Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 103 of 410
Found at i:30443794 original size:41 final size:41
Alignment explanation
Indices: 30443727--30444069 Score: 272
Period size: 41 Copynumber: 8.4 Consensus size: 41
30443717 CGTTTGGGCC
* * *
30443727 TAAAAACGCCGCTATTGAT-CAG-TTTTAGTGGTGTTTGGA
1 TAAAAACGCCGCTATTTATCCAGTTTTTAGTGGCGTTTAGA
* * * *
30443766 CAAAAACGCCGCTTTTTCTCCAGTTTTTAGTGGCGTTTTGGA
1 TAAAAACGCCGCTATTTATCCAGTTTTTAGTGGCG-TTTAGA
*** * * *
30443808 TAAAAATATCGCTATTGAT-TAGTTTTTAGTGGCGTTTGGA
1 TAAAAACGCCGCTATTTATCCAGTTTTTAGTGGCGTTTAGA
* * * *
30443848 CAAAAACGCCGCTATTTCTCTAGTTTTTCA-TGGCATTTTAGA
1 TAAAAACGCCGCTATTTATCCAGTTTTT-AGTGGC-GTTTAGA
* * * * *
30443890 TAAAAACGCCACTATTGAT-TAG-TTTTAGTGGCATTTGGGA
1 TAAAAACGCCGCTATTTATCCAGTTTTTAGTGGCGTTT-AGA
* *
30443930 TAAAAACGCCGCTATTT-CCCTAGTTTTTAGTGGCGTTTAGT
1 TAAAAACGCCGCTATTTATCC-AGTTTTTAGTGGCGTTTAGA
* * *
30443971 TAAAAACACCGCTATTAAT-CTGTTTTTAGTGGCGTTTTAGA
1 TAAAAACGCCGCTATTTATCCAGTTTTTAGTGGCG-TTTAGA
* * * *
30444012 CAAAAACACCGCTATTTATCTA-TTTTTAGTGGTGTTTTAGA
1 TAAAAACGCCGCTATTTATCCAGTTTTTAGTGGCG-TTTAGA
*
30444053 TAAAAACACCGCTATTT
1 TAAAAACGCCGCTATTT
30444070 CTCATTTTTT
Statistics
Matches: 245, Mismatches: 45, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
39 19 0.08
40 60 0.24
41 114 0.47
42 52 0.21
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (41 bp):
TAAAAACGCCGCTATTTATCCAGTTTTTAGTGGCGTTTAGA
Found at i:30443845 original size:82 final size:81
Alignment explanation
Indices: 30443727--30444068 Score: 406
Period size: 82 Copynumber: 4.2 Consensus size: 81
30443717 CGTTTGGGCC
* * * *
30443727 TAAAAACGCCGCTATTGATCAGTTTTAGTGGTGTTTGGACAAAAACGCCGCTTTTTCTCCAGTTT
1 TAAAAACACCGCTATTGATTAGTTTTAGTGGCGTTTGGACAAAAACGCCGCTATTTCTCCAGTTT
*
30443792 TTAGTGGCGTTTTGGA
66 TTAGTGGCGTTTTAGA
* * *
30443808 TAAAAATATCGCTATTGATTAGTTTTTAGTGGCGTTTGGACAAAAACGCCGCTATTTCTCTAGTT
1 TAAAAACACCGCTATTGATTAG-TTTTAGTGGCGTTTGGACAAAAACGCCGCTATTTCTCCAGTT
*
30443873 TTTCA-TGGCATTTTAGA
65 TTT-AGTGGCGTTTTAGA
* * * *
30443890 TAAAAACGCCACTATTGATTAGTTTTAGTGGCATTTGGGATAAAAACGCCGCTATTTC-CCTAGT
1 TAAAAACACCGCTATTGATTAGTTTTAGTGGCGTTT-GGACAAAAACGCCGCTATTTCTCC-AGT
*
30443954 TTTTAGTGGCG-TTTAGT
64 TTTTAGTGGCGTTTTAGA
* * * * *
30443971 TAAAAACACCGCTATTAATCT-GTTTTTAGTGGCGTTTTAGACAAAAACACCGCTATTTATCTA-
1 TAAAAACACCGCTATTGAT-TAG-TTTTAGTGGCG-TTTGGACAAAAACGCCGCTATTTCTCCAG
*
30444034 TTTTTAGTGGTGTTTTAGA
63 TTTTTAGTGGCGTTTTAGA
30444053 TAAAAACACCGCTATT
1 TAAAAACACCGCTATT
30444069 TCTCATTTTT
Statistics
Matches: 222, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
81 66 0.30
82 151 0.68
83 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (81 bp):
TAAAAACACCGCTATTGATTAGTTTTAGTGGCGTTTGGACAAAAACGCCGCTATTTCTCCAGTTT
TTAGTGGCGTTTTAGA
Found at i:30443915 original size:123 final size:123
Alignment explanation
Indices: 30443787--30444068 Score: 320
Period size: 123 Copynumber: 2.3 Consensus size: 123
30443777 CTTTTTCTCC
* * * * *
30443787 AGTTTTTAGTGGCGTTTTGGATAAAAATATCGCTATTGATTAGTTTTTAGTGGCGTTTGGACAAA
1 AGTTTTTAGTGGCGTTTTGGATAAAAACACCGCTATTCACTAGTTTTTAGTGGCGTTTAGACAAA
* ** * *
30443852 AACGCCGCTATTTCTCTAGTTTTTCA-TGGCATTTTAGATAAAAACGCCACTATTGAT-T
66 AACACCGCTATTAATCT-GTTTTT-AGTGGCATTTTAGACAAAAACACCACTATTGATCT
* * * * **
30443910 AG-TTTTAGTGGCATTTGGGATAAAAACGCCGCTATTTCCCTAGTTTTTAGTGGCGTTTAGTTAA
1 AGTTTTTAGTGGCGTTTTGGATAAAAACACCGCTA-TTCACTAGTTTTTAGTGGCGTTTAGACAA
* * *
30443974 AAACACCGCTATTAATCTGTTTTTAGTGGCGTTTTAGACAAAAACACCGCTATTTATCT
65 AAACACCGCTATTAATCTGTTTTTAGTGGCATTTTAGACAAAAACACCACTATTGATCT
* *
30444033 A-TTTTTAGTGGTGTTTTAGATAAAAACACCGCTATT
1 AGTTTTTAGTGGCGTTTTGGATAAAAACACCGCTATT
30444069 TCTCATTTTT
Statistics
Matches: 131, Mismatches: 24, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
121 1 0.01
122 61 0.47
123 69 0.53
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (123 bp):
AGTTTTTAGTGGCGTTTTGGATAAAAACACCGCTATTCACTAGTTTTTAGTGGCGTTTAGACAAA
AACACCGCTATTAATCTGTTTTTAGTGGCATTTTAGACAAAAACACCACTATTGATCT
Found at i:30443998 original size:163 final size:163
Alignment explanation
Indices: 30443727--30444068 Score: 451
Period size: 163 Copynumber: 2.1 Consensus size: 163
30443717 CGTTTGGGCC
** *
30443727 TAAAAACGCCGCTATTGATCAGTTTTAGTGGTGTTTGGACAAAAACGCCGCTTTTTCTCCAGTTT
1 TAAAAACGCCGCTATTGATCAGTTTTAGTGGCATTTGGACAAAAACGCCGCTATTTCTCCAGTTT
* * * * * *
30443792 TTAGTGGCGTTTTGGATAAAAATATCGCTATTGATTAGTTTTTAGTGGCG-TTTGGACAAAAACG
66 TTAGTGGCGTTTTAGATAAAAACACCGCTATTAATTAGTTTTTAGTGGCGTTTTAGACAAAAACA
*
30443856 CCGCTATTTCTCTAGTTTTTCA-TGGCATTTTAGA
131 CCGCTATTTATCTA-TTTTT-AGTGGCATTTTAGA
* * *
30443890 TAAAAACGCCACTATTGATTAGTTTTAGTGGCATTTGGGATAAAAACGCCGCTATTTC-CCTAGT
1 TAAAAACGCCGCTATTGATCAGTTTTAGTGGCATTT-GGACAAAAACGCCGCTATTTCTCC-AGT
*
30443954 TTTTAGTGGCG-TTTAGTTAAAAACACCGCTATTAATCT-GTTTTTAGTGGCGTTTTAGACAAAA
64 TTTTAGTGGCGTTTTAGATAAAAACACCGCTATTAAT-TAGTTTTTAGTGGCGTTTTAGACAAAA
**
30444017 ACACCGCTATTTATCTATTTTTAGTGGTGTTTTAGA
128 ACACCGCTATTTATCTATTTTTAGTGGCATTTTAGA
*
30444053 TAAAAACACCGCTATT
1 TAAAAACGCCGCTATT
30444069 TCTCATTTTT
Statistics
Matches: 156, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
162 1 0.01
163 96 0.62
164 59 0.38
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (163 bp):
TAAAAACGCCGCTATTGATCAGTTTTAGTGGCATTTGGACAAAAACGCCGCTATTTCTCCAGTTT
TTAGTGGCGTTTTAGATAAAAACACCGCTATTAATTAGTTTTTAGTGGCGTTTTAGACAAAAACA
CCGCTATTTATCTATTTTTAGTGGCATTTTAGA
Found at i:30445776 original size:93 final size:93
Alignment explanation
Indices: 30445664--30445835 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
30445654 CGCCCATAAG
* *
30445664 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
30445729 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
30445757 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
30445822 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30445836 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30445832 original size:46 final size:46
Alignment explanation
Indices: 30445657--30445832 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
30445647 TGTAACCCGC
* * *
30445657 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
30445703 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30445753 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30445796 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30445833 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30451964 original size:26 final size:26
Alignment explanation
Indices: 30451895--30451964 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
30451885 GTAGAATATT
* *
30451895 AGAATGATAAAATATA-AATATATTA
1 AGAATAATAAAATATATAATATAATA
* * * *
30451920 AGAAATACTATAATA-ATAATGTAATC
1 AG-AATAATAAAATATATAATATAATA
30451946 AGAATAATAAAATATATAA
1 AGAATAATAAAATATATAA
30451965 GATTATTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
25 13 0.38
26 21 0.62
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (26 bp):
AGAATAATAAAATATATAATATAATA
Found at i:30455402 original size:40 final size:39
Alignment explanation
Indices: 30455284--30455409 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
30455274 TTCGAATGAT
*
30455284 ATCCGGGCTAAG-TCCCGAAGGCTTT-GTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCTTTCGTGC-AAGT-ACTAA
* * * **
30455324 ATCCGGACTAAGATCCGACGGCATACGTGTGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
*
30455364 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
30455404 ATCCGG
1 ATCCGG
30455410 GTTGAGTCCC
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
40 65 0.93
41 5 0.07
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (39 bp):
ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAGTACTAA
Found at i:30455462 original size:80 final size:80
Alignment explanation
Indices: 30455284--30455471 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
30455274 TTCGAATGAT
* *
30455284 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
*
30455349 CGTGTGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
30455364 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
30455425 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
30455445 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
30455472 ATGTGTAGCC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 2 0.02
80 78 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:30463913 original size:40 final size:40
Alignment explanation
Indices: 30463835--30464058 Score: 294
Period size: 40 Copynumber: 5.5 Consensus size: 40
30463825 ACCCAAGTAT
* *
30463835 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
30463874 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30463914 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30463954 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
30463997 CTTCGGGACTTAGCCTGGATATAGTAACTTA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAATGC
30464037 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30464059 CATCAGAATA
Statistics
Matches: 164, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 12 0.07
40 115 0.70
41 1 0.01
43 34 0.21
44 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30464032 original size:83 final size:79
Alignment explanation
Indices: 30463835--30464058 Score: 290
Period size: 83 Copynumber: 2.8 Consensus size: 79
30463825 ACCCAAGTAT
* * ** *
30463835 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTAACTTACACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
**
30463900 ACTAGCATGAATGC
66 ACTAGCACAAATGC
* *
30463914 CTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG
1 CTTCGGGACTTAG-CCGGATATAGTAACTTA-CACAAATGCCTTCGGGACTTAGCCCGGATATAG
30463978 -CAACTACTCGCACAAATGC
64 TC-ACTA---GCACAAATGC
30463997 CTTCGGGACTTAGCCTGGATATAGTAACTTACACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCC-GGATATAGTAACTTACACAAATGCCTTCGGGACTTAGCCCGGATAT
30464059 CATCAGAATA
Statistics
Matches: 126, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 13 0.10
80 47 0.37
82 2 0.02
83 62 0.49
