Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 120 of 328
Found at i:34196297 original size:20 final size:20
Alignment explanation
Indices: 34196114--34196308 Score: 74
Period size: 20 Copynumber: 9.8 Consensus size: 20
34196104 CATTTATGTG
* * *
34196114 CCCCTGTTTGTACTTTGGTA
1 CCCCTGATTGCACTTCGGTA
* *
34196134 CCCTTGATTGCACTTAC-GTG
1 CCCCTGATTGCACTT-CGGTA
**
34196154 CCCCT-ATTTATACTTCGGTA
1 CCCCTGA-TTGCACTTCGGTA
* *
34196174 CCGCTGATTGCACTTAC-GTG
1 CCCCTGATTGCACTT-CGGTA
* * *
34196194 CCCCCGTTTGTACTTCGGTA
1 CCCCTGATTGCACTTCGGTA
** * *
34196214 CCTTTAATTGCACTTAC-GTG
1 CCCCTGATTGCACTT-CGGTA
* * * **
34196234 CCCTTGTTTGTACTTTAGTA
1 CCCCTGATTGCACTTCGGTA
* * ** *
34196254 CCCCTGAATGCACATCTTTG
1 CCCCTGATTGCACTTCGGTA
*
34196274 CCCCTGTTTGCACTTCGGTA
1 CCCCTGATTGCACTTCGGTA
*
34196294 CCCCTAATTGCACTT
1 CCCCTGATTGCACTT
34196309 GGTGCCCCAG
Statistics
Matches: 119, Mismatches: 48, Indels: 16
0.65 0.26 0.09
Matches are distributed among these distances:
19 3 0.03
20 113 0.95
21 3 0.03
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.37
Consensus pattern (20 bp):
CCCCTGATTGCACTTCGGTA
Found at i:34199273 original size:26 final size:26
Alignment explanation
Indices: 34199237--34199346 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
34199227 CATGTAATTC
34199237 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
34199263 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
34199289 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
34199315 TTGTCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
34199341 TTATCA
1 TTATCA
34199347 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:34203979 original size:17 final size:16
Alignment explanation
Indices: 34203957--34203991 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
34203947 ATACTGAGTT
34203957 GTGAAATGTAGGTACTG
1 GTGAAATGTAGGTA-TG
34203974 GTGAAATGTAGGTATG
1 GTGAAATGTAGGTATG
34203990 GT
1 GT
34203992 ATTATCCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (16 bp):
GTGAAATGTAGGTATG
Found at i:34203984 original size:52 final size:51
Alignment explanation
Indices: 34203922--34204026 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 51
34203912 ATGGCAAAGT
*
34203922 GTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAATGTAGGTACTG
1 GTGAAATGTAGGTATGGTATCATCCATACTGAGCTGTGAAATGTAGGTA-TG
*
34203974 GTGAAATGTAGGTATGGTATTATCCATACTGAGCTGTGAAATGTAGGTATG
1 GTGAAATGTAGGTATGGTATCATCCATACTGAGCTGTGAAATGTAGGTATG
34204025 GT
1 GT
34204027 ATTATCAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 4 0.08
52 47 0.92
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.33
Consensus pattern (51 bp):
GTGAAATGTAGGTATGGTATCATCCATACTGAGCTGTGAAATGTAGGTATG
Found at i:34204055 original size:40 final size:37
Alignment explanation
Indices: 34203976--34204108 Score: 148
Period size: 40 Copynumber: 3.6 Consensus size: 37
34203966 AGGTACTGGT
* **
34203976 GAAATGTAGGTATGGTA-TT-ATCCATACTGAGCTGT
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTTAA
34204011 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC--ATCCATACTGAGTTAA
* *
34204051 GAAATGTAGGTATGGCATTTC--CCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTT-AA
*
34204087 AAAATGTAGGTATGGTATTTCA
1 GAAATGTAGGTATGGTATTTCA
34204109 ATGAGGAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
35 28 0.33
36 22 0.26
37 1 0.01
39 2 0.02
40 31 0.37
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (37 bp):
GAAATGTAGGTATGGTATTTCATCCATACTGAGTTAA
Found at i:34204076 original size:35 final size:36
Alignment explanation
Indices: 34203976--34204105 Score: 147
Period size: 35 Copynumber: 3.5 Consensus size: 36
34203966 AGGTACTGGT
* **
34203976 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
34204011 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTATC----CCATACTGAGTTAA
* *
34204051 GAAATGTAGGTATGGCATT-TCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTT-AA
*
34204087 AAAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
34204106 TCAATGAGGA
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
35 32 0.39
36 19 0.23
39 2 0.02
40 29 0.35
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (36 bp):
GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
Found at i:34204099 original size:36 final size:35
Alignment explanation
Indices: 34204037--34204107 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
34204027 ATTATCAAAT
* *
34204037 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
34204072 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
34204108 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:34211556 original size:75 final size:75
Alignment explanation
Indices: 34211437--34211607 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
34211427 CATGGCAAAG
** *
34211437 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
34211496 CCATACTGAGC
65 CCATACCGAGC
34211507 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
34211572 CATACCGAGT
66 CATACCGAGC
***
34211582 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
34211608 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:34211575 original size:35 final size:35
Alignment explanation
Indices: 34211440--34211605 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
34211430 GGCAAAGTGT
* **
34211440 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
34211475 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
34211510 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
34211550 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
34211585 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
34211606 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:34216283 original size:40 final size:40
Alignment explanation
Indices: 34216175--34216384 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
34216165 CGGGATTTAA
* * * * *
34216175 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
34216215 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34216255 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34216295 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34216335 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34216375 CCGGATATAT
1 CCGGATATAT
34216385 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:34224415 original size:40 final size:40
Alignment explanation
Indices: 34224307--34224516 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
34224297 CGGGATTTAA
* * * * *
34224307 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
34224347 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34224387 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34224427 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34224467 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34224507 CCGGATATAT
1 CCGGATATAT
34224517 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:34228317 original size:18 final size:18
Alignment explanation
Indices: 34228294--34228331 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
34228284 CGTCTCATCT
34228294 CTAATAATATTATATTTG
1 CTAATAATATTATATTTG
34228312 C---TAATATTATATTTG
1 CTAATAATATTATATTTG
34228327 CTAAT
1 CTAAT
34228332 GAAATTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 6
0.74 0.00 0.26
Matches are distributed among these distances:
15 15 0.88
18 2 0.12
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (18 bp):
CTAATAATATTATATTTG
Found at i:34228318 original size:15 final size:15
Alignment explanation
Indices: 34228298--34228331 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
34228288 TCATCTCTAA
34228298 TAATATTATATTTGC
1 TAATATTATATTTGC
34228313 TAATATTATATTTGC
1 TAATATTATATTTGC
34228328 TAAT
1 TAAT
34228332 GAAATTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (15 bp):
TAATATTATATTTGC
Found at i:34249935 original size:28 final size:28
Alignment explanation
Indices: 34249880--34249935 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
34249870 ACAGGGGTTT
* *
34249880 TCACATGGCCTGACACATACCCGTGTCCC
1 TCACACGGCCTGACACA-ACCCATGTCCC
34249909 TCACACGGCCATGACAC-ACCCATGTCC
1 TCACACGGCC-TGACACAACCCATGTCC
34249936 TAGCCCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.23, C:0.43, G:0.16, T:0.18
Consensus pattern (28 bp):
TCACACGGCCTGACACAACCCATGTCCC
Found at i:34250293 original size:30 final size:30
Alignment explanation
Indices: 34250248--34250305 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
34250238 AAACACAATT
34250248 TAACACAAAAAAACATAACAAAGCCTAATC
1 TAACACAAAAAAACATAACAAAGCCTAATC
* *
34250278 TAACACCAAACAACATAACAAAGCCTAA
