Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 23 of 433
Found at i:6189852 original size:14 final size:15
Alignment explanation
Indices: 6189833--6189861 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6189823 TTATGGAGTA
6189833 TCTTGC-TGCTCTAT
1 TCTTGCATGCTCTAT
6189847 TCTTGCATGCTCTAT
1 TCTTGCATGCTCTAT
6189862 GTGTGATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.10, C:0.28, G:0.14, T:0.48
Consensus pattern (15 bp):
TCTTGCATGCTCTAT
Found at i:6201640 original size:13 final size:13
Alignment explanation
Indices: 6201622--6201651 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6201612 TTATTCTTTT
6201622 CATGTCACATTGC
1 CATGTCACATTGC
*
6201635 CATGTCACGTTGC
1 CATGTCACATTGC
6201648 CATG
1 CATG
6201652 GTATCTTTCA
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:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (13 bp):
CATGTCACATTGC
Found at i:6201651 original size:59 final size:59
Alignment explanation
Indices: 6201578--6201697 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 59
6201568 ATTCATTTTC
* * * *
6201578 TGTCATGTTGCCATGGTATCTTTCAATCATGGTCTTATTCTTTTCATGTCACATTGCCA
1 TGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCA
**
6201637 TGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCA
1 TGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCA
6201696 TG
1 TG
6201698 GTATCTTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (59 bp):
TGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCA
Found at i:6201695 original size:46 final size:46
Alignment explanation
Indices: 6201643--6201945 Score: 516
Period size: 46 Copynumber: 6.6 Consensus size: 46
6201633 GCCATGTCAC
6201643 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
6201689 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * *
6201735 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
6201781 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
6201827 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * *
6201873 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
6201919 GTTGCCATGGTATCTTTCAACCATGGT
1 GTTGCCATGGTATCTTTCAACCATGGT
6201946 ATCAGAGAGC
Statistics
Matches: 240, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 240 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:6201883 original size:138 final size:138
Alignment explanation
Indices: 6201635--6201945 Score: 622
Period size: 138 Copynumber: 2.3 Consensus size: 138
6201625 GTCACATTGC
6201635 CATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGT
1 CATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGT
6201700 ATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
66 ATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
6201765 ATTCTTTT
131 ATTCTTTT
6201773 CATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGT
1 CATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGT
6201838 ATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
66 ATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
6201903 ATTCTTTT
131 ATTCTTTT
6201911 CATGTCACGTTGCCATGGTATCTTTCAACCATGGT
1 CATGTCACGTTGCCATGGTATCTTTCAACCATGGT
6201946 ATCAGAGAGC
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 173 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (138 bp):
CATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGT
ATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
ATTCTTTT
Found at i:6204023 original size:15 final size:15
Alignment explanation
Indices: 6204003--6204040 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6203993 CAATTTTCCC
*
6204003 TTTTTCCTTCTTTCT
1 TTTTTCCTTCCTTCT
6204018 TTTTTCCTTCCTTCT
1 TTTTTCCTTCCTTCT
6204033 TTCTTTCC
1 TT-TTTCC
6204041 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTCCTTCCTTCT
Found at i:6204100 original size:16 final size:17
Alignment explanation
Indices: 6204069--6204114 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
6204059 TCATCCTTTC
*
6204069 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
6204086 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
* *
6204102 TTACTTTATATAT
1 TTTCTTTTTATAT
6204115 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:6204103 original size:10 final size:10
Alignment explanation
Indices: 6204065--6204102 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
6204055 CGTTTCATCC
6204065 TTTCTTTCTT
1 TTTCTTTCTT
6204075 TTTCTATTCTT
1 TTTCT-TTCTT
6204086 TTTCTTT-TT
1 TTTCTTTCTT
6204095 ATTTCTTT
1 -TTTCTTT
6204103 TACTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:6204115 original size:2 final size:2
Alignment explanation
Indices: 6204108--6204136 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6204098 TCTTTTACTT
6204108 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6204137 ATAACTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6206347 original size:26 final size:26
Alignment explanation
Indices: 6206318--6206369 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
6206308 AACACGTTGG
6206318 CAAACAAATATAT-AAATATAAATAAA
1 CAAACAAATATATAAAATA-AAATAAA
* **
6206344 CAAATATTTATATAAAATAAAATAAA
1 CAAACAAATATATAAAATAAAATAAA
6206370 ATAAAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (26 bp):
CAAACAAATATATAAAATAAAATAAA
Found at i:6206365 original size:5 final size:5
Alignment explanation
Indices: 6206355--6206384 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
6206345 AAATATTTAT
6206355 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
6206385 TATTTGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:6212388 original size:31 final size:31
Alignment explanation
Indices: 6212313--6212391 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
6212303 TTAATATACT
* *
6212313 ATTTGGTATCCT-AATTTGGTTTCAAAGTTCA
1 ATTTGGTA-CCTAAATTTGGATACAAAGTTCA
** *
6212344 ATTTGGTGTCTAAATTTGGATACAAGGTTCA
1 ATTTGGTACCTAAATTTGGATACAAAGTTCA
*
6212375 CTTTGGTACCTAAATTT
1 ATTTGGTACCTAAATTT
6212392 TTTTTAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 2 0.05
31 37 0.95
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.43
Consensus pattern (31 bp):
ATTTGGTACCTAAATTTGGATACAAAGTTCA
Found at i:6212546 original size:18 final size:18
Alignment explanation
Indices: 6212523--6212573 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 18
6212513 TTCAAACAAA
6212523 ATAAAACATTAAAAAAT-T
1 ATAAAA-ATTAAAAAATAT
6212541 AT-AAAATTAAAAAATAT
1 ATAAAAATTAAAAAATAT
6212558 ATTAAAAATTATAAAA
1 A-TAAAAATTA-AAAA
6212574 CTTGGTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.34
17 5 0.17
18 3 0.10
19 7 0.24
20 4 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAAATTAAAAAATAT
Found at i:6216993 original size:12 final size:12
Alignment explanation
Indices: 6216978--6217002 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6216968 CTAATCTTAT
6216978 ACTTAATTTTCA
1 ACTTAATTTTCA
6216990 ACTTAATTTTCA
1 ACTTAATTTTCA
6217002 A
1 A
6217003 TTTTGCAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (12 bp):
ACTTAATTTTCA
Found at i:6220753 original size:64 final size:64
Alignment explanation
Indices: 6220652--6220780 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
6220642 CTGCAAATGC
6220652 TATGCATTTATTATGTTGCTGGGACTCCCTATTTTTCTTGAAGTACTTGTGTCTAACACTCATG
1 TATGCATTTATTATGTTGCTGGGACTCCCTATTTTTCTTGAAGTACTTGTGTCTAACACTCATG
6220716 TATGCATTTATTATGTTGCTGGGACTCCCTATTTTTCTTGAAGTACTTGTGTCTAACACTCATG
1 TATGCATTTATTATGTTGCTGGGACTCCCTATTTTTCTTGAAGTACTTGTGTCTAACACTCATG
6220780 T
1 T
6220781 TTGACAAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (64 bp):
TATGCATTTATTATGTTGCTGGGACTCCCTATTTTTCTTGAAGTACTTGTGTCTAACACTCATG
Found at i:6225072 original size:3 final size:3
Alignment explanation
Indices: 6225064--6225101 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6225054 TTGAATTACT
6225064 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6225102 TATTTGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6225347 original size:2 final size:2
Alignment explanation
Indices: 6225340--6225385 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
6225330 ATTCTCTTTT
* * * *
6225340 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA AA TT TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6225382 TA TA
1 TA TA
6225386 ATTCGATTCT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:6239158 original size:25 final size:28
Alignment explanation
Indices: 6239128--6239185 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
6239118 AGGTTCAAGC
*
6239128 GAGCCAAT-TATCGAAAAGCTC-TG-AA
1 GAGCCAATAAATCGAAAAGCTCATGAAA
*
6239153 GAGCCAATAAATTGAAAAGCTCATGAAA
1 GAGCCAATAAATCGAAAAGCTCATGAAA
6239181 GAGCC
1 GAGCC
6239186 TTTAATGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 11 0.39
27 2 0.07
28 7 0.25
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (28 bp):
GAGCCAATAAATCGAAAAGCTCATGAAA
Found at i:6239677 original size:18 final size:18
Alignment explanation
Indices: 6239654--6239690 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6239644 ATCTATCCGG
6239654 ATCTATACGAATAAATTT
1 ATCTATACGAATAAATTT
*
6239672 ATCTATATGAATAAATTT
1 ATCTATACGAATAAATTT
6239690 A
1 A
6239691 ACATCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (18 bp):
ATCTATACGAATAAATTT
Found at i:6249487 original size:53 final size:53
Alignment explanation
Indices: 6249361--6249511 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
6249351 ATAAGTGCGC
* ** *
6249361 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATCATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
6249414 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
* * *
6249467 CCGTATAAGACCAT-GTCTGGGATATGACTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
6249512 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
Found at i:6250965 original size:5 final size:5
Alignment explanation
Indices: 6250919--6250955 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
6250909 CCATTATCTT
6250919 TGGGG TGGGG TGGGG TGGGG TGGGG TGGGG TGGGG TG
1 TGGGG TGGGG TGGGG TGGGG TGGGG TGGGG TGGGG TG
6250956 TGGGGGGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.78, T:0.22
Consensus pattern (5 bp):
TGGGG
Found at i:6251398 original size:38 final size:39
Alignment explanation
Indices: 6251304--6251398 Score: 92
Period size: 38 Copynumber: 2.5 Consensus size: 39
6251294 TTTATAAAAT
* *
6251304 AAGAATATATTG-TTTTAATATATAGTTTTGTTTAACAA
1 AAGAATATATTGTTTTTTATATATAGTTATGTTTAACAA
*
6251342 AATTG-ATATATT-TATTTTTGTATATA-TTAT-TTTAACAA
1 AA--GAATATATTGT-TTTTTATATATAGTTATGTTTAACAA
6251380 GAAGAATATATTGTTTTTT
1 -AAGAATATATTGTTTTTT
6251399 TTTTATGTGC