84 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTAACTTACACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:30467050 original size:39 final size:39
Alignment explanation
Indices: 30466988--30467131 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
30466978 CCGCACAAAG
* *
30466988 GCCTTCGGGACTTAACCCGGATATCACAATTTGGACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * * *
30467028 GCCTTCGGGCTTAGCCCGGATATTATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
30467067 GCCTTCGGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
30467106 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
30467132 TCGAACATTC
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 83 0.90
40 9 0.10
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:30467106 original size:78 final size:79
Alignment explanation
Indices: 30466948--30467128 Score: 256
Period size: 78 Copynumber: 2.3 Consensus size: 79
30466938 TCGTTCAAAC
* * *
30466948 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATGATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
*
30467013 ACAATTTGGACAATT
65 ACAATTTGCACAATT
* * ** * *
30467028 GCCTTCGGGCTTAGCCCGGATATTATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATGATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
30467092 CAATTTGCACAATT
66 CAATTTGCACAATT
30467106 GCCTTCGGGCTTAGCCCGGATAT
1 GCCTTCGGGCTTAGCCCGGATAT
30467129 CACTCGAACA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 50 0.55
79 32 0.35
80 9 0.10
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATGATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:30469442 original size:2 final size:2
Alignment explanation
Indices: 30469435--30469461 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30469425 TTAAATTTTA
30469435 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
30469462 GGTCTAATAT
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:30469797 original size:21 final size:23
Alignment explanation
Indices: 30469764--30469812 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
30469754 AAATTTCAAC
30469764 TAATAATTCTAAA-TTAAATT-A
1 TAATAATTCTAAAGTTAAATTAA
* * *
30469785 TAATTATTTTAAAGTTAATTTAA
1 TAATAATTCTAAAGTTAAATTAA
30469808 TAATA
1 TAATA
30469813 TGATCAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.50
22 6 0.27
23 5 0.23
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TAATAATTCTAAAGTTAAATTAA
Found at i:30471623 original size:38 final size:38
Alignment explanation
Indices: 30471570--30471727 Score: 172
Period size: 38 Copynumber: 3.9 Consensus size: 38
30471560 TTTCAAATTA
* * *
30471570 ACATGTATAACCGTGGCATATCCATTTAGCAGCACGTT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACGTT
* *
30471608 ACATGTTTAATCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACG-T--T
*
30471649 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGT-T-TAACCGTGGCATATCCACTTAGCACCACGTT
*
30471693 ACATGTTTAACCGTGGTATATCCACTTAGCACCAC
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCAC
30471728 ATTAATGAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
38 58 0.57
39 2 0.02
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 2 0.02
47 27 0.27
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTTTAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:30471673 original size:85 final size:84
Alignment explanation
Indices: 30471577--30471783 Score: 351
Period size: 85 Copynumber: 2.4 Consensus size: 84
30471567 TTAACATGTA
* *
30471577 TAACCGTGGCATATCCATTTAGCAGCACGTTACATGTTTAATCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCA-CACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
30471642 CGTTAATGAATCAATATATG
65 CATTAATGAATCAATATATG
30471662 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCA-CACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
30471727 CATTAATGAATCAATATATG
65 CATTAATGAATCAATATATG
*
30471747 TAACTGTGGCATATCCACTTAGCACTACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCAC-ACGTTACATGT
30471784 ATCAATATGT
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
84 1 0.01
85 115 0.99
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (84 bp):
TAACCGTGGCATATCCACTTAGCACACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCAC
ATTAATGAATCAATATATG
Found at i:30471688 original size:47 final size:47
Alignment explanation
Indices: 30471619--30471822 Score: 255
Period size: 47 Copynumber: 4.5 Consensus size: 47
30471609 CATGTTTAAT
30471619 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAC
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAC
* *
30471666 CGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-TAAC
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAC
*
30471704 CGTGGTATATCCACTTAGCACCACATTAATGAATCAATATATGTAAC
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAC
* * * * * *
30471751 TGTGGCATATCCACTTAGCACTACGTTACATGTATCAATATGTGTAAT
1 CGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAAC
30471799 CGTGGTATATCCACTTAGCACCAC
1 CGTGGTATATCCACTTAGCACCAC
30471823 ATTTTTCCAT
Statistics
Matches: 132, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
38 27 0.20
39 2 0.02
40 3 0.02
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.02
46 2 0.02
47 52 0.39
48 37 0.28
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (47 bp):
CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAC
Found at i:30471809 original size:48 final size:46
Alignment explanation
Indices: 30471695--30471825 Score: 172
Period size: 48 Copynumber: 2.8 Consensus size: 46
30471685 ACCACGTTAC
*
30471695 ATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATGAATCAAT
1 ATGTGTAA-CGTGGTATATCCACTTAGCACCACATTAATGAATCAAT
* * * * *
30471742 ATATGTAACTGTGGCATATCCACTTAGCACTACGTTACATGTATCAAT
1 ATGTGTAAC-GTGGTATATCCACTTAGCACCACATTA-ATGAATCAAT
30471790 ATGTGTAATCGTGGTATATCCACTTAGCACCACATT
1 ATGTGTAA-CGTGGTATATCCACTTAGCACCACATT
30471826 TTTCCATTCC
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
46 1 0.01
47 30 0.42
48 39 0.55
49 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (46 bp):
ATGTGTAACGTGGTATATCCACTTAGCACCACATTAATGAATCAAT
Found at i:30476998 original size:30 final size:30
Alignment explanation
Indices: 30476964--30477128 Score: 208
Period size: 30 Copynumber: 5.5 Consensus size: 30
30476954 TAAATCTTAG
*
30476964 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
* * *
30476994 CCTTTTCCACCACCAACTCTACTAGCCACT
1 CCTTCTCCACCACCAACTCCACTAGCCACA
*
30477024 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
*
30477054 CCTTCTCCACCACCAAATCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
** * *
30477084 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-CTCCACCACCAACTCCACTAGCCACA
30477114 -CTTGCTCCACCACCA
1 CCTT-CTCCACCACCA
30477129 CTTGTACCTA
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
29 3 0.03
30 117 0.98
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.22
Consensus pattern (30 bp):
CCTTCTCCACCACCAACTCCACTAGCCACA
Found at i:30477716 original size:14 final size:13
Alignment explanation
Indices: 30477697--30477753 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
30477687 CATATATATA
30477697 TATTTATACTATTT
1 TATTTATA-TATTT
30477711 TATTTATATATCTT
1 TATTTATATAT-TT
30477725 TAATATTATAT-TATT
1 T-AT-TTATATAT-TT
*
30477740 TATATATATATTT
1 TATTTATATATTT
30477753 T
1 T
30477754 TTTTTACATG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 11 0.30
14 14 0.38
15 6 0.16
16 6 0.16
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTATATATTT
Found at i:30477744 original size:25 final size:24
Alignment explanation
Indices: 30477691--30477748 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 24
30477681 ATGTTACATA
*
30477691 TATATATATTTATACTATTTTATT
1 TATATATATTTATACTATATTATT
* *
30477715 TATATATCTTTAATATTATATTATT
1 TATATATATTT-ATACTATATTATT
30477740 TATATATAT
1 TATATATAT
30477749 ATTTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATATATTTATACTATATTATT
Found at i:30477816 original size:25 final size:25
Alignment explanation
Indices: 30477785--30477833 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
30477775 ATATATCTTA
**
30477785 ACTATATTATATATGTATTTTTAAC
1 ACTATATTATATACATATTTTTAAC
*
30477810 ACTATATTATGTACATATTTTTAA
1 ACTATATTATATACATATTTTTAA
30477834 TATTATCACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (25 bp):
ACTATATTATATACATATTTTTAAC
Found at i:30478038 original size:16 final size:15
Alignment explanation
Indices: 30477979--30478040 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 15
30477969 TTTGTCAATA
30477979 TTAATTATTATTATTATT
1 TTAA-TATT-TTA-TATT
* *
30477997 CTAATAATTTGATATT
1 TTAAT-ATTTTATATT
30478013 TTAATATTTTATATT
1 TTAATATTTTATATT
30478028 TTATATATTTTAT
1 TTA-ATATTTTAT
30478041 TATTCACATC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 12 0.32
16 17 0.45
17 3 0.08
18 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TTAATATTTTATATT
Found at i:30489779 original size:74 final size:75
Alignment explanation
Indices: 30489681--30489978 Score: 309
Period size: 75 Copynumber: 3.9 Consensus size: 75
30489671 GTTTCATAAT
* ** *
30489681 TCAACTCATACTGCAAGA-AGTGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTTCAATTTCTGT
1 TCAACTCATATTGCAAGAGA-TGAGTTGAGCCTCGGGCACACGCTGAGGTATTTTCAATTTCTGT
30489744 CTTTCAAAAAA
65 CTTTCAAAAAA
* * *
30489755 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG-ACACGCTGAGGTATTGTCAATTTTTTTT
1 TCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGCACACGCTGAGGTATTTTCAA---TTTCT
*
30489819 AGATTTTTCAAAAGAA
63 -G-TCTTTCAAAA-AA
* * ** *
30489835 TCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGCGTTTTCAATTTCT-A
1 TCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGG-CACACGCTGAGGTATTTTCAATTTCTGT
30489899 CTTTTC-AAAAA
65 C-TTTCAAAAAA
* * * * *
30489910 TCAACTCATATTGCTAGAGGTGAGTTGAGTCTCGGGCCACACGCTGAGGTCTTTTCAAATTCTGT
1 TCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGG-CACACGCTGAGGTATTTTCAATTTCTGT
30489975 CTTT
65 CTTT
30489979 AATTTCTGTT
Statistics
Matches: 188, Mismatches: 25, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
74 48 0.26
75 62 0.33
