Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 73 of 133
Found at i:14384269 original size:10 final size:10
Alignment explanation
Indices: 14384224--14384261 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
14384214 CATGAATTGC
14384224 AAAAAA-AAA
1 AAAAAAGAAA
14384233 AAAAAAGAAAA
1 AAAAAAG-AAA
14384244 AAAAAAGAAA
1 AAAAAAGAAA
14384254 AAAAAAGA
1 AAAAAAGA
14384262 TGAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 6 0.22
10 11 0.41
11 10 0.37
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:14384270 original size:1 final size:1
Alignment explanation
Indices: 14384224--14384259 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
14384214 CATGAATTGC
* *
14384224 AAAAAAAAAAAAAAAGAAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14384260 GATGAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:14384666 original size:21 final size:20
Alignment explanation
Indices: 14384640--14384680 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
14384630 TCATCTTGTC
14384640 AAAAATGAAAACATGCAAAAA
1 AAAAATGAAAACATG-AAAAA
*
14384661 AAAAATGAAAAGATGAAAAA
1 AAAAATGAAAACATGAAAAA
14384681 CATGCTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.73, C:0.05, G:0.12, T:0.10
Consensus pattern (20 bp):
AAAAATGAAAACATGAAAAA
Found at i:14386560 original size:14 final size:14
Alignment explanation
Indices: 14386541--14386567 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14386531 CTTTTATCTA
14386541 CATATAAGTTTATG
1 CATATAAGTTTATG
14386555 CATATAAGTTTAT
1 CATATAAGTTTAT
14386568 CTACACATAG
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:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (14 bp):
CATATAAGTTTATG
Found at i:14386879 original size:16 final size:16
Alignment explanation
Indices: 14386840--14386879 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
14386830 GAAAAAGCTT
*
14386840 TTTATCTACATATAAG
1 TTTATCTGCATATAAG
14386856 TTTA--TGCATATAAG
1 TTTATCTGCATATAAG
14386870 TTTATCTGCA
1 TTTATCTGCA
14386880 CGTAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (16 bp):
TTTATCTGCATATAAG
Found at i:14390607 original size:3 final size:3
Alignment explanation
Indices: 14390599--14390677 Score: 140
Period size: 3 Copynumber: 26.0 Consensus size: 3
14390589 TGGTCTGATT
*
14390599 ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14390647 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
14390678 TAAACATGCA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
3 70 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14392148 original size:14 final size:14
Alignment explanation
Indices: 14392129--14392161 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
14392119 TGTCAAAGAA
*
14392129 AAAAAAATAAAAAT
1 AAAAAAATAAAAAG
14392143 AAAAAAATAAAAAG
1 AAAAAAATAAAAAG
14392157 AAAAA
1 AAAAA
14392162 GGAAAAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (14 bp):
AAAAAAATAAAAAG
Found at i:14392385 original size:16 final size:16
Alignment explanation
Indices: 14392364--14392394 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14392354 GAGAGAGAGG
*
14392364 AAAACTTTTGAAATTA
1 AAAACTTTTCAAATTA
14392380 AAAACTTTTCAAATT
1 AAAACTTTTCAAATT
14392395 CATTTTCCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAACTTTTCAAATTA
Found at i:14393774 original size:22 final size:22
Alignment explanation
Indices: 14393749--14393820 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
14393739 AACTGGCACA
* *
14393749 TAAGCCCAGATTAGCTATCATG
1 TAAGCCCAGATTAGTTAGCATG
*
14393771 TAAGCCTAGATTAGTTAGCATG
1 TAAGCCCAGATTAGTTAGCATG
* * *
14393793 TAAGTCCATATTAGTTAGCACG
1 TAAGCCCAGATTAGTTAGCATG
14393815 TAAGCC
1 TAAGCC
14393821 AATACACCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (22 bp):
TAAGCCCAGATTAGTTAGCATG
Found at i:14394073 original size:33 final size:32
Alignment explanation
Indices: 14394016--14394350 Score: 133
Period size: 33 Copynumber: 10.6 Consensus size: 32
14394006 CTAACAACCC
* * * *
14394016 AAAACTTAAGCCCAGTTTAACTGGCAACCAATG
1 AAAATTTAAGCTCAATTTAGCTGGC-ACCAATG
* *
14394049 AAAATTTCAGCTCAATTTAGCTGGCATTCAATG
1 AAAATTTAAGCTCAATTTAGCTGGCA-CCAATG
* * *
14394082 -AAATTTAAGCTTATTTTAGCTAGCACCTAATG
1 AAAATTTAAGCTCAATTTAGCTGGCACC-AATG