1 TAACACAAAAAAACATAACAAAGCCTAA
34250306 CTTAGTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.26, G:0.03, T:0.12
Consensus pattern (30 bp):
TAACACAAAAAAACATAACAAAGCCTAATC
Found at i:34256380 original size:6 final size:6
Alignment explanation
Indices: 34256369--34256402 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
34256359 AATTTGACGG
*
34256369 CTGTAT CTGTAT CTGTAT TTGTAT CTGTAT CTGT
1 CTGTAT CTGTAT CTGTAT CTGTAT CTGTAT CTGT
34256403 TTGACTCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.53
Consensus pattern (6 bp):
CTGTAT
Found at i:34256860 original size:22 final size:22
Alignment explanation
Indices: 34256812--34256862 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
34256802 ATCTTTTCTT
* *
34256812 CTTCTTTTTTGTTTTTATTTTT
1 CTTCTTTTTTGTCTTTATTTTA
*
34256834 TTTCTTTTCTT-TCTTTATTTTA
1 CTTCTTTT-TTGTCTTTATTTTA
34256856 CTTCTTT
1 CTTCTTT
34256863 GATTTCTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (22 bp):
CTTCTTTTTTGTCTTTATTTTA
Found at i:34256868 original size:22 final size:22
Alignment explanation
Indices: 34256825--34256870 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
34256815 CTTTTTTGTT
** **
34256825 TTTATTTTTTTTCTTTTCTTTC
1 TTTATTTTACTTCTTTGATTTC
34256847 TTTATTTTACTTCTTTGATTTC
1 TTTATTTTACTTCTTTGATTTC
34256869 TT
1 TT
34256871 CTCATCGAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.13, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTATTTTACTTCTTTGATTTC
Found at i:34258724 original size:16 final size:16
Alignment explanation
Indices: 34258703--34258734 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34258693 GGTGTAATTA
34258703 TAACAGGCCTTGAGCC
1 TAACAGGCCTTGAGCC
*
34258719 TAACAGGCTTTGAGCC
1 TAACAGGCCTTGAGCC
34258735 GATGTAACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (16 bp):
TAACAGGCCTTGAGCC
Found at i:34259044 original size:18 final size:19
Alignment explanation
Indices: 34259007--34259044 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
34258997 CGTTTGATTT
*
34259007 AATTTTGTAGGTCCATTGG
1 AATTTTGTACGTCCATTGG
*
34259026 AATTTTG-ACGTCGATTGG
1 AATTTTGTACGTCCATTGG
34259044 A
1 A
34259045 TCTGCTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (19 bp):
AATTTTGTACGTCCATTGG
Found at i:34260156 original size:20 final size:20
Alignment explanation
Indices: 34260131--34260179 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
34260121 CTTCCCTTAA
* *
34260131 ATTATTTTATTTATAATATT
1 ATTATTTTACTTATAAAATT
34260151 ATTATTTTACTTATAAAATT
1 ATTATTTTACTTATAAAATT
34260171 ATTATTTTA
1 ATTATTTTA
34260180 ATAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTATTTTACTTATAAAATT
Found at i:34260189 original size:20 final size:19
Alignment explanation
Indices: 34260131--34260190 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
34260121 CTTCCCTTAA
* *
34260131 ATTATTTTATTTATAATATT
1 ATTATTTTAATAATAA-ATT
* *
34260151 ATTATTTTACTTATAAAATT
1 ATTATTTTAATAAT-AAATT
34260171 ATTATTTTAATAAATAAATT
1 ATTATTTTAAT-AATAAATT
34260191 TCATGTTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATTTTAATAATAAATT
Found at i:34260309 original size:19 final size:18
Alignment explanation
Indices: 34260273--34260326 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
34260263 ATTGAAAAAT
*
34260273 ATTTTTTTGATATATTTTTC
1 ATTTTTTT-AAAT-TTTTTC
*
34260293 ATTTTTTTAAAGTTTTTTG
1 ATTTTTTTAAA-TTTTTTC
34260312 ATTTTTTTAAATTTT
1 ATTTTTTTAAATTTT
34260327 AAGAATTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.13
19 18 0.58
20 9 0.29
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (18 bp):
ATTTTTTTAAATTTTTTC
Found at i:34268974 original size:16 final size:17
Alignment explanation
Indices: 34268941--34268976 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
34268931 TTCCGAGCCA
*
34268941 TAAATTTTTTTACAAAT
1 TAAAATTTTTTACAAAT
34268958 TAAAATTTTTTAC-AAT
1 TAAAATTTTTTACAAAT
34268974 TAA
1 TAA
34268977 TCATAAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAATTTTTTACAAAT
Found at i:34270057 original size:42 final size:42
Alignment explanation
Indices: 34269941--34270083 Score: 153
Period size: 42 Copynumber: 3.4 Consensus size: 42
34269931 TACCAATGTT
* * * * *
34269941 ATATCCCATATATGGTCTTACA-TATAATCTCGTATCGTTGCTA
1 ATATCCCAGATATGGTCTTACACGA-AATCTCATATCGATGC-C
* *
34269984 ATAGCCCAGCTATGGTCTTACACGAAATCTCATATCGATGCC
1 ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
* * * * *
34270026 ATATCCTAGATATGGTCTTGCACGTAGTCTCATATTGATGCC
1 ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
34270068 ATATCCCAGATATGGT
1 ATATCCCAGATATGGT
34270084 ATTAGATCTA
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 50 0.60
43 33 0.39
44 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
Found at i:34276158 original size:24 final size:23
Alignment explanation
Indices: 34276067--34276148 Score: 80
Period size: 22 Copynumber: 3.7 Consensus size: 23
34276057 ATTATTAAAA
*
34276067 ATAATTTAATAATA-AATAATAA
1 ATAATTTAATAATATAATAATAT
* * *
34276089 ATAATTTAATCATAT-TTTA-AT
1 ATAATTTAATAATATAATAATAT
* *
34276110 ATAATTTAATAAAAATAAAAATAT
1 ATAATTTAAT-AATATAATAATAT
34276134 ATAATTTAATAATAT
1 ATAATTTAATAATAT
34276149 TTTTAATATA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
21 11 0.24
22 18 0.39
23 5 0.11
24 12 0.26
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (23 bp):
ATAATTTAATAATATAATAATAT
Found at i:34276217 original size:17 final size:17
Alignment explanation
Indices: 34276195--34276248 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
34276185 AATATTTAAA
34276195 ATATTTTGTATTAAATT
1 ATATTTTGTATTAAATT
*
34276212 ATATTTTGAAATT-AA--
1 ATATTTTG-TATTAAATT
* *
34276227 ATAGTTTATATTAAATT
1 ATATTTTGTATTAAATT
34276244 ATATT
1 ATATT
34276249 AAAATATTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
14 3 0.11
15 8 0.29
17 14 0.50
18 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
ATATTTTGTATTAAATT
Found at i:34276269 original size:34 final size:33
Alignment explanation
Indices: 34276161--34276269 Score: 114
Period size: 32 Copynumber: 3.2 Consensus size: 33
34276151 TTAATATAAT
* *
34276161 TATTTTCATAGTAAATTATTTTAAAATATTTAAAA
1 TATTTT-ATATTAAATTATATTAAAATATTT-AAA
* **
34276196 TATTTTGTATTAAATTATATTTTGAA-A-TTAAA
1 TATTTTATATTAAATTATA-TTAAAATATTTAAA
*
34276228 TAGTTTATATTAAATTATATTAAAATATTTCAAA
1 TATTTTATATTAAATTATATTAAAATATTT-AAA
34276262 TATTTTAT
1 TATTTTAT
34276270 TTTTATATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
31 4 0.07
32 21 0.35
33 4 0.07
34 21 0.35
35 10 0.17
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (33 bp):
TATTTTATATTAAATTATATTAAAATATTTAAA
Found at i:34283289 original size:21 final size:22
Alignment explanation
Indices: 34283237--34283289 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
34283227 AAATAAAGTC
*
34283237 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
34283258 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
34283280 CATGTATCAT
1 CATGTATCAT
34283290 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:34284347 original size:21 final size:20
Alignment explanation
Indices: 34284314--34284352 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34284304 TTTGAAGCAC
34284314 ATTTATTCACAAAATTTCAGA
1 ATTTATTCAC-AAATTTCAGA
34284335 ATTT-TTCATCAAATTTCA
1 ATTTATTCA-CAAATTTCA
34284353 CAAATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTTATTCACAAATTTCAGA
Found at i:34295342 original size:30 final size:28
Alignment explanation
Indices: 34295303--34295364 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
34295293 ATGGATTTAA
34295303 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTA-TTAAGTAAA-AGATATTT
*
34295333 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
34295361 ATTA
1 ATTA
34295365 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:34296714 original size:39 final size:39
Alignment explanation
Indices: 34296673--34296810 Score: 186
Period size: 39 Copynumber: 3.5 Consensus size: 39
34296663 ACTATTGCAT
* *
34296673 TGAATGATTGATAGTTACTGAATAACTAAATTACTGTAT
1 TGAATAATTGATAGTTACTGAATAACTAAATTACTGTAC
* * *
34296712 TGAATAATTGATAGTTATTGAATAACTAAACTACTGCAC
1 TGAATAATTGATAGTTACTGAATAACTAAATTACTGTAC
* * * *
34296751 TGAACATTTGATAGTTACTGAATGACTAAATTACTATAC
1 TGAATAATTGATAGTTACTGAATAACTAAATTACTGTAC
*
34296790 TGAATAATTGATTGTTACTGA
1 TGAATAATTGATAGTTACTGA
34296811 TTAAATATGA
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (39 bp):
TGAATAATTGATAGTTACTGAATAACTAAATTACTGTAC
Found at i:34296732 original size:18 final size:18
Alignment explanation
Indices: 34296671--34296736 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