76 4 0.02
77 8 0.04
78 1 0.01
79 13 0.07
80 35 0.19
82 17 0.09
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (75 bp):
TCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGCACACGCTGAGGTATTTTCAATTTCTGTC
TTTCAAAAAA
Found at i:30489866 original size:80 final size:75
Alignment explanation
Indices: 30489681--30489959 Score: 296
Period size: 74 Copynumber: 3.7 Consensus size: 75
30489671 GTTTCATAAT
* * ** * * *
30489681 TCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTTCAATTTCT-GT
1 TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCACACGCTGAGGTATTGTCAATTTCTACT
30489744 CTTTCAAAAAA
66 -TTTCAAAAAA
* * *
30489755 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG-ACACGCTGAGGTATTGTCAATTTTTTTT
1 TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCACACGCTGAGGTATTGTCAA---TTTCT
*
30489819 AGATTTTTCAAAAGAA
63 --ACTTTTCAAAA-AA
* ** *
30489835 TCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGCGTTTTCAATTTCTAC
1 TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG-CACACGCTGAGGTATTGTCAATTTCTAC
30489900 TTTTC-AAAAA
65 TTTTCAAAAAA
* *
30489910 TCAACTCATATTGCTAGAGGTGAGTTGAGTCTCGGGCCACACGCTGAGGT
1 TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG-CACACGCTGAGGT
30489960 CTTTTCAAAT
Statistics
Matches: 173, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
74 48 0.28
75 47 0.27
76 3 0.02
77 10 0.06
79 12 0.07
80 36 0.21
82 17 0.10
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (75 bp):
TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCACACGCTGAGGTATTGTCAATTTCTACT
TTTCAAAAAA
Found at i:30490083 original size:14 final size:14
Alignment explanation
Indices: 30490064--30490095 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
30490054 CATTGAGGTA
30490064 TTTTCAATTTATGC
1 TTTTCAATTTATGC
30490078 TTTTCAATTTATGC
1 TTTTCAATTTATGC
30490092 TTTT
1 TTTT
30490096 TAAGAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:30490096 original size:105 final size:104
Alignment explanation
Indices: 30489905--30490098 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 104
30489895 TCTACTTTTC
* * *
30489905 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGTCTCGGGCCACACGCTGAGGTCTTTTCAAAT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCCACAC-CTGAGGTATTTTCAAAT
* *
30489970 TCTGTCTTTAATTTCTGTTTTTTAAATTTCTGTGTTTCAA
65 TATGTCTTTAATTTATGTTTTTTAAATTTCTGTGTTTCAA
* *
30490010 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGG-CACA-TTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGCCACACCTGAGGTATTTTCAAAT
*
30490073 TATG-CTTTTCAATTTATGCTTTTTAA
65 TATGTC-TTT-AATTTATGTTTTTTAA
30490099 GAATCAACTC
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
102 1 0.01
103 20 0.26
104 14 0.18
105 40 0.51
106 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (104 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCCACACCTGAGGTATTTTCAAATT
ATGTCTTTAATTTATGTTTTTTAAATTTCTGTGTTTCAA
Found at i:30490174 original size:13 final size:13
Alignment explanation
Indices: 30490153--30490201 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
30490143 CGCCAAGGTC
*
30490153 TTTTCAAATTCTA
1 TTTTTAAATTCTA
*
30490166 TTTTTAAATTCTTT
1 TTTTTAAATTC-TA
*
30490180 TTTTTAATTTCTA
1 TTTTTAAATTCTA
30490193 TGTTTTAAA
1 T-TTTTAAA
30490202 AAAAAAACTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTTTAAATTCTA
Found at i:30490290 original size:192 final size:193
Alignment explanation
Indices: 30489886--30490323 Score: 539
Period size: 192 Copynumber: 2.3 Consensus size: 193
30489876 CGCTGAGGCG
* * * *
30489886 TTTTCAATTTCTACTTTTCAAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGTCTCGGGCCAC
1 TTTTCAATTTATGCTTTTTAAAGAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCGGGCCAC
** * * *
30489950 ACGCTGAGGTCTTTTCAAATTCTGTCTTTAATTTCTGTTTTTTAAATTTCTGTGTTTCAAAAAAA
66 ACGCCAAGGTCTTTTCAAATTCTATCTTTAAATTCTGTTTTTTAAATTTCTATGTTTCAAAAAAA
* *
30490015 TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACATTGAGGTATTTTCAATTTATGC
131 TAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACATTGAGCTATTTTCAATTTATGC
*
30490078 TTTTCAATTTATGCTTTTT-AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCAC
1 TTTTCAATTTATGCTTTTTAAAGAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCGGGCCAC
* * *
30490142 ACGCCAAGGTCTTTTCAAATTCTATTTTTAAATTCT-TTTTTTTAATTTCTATGTTTTAAAAAAA
66 ACGCCAAGGTCTTTTCAAATTCTATCTTTAAATTCTGTTTTTTAAATTTCTATGTTTCAAAAAAA
* * * * * *
30490206 -AAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTTAATTTCTG
131 TAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-GCACAT--TGAGCTATTTTCAATTTATG
30490269 -
193 C
** * * **
30490269 TTTT-AATGTCTATTTTTTTTAAAGAGTCAATTCATATTGCAAGAAATGAGTTGAG
1 TTTTCAAT-T-TATGCTTTTTAAAGAATCAACTCATATTGCAAGAGGTGAGTTGAG
30490324 CTCAAGATCA
Statistics
Matches: 212, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
189 2 0.01
190 36 0.17
191 32 0.15
192 113 0.53
193 29 0.14
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (193 bp):
TTTTCAATTTATGCTTTTTAAAGAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCGGGCCAC
ACGCCAAGGTCTTTTCAAATTCTATCTTTAAATTCTGTTTTTTAAATTTCTATGTTTCAAAAAAA
TAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACATTGAGCTATTTTCAATTTATGC
Found at i:30491007 original size:30 final size:30
Alignment explanation
Indices: 30490973--30491137 Score: 226
Period size: 30 Copynumber: 5.5 Consensus size: 30
30490963 TAAATCTTAG
*
30490973 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
* *
30491003 CCTTTTCCACCACCAACTCTACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
*
30491033 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
30491063 CCTTCTCCACCACCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
** * *
30491093 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-CTCCACCACCAACTCCACTAGCCACA
30491123 -CTTGCTCCACCACCA
1 CCTT-CTCCACCACCA
30491138 CTTGTACCTA
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
29 3 0.02
30 121 0.98
ACGTcount: A:0.26, C:0.49, G:0.04, T:0.21
Consensus pattern (30 bp):
CCTTCTCCACCACCAACTCCACTAGCCACA
Found at i:30491730 original size:16 final size:15
Alignment explanation
Indices: 30491697--30491767 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
30491687 CTATATTACG
*
30491697 TATATATATATT-TT
1 TATATATATTTTATT
*
30491711 TATA-CTATTTTATT
1 TATATATATTTTATT
* *
30491725 TATATATCTTTAATAT
1 TATATATATTTTAT-T
*
30491741 TATAT-TATTTATATA
1 TATATATATTT-TATT
30491756 TATATATATTTT
1 TATATATATTTT
30491768 TTCTACATGT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
13 5 0.11
14 10 0.23
15 16 0.36
16 13 0.30
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATATATTTTATT
Found at i:30491754 original size:25 final size:24
Alignment explanation
Indices: 30491674--30491756 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 24
30491664 ATACATTAGG
*
30491674 TATATTTTAAATTCTATATTACGTATATA
1 TATATTTT-AATACTATATTA--T-T-TA
* *
30491703 TATATTTTTATACTATTTTATTTA
1 TATATTTTAATACTATATTATTTA
*
30491727 TATATCTTTAATATTATATTATTTA
1 TATAT-TTTAATACTATATTATTTA
30491752 TATAT
1 TATAT
30491757 ATATATATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.15
25 22 0.47
26 1 0.02
28 9 0.19
29 8 0.17
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (24 bp):
TATATTTTAATACTATATTATTTA
Found at i:30491829 original size:25 final size:25
Alignment explanation
Indices: 30491798--30491846 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
30491788 ATATATCTTA
**
30491798 ACTATATTATATATGTATTTTTAAC
1 ACTATATTATATACATATTTTTAAC
*
30491823 ACTATATTATGTACATATTTTTAA
1 ACTATATTATATACATATTTTTAA
30491847 TATTATCACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (25 bp):
ACTATATTATATACATATTTTTAAC
Found at i:30492024 original size:16 final size:15
Alignment explanation
Indices: 30492000--30492047 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
30491990 TAATTATTAT
*
30492000 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
30492016 TATTTTAATATTTTA
1 TATTTTAATATTTTA
30492031 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
30492047 T
1 T
30492048 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:30492035 original size:7 final size:8
Alignment explanation
Indices: 30492000--30492051 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
30491990 TAATTATTAT
*
30492000 TATTCTAA
1 TATTTTAA
*
30492008 TATTTTGA
1 TATTTTAA
30492016 TATTTTAA
1 TATTTTAA
30492024 TATTTT-A
1 TATTTTAA
30492031 TATTTTATA
1 TATTTTA-A
*
30492040 TATTTTAT
1 TATTTTAA
30492048 TATT
1 TATT
30492052 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:30494892 original size:19 final size:19
Alignment explanation
Indices: 30494857--30494896 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
30494847 CGTGTGGGCC
*
30494857 TACGAGCCCAATGGGCCCA
1 TACGAGCCCAACGGGCCCA
30494876 TACG-GCCCAACGAGGCCCA
1 TACGAGCCCAACG-GGCCCA
30494895 TA
1 TA
30494897 ATGGCCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.28, C:0.38, G:0.25, T:0.10
Consensus pattern (19 bp):
TACGAGCCCAACGGGCCCA
Found at i:30496487 original size:29 final size:29
Alignment explanation
Indices: 30496445--30496502 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
30496435 TTTTGCTCGA
*
30496445 CTTAGTTTCTCACATTGGGGTGCGCCGGT
1 CTTAGTTTCTCACATTGGGGTACGCCGGT
30496474 CTTAGTTTCTCACATTGGGGTACGCCGGT
1 CTTAGTTTCTCACATTGGGGTACGCCGGT
30496503 TCTGTTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.12, C:0.24, G:0.29, T:0.34
Consensus pattern (29 bp):
CTTAGTTTCTCACATTGGGGTACGCCGGT
Found at i:30505289 original size:49 final size:49
Alignment explanation
Indices: 30505210--30505326 Score: 155
Period size: 49 Copynumber: 2.4 Consensus size: 49
30505200 GGCATGTTCT
* *
30505210 AGACAGGTCTTACACTAACTTTCATATATCGAG-GCCGATGCCGTGTCCC
1 AGACAGGTCTTACACTAACTCTCATATATCG-GTGCCGATGCCATGTCCC
* ** * *
30505259 AGACAGGTTTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCC
1 AGACAGGTCTTACACTAACTCTCATATATCGGTGCCGATGCCATGTCCC
30505308 AGACAGGTCTTACACTAAC
1 AGACAGGTCTTACACTAAC
30505327 ACACAACAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 56 0.98