* * *
14394114 AAATTTTAAG-TCTACTTTAGTTGGCACCAATG
1 AAAATTTAAGCTC-AATTTAGCTGGCACCAATG
* * * *
14394146 AGATTTTAAGCCCAGTTTTAGCTGGCACC--T-
1 AAAATTTAAGCTCA-ATTTAGCTGGCACCAATG
* *
14394176 -AAGTTTAAGCCCAATTTAGCTAGTGC-CCAA-G
1 AAAATTTAAGCTCAATTTAGCT-G-GCACCAATG
* * * * *
14394207 ----TTGTAAACCCAATTTATCTTGCACCATTG
1 AAAATT-TAAGCTCAATTTAGCTGGCACCAATG
* * * * *
14394236 CAAATCTAAGC-CCATATAGCTTGCACCAATG
1 AAAATTTAAGCTCAATTTAGCTGGCACCAATG
* * *
14394267 TAAATTTAAGCCCAGA-TTAGCTAGCACCTAATG
1 AAAATTTAAGCTCA-ATTTAGCTGGCACC-AATG
* * * * * *
14394300 AAAATTTAAGCCCAGTTTAGCTAGTATCAATA
1 AAAATTTAAGCTCAATTTAGCTGGCACCAATG
14394332 AAAATTTAAGC-CTAATTTA
1 AAAATTTAAGCTC-AATTTA
14394351 ATTAACACTT
Statistics
Matches: 235, Mismatches: 44, Indels: 47
0.72 0.13 0.14
Matches are distributed among these distances:
27 2 0.01
28 12 0.05
29 29 0.12
30 2 0.01
31 28 0.12
32 75 0.32
33 87 0.37
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (32 bp):
AAAATTTAAGCTCAATTTAGCTGGCACCAATG
Found at i:14394115 original size:65 final size:66
Alignment explanation
Indices: 14394021--14394177 Score: 153
Period size: 65 Copynumber: 2.4 Consensus size: 66
14394011 AACCCAAAAC
* * * *
14394021 TTAAGCCCAG-TTTAACTGGCAACC-AATGAAAATTTCAG-CTCAATTTAGCTGGCATTCAATGA
1 TTAAGCCCAGTTTTAGCTAGC-ACCTAATGAAAATTTAAGTCT-AATTTAGCTGGCA-CCAATGA
14394083 -AAT
63 GAAT
** * * * *
14394086 TTAAGCTTA-TTTTAGCTAGCACCTAATGAAATTTTAAGTCTACTTTAGTTGGCACCAATGAGAT
1 TTAAGCCCAGTTTTAGCTAGCACCTAATGAAAATTTAAGTCTAATTTAGCTGGCACCAATGAGAA
14394150 T
66 T
*
14394151 TTAAGCCCAGTTTTAGCTGGCACCTAA
1 TTAAGCCCAGTTTTAGCTAGCACCTAA
14394178 GTTTAAGCCC
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
64 9 0.12
65 47 0.64
66 18 0.24
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (66 bp):
TTAAGCCCAGTTTTAGCTAGCACCTAATGAAAATTTAAGTCTAATTTAGCTGGCACCAATGAGAA
T
Found at i:14394207 original size:28 final size:28
Alignment explanation
Indices: 14394150--14394231 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
14394140 CCAATGAGAT
*
14394150 TTTAAGCCCAGTTTTAGCTGGCACCTAAG
1 TTTAAGCCCA-ATTTAGCTGGCACCTAAG
14394179 TTTAAGCCCAATTTAGCTAGTGC-CC-AAG
1 TTTAAGCCCAATTTAGCT-G-GCACCTAAG
* * *
14394207 TTGTAAACCCAATTTATCTTGCACC
1 TT-TAAGCCCAATTTAGCTGGCACC
14394232 ATTGCAAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
27 2 0.04
28 14 0.31
29 27 0.60
30 2 0.04
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (28 bp):
TTTAAGCCCAATTTAGCTGGCACCTAAG
Found at i:14394558 original size:20 final size:21
Alignment explanation
Indices: 14394514--14394559 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14394504 TTTTCTTAAG
*
14394514 AAAAAAAAAAGTAAAAAAGCA
1 AAAAAAAAAAGTAAAAAAACA
14394535 AAAAAAAAAAG-AAACAAAACA
1 AAAAAAAAAAGTAAA-AAAACA
14394556 AAAA
1 AAAA
14394560 TAATTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAGTAAAAAAACA
Found at i:14395734 original size:331 final size:331
Alignment explanation
Indices: 14394896--14395834 Score: 1247
Period size: 331 Copynumber: 2.8 Consensus size: 331
14394886 ATTTTTAGTC
* ** * *
14394896 TGTTGGATTATGGGGTCCAGCGGTCTCCTTTAGGGACTTGGTATGTCGATTCATCTGAGTGAGGT
1 TGTTGGATTATGGGGTCTAATGGTCTCCTTTAGGGACTCGGTATGTCGATTCATCTGGGTGAGGT
* * * *
14394961 AT-CTCATGATGGATCGAATTCCAATGTAT-AGTAA-CCAACCTATCGAGGCCTAATGGGTGAGG
66 ATCCT-ATGGTGGATCAAATTTCGATGTATGA-TAACCCAACCTATCGAGGCCTAATGGGTGAGG
* * * **
14395023 TATCTCATGAAGGCTTTGCGAAGCCCCTTATGTCCACCTGTCGCTTAATACGAGGCTCTACATTA
129 TATCCCATGAAGGCTTTGCGAAGCCCCTTATGTCCACCTATCGCTTAGTACGAGGCTCTACGCTA
** *
14395088 CCAAAAGAGAATAAGGAAATAGAGTTGTGCCTTCACTATCAGCTATAGCTTTTGGTGTAGTGGTA
194 CCAAAAGAGAATAAGGAAATAGAGTTGCACCTTCACTATCAGTTATAGCTTTTGGTGTAGTGGTA
* * * * * * *
14395153 AGCACTTGATCTTGAAAACTGGTATCAAGCGAGGTTGCAGGTTCAAGTCCCCCAAGTGTCGCTGG
259 AGCGCTTGATCCTGAAAATTAGTATCAAGCGAAGTTGCAGGTTCAAGTACCCCAAGTGCCGCTGG
14395218 GGGATAGAT
324 GGGA-AGAT
* * * * * *
14395227 TGTTGGATTATGGGGTCTCATGGTCTCTTTTAAGGACTCGGTATATCAATTCATTTGGGTGAGGT
1 TGTTGGATTATGGGGTCTAATGGTCTCCTTTAGGGACTCGGTATGTCGATTCATCTGGGTGAGGT
* * * *
14395292 ATCCCATGGTGGATCAGATTTCGATGTATGACAACCTAACCTATCGAGGCCTAATGGGTGAGGTA
66 ATCCTATGGTGGATCAAATTTCGATGTATGATAACCCAACCTATCGAGGCCTAATGGGTGAGGTA
* * * *