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
37 1 0.02
38 22 0.47
39 13 0.28
40 11 0.23
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (39 bp):
AAGAATATATTGTTTTTTATATATAGTTATGTTTAACAA
Found at i:6251839 original size:2 final size:2
Alignment explanation
Indices: 6251791--6251821 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6251781 TTCTTCTTGC
6251791 AT AT -T 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
6251822 TAATAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6253709 original size:19 final size:19
Alignment explanation
Indices: 6253685--6253730 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6253675 CTTTCTTTCT
6253685 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
* *
6253704 TTTGCATTGTATTGCATCA
1 TTTGCATTGCATTCCATCA
6253723 TTTGCATT
1 TTTGCATT
6253731 TTATTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:6258160 original size:88 final size:88
Alignment explanation
Indices: 6258011--6258178 Score: 302
Period size: 88 Copynumber: 1.9 Consensus size: 88
6258001 GTTGAAGATG
6258011 CAAGTCTTATCTTCCTGAAGTTATAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
1 CAAGTCTTATCTTCCTGAAGTTATAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
6258076 GGCTATGGAGCAGATTTTAGCCA
66 GGCTATGGAGCAGATTTTAGCCA
*
6258099 CAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGA-TCGAAAATTACAGATCTTATCTCCATGTAT
1 CAAGTCTTATCTTCCTGAAGTTATAGGAAGCAGACT-GAAAATTACAGATCTTATCTCCATGTAT
*
6258163 CGGCTGTGGAGCAGAT
65 CGGCTATGGAGCAGAT
6258179 CAGAAATGGC
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
87 1 0.01
88 76 0.99
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (88 bp):
CAAGTCTTATCTTCCTGAAGTTATAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
GGCTATGGAGCAGATTTTAGCCA
Found at i:6258277 original size:133 final size:133
Alignment explanation
Indices: 6258059--6258523 Score: 806
Period size: 133 Copynumber: 3.5 Consensus size: 133
6258049 AAATTACAGA
*
6258059 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGTA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGCA
6258124 GGAAGCAGA-TCGAAAATTACAGATCTTATCTCCATGTATCGGCTGTGGAGCAGATCAGAAATGG
66 GGAAGCAGACT-GAAAATTACAGATCTTATCTCCATGTATCGGCTGTGGAGCAGATCAGAAATGG
*
6258188 CAAG
130 CGAG
* *
6258192 TCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCCCAAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGCA
* *
6258257 GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTGTGGAGCTGATTAGAAATGGC
66 GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTGTGGAGCAGATCAGAAATGGC
6258322 GAG
131 GAG
* *
6258325 TCTTATCTCCAAGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTCATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGCA
* *
6258390 GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGGAATGGC
66 GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTGTGGAGCAGATCAGAAATGGC
6258455 GAG
131 GAG
* *
6258458 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTAAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGCA
6258523 G
66 G
6258524 ATTTTAGCTA
Statistics
Matches: 313, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
133 312 1.00
134 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (133 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGCA
GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTGTGGAGCAGATCAGAAATGGC
GAG
Found at i:6259786 original size:5 final size:5
Alignment explanation
Indices: 6259776--6259805 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
6259766 AAACAACATT
6259776 TGGGG TGGGG TGGGG TGGGG TGGGG TGGGG
1 TGGGG TGGGG TGGGG TGGGG TGGGG TGGGG
6259806 GAGCGTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.80, T:0.20
Consensus pattern (5 bp):
TGGGG
Found at i:6260242 original size:38 final size:38
Alignment explanation
Indices: 6260147--6260242 Score: 90
Period size: 38 Copynumber: 2.5 Consensus size: 38
6260137 TTTGTAAAAT
* * *
6260147 AAGAATATATTGTTTTAATATATAGTTTTTTTTTAACAA
1 AAGAATATATTGTTTT-TTATATAGTATTATTTTAACAA
*
6260186 AATTG-ATATATT-TATTTTTGTATA-TATTATTTTAACAA
1 AA--GAATATATTGT-TTTTTATATAGTATTATTTTAACAA
6260224 GAAGAATATATTGTTTTTT
1 -AAGAATATATTGTTTTTT
6260243 TTATGTGCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
37 1 0.02
38 24 0.51
39 11 0.23
40 10 0.21
41 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.53
Consensus pattern (38 bp):
AAGAATATATTGTTTTTTATATAGTATTATTTTAACAA
Found at i:6260440 original size:29 final size:28
Alignment explanation
Indices: 6260407--6260472 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 28
6260397 TTGACTTCCT
*
6260407 TTTATTTCATGTAAATATTTTCTCTTAAA
1 TTTATTT-ATGTAAATATATTCTCTTAAA
* *
6260436 TTTA-TTAT-T-TATATATTCTTTTAAA
1 TTTATTTATGTAAATATATTCTCTTAAA
6260461 TTTATTTATGTA
1 TTTATTTATGTA
6260473 TAATTTGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 17 0.55
26 5 0.16
27 3 0.10
28 2 0.06
29 4 0.13
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTATTTATGTAAATATATTCTCTTAAA
Found at i:6260697 original size:2 final size:2
Alignment explanation
Indices: 6260643--6260679 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
6260633 TTCTTCTTGC
6260643 AT AT -T 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 AT AT
6260680 TAATAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6261106 original size:9 final size:8
Alignment explanation
Indices: 6261084--6261108 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6261074 TGTTAGATTT
6261084 CGTTTTTC
1 CGTTTTTC
6261092 CGTTTTTC
1 CGTTTTTC
6261100 CGTTTTTC
1 CGTTTTTC
6261108 C
1 C
6261109 AAATAGCGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.28, G:0.12, T:0.60
Consensus pattern (8 bp):
CGTTTTTC
Found at i:6261733 original size:88 final size:87
Alignment explanation
Indices: 6261619--6261791 Score: 337
Period size: 88 Copynumber: 2.0 Consensus size: 87
6261609 CTAATCAGAT
6261619 AGTTATTCTGATTTTTATATAAAGAGATGGTACAACCAATGATAAAGCAAATCATTAGCATTAGC
1 AGTTATTCTGATTTTTATATAAAGAGATGGTACAACCAATGATAAAGCAAATCATTAGCATTAGC
6261684 ATTAACCCTAACCCACATGCTA
66 ATTAACCCTAACCCACATGCTA
6261706 AGTTATTCTGATTTTTTATATAAAGAGATGGTACAACCAATGATAAAGCAAATCATTAGCATTAG
1 AGTTATTCTGA-TTTTTATATAAAGAGATGGTACAACCAATGATAAAGCAAATCATTAGCATTAG
6261771 CATTAACCCTAACCCACATGC
65 CATTAACCCTAACCCACATGC
6261792 CGTCTCTTCA
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 11 0.13
88 74 0.87
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (87 bp):
AGTTATTCTGATTTTTATATAAAGAGATGGTACAACCAATGATAAAGCAAATCATTAGCATTAGC
ATTAACCCTAACCCACATGCTA
Found at i:6270406 original size:14 final size:14
Alignment explanation
Indices: 6270364--6270411 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 14
6270354 TAATATTATA
6270364 AAAATATAAAAATT
1 AAAATATAAAAATT
*
6270378 AAATTATGTTAAAAATT
1 AAA--AT-ATAAAAATT
6270395 AAAATATAAAAATT
1 AAAATATAAAAATT
6270409 AAA
1 AAA
6270412 TATCAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 14 0.48
15 2 0.07
16 2 0.07
17 11 0.38
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:6273475 original size:19 final size:20
Alignment explanation
Indices: 6273453--6273496 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6273443 TTAAATCTAT
*
6273453 AAAAATTTTA-AAAAAATTA
1 AAAAATCTTATAAAAAATTA
*
6273472 AAAAA-CTTATAAAAAATTG
1 AAAAATCTTATAAAAAATTA
6273491 AAAAAT
1 AAAAAT
6273497 ATAGACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATCTTATAAAAAATTA
Found at i:6273706 original size:15 final size:17
Alignment explanation
Indices: 6273686--6273722 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
6273676 TTGATCTATT
*
6273686 ATTATTTCT-TTTTG-A
1 ATTATTTATATTTTGTA
6273701 ATTATTTATATTTTGTA
1 ATTATTTATATTTTGTA
6273718 ATTAT
1 ATTAT
6273723 CTAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (17 bp):
ATTATTTATATTTTGTA
Found at i:6280077 original size:43 final size:44
Alignment explanation
Indices: 6280016--6280108 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
6280006 TCCTAATTGG
6280016 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
6280059 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
6280103 -AAAATA
1 GAAAATA
6280109 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:6282861 original size:2 final size:2
Alignment explanation
Indices: 6282854--6282881 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6282844 TGGACTAAGG
6282854 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6282882 ACACACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6282886 original size:2 final size:2
Alignment explanation
Indices: 6282881--6282908 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6282871 CTCTCTCTCT
6282881 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6282909 TACAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6306331 original size:69 final size:69
Alignment explanation
Indices: 6306220--6306356 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
6306210 AGACTCTATT
*
6306220 AGCCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACC
1 AGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACC
6306285 TGTC
66 TGTC
6306289 AGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACC
1 AGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACC
6306354 TGT
66 TGT
6306357 TTTTCCTATC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.26
Consensus pattern (69 bp):
AGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACC
TGTC
Found at i:6311399 original size:18 final size:18
Alignment explanation
Indices: 6311373--6311407 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6311363 ATAATAACTT
*
6311373 ATTTAGATGTTTATTATA
1 ATTTAGATGTATATTATA
*
6311391 ATTTGGATGTATATTAT
1 ATTTAGATGTATATTAT
6311408 TAAAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTAGATGTATATTATA
Found at i:6312115 original size:3 final size:3
Alignment explanation
Indices: 6312107--6312152 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6312097 CGGATAGTAA
6312107 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6312153 AATGCTTAGG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6316690 original size:44 final size:44
Alignment explanation
Indices: 6316549--6316694 Score: 168
Period size: 45 Copynumber: 3.3 Consensus size: 44
6316539 AGAATGCGAT
* * *
6316549 ATCTGCTATCTTTGATCTGCTCTCCGTCTAATACAGAGAC-TCCAA
1 ATCTGTTATCTTTGATCTGCTCTCTGTC-AACACAGAGACGT-CAA
* * *
6316594 ATCTGTCATCTTCGATCTGCTCTTCTGTCAACACAGAGACGCCAA
1 ATCTGTTATCTTTGATCTGCTC-TCTGTCAACACAGAGACGTCAA
* * *
6316639 ACCTGTTATCTTTGATCTGCTCTCTATCAACACAGAGTCGTCAA
1 ATCTGTTATCTTTGATCTGCTCTCTGTCAACACAGAGACGTCAA
*
6316683 ATATGTTATCTT
1 ATCTGTTATCTT