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (49 bp):
AGACAGGTCTTACACTAACTCTCATATATCGGTGCCGATGCCATGTCCC
Found at i:30507343 original size:30 final size:30
Alignment explanation
Indices: 30507257--30507354 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
30507247 TTAAACTAAA
* *
30507257 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
30507287 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
30507317 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
30507347 ATGAGCTA
1 ATGAGCTA
30507355 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:30509633 original size:30 final size:30
Alignment explanation
Indices: 30509562--30509644 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
30509552 CTTTTGTTTC
* *
30509562 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
30509593 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
30509622 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
30509645 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:30509644 original size:18 final size:18
Alignment explanation
Indices: 30509595--30509650 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
30509585 CACTCTCAAA
* *
30509595 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
30509612 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
30509630 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
30509649 TT
1 TT
30509651 CAAAGACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:30509651 original size:12 final size:12
Alignment explanation
Indices: 30509620--30509644 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30509610 TTTTTCAATC
30509620 TCATTTTCTTTT
1 TCATTTTCTTTT
30509632 TCATTTTCTTTT
1 TCATTTTCTTTT
30509644 T
1 T
30509645 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:30509662 original size:12 final size:12
Alignment explanation
Indices: 30509647--30509677 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30509637 TTCTTTTTGC
30509647 TTTTCAAAGACT
1 TTTTCAAAGACT
*
30509659 TTTTCAAAGGCT
1 TTTTCAAAGACT
30509671 TTTTCAA
1 TTTTCAA
30509678 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:30509735 original size:5 final size:5
Alignment explanation
Indices: 30509725--30509781 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
30509715 CTCTTGCCTC
*
30509725 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
30509772 TCTTT TCTTT
1 TCTTT TCTTT
30509782 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:30509765 original size:15 final size:14
Alignment explanation
Indices: 30509725--30509781 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
30509715 CTCTTGCCTC
*
30509725 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
30509740 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
30509755 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
30509772 TCTTTTCTTT
1 TCTTTTCTTT
30509782 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:30509782 original size:21 final size:21
Alignment explanation
Indices: 30509725--30509792 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
30509715 CTCTTGCCTC
* *
30509725 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
30509746 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
30509767 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
30509787 CTCTTT
1 -TCTTT
30509793 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:30512486 original size:30 final size:30
Alignment explanation
Indices: 30512400--30512497 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
30512390 TTAAACTAAA
* *
30512400 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
30512430 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
30512460 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
30512490 ATGAGCTA
1 ATGAGCTA
30512498 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:30513231 original size:196 final size:196
Alignment explanation
Indices: 30512897--30513282 Score: 528
Period size: 196 Copynumber: 2.0 Consensus size: 196
30512887 ACCTTGTAAG
* * * *
30512897 ATAATTGGTATGGGCACCGTTTAGATTAGAATGCATGGCAGAATTATTAGAACTTTTTCAGATGT
1 ATAATTGGTATGGGCACCATTCAAATCAGAATGCATGGCAGAATTATTAGAACTTTTTCAGATGT
* **
30512962 CAGACATGTGATAGATTTAAAGAAAAACATCATCTCCCTAGGAAATTTGGACTCAAAGGGTTGTA
66 CAAACATGTGATAGATTTAAAGAAAAACATCATCTCCCTAGGAAATTTAAACTCAAAGGGTTGTA
* * * *
30513027 GAATCAACATCGAGTCAAA-TGACGTTAAGGTATCTCGTGGTGCTTTAGTTTTGATGAGAGCTTG
131 GAATCAACATCGAGTCAAACAG-CATTAAGGTATCTCGTGGTGATTTAGTTTTAATGAGAGCTTG
30513091 AA
195 AA
* *
30513093 ATAATTGGTATGGGCACCATTCAAATCAGAATGTA-GGATAGAATTATTAGAACTTTTTCAGATG
1 ATAATTGGTATGGGCACCATTCAAATCAGAATGCATGG-CAGAATTATTAGAACTTTTTCAGATG
* * * * **
30513157 TTAAACATGTGACT-GATTTAAAGAAAAACCTCATTTCCTTAGGAAATTTAAACTTGAAGGGTTG
65 TCAAACATGTGA-TAGATTTAAAGAAAAACATCATCTCCCTAGGAAATTTAAACTCAAAGGGTTG
*
30513221 T-GAAATCAACATCGAGTCAAACAGCATTAAGGTGTCTCGTGGTGATTTAGTTTTAATGAGAG
129 TAG-AATCAACATCGAGTCAAACAGCATTAAGGTATCTCGTGGTGATTTAGTTTTAATGAGAG
30513283 GTCAAAAGAC
Statistics
Matches: 166, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
195 3 0.02
196 161 0.97
197 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.32
Consensus pattern (196 bp):
ATAATTGGTATGGGCACCATTCAAATCAGAATGCATGGCAGAATTATTAGAACTTTTTCAGATGT
CAAACATGTGATAGATTTAAAGAAAAACATCATCTCCCTAGGAAATTTAAACTCAAAGGGTTGTA
GAATCAACATCGAGTCAAACAGCATTAAGGTATCTCGTGGTGATTTAGTTTTAATGAGAGCTTGA
A
Found at i:30519785 original size:2 final size:2
Alignment explanation
Indices: 30519762--30519809 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
30519752 AGAATTATTT
* * *
30519762 TA TA TG TA TA TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30519804 TA TA TA
1 TA TA TA
30519810 AAGACAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30520194 original size:36 final size:36
Alignment explanation
Indices: 30520147--30520220 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
30520137 AATAATTTGC
30520147 ATGTATAATTATGTGTTTTTAAAATTGGAACCAATA
1 ATGTATAATTATGTGTTTTTAAAATTGGAACCAATA
30520183 ATGTATAATTATGTGTTTTTAAAATTGGAACCAATA
1 ATGTATAATTATGTGTTTTTAAAATTGGAACCAATA
30520219 AT
1 AT
30520221 TTAGCAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (36 bp):
ATGTATAATTATGTGTTTTTAAAATTGGAACCAATA
Found at i:30529637 original size:40 final size:40
Alignment explanation
Indices: 30529592--30529759 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
30529582 CGGAATATAA
*
30529592 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
30529632 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
30529672 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
30529712 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
30529752 CCGGATAT
1 CCGGATAT
30529760 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 104 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30529742 original size:80 final size:80
Alignment explanation
Indices: 30529608--30529759 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
30529598 ATAACCATGT
* *
30529608 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
30529673 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
30529688 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
30529751 CCCGGATAT
64 CCCGGATAT
30529760 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:30535414 original size:35 final size:35
Alignment explanation
Indices: 30535375--30535444 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
30535365 ACAAGAATTA
30535375 GGGTAATTACACCGATAATTAGCCATAATGACTTT
1 GGGTAATTACACCGATAATTAGCCATAATGACTTT
*
30535410 GGGTAATTACACCGATAATTAGCCGTAATGACTTT
1 GGGTAATTACACCGATAATTAGCCATAATGACTTT
30535445 CAAACTTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (35 bp):
GGGTAATTACACCGATAATTAGCCATAATGACTTT
Found at i:30546151 original size:29 final size:29
Alignment explanation
Indices: 30546119--30546191 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
30546109 CTTCGAGCTC
* * *
30546119 GCACACCTAGTGCCGTATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
30546148 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
30546177 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
30546192 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:30547392 original size:25 final size:24
Alignment explanation
Indices: 30547364--30547422 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
30547354 TTTTTTTCCT
*
30547364 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTCTTTTTCTTCAT-TTCTC
* *
30547389 TTTCTTTCTTTTTTTTCATTTCTT
1 TTTCTTTCTTTTTCTTCATTTCTC
30547413 TATTCTTTCT
1 T-TTCTTTCT
30547423 ACATAATCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTCTTTCTTTTTCTTCATTTCTC
Found at i:30555186 original size:27 final size:27
Alignment explanation
Indices: 30555152--30555297 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
30555142 TGGATAAGTT
* *
30555152 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
30555179 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
30555206 ATAGAATTACCGAAACACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
30555233 GTAGAAATACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
30555260 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
30555287 GTAAAATTACC
1 GTAGAATTACC
30555298 AATTTGCCCC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:30562596 original size:54 final size:54
Alignment explanation
Indices: 30562513--30562657 Score: 211
Period size: 54 Copynumber: 2.7 Consensus size: 54
30562503 GGATAAGTTG
* *
30562513 TAGAATTACCGAAATATCCC-TGTAAGGTAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACCAAAATA-CCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGA
* *
30562567 TAGAATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGG
1 TAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGA
* * *
30562621 TAGAATTACCAAGATACCCTTGTGGGGTAAAATTACC
1 TAGAATTACCAAAATACCCTTGTAGGGTAGAATTACC
30562658 ATTTTGCCCC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 3 0.04
54 79 0.96
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (54 bp):
TAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGA
Found at i:30562658 original size:27 final size:26
Alignment explanation
Indices: 30562512--30562658 Score: 177
Period size: 27 Copynumber: 5.5 Consensus size: 26
30562502 TGGATAAGTT
* *
30562512 GTAGAATTACCGAAATATCCCTGTAAG
1 GTAGAATTACC-AAATACCCCTGTAGG
30562539 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACC-AAATACCCCTGTAGG
* *
30562566 ATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACC-AAATACCCCTGTAGG
*
30562593 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACC-AAATACCCCTGTAGG
* *
30562620 GTAGAATTACCAAGATACCCTTGTGGG
1 GTAGAATTACCAA-ATACCCCTGTAGG
*
30562647 GTAAAATTACCA
1 GTAGAATTACCA
30562659 TTTTGCCCCT
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
26 2 0.02
27 104 0.98
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (26 bp):
GTAGAATTACCAAATACCCCTGTAGG
Found at i:30563353 original size:27 final size:26
Alignment explanation
Indices: 30563309--30563360 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
30563299 CTCGCTGCAA
*
30563309 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
30563336 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
30563361 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:30563400 original size:2 final size:2
Alignment explanation
Indices: 30563393--30563428 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30563383 GCTTCGCCAC
30563393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30563429 CTGTTCTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30568780 original size:49 final size:49
Alignment explanation
Indices: 30568702--30568946 Score: 294
Period size: 49 Copynumber: 5.0 Consensus size: 49
30568692 GTAGTCGAAG
* * *
30568702 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * *
30568751 TTATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * *
30568801 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
30568851 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
30568901 CAATCTGGTACACGTAGTAGCCTGCA-TTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
30568947 TCACAATAGC
Statistics
Matches: 164, Mismatches: 29, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
48 18 0.11
49 61 0.37
50 47 0.29
51 38 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:30568936 original size:99 final size:99
Alignment explanation
Indices: 30568704--30568945 Score: 335
Period size: 99 Copynumber: 2.4 Consensus size: 99
30568694 AGTCGAAGCT
* * * * * * **
30568704 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCAGGTACACATAGT
* *
30568769 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACA
* *
30568803 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCAGGTACACATA
*
30568868 GTAGCCTGCACTTAGTACTACACATGCGACC-AACA
64 GTAGCCTGCACTTAGTACTACACACGCGACCTAACA
30568903 ATCTGGTACACGTAGTAGCCTGCA-TTAGTACTACACACGTGAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
30568946 CTCACAATAG
Statistics
Matches: 127, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
98 1 0.01
99 56 0.44
100 29 0.23
101 41 0.32
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCAGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:30572313 original size:19 final size:19
Alignment explanation
Indices: 30572289--30572329 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
30572279 TTGTTTAAAG
30572289 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
30572308 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
30572327 TTA
1 TTA
30572330 GAATAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:30574261 original size:25 final size:25
Alignment explanation
Indices: 30574227--30574341 Score: 140
Period size: 25 Copynumber: 4.6 Consensus size: 25
30574217 ATTCCTGTAT
* *
30574227 GCTCATACGAGCTATGAATCGGGAA
1 GCTCATACGAGCTGTAAATCGGGAA
* * *
30574252 GCTCATACGAGCTGTGAATTGGAAA
1 GCTCATACGAGCTGTAAATCGGGAA
*
30574277 GCTCATACGAACTGTAAATCGGGAA
1 GCTCATACGAGCTGTAAATCGGGAA
* * *
30574302 ACTCATACGAGCTGTAAATTGAGAA
1 GCTCATACGAGCTGTAAATCGGGAA
*
30574327 GCTCATACAAGCTGT
1 GCTCATACGAGCTGT
30574342 GGTGTGCCCG
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 77 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGTAAATCGGGAA
Found at i:30574283 original size:50 final size:50
Alignment explanation
Indices: 30574227--30574339 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 50
30574217 ATTCCTGTAT
* * *
30574227 GCTCATACGAGCTATGAATCGGGAAGCTCATACGAGCTGTGAATTG-GAAA
1 GCTCATACGAGCTATAAATCGGGAAACTCATACGAGCTGTAAATTGAG-AA
* *
30574277 GCTCATACGAACTGTAAATCGGGAAACTCATACGAGCTGTAAATTGAGAA
1 GCTCATACGAGCTATAAATCGGGAAACTCATACGAGCTGTAAATTGAGAA
*
30574327 GCTCATACAAGCT
1 GCTCATACGAGCT
30574340 GTGGTGTGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (50 bp):
GCTCATACGAGCTATAAATCGGGAAACTCATACGAGCTGTAAATTGAGAA
Found at i:30582400 original size:25 final size:25
Alignment explanation
Indices: 30582320--30582402 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 25
30582310 AGCTCTCTCT
* * *
30582320 AGAGCCATATAATGGGAAGCTCACAA
1 AGAGCTATATAACGGGAAGCTCA-TA
* * * *
30582346 AGAG-T-TATATCAGGAAGCTTATCC
1 AGAGCTATATAACGGGAAGCTCAT-A
30582370 AG-GCTATATAACGGGAAGCTCATA
1 AGAGCTATATAACGGGAAGCTCATA
30582394 AGAGCTATA
1 AGAGCTATA
30582403 ATCAGGAAGT
Statistics
Matches: 42, Mismatches: 11, Indels: 9
0.68 0.18 0.15
Matches are distributed among these distances:
23 1 0.02
24 17 0.40
25 20 0.48
26 4 0.10
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (25 bp):
AGAGCTATATAACGGGAAGCTCATA
Found at i:30582434 original size:24 final size:24
Alignment explanation
Indices: 30582407--30582452 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
30582397 GCTATAATCA
30582407 GGAAGTTCACAAAGAACCATATCG
1 GGAAGTTCACAAAGAACCATATCG
*
30582431 GGAAGTTCACAAAGAGCCATAT
1 GGAAGTTCACAAAGAACCATAT
30582453 AACGGGAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (24 bp):
GGAAGTTCACAAAGAACCATATCG
Found at i:30585334 original size:40 final size:40
Alignment explanation
Indices: 30585244--30585456 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 40
30585234 GTATCCGAGC
* * * *
30585244 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACCGGGT
* * *
30585285 CAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
*
30585325 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
* *
30585365 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
* * * * * *
30585405 TAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
*
30585445 TATGTCCCGAAG
1 TAAGTCCCGAAG
30585457 ACAATCGAGC
Statistics
Matches: 152, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
40 133 0.88
41 19 0.12
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
Found at i:30585469 original size:120 final size:121
Alignment explanation
Indices: 30585244--30585470 Score: 305
Period size: 120 Copynumber: 1.9 Consensus size: 121
30585234 GTATCCGAGC
* *
30585244 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
* * * * * * *
30585309 GTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
66 ATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTTACCAAAACCGGGT
* *
30585365 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCG
* * *
30585428 AATCACTATAACCGGGCTATGTCCCGAAGACAATCGAGCGAGT
65 AATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGT
30585471 CGCTATATCC
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
119 1 0.01
120 69 0.76
121 21 0.23
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (121 bp):
TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
ATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTTACCAAAACCGGGT
Found at i:30585477 original size:40 final size:40
Alignment explanation
Indices: 30585399--30585482 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
30585389 GTTACTAAAT
* * *
30585399 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
30585439 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
30585479 CCGG
1 CCGG
30585483 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:30585491 original size:80 final size:80
Alignment explanation
Indices: 30585305--30585482 Score: 185
Period size: 80 Copynumber: 2.2 Consensus size: 80
30585295 AGGCATTTGT
* * * * * * * * *
30585305 GCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGT
1 GCGAGTCACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGT
* * * *
30585370 CCCGAAGGCATTTGT
66 CCCGAAGACAATCGA
* * * *
30585385 GCGAGTTACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGT
1 GCGAGTCACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGT
30585450 CCCGAAGACAATCGA
66 CCCGAAGACAATCGA
* *
30585465 GCGAGTCGCTATATCCGG
1 GCGAGTCACTAAATCCGG
30585483 TTAAATTCCG
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (80 bp):
GCGAGTCACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGT
CCCGAAGACAATCGA
Found at i:30591532 original size:80 final size:80
Alignment explanation
Indices: 30591448--30591596 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
30591438 TATGGTAACC
* * * *
30591448 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
30591512 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
30591528 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
30591593 CCGG
66 CCGG
30591597 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:30591538 original size:40 final size:38
Alignment explanation
Indices: 30591489--30591596 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
30591479 ATCACGATTT
*
30591489 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
30591529 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
30591569 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
30591597 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:30599633 original size:80 final size:80
Alignment explanation
Indices: 30599549--30599697 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
30599539 TATGGTAACC
* * * *
30599549 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
30599613 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
30599629 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