14395357 TCCTATAAAGGCTTTGCGAAGCCCCTTATGTCTACCTCTCGCTTAGTACGAGGCTCTACGCTACC
131 TCCCATGAAGGCTTTGCGAAGCCCCTTATGTCCACCTATCGCTTAGTACGAGGCTCTACGCTACC
* * *
14395422 AAAAGAGAATAAGAAAATAGAGTTACACCTTCACAATCAGTTATAGCTTTTGGTGTAGTGGTAAG
196 AAAAGAGAATAAGGAAATAGAGTTGCACCTTCACTATCAGTTATAGCTTTTGGTGTAGTGGTAAG
* * * ** * * *
14395487 CGCTTGATCCTAAAAATTAGTATCAGAGTGAAGTTGTAGGTTCGTGTACCCTAGGTGCCGTTGGG
261 CGCTTGATCCTGAAAATTAGTATCA-AGCGAAGTTGCAGGTTCAAGTACCCCAAGTGCCGCTGGG
14395552 GG-AGAT
325 GGAAGAT
* * * *
14395558 TGTTGGATTATGGGGTCTAATGGTCTCCTTTAGGGACTCAGTATGTTGATTCATCTGGGTAAGGA
1 TGTTGGATTATGGGGTCTAATGGTCTCCTTTAGGGACTCGGTATGTCGATTCATCTGGGTGAGGT
* * *
14395623 ATCCTATGGTGGATCAAATTTTGGTGTATGATAACCCAACCTACCGAGGCCTAATGGGTGAGGTA
66 ATCCTATGGTGGATCAAATTTCGATGTATGATAACCCAACCTATCGAGGCCTAATGGGTGAGGTA
*
14395688 TCCCATGAAGGCTTTGCGAAGCCCCTTATGTCCACCTATTGCTTAGTACGAGGCTCTACGCTACC
131 TCCCATGAAGGCTTTGCGAAGCCCCTTATGTCCACCTATCGCTTAGTACGAGGCTCTACGCTACC
* * * * *
14395753 GAAAGAGAATAAGGAAATAGAGTTGCACCTTCATTATCAATTATAGCTTTGGGTATAGTGGTAAG
196 AAAAGAGAATAAGGAAATAGAGTTGCACCTTCACTATCAGTTATAGCTTTTGGTGTAGTGGTAAG
*
14395818 CGTTTGATCCTGAAAAT
261 CGCTTGATCCTGAAAAT
14395835 ATGTTTTGAA
Statistics
Matches: 524, Mismatches: 80, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
331 326 0.62
332 167 0.32
333 31 0.06
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (331 bp):
TGTTGGATTATGGGGTCTAATGGTCTCCTTTAGGGACTCGGTATGTCGATTCATCTGGGTGAGGT
ATCCTATGGTGGATCAAATTTCGATGTATGATAACCCAACCTATCGAGGCCTAATGGGTGAGGTA
TCCCATGAAGGCTTTGCGAAGCCCCTTATGTCCACCTATCGCTTAGTACGAGGCTCTACGCTACC
AAAAGAGAATAAGGAAATAGAGTTGCACCTTCACTATCAGTTATAGCTTTTGGTGTAGTGGTAAG
CGCTTGATCCTGAAAATTAGTATCAAGCGAAGTTGCAGGTTCAAGTACCCCAAGTGCCGCTGGGG
GAAGAT
Found at i:14399476 original size:12 final size:13
Alignment explanation
Indices: 14399454--14399492 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 13
14399444 GAAAAATTAT
14399454 TAAATAATAAAAA
1 TAAATAATAAAAA
14399467 TAAA-AATAAAAA
1 TAAATAATAAAAA
14399479 TAGGAATAATAAAA
1 TA--AATAATAAAA
14399493 TTTTAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.43
13 4 0.17
14 2 0.09
15 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:14399515 original size:8 final size:8
Alignment explanation
Indices: 14399502--14399531 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
14399492 ATTTTAAGAA
14399502 AAAAATAT
1 AAAAATAT
14399510 AAAAATAT
1 AAAAATAT
14399518 AAAAATAT
1 AAAAATAT
14399526 AAAAAT
1 AAAAAT
14399532 TCATTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATAT
Found at i:14399655 original size:13 final size:13
Alignment explanation
Indices: 14399633--14399669 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
14399623 TAAAAATCCA
*
14399633 AAAATGAAACCTT
1 AAAATAAAACCTT
14399646 AAAATAAAACCTT
1 AAAATAAAACCTT
14399659 AAAATAAAACC
1 AAAATAAAACC
14399670 CTAAGTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.62, C:0.16, G:0.03, T:0.19
Consensus pattern (13 bp):
AAAATAAAACCTT
Found at i:14399689 original size:19 final size:19
Alignment explanation
Indices: 14399665--14399711 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
14399655 CCTTAAAATA
14399665 AAACCCTAAGT-GAAACCTT
1 AAACCCTAAGTAG-AACCTT
*
14399684 AAACCCTAGGTAGAACCTT
1 AAACCCTAAGTAGAACCTT
*
14399703 AAATCCTAA
1 AAACCCTAA
14399712 AGGCTAGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.21
Consensus pattern (19 bp):
AAACCCTAAGTAGAACCTT
Found at i:14399989 original size:17 final size:17
Alignment explanation
Indices: 14399969--14400004 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14399959 ATAATTCTTT
14399969 AATTAAAATAATAATAA
1 AATTAAAATAATAATAA
* *
14399986 AATTAAATTGATAATAA
1 AATTAAAATAATAATAA
14400003 AA
1 AA
14400005 AAAAAATAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
AATTAAAATAATAATAA
Found at i:14401056 original size:26 final size:26
Alignment explanation
Indices: 14401040--14401110 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
14401030 AAATTATTCA
14401040 ATAAAAGT-AAATAAATAAATAATAAA
1 ATAAAA-TAAAATAAATAAATAATAAA
*
14401066 ATAAAATAAAATAAATGAAA-CA-AAA
1 ATAAAATAAAATAAAT-AAATAATAAA
*
14401091 A-AAACTAAAAATAAATAAAT
1 ATAAAAT-AAAATAAATAAAT
14401111 TGAGCTTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
