumber: 3.9 Consensus size: 23
28953514 ATTATCATCA
*
28953524 TTTTAATATTAATATGTATTTAT
1 TTTTAATATTATTATGTATTTAT
*
28953547 TTTTAATA-TATGTATGTATATAT
1 TTTTAATATTAT-TATGTATTTAT
* *
28953570 TTATGTAATATTATTA-ATATTTGT
1 TT-T-TAATATTATTATGTATTTAT
*
28953594 TTTTAACATTATTAT-TATTT
1 TTTTAATATTATTATGTATTT
28953614 CTTAGATGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
22 17 0.30
23 21 0.38
24 8 0.14
25 7 0.12
26 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATTATGTATTTAT
Found at i:28953745 original size:64 final size:58
Alignment explanation
Indices: 28953677--28953793 Score: 128
Period size: 64 Copynumber: 1.9 Consensus size: 58
28953667 GTATATTTTT
*
28953677 TTTTACAT-GTATTATGTGCATATTTTCAATAACTATATCATATGTATATATTTTATGTACATAC
1 TTTTA-ATAGTATTATGTACATATTTT---TAA-TATAT-ATATGTATATA-TTTATGTACATAC
* **
28953741 TTTTAATATTATTATGTATTTATTTTTAATATATATATGTATATATTTATGTA
1 TTTTAATAGTATTATGTACATATTTTTAATATATATATGTATATATTTATGTA
28953794 GTATTATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
58 8 0.17
59 11 0.23
60 5 0.10
61 3 0.06
63 2 0.04
64 19 0.40
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.54
Consensus pattern (58 bp):
TTTTAATAGTATTATGTACATATTTTTAATATATATATGTATATATTTATGTACATAC
Found at i:28953782 original size:23 final size:23
Alignment explanation
Indices: 28953724--28953802 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
28953714 TCATATGTAT
* *
28953724 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTATATATTTTTA
*
28953746 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTATATATTTTTA
28953769 ATA-TATATATGTATATATTTATGTA
1 ATATTAT-TATGTATATATTT-T-TA
*
28953794 GTATTATTA
1 ATATTATTA
28953803 ATAGTCGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
22 8 0.17
23 29 0.62
24 1 0.02
25 6 0.13
26 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTATATATTTTTA
Found at i:28953872 original size:24 final size:22
Alignment explanation
Indices: 28953829--28953889 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 22
28953819 TTCTAATATG
* * *
28953829 TATATACTATGTAAATATTTTAA
1 TATATATTATGTATACATTTT-A
*
28953852 TACTATATTATGTATACATTTTT
1 TA-TATATTATGTATACATTTTA
*
28953875 TATATATTACGTATA
1 TATATATTATGTATA
28953890 TATATCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 12 0.38
23 4 0.12
24 16 0.50
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
TATATATTATGTATACATTTTA
Found at i:28954019 original size:25 final size:25
Alignment explanation
Indices: 28953969--28954102 Score: 88
Period size: 25 Copynumber: 5.5 Consensus size: 25
28953959 ACATATTATC
28953969 TTATGTATATATTTTTTAAGAACTATA
1 TTATGTATATA-TTTTTAAG-ACTATA
*
28953996 TTATGTATGTATTTTTAACG-CTATA
1 TTATGTATATATTTTTAA-GACTATA
*
28954021 TTATGTACATATTTTT---A--ATA
1 TTATGTATATATTTTTAAGACTATA
* ***
28954041 TTATGTATATACCTTTTATTCCTATTA
1 TTATGTATATA-TTTTTAAGACTA-TA
* *
28954068 TTACGTATATA-TTTTAATAC-ATA
1 TTATGTATATATTTTTAAGACTATA
28954091 -TATGTATATATT
1 TTATGTATATATT
28954103 CATATATCGT
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
20 13 0.15
21 4 0.05
22 9 0.10
23 3 0.03
24 1 0.01
25 26 0.30
26 8 0.09
27 23 0.26
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (25 bp):
TTATGTATATATTTTTAAGACTATA
Found at i:28958311 original size:26 final size:26
Alignment explanation
Indices: 28958282--28958389 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
28958272 TGGTACAAAT
28958282 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
28958308 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
28958334 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
28958360 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
28958386 TGAT
1 TGAT
28958390 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:28969236 original size:22 final size:21
Alignment explanation
Indices: 28969210--28969264 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
28969200 AGGAAACACA
* *
28969210 AAAATAATAGTAATAGTAATAT
1 AAAATAATAAT-ATAATAATAT
28969232 AAAATTAATAATATAATAATAT
1 AAAA-TAATAATATAATAATAT
*
28969254 ATTAATAATAA
1 A-AAATAATAA
28969265 GCATAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