30599694 CCGG
66 CCGG
30599698 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:30599639 original size:40 final size:38
Alignment explanation
Indices: 30599590--30599697 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
30599580 ATCACGATTT
*
30599590 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
30599630 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
30599670 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
30599698 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:30607745 original size:80 final size:80
Alignment explanation
Indices: 30607661--30607809 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
30607651 TATGGTAACC
* * * *
30607661 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
30607725 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
30607741 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
30607806 CCGG
66 CCGG
30607810 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:30607751 original size:40 final size:38
Alignment explanation
Indices: 30607702--30607809 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
30607692 ATCACGATTT
*
30607702 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
30607742 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
30607782 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
30607810 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:30611081 original size:119 final size:121
Alignment explanation
Indices: 30610819--30611081 Score: 322
Period size: 119 Copynumber: 2.2 Consensus size: 121
30610809 GAATGATGTC
*
30610819 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATTTG
30610883 TGCGAGTTAATAAATCCGAACTAAGATCCGAAGGCATTTGTACGAGTTACTAAATT
66 TGCGAGTTAATAAATCCGAACTAAGATCCGAAGGCATTTGTACGAGTTACTAAATT
* * * * * *
30610939 CGGACTAAGAT-CCGAAGGTATTTGTGC-GAGTTACTAATTCCGGGCTAAG-CCCGAAGGCATTT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATTT
* * *** *
30611001 GTGCGAGTTACTAATTCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-T
65 GTGCGAGTTAATAAATCCGAACTAAGAT-CCGAAGGCATTTGTACGAGTTACTA-AATT
* *
30611058 CGGGCTATGTCCCAAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
30611082 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
118 2 0.02
119 76 0.63
120 35 0.29
121 8 0.07
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (121 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATTTG
TGCGAGTTAATAAATCCGAACTAAGATCCGAAGGCATTTGTACGAGTTACTAAATT
Found at i:30611088 original size:40 final size:40
Alignment explanation
Indices: 30610817--30611081 Score: 308
Period size: 40 Copynumber: 6.7 Consensus size: 40
30610807 TCGAATGATG
* *
30610817 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
30610857 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
30610897 TCCGAACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
30610937 TTCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30610977 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30611016 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
30611057 T-CGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30611082 AACGAGTAGC
Statistics
Matches: 200, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
39 36 0.18
40 154 0.77
41 10 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30611114 original size:79 final size:79
Alignment explanation
Indices: 30610870--30611088 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 79
30610860 GGACTAAGAT
* ** * * *
30610870 CCGAAGGCATTTGTGCGAGTTAATAAATCCGAACTAAGATCCGAAGGCATTTGTACGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTACT-
**
30610935 AATT-CGGACTAAGAT-
64 AATTCCGGGTTAA-ATC
* * * **
30610950 CCGAAGGTATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
*
30611015 TTCCGGGTTAAGTC
66 TTCCGGGTTAAATC
*
30611029 CCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTCCCAAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAG-CCCAAAGGCATTTGAACGAGT
30611089 AGCTATATCC
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 5 0.04
79 61 0.51
80 53 0.45
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
TTCCGGGTTAAATC
Found at i:30616908 original size:47 final size:47
Alignment explanation
Indices: 30616854--30617094 Score: 340
Period size: 47 Copynumber: 5.1 Consensus size: 47
30616844 TTAGGATTTT
** * *
30616854 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30616901 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
30616948 ATGTGATGAATGTGAGCATCCATATGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30616995 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
30617042 ATGT-AGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGA-TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30617089 ATGTGA
1 ATGTGA
30617095 AATATGTATG
Statistics
Matches: 176, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 174 0.99
48 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:30616954 original size:22 final size:22
Alignment explanation
Indices: 30616883--30616954 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
30616873 GTATATATGA
30616883 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
30616905 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
30616930 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
30616952 GAT
1 GAT
30616955 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:30617126 original size:48 final size:48
Alignment explanation
Indices: 30617064--30617346 Score: 426
Period size: 48 Copynumber: 5.8 Consensus size: 48
30617054 TGAACATGCA
30617064 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
30617112 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
30617160 CATATGTGGTAAAGCTGAATGG-TCAATATGAAATATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
30617210 TATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
30617258 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATTTATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATA--TGTATGAGATATG
* *
30617308 TATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
30617347 GGCGATGTGC
Statistics
Matches: 213, Mismatches: 14, Indels: 16
0.88 0.06 0.07
Matches are distributed among these distances:
47 2 0.01
48 123 0.58
49 4 0.02
50 82 0.38
51 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:30617213 original size:98 final size:98
Alignment explanation
Indices: 30617065--30617346 Score: 471
Period size: 98 Copynumber: 2.9 Consensus size: 98
30617055 GAACATGCAT
30617065 ATATGTGGTAAAGCCGAATGG-CTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGC
30617127 CGAATGGCTAATGTGAAATATGTATGAGATATGC
65 CGAATGGCTAATGTGAAATATGTATGAGATATGC
* * *
30617161 ATATGTGGTAAAGCTGAATGGTCAATATGAAATATATGTATGAGATATGTATATGCGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCC
30617226 GAATGGCTAATGTGAAATATGTATGAGATATGC
66 GAATGGCTAATGTGAAATATGTATGAGATATGC
* * *
30617259 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATTTATATGAGATATGTATATGTGGTAAAGTC
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCC
*
30617324 GAATGGCTAGTGTGAAATATGTA
66 GAATGGCTAATGTGAAATATGTA
30617347 GGCGATGTGC
Statistics
Matches: 173, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
96 25 0.14
97 3 0.02
98 145 0.84
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (98 bp):
ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCC
GAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:30617227 original size:146 final size:147
Alignment explanation
Indices: 30617064--30617329 Score: 448
Period size: 146 Copynumber: 1.8 Consensus size: 147
30617054 TGAACATGCA
* *
30617064 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
*
30617129 AATGG-CTAATGTGAAATA-TGTATGAGATATGCATATGTGGTAAAG-CTGAATGGTCAATATGA
66 AATGGTC-AATGTGAAATATTATATGAGATATGCATATGTGGTAAAGTC-GAATGGTCAATATGA
30617191 AATATATGTATGAGATATG
129 AATATATGTATGAGATATG
30617210 TATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
1 TATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
*
30617275 AATGGTCAATGTGAAATATTTATATGAGATATGTATATGTGGTAAAGTCGAATGG
66 AATGGTCAATGTGAAATA-TTATATGAGATATGCATATGTGGTAAAGTCGAATGG
30617330 CTAGTGTGAA
Statistics
Matches: 112, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
146 79 0.71
147 1 0.01
148 31 0.28
149 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (147 bp):
TATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
AATGGTCAATGTGAAATATTATATGAGATATGCATATGTGGTAAAGTCGAATGGTCAATATGAAA
TATATGTATGAGATATG
Found at i:30617598 original size:36 final size:37
Alignment explanation
Indices: 30617494--30617599 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
30617484 AAATATATTT
*
30617494 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
*
30617531 CGGGTAAGACCCAATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* *
30617568 CGGGTAAGA-CCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
30617600 CGTCTGAGCT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
36 20 0.31
37 44 0.69
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:30618946 original size:40 final size:39
Alignment explanation
Indices: 30618870--30619061 Score: 303
Period size: 40 Copynumber: 4.8 Consensus size: 39
30618860 GAGAATTGAG
*
30618870 AGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCT
* *
30618909 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
*
30618949 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCT
* *
30618988 AGTGATGTATTCGGGCTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
30619028 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 AGTGATGTATCCGGGCTAAG-TCCGAAGAGCATT
30619062 AGTTCCGAAG
Statistics
Matches: 144, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 57 0.40
40 86 0.60
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
AGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCT
Found at i:30619007 original size:79 final size:79
Alignment explanation
Indices: 30618870--30619061 Score: 321
Period size: 79 Copynumber: 2.4 Consensus size: 79
30618860 GAGAATTGAG
*