24 7 0.18
25 14 0.36
26 15 0.38
27 3 0.08
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (26 bp):
ATAAAATAAAATAAATAAATAATAAA
Found at i:14403893 original size:1 final size:1
Alignment explanation
Indices: 14403889--14403949 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
14403879 TAAGTTTCCC
* * ** * * * *
14403889 TTTTTTTCTTTTTTTTTTGTTTTGGTTTTTTTTATTTTTTTTGTTTTGTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14403950 AGCACACCTC
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:14403926 original size:24 final size:22
Alignment explanation
Indices: 14403890--14403949 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 22
14403880 AAGTTTCCCT
14403890 TTTTTTCTTTTTTTTTTGTTTTGG
1 TTTTTT-TTTTTTTTTTGTTTT-G
14403914 TTTTTTTTATTTTTTTTGTTTTG
1 TTTTTTTT-TTTTTTTTGTTTTG
*
14403937 TTTTATTTTTTTT
1 TTTTTTTTTTTTT
14403950 AGCACACCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.15
23 10 0.29
24 19 0.56
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (22 bp):
TTTTTTTTTTTTTTTTGTTTTG
Found at i:14404277 original size:17 final size:18
Alignment explanation
Indices: 14404250--14404294 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
14404240 TTCTCCTTCA
14404250 TTTTC-TTTTTTT-CCTT
1 TTTTCATTTTTTTCCCTT
14404266 TTTTCATTTTTTTCCCTT
1 TTTTCATTTTTTTCCCTT
**
14404284 TCATCATTTTT
1 TTTTCATTTTT
14404295 CAAGAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 5 0.20
17 7 0.28
18 13 0.52
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTCATTTTTTTCCCTT
Found at i:14410561 original size:38 final size:38
Alignment explanation
Indices: 14410489--14410562 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
14410479 GCATAATGGT
* *
14410489 ATAGACATGCATTTGCATCATGTAGTGAATATTTGATC
1 ATAGACATGCATTTGCATCATGTAATGAAAATTTGATC
* * *
14410527 ATAGATATGCATTTGCATCCTTTAATGAAAATTTGA
1 ATAGACATGCATTTGCATCATGTAATGAAAATTTGA
14410563 ATTGTTGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (38 bp):
ATAGACATGCATTTGCATCATGTAATGAAAATTTGATC
Found at i:14410984 original size:21 final size:20
Alignment explanation
Indices: 14410958--14411019 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
14410948 CTCTAAGAAT
14410958 TTTCAAATATGAATCTTTAA
1 TTTCAAATATGAATCTTTAA
* **
14410978 GTTTCAATTGCGAATCTTTGAA
1 -TTTCAAATATGAATCTTT-AA
** *
14411000 TTTTTAATATGAAACTTTAA
1 TTTCAAATATGAATCTTTAA
14411020 AATTTTCAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
TTTCAAATATGAATCTTTAA
Found at i:14411044 original size:23 final size:23
Alignment explanation
Indices: 14410945--14411045 Score: 72
Period size: 22 Copynumber: 4.5 Consensus size: 23
14410935 CTCCATACAT
*
14410945 AATCTCTAAGAATTTTCAAATATG-
1 AATCTTTAA-AATTTTC-AATATGA
* *
14410969 AATCTTT--AAGTTTCAAT-TGCG
1 AATCTTTAAAATTTTCAATATG-A
* *
14410990 AATCTTT-GAATTTTTAATATGA
1 AATCTTTAAAATTTTCAATATGA
14411012 AA-CTTTAAAATTTTCAA-ATGAA
1 AATCTTTAAAATTTTCAATATG-A
14411034 AATCTTTAAAAT
1 AATCTTTAAAAT
14411046 CCTAGATGTG
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
19 2 0.03
20 3 0.05
21 20 0.32
22 21 0.33
23 11 0.17
24 6 0.10
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (23 bp):
AATCTTTAAAATTTTCAATATGA
Found at i:14411349 original size:21 final size:21
Alignment explanation
Indices: 14411294--14411383 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 21
14411284 TTTTTTGTTA
*
14411294 TGAATCTTTGAGTTTTGGATG
1 TGAATCTTTGAATTTTGGATG
* *
14411315 TG-AGCCTTGAAATTATT-GATG
1 TGAATCTTTG-AATT-TTGGATG
** *
14411336 TGAATCTTTGAATTTTTCAAATT
1 TGAATCTTTGAA-TTTT-GGATG
14411359 TGAATCTTTGAATTTTGGATG
1 TGAATCTTTGAATTTTGGATG
14411380 TGAA
1 TGAA
14411384 ATTTTAGATG
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
20 5 0.09
21 21 0.40
22 13 0.25
23 14 0.26
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.46
Consensus pattern (21 bp):
TGAATCTTTGAATTTTGGATG
Found at i:14411454 original size:17 final size:17
Alignment explanation
Indices: 14411434--14411516 Score: 85
Period size: 17 Copynumber: 4.8 Consensus size: 17
14411424 TCTTCAATTT
*
14411434 TTGCAAATCTGAAAATC
1 TTGCAAATTTGAAAATC
* * ** *
14411451 TTGCTATTTTTCAATTC
1 TTGCAAATTTGAAAATC
*
14411468 TTGCAAATCTGAAAATTC