AAAATAATAATATAATAATAT
Found at i:28973316 original size:14 final size:15
Alignment explanation
Indices: 28973299--28973329 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
28973289 TATATTTAAA
28973299 ATTTATTTAAT-ATT
1 ATTTATTTAATAATT
28973313 ATTTATTTAATAATT
1 ATTTATTTAATAATT
28973328 AT
1 AT
28973330 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATTTAATAATT
Found at i:28982691 original size:46 final size:46
Alignment explanation
Indices: 28982629--28982902 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
28982619 TTTGATATGA
* * * *
28982629 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGT
* * * * *
28982675 TGTCATGGTATCTTTCAGCCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* ** *
28982721 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
28982767 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* * *
28982813 AGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
28982859 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
28982903 AGAGCACACT
Statistics
Matches: 205, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 201 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
Found at i:28985988 original size:19 final size:19
Alignment explanation
Indices: 28985964--28986001 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
28985954 ATGTGGGGAT
*
28985964 AACATATAGATTTATTTTA
1 AACATACAGATTTATTTTA
*
28985983 AACATACGGATTTATTTTA
1 AACATACAGATTTATTTTA
28986002 TAGGTATCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (19 bp):
AACATACAGATTTATTTTA
Found at i:28988867 original size:2 final size:2
Alignment explanation
Indices: 28988860--28988894 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
28988850 TTTAATCATC
28988860 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
28988895 GCGAATCAAG
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:28997305 original size:20 final size:20
Alignment explanation
Indices: 28997276--28997320 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
28997266 AGCACATGTA
*
28997276 TTCATAAAATTTTAAAATTT
1 TTCATAAAATTTTAAAACTT
* *
28997296 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTAAAACTT
28997316 TTCAT
1 TTCAT
28997321 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAAAACTT
Found at i:29001592 original size:1 final size:1
Alignment explanation
Indices: 29001586--29001610 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
29001576 AAATGAAACC
29001586 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
29001611 CAGTTTAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:29003365 original size:25 final size:25
Alignment explanation
Indices: 29003337--29003410 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
29003327 TAGTAGGCAT
29003337 CTTTATTCTGATTAAGAATTGAATA
1 CTTTATTCTGATTAAGAATTGAATA
* * * * *
29003362 CTTT-TAC-CATT-AGTA-GGCAT-
1 CTTTATTCTGATTAAGAATTGAATA
29003382 CTTTATTCTGATTAAGAATTGAATA
1 CTTTATTCTGATTAAGAATTGAATA
29003407 CTTT
1 CTTT
29003411 TACCATTAGT
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 4 0.12
21 5 0.15
22 6 0.18
23 6 0.18
24 5 0.15
25 8 0.24
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (25 bp):
CTTTATTCTGATTAAGAATTGAATA
Found at i:29003373 original size:23 final size:23
Alignment explanation
Indices: 29003347--29003418 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
29003337 CTTTATTCTG
29003347 ATTAAGAATTGAATACTTTTACC
1 ATTAAGAATTGAATACTTTTACC
* * * * *
29003370 ATT-AGTA-GGCAT-CTTTATTCTG
1 ATTAAGAATTGAATACTTT-TAC-C
29003392 ATTAAGAATTGAATACTTTTACC
1 ATTAAGAATTGAATACTTTTACC
29003415 ATTA
1 ATTA
29003419 GTAGGCATCT
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 4 0.12
21 5 0.15
22 6 0.18
23 10 0.29
24 5 0.15
25 4 0.12
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (23 bp):
ATTAAGAATTGAATACTTTTACC
Found at i:29003378 original size:45 final size:45
Alignment explanation
Indices: 29003314--29003449 Score: 272
Period size: 45 Copynumber: 3.0 Consensus size: 45
29003304 GCCTTCTATG
29003314 ATACTTTTACCATTAGTAGGCATCTTTATTCTGATTAAGAATTGA
1 ATACTTTTACCATTAGTAGGCATCTTTATTCTGATTAAGAATTGA
29003359 ATACTTTTACCATTAGTAGGCATCTTTATTCTGATTAAGAATTGA
