Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 89
Found at i:8285265 original size:21 final size:21
Alignment explanation
Indices: 8285235--8285274 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8285225 ATATGTGTTA
*
8285235 TATGTAGTCCTTTGGGACATC
1 TATGTAGTCCTTCGGGACATC
*
8285256 TATGTGGTCCTTCGGGACA
1 TATGTAGTCCTTCGGGACA
8285275 AATTATACGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (21 bp):
TATGTAGTCCTTCGGGACATC
Found at i:8293197 original size:12 final size:12
Alignment explanation
Indices: 8293180--8293220 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
8293170 TATTTTTTCA
8293180 AAAAAAAACAAC
1 AAAAAAAACAAC
8293192 AAAAAAAACAAC
1 AAAAAAAACAAC
*
8293204 AAAAAAAAGAA-
1 AAAAAAAACAAC
8293215 AAAAAA
1 AAAAAA
8293221 GTAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 6 0.21
12 22 0.79
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAC
Found at i:8293229 original size:18 final size:16
Alignment explanation
Indices: 8293179--8293253 Score: 66
Period size: 15 Copynumber: 4.7 Consensus size: 16
8293169 CTATTTTTTC
*
8293179 AAAAAAAAACAA-CAA
1 AAAAAAAAAAAAGCAA
*
8293194 AAAAAACAACAAA--AA
1 AAAAAA-AAAAAAGCAA
* *
8293209 AAAGAAAAAAAAGTAA
1 AAAAAAAAAAAAGCAA
8293225 TAAAAAATAAAAAAGCAA
1 -AAAAAA-AAAAAAGCAA
8293243 AAAAAAAAAAA
1 AAAAAAAAAAA
8293254 GCTAAAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
14 5 0.10
15 13 0.27
16 11 0.22
17 11 0.22
18 9 0.18
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAAAAGCAA
Found at i:8293272 original size:1 final size:1
Alignment explanation
Indices: 8293179--8293253 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
8293169 CTATTTTTTC
* * * * * ** * * **
8293179 AAAAAAAAACAACAAAAAAAACAACAAAAAAAAGAAAAAAAAGTAATAAAAAATAAAAAAGCAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8293244 AAAAAAAAAA
1 AAAAAAAAAA
8293254 GCTAAAATTT
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.04
Consensus pattern (1 bp):
A
Found at i:8308849 original size:35 final size:35
Alignment explanation
Indices: 8308789--8308858 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
8308779 ATCCTTCATA
* * *
8308789 GGGTATCGATACTGAAGTGGTAGTATTGGTACCAT
1 GGGTATCGATACTCAAGTGGTAGTATCGATACCAT
8308824 GGGTATCGATAC-CAA-TAGGTAAGTATCGATACCAT
1 GGGTATCGATACTCAAGT-GGT-AGTATCGATACCAT
8308859 TTTTAGAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 1 0.03
34 5 0.17
35 24 0.80
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (35 bp):
GGGTATCGATACTCAAGTGGTAGTATCGATACCAT
Found at i:8308903 original size:19 final size:19
Alignment explanation
Indices: 8308879--8308919 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8308869 AAATTCCAGA
8308879 ACTGGGAAAAGGTATCGAT
1 ACTGGGAAAAGGTATCGAT
* *
8308898 ACTGGGGAATGGTATCGAT
1 ACTGGGAAAAGGTATCGAT
8308917 ACT
1 ACT
8308920 ACAAGCAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (19 bp):
ACTGGGAAAAGGTATCGAT
Found at i:8310522 original size:40 final size:41
Alignment explanation
Indices: 8310418--8310526 Score: 121
Period size: 41 Copynumber: 2.7 Consensus size: 41
8310408 ATTTAAGGTA
* * *
8310418 AAGAGTAACAATAATTTCCAAGAGTATGGATATTTTACCCC
1 AAGAGTATCAATAATTTCCAAGAGTATCGATACTTTACCCC
* * **
8310459 AAGAGTATCAATAGTTTCTAAGAGTATCGATACTTTA-GTC
1 AAGAGTATCAATAATTTCCAAGAGTATCGATACTTTACCCC
* **
8310499 AATAGTATGGATAATTTCCAAGAGTATC
1 AAGAGTATCAATAATTTCCAAGAGTATC
8310527 AATATTTTCA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
40 24 0.43
41 32 0.57
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (41 bp):
AAGAGTATCAATAATTTCCAAGAGTATCGATACTTTACCCC
Found at i:8310535 original size:19 final size:19
Alignment explanation
Indices: 8310418--8310535 Score: 76
Period size: 19 Copynumber: 5.9 Consensus size: 19
8310408 ATTTAAGGTA
* *
8310418 AAGAGTAACAATAATTTCC
1 AAGAGTATCAATATTTTCC
**
8310437 AAGAGTATGGATATTTTACCCC
1 AAGAGTATCAATATTTT---CC
* *
8310459 AAGAGTATCAATAGTTTCT
1 AAGAGTATCAATATTTTCC
*
8310478 AAGAGTATCGATACTTTAGT-C
1 AAGAGTATCAATA-TTT--TCC
* ** *
8310499 AATAGTATGGATAATTTCC
1 AAGAGTATCAATATTTTCC
8310518 AAGAGTATCAATATTTTC
1 AAGAGTATCAATATTTTC
8310536 AGCAACAAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
18 1 0.01
19 41 0.55
20 4 0.05
21 11 0.15
22 17 0.23
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (19 bp):
AAGAGTATCAATATTTTCC
Found at i:8311720 original size:31 final size:30
Alignment explanation
Indices: 8311669--8311756 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
8311659 CTAGATACTA
* *
8311669 GTCAGGGTGGATTCAAATAATGCACAGTATG
1 GTCA-GGTGCATTCAGATAATGCACAGTATG
**
8311700 GTCATGGTGCATTCAGATAATGCGTAGTATG
1 GTCA-GGTGCATTCAGATAATGCACAGTATG
* *
8311731 GTCAGGTTGCATTAAGTTAATGCACA
1 GTCAGG-TGCATTCAGATAATGCACA
8311757 AGAGTGTCAG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 2 0.04
31 45 0.96
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (30 bp):
GTCAGGTGCATTCAGATAATGCACAGTATG
Found at i:8313525 original size:24 final size:24
Alignment explanation
Indices: 8313481--8313554 Score: 98
Period size: 25 Copynumber: 3.1 Consensus size: 24
8313471 CACCGAAGTG
8313481 CCACATAG-ATTTGT-CTCGAAGGA
1 CCACATAGAATTTGTCCT-GAAGGA
*
8313504 CCACATAGAATTTTTCCTGAAGGA
1 CCACATAGAATTTGTCCTGAAGGA
*
8313528 CCACGTAGAAATTTGTCCTGAAGGA
1 CCACATAG-AATTTGTCCTGAAGGA
8313553 CC
1 CC
8313555 GCGTAGAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 8 0.18
24 18 0.40
25 19 0.42
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (24 bp):
CCACATAGAATTTGTCCTGAAGGA
Found at i:8313546 original size:25 final size:25
Alignment explanation
Indices: 8313489--8313562 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
8313479 TGCCACATAG
*
8313489 ATTTGT-CTCGAAGGACCACATAG-A
1 ATTTGTCCT-GAAGGACCACGTAGAA
*
8313513 ATTTTTCCTGAAGGACCACGTAGAA
1 ATTTGTCCTGAAGGACCACGTAGAA
*
8313538 ATTTGTCCTGAAGGACCGCGTAGAA
1 ATTTGTCCTGAAGGACCACGTAGAA
8313563 CCCTCAACTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 18 0.41
25 26 0.59
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (25 bp):
ATTTGTCCTGAAGGACCACGTAGAA
Found at i:8324556 original size:25 final size:24
Alignment explanation
Indices: 8324491--8324563 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
8324481 CACCGGATTG
*
8324491 CCACATAG-ATTTGTCTCGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
** *
8324514 CTGCTTAGAATTTGTCCCGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
*
8324538 CCACATAGAAATTTGTCCCGACGGA
1 CCACATAG-AATTTGTCCCGAAGGA
8324563 C
1 C
8324564 AGTGTAGAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 5 0.12
24 19 0.47
25 16 0.40
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (24 bp):
CCACATAGAATTTGTCCCGAAGGA
Found at i:8330117 original size:2 final size:2
Alignment explanation
Indices: 8330110--8330142 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8330100 TGTTGAACAT
8330110 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8330143 CCCTTCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8330671 original size:59 final size:59
Alignment explanation
Indices: 8330602--8330749 Score: 226
Period size: 59 Copynumber: 2.5 Consensus size: 59
8330592 TATATTTCCC
* *
8330602 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGTCAT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCAT
* *
8330661 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACCCGAAGTGCCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCAT
* *
8330720 ATACGAAAATTCA-ACAACTCATTATGAATT
1 ATACGAAAATTCATAC-ACTTAGTATGAATT
8330750 CTGTGGATTT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
58 2 0.02
59 80 0.98
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.32
Consensus pattern (59 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCAT
Found at i:8330842 original size:54 final size:54
Alignment explanation
Indices: 8330781--8331151 Score: 510
Period size: 54 Copynumber: 6.9 Consensus size: 54
8330771 GCCTGCACGA
* *
8330781 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATAG
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATGG
* *
8330835 TTATTCATCCATATAGGATGAATTCCGTGAAATACACACTTAGTGCCGAAATGG
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATGG
* * * * *
8330889 TTATTCATCCATATAGGATGAATTCCGTGAAATGAACATTTAGTGTCGAAACGG
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATGG
* * * *
8330943 TTATTCATCCACATAGGATGAATTCCATGAAATGTACACTTAGTGTCG-AATCGT
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAT-GG
* * * * *
8330997 TTATTCATCCATATAAGATGAATTCCGTGAAATTCACACATAGTGCCAAAATGG
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATGG
* * *
8331051 TTATTCATCCACATAGGATGAATTCCATGAAATGCACACTTAGTGTCGAAACGG
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATGG
* * *
8331105 TTATTCATCCACATTGGATGATTTCTGTGAAATGCACACTTAGTGCC
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
8331152 CATTTGGTAA
Statistics
Matches: 278, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
53 2 0.01
54 273 0.98
55 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (54 bp):
TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATGG
Found at i:8331051 original size:162 final size:162
Alignment explanation
Indices: 8330781--8331151 Score: 582
Period size: 162 Copynumber: 2.3 Consensus size: 162
8330771 GCCTGCACGA
8330781 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATAGTTATTCATCCA
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATAGTTATTCATCCA
* * * *
8330846 TATAGGATGAATTCCGTGAAATACACACTTAGTGCCGAAATGGTTATTCATCCATATAGGATGAA
66 TATAAGATGAATTCCGTGAAATACACACATAGTGCCAAAATGGTTATTCATCCACATAGGATGAA
* *
8330911 TTCCGTGAAATGAACATTTAGTGTCGAAACGG
131 TTCCATGAAATGAACACTTAGTGTCGAAACGG
* * * * *
8330943 TTATTCATCCACATAGGATGAATTCCATGAAATGTACACTTAGTGTC-GAATCGTTTATTCATCC
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATAG-TTATTCATCC
*
8331007 ATATAAGATGAATTCCGTGAAATTCACACATAGTGCCAAAATGGTTATTCATCCACATAGGATGA
65 ATATAAGATGAATTCCGTGAAATACACACATAGTGCCAAAATGGTTATTCATCCACATAGGATGA
*
8331072 ATTCCATGAAATGCACACTTAGTGTCGAAACGG
130 ATTCCATGAAATGAACACTTAGTGTCGAAACGG
* * *
8331105 TTATTCATCCACATTGGATGATTTCTGTGAAATGCACACTTAGTGCC