6316695 CAACTTGTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
44 29 0.34
45 51 0.60
46 5 0.06
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (44 bp):
ATCTGTTATCTTTGATCTGCTCTCTGTCAACACAGAGACGTCAA
Found at i:6316819 original size:44 final size:44
Alignment explanation
Indices: 6316753--6316915 Score: 152
Period size: 44 Copynumber: 3.7 Consensus size: 44
6316743 TGCTTCACTG
* *
6316753 TAAGCATAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTA
1 TAAGCACAGGAATGCCAGATCTGCTATCTTCGATCTGTTCCCTA
* * * * *
6316797 TAAGCACAGGGATGCCAAATCTGCTGTTTTC-AACTTGTTCCCTA
1 TAAGCACAGGAATGCCAGATCTGCTATCTTCGATC-TGTTCCCTA
* ** * * *
6316841 TAAGCACAGGGATGCC--ATGCTGAAATCTTTGATCTGCTTCACTG
1 TAAGCACAGGAATGCCAGAT-CTGCTATCTTCGATCTG-TTCCCTA
*
6316885 TAAGCACAGGAATGTCAGATCTGCTATCTTC
1 TAAGCACAGGAATGCCAGATCTGCTATCTTC
6316916 AGTCTGCTCC
Statistics
Matches: 93, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 2 0.02
43 10 0.11
44 71 0.76
45 8 0.09
46 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
TAAGCACAGGAATGCCAGATCTGCTATCTTCGATCTGTTCCCTA
Found at i:6317309 original size:86 final size:87
Alignment explanation
Indices: 6317111--6317491 Score: 435
Period size: 86 Copynumber: 4.4 Consensus size: 87
6317101 TTTGATTTCT
* * * * *
6317111 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCGTCTTTGATCTGTTTCCCTACTACTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA
* * * *
6317176 CGGTGATAAGATCTGTGAATTT
66 GGGGGATAAGATCTGTAAATTC
* ** * ** * * *
6317198 AACCTGTTGTCCTACTGTTTAGGGGTTTAAGGTTCTTCGTCTTCGAT-TATCTCCACTAATGCTT
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCC-CTACTGCTT
*
6317262 AGGGAGATAAGATCTGT-AATTC
65 AGGGGGATAAGATCTGTAAATTC
* * * * * *
6317284 GGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTTGTCTTTGATCTGTTTCCCCACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA
*
6317349 GGGGGATAAGATCTG-CAATTC
66 GGGGGATAAGATCTGTAAATTC
* * *
6317370 GGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA
*
6317435 GGGGGTTAAGATCTGTAAATCTTC
66 GGGGGATAAGATCTGTAAA--TTC
*
6317459 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
6317492 TTGTAAATTT
Statistics
Matches: 246, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
86 148 0.60
87 66 0.27
89 32 0.13
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (87 bp):
AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA
GGGGGATAAGATCTGTAAATTC
Found at i:6317348 original size:44 final size:44
Alignment explanation
Indices: 6317281--6317577 Score: 202
Period size: 44 Copynumber: 6.8 Consensus size: 44
6317271 AGATCTGTAA
* *
6317281 TTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTTGTC
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGACCCTTTGTC
* * * * *
6317325 TTTGATCTGTTTCCCCACTGCTTAGGGGGATAAGA---TCTG-C
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGACCCTTTGTC
* * *
6317365 AATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTC
1 --TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGACCCTTTGTC
* * **
6317411 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGA-TCTGTAAATC
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGACCCT-T-TGTC
* * *
6317456 TTC-AGCCTGTTACCCTACTGCTTAGGGGGTTAAG--GC-TTGTAAA
1 TTCGA-TCTGTTACCCTACTGCTTAGGGGGTTAAGACCCTTTGT--C
* * * * **
6317499 TTTG-GCTTGTTACCCTACTGCTTAGGGGTTTAA-AGCCCATCATC
1 TTCGATC-TGTTACCCTACTGCTTAGGGGGTTAAGA-CCCTTTGTC
* * *
6317543 TTCGATCTATTTCCCTACTGCTTAGGGGGTCAAGA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGA
6317578 TCTGCGAATT
Statistics
Matches: 194, Mismatches: 40, Indels: 37
0.72 0.15 0.14
Matches are distributed among these distances:
40 1 0.01
41 4 0.02
42 31 0.16
43 29 0.15
44 89 0.46
45 37 0.19
46 3 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (44 bp):
TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGACCCTTTGTC
Found at i:6317448 original size:172 final size:175
Alignment explanation
Indices: 6317111--6317489 Score: 469
Period size: 173 Copynumber: 2.2 Consensus size: 175
6317101 TTTGATTTCT
* * *
6317111 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCGTCTTTGATCTGTTTCCCTACTACTTA
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCGTCTTTGATCTGTTTCCCCACTACTTA
* * * ** * ***
6317176 CGGTGATAAGATCTGTGAATTTAACCTGTTGTCCTACTGTTTAGGGGTTTAAGGTTCTTCGTCTT
66 CGGGGATAAGATCTGTCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTT
6317241 CGATTATCTCCACTAATGCTTAGGGAGATAAGATCTGT-AA-TTC
131 CGATTATCTCCACTAATGCTTAGGGAGATAAGATCTGTAAACTTC
* * * * * *
6317284 GGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTTGTCTTTGATCTGTTTCCCCACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCGTCTTTGATCTGTTTCCCCACTACTTA
* ***
6317349 GGGGGATAAGATCTG-CAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTT
66 CGGGGATAAGATCTGTCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTT
* * * * *
6317413 CGATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC
131 CGAT-TATCTCCACTAATGCTTAGGGAGATAAGATCTGTAAA-CTTC
6317459 AGCCTGTTACCCTACTGCTTAGGGGGTTAAG
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAG
6317490 GCTTGTAAAT
Statistics
Matches: 172, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
172 65 0.38
173 76 0.44
175 31 0.18
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (175 bp):
AGCCTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCGTCTTTGATCTGTTTCCCCACTACTTA
CGGGGATAAGATCTGTCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTT
CGATTATCTCCACTAATGCTTAGGGAGATAAGATCTGTAAACTTC
Found at i:6317524 original size:43 final size:45
Alignment explanation
Indices: 6317331--6317531 Score: 168
Period size: 45 Copynumber: 4.6 Consensus size: 45
6317321 TGTCTTTGAT
* * * * * *
6317331 CTGTTTCCCCACTGCTTAGGGGGATAAGATCTG-CAA--TTCGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGC
* * ** *
6317373 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CGTCTTC-GAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTGTAAATCTTCAG-C
*
6317417 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGC
* *
6317462 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAAT-TT-GGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAATCTTCAGC
* *
6317505 TTGTTACCCTACTGCTTAGGGGTTTAA
1 CTGTTACCCTACTGCTTAGGGGGTTAA
6317532 AGCCCATCAT
Statistics
Matches: 132, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
42 25 0.19
43 32 0.24
44 35 0.27
45 39 0.30
46 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.35
Consensus pattern (45 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGC
Found at i:6325665 original size:19 final size:20
Alignment explanation
Indices: 6325637--6325678 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6325627 GTCTTTTTGC
* *
6325637 GAAATTTAATGCACATG-AT
1 GAAATGTAATGCAAATGAAT
6325656 GAAATGTAATGCAAATGAAT
1 GAAATGTAATGCAAATGAAT
6325676 GAA
1 GAA
6325679 TGCAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATGTAATGCAAATGAAT
Found at i:6328658 original size:38 final size:39
Alignment explanation
Indices: 6328609--6328721 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 39
6328599 ATATCACGAT
*
6328609 TTGCACAAATGCCTTCGGGTCTTAGCCCGGAT-T-TCAAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
*
6328647 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
* *
6328687 TAGCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 TTGCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
6328722 ATTTCAGCAT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 31 0.46
39 3 0.04
40 33 0.49
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (39 bp):
TTGCACAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC
Found at i:6328755 original size:39 final size:40
Alignment explanation
Indices: 6328611--6328759 Score: 164
Period size: 39 Copynumber: 3.8 Consensus size: 40
6328601 ATCACGATTT
* *
6328611 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTCAACT--T-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-AACTACTA
*
6328649 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
6328689 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
6328728 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
6328760 CATTCAATTT
Statistics
Matches: 96, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
37 3 0.03
38 28 0.29
39 34 0.35
40 31 0.32
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:6336637 original size:40 final size:40
Alignment explanation
Indices: 6336578--6336746 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
6336568 CGGGACTTTA
* * *
6336578 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
6336618 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
6336658 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
6336698 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
6336738 CCCGGATAT
1 CCCGGATAT
6336747 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:6341488 original size:31 final size:32
Alignment explanation
Indices: 6341453--6341535 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
6341443 CTTCCTGCAT
* *
6341453 TAAAATCCAACCAAATACAACAAATATA-ATA
1 TAAAATACAACCAAAAACAACAAATATACATA
** * *
6341484 TAAAATGTAGCCAAAAACAACAAATTTAGCATA
1 TAAAATACAACCAAAAACAACAAATATA-CATA
*
6341517 AAAAATACAACCAAAAACA
1 TAAAATACAACCAAAAACA
6341536 TTAATTCTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 23 0.56
33 18 0.44
ACGTcount: A:0.61, C:0.18, G:0.04, T:0.17
Consensus pattern (32 bp):
TAAAATACAACCAAAAACAACAAATATACATA
Found at i:6341790 original size:21 final size:21
Alignment explanation
Indices: 6341764--6341839 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
6341754 TGCTCTGCTA
*
6341764 TCGCTGCTGCCTCTGCCTTCC
1 TCGCTGCTGCCTCTGCCTCCC
6341785 TCGCTGCTGCCGT-TGCCTCCC
1 TCGCTGCTGCC-TCTGCCTCCC
* *
6341806 TTGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
6341827 TCTCTGCTGCCTC
1 TCGCTGCTGCCTC
6341840 CGCTCTAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 46 0.98
22 1 0.02
ACGTcount: A:0.00, C:0.47, G:0.21, T:0.32
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:6342280 original size:13 final size:14
Alignment explanation
Indices: 6342255--6342283 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6342245 TGATGAATTG
6342255 AATTAAACAATTAT
1 AATTAAACAATTAT
6342269 AATTAAAC-ATTAT
1 AATTAAACAATTAT
6342282 AA
1 AA
6342284 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:6345878 original size:43 final size:43
Alignment explanation
Indices: 6345830--6345978 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
6345820 TTCGTAAGCT
*
6345830 AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGGA
1 AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGCA
* * *
6345873 AGTTATGT--A--A-G-T-T-AAGTA-AGTTT-CGTA--A-GCT
1 AGTTATGTAAATTATGATATCAAATATA-TTTAAGTATTATGCA
*
6345904 AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGTA
1 AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGCA
* * *
6345947 AGTTATGTAAGTTATGATATGATATATATTTA
1 AGTTATGTAAATTATGATATCAAATATATTTA
6345979 TGTAAGTTAT
Statistics
Matches: 81, Mismatches: 11, Indels: 28
0.68 0.09 0.23
Matches are distributed among these distances:
31 9 0.11
32 1 0.01
33 1 0.01
34 4 0.05
35 8 0.10
36 2 0.02
37 2 0.02
38 2 0.02
39 8 0.10
40 4 0.05
41 1 0.01
42 1 0.01
43 38 0.47
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (43 bp):
AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGCA
Found at i:6345879 original size:34 final size:34
Alignment explanation
Indices: 6345832--6345953 Score: 113
Period size: 34 Copynumber: 3.4 Consensus size: 34
6345822 CGTAAGCTAG
6345832 TTATGTAAATTATGATATCAAATATATTTAAGTA
1 TTATGTAAATTATGATATCAAATATATTTAAGTA
* * * *
6345866 TTATGGAAGTTATG-TAAGTTAAGTA-AGTTTCGTAAGCTA
1 TTATGTAAATTATGAT-A-TCAAATATA--TT--TAAG-TA
6345905 GTTATGTAAATTATGATATCAAATATATTTAAGTA
1 -TTATGTAAATTATGATATCAAATATATTTAAGTA
*
6345940 TTATGTAAGTTATG
1 TTATGTAAATTATG
6345954 TAAGTTATGA
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
33 1 0.01
34 27 0.39
35 7 0.10
36 6 0.09
38 6 0.09
39 7 0.10
40 14 0.20
41 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.43
Consensus pattern (34 bp):
TTATGTAAATTATGATATCAAATATATTTAAGTA
Found at i:6345922 original size:74 final size:74
Alignment explanation
Indices: 6345801--6345960 Score: 311
Period size: 74 Copynumber: 2.2 Consensus size: 74
6345791 GATTTGTGTA
6345801 TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
1 TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
6345866 TTATGGAAG
66 TTATGGAAG
6345875 TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
1 TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
*
6345940 TTATGTAAG
66 TTATGGAAG
6345949 TTATGTAAGTTA
1 TTATGTAAGTTA
6345961 TGATATGATA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 85 1.00
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.42
Consensus pattern (74 bp):
TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
TTATGGAAG
Found at i:6345954 original size:9 final size:9
Alignment explanation
Indices: 6345940--6346131 Score: 158
Period size: 9 Copynumber: 21.7 Consensus size: 9
6345930 TATTTAAGTA
6345940 TTATGTAAG
1 TTATGTAAG
6345949 TTATGTAAG
1 TTATGTAAG
*
6345958 TTATGATATG
1 TTATG-TAAG
* * *
6345968 ATATAT-AT
1 TTATGTAAG
6345976 TTATGTAAG
1 TTATGTAAG
* *
6345985 TTATAT-AT
1 TTATGTAAG
*
6345993 TTATCTAAG
1 TTATGTAAG
*
6346002 TTATATAAG
1 TTATGTAAG
6346011 TTATGTAAG
1 TTATGTAAG
6346020 TTATGTAAG
1 TTATGTAAG
* *
6346029 TTATAT-AT
1 TTATGTAAG
**
6346037 TTATCCAAG
1 TTATGTAAG
* *
6346046 TTATATACG
1 TTATGTAAG
*
6346055 TTATATAAG
1 TTATGTAAG
6346064 TTATGTAAG
1 TTATGTAAG
*
6346073 TTATATAAG
1 TTATGTAAG
* *
6346082 TTATAT-AT
1 TTATGTAAG
*
6346090 TTATCTAAG
1 TTATGTAAG
*
6346099 TTATATAAG
1 TTATGTAAG
6346108 TTATGTAAG
1 TTATGTAAG
*
6346117 TTTTGTAAG
1 TTATGTAAG
6346126 TTATGT
1 TTATGT
6346132 TAAATATTTA
Statistics
Matches: 146, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
8 21 0.14
9 119 0.82
10 6 0.04
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:6346006 original size:15 final size:17
Alignment explanation
Indices: 6345969--6346105 Score: 101
Period size: 17 Copynumber: 8.4 Consensus size: 17
6345959 TATGATATGA
*
6345969 TATATATTTATGTAAGT
1 TATATATTTATCTAAGT
6345986 TATATATTTATCTAAG-
1 TATATATTTATCTAAGT
6346002 --T-TA--TA--TAAGT
1 TATATATTTATCTAAGT
* * *
6346012 TATGTAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
*
6346030 TATATATTTATCCAAGT
1 TATATATTTATCTAAGT
* *
6346047 TATATACGTTATATAAGT
1 TATATA-TTTATCTAAGT
* * *
6346065 TATGTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
6346083 TATATATTTATCTAAGT
1 TATATATTTATCTAAGT
6346100 TATATA
1 TATATA
6346106 AGTTATGTAA
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
9 4 0.04
11 2 0.02
12 1 0.01
13 3 0.03
14 2 0.02
16 2 0.02
17 46 0.47
18 36 0.37
19 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (17 bp):
TATATATTTATCTAAGT
Found at i:6346011 original size:53 final size:53
Alignment explanation
Indices: 6345940--6346130 Score: 204
Period size: 53 Copynumber: 3.4 Consensus size: 53
6345930 TATTTAAGTA
* *
6345940 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATCTAAGTTATATAG
* * *
6345993 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCCAAGTTATATACG
1 TTATGTAAGTTATGTAAGTTATG--A--TATG--A--TATATATTTATCTAAGTTATATA-G
* * *
6346055 TTATATAAGTTATGTAAGTTAT-ATAAGTTATATATTTATCTAAGTTATATAAG
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATCTAAGTTATAT-AG
*
6346108 TTATGTAAGTTTTGTAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
6346131 TTAAATATTT
Statistics
Matches: 115, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
53 63 0.55
54 1 0.01
55 1 0.01
57 7 0.06
59 2 0.02
61 21 0.18
62 20 0.17
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.48
Consensus pattern (53 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATCTAAGTTATATAG
Found at i:6346069 original size:44 final size:43
Alignment explanation
Indices: 6345976--6346118 Score: 198
Period size: 44 Copynumber: 3.3 Consensus size: 43
6345966 TGATATATAT
*
6345976 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATATTTATC-AAGTTATATAAGTTATATAAG
*
6346020 TTATGTAAGTTATATATTTATCCAAGTTATATACGTTATATAAG
1 TTATGTAAGTTATATATTTAT-CAAGTTATATAAGTTATATAAG
* * *
6346064 TTATGTAAGTTATATAAGTTAT-ATATTTATCTAAGTTATATAAG
1 TTATGTAAGTTATAT-ATTTATCA-AGTTATATAAGTTATATAAG
6346108 TTATGTAAGTT
1 TTATGTAAGTT
6346119 TTGTAAGTTA
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.01
44 83 0.92
45 6 0.07
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (43 bp):
TTATGTAAGTTATATATTTATCAAGTTATATAAGTTATATAAG
Found at i:6346261 original size:15 final size:15
Alignment explanation
Indices: 6346241--6346325 Score: 88
Period size: 15 Copynumber: 5.8 Consensus size: 15
6346231 GTAAGTTGCG
6346241 AATTAAATAATATTT
1 AATTAAATAATATTT
6346256 AATTAAATAATATTT
1 AATTAAATAATATTT
6346271 -A-TAAA-AATTATTTT
1 AATTAAATAA-TA-TTT
*
6346285 AATTAAATAATATTG
1 AATTAAATAATATTT
** *
6346300 AAAAAAATTAT-TTT
1 AATTAAATAATATTT
6346314 AATTAAATAATA
1 AATTAAATAATA
6346326 CACATGTCGT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
12 2 0.04
13 6 0.11
14 14 0.25
15 26 0.46
16 6 0.11
17 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (15 bp):
AATTAAATAATATTT
Found at i:6346290 original size:29 final size:29
Alignment explanation
Indices: 6346253--6346325 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
6346243 TTAAATAATA
* *
6346253 TTTAATTAAATAATATTTATAAAAATTAT
1 TTTAATTAAATAATATTGAAAAAAATTAT
6346282 TTTAATTAAATAATATTGAAAAAAATTAT
1 TTTAATTAAATAATATTGAAAAAAATTAT
6346311 TTTAATTAAATAATA
1 TTTAATTAAATAATA
6346326 CACATGTCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (29 bp):
TTTAATTAAATAATATTGAAAAAAATTAT
Found at i:6346532 original size:24 final size:24
Alignment explanation
Indices: 6346500--6346570 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
6346490 TTAACTTAAA
6346500 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
6346524 TGATAAAACGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
* *
6346548 TGTTAAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
6346571 CAATAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:6346687 original size:64 final size:63
Alignment explanation
Indices: 6346618--6346750 Score: 230
Period size: 64 Copynumber: 2.1 Consensus size: 63
6346608 ATATTTTATT
* *
6346618 AAATATTTGTATATTAGATGAGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAAT-AATAAATTTATTAAAAATCGTAATAG
*
6346682 AAATATTTGTATATTAGATGGGACATATTATATCAATAATAAATTTATTAAAAATCGTAATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAATAATAAATTTATTAAAAATCGTAATAG
6346745 AAATAT
1 AAATAT
6346751 AGAAATATTA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
63 31 0.47
64 35 0.53
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (63 bp):
AAATATTTGTATATTAGATGAGACATATTATATCAATAATAAATTTATTAAAAATCGTAATAG
Found at i:6346759 original size:63 final size:64
Alignment explanation
Indices: 6346618--6346760 Score: 200
Period size: 63 Copynumber: 2.2 Consensus size: 64
6346608 ATATTTTATT
* * * *
6346618 AAATATTTGTATATTAGATGAGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTAGAATATTAGATGAGACATATTATATCAATAAATAAATTTATTAAAAATCGTAATAG
* * *
6346682 AAATATTTGTATATTAGATGGGACATATTATATCAAT-AATAAATTTATTAAAAATCGTAATAG
1 AAATATTAGAATATTAGATGAGACATATTATATCAATAAATAAATTTATTAAAAATCGTAATAG
6346745 AAATA-TAGAAATATTA
1 AAATATTAG-AATATTA
6346761 AATCACAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
62 2 0.03
63 36 0.49
64 35 0.48
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (64 bp):
AAATATTAGAATATTAGATGAGACATATTATATCAATAAATAAATTTATTAAAAATCGTAATAG
Found at i:6349125 original size:13 final size:13
Alignment explanation
Indices: 6349091--6349127 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
6349081 AAATTTAGGG
6349091 TTAGGGAGAAAATT
1 TTAGGG-GAAAATT
6349105 TT-GGGGAAAATT
1 TTAGGGGAAAATT
6349117 TTAGGGGAAAA
1 TTAGGGGAAAA
6349128 CACTTAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.41
13 11 0.50
14 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (13 bp):
TTAGGGGAAAATT
Found at i:6350604 original size:14 final size:14
Alignment explanation
Indices: 6350582--6350628 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
6350572 ACTCTTAACT
6350582 CTTAACCCCTAATC
1 CTTAACCCCTAATC
* *
6350596 CTTATCCCCTAACC
1 CTTAACCCCTAATC
* *
6350610 CCTAACCCCTAATT
1 CTTAACCCCTAATC
6350624 CTTAA
1 CTTAA
6350629 TCGATAACCC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.28, C:0.43, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAACCCCTAATC
Found at i:6350679 original size:26 final size:26
Alignment explanation
Indices: 6350647--6350704 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
6350637 CCCTAAATCT
*
6350647 TACCCTCCAATTATTAAACCCTAAAG
1 TACCCTCCAACTATTAAACCCTAAAG
6350673 TACCCTCCAACTATTAAACCCTAAAG
1 TACCCTCCAACTATTAAACCCTAAAG
6350699 TACCCT
1 TACCCT
6350705 AAACTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.26
Consensus pattern (26 bp):
TACCCTCCAACTATTAAACCCTAAAG
Found at i:6355484 original size:14 final size:14
Alignment explanation
Indices: 6355465--6355492 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6355455 CTTCGCGTCT
6355465 TGGTAAGTTTTCCA
1 TGGTAAGTTTTCCA
6355479 TGGTAAGTTTTCCA