34296661 AAACTATTGC
*
34296671 ATTGAATGATTGATAGTT
1 ATTGAATAATTGATAGTT
* ** *
34296689 ACTGAATAACTAAATTACTGT
1 ATTGAATAA-TTGA-TAGT-T
34296710 ATTGAATAATTGATAGTT
1 ATTGAATAATTGATAGTT
34296728 ATTGAATAA
1 ATTGAATAA
34296737 CTAAACTACT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
18 17 0.47
19 5 0.14
20 5 0.14
21 9 0.25
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (18 bp):
ATTGAATAATTGATAGTT
Found at i:34303047 original size:13 final size:13
Alignment explanation
Indices: 34303029--34303057 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34303019 GGTTGTTTAT
34303029 TAAACTAATTAAC
1 TAAACTAATTAAC
34303042 TAAACTAATTAAC
1 TAAACTAATTAAC
34303055 TAA
1 TAA
34303058 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:34304968 original size:19 final size:20
Alignment explanation
Indices: 34304944--34304981 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
34304934 GGTATCACCA
34304944 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
34304963 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
34304982 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:34305368 original size:93 final size:93
Alignment explanation
Indices: 34305209--34305379 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
34305199 GCCCCTAAGT
* *
34305209 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
34305274 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
34305302 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
34305367 CGAGTTCGGATGC
66 CGAGTTCGGATGC
34305380 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:34305376 original size:46 final size:46
Alignment explanation
Indices: 34305204--34305376 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
34305194 TAACCGCCCC
* * * *
34305204 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
34305250 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
34305298 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
34305343 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34305377 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:34312530 original size:19 final size:20
Alignment explanation
Indices: 34312506--34312543 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
34312496 GGTATCACCA
34312506 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
34312525 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
34312544 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:34312881 original size:47 final size:49
Alignment explanation
Indices: 34312768--34312940 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 49
34312758 AACCCGCCCC
* * *
34312768 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-C-GTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCA
34312813 TAA--GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
34312859 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
34312904 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
34312941 TCAACCATCC
Statistics
Matches: 108, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
43 31 0.29
44 3 0.03
45 5 0.05
46 32 0.30
47 31 0.29
48 3 0.03
49 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:34312931 original size:93 final size:90
Alignment explanation
Indices: 34312773--34312940 Score: 282
Period size: 93 Copynumber: 1.8 Consensus size: 90
34312763 GCCCCTAAGT
*
34312773 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGAACTCGGACTCAACTCAACGA
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGAACTCGGACTCAACTCAACGA
34312838 GTTCGGATGCCTAGTTACATCTCAC
66 GTTCGGATGCCTAGTTACATCTCAC
* *
34312863 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAA--GAACTCGGACTCAACTCAA
34312928 CGAGTTCGGATGC
63 CGAGTTCGGATGC
34312941 TCAACCATCC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
90 27 0.38
91 13 0.18
93 32 0.44
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (90 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGAACTCGGACTCAACTCAACGA
GTTCGGATGCCTAGTTACATCTCAC
Found at i:34315647 original size:47 final size:50
Alignment explanation
Indices: 34315532--34315706 Score: 178
Period size: 47 Copynumber: 3.7 Consensus size: 50
34315522 AACCCGCCCC
* * *
34315532 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACATCCA
*
34315578 -AA-TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTCACATCCA
* * *
34315624 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACATCCA
*
34315670 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
34315707 TCAACCATCC
Statistics
Matches: 108, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
43 3 0.03
44 32 0.30
45 3 0.03
46 3 0.03
47 61 0.56
48 3 0.03
49 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (50 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACATCCA
Found at i:34315696 original size:94 final size:91
Alignment explanation
Indices: 34315537--34315706 Score: 286
Period size: 94 Copynumber: 1.8 Consensus size: 91
34315527 GCCCCTAAGT
*
34315537 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAAATGAACTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCAAATGAACTCGGACTCAACTCAACG
34315602 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
* *
34315628 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCGCATCCA-AA-TGAACTCGGACTCAACTCA
34315693 ACGAGTTCGGATGC
63 ACGAGTTCGGATGC
34315707 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
91 28 0.38
92 10 0.14
93 2 0.03
94 33 0.45
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCAAATGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:34322850 original size:19 final size:20
Alignment explanation
Indices: 34322826--34322863 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
34322816 GGTATCACCA
34322826 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
34322845 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
34322864 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:34323250 original size:93 final size:92
Alignment explanation
Indices: 34323092--34323261 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
34323082 GCCCCTAAGT
*
34323092 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
34323157 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * *
34323184 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCAA
34323249 CGAGTTCGGATGC
65 CGAGTTCGGATGC
34323262 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 27 0.37
93 46 0.63
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:34323251 original size:46 final size:46
Alignment explanation
Indices: 34323087--34323258 Score: 208
Period size: 45 Copynumber: 3.7 Consensus size: 46
34323077 AACCCGCCCC
* * *
34323087 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
34323132 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
34323180 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
34323225 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34323259 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 33 0.31
46 29 0.27
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:34327628 original size:38 final size:38
Alignment explanation
Indices: 34327607--34327768 Score: 227
Period size: 38 Copynumber: 4.3 Consensus size: 38
34327597 ATACTGAAAT
34327607 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
*
34327645 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
* * *
34327683 TATATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
** * *
34327721 TATATCCGGGTTAAATCTTGCAGGCCT-AGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAA
*
34327759 TATATTCGGG
1 TATATCCGGG
34327769 CCTTTGAGCC
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 114 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
Found at i:34327811 original size:45 final size:45
Alignment explanation
Indices: 34327761--34327880 Score: 163
Period size: 44 Copynumber: 2.7 Consensus size: 45
34327751 GCTGGTATTA
* *
34327761 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAAAGCCGGTGAGACAC
* *
34327806 TATTCGGGCCTTTGGGCCTAGCAGGCT-TAAAGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAAAGCCGGTGAGACAC
**
34327850 TATTCACG-CTTTCGAGCCTAGCAGGCTATAA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAA
34327881 TACCGATGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 4 0.06
44 33 0.50
45 29 0.44
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAAAGCCGGTGAGACAC
Found at i:34328855 original size:6 final size:6
Alignment explanation
Indices: 34328846--34328872 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34328836 AATAAAATTG