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
8331152 CATTTGGTAA
Statistics
Matches: 189, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 4 0.02
162 185 0.98
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (162 bp):
TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATAGTTATTCATCCA
TATAAGATGAATTCCGTGAAATACACACATAGTGCCAAAATGGTTATTCATCCACATAGGATGAA
TTCCATGAAATGAACACTTAGTGTCGAAACGG
Found at i:8331596 original size:20 final size:20
Alignment explanation
Indices: 8331565--8331616 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
8331555 CGATGTAGTC
* *
8331565 TGGTATCGATACCGTTAACA
1 TGGTATCAATACCCTTAACA
* *
8331585 TGGTGTCAATACCCTTACCA
1 TGGTATCAATACCCTTAACA
8331605 TGGTATCAATAC
1 TGGTATCAATAC
8331617 TACAATACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (20 bp):
TGGTATCAATACCCTTAACA
Found at i:8332545 original size:42 final size:42
Alignment explanation
Indices: 8332481--8332599 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
8332471 TTCCCCGAAA
* *
8332481 TCCCATGTTTGTTTCATGTAATTCGTTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
*
8332523 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCAGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
*
8332565 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAA
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
8332600 TGTAATTCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.45
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
Found at i:8332836 original size:22 final size:23
Alignment explanation
Indices: 8332789--8332883 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 23
8332779 TATTTATTAA
* *
8332789 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
8332810 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
*
8332833 -ATATTTATAATATTATATAAAATAATC
1 AATATTTATAATA--ATAT--AAT-ATT
8332860 AATTATATTATAATAATATAATAT
1 AA-TAT-TTATAATAATATAATAT
8332884 AAGATATTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
21 11 0.18
22 16 0.26
23 4 0.07
24 4 0.07
25 2 0.03
26 6 0.10
27 2 0.03
28 5 0.08
29 3 0.05
30 8 0.13
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:8332843 original size:14 final size:14
Alignment explanation
Indices: 8332800--8332850 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
8332790 ATATTTAAAA
8332800 TATATTTATTAATATT
1 TATATTTA-TAATA-T
*
8332816 TATAATAATATAATAT
1 TAT-AT-TTATAATAT
8332832 TATATTTATAATAT
1 TATATTTATAATAT
8332846 TATAT
1 TATAT
8332851 AAAATAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 13 0.42
15 2 0.06
16 7 0.23
17 7 0.23
18 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTTATAATAT
Found at i:8332934 original size:29 final size:28
Alignment explanation
Indices: 8332877--8332970 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 28
8332867 TTATAATAAT
*
8332877 ATAATATA-AGATATTATATTTTTAT-TTTA
1 ATAATATATA-ATATT-T-TTTATATATTTA
8332906 ATAATATATAATAATTTTTTATATATTTA
1 ATAATATATAAT-ATTTTTTATATATTTA
*
8332935 ATAATGA-ATAATATTATTTATATATTTAA
1 ATAAT-ATATAATATTTTTTATATATTT-A
8332964 ATAATAT
1 ATAATAT
8332971 TTTAGTAAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
28 21 0.37
29 31 0.54
30 5 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
ATAATATATAATATTTTTTATATATTTA
Found at i:8333098 original size:90 final size:86
Alignment explanation
Indices: 8332986--8333155 Score: 200
Period size: 90 Copynumber: 1.9 Consensus size: 86
8332976 TAAAGATATT
* * * * * *
8332986 TAAAATATACTAATTAATATTTTTA-AAATATAA-TATAACACTATTACTTTAATAAATAATTAA
1 TAAAATATACAAATTAATATTTTTATAAATAAAATTATAAAAATAATA-TTTAAT-AATAAATAA
8333049 TATAATTTATAATATTTTATTTCAC
64 -ATAATTT-TAATATTTTATTTCAC
*
8333074 TAAAATATACCAATATTAATATTTTTATTAATAAAATTATAAAAATAATATTTAATAATAAATAA
1 TAAAATATA-CAA-ATTAATATTTTTATAAATAAAATTATAAAAATAATATTTAATAATAAATAA
*
8333139 ATTATTTTAATATTTTA
64 ATAATTTTAATATTTTA
8333156 AAATAATAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
88 19 0.27
89 8 0.11
90 21 0.30
91 12 0.17
92 10 0.14
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (86 bp):
TAAAATATACAAATTAATATTTTTATAAATAAAATTATAAAAATAATATTTAATAATAAATAAAT
AATTTTAATATTTTATTTCAC
Found at i:8333357 original size:20 final size:20
Alignment explanation
Indices: 8333299--8333348 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
8333289 TTCCAGATGT
8333299 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
8333319 TTTTCTAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
8333339 TTTTCCAGAA
1 TTTTCCAGAA
8333349 TTCAAATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:8333367 original size:15 final size:15
Alignment explanation
Indices: 8333331--8333412 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
8333321 TTCTAGAAAT
**
8333331 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
8333346 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
8333360 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
8333375 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
*
8333390 GTAATTCAAATTGCA
1 GTAATTCAAATTCCA
8333405 GTAATTCA
1 GTAATTCA
8333413 TTTTCCGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.20
15 47 0.80
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:8333383 original size:30 final size:30
Alignment explanation
Indices: 8333331--8333412 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
8333321 TTCTAGAAAT
8333331 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
8333360 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
** *
8333390 GTAATTCAAATTGCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
8333413 TTTTCCGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:8333407 original size:45 final size:44
Alignment explanation
Indices: 8333331--8333418 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 44
8333321 TTCTAGAAAT
**
8333331 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
*
8333375 GTAATTCAAATTCCAGTAATTCAAATTGCAGTAATTCATTTTCC
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTCC
8333419 GGAAAACCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:8336638 original size:29 final size:29
Alignment explanation
Indices: 8336596--8336656 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
8336586 AATTCATTAT
** * * *
8336596 TCTTTTATTCAACAGTGTTTTACTGTTTA
1 TCTTTTACACAACAATGTTTAACTGTTCA
8336625 TCTTTTACACAACAATGTTTAACTGTTCA
1 TCTTTTACACAACAATGTTTAACTGTTCA
8336654 TCT
1 TCT
8336657 AACTGGCATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (29 bp):
TCTTTTACACAACAATGTTTAACTGTTCA
Found at i:8336985 original size:59 final size:59
Alignment explanation
Indices: 8336915--8337048 Score: 205
Period size: 59 Copynumber: 2.3 Consensus size: 59
8336905 AAATATATTT
* * *
8336915 CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAATATTTTAGCACAGGAAGTAC
1 CCTATACGGAAATTCATACACTTAGTATAAATTTATTAACATTTTAGCACAGGAAGTAC
* ** *
8336974 CCTATATGGAAATTCATACACTTAGTATAAATTTATTAACATTTTAGCACTTGAAGTGC
1 CCTATACGGAAATTCATACACTTAGTATAAATTTATTAACATTTTAGCACAGGAAGTAC
8337033 CCTATACGGAAATTCA
1 CCTATACGGAAATTCA
8337049 ACAACTCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (59 bp):
CCTATACGGAAATTCATACACTTAGTATAAATTTATTAACATTTTAGCACAGGAAGTAC
Found at i:8337683 original size:54 final size:54
Alignment explanation
Indices: 8337095--8337683 Score: 678
Period size: 54 Copynumber: 10.9 Consensus size: 54
8337085 TGCTTGTATG
**
8337095 GTTATTCATCCACATAGGATGAATTTAGTGAAATGCACACTTAGTGCCG-AAAC
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAC
* ** * * *
8337148 AGTTATTCATCCATATAGGATGAATTATGTGAAACGCACACTTAGTGAC-AAAATG
1 -GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAA-C
*
8337203 GTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACTTAGTGCCG-AAAC
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAC
* ** * * *
8337256 AGTTATTCATCCACATAGGATGAATTCTGTGGATTTGCACAC-CAGGTGCTTG--TAC
1 -GTTATTCATCCACATAGGATGAATTCCGT-GAAATGCACACTTA-GTGC-CGAAAAC
* * *
8337311 GGTTATTCATCCACGTAGGATAAATTCTGTGAAATGCACACTTAGTGCC-AAAAC
1 -GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAC
* * *
8337365 GATTATTTATCCACATAGGATGAATTCCGTGAAATGTACACTTAGTGTCG-AAAC
1 G-TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAC
* * * **
8337419 GGTTATTCATCCGCATAGGATGAATTACGTGAAATGTACACTTAGTGTTG-AAAC
1 -GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAC
* * * *
8337473 GATTATTCATCCACATATGTTGAATTCCGTGAAATGTACACTTAGTGTCG-AAAC
1 G-TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAC
8337527 GATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG-AAAC
1 G-TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAC
* *
8337581 GATTATTTATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAT
1 G-TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAC
* * *
8337636 GTTATTCATCCAAATAGGATAAATTCCGTGAAATGCACATTTAGTGCC
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
8337684 CATTTGGTAA
Statistics
Matches: 468, Mismatches: 52, Indels: 30
0.85 0.09 0.05
Matches are distributed among these distances:
53 2 0.00
54 417 0.89
55 48 0.10
56 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (54 bp):
GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAC
Found at i:8356001 original size:65 final size:65
Alignment explanation
Indices: 8355869--8356028 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
8355859 TTCACTAAGA
* * * * * *
8355869 GTGCAGCGATGCATGAAGTGTATTCGATG-TTTCAAACAAGCCTGAGTCCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAACAAACCTAAGTCCATCGATGCATGGCTT
*
8355933 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AAACCTAAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AACAAACCTAAGTCCATCGATGCATGGCT
8355996 AT
65 -T
*
8355998 GTGCATCGATGCATATAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
8356029 CAATTTATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 26 0.31
65 57 0.67
66 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAACAAACCTAAGTCCATCGATGCATGGCTT
Found at i:8361655 original size:25 final size:26
Alignment explanation
Indices: 8361617--8361684 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