1 TGGTAAGTTTTCCA
6355493 AATTGCATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
TGGTAAGTTTTCCA
Found at i:6355776 original size:143 final size:142
Alignment explanation
Indices: 6355518--6356110 Score: 764
Period size: 143 Copynumber: 4.1 Consensus size: 142
6355508 GCCTTATTCA
* * * *
6355518 AATCTATTAGAAGGTCCTATTCCTGAAGAAATTTGTGACTTAGCAAATTTAACT-TCATTAAGCT
1 AATCTATTAAAAGGTCCTATTCCTCAAGAAATTTGTAACTTAGCAAATTTAACTGT-ATTAAGCC
*
6355582 TCTACAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGGACT
65 TCTCCAAAAC-AATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGGACT
6355647 TAAGCCTTGGGTCT
129 TAAGCCTTGGGTCT
* *
6355661 AATCTATTAAAAGGTCCTATTCCTGAAGAAATTTGTTACTTAGCAAATTTAACT-TCATTAAGCC
1 AATCTATTAAAAGGTCCTATTCCTCAAGAAATTTGTAACTTAGCAAATTTAACTGT-ATTAAGCC
* * * *
6355725 TTTACCAAAACCAATTGAATGGCTCAATCCCTT-TTGTATTGGTAGTTTATCAAAAATACAAGAC
65 TCT-CCAAAA-CAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGGAC
* *
6355789 TTCAGCCTTGGGTCC
128 TTAAGCCTTGGGTCT
* * * * *
6355804 AATCTATTAAAAGGTCCTATTCCCCAAAAAATTTGTAATTTATCAAATTTAACTGTATTGAGCCT
1 AATCTATTAAAAGGTCCTATTCCTCAAGAAATTTGTAACTTAGCAAATTTAACTGTATTAAGCCT
* * *
6355869 CTCTCAAAACATATTGAGTGGTTCAATCCCTTTTTGTATTGGTAGTTTATCAAAGATGC-GGTAC
66 CTC-CAAAACA-ATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGG-AC
*
6355933 TTAAGCCTTGGATCT
128 TTAAGCCTTGGGTCT
* * * * *
6355948 AATCTATTAAAAGGTCCTATTCCTCAGGAAATCTGTAATTTATCAAATTTAACTGTATTGAGCCT
1 AATCTATTAAAAGGTCCTATTCCTCAAGAAATTTGTAACTTAGCAAATTTAACTGTATTAAGCCT
* * * * *
6356013 CTCCTAAAACAATTTGAGTGGTTCAATCCCTTCTTGTATCGGTAGTTTATCGAAGATGCAGTACT
66 CTCC-AAAACAA-TTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGGACT
*
6356078 TAAG-CTTGGTTCT
129 TAAGCCTTGGGTCT
6356091 AATCTATTAAAAGGTCCTAT
1 AATCTATTAAAAGGTCCTAT
6356111 CCCGAAAGTA
Statistics
Matches: 405, Mismatches: 35, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
142 3 0.01
143 216 0.53
144 184 0.45
145 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (142 bp):
AATCTATTAAAAGGTCCTATTCCTCAAGAAATTTGTAACTTAGCAAATTTAACTGTATTAAGCCT
CTCCAAAACAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGGACTTA
AGCCTTGGGTCT
Found at i:6356041 original size:287 final size:286
Alignment explanation
Indices: 6355518--6356110 Score: 779
Period size: 287 Copynumber: 2.1 Consensus size: 286
6355508 GCCTTATTCA
* ** * *
6355518 AATCTATTAGAAGGTCCTATTCCTGAAGAAATTTGTGACTTAGCAAATTTAACTTCATTAAGCTT
1 AATCTATTAAAAGGTCCTATTCCCCAAAAAATTTGTAACTTAGCAAATTTAACTTCATTAAGCTT
6355583 CTACAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGGACTT
66 CTACAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGGACTT
* * * *
6355648 AAGCCTTGGGTCTAATCTATTAAAAGGTCCTATTCCTGAAGAAATTTGTTACTTAGCAAATTTAA
131 AAGCCTTGGATCTAATCTATTAAAAGGTCCTATTCCTCAAGAAATCTGTAACTTAGCAAATTTAA
* *
6355713 CTTCATTAAGCCTTTACCAAAACCAATTGAATGGCTCAATCCCTT-TTGTATTGGTAGTTTATCA
196 CTTCATTAAGCCTCTACCAAAACCAATTGAATGGCTCAATCCCTTCTTGTATCGGTAGTTTATCA
*
6355777 AAAATACAAG-ACTTCAGCCTTGGGTCC
261 AAAATAC-AGTACTTAAG-CTTGGGTCC
* * *
6355804 AATCTATTAAAAGGTCCTATTCCCCAAAAAATTTGTAATTTATCAAATTTAACTGT-ATTGAGCC
1 AATCTATTAAAAGGTCCTATTCCCCAAAAAATTTGTAACTTAGCAAATTTAACT-TCATTAAG-C
* * * *
6355868 TCTCT-CAAAACATATTGAGTGGTTCAATCCCTTTTTGTATTGGTAGTTTATCAAAGATGC-GGT
64 T-TCTACAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGG-
* * *
6355931 ACTTAAGCCTTGGATCTAATCTATTAAAAGGTCCTATTCCTCAGGAAATCTGTAATTTATCAAAT
127 ACTTAAGCCTTGGATCTAATCTATTAAAAGGTCCTATTCCTCAAGAAATCTGTAACTTAGCAAAT
* * *
6355996 TTAACTGT-ATTGAGCCTCT-CCTAAAA-CAATTTGAGTGGTTCAATCCCTTCTTGTATCGGTAG
192 TTAACT-TCATTAAGCCTCTACC-AAAACCAA-TTGAATGGCTCAATCCCTTCTTGTATCGGTAG
* * * * *
6356058 TTTATCGAAGATGCAGTACTTAAGCTTGGTTCT
254 TTTATCAAAAATACAGTACTTAAGCTTGGGTCC
6356091 AATCTATTAAAAGGTCCTAT
1 AATCTATTAAAAGGTCCTAT
6356111 CCCGAAAGTA
Statistics
Matches: 268, Mismatches: 30, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
286 59 0.22
287 177 0.66
288 32 0.12
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (286 bp):
AATCTATTAAAAGGTCCTATTCCCCAAAAAATTTGTAACTTAGCAAATTTAACTTCATTAAGCTT
CTACAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATACAGGACTT
AAGCCTTGGATCTAATCTATTAAAAGGTCCTATTCCTCAAGAAATCTGTAACTTAGCAAATTTAA
CTTCATTAAGCCTCTACCAAAACCAATTGAATGGCTCAATCCCTTCTTGTATCGGTAGTTTATCA
AAAATACAGTACTTAAGCTTGGGTCC
Found at i:6357453 original size:26 final size:26
Alignment explanation
Indices: 6357424--6357476 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6357414 AATACTAAAC
6357424 AAATA-ATACATAAAAAAGCAAATTTA
1 AAATAGATA-ATAAAAAAGCAAATTTA
* * *
6357450 AAATAGATATTACAAAAGCAATTTTA
1 AAATAGATAATAAAAAAGCAAATTTA
6357476 A
1 A
6357477 GTAAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.26
Consensus pattern (26 bp):
AAATAGATAATAAAAAAGCAAATTTA
Found at i:6357518 original size:26 final size:26
Alignment explanation
Indices: 6357489--6357574 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
6357479 AAATAATAAT
* *
6357489 TTTAAAAAAATTAATATACAAAACAA
1 TTTAAAAAAAATAATATATAAAACAA
6357515 TTTAAAATAAAATAATATATAAAACAA
1 TTTAAAA-AAAATAATATATAAAACAA
* ** * *
6357542 TCTAAAATGACTAATTTATAAAACAA
1 TTTAAAAAAAATAATATATAAAACAA
6357568 TTTAAAA
1 TTTAAAA
6357575 TGACATATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.55
27 23 0.45
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.30
Consensus pattern (26 bp):
TTTAAAAAAAATAATATATAAAACAA
Found at i:6357575 original size:26 final size:26
Alignment explanation
Indices: 6357500--6357647 Score: 105
Period size: 27 Copynumber: 5.9 Consensus size: 26
6357490 TTAAAAAAAT
* * *
6357500 TAATATACAAAACAATTTAAAATAAAA
1 TAATATATAAAACAATTTAAAAT-GAC
*
6357527 TAATATATAAAACAATCTAAAATGAC
1 TAATATATAAAACAATTTAAAATGAC
*
6357553 TAATTTATAAAACAATTTAAAATGAC
1 TAATATATAAAACAATTTAAAATGAC
* * * *
6357579 ----ATAT-AAA-AGTTTAAACTAAA
1 TAATATATAAAACAATTTAAAATGAC
* *
6357599 TAATATGTAAAAAAAATTTAAAATG-C
1 TAATATAT-AAAACAATTTAAAATGAC
*
6357625 ATAATATATAAAA-AATATAAAAT
1 -TAATATATAAAACAATTTAAAAT
6357648 ATTTTTAAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
20 9 0.09
21 3 0.03
22 3 0.03
24 3 0.03
25 9 0.09
26 32 0.34
27 36 0.38
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (26 bp):
TAATATATAAAACAATTTAAAATGAC
Found at i:6357704 original size:26 final size:25
Alignment explanation
Indices: 6357667--6357765 Score: 69
Period size: 26 Copynumber: 3.8 Consensus size: 25
6357657 AATAATAATG
6357667 TAAAAGAA-TTAAATTAAATAACATA
1 TAAAA-AATTTAAATTAAATAACATA
* *
6357692 TAAAATAATTTAAATCAAGTAATACATA
1 TAAAA-AATTTAAATTAAAT-A-ACATA
* *
6357720 T-AAAAATTTCAAA-TAGATAATATA
1 TAAAAAATTT-AAATTAAATAACATA
* *
6357744 CAAAAAGATTTAAAATAAATAA
1 TAAAAA-ATTTAAATTAAATAA
6357766 AAAATTAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
24 4 0.07
25 15 0.26
26 26 0.45
27 7 0.12
28 6 0.10
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (25 bp):
TAAAAAATTTAAATTAAATAACATA
Found at i:6357771 original size:44 final size:44
Alignment explanation
Indices: 6357719--6357809 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 44
6357709 AGTAATACAT
* * * *
6357719 ATAAAAATTTCAAATAGATAATATACAAAAA-GATTTAAAATAA
1 ATAAAAAATTAAAATAAATAATATACAAAAATAATTTAAAATAA
**
6357762 ATAAAAAATTAAAATAAATAATATGTAAAAATAATTTAAAATAA
1 ATAAAAAATTAAAATAAATAATATACAAAAATAATTTAAAATAA
6357806 ATAA
1 ATAA
6357810 TACATAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 26 0.63
44 15 0.37
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (44 bp):
ATAAAAAATTAAAATAAATAATATACAAAAATAATTTAAAATAA
Found at i:6358203 original size:26 final size:27
Alignment explanation
Indices: 6358151--6358203 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
6358141 AAAGATAGAA
*
6358151 AATAATAATAAAACAAACAATTTAAAT
1 AATAATAATAAAACAAACAATTGAAAT
*
6358178 AATAA-AATACAACAAA-AGATTGAAAT
1 AATAATAATAAAACAAACA-ATTGAAAT
6358204 TAAATGCGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.04
26 17 0.74
27 5 0.22
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.23
Consensus pattern (27 bp):
AATAATAATAAAACAAACAATTGAAAT
Found at i:6361606 original size:2 final size:2
Alignment explanation
Indices: 6361599--6361625 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6361589 TTATTTTTGG
6361599 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6361626 CGAAGTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6361711 original size:13 final size:13
Alignment explanation
Indices: 6361693--6361717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6361683 GCCACCGTGT
6361693 ACGGTGGCCGACG
1 ACGGTGGCCGACG
6361706 ACGGTGGCCGAC
1 ACGGTGGCCGAC
6361718 AACGATCGGT
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:0.16, C:0.32, G:0.44, T:0.08
Consensus pattern (13 bp):
ACGGTGGCCGACG
Found at i:6362256 original size:3 final size:3
Alignment explanation
Indices: 6362250--6362616 Score: 128
Period size: 3 Copynumber: 118.0 Consensus size: 3
6362240 TATTGAATAA
* * *
6362250 TAT TAT TAT CAT T-T CTAA TAT TAT TAA TAT TAT TAT T-T ATAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * * * * * *
6362295 TGT TAT TAT TAC TAT TAT TAA TAT TCT TGT TAT TAA AAT CAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
6362343 TCCT T-T TAT TAT TAGT TTT TAT TAA TA- TAT TAT TAT TAT TAT TAT
1 T-AT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
6362388 TGT AAT TA- TAT T-T TAT TTT TGT T-T TTT TACT TACT TTT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT
* * * *
6362432 TAAT TCAT TAA T-T TAT TAT TAT TAA CA- TAT TAT TAT TTT TAAT GTAT
1 T-AT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT
* *
6362479 TAT TAT TAC TAGT TAT TAT TAT T-T CTAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* *
6362525 TAA TAT TAGT GTAT GTTT TAT TAT ATAT GTAT ATAT ATAT ATAT T-T ATAT
1 TAT TAT TA-T -TAT -TAT TAT TAT -TAT -TAT -TAT -TAT -TAT TAT -TAT
* * *
6362575 ATAG TAT TAT TTT TAAT TACCT TAT T-T TAA TAT TAT TAT TAT
1 -TAT TAT TAT TAT T-AT TA--T TAT TAT TAT TAT TAT TAT TAT
6362617 GTTATATTTA
Statistics
Matches: 276, Mismatches: 59, Indels: 58
0.70 0.15 0.15
Matches are distributed among these distances:
2 18 0.07
3 202 0.73
4 50 0.18
5 6 0.02
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6362466 original size:17 final size:17
Alignment explanation
Indices: 6362444--6362486 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
6362434 ATTCATTAAT
6362444 TTATTATTATTAACATA
1 TTATTATTATTAACATA
* **
6362461 TTATTATTTTTAATGTA
1 TTATTATTATTAACATA
6362478 TTATTATTA
1 TTATTATTA
6362487 CTAGTTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATTATTATTAACATA
Found at i:6362480 original size:31 final size:32
Alignment explanation