34328846 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
34328873 AGATGGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:34334323 original size:13 final size:13
Alignment explanation
Indices: 34334305--34334333 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34334295 GGTTTTCTAT
34334305 TAAACTAATTAAC
1 TAAACTAATTAAC
34334318 TAAACTAATTAAC
1 TAAACTAATTAAC
34334331 TAA
1 TAA
34334334 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:34335617 original size:30 final size:28
Alignment explanation
Indices: 34335578--34335639 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
34335568 ATGGATTTAA
34335578 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTA-TTAAGTAAA-AGATATTT
*
34335608 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
34335636 ATTA
1 ATTA
34335640 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:34336946 original size:15 final size:14
Alignment explanation
Indices: 34336919--34336957 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
34336909 AATATTATTA
34336919 AATTAATTTTAATT
1 AATTAATTTTAATT
34336933 AATTAATTTCTAATT
1 AATTAATTT-TAATT
*
34336948 AAATAATTTT
1 AATTAATTTT
34336958 CTGAACTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTAATTTTAATT
Found at i:34341000 original size:40 final size:40
Alignment explanation
Indices: 34340934--34341100 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34340924 AAATTGAATG
* * *
34340934 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
34340973 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
34341013 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
34341053 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
34341093 ATATCCGG
1 ATATCCGG
34341101 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34349010 original size:40 final size:40
Alignment explanation
Indices: 34348944--34349110 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34348934 AAATTGAATG
* * *
34348944 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
34348983 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
34349023 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
34349063 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
34349103 ATATCCGG
1 ATATCCGG
34349111 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34368376 original size:23 final size:24
Alignment explanation
Indices: 34368329--34368376 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34368319 AGCAAAATCC
* *
34368329 TATCCATCTAGCCTCTACACACCA
1 TATCCATCCAACCTCTACACACCA
*
34368353 TATCCATCCAACC-CTACACTCCA
1 TATCCATCCAACCTCTACACACCA
34368376 T
1 T
34368377 GTAGGGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.29, C:0.44, G:0.02, T:0.25
Consensus pattern (24 bp):
TATCCATCCAACCTCTACACACCA
Found at i:34371449 original size:2 final size:2
Alignment explanation
Indices: 34371444--34371477 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34371434 ACACAAGACC
34371444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34371478 CAATTATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34372183 original size:42 final size:43
Alignment explanation
Indices: 34372081--34372186 Score: 103
Period size: 42 Copynumber: 2.5 Consensus size: 43
34372071 CAATGCCAAC
* *
34372081 GTCCCAGAA-ATGGTCTTACATGTAATCAAATATCGATGCCATT
1 GTCCCA-AACATGGTCTTACACGAAATCAAATATCGATGCCATT
* * * *
34372124 ATCCTAGACA-GGATCTTACACGAAATCATATA-CGATGCCGA-T
1 GTCCCAAACATGG-TCTTACACGAAATCAAATATCGATGCC-ATT
34372166 GTCCCAAACATGGTCTTACAC
1 GTCCCAAACATGGTCTTACAC
34372187 ATAAATCTCA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
42 26 0.52
43 24 0.48
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
GTCCCAAACATGGTCTTACACGAAATCAAATATCGATGCCATT
Found at i:34377116 original size:28 final size:28
Alignment explanation
Indices: 34377082--34377146 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
34377072 TCAGTGTACG
* *
34377082 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
34377110 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
34377138 AAATATTGA
1 AAATATTGA
34377147 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:34377263 original size:39 final size:39
Alignment explanation
Indices: 34377219--34377478 Score: 427
Period size: 39 Copynumber: 6.7 Consensus size: 39
34377209 GACTTTATAA
*
34377219 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
34377258 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
34377297 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
34377336 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
34377375 TGGTGTTATATCCGGGCTAAG-CCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
34377413 TGGTGTTATATCCGGGCTAAAGT-CCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
34377451 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
34377479 CATGCTTTGT
Statistics
Matches: 211, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
38 57 0.27
39 151 0.72
40 3 0.01
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:34383632 original size:28 final size:28
Alignment explanation
Indices: 34383598--34383662 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
34383588 TCAGTGTACG
* *
34383598 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
34383626 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
34383654 AAATATTGA
1 AAATATTGA
34383663 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:34383779 original size:39 final size:39
Alignment explanation
Indices: 34383735--34383996 Score: 366
Period size: 39 Copynumber: 6.7 Consensus size: 39
34383725 GACTTTATAA
* * *
34383735 TGGTGTTATATCTGGGCTAAGTCCTGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
34383774 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
34383813 TGGTGTTATATCCGGGCTAAGTCCCGAAGGTATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
34383852 TGGTGTTATATCTGAGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
34383891 TGGTGTTCTATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
34383930 TGGTGTTATATCCGGGCTAAAGTCCCGCAA-GC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCG-AAGGCATTCGTGC
**
34383969 TGGCATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
34383997 CATGCTTTGT
Statistics
Matches: 204, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 183 0.90
40 19 0.09
41 2 0.01
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:34393616 original size:5 final size:5
Alignment explanation
Indices: 34393606--34393645 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
34393596 TTGTGTGAAA
*
34393606 AAAAT AAAAT AAAAT AAAAT -AAAG AAAA- AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
34393646 CACACAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:34393621 original size:10 final size:10
Alignment explanation
Indices: 34393606--34393645 Score: 57
Period size: 9 Copynumber: 4.2 Consensus size: 10
34393596 TTGTGTGAAA
34393606 AAAATAAAAT
1 AAAATAAAAT
34393616 AAAATAAAAT
1 AAAATAAAAT
*
34393626 -AAAGAAAA-
1 AAAATAAAAT
34393634 AAAATAAAAT
1 AAAATAAAAT
34393644 AA
1 AA
34393646 CACACAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:34398981 original size:16 final size:16
Alignment explanation
Indices: 34398962--34398993 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34398952 TAATTATTCA
34398962 ATTGTCACCTTATAAT
1 ATTGTCACCTTATAAT
34398978 ATTGTCACCTTATAAT
1 ATTGTCACCTTATAAT
34398994 TTAAATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTGTCACCTTATAAT
Found at i:34405793 original size:26 final size:26
Alignment explanation
Indices: 34405757--34405918 Score: 254
Period size: 26 Copynumber: 6.2 Consensus size: 26
34405747 CATGAAATTC
34405757 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
34405783 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
34405809 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
34405835 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
34405861 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
34405887 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
34405913 TTATCA
1 TTATCA
34405919 ATTTGTATCA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 125 0.99
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:34405890 original size:78 final size:78
Alignment explanation
Indices: 34405757--34405918 Score: 288
Period size: 78 Copynumber: 2.1 Consensus size: 78
34405747 CATGAAATTC
*
34405757 TTATCATGAAACATTTACCTAACTCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
34405822 TTTACCTAACCTA
66 TTTACCTAACCTA
* * *
34405835 TTATCATGAAGCATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