8361607 CAAACATTTT
* *
8361617 AATACAATAATAAAACATTCA-TTGA
1 AATACATTACTAAAACATTCACTTGA
* *
8361642 AATATATTACTAAAA-ATTCACTTTA
1 AATACATTACTAAAACATTCACTTGA
*
8361667 AATCCATTAC-AAAACATT
1 AATACATTACTAAAACATT
8361685 TTTCTTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 9 0.26
25 26 0.74
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.32
Consensus pattern (26 bp):
AATACATTACTAAAACATTCACTTGA
Found at i:8362128 original size:60 final size:60
Alignment explanation
Indices: 8362010--8362306 Score: 441
Period size: 60 Copynumber: 4.9 Consensus size: 60
8362000 GCACTGTTTT
* * *
8362010 TCATCTAACTTGCATTAGTGGCACTTTTCTACCAAAAATGCTCAGTTAGGCATTTAACTTA
1 TCATCTAACTTGCATTAGTGGCACATTTCTACC-AAAATGCACCGTTAGGCATTTAACTTA
* * * * *
8362071 TCATCTAACTTGCATCAATGGAACATTTCTACAAAAATACACCGTTAGGCATTTAACTTA
1 TCATCTAACTTGCATTAGTGGCACATTTCTACCAAAATGCACCGTTAGGCATTTAACTTA
* *
8362131 TCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACCGTTAGGCATTTAACTTA
1 TCATCTAACTTGCATTAGTGGCACATTTCTACCAAAATGCACCGTTAGGCATTTAACTTA
* * *
8362191 TCATCTAACTTGCATTAGTGACACCTTTCTTCCAAAATGCACCGTTAGGCATTTAACTTA
1 TCATCTAACTTGCATTAGTGGCACATTTCTACCAAAATGCACCGTTAGGCATTTAACTTA
* * *
8362251 TCATCTAACTTGTATTATTGGCACATTTCTACCAAAATACACCGTTAGGCATTTAA
1 TCATCTAACTTGCATTAGTGGCACATTTCTACCAAAATGCACCGTTAGGCATTTAA
8362307 TTTTCATTTT
Statistics
Matches: 213, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
60 185 0.87
61 28 0.13
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (60 bp):
TCATCTAACTTGCATTAGTGGCACATTTCTACCAAAATGCACCGTTAGGCATTTAACTTA
Found at i:8366187 original size:28 final size:26
Alignment explanation
Indices: 8366128--8366205 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 26
8366118 AATATTTTGC
8366128 AAAAAATAACAATAAAAACATAACTT
1 AAAAAATAACAATAAAAACATAACTT
*
8366154 ACAAAATATAACATTGAAAAACATAA-TAT
1 A-AAAA-ATAACAAT-AAAAACATAACT-T
*
8366183 AAAAACTAA-ATATAAAAA-ATAAC
1 AAAAAATAACA-ATAAAAACATAAC
8366206 ATTCAATTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
25 4 0.09
26 7 0.16
27 8 0.19
28 12 0.28
29 12 0.28
ACGTcount: A:0.68, C:0.10, G:0.01, T:0.21
Consensus pattern (26 bp):
AAAAAATAACAATAAAAACATAACTT
Found at i:8366310 original size:20 final size:20
Alignment explanation
Indices: 8366285--8366323 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8366275 ATAAAAACAA
8366285 AAAGATAAAATTACATAAAC
1 AAAGATAAAATTACATAAAC
8366305 AAAGATAAAATTACATAAA
1 AAAGATAAAATTACATAAA
8366324 TTAATGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAAATTACATAAAC
Found at i:8366737 original size:21 final size:21
Alignment explanation
Indices: 8366713--8366765 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
8366703 ATTAACAGGG
*
8366713 TTGATATATAAACCGA-TGAGC
1 TTGATATATAAACCGACGGA-C
* * *
8366734 TTGACATGTAAATCGACGGAC
1 TTGATATATAAACCGACGGAC
8366755 TTGATATATAA
1 TTGATATATAA
8366766 CTCAGTGAGC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (21 bp):
TTGATATATAAACCGACGGAC
Found at i:8366777 original size:42 final size:42
Alignment explanation
Indices: 8366668--8366778 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
8366658 TAGCCTCTAG
* * *
8366668 GGCTTGGTATATAACTCGATGAGCTCGACATATAAATTAACA
1 GGCTTGATATATAACTCGATGAGCTTGACATATAAATCAACA
* * *
8366710 GGGTTGATATATAAAC-CGATGAGCTTGACATGTAAATCGAC-
1 GGCTTGATATAT-AACTCGATGAGCTTGACATATAAATCAACA
8366751 GGACTTGATATATAACTC-AGTGAGCTTG
1 GG-CTTGATATATAACTCGA-TGAGCTTG
8366779 GGATATAACC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
41 6 0.10
42 49 0.84
43 3 0.05
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (42 bp):
GGCTTGATATATAACTCGATGAGCTTGACATATAAATCAACA
Found at i:8369728 original size:20 final size:21
Alignment explanation
Indices: 8369704--8369773 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
8369694 ATATCTAGAG
8369704 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATGTTTTAA
* * *
8369725 -TAATCCTGAATATTTAATTTTAA
1 TTAAT--TAAATATAT-GTTTTAA
*
8369748 TTAATTAAATATA-GATTTAA
1 TTAATTAAATATATGTTTTAA
8369768 TTAATT
1 TTAATT
8369774 TGAAATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 15 0.39
22 13 0.34
23 6 0.16
24 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAATTAAATATATGTTTTAA
Found at i:8369906 original size:89 final size:89
Alignment explanation
Indices: 8369747--8369910 Score: 285
Period size: 89 Copynumber: 1.8 Consensus size: 89
8369737 TTTAATTTTA
*
8369747 ATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATTATTAGGGTAACTTG
1 ATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACTTG
8369812 ATATAAAAGGATTATTAAATTCTT
66 ATATAAAAGGATTATTAAATTCTT
*
8369836 ATTAATTAAATATAGATTTAATTAATTTGATATAATAAAA-CCCTAATATGATTAGGGTAACTTG
1 ATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACTT-
*
8369900 GCTATAAAAGG
65 GATATAAAAGG
8369911 GTATGTTAGG
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
88 22 0.31
89 49 0.69
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (89 bp):
ATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACTTG
ATATAAAAGGATTATTAAATTCTT
Found at i:8370755 original size:73 final size:73
Alignment explanation
Indices: 8370600--8370803 Score: 360
Period size: 73 Copynumber: 2.8 Consensus size: 73
8370590 GTCATCAGTT
8370600 GTACAAATTGAAGGCCCATATTAATA-TTTTAACAAAGGCGTAACAACGTG--TATATATACCCT
1 GTACAAATTGAAGGCCCATATTAATATTTTTAACAAAGGCGTAACAACGTGTATATATATACCCT
*
8370662 CATCAGCA
66 CATCAACA
8370670 GTACAAATTGAAGGCCCATATTAATATTTTTAACAAAGGCGTAACAACGTGTATATATATACCCT
1 GTACAAATTGAAGGCCCATATTAATATTTTTAACAAAGGCGTAACAACGTGTATATATATACCCT
8370735 CATCAACA
66 CATCAACA
* *
8370743 GTACAAATTGAAGGCCCATATTAATATTTTTAACAAAGACGTAACAACTTGTATATATATA
1 GTACAAATTGAAGGCCCATATTAATATTTTTAACAAAGGCGTAACAACGTGTATATATATA
8370804 TGATATGTTT
Statistics
Matches: 128, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
70 26 0.20
71 24 0.19
73 78 0.61
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (73 bp):
GTACAAATTGAAGGCCCATATTAATATTTTTAACAAAGGCGTAACAACGTGTATATATATACCCT
CATCAACA
Found at i:8383432 original size:4 final size:4
Alignment explanation
Indices: 8383425--8383579 Score: 51
Period size: 4 Copynumber: 38.8 Consensus size: 4
8383415 ATAGTAAGTA
* * * * *
8383425 AAAT AAAT AAA- AAAT -ATT AAAA AAAT AAAG AAAA AGAAGG AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AA-T AAAT AAAT
* *
8383472 ATAT AAAT AAAAC AAAT AAAT AAA- ATAAT -AAT AAA- AAAGT AAA- AAAT
1 AAAT AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAA-T AAAT AAAT
* *
8383519 AATAT ATAT ATAAT AAAT AAA- AACAT AAA- AAAT -AGT AAAT ATATAT
1 AA-AT AAAT A-AAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT A-A-AT
* *
8383565 ATAT AAAT TAAT AAA
1 AAAT AAAT AAAT AAA
8383580 ACAGATAATA
Statistics
Matches: 112, Mismatches: 19, Indels: 40
0.65 0.11 0.23
Matches are distributed among these distances:
3 25 0.22
4 64 0.57
5 19 0.17
6 4 0.04
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:8383448 original size:21 final size:21
Alignment explanation
Indices: 8383406--8383541 Score: 63
Period size: 22 Copynumber: 6.4 Consensus size: 21
8383396 TAAAGAAAGA
*
8383406 AAATATAAAATAGTAAGTAAAAT
1 AAATAAAAAATAGTAA--AAAAT
*
8383429 AAATAAAAAATATTAAAAAAAT
1 AAATAAAAAATAGT-AAAAAAT
* *
8383451 AAAGAAAAAGA-AGGAAAAAAT
1 AAATAAAAA-ATAGTAAAAAAT
*
8383472 --AT-ATAAATA--AAACAAAT
1 AAATAAAAAATAGTAAA-AAAT
*
8383489 AAATAAAATAATAATAAAAAAGT
1 AAATAAAA-AATAGTAAAAAA-T
* *
8383512 AAA-AAATAATATA-TATATAAT
1 AAATAAA-AA-ATAGTAAAAAAT
8383533 AAATAAAAA
1 AAATAAAAA
8383542 CATAAAAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
16 3 0.03
17 5 0.06
18 4 0.04
19 3 0.03
20 2 0.02
21 17 0.19
22 29 0.33
23 24 0.27
24 2 0.02
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (21 bp):
AAATAAAAAATAGTAAAAAAT
Found at i:8383449 original size:22 final size:23
Alignment explanation
Indices: 8383380--8383459 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 23
8383370 AAAAACAAAT
* *
8383380 TAAATAAAAGATAAGATAAAGAAAGA
1 TAAATAAAAAAT-AG-T-AAGAAAAA
* *
8383406 -AAATATAAAATAGTAAGTAAAA
1 TAAATAAAAAATAGTAAGAAAAA
*
8383428 TAAATAAAAAATATTAA-AAAAA
1 TAAATAAAAAATAGTAAGAAAAA
*
8383450 TAAAGAAAAA
1 TAAATAAAAA
8383460 GAAGGAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
22 19 0.42
23 15 0.33
24 2 0.04
25 9 0.20
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (23 bp):
TAAATAAAAAATAGTAAGAAAAA
Found at i:8383496 original size:50 final size:48
Alignment explanation
Indices: 8383427--8383531 Score: 110
Period size: 50 Copynumber: 2.2 Consensus size: 48
8383417 AGTAAGTAAA
*
8383427 ATAAAT-AAAAAATATTAAAAAAATAA-AGAAAAAG-AAGGAAAA-AATAT
1 ATAAATAAAAAAATAATAAAAAAATAATA-AAAAAGTAA--AAAATAATAT
*
8383474 ATAAATAAAACAAATAAATAAAATAATAATAAAAAAGTAAAAAATAATAT
1 ATAAATAAAA-AAAT-AATAAAAAAATAATAAAAAAGTAAAAAATAATAT
*
8383524 ATATATAA
1 ATAAATAA
8383532 TAAATAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
47 6 0.12
48 3 0.06
49 8 0.16
50 29 0.59
51 3 0.06
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (48 bp):
ATAAATAAAAAAATAATAAAAAAATAATAAAAAAGTAAAAAATAATAT
Found at i:8383497 original size:47 final size:45
Alignment explanation
Indices: 8383427--8383548 Score: 122
Period size: 47 Copynumber: 2.6 Consensus size: 45
8383417 AGTAAGTAAA
8383427 ATAAATAAAAAATATTAAAAAAATAAAGA-AAAAGAAGGAAAAAAT-AT
1 ATAAATAAAAAA-A-TAAAAAAATAAA-ATAAAA-AAGGAAAAAATAAT
*
8383474 ATAAATAAAACAAATAAATAAAATAATAATAAAAAAGTAAAAAATAAT
1 ATAAATAAAA-AAATAAA-AAAATAA-AATAAAAAAGGAAAAAATAAT
* * *
8383522 ATATATATAATAAATAAAAACATAAAA
1 ATAAATA-AAAAAATAAAAAAATAAAA
8383549 AATAGTAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
46 6 0.09
47 35 0.54
48 22 0.34
49 2 0.03
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (45 bp):
ATAAATAAAAAAATAAAAAAATAAAATAAAAAAGGAAAAAATAAT
Found at i:8383534 original size:40 final size:39
Alignment explanation
Indices: 8383490--8383630 Score: 119
Period size: 37 Copynumber: 3.5 Consensus size: 39
8383480 AAAACAAATA
8383490 AATAAAATAATAATAAAAAAGTAAAAAATAATATATATAT
1 AATAAAATAATAATAAAAAA-TAAAAAATAATATATATAT
* * *
8383530 AAT-AAATAAAAACATAAAAAATAGTAAATATATATATATAAATT