1 ATACTTTTACCATTAGTAGGCATCTTTATTCTGATTAAGAATTGA
29003404 ATACTTTTACCATTAGTAGGCATCTTTATTCTGATTAAGAATTGA
1 ATACTTTTACCATTAGTAGGCATCTTTATTCTGATTAAGAATTGA
29003449 A
1 A
29003450 CTTATTGGAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (45 bp):
ATACTTTTACCATTAGTAGGCATCTTTATTCTGATTAAGAATTGA
Found at i:29005738 original size:13 final size:13
Alignment explanation
Indices: 29005720--29005744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29005710 TAACACCTCT
29005720 ACCATGCGAAACC
1 ACCATGCGAAACC
29005733 ACCATGCGAAAC
1 ACCATGCGAAAC
29005745 TTGTGGATTA
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:0.40, C:0.36, G:0.16, T:0.08
Consensus pattern (13 bp):
ACCATGCGAAACC
Found at i:29009538 original size:75 final size:75
Alignment explanation
Indices: 29009415--29009564 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
29009405 AATGATCACA
29009415 CGACCTGTGACATTACGCTAAGATTGTTAACATACTTGACCAATTCTTAGCCTAACTAATTCTAG
1 CGACCTGTGACATTACGCTAAGATTGTTAACATACTTGACCAATTCTTAGCCTAACTAATTCTAG
29009480 CAATTAATCC
66 CAATTAATCC
29009490 CGACCTGTGACATTACGCTAAGATTGTTAACATACTTGACCAATTCTTAGCCTAACTAATTCTAG
1 CGACCTGTGACATTACGCTAAGATTGTTAACATACTTGACCAATTCTTAGCCTAACTAATTCTAG
29009555 CAATTAATCC
66 CAATTAATCC
29009565 GATTTGGTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (75 bp):
CGACCTGTGACATTACGCTAAGATTGTTAACATACTTGACCAATTCTTAGCCTAACTAATTCTAG
CAATTAATCC
Found at i:29009830 original size:30 final size:29
Alignment explanation
Indices: 29009754--29009957 Score: 113
Period size: 30 Copynumber: 6.8 Consensus size: 29
29009744 TGTAAGCATC
* *
29009754 TAATTAAAATTTTCAGAATTTTTGAGAGGTT
1 TAATTAAAATTTTTAAAATTTTT-AG-GGTT
* *
29009785 TAATGAGAATTTTTAAAATTTTTAGGGTT
1 TAATTAAAATTTTTAAAATTTTTAGGGTT
** * **
29009814 TAATTAAAATTTTTTAAAAAAATTGAGAGAAT
1 TAATTAAAA-TTTTT-AAAATTTTTAG-GGTT
* * * * * *
29009846 TAATGAAAATCTCTAAAACTTATAGAGCTT
1 TAATTAAAATTTTTAAAATTTTTAG-GGTT
29009876 TAATTAAAATTTTTAAAACTTTTGTA-GGTT
1 TAATTAAAATTTTTAAAA-TTTT-TAGGGTT
* * * * * *
29009906 TAAGTAAAATTCTAAAAAATTTAAGGGTC
1 TAATTAAAATTTTTAAAATTTTTAGGGTT
**
29009935 TAATTAATTTTTTTCAAAATTTT
1 TAATTAAAATTTTT-AAAATTTT
29009958 GAAAGGTTTA
Statistics
Matches: 128, Mismatches: 38, Indels: 15
0.71 0.21 0.08
Matches are distributed among these distances:
28 1 0.01
29 26 0.20
30 57 0.45
31 32 0.25
32 12 0.09
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.43
Consensus pattern (29 bp):
TAATTAAAATTTTTAAAATTTTTAGGGTT
Found at i:29011560 original size:16 final size:15
Alignment explanation
Indices: 29011528--29011578 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
29011518 TTAACCAAAT
*
29011528 TATTTTTT-TATCAA
1 TATTTTTTATATAAA
*
29011542 TTTTTTTTATA-AAA
1 TATTTTTTATATAAA
* *
29011556 TATTTATTATATAAT
1 TATTTTTTATATAAA
29011571 TATTTTTT
1 TATTTTTT
29011579 CCATTTAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTTATATAAA
Found at i:29013162 original size:15 final size:16
Alignment explanation
Indices: 29013136--29013170 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
29013126 TTAGGGTTTA
29013136 GTTTAGGGTTTTTAGG
1 GTTTAGGGTTTTTAGG
*
29013152 GTTTA-GGTTTTTAGT
1 GTTTAGGGTTTTTAGG
29013167 GTTT
1 GTTT
29013171 TTTAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.11, C:0.00, G:0.31, T:0.57
Consensus pattern (16 bp):
GTTTAGGGTTTTTAGG
Found at i:29015329 original size:9 final size:9
Alignment explanation
Indices: 29015299--29015329 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
29015289 ATTTATATTT
29015299 TATTAAAAA
1 TATTAAAAA
*
29015308 TATAAAAAA
1 TATTAAAAA
29015317 TATTAAAAA
1 TATTAAAAA
29015326 TATT
1 TATT
29015330 GCCGTATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TATTAAAAA
Found at i:29015363 original size:38 final size:39
Alignment explanation
Indices: 29015320--29015401 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
29015310 TAAAAAATAT
* *
29015320 TAAAAA-TATTGCCGT-ATTCAAAATAACATTTATTTTAA
1 TAAAAATTATTGCC-TAATTCAAAAGAACATTTATTGTAA
* * *
29015358 TAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTAT
1 TAAAAATTATTGCCTAATTCAAAAGAACATTTATTGTAA
29015397 TAAAA
1 TAAAA