34405900 TTTACCTAACCTA
66 TTTACCTAACCTA
34405913 TTATCA
1 TTATCA
34405919 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:34410502 original size:2 final size:2
Alignment explanation
Indices: 34410495--34410531 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
34410485 AAGATAAAAC
*
34410495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34410532 ATTTTCCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 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):
AT
Found at i:34410613 original size:2 final size:2
Alignment explanation
Indices: 34410608--34410654 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
34410598 AATCAATTTC
34410608 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34410650 TA TA T
1 TA TA T
34410655 TTTAAATGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:34416569 original size:41 final size:41
Alignment explanation
Indices: 34416524--34416605 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
34416514 TGTAATACAA
*
34416524 AAAAGACAACTTATATTAGTAGACAAACCTAAACATATCCT
1 AAAAGACAACTTATATTAGTAGACAAACCTAAACACATCCT
**
34416565 AAAAGACAACTTATATTAGTAGATGAACCTAAACACATCCT
1 AAAAGACAACTTATATTAGTAGACAAACCTAAACACATCCT
34416606 TAGTCTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.24
Consensus pattern (41 bp):
AAAAGACAACTTATATTAGTAGACAAACCTAAACACATCCT
Found at i:34421360 original size:12 final size:12
Alignment explanation
Indices: 34421343--34421368 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34421333 TTGTTATAGC
34421343 ATGATTATATGA
1 ATGATTATATGA
34421355 ATGATTATATGA
1 ATGATTATATGA
34421367 AT
1 AT
34421369 ACATGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGATTATATGA
Found at i:34422494 original size:43 final size:44
Alignment explanation
Indices: 34422446--34422621 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 44
34422436 TGGGTGATGT
*
34422446 GTGTGTCAATGTAAGACCTGTCTGGGACATGGCATCG-CTTGAA
1 GTGTGTCAATGTAAGACCTGTCTGGGACATGGCATCGACTAGAA
* * * *
34422489 GTGTGTTAGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATAA
1 GTGTGTCAATGTAAGACCTGTCTGGGACATGGCATCGAC-TAG--AA
* * * * *
34422536 GTGAGAGTCATTGTAAGACCTG-CTGGGACATGGCATCGGCCTCGAT
1 GT--GTGTCAATGTAAGACCTGTCTGGGACATGGCATC-GACTAGAA
* *
34422582 GTATGTAAGTCAATGTAAGACTTGTCTGAGACATGGCATC
1 G--TGT--GTCAATGTAAGACCTGTCTGGGACATGGCATC
34422622 AACTTAGATG
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 34 0.33
44 1 0.01
45 1 0.01
46 3 0.03
47 4 0.04
48 30 0.29
49 31 0.30
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (44 bp):
GTGTGTCAATGTAAGACCTGTCTGGGACATGGCATCGACTAGAA
Found at i:34422616 original size:97 final size:92
Alignment explanation
Indices: 34422450--34422621 Score: 213
Period size: 97 Copynumber: 1.8 Consensus size: 92
34422440 TGATGTGTGT
* * *
34422450 GTCAATGTAAGACCTGTCTGGGACATGGCATCGCTTGAAGTGTGTTAGTGTAAGACCTGTCTAGG
1 GTCAATGTAAGACCTGTCTGGGACATGGCATCGCTCGAAGTGTGTCAATGTAAGACCTGTCTAGG
34422515 ACATGGCATCGACACAGATAAGTGAGA
66 ACATGGCATCGACACAGATAAGTGAGA
* * *
34422542 GTCATTGTAAGACCTG-CTGGGACATGGCATCGGCCTCGATGTATGTAAGTCAATGTAAGACTTG
1 GTCAATGTAAGACCTGTCTGGGACATGGCATC-G-CTCGAAG--TGT--GTCAATGTAAGACCTG
34422606 TCT-GAGACATGGCATC
60 TCTAG-GACATGGCATC
34422622 AACTTAGATG
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
91 15 0.22
92 16 0.24
93 5 0.07
95 3 0.04
96 1 0.01
97 27 0.40
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (92 bp):
GTCAATGTAAGACCTGTCTGGGACATGGCATCGCTCGAAGTGTGTCAATGTAAGACCTGTCTAGG
ACATGGCATCGACACAGATAAGTGAGA
Found at i:34422632 original size:49 final size:48
Alignment explanation
Indices: 34422541--34422633 Score: 114
Period size: 49 Copynumber: 1.9 Consensus size: 48
34422531 GATAAGTGAG
* * ** *
34422541 AGTCATTGTAAGACCTGCTGGGACATGGCATCGGCCTCGATGTATGTA
1 AGTCAATGTAAGACCTGCTGAGACATGGCATCAACCTAGATGTATGTA
* *
34422589 AGTCAATGTAAGACTTGTCTGAGACATGGCATCAACTTAGATGTA
1 AGTCAATGTAAGACCTG-CTGAGACATGGCATCAACCTAGATGTA
34422634 AGAGCCAGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
48 15 0.41
49 22 0.59
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (48 bp):
AGTCAATGTAAGACCTGCTGAGACATGGCATCAACCTAGATGTATGTA
Found at i:34430417 original size:93 final size:93
Alignment explanation
Indices: 34430270--34430441 Score: 242
Period size: 93 Copynumber: 1.8 Consensus size: 93
34430260 AAGTGAGAGC
* * *
34430270 TAGTGTAAGACCTGTCTGGGACATGGCATTGGACTCAAGATATGCAAGCTAGTGTAAGACCTATC
1 TAGTGTAAGACCTGTCTGGGACATGGCATTCGACACAAGATATGCAAGCCAGTGTAAGACCTATC
34430335 TAGGACATGGCATCAGCTTGAGGTTTGT
66 TAGGACATGGCATCAGCTTGAGGTTTGT
34430363 TAGTGTAAGACCTGTCTGGGACATGGCA-TCGACAC-AGATAAGTG-AGAGCCAGTGTAAGACCT
1 TAGTGTAAGACCTGTCTGGGACATGGCATTCGACACAAGAT-A-TGCA-AGCCAGTGTAAGACCT
* * *
34430425 GTTTGGGACATGGCATC
63 ATCTAGGACATGGCATC
34430442 GACTTAGATA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
91 4 0.06
92 7 0.10
93 59 0.84
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (93 bp):
TAGTGTAAGACCTGTCTGGGACATGGCATTCGACACAAGATATGCAAGCCAGTGTAAGACCTATC
TAGGACATGGCATCAGCTTGAGGTTTGT
Found at i:34430424 original size:49 final size:48
Alignment explanation
Indices: 34430225--34430490 Score: 208
Period size: 49 Copynumber: 5.6 Consensus size: 48
34430215 TGTGTGTCAA
* * * *
34430225 TGTAAGACCTGTCTGGGACACGACATCTA-AAAGATAAGTGAGAGCTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACAGAT-AGTGAGAGCTAG
* *
34430273 TGTAAGACCTGTCTGGGACATGGCATTGGACTCAAGATA-TGCA-AGCTAG
1 TGTAAGACCTGTCTGGGACATGGCA-TCGACAC-AGATAGTG-AGAGCTAG
* * * * *** *
34430322 TGTAAGACCTATCTAGGACATGGCATC-A-GC--TTGAG-GTTTGTTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACAGAT-AGTGAGAGCTAG
*
34430366 TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACAGAT-AGTGAGAGCTAG
* ** *
34430415 TGTAAGACCTGTTTGGGACATGGCATCGACTTAGATA-TGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAGTGAGAGCTAG
* * *
34430462 TGTAAGACTATGTTTGGAACATGGCATCG
1 TGTAAGAC-CTGTCTGGGACATGGCATCG
34430491 GCATTGTACC
Statistics
Matches: 176, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 31 0.18
45 1 0.01
46 2 0.01
47 19 0.11
48 46 0.26
49 70 0.40
50 2 0.01
51 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAGTGAGAGCTAG
Found at i:34432229 original size:25 final size:25
Alignment explanation
Indices: 34432195--34432242 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
34432185 TTAATTATGG
34432195 ATTAGTGCTTGATTATGGAAGATGA
1 ATTAGTGCTTGATTATGGAAGATGA
34432220 ATTAGTGCTTGATTATGGAAGAT
1 ATTAGTGCTTGATTATGGAAGAT
34432243 TCCACTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (25 bp):
ATTAGTGCTTGATTATGGAAGATGA
Found at i:34434663 original size:27 final size:27
Alignment explanation
Indices: 34434610--34434734 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
34434600 GAATAAATCA
* * * **
34434610 CCTTTGTGACATACTTTGTATATATCG
1 CCTTTGTGGCGTACTCTGTATGGATCG
* * *
34434637 TCTTTGTAGCGTACTCTGCATGGATCG
1 CCTTTGTGGCGTACTCTGTATGGATCG
* *
34434664 CCTTTATGGCGTACTCTGTATGGATCA
1 CCTTTGTGGCGTACTCTGTATGGATCG
* *
34434691 CCTTTGTGGCATACTCTATATGGATCG
1 CCTTTGTGGCGTACTCTGTATGGATCG
**
34434718 ATTTTGTGGCGTACTCT
1 CCTTTGTGGCGTACTCT
34434735 AATTAGATAG
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (27 bp):
CCTTTGTGGCGTACTCTGTATGGATCG
Found at i:34434749 original size:27 final size:27
Alignment explanation
Indices: 34434693--34434749 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
34434683 ATGGATCACC
* *
34434693 TTTGTGGCATACTCTATATGGATCGAT
1 TTTGTGGCATACTCTATATAGATAGAT
* *
34434720 TTTGTGGCGTACTCTA-ATTAGATAGTT
1 TTTGTGGCATACTCTATA-TAGATAGAT
34434747 TTT
1 TTT
34434750 TAGTGTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (27 bp):
TTTGTGGCATACTCTATATAGATAGAT
Found at i:34443664 original size:6 final size:6
Alignment explanation
Indices: 34443655--34443680 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34443645 CCTGACTATG
34443655 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
34443681 CCTACAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:34448389 original size:16 final size:16
Alignment explanation
Indices: 34448368--34448400 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34448358 TCCTATTTCG
34448368 AGTTTGAGTTGACGAA
1 AGTTTGAGTTGACGAA
*
34448384 AGTTTGAGTTGGCGAA
1 AGTTTGAGTTGACGAA
34448400 A
1 A
34448401 AAGCTTTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (16 bp):
AGTTTGAGTTGACGAA
Found at i:34450667 original size:35 final size:35
Alignment explanation
Indices: 34450622--34450764 Score: 214
Period size: 35 Copynumber: 4.1 Consensus size: 35
34450612 AAGATTGTAT