1 AATAAAAT-AATA-ATAAAAAATA--AAAAATA-ATATATATA-T
* *
8383574 AATAAAACAGATAATAAAAAAT--AACAT-ATATATATAT
1 AATAAAATA-ATAATAAAAAATAAAAAATAATATATATAT
*
8383611 AATCTAAATAATAATAAAAA
1 AAT-AAAATAATAATAAAAA
8383631 TATATACTAA
Statistics
Matches: 83, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
37 14 0.17
38 12 0.14
39 4 0.05
40 12 0.14
41 8 0.10
42 6 0.07
43 8 0.10
44 14 0.17
45 5 0.06
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (39 bp):
AATAAAATAATAATAAAAAATAAAAAATAATATATATAT
Found at i:8383548 original size:33 final size:34
Alignment explanation
Indices: 8383496--8383572 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
8383486 AATAAATAAA
*
8383496 ATAAT-AATAAAAAAGTAAAAAATA-ATATATAT
1 ATAATAAATAAAAAAGTAAAAAATAGAAATATAT
8383528 ATAATAAATAAAAACA-TAAAAAATAGTAAATATAT
1 ATAATAAATAAAAA-AGTAAAAAATAG-AAATATAT
8383563 ATATATAAAT
1 ATA-ATAAAT
8383573 TAATAAAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
32 5 0.13
33 17 0.44
34 1 0.03
35 10 0.26
36 6 0.15
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.29
Consensus pattern (34 bp):
ATAATAAATAAAAAAGTAAAAAATAGAAATATAT
Found at i:8383559 original size:26 final size:25
Alignment explanation
Indices: 8383425--8383559 Score: 87
Period size: 26 Copynumber: 5.2 Consensus size: 25
8383415 ATAGTAAGTA
* *
8383425 AAATAAATAAAAAATATTAAAAAAAT
1 AAATAAATAAAAAATA-AAAAATAAT
* * **
8383451 AAAGAAA-AAGAAGGAAAAAATATAT
1 AAATAAATAAAAAATAAAAAATA-AT
*
8383476 AAATAAAACAAATAAATAAAATAATAAT
1 AAAT-AAATAAA-AAATAAAA-AATAAT
* *
8383504 AAA-AAAGTAAAAAATAATATAT-AT
1 AAATAAA-TAAAAAATAAAAAATAAT
*
8383528 ATAATAAATAAAAACATAAAAAATAGT
1 A-AATAAATAAAAA-ATAAAAAATAAT
8383555 AAATA
1 AAATA
8383560 TATATATATA
Statistics
Matches: 83, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
24 8 0.10
25 20 0.24
26 33 0.40
27 7 0.08
28 11 0.13
29 4 0.05
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (25 bp):
AAATAAATAAAAAATAAAAAATAAT
Found at i:8383577 original size:44 final size:43
Alignment explanation
Indices: 8383468--8383612 Score: 122
Period size: 44 Copynumber: 3.4 Consensus size: 43
8383458 AAGAAGGAAA
* ** *
8383468 AAATATATAAATA-AAACAAATAAATAAAATAATAATAAAAAAGT
1 AAATATATATATATAAATTAATAAATAAAA-AATAA-AAAATAGT
* *
8383512 AAA-AAATA-ATATATATATAATAAATAAAAACATAAAAAATAGT
1 AAATATATATATATAAAT-TAATAAATAAAAA-ATAAAAAATAGT
*
8383555 AAATATATATATATAAATTAATAAA-ACAGATAATAAAAAATA--
1 AAATATATATATATAAATTAATAAATA-A-AAAATAAAAAATAGT
*
8383597 ACATATATATATATAA
1 AAATATATATATATAA
8383613 TCTAAATAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
42 18 0.21
43 18 0.21
44 40 0.47
45 9 0.11
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (43 bp):
AAATATATATATATAAATTAATAAATAAAAAATAAAAAATAGT
Found at i:8383596 original size:37 final size:34
Alignment explanation
Indices: 8383470--8383650 Score: 77
Period size: 33 Copynumber: 5.6 Consensus size: 34
8383460 GAAGGAAAAA
* *
8383470 ATATATAAA-TAA-AACAAATAA-ATAAAATAAT
1 ATATATAAATTAATAAAAAATAATAAAAAATAAT
* *
8383501 A-ATA-AAA--AAGTAAAAAATAATATATATATAAT
1 ATATATAAATTAA-TAAAAAATAATA-AAAAATAAT
* * *
8383533 A-A-ATAAA-AACATAAAAAATAGT-AAATAT-AT
1 ATATATAAATTA-ATAAAAAATAATAAAAAATAAT
*
8383563 ATATATAAATTAATAAAACAGATAATAAAAAATAAC
1 ATATATAAATTAATAAAA-A-ATAATAAAAAATAAT
* ** *
8383599 ATATATATATATAAT-CTAAATAATAATAAA-AAT
1 ATATATAAAT-TAATAAAAAATAATAAAAAATAAT
*
8383632 ATATACTAAAGTAA-AAAAA
1 ATATA-TAAATTAATAAAAA
8383651 TGCATAAAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
28 2 0.02
29 3 0.03
30 14 0.12
31 9 0.08
32 22 0.19
33 25 0.22
34 18 0.16
35 6 0.05
36 11 0.10
37 4 0.04
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.27
Consensus pattern (34 bp):
ATATATAAATTAATAAAAAATAATAAAAAATAAT
Found at i:8384940 original size:84 final size:84
Alignment explanation
Indices: 8384852--8385058 Score: 263
Period size: 84 Copynumber: 2.5 Consensus size: 84
8384842 GCTACTCTGT
*
8384852 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTT
*
8384916 CTCGACTTAAGCTATGCTGC
65 CTAGACTTAAGCTATGCTGC
* * * *
8384936 AAATGATGTGCCTTAGAGCTGAGCATAGTCAAACTCGAAGGTCTTTTGGTGATAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
* * * *
8385001 TAGCCTTGAGTTATGCTGT
66 TAGACTTAAGCTATGCTGC
* * * *
8385020 AAATGATGTGCATTCGAAGCTGAGTGTAATCGAACTCGA
1 AAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAACTCGA
8385059 GGGTTTGATG
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
84 81 0.78
85 23 0.22
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (84 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
TAGACTTAAGCTATGCTGC
Found at i:8385183 original size:36 final size:36
Alignment explanation
Indices: 8385135--8385243 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 36
8385125 AAGGTTGAAT
*
8385135 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTG
8385171 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAAC---
1 TTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAACTTG
* * * * *
8385205 TTCCAAAAGAAATTGTCTCAAGGGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTG
8385241 TTT
1 TTT
8385244 AACGTATAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
33 4 0.06
34 24 0.39
36 29 0.47
37 5 0.08
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTG
Found at i:8385216 original size:34 final size:35
Alignment explanation
Indices: 8385143--8385236 Score: 120
Period size: 34 Copynumber: 2.7 Consensus size: 35
8385133 ATTTTCAAGG
* *
8385143 GAAACTGTCTCAAGAGAGAC-AAAACTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAAAC-T-TTCCAAAA
8385179 GAAACTGTCTCAAGAGAGACAAAAAC-TTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAAACTTTCCAAAA
* *
8385213 GAAATTGTCTCAAGGGAGACAAAA
1 GAAACTGTCTCAAGAGAGACAAAA
8385237 TTTGTTTAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
34 28 0.53
36 20 0.38
37 5 0.09
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (35 bp):
GAAACTGTCTCAAGAGAGACAAAAACTTTCCAAAA
Found at i:8385483 original size:19 final size:21
Alignment explanation
Indices: 8385455--8385509 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
8385445 AGAAAATGTC
* *
8385455 TCAAGGGAGACGAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
8385476 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
8385497 TCAAGAGAAACAA
1 TCAAGAGAGACAA
8385510 TCTTGAGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.24
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:8385660 original size:72 final size:73
Alignment explanation
Indices: 8385477--8385664 Score: 224
Period size: 73 Copynumber: 2.6 Consensus size: 73
8385467 AAATTTGTTT
* * *
8385477 CAAGAGAGACAAAAT-TTGTTTCAAGAGAA-ACAATCTTGAGTGAAATAAATCTTATTTCGAGTG
1 CAAGAGAGAC-AAATCTGGTTTTAAGA-AAGACAAACTTGAGTGAAATAAATCTTATTTCGAGTG
8385540 AAAACGGTCC
64 AAAACGGTCC
* * *
8385550 CAAGAGAGACAAATCTGGTTTTAAGAAAGACAATCTTGAGTGGAATAAATCTTCTTTCGAGT-AA
1 CAAGAGAGACAAATCTGGTTTTAAGAAAGACAAACTTGAGTGAAATAAATCTTATTTCGAGTGAA
*
8385614 AACGGTCT
66 AACGGTCC
* *
8385622 CAGGTGAGACAAAGTCT-GTTTTAAGAAAAGA-AAACTTGAGTGA
1 CAAGAGAGACAAA-TCTGGTTTTAAG-AAAGACAAACTTGAGTGA
8385665 CGACAAAGTT
Statistics
Matches: 102, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
72 44 0.43
73 58 0.57
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (73 bp):
CAAGAGAGACAAATCTGGTTTTAAGAAAGACAAACTTGAGTGAAATAAATCTTATTTCGAGTGAA
AACGGTCC
Found at i:8385670 original size:37 final size:36
Alignment explanation
Indices: 8385625--8385701 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 36
8385615 ACGGTCTCAG
8385625 GTGAGACAAAGTCTGTTTTAAGAAAAGAAAACTTGA
1 GTGAGACAAAGTCTGTTTTAAGAAAAGAAAACTTGA
* *
8385661 GTGACGACAAAGTTTGTTTTAAGAAAAGCAAACTTGA
1 GTGA-GACAAAGTCTGTTTTAAGAAAAGAAAACTTGA
8385698 GTGA
1 GTGA
8385702 AATAAATCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 4 0.11
37 34 0.89
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (36 bp):
GTGAGACAAAGTCTGTTTTAAGAAAAGAAAACTTGA
Found at i:8385773 original size:109 final size:109
Alignment explanation
Indices: 8385567--8385773 Score: 292
Period size: 109 Copynumber: 1.9 Consensus size: 109
8385557 GACAAATCTG
* * * * *
8385567 GTTTTAAGAAAGACAATCTTGAGTGGAATAAATCTTCTTTCGAGTAAAACGGTCTCAGGTGAGAC
1 GTTTTAAGAAAGACAAACTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGAGAGAC
* * **
8385632 AAAGTCTGTTTTAAGAAAAGAAAACTTGAGTGACGACAAAGTTT
66 AAAGTATGCTTTAAGAAAAGAAAACTCAAGTGACGACAAAGTTT
8385676 GTTTTAAGAAA-AGCAAACTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGAGAGA
1 GTTTTAAGAAAGA-CAAACTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGAGAGA
*
8385740 CAAAGTATGCTTTAAGAAAA-ACAATCTCAAGTGA
65 CAAAGTATGCTTTAAGAAAAGA-AAACTCAAGTGA
8385774 GATAATCATC
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
108 2 0.02
109 84 0.98
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.27
Consensus pattern (109 bp):
GTTTTAAGAAAGACAAACTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGAGAGAC
AAAGTATGCTTTAAGAAAAGAAAACTCAAGTGACGACAAAGTTT
Found at i:8387218 original size:183 final size:183
Alignment explanation
Indices: 8386910--8387259 Score: 610
Period size: 183 Copynumber: 1.9 Consensus size: 183
8386900 GGTTTAACTG
** * *
8386910 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACTAAATTGCCA
1 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAACAGTAGAGCAAACACCAAATTGCCA
*
8386975 AGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCCTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATGGTTTGAACGTAATCTATTCATAAAGCCAGGGCCTTCGAGTTTCCT
8387040 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGATAAATCACTT
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGATAAATCACTT
* *
8387093 AAGGGTTCGTCTCATCACAAAGTCTTTGTCCTGACAAAAACAGTAGAGCAAACACCGAATTGCCA
1 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAACAGTAGAGCAAACACCAAATTGCCA
* * *
8387158 AGTGTCCGAGCAGTGTCATGGTTTGAACGTAGTCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATGGTTTGAACGTAATCTATTCATAAAGCCAGGGCCTTCGAGTTTCCT
8387223 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
8387260 CGGATTTAAT
Statistics
Matches: 157, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 157 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (183 bp):
AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAACAGTAGAGCAAACACCAAATTGCCA
AGTGTCCGAGCAATGTCATGGTTTGAACGTAATCTATTCATAAAGCCAGGGCCTTCGAGTTTCCT
CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGATAAATCACTT
Found at i:8391285 original size:33 final size:33
Alignment explanation
Indices: 8391246--8391337 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 33
8391236 AAATAGTAAG
8391246 TAAAATAAATAAAAAATATTAAAAAAATAT-TAAA
1 TAAAATAAATAAAAAA-A-TAAAAAAATATATAAA
*
8391280 -AAAAT-AATGAAAAAGAATAAAAATATATATAAA
1 TAAAATAAAT-AAAAA-AATAAAAAAATATATAAA
*
8391313 TAAAACAAATAAAAAAATAAAAAAA
1 TAAAATAAATAAAAAAATAAAAAAA
8391338 GTAAAAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
32 13 0.26
33 24 0.48
34 10 0.20
35 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (33 bp):
TAAAATAAATAAAAAAATAAAAAAATATATAAA
Found at i:8391301 original size:9 final size:8
Alignment explanation
Indices: 8391246--8391381 Score: 69
Period size: 9 Copynumber: 15.9 Consensus size: 8
8391236 AAATAGTAAG
8391246 TAAAATAAA
1 TAAAA-AAA
8391255 TAAAAAATA
1 TAAAAAA-A
8391264 TTAAAAAAA
1 -TAAAAAAA
**
8391273 T-ATTAAA
1 TAAAAAAA
*
8391280 -AAAATAA
1 TAAAAAAA
8391287 TGAAAAAGAA
1 T-AAAAA-AA
*
8391297 TAAAAATA
1 TAAAAAAA
* *
8391305 TATATAAA
1 TAAAAAAA
8391313 TAAAACAAA
1 TAAAA-AAA
8391322 TAAAAAAA
1 TAAAAAAA
8391330 TAAAAAAA
1 TAAAAAAA
8391338 GTAAAAATAA
1 -TAAAAA-AA
* *
8391348 TATATATATA
1 TA-A-AAAAA
*
8391358 TATAATAAA
1 TA-AAAAAA
*
8391367 TAAAAACA
1 TAAAAAAA
8391375 TAAAAAA
1 TAAAAAA
8391382 TAGTAAATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 23
0.71 0.13 0.17
Matches are distributed among these distances:
7 7 0.07
8 33 0.34
9 38 0.39
10 18 0.18
11 2 0.02
ACGTcount: A:0.74, C:0.01, G:0.02, T:0.23
Consensus pattern (8 bp):
TAAAAAAA
Found at i:8391314 original size:51 final size:48
Alignment explanation
Indices: 8391243--8391401 Score: 121
Period size: 45 Copynumber: 3.5 Consensus size: 48
8391233 ATAAAATAGT
*
8391243 AAGT-AAAATAA-ATA-AAAAATATTAAAAAAATATTAAAAAAATAATGAAA
1 AAGTAAAAATAATATATATAAATATTAAAAAAA-A-TAAAAAAATAA--AAA
*
8391292 AAG-AATAAA-AATATATAT-AA-A-TAAAACAAATAAAAAAATAAAAA
1 AAGTAA-AAATAATATATATAAATATTAAAAAAAATAAAAAAATAAAAA
* * *
8391336 AAGTAAAAATAATATATAT--ATA-TATAATAAATAAAAACATAAAAA
1 AAGTAAAAATAATATATATAAATATTAAAAAAAATAAAAAAATAAAAA
8391381 ATAGT--AAAT-ATATATATAAAT
1 A-AGTAAAAATAATATATATAAAT
8391402 TAATAAAACA
Statistics
Matches: 95, Mismatches: 5, Indels: 24
0.77 0.04 0.19
Matches are distributed among these distances:
43 8 0.08
44 14 0.15
45 35 0.37
46 14 0.15
47 1 0.01
48 7 0.07
49 7 0.07
50 8 0.08
51 1 0.01
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (48 bp):
AAGTAAAAATAATATATATAAATATTAAAAAAAATAAAAAAATAAAAA
Found at i:8391332 original size:17 final size:17
Alignment explanation
Indices: 8391243--8391349 Score: 65
Period size: 19 Copynumber: 5.8 Consensus size: 17
8391233 ATAAAATAGT
8391243 AAGTAAAATAAATAAAAA
1 AAGTAAAA-AAATAAAAA
*
8391261 ATATTAAAAAAATATTAAAA
1 A-AGTAAAAAAATA--AAAA
* *
8391281 AAATAATGAAAAAGAATAAA
1 AAGTAA--AAAAATAA-AAA
*
8391301 AA-TATATATAAATAAAACA
1 AAGTA-A-AAAAATAAAA-A
8391320 AA-TAAAAAAATAAAAA
1 AAGTAAAAAAATAAAAA
8391336 AAGTAAAAATAATA
1 AAGTAAAAA-AATA
8391350 TATATATATA
Statistics
Matches: 72, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
16 3 0.04
17 15 0.21
18 13 0.18
19 24 0.33
20 11 0.15
21 6 0.08
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.21
Consensus pattern (17 bp):
AAGTAAAAAAATAAAAA
Found at i:8391352 original size:43 final size:42
Alignment explanation
Indices: 8391276--8391401 Score: 144
Period size: 45 Copynumber: 2.8 Consensus size: 42
8391266 AAAAAAATAT
8391276 TAAAAAAATAATGAAAAAGAATAAAAATATATATAAATAAAACAAA
1 TAAAAAAATAA--AAAAAG--TAAAAATATATATAAATAAAACAAA
* *
8391322 TAAAAAAATAAAAAAAGTAAAAATAATATATATATATATAATAAA
1 TAAAAAAATAAAAAAAGTAAAAAT-ATATATA-A-ATAAAACAAA
* *
8391367 TAAAAACATAAAAAATAGTAAATATATATATAAAT
1 TAAAAAAATAAAAAA-AGTAAAAATATATATAAAT
8391402 TAATAAAACA
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
42 7 0.10
43 9 0.12
44 8 0.11
45 29 0.40
46 19 0.26
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.25
Consensus pattern (42 bp):
TAAAAAAATAAAAAAAGTAAAAATATATATAAATAAAACAAA
Found at i:8391372 original size:79 final size:79
Alignment explanation
Indices: 8391289--8391502 Score: 188
Period size: 81 Copynumber: 2.6 Consensus size: 79
8391279 AAAAATAATG
* *
8391289 AAAAAGAATAAAAATATATATAAATAAAACAAATAAAAAAATAAAAAAAGT-AAAAAT-A-ATAT
1 AAAAAAAATAAAAATATATATAAATAAAA-AAATAAAAAAATAAAAAAAATAAAAAATAACATAT
8391351 ATATATATATAATA-
65 ATATATATATAATAT
* * * * **
8391365 AATAAAAACATAAAAA-ATA-GTAAATATATATATAAATTAATAAAACAGATAATAAAAAATAAC
1 AA-AAAAA-ATAAAAATATATATAAATAAAAAAATAAAAAAATAAAA-A-A-AATAAAAAATAAC
*
8391428 ATATATATATATATAATCT
61 ATATATATATATATAATAT
* *
8391447 AAAAAATAATAAAAATATATACTAAAGTAAAAAAATGCATAAAATATAAAAAAATA
1 AAAAAA-AATAAAAATATATA-TAAA-TAAAAAAAT-AAAAAAATA-AAAAAAATA
8391503 TTACATGAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
75 13 0.12
76 10 0.10
77 8 0.08
78 9 0.09
79 6 0.06
80 1 0.01
81 28 0.27
82 6 0.06
84 8 0.08
85 7 0.07
86 6 0.06
87 3 0.03
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (79 bp):
AAAAAAAATAAAAATATATATAAATAAAAAAATAAAAAAATAAAAAAAATAAAAAATAACATATA
TATATATATAATAT
Found at i:8395644 original size:54 final size:54
Alignment explanation
Indices: 8395559--8396063 Score: 701
Period size: 54 Copynumber: 9.4 Consensus size: 54
8395549 TTATGTGTAC
*
8395559 TATAGGCACTAAGTGTGTAACCCACGGAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
* * *
8395613 TATAGGCACTAAGTGTGCAACCCATGTAATTCATCATATGTTGATGAACAACCA
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
* * *
8395667 TATAGGCACTAAGTGTGCAACCCAGGGAATTCATCATATGTTGATAAACAACCA
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
* * *
8395721 TAAAAGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
* * *
8395775 TATAGGCACTAAGTGTGCAACCCACTGAATTAATCATATATTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
* ***
8395829 TATAGGCACTAAGTGTGCAAACCATAAAATTCATCATATGTTGATGAGA-AACCG
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGA-ACAACCG
*
8395883 TATAGGCA-TACAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACTG
1 TATAGGCACTA-AGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
* *
8395937 TATAAGCACTAAGTGTGCAACCCACGTAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
* * * * * **
8395991 TATAGGCACTATGTGTGCGAA-CCACGGAATTTATAATATTTTTATGAATGACCG
1 TATAGGCACTAAGTGTGC-AACCCACGGAATTCATCATATGTTGATGAACAACCG
* *
8396045 TATAGGCATTACGTGTGCA
1 TATAGGCACTAAGTGTGCA
8396064 TCTCAACGAA
Statistics
Matches: 403, Mismatches: 43, Indels: 11
0.88 0.09 0.02
Matches are distributed among these distances:
53 4 0.01
54 394 0.98
55 5 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
Found at i:8402667 original size:54 final size:54
Alignment explanation
Indices: 8402603--8403160 Score: 737
Period size: 54 Copynumber: 10.4 Consensus size: 54
8402593 TTATGTGTAC
** *
8402603 TATAGGCACTAAGTGTATAACCCACGAAATTCATCATATATTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * * *
8402657 TATAGCCACTAAGTGTACAACCCAC-ATAATTCATCATATATTGATGAACAACTG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCG
* * * * *
8402711 TATAGGCAATAAGCGTGCAACCCACGAAATTCTTCATATGTTAATGAACAACTG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* *
8402765 TATAGACACTAAG-GTGCAACCCACGAAATTCATCATATGTTGATGAACAATCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * * *
8402818 TATAGGCACTAAGTGTACAAACCAAGAAATTCATCATATGTTGATGAACAATCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
*
8402872 TATAGGCACTAAGTGTGCAACCCAC-AGAATTCATCATATGTTGATGAACAACTG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCG
* *
8402926 TATAGGCACTAAGTGTGCAAACCACAAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * *
8402980 TATAGGCACTCAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACTG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * *
8403034 TATAGGCACTAGGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCA
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * * * * **
8403088 TATAGGCACTATGTGTGTGAA-CCACGAAATTCATAATTTGTTTATGAATGACCG
1 TATAGGCACTAAGTGTG-CAACCCACGAAATTCATCATATGTTGATGAACAACCG
* *
8403142 TATAGGCACCACGTGTGCA
1 TATAGGCACTAAGTGTGCA
8403161 TCTCAATGAA
Statistics
Matches: 450, Mismatches: 48, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
53 51 0.11
54 395 0.88
55 4 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
Found at i:8408198 original size:24 final size:25
Alignment explanation
Indices: 8408171--8408232 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 25
8408161 TTTCGATTTC
* *
8408171 AATTATGTTCTGATTTTTTATC-TG
1 AATTATGTTCTGATTTCTGATCTTG
* *
8408195 AATTTTGTTCTAATTTCTGATCTTG
1 AATTATGTTCTGATTTCTGATCTTG
*
8408220 -ATTATGTTATGAT
1 AATTATGTTCTGAT
8408233 ATATGATATG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.56
Consensus pattern (25 bp):
AATTATGTTCTGATTTCTGATCTTG
Found at i:8408274 original size:22 final size:21
Alignment explanation
Indices: 8408239--8408279 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
8408229 TGATATATGA
8408239 TATGAATTCTGTTT-TTGATT
1 TATGAATTCTGTTTATTGATT
8408259 TATGATATCTCTGTTTATTGA
1 TATGA-AT-TCTGTTTATTGA
8408280 CAAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 7 0.39
23 4 0.22
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (21 bp):
TATGAATTCTGTTTATTGATT
Found at i:8412868 original size:18 final size:18
Alignment explanation
Indices: 8412817--8412869 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
8412807 AATATACGTC
* *
8412817 TGATAACTGTAAAATATA
1 TGATAACTATAAAATGTA
* *
8412835 TGCTAACTAAAAAATGTA
1 TGATAACTATAAAATGTA
8412853 TGATAACTATAAAATGT
1 TGATAACTATAAAATGT
8412870 CTTATAAATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (18 bp):
TGATAACTATAAAATGTA
Found at i:8415705 original size:14 final size:14
Alignment explanation
Indices: 8415688--8415714 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8415678 CAATAATAAT