1 TTGCAAATTTGAAAA-TC
*
14411486 TTTCAAATTTGAAAATC
1 TTGCAAATTTGAAAATC
14411503 TTGCAAATTTGAAA
1 TTGCAAATTTGAAA
14411517 TCCTTATGAA
Statistics
Matches: 50, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
17 35 0.70
18 15 0.30
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (17 bp):
TTGCAAATTTGAAAATC
Found at i:14411486 original size:18 final size:18
Alignment explanation
Indices: 14411463--14411516 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
14411453 GCTATTTTTC
*
14411463 AATTCTTGCAAATCTGAA
1 AATTCTTGCAAATTTGAA
*
14411481 AATTCTTTCAAATTTGAA
1 AATTCTTGCAAATTTGAA
14411499 AA-TCTTGCAAATTTGAA
1 AATTCTTGCAAATTTGAA
14411516 A
1 A
14411517 TCCTTATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 15 0.45
18 18 0.55
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (18 bp):
AATTCTTGCAAATTTGAA
Found at i:14411606 original size:16 final size:16
Alignment explanation
Indices: 14411564--14411685 Score: 129
Period size: 16 Copynumber: 7.5 Consensus size: 16
14411554 TACTAATATG
14411564 AAATTCTTGTGAATCT
1 AAATTCTTGTGAATCT
* *
14411580 GAA-TCACTGTGAATCT
1 AAATTC-TTGTGAATCT
*
14411596 AAATTTTTGTGAATCT
1 AAATTCTTGTGAATCT
* *
14411612 AAAATTCTTATGAATAT
1 -AAATTCTTGTGAATCT
* *
14411629 GAATTCTTGTGAATTT
1 AAATTCTTGTGAATCT
14411645 GAAATTCTTGTGAATCT
1 -AAATTCTTGTGAATCT
*
14411662 AAATCCTTGTGAATCT
1 AAATTCTTGTGAATCT
*
14411678 GAATTCTT
1 AAATTCTT
14411686 ACGAATTTGA
Statistics
Matches: 86, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
15 2 0.02
16 56 0.65
17 28 0.33
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (16 bp):
AAATTCTTGTGAATCT
Found at i:14411639 original size:33 final size:32
Alignment explanation
Indices: 14411514--14411742 Score: 126
Period size: 33 Copynumber: 7.0 Consensus size: 32
14411504 TGCAAATTTG
* *
14411514 AAATCCTTATGAATTTGAA-TCTT-TGCAAATCT
1 AAATTCTTATGAATATGAATTCTTGTG--AATCT
14411546 AAAATTCTTACT-AATATGAAATTCTTGTGAATCT
1 -AAATTCTTA-TGAATATG-AATTCTTGTGAATCT
* * * * * *
14411580 GAA-TCACTGTGAATCTAAATTTTTGTGAATCT
1 AAATTC-TTATGAATATGAATTCTTGTGAATCT
*
14411612 AAAATTCTTATGAATATGAATTCTTGTGAATTT
1 -AAATTCTTATGAATATGAATTCTTGTGAATCT
* * * *
14411645 GAAATTCTTGTGAATCTAAATCCTTGTGAATCT
1 -AAATTCTTATGAATATGAATTCTTGTGAATCT
* * * * *
14411678 GAATTCTTACGAATTTGAAATCTT-TGCAAATTT
1 AAATTCTTATGAATATGAATTCTTGTG--AATCT
** ** *
14411711 AAACCCTTGGGAATTTGAATTCTTGTGAATCT
1 AAATTCTTATGAATATGAATTCTTGTGAATCT
14411743 TTCACTCTTG
Statistics
Matches: 149, Mismatches: 36, Indels: 23
0.72 0.17 0.11
Matches are distributed among these distances:
31 2 0.01
32 38 0.26
33 91 0.61
34 12 0.08
35 4 0.03
36 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (32 bp):
AAATTCTTATGAATATGAATTCTTGTGAATCT
Found at i:14411682 original size:49 final size:49
Alignment explanation
Indices: 14411564--14411740 Score: 173
Period size: 49 Copynumber: 3.6 Consensus size: 49
14411554 TACTAATATG
* * * *
14411564 AAATTCTTGTGAATCTGAA-TCACTGTGAATCT-AAATTTTTGTGAATCT
1 AAATCCTTGTGAATCTGAATTC-TTGTGAATTTGAAATTCTTGTGAATCT
* * *
14411612 AAAATTCTTATGAATATGAATTCTTGTGAATTTGAAATTCTTGTGAATCT
1 -AAATCCTTGTGAATCTGAATTCTTGTGAATTTGAAATTCTTGTGAATCT
** *
14411662 AAATCCTTGTGAATCTGAATTCTTACGAATTTGAAA-TCTT-TGCAAATTT
1 AAATCCTTGTGAATCTGAATTCTTGTGAATTTGAAATTCTTGTG--AATCT
* * *
14411711 AAACCCTTGGGAATTTGAATTCTTGTGAAT
1 AAATCCTTGTGAATCTGAATTCTTGTGAAT
14411741 CTTTCACTCT
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
47 2 0.02
48 4 0.04
49 85 0.79
50 17 0.16
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (49 bp):
AAATCCTTGTGAATCTGAATTCTTGTGAATTTGAAATTCTTGTGAATCT
Found at i:14411735 original size:16 final size:16
Alignment explanation
Indices: 14411565--14411740 Score: 113
Period size: 16 Copynumber: 10.8 Consensus size: 16
14411555 ACTAATATGA
*
14411565 AATTCTTGTGAATCTG
1 AATTCTTGTGAATTTG
* * *
14411581 AA-TCACTGTGAATCTA
1 AATTC-TTGTGAATTTG
* **
14411597 AATTTTTGTGAATCTAA
1 AATTCTTGTGAAT-TTG
* *
14411614 AATTCTTATGAATATG
1 AATTCTTGTGAATTTG
14411630 AATTCTTGTGAATTTG
1 AATTCTTGTGAATTTG
* *
14411646 AAATTCTTGTGAATCTA
1 -AATTCTTGTGAATTTG
* *
14411663 AATCCTTGTGAATCTG
1 AATTCTTGTGAATTTG
**
14411679 AATTCTTACGAATTTG
1 AATTCTTGTGAATTTG
* *
14411695 AAATCTT-TGCAAATTTA