30618870 AGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCGA
1 AGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCGA
30618935 AGAGCATTCGTGCT
66 AGAGCATTCGTGCT
* * * *
30618949 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATTCGGGCTAAGTCCCGA
1 AGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCGA
*
30619014 AGAGCATTTGTGCT
66 AGAGCATTCGTGCT
30619028 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 AGTGATGTATCCGGGCTAAG-TCCGAAGAGCATT
30619062 AGTTCCGAAG
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 92 0.88
80 13 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
AGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCGA
AGAGCATTCGTGCT
Found at i:30619067 original size:16 final size:16
Alignment explanation
Indices: 30619046--30619077 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30619036 ATCCGGGCTA
30619046 AGTTCCGAAGAGCATT
1 AGTTCCGAAGAGCATT
30619062 AGTTCCGAAGAGCATT
1 AGTTCCGAAGAGCATT
30619078 CGTGCTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (16 bp):
AGTTCCGAAGAGCATT
Found at i:30619079 original size:79 final size:79
Alignment explanation
Indices: 30618870--30619084 Score: 236
Period size: 79 Copynumber: 2.7 Consensus size: 79
30618860 GAGAATTGAG
* * * * * * ** * *
30618870 AGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTCCCGA
1 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTAGTCCGAGAGATGCATTCGGGCTAAGTCCCGA
30618935 AGAGCATTCGTGCT
66 AGAGCATTCGTGCT
* * * * *
30618949 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATTCGGGCTAAGTCCCGA
1 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTAGTCCGAGAGATGCATTCGGGCTAAGTCCCGA
*
30619014 AGAGCATTTGTGCT
66 AGAGCATTCGTGCT
* *
30619028 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTAGTTCCGA-AGA-GCATTCGTGCTA
1 AGTGATGTATCCGGACTAAG-TCCGAAGAGCATTAG-TCCGAGAGATGCATTCGGGCTA
30619085 GTGATGTATC
Statistics
Matches: 121, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 102 0.84
80 16 0.13
81 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
AGTGATGTATCCGGACTAAGTCCGAAGAGCATTAGTCCGAGAGATGCATTCGGGCTAAGTCCCGA
AGAGCATTCGTGCT
Found at i:30619096 original size:56 final size:56
Alignment explanation
Indices: 30619010--30619117 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 56
30619000 GGGCTAAGTC
* * *
30619010 CCGAAGAGCATTTGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTAGTT
*
30619066 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGATCATT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATT
30619118 CGTGCTAGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (56 bp):
CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTAGTT
Found at i:30619121 original size:40 final size:40
Alignment explanation
Indices: 30619066--30619354 Score: 393
Period size: 40 Copynumber: 7.2 Consensus size: 40
30619056 AGCATTAGTT
30619066 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTC
*
30619106 CCGAAGATCATTCGTGCTAGTGATGTATCCGGACTAAGTC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTC
* *
30619146 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTC
* *
30619186 CCGAAGAGCATTCGTGCTAGTGATTTATCCAGACTAAGTC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTC
* *
30619226 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTG
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTC
* * **
30619266 TCGAA-AGCATTCGTGCTAGTGATATATCCGTG-CTAAACC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTC
* * * * *
30619305 CCGAAGAGCATTCGTGCTGGTGCTATATCCGGGCTAGGTC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTC
**
30619345 CTAAAGAGCA
1 CCGAAGAGCA
30619355 ATCATGCTGG
Statistics
Matches: 221, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
39 33 0.15
40 188 0.85
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTC
Found at i:30619133 original size:96 final size:96
Alignment explanation
Indices: 30618969--30619157 Score: 324
Period size: 96 Copynumber: 2.0 Consensus size: 96
30618959 CCGGACTAAG
* * *
30618969 TCCGAAGAGCATTCGTGCTAGTGATGTATTCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGAT
1 TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
* *
30619034 GTATCCGGGCTAAGTTCCGAAGAGCATTAGT
66 GTATCCGGACTAAGTCCCGAAGAGCATTAGT
*
30619065 TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGATCATTCGTGCTAGTGAT
1 TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
30619130 GTATCCGGACTAAGTCCCGAAGAGCATT
66 GTATCCGGACTAAGTCCCGAAGAGCATT
30619158 CGTGCTAGTG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (96 bp):
TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
GTATCCGGACTAAGTCCCGAAGAGCATTAGT
Found at i:30623306 original size:47 final size:47
Alignment explanation
Indices: 30623252--30623492 Score: 365
Period size: 47 Copynumber: 5.1 Consensus size: 47
30623242 TTAGGATTTT
** * *
30623252 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30623299 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30623346 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30623393 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
30623440 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30623487 ATGTGA
1 ATGTGA
30623493 AATATGTATG
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:30623352 original size:22 final size:22
Alignment explanation
Indices: 30623281--30623399 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
30623271 GTATATATGA
30623281 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
30623303 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
30623328 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
30623350 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
30623375 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
30623397 GAT
1 GAT
30623400 GAATGTGAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:30623420 original size:23 final size:23
Alignment explanation
Indices: 30623346--30623420 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
30623336 CGAATGGCCA
30623346 ATGTGATGAATGTGAGCATGCAT
1 ATGTGATGAATGTGAGCATGCAT
* * *
30623369 ATGTG-TGATAAG-GCCGAATGGCCA-
1 ATGTGATGA-ATGTG-AGCAT-G-CAT
30623393 ATGTGATGAATGTGAGCATGCAT
1 ATGTGATGAATGTGAGCATGCAT
30623416 ATGTG
1 ATGTG
30623421 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAGCATGCAT
Found at i:30623622 original size:98 final size:97
Alignment explanation
Indices: 30623463--30623744 Score: 471
Period size: 98 Copynumber: 2.9 Consensus size: 97
30623453 GAACATGCAT
30623463 ATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTTGG-AAAGC
1 ATATGTGGTAAAGCCGAATGG-TAATGTGAAATATATGTATGAGATATGTATATG-TGGTAAAGC
30623525 CGAATGGCTAATGTGAAATATGTATGAGATATGC
64 CGAATGGCTAATGTGAAATATGTATGAGATATGC
30623559 ATATGTGGTAAAGCCGAATGGTGAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGT-AATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCC
*
30623624 AAATGGCTAATGTGAAATATGTATGAGATATGC
65 GAATGGCTAATGTGAAATATGTATGAGATATGC
* *
30623657 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATTTATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGT-AATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCC
*
30623722 GAATGGCTAGTGTGAAATATGTA
65 GAATGGCTAATGTGAAATATGTA
30623745 GGCGATGTGC
Statistics
Matches: 176, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
95 1 0.01
96 27 0.15
97 5 0.03
98 143 0.81
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (97 bp):
ATATGTGGTAAAGCCGAATGGTAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:30623760 original size:50 final size:48
Alignment explanation
Indices: 30623462--30623744 Score: 437
Period size: 48 Copynumber: 5.8 Consensus size: 48
30623452 TGAACATGCA
30623462 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
30623510 TATATGTTGG-AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATG-TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
30623558 CATATGTGGTAAAGCCGAATGG-TGAATGTGAAATATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
30623608 TATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
30623656 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATTTATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATA--TGTATGAGATATG
*
30623706 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
30623745 GGCGATGTGC
Statistics
Matches: 216, Mismatches: 9, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
47 5 0.02
48 117 0.54
49 7 0.03
50 85 0.39
51 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:30623998 original size:37 final size:37
Alignment explanation
Indices: 30623892--30623998 Score: 151
Period size: 37 Copynumber: 2.9 Consensus size: 37
30623882 AAATATATTT
* *
30623892 CGGGTAAGACCCGATGACTACGAGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* * *
30623929 CGGGTAAGACCTGATGACTACGTGCGAAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* *
30623966 CGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
30623999 CGTCTGAGCT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:30637667 original size:33 final size:32
Alignment explanation
Indices: 30637630--30637742 Score: 104
Period size: 33 Copynumber: 3.5 Consensus size: 32
30637620 TACCTAAATG
30637630 GTACAAATGGAAAAGGAAATGTACACTGTGTGT
1 GTACAAATGGAAAAGGAAATGTACACT-TGTGT
* * **
30637663 GTACAACTTGAAAAGGAAACATACACTTTGTGT
1 GTACAAATGGAAAAGGAAATGTACAC-TTGTGT
* * * *
30637696 GTAC-ACTTGAAACGGAAATGTACGTCTTGTGT
1 GTACAAATGGAAAAGGAAATGTAC-ACTTGTGT
30637728 GTA-AAATGTGAAAAG
1 GTACAAATG-GAAAAG
30637743 TGGTAGCTTC
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
32 27 0.42
33 37 0.57
34 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.27
Consensus pattern (32 bp):
GTACAAATGGAAAAGGAAATGTACACTTGTGT
Found at i:30637726 original size:32 final size:32
Alignment explanation
Indices: 30637630--30637730 Score: 114
Period size: 33 Copynumber: 3.1 Consensus size: 32
30637620 TACCTAAATG
* *
30637630 GTACAAATGGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTTGAAAAGGAAATGTACACT-TGTGT
**
30637663 GTACAACTTGAAAAGGAAACATACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTACAC-TTGTGT
* *