8415688 ATAATAAAAATATC
1 ATAATAAAAATATC
8415702 ATAATAAAAATAT
1 ATAATAAAAATAT
8415715 TATTTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAAAAATATC
Found at i:8415901 original size:13 final size:14
Alignment explanation
Indices: 8415871--8415901 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8415861 TAAAATAGTT
8415871 AAATCTTAATATCA
1 AAATCTTAATATCA
8415885 AAATCTTAATA-CA
1 AAATCTTAATATCA
8415898 AAAT
1 AAAT
8415902 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATCTTAATATCA
Found at i:8415907 original size:3 final size:3
Alignment explanation
Indices: 8415899--8415927 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8415889 CTTAATACAA
8415899 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8415928 AATCATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8421469 original size:7 final size:7
Alignment explanation
Indices: 8421459--8421483 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8421449 ATGGAATTAC
8421459 AAATTTT
1 AAATTTT
8421466 AAATTTT
1 AAATTTT
8421473 AAATTTT
1 AAATTTT
8421480 AAAT
1 AAAT
8421484 AAACATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:8423201 original size:17 final size:17
Alignment explanation
Indices: 8423179--8423211 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8423169 TGAATCAAAT
8423179 TAATTAGATATTATTTG
1 TAATTAGATATTATTTG
8423196 TAATTAGATATTATTT
1 TAATTAGATATTATTT
8423212 AAATTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TAATTAGATATTATTTG
Found at i:8425116 original size:2 final size:2
Alignment explanation
Indices: 8425109--8425143 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8425099 TTTGGTCATT
8425109 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8425144 GTACATATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8436601 original size:14 final size:15
Alignment explanation
Indices: 8436579--8436695 Score: 50
Period size: 19 Copynumber: 7.5 Consensus size: 15
8436569 TTTCGCTTGA
*
8436579 AGAAGAAAT-AAAAG
1 AGAAAAAATGAAAAG
*
8436593 AGAAAAAATGAAAAA
1 AGAAAAAATGAAAAG
8436608 ATGAGAAAAATGAAAAATG
1 A-GA-AAAAATG-AAAA-G
*
8436627 ATGGAAAAAACGAAAAG
1 A--GAAAAAATGAAAAG
*
8436644 -G-AAAAA--AACA-
1 AGAAAAAATGAAAAG
8436654 AGAAAAAATGGAAAAGGG
1 AGAAAAAAT-GAAAA--G
8436672 AAGAAAAAATGAAAA-
1 -AGAAAAAATGAAAAG
8436687 ATGAAAAAA
1 A-GAAAAAA
8436696 GAGAAAAATG
Statistics
Matches: 80, Mismatches: 7, Indels: 31
0.68 0.06 0.26
Matches are distributed among these distances:
11 4 0.05
12 5 0.06
13 5 0.06
14 10 0.12
15 15 0.19
16 2 0.03
17 8 0.10
18 13 0.16
19 16 0.20
20 2 0.03
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.08
Consensus pattern (15 bp):
AGAAAAAATGAAAAG
Found at i:8436605 original size:8 final size:8
Alignment explanation
Indices: 8436594--8436711 Score: 75
Period size: 8 Copynumber: 13.9 Consensus size: 8
8436584 AAATAAAAGA
8436594 GAAAAAAT
1 GAAAAAAT
8436602 GAAAAAAT
1 GAAAAAAT
8436610 GAGAAAAAT
1 GA-AAAAAT
8436619 GAAAAATGAT
1 GAAAAA--AT
*
8436629 GGAAAAAAC
1 -GAAAAAAT
8436638 GAAAAGGAA-
1 GAAAA--AAT
*
8436647 -AAAAACAA
1 GAAAAA-AT
8436655 GAAAAAAT
1 GAAAAAAT
8436663 GGAAAAGGGAA-
1 -GAAAA---AAT
8436674 GAAAAAAT
1 GAAAAAAT
8436682 G-AAAAAT
1 GAAAAAAT
8436689 GAAAAAA-
1 GAAAAAAT
8436696 GAGAAAAAT
1 GA-AAAAAT
8436705 GAAAAAA
1 GAAAAAA
8436712 AAGAGAAATA
Statistics
Matches: 91, Mismatches: 2, Indels: 34
0.72 0.02 0.27
Matches are distributed among these distances:
6 1 0.01
7 12 0.13
8 40 0.44
9 21 0.23
10 9 0.10
11 6 0.07
12 2 0.02
ACGTcount: A:0.71, C:0.02, G:0.19, T:0.08
Consensus pattern (8 bp):
GAAAAAAT
Found at i:8436701 original size:16 final size:16
Alignment explanation
Indices: 8436675--8436724 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
8436665 AAAAGGGAAG
*
8436675 AAAAAATGAAAAATGA
1 AAAAAAAGAAAAATGA
*
8436691 AAAAAGAGAAAAATGA
1 AAAAAAAGAAAAATGA
*
8436707 AAAAAAAGAGAAAT-A
1 AAAAAAAGAAAAATGA
8436722 AAA
1 AAA
8436725 GGAGGGTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (16 bp):
AAAAAAAGAAAAATGA
Found at i:8436713 original size:18 final size:16
Alignment explanation
Indices: 8436588--8436724 Score: 75
Period size: 17 Copynumber: 8.1 Consensus size: 16
8436578 AAGAAGAAAT
8436588 AAAAGAGAAAAAATGAA
1 AAAAGAG-AAAAATGAA
8436605 AAAATGAGAAAAATGAA
1 AAAA-GAGAAAAATGAA
* *
8436622 AAATGATGGAAAAAACGAA
1 AAAAGA--G-AAAAATGAA
*
8436641 AAGGAA-A-AAAACAAGAA
1 AA--AAGAGAAAA-ATGAA
**
8436658 AAAATG-GAAAAGGGAA
1 AAAA-GAGAAAAATGAA
*
8436674 GAAAAAATGAAAAATGAA
1 -AAAAGA-GAAAAATGAA
8436692 AAAAGAGAAAAATGAA
1 AAAAGAGAAAAATGAA
* *
8436708 AAAAAAGAGAAAT-AA
1 AAAAGAGAAAAATGAA
8436723 AA
1 AA
8436725 GGAGGGTTCA
Statistics
Matches: 95, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
15 6 0.06
16 30 0.32
17 35 0.37
18 12 0.13
19 10 0.11
20 1 0.01
21 1 0.01
ACGTcount: A:0.72, C:0.01, G:0.19, T:0.07
Consensus pattern (16 bp):
AAAAGAGAAAAATGAA
Found at i:8436719 original size:61 final size:59
Alignment explanation
Indices: 8436583--8436719 Score: 145
Period size: 61 Copynumber: 2.3 Consensus size: 59
8436573 GCTTGAAGAA
* *
8436583 GAAATAAAAGAGAAAAAATGAAAAAATGAGAAAAATGAAAAATGATGGAAAAAACGAAAAG
1 GAAAAAAAAGAGAAAAAATGAAAAAAGGAGAAAAATGAAAAATGA--GAAAAAACGAAAAG
* * *
8436644 GAAAAAAACA-AGAAAAAATGGAAAAGGGAAGAAAAAATGAAAAATGA-AAAAAGA-GAAAAAT
1 GAAAAAAA-AGAGAAAAAATGAAAAAAGG-AG-AAAAATGAAAAATGAGAAAAA-ACG-AAAAG
8436705 GAAAAAAAAGAGAAA
1 GAAAAAAAAGAGAAA
8436720 TAAAAGGAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
60 7 0.11
61 40 0.62
62 3 0.05
63 15 0.23
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.07
Consensus pattern (59 bp):
GAAAAAAAAGAGAAAAAATGAAAAAAGGAGAAAAATGAAAAATGAGAAAAAACGAAAAG
Found at i:8438103 original size:51 final size:51
Alignment explanation
Indices: 8438042--8438188 Score: 285
Period size: 51 Copynumber: 2.9 Consensus size: 51
8438032 AAATTCGTTT
8438042 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
8438093 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
*
8438144 GTTGAAGATTGAGCCCTATACTCTCTGAAGGAATAGGGAGCGGAC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
8438189 CCATTTTTTT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 95 1.00
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
Found at i:8438282 original size:55 final size:55
Alignment explanation
Indices: 8438202--8438356 Score: 265
Period size: 55 Copynumber: 2.8 Consensus size: 55
8438192 TTTTTTTTTT
* *
8438202 AAGATTGTTTGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACACGTTTACTG
1 AAGATTGTTCGAGTCTTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTACTG
* *
8438257 AAGATTATTCGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTTACTG
1 AAGATTGTTCGAGTCTTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTACTG
*
8438312 AAGATTGTTCGAGTCTTATACTCCATGAAAGAATAGGGAGCAGAC
1 AAGATTGTTCGAGTCTTATACTCCCTGAAAGAATAGGGAGCAGAC
8438357 CCGCCATTTG
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 94 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (55 bp):
AAGATTGTTCGAGTCTTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTACTG
Found at i:8439687 original size:2 final size:2
Alignment explanation
Indices: 8439680--8439710 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8439670 TTTGGTCATT
8439680 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8439711 GTACATATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8449864 original size:48 final size:45
Alignment explanation
Indices: 8449793--8449890 Score: 142
Period size: 48 Copynumber: 2.1 Consensus size: 45
8449783 AAAAATCTCC
* *
8449793 GGAGATATTACAAAGGAATACACCTAAATAATAACACATTCACTCAAA
1 GGAGAAATTACAAAGGAATACACCTAAATAAT-AC-C-TTAACTCAAA
*
8449841 GGAGAAATTACAAAGGAATACACCTAAGTAATACCTTAACTCAAA
1 GGAGAAATTACAAAGGAATACACCTAAATAATACCTTAACTCAAA
8449886 GGAGA
1 GGAGA
8449891 CACCTCCTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
45 14 0.30
46 1 0.02
47 2 0.04
48 30 0.64
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.19
Consensus pattern (45 bp):
GGAGAAATTACAAAGGAATACACCTAAATAATACCTTAACTCAAA
Found at i:8463343 original size:7 final size:7
Alignment explanation
Indices: 8463331--8463358 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8463321 TATAACTGCT
8463331 TAACAAC
1 TAACAAC
8463338 TAACAAC
1 TAACAAC
8463345 TAACAAC
1 TAACAAC
8463352 TAACAAC
1 TAACAAC
8463359 CATTCCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (7 bp):
TAACAAC
Found at i:8463504 original size:18 final size:17
Alignment explanation
Indices: 8463483--8463522 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
8463473 TTTTTAATAG
8463483 AAAATATA-AAAAATATCT
1 AAAATATATAAAAA-AT-T
8463501 AAAATATATAAAAAATT
1 AAAATATATAAAAAATT
8463518 AAAAT
1 AAAAT
8463523 TTTTAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATATATAAAAAATT
Found at i:8467551 original size:77 final size:79
Alignment explanation
Indices: 8467407--8467561 Score: 217
Period size: 77 Copynumber: 2.0 Consensus size: 79
8467397 ATATAGTAAG
* * *
8467407 TAAATATTAAAAGAATGTAATTCTGATTACAACTCTTTTAATGGATATTTAATTCTGAATAATTA
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATGGATATTTAATTATGAATAATTA
8467472 AATAAGAGTTTAAA
66 AATAAGAGTTTAAA
* * * *
8467486 TAAACATT-AAAGAGTGTAATTCAGATTATAAGTC-TTTAATGGATATTTTA-TATGAATTAATT
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATGGATATTTAATTATGAA-TAATT
8467548 AAATAAGAGTTTAA
65 AAATAAGAGTTTAA
8467562 TTAATTCGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 5 0.07
77 34 0.50
78 22 0.32
79 7 0.10
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (79 bp):
TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATGGATATTTAATTATGAATAATTA
AATAAGAGTTTAAA
Found at i:8469541 original size:15 final size:15
Alignment explanation
Indices: 8469521--8469551 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8469511 TGTCATTGAA
8469521 GAACCTGTTCCTAAT
1 GAACCTGTTCCTAAT
*
8469536 GAACCTGTTGCTAAT
1 GAACCTGTTCCTAAT
8469551 G
1 G
8469552 CTTTTAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (15 bp):
GAACCTGTTCCTAAT
Found at i:8478335 original size:21 final size:21
Alignment explanation