1 AATTCTTGTG--AATTTG
** *
14411712 AACCCTTGGGAATTTG
1 AATTCTTGTGAATTTG
14411728 AATTCTTGTGAAT
1 AATTCTTGTGAAT
14411741 CTTTCACTCT
Statistics
Matches: 122, Mismatches: 31, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
15 3 0.02
16 81 0.66
17 37 0.30
18 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (16 bp):
AATTCTTGTGAATTTG
Found at i:14411838 original size:17 final size:17
Alignment explanation
Indices: 14411816--14411871 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
14411806 CAACTTTGAG
14411816 TTTTTATGAATCTGAAA
1 TTTTTATGAATCTGAAA
*
14411833 TTTTTACGAATCTGAAA
1 TTTTTATGAATCTGAAA
* **
14411850 ATAATATGAATCTTGAAA
1 TTTTTATGAATC-TGAAA
14411868 TTTT
1 TTTT
14411872 GCGACTTTTC
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
17 24 0.80
18 6 0.20
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.45
Consensus pattern (17 bp):
TTTTTATGAATCTGAAA
Found at i:14411971 original size:34 final size:35
Alignment explanation
Indices: 14411917--14411997 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 35
14411907 TGAATCTTTC
*
14411917 AATTCTTGTGAATATGAAAATCTCGCAAATTTTTT
1 AATTCTTGTGAATATAAAAATCTCGCAAATTTTTT
** *
14411952 AATTCTTG-GAATATAAAAATCTTTCAAA-TTTTC
1 AATTCTTGTGAATATAAAAATCTCGCAAATTTTTT
*
14411985 AAGTCTTGTGAAT
1 AATTCTTGTGAAT
14411998 TTGAAATCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
33 11 0.28
34 21 0.52
35 8 0.20
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (35 bp):
AATTCTTGTGAATATAAAAATCTCGCAAATTTTTT
Found at i:14412670 original size:6 final size:6
Alignment explanation
Indices: 14412659--14412684 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14412649 AGCAACCATC
14412659 CAAACA CAAACA CAAACA CAAACA CA
1 CAAACA CAAACA CAAACA CAAACA CA
14412685 TTGCCGTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACA
Found at i:14415482 original size:16 final size:16
Alignment explanation
Indices: 14415444--14415474 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14415434 AAATTTACAC
14415444 TCTTGCACTTTAATTT
1 TCTTGCACTTTAATTT
*
14415460 TCATGCACTTTAATT
1 TCTTGCACTTTAATT
14415475 ATTTTGCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.06, T:0.52
Consensus pattern (16 bp):
TCTTGCACTTTAATTT
Found at i:14416890 original size:20 final size:23
Alignment explanation
Indices: 14416865--14416916 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
14416855 TTTATTTATT
14416865 AATTTATTA-T-A-TAATAATAA
1 AATTTATTAGTAATTAATAATAA
*
14416885 AATTTATTTAGTAATTTATAATAA
1 AATTTA-TTAGTAATTAATAATAA
14416909 AATTTATT
1 AATTTATT
14416917 TATTATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.22
21 3 0.11
22 1 0.04
23 3 0.11
24 14 0.52
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AATTTATTAGTAATTAATAATAA
Found at i:14426427 original size:26 final size:26
Alignment explanation
Indices: 14426391--14426451 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
14426381 AAGATAGGGC
14426391 AAAGGAAATTTTGGAGGAATGGTAAA
1 AAAGGAAATTTTGGAGGAATGGTAAA
14426417 AAAGGAAATTTTGGAGGAATGGTAAA
1 AAAGGAAATTTTGGAGGAATGGTAAA
*
14426443 GAAGGAAAT
1 AAAGGAAAT
14426452 GGCACGTGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (26 bp):
AAAGGAAATTTTGGAGGAATGGTAAA
Found at i:14427318 original size:26 final size:24
Alignment explanation
Indices: 14427264--14427342 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 24
14427254 ATATTTTTTG
14427264 TTGTATATTTATTATTATCATTATCATA
1 TTGTATATTT-TTATTAT--TTAT-ATA
14427292 TATGTATATATTTTATTATTTATATA
1 T-TGTATAT-TTTTATTATTTATATA
14427318 TT-TATATTTCTTTAATTATTTATAT
1 TTGTATA-TT-TTT-ATTATTTATAT
14427343 TTTATGGGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
24 5 0.11
25 5 0.11
26 15 0.33
27 4 0.09
28 1 0.02
29 14 0.30
30 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (24 bp):
TTGTATATTTTTATTATTTATATA
Found at i:14427331 original size:18 final size:18
Alignment explanation
Indices: 14427296--14427344 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
14427286 ATCATATATG
14427296 TATATATTT-TA-TTATT
1 TATATATTTATATTTATT
*
14427312 TATATATTTATATTTCTT
1 TATATATTTATATTTATT
14427330 TA-ATTATTTATATTT
1 TATA-TATTTATATTT
14427345 TATGGGTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 9 0.31