Indices: 6362439--6362517 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 32
6362429 TATTAATTCA
*
6362439 TTAATTTATTATTATTAACATA-TTATTATT-T
1 TTAATGTATTATTATTAAC-TAGTTATTATTAT
6362470 TTAATGTATTATTATT-ACTAGTTATTATTAT
1 TTAATGTATTATTATTAACTAGTTATTATTAT
*
6362501 TT-CTAGTATTATTATTA
1 TTAAT-GTATTATTATTA
6362518 TTATTATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 2 0.05
30 11 0.26
31 29 0.69
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (32 bp):
TTAATGTATTATTATTAACTAGTTATTATTAT
Found at i:6362861 original size:148 final size:147
Alignment explanation
Indices: 6362507--6362923 Score: 553
Period size: 145 Copynumber: 2.8 Consensus size: 147
6362497 TTATTTCTAG
*
6362507 TATTATTATTATTATTATTAATATTAGTGTAT-GTTTTATTATATATG---TATATATATATATA
1 TATTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATTATATATATATATA
*
6362568 TTTATATATAGTATTATTTTTAATTACCTTATTTTAATATTATTATTATGTTATATTTACTTTTT
66 TTTATATATAGTATT-TTTTTAATTACCTTATTTTAATATTATTATTATATTATATTTA-TTTTT
*
6362633 TGTATTTAAATGTTATTAC
129 TGTATTTAAATATTATTAC
* * *
6362652 TATTATTGTTATCATTATTAATATTAGTG-A-ATGTTTTATTATATATGTATGTATATGTATATA
1 TATTATTATTATTATTATTAATATTAGTGTATAT-TTTTATTATATATGTAT-TATATATATATA
* * * *
6362715 TATTTATACATAGTATTTTTTTATTTACTTTATTTTAATATTTTTATTATATTATA-TT-TTTTT
64 TATTTATATATAGTATTTTTTTAATTACCTTATTTTAATATTATTATTATATTATATTTATTTTT
*
6362778 TGTATTTTAATATTATTAC
129 TGTATTTAAATATTATTAC
*
6362797 TATTATCATTATTATTATTAATATTAGTGTATATTTTTATTATATATGCATATATATATATATAT
1 TATTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATATG--TAT-TATATATATAT
*
6362862 ATATATGTATTTATATAGTAGTATTTTTAATTACCTTATTTTAATATTATTATTATATTATA
63 ATAT-T-TA--TATATAGTA-TTTTTTTAATTACCTTATTTTAATATTATTATTATATTATA
6362924 CACTTTCCTT
Statistics
Matches: 236, Mismatches: 21, Indels: 22
0.85 0.08 0.08
Matches are distributed among these distances:
144 1 0.00
145 89 0.38
146 15 0.06
147 4 0.02
148 52 0.22
149 28 0.12
150 2 0.01
152 8 0.03
153 37 0.16
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.59
Consensus pattern (147 bp):
TATTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATTATATATATATATA
TTTATATATAGTATTTTTTTAATTACCTTATTTTAATATTATTATTATATTATATTTATTTTTTG
TATTTAAATATTATTAC
Found at i:6362876 original size:14 final size:14
Alignment explanation
Indices: 6362846--6362887 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
6362836 TTATATATGC
* *
6362846 ATATATATATATAT
1 ATATATATGTATTT
6362860 ATATATATGTATTT
1 ATATATATGTATTT
6362874 ATATAGTA-GTATTT
1 ATATA-TATGTATTT
6362888 TTAATTACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 23 0.92
15 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
ATATATATGTATTT
Found at i:6363069 original size:3 final size:3
Alignment explanation
Indices: 6363035--6363195 Score: 59
Period size: 3 Copynumber: 54.0 Consensus size: 3
6363025 TAATACAATA
* * *
6363035 TAT TAT TAA TAT TACT T-T TAT T-T TCGT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * * *
6363080 TAT TCTT TAT TGT CAT GAT TAT TAT GT-T TAT TTT TA- TAGC TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TAT TAT
* * * * * *
6363126 T-T T-T TAT CAC TAA TAC TAC TAT TGT TA- TATT TAT TAT TAT TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T
*
6363170 T-T TAT TAT AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
6363196 AGCTTTTCTT
Statistics
Matches: 119, Mismatches: 25, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
2 15 0.13
3 91 0.76
4 13 0.11
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6375759 original size:157 final size:153
Alignment explanation
Indices: 6375462--6375919 Score: 627
Period size: 157 Copynumber: 3.0 Consensus size: 153
6375452 GTATTTTTAT
* *
6375462 TTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGA
1 TTCTA-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGA
*
6375527 GGTATTTTCAATTTCTATTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
65 GGTATTTTCAA-TT-TATGTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
* *
6375592 CAGGTTACACGCTGAGGTATCTTCAG
128 CGGGTCACACGCTGAGGTATCTTCAG
* * * * * ** *
6375618 TTCCTATTTTACAAAAAAATCAACTTATATTGTGAGAAGTGAGTTAAGCCTTAAATCACACACTG
1 TT-CTATTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTG
*
6375683 AGTTATTTTCAATTTATGTTTCAAAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
64 AGGTATTTTCAATTTATGTTTC--AAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
* *
6375748 TCGGGTCACACGCTGAGGTATTTTTAG
127 TCGGGTCACACGCTGAGGTATCTTCAG
*
6375775 TT-TATGTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTG
1 TTCTAT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTG
* * *
6375839 AGGTATTTTTAGTTTATGTTTC---AAAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTC
64 AGGTATTTTCAATTTATGTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC
6375901 GGGTCACACGCTGAGGTAT
129 GGGTCACACGCTGAGGTAT
6375920 TTTTAGTTTC
Statistics
Matches: 267, Mismatches: 29, Indels: 17
0.85 0.09 0.05
Matches are distributed among these distances:
151 58 0.22
155 11 0.04
156 74 0.28
157 124 0.46
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (153 bp):
TTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAG
GTATTTTCAATTTATGTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGG
GTCACACGCTGAGGTATCTTCAG
Found at i:6375906 original size:75 final size:76
Alignment explanation
Indices: 6375451--6375928 Score: 586
Period size: 80 Copynumber: 6.2 Consensus size: 76
6375441 TTGGTATCTT
* * * *
6375451 GGTATTTTTATTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 GGTATTTTTAGTT-TATGTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAG
*
6375515 GTCACATGCTGA
65 GTCACACGCTGA
* * *
6375527 GGTATTTTCAATTTCTATTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
1 GGTATTTT-TAGTT-TATGTTTC--AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
*
6375592 CAGGTTACACGCTGA
62 CAGGTCACACGCTGA
* * * * * *
6375607 GGTATCTTCAGTTCCTAT-TTT-ACAAAAAAATCAACTTATATTGTGAGAAGTGAGTTAAGCCTT
1 GGTATTTTTAGTT--TATGTTTCA-AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC
** *
6375670 AAATCACACACTGA
63 AGGTCACACGCTGA
* * *
6375684 GTTATTTTCAATTTATGTTTCAAAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
1 GGTATTTTTAGTTTATGTTTC----AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
*
6375749 CGGGTCACACGCTGA
62 CAGGTCACACGCTGA
**
6375764 GGTATTTTTAGTTTATGTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG
1 GGTATTTTTAGTTTATGTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG
6375829 TCACACGCTGA
66 TCACACGCTGA
* *
6375840 GGTATTTTTAGTTTATGTTTC-AAAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGG
1 GGTATTTTTAGTTTATGTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG
6375904 TCACACGCTGA
66 TCACACGCTGA
6375915 GGTATTTTTAGTTT
1 GGTATTTTTAGTTT
6375929 CCATCAACTC
Statistics
Matches: 355, Mismatches: 35, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
75 69 0.19
76 85 0.24
77 69 0.19
79 6 0.02
80 125 0.35
81 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (76 bp):
GGTATTTTTAGTTTATGTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG
TCACACGCTGA
Found at i:6375970 original size:64 final size:66
Alignment explanation
Indices: 6375714--6375986 Score: 262
Period size: 76 Copynumber: 3.9 Consensus size: 66
6375704 CAAAAAAAAA
** *
6375714 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTA
1 AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA---TT--TTTA
6375779 TGTTTC
61 TGTTTC
6375785 AAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTA
1 -----AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA---TT-
6375850 GTTTATGTTTC
57 -TTTATGTTTC
* *
6375861 AAAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTA-
1 ----AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAT
6375925 GTTTC
62 GTTTC
* * * * * *
6375930 -CATCAACTCATATTACGAAAGGTGAGTTAAGCTTCAGGTCACACACTAAGGTATTTT
1 AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTT
6375987 CAATTTTTCA
Statistics
Matches: 184, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
64 49 0.27
69 5 0.03
70 4 0.02
72 2 0.01
75 56 0.30
76 68 0.37
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (66 bp):
AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTATGTTT
C
Found at i:6378009 original size:17 final size:17
Alignment explanation
Indices: 6377987--6378027 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6377977 TCATTAATTC
6377987 ATTATTATTAACATATT
1 ATTATTATTAACATATT
* **
6378004 ATTATTTTTAATGTATT
1 ATTATTATTAACATATT
6378021 ATTATTA
1 ATTATTA
6378028 CTAGTTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTATTATTAACATATT
Found at i:6378084 original size:30 final size:29
Alignment explanation
Indices: 6377873--6378139 Score: 112
Period size: 30 Copynumber: 9.0 Consensus size: 29
6377863 TTTATTCCTT
* *
6377873 TTATTATTAGTTTTTATTAATATAGTAT-TA
1 TTATTATTA-TTATTATTATTAT-GTATGTA
6377903 TTATTATTATTATTATTATTAT-TATTGTAA
1 TTATTATTATTATTATTATTATGTA-TGT-A
* * *
6377933 TTA-TATTA-TATTTTTGTTTATTTACT-TA
1 TTATTATTATTATTATT-ATTATGTA-TGTA
* *
6377961 CTGTTATT-TTATTAATTCATTAAT-TCAT-TA
1 TTATTATTATTATT-ATT-ATT-ATGT-ATGTA
* *
6377991 TTATTAACATATTATTATTTTTAATGTAT-TA
1 TTATT-A-TTATTATTATTATT-ATGTATGTA
* *
6378022 TTATTACTAGTTATTATTATT-TCTA-GTA
1 TTATTATTA-TTATTATTATTATGTATGTA
*
6378050 TTATTATTATTATTATTATTAGTGTATGTT
1 TTATTATTATTATTATTATTA-TGTATGTA
* *
6378080 TTATTATATATGTA-TATATATTATTTATATA
1 TTATTAT-TAT-TATTAT-TATTATGTATGTA
* * *
6378111 -TAGTATTATT-TGTTTTATTATATATGTA
1 TTATTATTATTAT-TATTATTATGTATGTA
6378139 T
1 T
6378140 ATATATATAT
Statistics
Matches: 185, Mismatches: 27, Indels: 51
0.70 0.10 0.19
Matches are distributed among these distances:
27 13 0.07
28 34 0.18
29 40 0.22
30 52 0.28
31 29 0.16
32 12 0.06
33 5 0.03
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (29 bp):
TTATTATTATTATTATTATTATGTATGTA
Found at i:6378086 original size:3 final size:3
Alignment explanation
Indices: 6377775--6378070 Score: 153
Period size: 3 Copynumber: 96.7 Consensus size: 3
6377765 TATTGAATAA
* * *
6377775 TAT TAT TAT CAT T-T CTAA TAT TAT TAA TAT TAT TAT T-T ATAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * ** *
6377820 T-T ATAT TAT TAC TAT TAT TAT TAT TCT TGT TAT TAA TAT CGT TTT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
6377865 TAT TCCT T-T TAT TAT TAGT TTT TAT TAA TA- TAG TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
6377910 TAT TAT TAT TAT TAT TAT TGT AAT TA- TAT TA- TAT TTT TGTT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TA-T
* * * *
6377955 TACT TAC TGT TAT T-T TAT TAAT TCAT TAAT TCAT TAT TAT TAA CA-
1 TA-T TAT TAT TAT TAT TAT T-AT T-AT T-AT T-AT TAT TAT TAT TAT