34450622 ATCATATCTAAGATTGCAATCATATCTAAGATTGC
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGC
* **
34450657 GTCATATCTAAGATTGCAATCATATCTAAGATTTT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGC
* *
34450692 ATCATAACTAAGATTGCAATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGC
* *
34450727 ATCATATCTAAGATTCCATATCACATCTAAGATTGC
1 ATCATATCTAAGATTGCA-ATCATATCTAAGATTGC
34450763 AT
1 AT
34450765 ATCATTGAAG
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 80 0.82
36 17 0.18
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (35 bp):
ATCATATCTAAGATTGCAATCATATCTAAGATTGC
Found at i:34450708 original size:70 final size:73
Alignment explanation
Indices: 34450609--34450769 Score: 247
Period size: 70 Copynumber: 2.2 Consensus size: 73
34450599 AATCATATCT
* * *
34450609 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGCGTCATATCTAAGATTGC
1 TCTAAGATTGTATATCATAACTAAGATTGCAATCATATCTAAGATTGCATCATATCTAAGATTCC
*
34450674 A-ATCATA
66 ATATCACA
*
34450681 TCTAAGATT-T-TATCATAACTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTCC
1 TCTAAGATTGTATATCATAACTAAGATTGCAATCATATCTAAGATTGCATCATATCTAAGATTCC
34450744 ATATCACA
66 ATATCACA
*
34450752 TCTAAGATTGCATATCAT
1 TCTAAGATTGTATATCAT
34450770 TGAAGATTAT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
70 50 0.62
71 15 0.19
72 9 0.11
73 6 0.08
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (73 bp):
TCTAAGATTGTATATCATAACTAAGATTGCAATCATATCTAAGATTGCATCATATCTAAGATTCC
ATATCACA
Found at i:34457475 original size:31 final size:31
Alignment explanation
Indices: 34457437--34457498 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
34457427 AAGTTTGAGT
34457437 TAGTGGAAAGTAAGAGAGGCCAATGATCCGA
1 TAGTGGAAAGTAAGAGAGGCCAATGATCCGA
34457468 TAGTGGAAAGTAAGAGAGGCCAATGATCCGA
1 TAGTGGAAAGTAAGAGAGGCCAATGATCCGA
34457499 CTTAATACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (31 bp):
TAGTGGAAAGTAAGAGAGGCCAATGATCCGA
Found at i:34459368 original size:42 final size:42
Alignment explanation
Indices: 34459309--34459397 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
34459299 AGGCGAGTCT
*
34459309 CTGTTCGCTTCAACCGTAGACTCAGAAGTTTTGAATTTACAA
1 CTGTTCGCCTCAACCGTAGACTCAGAAGTTTTGAATTTACAA
*
34459351 CTGTTCGCCTCAACCGTAGACTCATAAGTTTTGAATTTACAA
1 CTGTTCGCCTCAACCGTAGACTCAGAAGTTTTGAATTTACAA
*
34459393 ATGTT
1 CTGTT
34459398 GTCAACGTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (42 bp):
CTGTTCGCCTCAACCGTAGACTCAGAAGTTTTGAATTTACAA
Found at i:34461947 original size:19 final size:19
Alignment explanation
Indices: 34461923--34461960 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34461913 ACGACATCCC
34461923 TTTTTACAA-TATTCATTTT
1 TTTTTA-AACTATTCATTTT
*
34461942 TTTTTAAACTTTTCATTTT
1 TTTTTAAACTATTCATTTT
34461961 AAACTATGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTAAACTATTCATTTT
Found at i:34468707 original size:9 final size:9
Alignment explanation
Indices: 34468684--34468723 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
34468674 AATCGGTTTG
34468684 AAATTAAT-
1 AAATTAATC
*
34468692 TAATTAATC
1 AAATTAATC
34468701 AAATTAATC
1 AAATTAATC
34468710 AAATTAATC
1 AAATTAATC
*
34468719 GAATT
1 AAATT
34468724 TCATAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (9 bp):
AAATTAATC
Found at i:34475323 original size:42 final size:42
Alignment explanation
Indices: 34475264--34475344 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
34475254 CAAAATAGCC
*
34475264 CGCAGTTTGAATAATCAAAATTGGGCAAATTGATTTAACGAA
1 CGCAGTTTGAATAATCAAAATTGGGAAAATTGATTTAACGAA
34475306 CGCAGTTTGAATAATCAAAATTGGGAAAATTGATTTAAC
1 CGCAGTTTGAATAATCAAAATTGGGAAAATTGATTTAAC
34475345 AAACTATTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (42 bp):
CGCAGTTTGAATAATCAAAATTGGGAAAATTGATTTAACGAA
Found at i:34478171 original size:11 final size:11
Alignment explanation
Indices: 34478152--34478181 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
34478142 CCTTTATGGA
*
34478152 ATAAATATCAC
1 ATAATTATCAC
34478163 ATAATTATCAC
1 ATAATTATCAC
34478174 ATAATTAT
1 ATAATTAT
34478182 TGCAATCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATTATCAC
Found at i:34483430 original size:21 final size:21
Alignment explanation
Indices: 34483387--34483431 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
34483377 AACTAATTAA
**
34483387 AAAATATAAAAGTAAATTCTT
1 AAAATATAAAAGTAAATAATT
34483408 AAAA-ATAAAAGTATAATAATT
1 AAAATATAAAAGTA-AATAATT
34483429 AAA
1 AAA
34483432 TTCTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATATAAAAGTAAATAATT
Found at i:34487700 original size:28 final size:27
Alignment explanation
Indices: 34487651--34487711 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
34487641 CTTGTAAATT
**
34487651 TTTAAAAAAATTGGTCTATTTTTATAATA
1 TTTAAAAAAATTGACCTATTTTTA-AA-A
*
34487680 TTTAAAAAAA-TGACCTTTTTTTAAAA
1 TTTAAAAAAATTGACCTATTTTTAAAA
34487706 TTTAAA
1 TTTAAA
34487712 CACTGGCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 7 0.24
27 2 0.07
28 10 0.34
29 10 0.34
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (27 bp):
TTTAAAAAAATTGACCTATTTTTAAAA
Found at i:34489427 original size:6 final size:6
Alignment explanation
Indices: 34489416--34489452 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
34489406 TTTTTTTTTC
34489416 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A
34489453 CCTAGAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:34489463 original size:17 final size:18
Alignment explanation
Indices: 34489441--34489482 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
34489431 ATGAAAATGA
34489441 AAATGAAAA-TGACCTAG
1 AAATGAAAACTGACCTAG
34489458 AAATGAAAACTGACCTAG
1 AAATGAAAACTGACCTAG
34489476 AAATGAA
1 AAATGAA
34489483 TCTATGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.17
Consensus pattern (18 bp):
AAATGAAAACTGACCTAG
Found at i:34491790 original size:137 final size:137
Alignment explanation
Indices: 34491544--34491831 Score: 513
Period size: 137 Copynumber: 2.1 Consensus size: 137
34491534 CAAGTCAGCT
*
34491544 CAAGCCCATTCGGGTAACAGTGGTACTGGGCCAGACCCCTTTTCAGATTACAATAAACTAGGCAT
1 CAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGACCCCTTTTCAGATTACAATAAACTAGGCAT
*
34491609 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
66 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAGTAA
34491674 ACATATG
131 ACATATG
* * * * *
34491681 CAAGCTCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCATATTACAATAAACTGGGCCT
1 CAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGACCCCTTTTCAGATTACAATAAACTAGGCAT
34491746 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAGTAA
66 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAGTAA
34491811 ACATATG
131 ACATATG
34491818 CAAGCCCATTTGGG
1 CAAGCCCATTTGGG
34491832 GAGACTACTC
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 143 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
CAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGACCCCTTTTCAGATTACAATAAACTAGGCAT
TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAGTAA
ACATATG
Found at i:34492140 original size:26 final size:27
Alignment explanation
Indices: 34492111--34492171 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
34492101 GGGTATTTCG
* *
34492111 GTAATTTTGC-ACTTAGGGGTATAACA
1 GTAATTTTCCAACATAGGGGTATAACA
* *
34492137 GTAATTTTCCATACATAGGGGTATTATA
1 GTAATTTTCCA-ACATAGGGGTATAACA
34492165 GTAATTT
1 GTAATTT
34492172 AGCTGCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.31
28 20 0.69
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GTAATTTTCCAACATAGGGGTATAACA
Found at i:34493656 original size:26 final size:26
Alignment explanation
Indices: 34493620--34493781 Score: 290
Period size: 26 Copynumber: 6.2 Consensus size: 26
34493610 CATGAAATTC
34493620 TTATCATGAAACATTTACCTAAACC-A
1 TTATCATGAAACATTTACCT-AACCTA
*
34493646 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
34493672 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
34493698 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
34493724 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
34493750 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
34493776 TTATCA
1 TTATCA
34493782 ATTTGTATCA
Statistics
Matches: 132, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
25 4 0.03
26 128 0.97
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:34496295 original size:17 final size:18
Alignment explanation
Indices: 34496258--34496292 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34496248 TAAAATTTAA
*
34496258 ATAAAATTTTTAATTTTT
1 ATAAAATTTTCAATTTTT
34496276 ATAAAATTTTCAATTTT