17 3 0.10
18 17 0.59
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATATTTATATTTATT
Found at i:14427336 original size:22 final size:22
Alignment explanation
Indices: 14427267--14427336 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 22
14427257 TTTTTTGTTG
* *
14427267 TATATTTATTATTATCATT-ATCA
1 TATATTTA-TATT-TCTTTAATTA
*
14427290 TATATGTATATATTT-TATTATTTA
1 TATAT-T-TATATTTCT-TTAATTA
14427314 TATATTTATATTTCTTTAATTA
1 TATATTTATATTTCTTTAATTA
14427336 T
1 T
14427337 TTATATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
22 14 0.37
23 10 0.26
24 12 0.32
25 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (22 bp):
TATATTTATATTTCTTTAATTA
Found at i:14431228 original size:16 final size:15
Alignment explanation
Indices: 14431203--14431236 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
14431193 TGTAGAATTC
14431203 TTCTTCTTTTTTTTT
1 TTCTTCTTTTTTTTT
14431218 TTCTCTCTTTTTTTTT
1 TTCT-TCTTTTTTTTT
14431234 TTC
1 TTC
14431237 ATTCCATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTCTTCTTTTTTTTT
Found at i:14432924 original size:410 final size:410
Alignment explanation
Indices: 14432152--14432925 Score: 1176
Period size: 410 Copynumber: 1.9 Consensus size: 410
14432142 ATAATTTCAT
* * * *
14432152 AAAATTTCAAACTCTTTTTAAATTTCTAAGGAGTTGCATAAAAACCTTTTCTGAAGTAATCTATT
1 AAAATCTCAAACTCATTTTAAATTTCTAAGGAGTTACATAAAAACCTTTTATGAAGTAATCTATT
14432217 CCCAAATGCCACCTAGATGTTGGAGTATTTAGGAAATTTCATCTCATTAAGAATTTTCATACATT
66 CCCAAATGCCACCTAGATGTTGGAGTATTTAGGAAATTTCATCTCATTAAGAATTTTCATACATT
*
14432282 TTCACAACTCAAAATAAATTTGCTTTGTTAAAACCATGATTATAAAAAAATATATAATAAAAATA
131 TTCAAAACTCAAAATAAATTTGCTTTGTTAAAACCATGATTATAAAAAAATATATAATAAAAATA
* * *
14432347 ATAGGATGGGATTTTAAATATAAAAATTCGCACTCAAACTCTACCTAGATGTTGGAGAGTCCAAG
196 ATAGGACGAGATTTTAAATATAAAAATTCGCACTCAAACTCTACCTAGATGTTGAAGAGTCCAAG
* *
14432412 TAGTCTATTTATATTTGAAAACCCAATTCTTAAATTTGTATTTGATCATCATTGGCATATGTTTT
261 TAGTCTATTTATAATTGAAAACCCAATTCTTAAATTTGCATTTGATCATCATTGGCATATGTTTT
14432477 ATCTTCAAATTAATGTCATCATTTATAATGCATATATATATTTAGAAGATTTATAAATTCTTAAA
326 ATCTTCAAATTAATGTCATCATTTATAATGCATATATATATTTAGAAGATTTATAAATTCTTAAA
14432542 ATTTGAACCCAAACCTACTC
391 ATTTGAACCCAAACCTACTC
* * *
14432562 AAAATCTCAAACTCATTTTAAATTTCTAAGGAGTTACATGAAGACCTTTTATGAAGTAATCTGTT
1 AAAATCTCAAACTCATTTTAAATTTCTAAGGAGTTACATAAAAACCTTTTATGAAGTAATCTATT
** * * * * * *
14432627 TTCAAATGCTACCTAGATGTTGGGGTTTTTATGAAATTTTATCTTATTAAGAATTTTCATACATT
66 CCCAAATGCCACCTAGATGTTGGAGTATTTAGGAAATTTCATCTCATTAAGAATTTTCATACATT
*
14432692 TTCAAAACTCAAAATAAATTCT-CTTTGTTAAAACCATGATTATAAAAATATATATAAT-AAAAT
131 TTCAAAACTCAAAATAAATT-TGCTTTGTTAAAACCATGATTATAAAAAAATATATAATAAAAAT
* * * *
14432755 AATTGGACGAGATTTTAAATATAAAAATTTGCAC-CTAACTCTACCTAGATGTTGAAGAGTCCAG
195 AATAGGACGAGATTTTAAATATAAAAATTCGCACTCAAACTCTACCTAGATGTTGAAGAGTCCAA
* * * *** **
14432819 GTCGTTTCTTTATAATTGAAAACTTGATTCTTAAATTTGCATTTGATCATCATTTTCATATGTTT
260 GTAGTCTATTTATAATTGAAAACCCAATTCTTAAATTTGCATTTGATCATCATTGGCATATGTTT
* * * *
14432884 TATTTTTAAATTAATGTCTTGATTTATAATGCATATATATAT
325 TATCTTCAAATTAATGTCATCATTTATAATGCATATATATAT
14432926 GTTTGCTCTA
Statistics
Matches: 325, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
408 120 0.37
409 35 0.11
410 169 0.52
411 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (410 bp):
AAAATCTCAAACTCATTTTAAATTTCTAAGGAGTTACATAAAAACCTTTTATGAAGTAATCTATT
CCCAAATGCCACCTAGATGTTGGAGTATTTAGGAAATTTCATCTCATTAAGAATTTTCATACATT
TTCAAAACTCAAAATAAATTTGCTTTGTTAAAACCATGATTATAAAAAAATATATAATAAAAATA
ATAGGACGAGATTTTAAATATAAAAATTCGCACTCAAACTCTACCTAGATGTTGAAGAGTCCAAG
TAGTCTATTTATAATTGAAAACCCAATTCTTAAATTTGCATTTGATCATCATTGGCATATGTTTT
ATCTTCAAATTAATGTCATCATTTATAATGCATATATATATTTAGAAGATTTATAAATTCTTAAA
ATTTGAACCCAAACCTACTC
Found at i:14435622 original size:16 final size:16
Alignment explanation
Indices: 14435601--14435633 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14435591 AGAAAATGAA
14435601 AAGGGTTAATAAAGTT
1 AAGGGTTAATAAAGTT
*
14435617 AAGGGTTAATGAAGTT
1 AAGGGTTAATAAAGTT
14435633 A
1 A
14435634 GGCCTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (16 bp):
AAGGGTTAATAAAGTT
Found at i:14442303 original size:21 final size:21
Alignment explanation