29015402 TTAAAAAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 7 0.19
39 30 0.81
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (39 bp):
TAAAAATTATTGCCTAATTCAAAAGAACATTTATTGTAA
Found at i:29015531 original size:130 final size:131
Alignment explanation
Indices: 29015355--29015732 Score: 658
Period size: 130 Copynumber: 2.9 Consensus size: 131
29015345 ACATTTATTT
* *
29015355 TAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTATTAAAATTAAAAAAAGTAAAAGTA
1 TAATAAAAA-TATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAAGTA
*
29015420 CAATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAA-TAAATATAAA
65 CAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAA
29015484 AA
130 AA
29015486 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAA-TAC
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAAGTAC
29015550 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
29015615 A
131 A
29015616 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGT-AAAGTA
1 TAAT-AAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAAGTA
*
29015680 CAATTAAAATATTAAAAATAAC-TTTATTTTATT-ATATGAAACTATATAAAAAA
65 CAATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAA
29015733 ATTTCTACAA
Statistics
Matches: 239, Mismatches: 4, Indels: 9
0.95 0.02 0.04
Matches are distributed among these distances:
129 57 0.24
130 97 0.41
131 85 0.36
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (131 bp):
TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAAGTAC
AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
A
Found at i:29015755 original size:131 final size:130
Alignment explanation
Indices: 29015354--29015757 Score: 586
Period size: 131 Copynumber: 3.1 Consensus size: 130
29015344 AACATTTATT
* *
29015354 TTAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTATTAAAATTAAAAAAAGTAAAAGT
1 TTAA-AAAAA-TATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGT-AAAGT
* **
29015419 ACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAA
63 ACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAA-ATTTATAAA
29015484 AATA
127 AATA
* *
29015488 --ATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAATACA
1 TTAAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
29015551 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATAT-AAAAAATTAAATATAAAA
66 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAAATT---TATAAAA
29015615 ATA
128 ATA
*
29015618 AT-AAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
1 TTAAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
* *
29015682 ATTAAAATATTAAAAATAAC-TTTATTTTATT-ATATGAAACTATATAAAAAAATTTCTACAAAT
66 ATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAAATTTATA-AAA-
29015745 ATA
128 ATA
29015748 TTAAAAAAAT
1 TTAAAAAAAT
29015758 CAATGTTGGT
Statistics
Matches: 248, Mismatches: 12, Indels: 23
0.88 0.04 0.08
Matches are distributed among these distances:
127 1 0.00
128 8 0.03
129 57 0.23
130 82 0.33
131 99 0.40
132 1 0.00
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (130 bp):
TTAAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAAATTTATAAAAATA
Found at i:29016268 original size:30 final size:30
Alignment explanation
Indices: 29016234--29016299 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
29016224 GTTGAAGTGC
* *
29016234 TGGGCCAGGTGGCTGTGTGGGCGCTGTTGA
1 TGGGCCAGGTGACTGTGTGGGCGCTATTGA
* * *
29016264 TGGGCCCGGTGATTGTGTGGGTGCTATTGA
1 TGGGCCAGGTGACTGTGTGGGCGCTATTGA
29016294 TGGGCC
1 TGGGCC
29016300 CACTGATTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.08, C:0.17, G:0.47, T:0.29
Consensus pattern (30 bp):
TGGGCCAGGTGACTGTGTGGGCGCTATTGA
Found at i:29016300 original size:30 final size:30
Alignment explanation
Indices: 29016247--29016313 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
29016237 GCCAGGTGGC
* **
29016247 TGTGTGGGCGCTGTTGATGGGCCCGGTGAT
1 TGTGTGGGCGCTATTGATGGGCCCACTGAT
*
29016277 TGTGTGGGTGCTATTGATGGGCCCACTGAT
1 TGTGTGGGCGCTATTGATGGGCCCACTGAT
29016307 TGTGTGG
1 TGTGTGG
29016314 ACGCCGCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.09, C:0.15, G:0.43, T:0.33
Consensus pattern (30 bp):
TGTGTGGGCGCTATTGATGGGCCCACTGAT
Done.