1 ATAAAATTTTCAATTTT
34496293 ATATTATTTT
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAAAATTTTCAATTTTT
Found at i:34496761 original size:21 final size:21
Alignment explanation
Indices: 34496737--34496799 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
34496727 GAACATCACC
34496737 CTGTTCAAAAATGTAAACACA
1 CTGTTCAAAAATGTAAACACA
34496758 CTGTTCAAAAATGTAAACACA
1 CTGTTCAAAAATGTAAACACA
34496779 CTGTTCAAAAATGTAAACACA
1 CTGTTCAAAAATGTAAACACA
34496800 GAAATGATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.24
Consensus pattern (21 bp):
CTGTTCAAAAATGTAAACACA
Found at i:34500619 original size:16 final size:17
Alignment explanation
Indices: 34500573--34500620 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
34500563 AAATTAACCA
34500573 AAACCCCTAGCCCAACT
1 AAACCCCTAGCCCAACT
*
34500590 AAACCCCTAACCCAACT
1 AAACCCCTAGCCCAACT
34500607 AAA-CCCTAGCCCAA
1 AAACCCCTAGCCCAA
34500621 AACAAATCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.40, C:0.46, G:0.04, T:0.10
Consensus pattern (17 bp):
AAACCCCTAGCCCAACT
Found at i:34501018 original size:16 final size:16
Alignment explanation
Indices: 34500997--34501027 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34500987 CCCGAATTTG
*
34500997 TTTCTTTTTTCTTTTA
1 TTTCTTCTTTCTTTTA
34501013 TTTCTTCTTTCTTTT
1 TTTCTTCTTTCTTTT
34501028 CTATTCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTCTTTCTTTTA
Found at i:34501143 original size:10 final size:10
Alignment explanation
Indices: 34501128--34501161 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
34501118 CCACCGTGTA
34501128 CGGTGGCCGG
1 CGGTGGCCGG
34501138 CGGTGGCCGG
1 CGGTGGCCGG
34501148 CGGTGGCCGG
1 CGGTGGCCGG
34501158 CGGT
1 CGGT
34501162 AGCAATCGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.00, C:0.29, G:0.59, T:0.12
Consensus pattern (10 bp):
CGGTGGCCGG
Found at i:34501903 original size:3 final size:3
Alignment explanation
Indices: 34501895--34502146 Score: 99
Period size: 3 Copynumber: 86.0 Consensus size: 3
34501885 TATTCTATAC
* * * * *
34501895 TAT TAT TAT T-G TAT CTAT TTT TAT TAC TAT T-T TAT CTAT TCT TTT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * *
34501940 TA- TAT TAG TAT TAT CAT CAT TAT TAT CAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
34501986 TAT TAT TA- TAT T-C TATT TAG TAT TA- TATT TAA TAT TA- TAT T-T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * *
34502028 CTAT TAT TA- TATT TAT TAT TAT CTAT TAC T-T TAT TTT TAT TTT TAT
1 -TAT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * *
34502074 T-T TAA TAC TAT TA- TAT TA- TAT TCACCT T-T TA- TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-A--T TAT TAT TAT TAT TAT TAT
*
34502117 TAT TA- TAT TAT T-T TCAT TAC TAT TACT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TA-T TAT
34502147 CTTTACTTTT
Statistics
Matches: 185, Mismatches: 34, Indels: 60
0.66 0.12 0.22
Matches are distributed among these distances:
2 32 0.17
3 129 0.70
4 22 0.12
6 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:34502066 original size:24 final size:22
Alignment explanation
Indices: 34501958--34502068 Score: 98
Period size: 20 Copynumber: 5.3 Consensus size: 22
34501948 TATTATCATC
34501958 ATTATTATC-ATTATTATA-TT
1 ATTATTATCTATTATTATATTT
34501978 ATTATTAT-TATTATTATATTCT
1 ATTATTATCTATTATTATATT-T
*
34502000 ATTTAGTAT-TA-TATT-TAATATT
1 A-TTATTATCTATTATTAT-AT-TT
34502022 A-TATT-TCTATTATTATATTT
1 ATTATTATCTATTATTATATTT
34502042 ATTATTATCTATTACTT-TATTT
1 ATTATTATCTATTA-TTATATTT
34502064 -TTATT
1 ATTATT
34502069 TTTATTTTAA
Statistics
Matches: 77, Mismatches: 2, Indels: 23
0.75 0.02 0.23
Matches are distributed among these distances:
19 1 0.01
20 25 0.32
21 17 0.22
22 23 0.30
23 11 0.14
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.63
Consensus pattern (22 bp):
ATTATTATCTATTATTATATTT
Found at i:34502730 original size:23 final size:23
Alignment explanation
Indices: 34502682--34502735 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
34502672 ATATATTTTT
34502682 ACTATCTTATGTATATACTTCAAAC
1 ACTAT-TTATGTATATA-TTCAAAC
*
34502707 ACTATTTATAGTATAT-TTCTAAC
1 ACTATTTAT-GTATATATTCAAAC
34502730 ACTATT
1 ACTATT
34502736 ACTATTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 12 0.44
24 4 0.15
25 11 0.41
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (23 bp):
ACTATTTATGTATATATTCAAAC
Found at i:34502814 original size:11 final size:11
Alignment explanation
Indices: 34502798--34502832 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
34502788 ATATGTATAT
34502798 TCATTGTGTTC
1 TCATTGTGTTC
*
34502809 TCATTGTGTTG
1 TCATTGTGTTC
34502820 TCATTGTGTTC
1 TCATTGTGTTC
34502831 TC
1 TC
34502833 GTATTTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.09, C:0.17, G:0.20, T:0.54
Consensus pattern (11 bp):
TCATTGTGTTC
Found at i:34518280 original size:79 final size:81
Alignment explanation
Indices: 34518167--34518320 Score: 276
Period size: 79 Copynumber: 1.9 Consensus size: 81
34518157 TCAATTTATG
*
34518167 TTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAGAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
34518232 AATTTCTGTTTCTGCT
66 AATTTCTGTTTCTGCT
*
34518248 TTTC-AAA-AATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 TTTCAAAAGAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
34518311 AATTTCTGTT
66 AATTTCTGTT
34518321 CTTCCAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
79 64 0.90
80 3 0.04
81 4 0.06
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (81 bp):
TTTCAAAAGAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTGTTTCTGCT
Found at i:34518395 original size:178 final size:183
Alignment explanation
Indices: 34518140--34518471 Score: 437
Period size: 178 Copynumber: 1.8 Consensus size: 183
34518130 ACTGAGGTAT
* *
34518140 TTCCAATTTCTGTTCTTTCAATTTATGTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTCCAATTTCTGTTCTTTCAATTCATGTTTCAAAAGAATCAACTCATATTGCGAGAAGTGAGTTG
* *
34518205 AGCCTCAGGACACGCTGAGGTA-AT-TTCAATTTCTG-TTTCTGCTTTTCAAAAATCAACCCATA
66 AGCCTCAGGACACGCTGA-G-ACATCTTCAATTTATGTTTTATGCTTTTCAAAAATCAACCCATA
*
34518267 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTC
129 ATGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTC
* *
34518322 TTCCAATTTCTG-T-TTT-AATTCATGATTTC-AAA-AATCAACTTATATTGTGAGAAGTGAGTT
1 TTCCAATTTCTGTTCTTTCAATTCATG-TTTCAAAAGAATCAACTCATATTGCGAGAAGTGAGTT
* *
34518382 GAGCTTCAGGACACGCTGAGACATCTTCAATTTATGTTTTTAATTTATGTTTTTCAAAAATCAAC
65 GAGCCTCAGGACACGCTGAGACATCTTCAATTTATG----T--TTTATGCTTTTCAAAAATCAAC
*
34518447 TCATAATGCGAGAGGTGAGTTGAGC
124 CCATAATGCGAGAGGTGAGTTGAGC
34518472 TTTTTAATTT
Statistics
Matches: 130, Mismatches: 10, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
176 1 0.01
177 3 0.02
178 53 0.41
179 10 0.08
180 7 0.05
181 1 0.01
182 12 0.09
185 43 0.33
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (183 bp):
TTCCAATTTCTGTTCTTTCAATTCATGTTTCAAAAGAATCAACTCATATTGCGAGAAGTGAGTTG
AGCCTCAGGACACGCTGAGACATCTTCAATTTATGTTTTATGCTTTTCAAAAATCAACCCATAAT
GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTC
Found at i:34518428 original size:13 final size:13
Alignment explanation
Indices: 34518410--34518435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34518400 AGACATCTTC
34518410 AATTTATGTTTTT
1 AATTTATGTTTTT
34518423 AATTTATGTTTTT
1 AATTTATGTTTTT
34518436 CAAAAATCAA
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:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (13 bp):
AATTTATGTTTTT
Found at i:34518500 original size:54 final size:54
Alignment explanation
Indices: 34518418--34518528 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
34518408 TCAATTTATG
34518418 TTTTTAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGC
1 TTTTTAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGC
* *
34518472 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTTAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGC
34518526 TTT
1 TTT
34518529 GGCTCACACG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (54 bp):
TTTTTAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGC
Found at i:34518565 original size:13 final size:13
Alignment explanation
Indices: 34518547--34518576 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34518537 CGCTGAGGTA
34518547 TTTTCAATTTCTG
1 TTTTCAATTTCTG
*
34518560 TTTTCAGTTTCTG
1 TTTTCAATTTCTG
34518573 TTTT
1 TTTT
34518577 TCAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.10, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:34518601 original size:142 final size:140
Alignment explanation