* * *
6378000 TAT TAT TAT TTT TAAT GTAT TAT TAT TAC TAGT TAT TAT TAT T-T CTAG
1 TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT -TAT
6378048 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
6378071 GTGTATGTTT
Statistics
Matches: 225, Mismatches: 46, Indels: 44
0.71 0.15 0.14
Matches are distributed among these distances:
2 15 0.07
3 177 0.79
4 32 0.14
5 1 0.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6378097 original size:2 final size:2
Alignment explanation
Indices: 6378084--6378162 Score: 58
Period size: 2 Copynumber: 41.0 Consensus size: 2
6378074 TATGTTTTAT
* * * *
6378084 TA TA TA TG TA TA TA TA T- TA TT TA TA TA TA GTA T- TA TT TG T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
6378124 TT TA T- TA TA TA TG TA TA TA TA TA TA TA TA TT 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
6378163 GTATTATTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
1 4 0.07
2 55 0.90
3 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (2 bp):
TA
Found at i:6378125 original size:45 final size:47
Alignment explanation
Indices: 6378076--6378171 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 47
6378066 TATTAGTGTA
6378076 TGTTTTATTATATATG-TATATATAT-TATTTATATATAGTATTATT
1 TGTTTTATTATATATGATATATATATATATTTATATATAGTATTATT
6378121 TGTTTTATTATATATGTATATATATATATATATTTATATATAGTATTATT
1 TGTTTTATTATATATG---ATATATATATATATTTATATATAGTATTATT
6378171 T
1 T
6378172 TTAGTTACCT
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
45 16 0.35
49 9 0.20
50 21 0.46
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (47 bp):
TGTTTTATTATATATGATATATATATATATTTATATATAGTATTATT
Found at i:6378314 original size:149 final size:145
Alignment explanation
Indices: 6378121--6378498 Score: 489
Period size: 149 Copynumber: 2.6 Consensus size: 145
6378111 TAGTATTATT
*
6378121 TGTTTTATTATATATGTATATATATATATATATTTATATATAGTATTATTTTTAGTTACCTTATT
1 TGTTTTATTATATATGTATATAT-TA-ATATATTTATA-ATAGTATTATTTTTAATTACCTTATT
* * **
6378186 TTAATATTATTATTATGTTATATTTACTTTTTTGTATTTAAATGTTATTACTATTATTGTTATCA
63 TTAATATTATTATTATATTATATTT-CTTTTTTGTATTTAAATATTATTACTATTATCATTATCA
6378251 TTATTAATATTAGTG-A-A
127 TTATTAATATTAGTGTATA
* * *
6378268 TGTTTTATTATATATGTATGTATATGTACATATATTTATACATAGTATTTTTTTTATTTACTTTA
1 TGTTTTATTATATATGTA--TATAT-TA-ATATATTTATA-ATAGTATTATTTTTAATTACCTTA
* * * *
6378333 TTTTAATATTTTTATTATATTATATTTGTTTTTTGTATTTTAATATTATTACTATTATCATTATT
61 TTTTAATATTATTATTATATTATATTTCTTTTTTGTATTTAAATATTATTACTATTATCATTATC
*
6378398 ATTATTATTATTAGTGTATA
126 ATTATTAATATTAGTGTATA
* * *
6378418 T-TTTTATTATATATGCATATA-T-ATGTATTTAT-ATAGTAGTATTTTTAATTACCTTATTTTA
1 TGTTTTATTATATATGTATATATTAATATATTTATAATAGTATTATTTTTAATTACCTTATTTTA
6378479 ATATTATTATTATATTATAT
66 ATATTATTATTATATTATAT
6378499 GTAATAACCC
Statistics
Matches: 205, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
141 44 0.21
143 9 0.04
145 1 0.00
147 22 0.11
148 47 0.23
149 80 0.39
150 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (145 bp):
TGTTTTATTATATATGTATATATTAATATATTTATAATAGTATTATTTTTAATTACCTTATTTTA
ATATTATTATTATATTATATTTCTTTTTTGTATTTAAATATTATTACTATTATCATTATCATTAT
TAATATTAGTGTATA
Found at i:6378427 original size:3 final size:3
Alignment explanation
Indices: 6378376--6378410 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6378366 TGTATTTTAA
* *
6378376 TAT TAT TAC TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6378411 GTGTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:6379892 original size:17 final size:17
Alignment explanation
Indices: 6379870--6379904 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6379860 TATCTTACTT
6379870 TTATTTTAATATAAATA
1 TTATTTTAATATAAATA
* *
6379887 TTATTTTTATATACATA
1 TTATTTTAATATAAATA
6379904 T
1 T
6379905 AAACCTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTTTAATATAAATA
Found at i:6379904 original size:23 final size:24
Alignment explanation
Indices: 6379878--6379922 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
6379868 TTTTATTTTA
*
6379878 ATATAAATATTATTT-TTATATAC
1 ATATAAACATTATTTATTATATAC
*
6379901 ATATAAACCTTATTTATTATAT
1 ATATAAACATTATTTATTATAT
6379923 TATTATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATAAACATTATTTATTATATAC
Found at i:6379927 original size:8 final size:8
Alignment explanation
Indices: 6379910--6379987 Score: 54
Period size: 8 Copynumber: 9.5 Consensus size: 8
6379900 CATATAAACC
6379910 TTAT-TTA
1 TTATATTA
6379917 TTATATTA
1 TTATATTA
* *
6379925 TTATTTTC
1 TTATATTA
*
6379933 CTATATTA
1 TTATATTA
6379941 TTTCATATTTA
1 -TT-ATA-TTA
6379952 TATATATTA
1 T-TATATTA
6379961 TTATATTA
1 TTATATTA
6379969 TT-TATT-
1 TTATATTA
*
6379975 TTAAATTA
1 TTATATTA
6379983 CTTAT
1 -TTAT
6379988 TATATAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
6 2 0.04
7 11 0.20
8 23 0.42
9 8 0.15
10 7 0.13
11 4 0.07
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATATTA
Found at i:6379943 original size:28 final size:28
Alignment explanation
Indices: 6379910--6379974 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
6379900 CATATAAACC
* *
6379910 TTATTTATTATATTAT-TATTTTCCTATA
1 TTATTTATTAT-TTATATATATTACTATA
*
6379938 TTATTTCA-TATTTATATATATTATTATA
1 TTATTT-ATTATTTATATATATTACTATA
6379966 TTATTTATT
1 TTATTTATT
6379975 TTAAATTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 5 0.16
28 25 0.81
29 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (28 bp):
TTATTTATTATTTATATATATTACTATA
Found at i:6379987 original size:26 final size:28
Alignment explanation
Indices: 6379934--6379997 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
6379924 ATTATTTTCC
*
6379934 TATATTATTTCATATTTATATATATTAT
1 TATATTATTTCATATTTAAATATATTAT
6379962 TATATTATTT-AT-TTTAAAT-TACTTAT
1 TATATTATTTCATATTTAAATATA-TTAT
*
6379988 TATATAATTT
1 TATATTATTT
6379998 TTAAAATTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.58
27 2 0.06
28 10 0.30
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (28 bp):
TATATTATTTCATATTTAAATATATTAT
Found at i:6383204 original size:25 final size:27
Alignment explanation
Indices: 6383163--6383217 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
6383153 AGTCAAACAT
6383163 GTATTTAGGTCAATTTAAC-CCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
* *
6383189 GTATTTCGGT-AATTTATCTCCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
6383215 GTA
1 GTA
6383218 AAACTGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (27 bp):
GTATTTAGGTCAATTTAACTCCTAGGG
Found at i:6384740 original size:26 final size:26
Alignment explanation
Indices: 6384704--6384839 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
6384694 CATGATATTC
6384704 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6384730 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6384756 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6384782 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6384808 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6384834 TTATCA
1 TTATCA
6384840 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6387652 original size:16 final size:16
Alignment explanation
Indices: 6387631--6387678 Score: 96
Period size: 16 Copynumber: 3.0 Consensus size: 16
6387621 AGTTATTTCC
6387631 TAAAAGATAAAGATCA
1 TAAAAGATAAAGATCA
6387647 TAAAAGATAAAGATCA
1 TAAAAGATAAAGATCA
6387663 TAAAAGATAAAGATCA
1 TAAAAGATAAAGATCA
6387679 AAAGCATTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
TAAAAGATAAAGATCA
Found at i:6387954 original size:9 final size:10
Alignment explanation
Indices: 6387936--6387970 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
6387926 AATCTGTTAA
6387936 AAAAACAAGT
1 AAAAACAAGT
6387946 AAAAA-AAGT
1 AAAAACAAGT
6387955 ATAAAACAAGT
1 A-AAAACAAGT
6387966 AAAAA
1 AAAAA
6387971 AAATAGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.22
10 13 0.57
11 5 0.22
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.11
Consensus pattern (10 bp):
AAAAACAAGT
Found at i:6388182 original size:14 final size:12
Alignment explanation
Indices: 6388163--6388207 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 12
6388153 ATTTGGGGAG
6388163 AAGAAAGGAGAGAA
1 AAGAAA-GA-AGAA
6388177 AAGAAAGAAGAA
1 AAGAAAGAAGAA
6388189 AAGAAGAGAAGAA
1 AAGAA-AGAAGAA
6388202 GAAGAA
1 -AAGAA
6388208 GAATGAGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.31
13 9 0.31
14 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAGAA
Found at i:6388196 original size:22 final size:22
Alignment explanation
Indices: 6388161--6388210 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
6388151 TCATTTGGGG
*
6388161 AGAAG-AAAGGAGAGAA-AAGAA
1 AGAAGAAAAGAAGAGAAGAAG-A
6388182 AGAAGAAAAGAAGAGAAGAAGA
1 AGAAGAAAAGAAGAGAAGAAGA
6388204 AGAAGAA
1 AGAAGAA
6388211 TGAGCAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 18 0.69
23 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (22 bp):
AGAAGAAAAGAAGAGAAGAAGA
Found at i:6388208 original size:14 final size:13
Alignment explanation
Indices: 6388173--6388209 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
6388163 AAGAAAGGAG
6388173 AGAAAAGAA-AGA
1 AGAAAAGAAGAGA
6388185 AGAAAAGAAGAGA
1 AGAAAAGAAGAGA
6388198 AGAAGAAGAAGA
1 AGAA-AAGAAGA
6388210 ATGAGCAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 9 0.39
13 7 0.30
14 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAGAGA
Found at i:6388259 original size:5 final size:6
Alignment explanation
Indices: 6388244--6388268 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6388234 TAAGGGAAGA
6388244 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
6388269 GAAGGAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6388282 original size:20 final size:19
Alignment explanation
Indices: 6388239--6388282 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
6388229 TGAAATAAGG
6388239 GAAGAAAAAAGAAAAAGAA
1 GAAGAAAAAAGAAAAAGAA
* **
6388258 AAAGAAAAAGAGAAGGAGAA
1 GAAGAAAAA-AGAAAAAGAA
6388278 GAAGA
1 GAAGA
6388283 GGGAAGAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
GAAGAAAAAAGAAAAAGAA
Found at i:6388357 original size:10 final size:11
Alignment explanation
Indices: 6388342--6388370 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
6388332 TATTGTTGAT
6388342 TTTAATTTA-A
1 TTTAATTTAGA
6388352 TTTAATTTAGA
1 TTTAATTTAGA
6388363 TTTAATTT
1 TTTAATTT
6388371 TTAATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTAATTTAGA
Found at i:6389430 original size:136 final size:134
Alignment explanation
Indices: 6388747--6389753 Score: 1665
Period size: 136 Copynumber: 7.5 Consensus size: 134
6388737 AAAAATAGTA
* * * *
6388747 TAAAATAATAT-AAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* * * * * *