Indices: 8478311--8478368 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
8478301 TTTTATTGGG
8478311 GAGTATCGATACTTCCATGGA
1 GAGTATCGATACTTCCATGGA
*
8478332 GAGTATCGATACTACCATGGA
1 GAGTATCGATACTTCCATGGA
*
8478353 GAGTATCAATACTTCC
1 GAGTATCGATACTTCC
8478369 CTTGCAGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (21 bp):
GAGTATCGATACTTCCATGGA
Found at i:8478420 original size:15 final size:15
Alignment explanation
Indices: 8478400--8478448 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
8478390 TTGCAGTTCT
*
8478400 AATACTACGAGTACC
1 AATACTGCGAGTACC
*
8478415 AATACTGCGAGTGCC
1 AATACTGCGAGTACC
*
8478430 AATACTGTGAGTA-C
1 AATACTGCGAGTACC
8478444 AATAC
1 AATAC
8478449 CAATACTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 6 0.20
15 24 0.80
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (15 bp):
AATACTGCGAGTACC
Found at i:8478763 original size:21 final size:21
Alignment explanation
Indices: 8478737--8478776 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8478727 GACTATCGCA
8478737 TTGCGATTTCCCAAATTCGGG
1 TTGCGATTTCCCAAATTCGGG
* *
8478758 TTGCGATTTTCCTAATTCG
1 TTGCGATTTCCCAAATTCG
8478777 CAATGCGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGGG
Found at i:8478783 original size:21 final size:21
Alignment explanation
Indices: 8478732--8478784 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
8478722 ATTCTGACTA
8478732 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
** * *
8478753 TCGGGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
8478774 TCGCAATGCGA
1 TCGCATTGCGA
8478785 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:8478803 original size:20 final size:20
Alignment explanation
Indices: 8478774--8478945 Score: 186
Period size: 20 Copynumber: 8.6 Consensus size: 20
8478764 TTTTCCTAAT
8478774 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
8478794 TCGTAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
8478814 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
8478835 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
8478855 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
8478876 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
8478896 TCACAATGCGAATACGT-AA
1 TCGCAATGCGAATACGTAAA
* * *
8478915 TTGCATTGCGATTTACGT-AA
1 TCGCAATGCGA-ATACGTAAA
*
8478935 TCGCATTGCGA
1 TCGCAATGCGA
8478946 TTTTCCTAAT
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
19 10 0.08
20 83 0.65
21 34 0.27
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:8478804 original size:41 final size:41
Alignment explanation
Indices: 8478774--8478945 Score: 226
Period size: 41 Copynumber: 4.3 Consensus size: 41
8478764 TTTTCCTAAT
* *
8478774 TCGCAATGCGAA-TACGTAAATCGTAATGCGATTACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAATGCGATTACGTAAA
*
8478814 TCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAATGCGATTACGTAAA
*
8478855 TCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAATGCGATTACGTAAA
* * * *
8478896 TCACAATGCGAA-TACG-TAATTGCATTGCGATTTACGT-AA
1 TCGCAATGCGAATTACGAAAATCGCAATGCGA-TTACGTAAA
*
8478935 TCGCATTGCGA
1 TCGCAATGCGA
8478946 TTTTCCTAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 22 0.18
40 21 0.17
41 77 0.64
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCGCAATGCGATTACGTAAA
Found at i:8478842 original size:61 final size:61
Alignment explanation
Indices: 8478774--8478945 Score: 215
Period size: 61 Copynumber: 2.8 Consensus size: 61
8478764 TTTTCCTAAT
* *
8478774 TCGCAATGCGAATACGTAAATCGTAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACGAAAA
* * * *
8478835 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCG-ATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCG-ATTACGTAAATCGCAATGCGAATTACGAAAA
* * * *
8478896 TCACAATGCGAATACGT-AATTGCATTGCGATTTACGT-AATCGCATTGCGA
1 TCGCAATGCGAATACGTAAATCGCAATGCGA-TTACGTAAATCGCAATGCGA
8478946 TTTTCCTAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
59 12 0.13
60 14 0.15
61 51 0.54
62 18 0.19
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (61 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACGAAAA
Found at i:8478990 original size:20 final size:20
Alignment explanation
Indices: 8478912--8479000 Score: 83
Period size: 20 Copynumber: 4.4 Consensus size: 20
8478902 TGCGAATACG
* **
8478912 TAATTGCATTGCGATTTACG
1 TAATCGCATTGCGATTTATT
*
8478932 TAATCGCATTGCGATTT-TCC
1 TAATCGCATTGCGATTTAT-T
8478952 TAATTCGCACTT-CGATTTATT
1 TAA-TCGCA-TTGCGATTTATT
*
8478973 TAATCGCATTGCGATTTAGT
1 TAATCGCATTGCGATTTATT
*
8478993 AAATCGCA
1 TAATCGCA
8479001 ACGAGATTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.03
20 39 0.67
21 14 0.24
22 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (20 bp):
TAATCGCATTGCGATTTATT
Found at i:8479890 original size:24 final size:24
Alignment explanation
Indices: 8479863--8479916 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
8479853 GTATTCGAAA
8479863 TTTGATCTTGGTCAATAAC-CGGAC
1 TTTGATCTTGGTCAAT-ACTCGGAC
*
8479887 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
8479911 TTTGAT
1 TTTGAT
8479917 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:8482468 original size:19 final size:20
Alignment explanation
Indices: 8482426--8482480 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
8482416 CAATCATCTT
*
8482426 AATGTCTATCGCAACGTGGA
1 AATGACTATCGCAACGTGGA
*
8482446 AATGACTATCGCAATGT-GA
1 AATGACTATCGCAACGTGGA
**
8482465 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
8482481 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (20 bp):
AATGACTATCGCAACGTGGA
Found at i:8482490 original size:33 final size:33
Alignment explanation
Indices: 8482453--8482546 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
8482443 GGAAATGACT
*
8482453 ATCGCAATGTGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
8482486 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
8482519 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
8482547 CGAATTTAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:8482509 original size:19 final size:18
Alignment explanation
Indices: 8482453--8482550 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 18
8482443 GGAAATGACT
*
8482453 ATCGCAATGTGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
8482472 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
8482486 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
8482505 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
8482519 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
8482538 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
8482551 TTTAGTTTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
14 17 0.28
15 4 0.07
16 4 0.07
17 3 0.05
18 4 0.07
19 29 0.48
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:8482588 original size:19 final size:19
Alignment explanation
Indices: 8482551--8482592 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8482541 GCAACGCGAA
*
8482551 TTTAGTTTCAAGTTGCGAT
1 TTTAGTTTCAAGTTACGAT
**
8482570 TTTAGTTTCGCGTTACGAT
1 TTTAGTTTCAAGTTACGAT
8482589 TTTA
1 TTTA
8482593 TCGTTGCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (19 bp):
TTTAGTTTCAAGTTACGAT
Found at i:8482602 original size:14 final size:14
Alignment explanation
Indices: 8482580--8482619 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8482570 TTTAGTTTCG
*
8482580 CGTTACGATTTTAT
1 CGTTGCGATTTTAT
* *
8482594 CGTTGCGATTCTCT
1 CGTTGCGATTTTAT
8482608 CGTTGCGATTTT
1 CGTTGCGATTTT
8482620 CATTTCGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTAT
Found at i:8482761 original size:14 final size:14
Alignment explanation
Indices: 8482742--8482778 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8482732 CATCAATTAA
8482742 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
8482756 ACAAATCATCTTTT
1 ACAAATCAACTTTT
8482770 ACAAATCAA
1 ACAAATCAA
8482779 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:8484646 original size:33 final size:33
Alignment explanation
Indices: 8484604--8484697 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
8484594 AAAAATGACT
* *
8484604 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
8484637 ATCGCAACGCGAAATGAAAGTCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
* **
8484670 ATCACAACGCGAAACCAAAAATCGCAAC
1 ATCGCAACGCGAAA-TGAAAATCGCAAC
8484698 ACGATTATAG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 43 0.81
34 10 0.19
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:8484662 original size:19 final size:18
Alignment explanation
Indices: 8484604--8484664 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 18
8484594 AAAAATGACT
8484604 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATG-AA
*
8484623 ATCGCAA--CGAGA-G-A
1 ATCGCAACGCGAAATGAA
8484637 ATCGCAACGCGAAATGAA
1 ATCGCAACGCGAAATGAA
8484655 AGTCGCAACG
1 A-TCGCAACG
8484665 ACAAAATCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 8 0.23
16 5 0.14
17 5 0.14
18 2 0.06
19 15 0.43
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.10
Consensus pattern (18 bp):
ATCGCAACGCGAAATGAA
Found at i:8484732 original size:20 final size:20
Alignment explanation
Indices: 8484707--8484744 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8484697 CACGATTATA
8484707 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
8484727 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
8484745 CATTCTCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.29, T:0.50
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:8484971 original size:94 final size:93
Alignment explanation
Indices: 8484859--8485136 Score: 401
Period size: 94 Copynumber: 3.1 Consensus size: 93
8484849 ATGGATTGCA
* * *
8484859 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGAT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
8484924 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAAACGAACAAAT
8484952 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
8485017 TTAGCAGAATTGGCAGC-AAC---CGAAT
65 TTAGCAGAATTGGCAGCAAACGAACAAAT
* *
8485042 ATACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* * *
8485103 TTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAAACGAACAAAT
8485132 TTACT
1 TTACT
8485137 AAGCAATCTA
Statistics
Matches: 168, Mismatches: 11, Indels: 15
0.87 0.06 0.08
Matches are distributed among these distances:
86 25 0.15
87 2 0.01
89 19 0.11
90 41 0.24
93 7 0.04
94 74 0.44
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAAACGAACAAAT
Found at i:8486850 original size:20 final size:20
Alignment explanation
Indices: 8486825--8486920 Score: 75
Period size: 20 Copynumber: 5.2 Consensus size: 20
8486815 TTTTGGTTGA
*
8486825 AATGAAAATCGTAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
8486845 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
8486864 AAATGACTATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
8486883 -A-G--AATCGCAAC-ACGA-
1 AATGAAAATCGCAACGA-GAG
8486898 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
8486918 AAT
1 AAT
8486921 CGCAATGCGA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 8 0.13
16 4 0.07
17 2 0.03
18 1 0.02
19 13 0.21
20 33 0.54
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:8486891 original size:14 final size:14
Alignment explanation
Indices: 8486872--8486925 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
8486862 GGAAATGACT
8486872 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
8486886 ATCGCAACACGAAATGAAA
1 ATCGC-A-ACG--A-GAGA
8486905 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
8486919 ATCGCAA
1 ATCGCAA
8486926 TGCGATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 15 0.45
15 2 0.06
16 3 0.09
17 3 0.09
18 2 0.06
19 8 0.24
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:8486909 original size:33 final size:34
Alignment explanation
Indices: 8486851--8486925 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
8486841 AGAGAATGAA
* **
8486851 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACACGGAAATGAAAATCGCAACGAGAG
8486885 AATCGCAACAC-GAAATGAAAATCGCAACGAGAG
1 AATCGCAACACGGAAATGAAAATCGCAACGAGAG
8486918 AATCGCAA
1 AATCGCAA
8486926 TGCGATTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 28 0.74
34 10 0.26
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (34 bp):
AATCGCAACACGGAAATGAAAATCGCAACGAGAG
Found at i:8486978 original size:33 final size:33
Alignment explanation
Indices: 8486926--8487018 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
8486916 AGAATCGCAA
** *
8486926 TGCGATTTTGGTTTCGCGTTGTGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
* *
8486959 TGCGATTTTCATTTTGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
**
8486992 TGCGATAGTCATTTCCGCGTTGCGATT
1 TGCGATTTTCATTT-CGCGTTGCGATT
8487019 TTCATTCTCG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 40 0.78
34 11 0.22
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:8487590 original size:20 final size:20
Alignment explanation
Indices: 8487567--8487822 Score: 149
Period size: 20 Copynumber: 12.7 Consensus size: 20
8487557 CGATAGTCAG
*
8487567 ATTCGCATTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
8487587 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
8487607 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* * * *
8487628 AATCACGTTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
8487648 ATTCGCATTGCGAATTATGAA
1 ATTCGCATTGCGATTTACG-T
* ** *
8487669 AATCGCAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACGT
* * * * *
8487688 AAATCGCAATGCGAATTAGGAAA
1 -ATTCGCATTGCGATTTACG--T
* *
8487711 ATT-GCAATGCGA-ATACGT
1 ATTCGCATTGCGATTTACGT
* *
8487729 AATCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGT
* * *
8487749 ATTCGCATTACGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
8487769 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* * *
8487790 AATCGCGTTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
*
8487810 ATTCTCATTGCGA
1 ATTCGCATTGCGA
8487823 ATTAGGAAAA
Statistics
Matches: 177, Mismatches: 50, Indels: 18
0.72 0.20 0.07
Matches are distributed among these distances:
18 2 0.01
19 8 0.05
20 108 0.61
21 57 0.32
22 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:8487623 original size:41 final size:41
Alignment explanation
Indices: 8487547--8487822 Score: 181
Period size: 41 Copynumber: 6.8 Consensus size: 41
8487537 GCGCTATGTA
*
8487547 AATCGCATTGCGA--TA-GTCAGATTCGCATTGTGATTTACGT
1 AATCGCATTGCGATTTACGT-A-ATTCGCATTGCGATTTACGT
* * * *
8487587 ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTT
1 AATCGCATTGCGATTTACGTAATTCGCATTGCGATTTACGT
* * * * * *
8487628 AATCACGTTACGATTTACGT-ATTCGCATTGCGAATTATGAA
1 AATCGCATTGCGATTTACGTAATTCGCATTGCGATTTACG-T
** * * * * * *
8487669 AATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAA
1 AATCGCATTGCGATTTACGTAATTCGCATTGCGATTTACG-T
* * * *
8487710 AATTGCAATGCGA-ATACGTAA-TCGCATTGCGATTTACTT
1 AATCGCATTGCGATTTACGTAATTCGCATTGCGATTTACGT
* * * * *
8487749 ATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACTT
1 AATCGCATTGCGATTTACGTAATTCGCATTGCGATTTACGT
* * *
8487790 AATCGCGTTGCAATTTACGT-ATTCTCATTGCGA
1 AATCGCATTGCGATTTACGTAATTCGCATTGCGA
8487823 ATTAGGAAAA
Statistics
Matches: 184, Mismatches: 45, Indels: 14
0.76 0.19 0.06
Matches are distributed among these distances:
39 9 0.05
40 63 0.34
41 109 0.59
42 2 0.01
43 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (41 bp):
AATCGCATTGCGATTTACGTAATTCGCATTGCGATTTACGT
Found at i:8487754 original size:162 final size:163
Alignment explanation
Indices: 8487569--8487864 Score: 486
Period size: 162 Copynumber: 1.8 Consensus size: 163
8487559 ATAGTCAGAT
* *
8487569 TCGCATTGTGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAATCAC
1 TCGCATTGCGATTTACGTATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACTTAATCAC
* * *
8487634 GTTACGATTTACGTATTCGCATTGCGAATTATGAAAATCGCAACGCGAA-TACGTAAATCGCAAT
66 GTTACAATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTACGGAAATCGCAAT
8487698 GCGAATTAGGAAAATTGCAATGCGAATACGTAA
131 GCGAATTAGGAAAATTGCAATGCGAATACGTAA
* *
8487731 TCGCATTGCGATTTACTTATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACTTAATCGC
1 TCGCATTGCGATTTACGTATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACTTAATCAC
* * **
8487796 GTTGCAATTTACGTATTCTCATTGCGAATTAGGAAAATCGCAACGCGAATTTGGGAAATCGCAAT
66 GTTACAATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTACGGAAATCGCAAT
8487861 GCGA
131 GCGA
8487865 TAGTCAGAAT
Statistics
Matches: 122, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
162 106 0.87
163 16 0.13
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (163 bp):
TCGCATTGCGATTTACGTATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACTTAATCAC
GTTACAATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTACGGAAATCGCAAT
GCGAATTAGGAAAATTGCAATGCGAATACGTAA
Found at i:8487837 original size:61 final size:60
Alignment explanation
Indices: 8487691--8487845 Score: 148
Period size: 61 Copynumber: 2.6 Consensus size: 60
8487681 AATACGTAAA
* * * *
8487691 TCGCAATGCGAATTAGGAAAATTGCAATGCGAATACGTAATCGCATTGCGATTTACTTAT
1 TCGCATTGCGAATTAGGAAAATCGCAATGCGAATACGTAATCGCATTGCAATTTACGTAT
* * **** * * * * *
8487751 TCGCATTACGATTTTCCTAATTCGCATTGCGATTTACTTAATCGCGTTGCAATTTACGTAT
1 TCGCATTGCGAATTAGGAAAATCGCAATGCGA-ATACGTAATCGCATTGCAATTTACGTAT
* *
8487812 TCTCATTGCGAATTAGGAAAATCGCAACGCGAAT
1 TCGCATTGCGAATTAGGAAAATCGCAATGCGAAT
8487846 TTGGGAAATC
Statistics
Matches: 68, Mismatches: 26, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
60 23 0.34
61 45 0.66
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (60 bp):
TCGCATTGCGAATTAGGAAAATCGCAATGCGAATACGTAATCGCATTGCAATTTACGTAT
Found at i:8487843 original size:21 final size:21
Alignment explanation
Indices: 8487819--8487864 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8487809 TATTCTCATT
8487819 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
8487840 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
8487861 GCGA
1 GCGA
8487865 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:8492469 original size:17 final size:18
Alignment explanation
Indices: 8492443--8492477 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8492433 TTGAGTGAGG
8492443 TTAACCATAA-AAGGAAT
1 TTAACCATAATAAGGAAT
*
8492460 TTAACGATAATAAGGAAT
1 TTAACCATAATAAGGAAT
8492478 CTTAGAGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (18 bp):
TTAACCATAATAAGGAAT
Found at i:8493685 original size:15 final size:15
Alignment explanation
Indices: 8493661--8493709 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
8493651 CCGGTGCTAC
*
8493661 GAGTACCAATACTAT
1 GAGTATCAATACTAT
*
8493676 GAGTATCAATACCAT
1 GAGTATCAATACTAT
*
8493691 TAGTATCAATACTAT
1 GAGTATCAATACTAT
8493706 GAGT
1 GAGT
8493710 CCAGTACCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (15 bp):
GAGTATCAATACTAT
Found at i:8508183 original size:21 final size:19
Alignment explanation
Indices: 8508145--8508190 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
8508135 AAATAATCCT
8508145 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
8508165 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
8508186 A-TAAT
1 ACTAAT
8508191 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:8519661 original size:19 final size:19
Alignment explanation
Indices: 8519637--8519680 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
8519627 GAGATAAATA
8519637 TGCTCCTCACGTTCTCATC
1 TGCTCCTCACGTTCTCATC
8519656 TGCTCCTCACGTTCTCATC
1 TGCTCCTCACGTTCTCATC
8519675 TGCTCC
1 TGCTCC
8519681 ATTGGCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.09, C:0.43, G:0.11, T:0.36
Consensus pattern (19 bp):
TGCTCCTCACGTTCTCATC
Found at i:8532383 original size:32 final size:32
Alignment explanation
Indices: 8532300--8532385 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 32
8532290 GACATAACCT
* *
8532300 AAAATCTAATCGATCTGGTATTAACCTGACCCA
1 AAAATC-AATCGATCCGATATTAACCTGACCCA
* * * * *
8532333 AAAATCAA-CATATTCGATATTTACCTGATCTA
1 AAAATCAATC-GATCCGATATTAACCTGACCCA
8532365 AAAATCAATCGATCCGATATT
1 AAAATCAATCGATCCGATATT
8532386 GATTTGAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
31 1 0.02
32 34 0.81
33 7 0.17
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (32 bp):
AAAATCAATCGATCCGATATTAACCTGACCCA
Done.