Indices: 34518347--34518636 Score: 420
Period size: 142 Copynumber: 2.1 Consensus size: 140
34518337 TAATTCATGA
* *
34518347 TTTCAAAAATCAACTTATATTGTGAGAAGTGAGTTGAGCTTCAGGACACGCTGAGACATCTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGGACACGCTGAGACATCTTCAA
* * *
34518412 TTTATGTTTTTAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCTTTTT
66 TTTATGTTTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGACTTGAGCCTTTT
34518477 AATTTCTGTT
131 AATTTCTGTT
* * ** *
34518487 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-TGGCTCACACGCTGAGGTATTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGG---ACACGCTGAGACATCTT
* * * *
34518551 CAATTTCTGTTTTCAGTTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGACTTGAGCCT
63 CAATTTATGTTTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGACTTGAGCCT
34518616 TTTAATTTCTGTT
128 TTTAATTTCTGTT
34518629 TTTCAAAA
1 TTTCAAAA
34518637 TCTACTTTTC
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
139 2 0.02
140 38 0.29
142 93 0.70
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (140 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGGACACGCTGAGACATCTTCAA
TTTATGTTTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGACTTGAGCCTTTT
AATTTCTGTT
Found at i:34518770 original size:169 final size:167
Alignment explanation
Indices: 34518487--34518806 Score: 455
Period size: 169 Copynumber: 1.9 Consensus size: 167
34518477 AATTTCTGTT
* ** * *
34518487 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTGGCTCACACGCTGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCTCAGG--CACACGCTGAGGTAATTTA
* ***
34518552 AATTTCTGTTTTCAGTTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGACTTGAG-CCT
64 AATTTCTGTTTTCAATTTCTACCTTTCAAAAATCAACTCATATTGCGAGAGGTGACTTGAGCCCT
* *
34518616 TTTAATTTCTGTTTTTCAAAATCTACTTTTCAAATCAAG
129 TTCAATTTATGTTTTTCAAAATCTACTTTTCAAATCAAG
34518655 TTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTA
1 TTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAG-CTCAGGCACACGCTGAGGTAATTTA
* *
34518719 AATTTTTGTTTTTTCAATTTCTACCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
64 AATTTCTG--TTTTCAATTTCTACCTTTCAAAAATCAACTCATATTGCGAGAGGTGACTTGAGCC
34518784 CTTTCAATTTATGTTTTTCAAAA
127 CTTTCAATTTATGTTTTTCAAAA
34518807 AAAAAAATCA
Statistics
Matches: 134, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
167 23 0.17
168 4 0.03
169 81 0.60
170 26 0.19
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (167 bp):
TTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCTCAGGCACACGCTGAGGTAATTTAAA
TTTCTGTTTTCAATTTCTACCTTTCAAAAATCAACTCATATTGCGAGAGGTGACTTGAGCCCTTT
CAATTTATGTTTTTCAAAATCTACTTTTCAAATCAAG
Found at i:34518873 original size:55 final size:55
Alignment explanation
Indices: 34518744--34518921 Score: 250
Period size: 61 Copynumber: 3.1 Consensus size: 55
34518734 AATTTCTACC
* *
34518744 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTCAATTTATGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
*
34518799 TTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCATGTT
1 TTTC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
* *
34518860 TTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCCTTTAATTTC-TGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
34518914 TTTCAAAA
1 TTTCAAAA
34518922 TCTGATTTTA
Statistics
Matches: 111, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
54 12 0.11
55 47 0.42
61 52 0.47
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (55 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
Found at i:34519620 original size:17 final size:17
Alignment explanation
Indices: 34519598--34519634 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
34519588 AAATTAACCA
*
34519598 AAACCCCTAGCCCAACT
1 AAACCCCTAACCCAACT
34519615 AAACCCCTAACCCAACT
1 AAACCCCTAACCCAACT
34519632 AAA
1 AAA
34519635 ACCTAGCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.43, G:0.03, T:0.11
Consensus pattern (17 bp):
AAACCCCTAACCCAACT
Found at i:34521599 original size:40 final size:40
Alignment explanation
Indices: 34521397--34521604 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
34521387 TGAATGATAC
* * *
34521397 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
34521437 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
34521477 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* ** *
34521517 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * *
34521557 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
34521597 CC-GGCTAA
1 CCGGGCTAA
34521605 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.04
40 137 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:34529702 original size:40 final size:40
Alignment explanation
Indices: 34529500--34529707 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
34529490 TGAATGATAC
* * *
34529500 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
34529540 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
34529580 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* ** *
34529620 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * *
34529660 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
34529700 CC-GGCTAA
1 CCGGGCTAA
34529708 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.04
40 137 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:34531448 original size:16 final size:16
Alignment explanation
Indices: 34531427--34531457 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34531417 CCCGAATTTG
*
34531427 TTTCTTTTTTCTTTTA
1 TTTCTTCTTTCTTTTA
34531443 TTTCTTCTTTCTTTT
1 TTTCTTCTTTCTTTT
34531458 CTATTCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTCTTTCTTTTA
Found at i:34532314 original size:3 final size:3
Alignment explanation
Indices: 34532296--34532574 Score: 142
Period size: 3 Copynumber: 94.0 Consensus size: 3
34532286 TTTAACACCA
* * * *
34532296 TAT TAT ATAC TAT TAT TAT T-G TAT CTAT TTT TAT TAC TAT T-T TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * * *
34532341 CTAT TCT TTT TA- TAT TAG TAT TAT CAT CAT TAT TAT CAT TAT TA-
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34532385 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* *
34532430 GTAG TAT TAT CT-T TAA TAT TA- TAT T-T CTAT TAT TA- TATT TAT TAT
1 -TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT
* * * * *
34532475 TAT CTAT TAC T-T TAT TTT TAT TTT TAT T-T TAA TAC TAT TA- TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
34532518 TA- TAT TCACCT T-T TA- TAT TTT TAT TAT TAT TA- TAT TAT T-T TCAT
1 TAT TAT T-A--T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
*
34532562 TAC TAT TACT TAT
1 TAT TAT TA-T TAT
34532575 CTTTACTTAT
Statistics
Matches: 211, Mismatches: 34, Indels: 62
0.69 0.11 0.20
Matches are distributed among these distances:
2 30 0.14
3 153 0.73
4 26 0.12
6 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:34533072 original size:11 final size:11
Alignment explanation
Indices: 34533048--34533078 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
34533038 CTATTATATA
34533048 TATATATATATG
1 TATATAT-TATG
34533060 TATATATTATG
1 TATATATTATG
34533071 TATATATT
1 TATATATT
34533079 TTAACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:34533152 original size:23 final size:24
Alignment explanation
Indices: 34533104--34533156 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
34533094 ATATATTTTT
34533104 ACTATCTTATGTATATACTTCAAAC
1 ACTATCTTATGTATATA-TTCAAAC
*
34533129 ACTATC-TATAGTATAT-TTCTAAC
1 ACTATCTTAT-GTATATATTCAAAC
34533152 ACTAT
1 ACTAT
34533157 TACTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 11 0.42
24 3 0.12
25 12 0.46
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.42
Consensus pattern (24 bp):
ACTATCTTATGTATATATTCAAAC
Found at i:34533236 original size:11 final size:11
Alignment explanation
Indices: 34533220--34533254 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
34533210 ATATGTATAT
34533220 TCATTGTGTTC
1 TCATTGTGTTC
*
34533231 TCATTGTGTTG
1 TCATTGTGTTC
34533242 TCATTGTGTTC
1 TCATTGTGTTC
34533253 TC
1 TC
34533255 GTATTTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.09, C:0.17, G:0.20, T:0.54
Consensus pattern (11 bp):
TCATTGTGTTC
Found at i:34534647 original size:16 final size:16
Alignment explanation
Indices: 34534628--34534662 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
34534618 AAAATATGAT
34534628 GAAAAGAAAAGGGGAA
1 GAAAAGAAAAGGGGAA
*
34534644 GAAAAGAAAGGGGGAA
1 GAAAAGAAAAGGGGAA
34534660 GAA
1 GAA
34534663 TAAAAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (16 bp):
GAAAAGAAAAGGGGAA
Done.