6388811 -AAA-ATATA-AACAAATGGACAAAATTAGGGTTAT-TTAAAAAA-ACTAAAGTAATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
6388871 GTAC
131 GTAC
*
6388875 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
*
6388940 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTAATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
6389005 GTAC
131 GTAC
*
6389009 TAAAATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* *
6389073 GAAATACAAATAATAAAGGGACAAAATTAGAGTTATAT-AAAAAACACTAAAGTTATATATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
6389137 GTAC
131 GTAC
* *
6389141 TAAAATAAGAT-AAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
6389205 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAAACACTAAAGTTATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
6389269 GTAC
131 GTAC
6389273 TAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
1 T-AAA-ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
*
6389338 TAAAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTT
64 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTT
6389403 ATGTAC
129 ATGTAC
*
6389409 TAAAATATAAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAATATTT
1 T-AAA-ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
*
6389474 TAAAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTT
64 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTT
6389539 ATGTAC
129 ATGTAC
6389545 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
*
6389610 GAAATACAAATAATAAAGGGACAAAATTAGGTTTATATAAAAAAAAACACTAAAGTTATACATTT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT--AAAAAAACACTAAAGTTATACATTT
6389675 ATGTAC
129 ATGTAC
** **
6389681 TAAAATAAGATAAAAAATAAAATATAAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
6389746 GAAATACA
66 GAAATACA
6389754 CCTATTCAAT
Statistics
Matches: 838, Mismatches: 29, Indels: 16
0.95 0.03 0.02
Matches are distributed among these distances:
128 10 0.01
129 51 0.06
130 3 0.00
131 3 0.00
132 179 0.21
133 98 0.12
134 137 0.16
135 91 0.11
136 266 0.32
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.28
Consensus pattern (134 bp):
TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
GTAC
Found at i:6389447 original size:30 final size:30
Alignment explanation
Indices: 6389412--6389468 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
6389402 TATGTACTAA
6389412 AATATAAGATAAAAAATAAAATACGAAAAT
1 AATATAAGATAAAAAATAAAATACGAAAAT
*** *
6389442 AATATATTTTAAAAAATAAAATCCGAA
1 AATATAAGATAAAAAATAAAATACGAA
6389469 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (30 bp):
AATATAAGATAAAAAATAAAATACGAAAAT
Found at i:6389626 original size:270 final size:267
Alignment explanation
Indices: 6388747--6389753 Score: 1672
Period size: 270 Copynumber: 3.8 Consensus size: 267
6388737 AAAAATAGTA
* * * *
6388747 TAAAATAATATAAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTA-
1 TAAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* * * * * *
6388811 AAA-ATATA-AACAAATGGACAAAATTAGGGTTAT-TTAAAAAA-ACTAAAGTAATACATTTATG
66 AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATG
*
6388872 TACTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATT
131 TACTAAAATAAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAATATT
*
6388937 TTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTAATACATT
196 TTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATT
6389002 TATGTAC
261 TATGTAC
*
6389009 TAAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTAG
1 TAAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* *
6389074 AAATACAAATAATAAAGGGACAAAATTAGAGTTATAT-AAAAAACACTAAAGTTATATATTTATG
66 AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATG
6389138 TACTAAAATAAGAT-AAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAATATT
131 TACTAAAATAAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAATATT
6389202 TTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAAACACTAAAGTTATACATT
196 TTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATT
6389266 TATGTAC
261 TATGTAC
6389273 TAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
1 T-AAA-ATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
*
6389338 TAAAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTT
63 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTT
*
6389403 ATGTACTAAAATATAAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGA
128 ATGTACT-AAA-ATAAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAA
*
6389468 ATATTTTAAAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTAT
191 ATATTTTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTAT
6389533 ACATTTATGTAC
256 ACATTTATGTAC
6389545 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
1 TAAAATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
*
6389610 GAAATACAAATAATAAAGGGACAAAATTAGGTTTATATAAAAAAAAACACTAAAGTTATACATTT
65 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT--AAAAAAACACTAAAGTTATACATTT
** *
6389675 ATGTACTAAAATAAGATAAAAAATAAAATATAAAAATAGTATATTTTAAAAAATAAAAT-CATAA
128 ATGTACTAAAATAAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCA-AA
6389739 TATTTTAGAAATACA
192 TATTTTAGAAATACA
6389754 CCTATTCAAT
Statistics
Matches: 702, Mismatches: 27, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
262 59 0.08
263 3 0.00
264 33 0.05
265 121 0.17
266 40 0.06
267 88 0.13
268 30 0.04
269 4 0.01
270 166 0.24
271 95 0.14
272 63 0.09
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.28
Consensus pattern (267 bp):
TAAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATG
TACTAAAATAAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAATATT
TTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATT
TATGTAC
Found at i:6390643 original size:200 final size:200
Alignment explanation
Indices: 6390002--6390665 Score: 1247
Period size: 200 Copynumber: 3.3 Consensus size: 200
6389992 CTAATAAAAC
*
6390002 ATAATAATTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
6390067 TAATGAATACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
66 TAATGAATACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
* *
6390132 TACACATGTTTCACATTACAAAAACAAAATTTTAAATACTTATACCTATTAAAACATGTATGTCA
131 TACACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
6390197 TTACA
196 TTACA
*
6390202 ATAATAGCTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
*
6390267 TAATGAATACTTTACCCGGGTAAAGTATGTATTAGTAGATTCACTAATATGATTATATATATATA
66 TAATGAATACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGA-T-TATATATATA
*
6390332 TTTACACATGTTTCACATTACGAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGT
129 TTTACACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGT
6390397 CATTACA
194 CATTACA
*
6390404 ATAACAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
6390469 TAATGAATACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
66 TAATGAATACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
6390534 TACACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
131 TACACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
6390599 TTACA
196 TTACA
6390604 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTT
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTT
6390666 ATATATTAAT
Statistics
Matches: 451, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
200 256 0.57
201 2 0.00
202 193 0.43
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (200 bp):
ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
TAATGAATACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
TACACATGTTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
TTACA
Found at i:6396257 original size:123 final size:122
Alignment explanation
Indices: 6396053--6396412 Score: 618
Period size: 123 Copynumber: 2.9 Consensus size: 122
6396043 TATTATAATT
6396053 TGTTATATTTAAAAATA-AAAAAAATACCTTTAATTT-TTCTTCTCCTTCTTTCT-CCTCTCTTC
1 TGTTATATTTAAAAATACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTCTCTTC
6396115 TCTTCTGTAATTTTTTTTACTGAAATTTTTTTCCTTCATTCTTTTTTTCAGAAAATC
66 TCTTCTGTAATTTTTTTTACTGAAATTTTTTTCCTTCATTCTTTTTTTCAGAAAATC
6396172 TGTTATATTTAAAAATGACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTCTCTT
1 TGTTATATTTAAAAAT-ACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTCTCTT
*
6396237 CTCTTCTGTAATTTTTTTTACTGAAATTTTTTTCCTTCATCCTTTTTTTCAGAAAATC
65 CTCTTCTGTAATTTTTTTTACTGAAATTTTTTTCCTTCATTCTTTTTTTCAGAAAATC
* *
6396295 TGTTTTATTTAAAAATAACAAAAAAATACCTTTAATTTCTTCTTCTCCTTATTTCTCCCTCTCTT
1 TGTTATATTTAAAAAT-ACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTCTCTT
*
6396360 CTCTTCTGTAATCTTTTTTTTTACTGAAATTTTTTTCCTTCTTTCTTTTTTTC
65 CTCTTCTGTAA---TTTTTTTTACTGAAATTTTTTTCCTTCATTCTTTTTTTC
6396413 TTCTGTTCTC
Statistics
Matches: 228, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
119 16 0.07
120 1 0.00
121 19 0.08
122 17 0.07
123 138 0.61
126 37 0.16
ACGTcount: A:0.24, C:0.20, G:0.03, T:0.53
Consensus pattern (122 bp):
TGTTATATTTAAAAATACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTCTCTTC
TCTTCTGTAATTTTTTTTACTGAAATTTTTTTCCTTCATTCTTTTTTTCAGAAAATC
Found at i:6396408 original size:16 final size:16
Alignment explanation
Indices: 6396389--6396421 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6396379 TTTACTGAAA
6396389 TTTTTTTCCTTCT-TTC
1 TTTTTTT-CTTCTGTTC
6396405 TTTTTTTCTTCTGTTC
1 TTTTTTTCTTCTGTTC
6396421 T
1 T
6396422 CCCTCCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTTTCTTCTGTTC
Found at i:6397348 original size:2 final size:2
Alignment explanation
Indices: 6397337--6397370 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6397327 AAAAGGATCT
6397337 TC TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6397371 TTTTATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6401580 original size:28 final size:28
Alignment explanation
Indices: 6401540--6401594 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
6401530 TTTTGCATAG
6401540 GCATAGAGACAAATTTACCCCTTTAGTT
1 GCATAGAGACAAATTTACCCCTTTAGTT
* *
6401568 GCATAGGGACAAATTTACCCTTTTAGT
1 GCATAGAGACAAATTTACCCCTTTAGT
6401595 ATTTACACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (28 bp):
GCATAGAGACAAATTTACCCCTTTAGTT
Found at i:6403029 original size:25 final size:25
Alignment explanation
Indices: 6402965--6403036 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
6402955 CATAGCTCTT
* *
6402965 ATGAGCTTCCTGATAATCAGCTCAC
1 ATGAGCTTCCTGTTATTCAGCTCAC
* * *
6402990 ATGAGTTTCCTGTTATTTAGCTCGC
1 ATGAGCTTCCTGTTATTCAGCTCAC
*
6403015 ATGAGCTTCCCGTTATTCAGCT
1 ATGAGCTTCCTGTTATTCAGCT
6403037 TGGAAGAGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATTCAGCTCAC
Done.