30637696 GTAC-ACTTGAAACGGAAATGTACGTCTTGTGT
1 GTACAACTTGAAAAGGAAATGTAC-ACTTGTGT
30637728 GTA
1 GTA
30637731 AAATGTGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
32 25 0.43
33 32 0.55
34 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (32 bp):
GTACAACTTGAAAAGGAAATGTACACTTGTGT
Found at i:30637770 original size:31 final size:31
Alignment explanation
Indices: 30637735--30637939 Score: 277
Period size: 31 Copynumber: 6.5 Consensus size: 31
30637725 TGTGTAAAAT
30637735 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
30637766 GTGAAAAGTGGTAGCTTCGGCTACCTGATAA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
30637797 GTGAAAAGTGGTAGCTTCGGCAAACAGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
30637828 GTGAAAAGTGGTATCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
30637859 GTGAAAAGTGATAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
30637890 GTGAATAGTGGTAGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCGGCTAC--CTGATC-A
*
30637923 GTGATAAGTGGTAGCTT
1 GTGAAAAGTGGTAGCTT
30637940 TAGCTACACT
Statistics
Matches: 151, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
31 131 0.87
32 1 0.01
33 19 0.13
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:30638060 original size:27 final size:27
Alignment explanation
Indices: 30638003--30638064 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
30637993 TAGTTGAACT
* **
30638003 ATGGAAAAGTGATAAAGTGTGCCAATT
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
* *
30638030 ATGGCAAAGTGATATAGTGTGCTAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
30638057 ATGGCAAA
1 ATGGCAAA
30638065 CTGTTCAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:30638177 original size:56 final size:56
Alignment explanation
Indices: 30638056--30638180 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 56
30638046 GTGTGCTAAA
* **
30638056 CATGGCAAACTGTTCAGTGATCAGTGATGAATTGATGGATAAGACCATGGTTGGAC
1 CATGGCAAAGTGTTCAGTGATCAGTGATGAATTGACAGATAAGACCATGGTTGGAC
*
30638112 CATGACAAAGTGTTCAGTGATCAGTGATGAATTGACAGATAAGACCATGGTT-GATC
1 CATGGCAAAGTGTTCAGTGATCAGTGATGAATTGACAGATAAGACCATGGTTGGA-C
*
30638168 TATGGCAAAGTGT
1 CATGGCAAAGTGT
30638181 GAAACGTAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
55 2 0.03
56 60 0.97
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (56 bp):
CATGGCAAAGTGTTCAGTGATCAGTGATGAATTGACAGATAAGACCATGGTTGGAC
Found at i:30640758 original size:27 final size:28
Alignment explanation
Indices: 30640720--30640790 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 28
30640710 GAGGAAGCGT
30640720 TCTGGTGGCTCTGCCACAAACATCT-AA
1 TCTGGTGGCTCTGCCACAAACATCTGAA
* **
30640747 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAACATCTGAA
*
30640775 TCTAGTGGCTCTGCCA
1 TCTGGTGGCTCTGCCA
30640791 TAATATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAACATCTGAA
Found at i:30640795 original size:27 final size:27
Alignment explanation
Indices: 30640719--30640828 Score: 87
Period size: 27 Copynumber: 4.0 Consensus size: 27
30640709 GGAGGAAGCG
* * *
30640719 TTCTGGTGGCTCTGCCACAAACATCT-A
1 TTCTAGTGGCTCTGCCA-AAATATCTGT
* *
30640746 ATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTAGTGGCTCTGCCA-AAATATCTGT
* *
30640774 TTCTAGTGGCTCTGCCATAATATATGT
1 TTCTAGTGGCTCTGCCAAAATATCTGT
* * * * *
30640801 ATCTGGTGACTCTGTCACAATATCTGT
1 TTCTAGTGGCTCTGCCAAAATATCTGT
30640828 T
1 T
30640829 CTGGCAGCCA
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (27 bp):
TTCTAGTGGCTCTGCCAAAATATCTGT
Found at i:30640808 original size:55 final size:54
Alignment explanation
Indices: 30640719--30640828 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 54
30640709 GGAGGAAGCG
* *
30640719 TTCTGGTGGCTCTGCCACAAACATCTAATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTAGTGGCTCTGCCACAAACATCTAATCTGGTGACTCTGCCAC-AATATCTGT
* * * *
30640774 TTCTAGTGGCTCTGCCATAATATATGT-ATCTGGTGACTCTGTCACAATATCTGT
1 TTCTAGTGGCTCTGCCACAA-ACATCTAATCTGGTGACTCTGCCACAATATCTGT
30640828 T
1 T
30640829 CTGGCAGCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 10 0.21
55 34 0.71
56 4 0.08
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (54 bp):
TTCTAGTGGCTCTGCCACAAACATCTAATCTGGTGACTCTGCCACAATATCTGT
Found at i:30644353 original size:27 final size:27
Alignment explanation
Indices: 30644296--30644353 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
30644286 ACACGTCAGC
* * * *
30644296 AAAGAAAAGCCTTTGTGGCATAATATG
1 AAAGAAAAACCTTTGTGGCAGAAAATA
*
30644323 AAAGAAAAACCTTTGTGGCGGAAAATA
1 AAAGAAAAACCTTTGTGGCAGAAAATA
30644350 AAAG
1 AAAG
30644354 GAATTCCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (27 bp):
AAAGAAAAACCTTTGTGGCAGAAAATA
Found at i:30653580 original size:40 final size:40
Alignment explanation
Indices: 30653507--30653714 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
30653497 CAATTGAATG
* * ** *
30653507 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
30653547 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
30653587 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
30653627 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
30653667 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
30653707 ATATCCGG
1 ATATCCGG
30653715 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:30653645 original size:80 final size:80
Alignment explanation
Indices: 30653509--30653714 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
30653499 ATTGAATGAT
* * ** * * * *
30653509 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
30653573 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
30653589 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
30653654 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
30653669 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
30653715 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:30661632 original size:40 final size:40
Alignment explanation
Indices: 30661559--30661766 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
30661549 CAATTGAATG
* * ** *
30661559 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
30661599 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
30661639 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
30661679 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
30661719 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
30661759 ATATCCGG
1 ATATCCGG
30661767 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:30661697 original size:80 final size:80
Alignment explanation
Indices: 30661561--30661766 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
30661551 ATTGAATGAT
* * ** * * * *
30661561 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
30661625 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
30661641 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
30661706 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
30661721 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
30661767 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:30667839 original size:24 final size:24
Alignment explanation
Indices: 30667799--30667875 Score: 84
Period size: 25 Copynumber: 3.2 Consensus size: 24
30667789 CTGGAGGCCT
* *
30667799 AGCCTATTTTAAT-AACTGGGGCAG
1 AGCCT-TTTTGATAAACTGGGGCAA
30667823 AGCCTTTTTGATAAACTGGGGCAA
1 AGCCTTTTTGATAAACTGGGGCAA
* * *
30667847 AGCCCTTTTCGGTAAACTAGGGCAA
1 AG-CCTTTTTGATAAACTGGGGCAA
30667872 AGCC
1 AGCC
30667876 CTTGTAGCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 6 0.13
24 19 0.41
25 21 0.46
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AGCCTTTTTGATAAACTGGGGCAA
Found at i:30667862 original size:25 final size:25
Alignment explanation
Indices: 30667812--30667878 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
30667802 CTATTTTAAT
* *
30667812 AACTGGGGCAGAG-CCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
30667836 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
30667861 AACTAGGGCAAAGCCCTT
1 AACTGGGGCAAAGCCCTT
30667879 GTAGCACTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
24 12 0.32
25 26 0.68
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:30667940 original size:10 final size:10
Alignment explanation
Indices: 30667927--30667965 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
30667917 ATATGTGAAT
30667927 ATATCATGGC
1 ATATCATGGC
30667937 ATATCATGTGC
1 ATATCATG-GC
30667948 ATATCATGGC
1 ATATCATGGC
30667958 ATATCATG
1 ATATCATG
30667966 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:30667953 original size:21 final size:21
Alignment explanation
Indices: 30667927--30667966 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
30667917 ATATGTGAAT
30667927 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
30667948 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
30667967 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:30668328 original size:17 final size:17
Alignment explanation
Indices: 30668303--30668340 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30668293 ACCCAAATGA
*
30668303 GCCCGAAAGCCCATTGG
1 GCCCAAAAGCCCATTGG
*
30668320 GCCCAAAAGCCCATTGT
1 GCCCAAAAGCCCATTGG
30668337 GCCC
1 GCCC
30668341 GATTTCAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.13
Consensus pattern (17 bp):
GCCCAAAAGCCCATTGG
Found at i:30675734 original size:25 final size:25
Alignment explanation
Indices: 30675706--30675775 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
30675696 CTCTTTTAAT
*
30675706 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
30675731 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
30675756 AAATGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
30675776 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:30675835 original size:10 final size:10
Alignment explanation
Indices: 30675822--30675860 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
30675812 ATATGTGAAT
30675822 ATATCATGGC
1 ATATCATGGC
*
30675832 ATATCATATGC
1 ATATCAT-GGC
*
30675843 ATATTATGGC
1 ATATCATGGC
30675853 ATATCATG
1 ATATCATG
30675861 TACAAAAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Done.