Indices: 14442277--14442321 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
14442267 AATTACTACC
14442277 TTAGCACTTTAAGGTTGGATT
1 TTAGCACTTTAAGGTTGGATT
*
14442298 TTAGCACTTTAAGGTTGGGTT
1 TTAGCACTTTAAGGTTGGATT
14442319 TTA
1 TTA
14442322 ATTATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.44
Consensus pattern (21 bp):
TTAGCACTTTAAGGTTGGATT
Found at i:14443950 original size:21 final size:21
Alignment explanation
Indices: 14443926--14443974 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
14443916 TTAGTTAAAG
*
14443926 AAAAAATT-TAAAAATCAAAT
1 AAAAAATTAAAAAAATCAAAT
14443946 CAAAAAATTAAAAAAATCAAAT
1 -AAAAAATTAAAAAAATCAAAT
14443968 AAAAAAT
1 AAAAAAT
14443975 AAATCAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAAATTAAAAAAATCAAAT
Found at i:14443964 original size:17 final size:15
Alignment explanation
Indices: 14443942--14443990 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 15
14443932 TTTAAAAATC
14443942 AAATCAAAAAATTAAAA
1 AAATCAAAAAA--AAAA
*
14443959 AAATCAAATAAAAAAT
1 AAATCAAA-AAAAAAA
14443975 AAATCAAAAGAAAAAA
1 AAATCAAAA-AAAAAA
14443991 GAAGAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 1 0.04
16 16 0.57
17 8 0.29
18 3 0.11
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (15 bp):
AAATCAAAAAAAAAA
Found at i:14445119 original size:35 final size:35
Alignment explanation
Indices: 14445060--14445166 Score: 106
Period size: 35 Copynumber: 3.1 Consensus size: 35
14445050 GAAACTTTAT
* *** *
14445060 TCTTTATTTTTTGACCTGTGATGTTGTCATGGTCA
1 TCTTTATTTTTTGACTTACAATGTTATCATGGTCA
*
14445095 TCTTTATTTTTTGACTTACAATGTTATCTTGGTCA
1 TCTTTATTTTTTGACTTACAATGTTATCATGGTCA
* * * ** *
14445130 TATTTATTCTTTGACTTGCGGTGTTATCCTGGTCA
1 TCTTTATTTTTTGACTTACAATGTTATCATGGTCA
14445165 TC
1 TC
14445167 ATCTTTATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.16, C:0.16, G:0.17, T:0.51
Consensus pattern (35 bp):
TCTTTATTTTTTGACTTACAATGTTATCATGGTCA
Found at i:14445250 original size:36 final size:36
Alignment explanation
Indices: 14445170--14445251 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 36
14445160 GGTCATCATC
** * *
14445170 TTTATTTTTTTAACTTGTGGTGTTGTCTCGATTATT
1 TTTATTTTTTTAACTTACGGTGTTGTCCCGATTATA
14445206 TTTA-TTTTTTAACTTACGGTGTTGTCCCGATTATA
1 TTTATTTTTTTAACTTACGGTGTTGTCCCGATTATA
14445241 TTTATTTTTTT
1 TTTATTTTTTT
14445252 GACCTACGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 31 0.76
36 10 0.24
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (36 bp):
TTTATTTTTTTAACTTACGGTGTTGTCCCGATTATA
Found at i:14445309 original size:35 final size:35
Alignment explanation
Indices: 14445259--14445452 Score: 135
Period size: 35 Copynumber: 5.5 Consensus size: 35
14445249 TTTGACCTAC
* *
14445259 GATCATCTTTATTTTTCGACCTGTAGTGTTGTCTT
1 GATCATATTTATTTTTCGACCTGCAGTGTTGTCTT
* * * * * *
14445294 GGTTATCTTTATTTTTTTGACTTACAGTGTTGTCTT
1 GATCATATTTA-TTTTTCGACCTGCAGTGTTGTCTT
* * *
14445330 G-TCATTTTTATTTTTTTC-ACTTGCAGTGTTGTTTT
1 GATCATATTTA--TTTTTCGACCTGCAGTGTTGTCTT
* *** *
14445365 GATCATATTTGTTTTTTCTGACCTATGGTATTGTCTT
1 GATCATATTT-ATTTTTC-GACCTGCAGTGTTGTCTT
* *
14445402 GATTATATTTATTTTTCGACCTGC-GATGTTGTAC-C
1 GATCATATTTATTTTTCGACCTGCAG-TGTTGT-CTT
14445437 GATCATATTTATTTTT
1 GATCATATTTATTTTT
14445453 TTAACCTATG
Statistics
Matches: 125, Mismatches: 26, Indels: 16
0.75 0.16 0.10
Matches are distributed among these distances:
34 1 0.01
35 63 0.50
36 41 0.33
37 20 0.16
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.55
Consensus pattern (35 bp):
GATCATATTTATTTTTCGACCTGCAGTGTTGTCTT
Found at i:14445323 original size:36 final size:36
Alignment explanation
Indices: 14445283--14445527 Score: 158
Period size: 35 Copynumber: 6.8 Consensus size: 36
14445273 TTCGACCTGT
* * *
14445283 AGTGTTGTCTTGGTTATCTTTATTTTTTTGACTTAC
1 AGTGTTGTCTTGATCATATTTATTTTTTTGACTTAC
* * *
14445319 AGTGTTGTCTTG-TCATTTTTATTTTTTTCACTTGC
1 AGTGTTGTCTTGATCATATTTATTTTTTTGACTTAC
* * * *
14445354 AGTGTTGTTTTGATCATATTTGTTTTTTCTGACCTAT
1 AGTGTTGTCTTGATCATATTTATTTTTT-TGACTTAC
* * * * * *
14445391 GGTATTGTCTTGATTATATTTA-TTTTTCGACCTGC
1 AGTGTTGTCTTGATCATATTTATTTTTTTGACTTAC
* * * *
14445426 -GATGTTGTAC-CGATCATATTTATTTTTTTAACCTAT
1 AG-TGTTGT-CTTGATCATATTTATTTTTTTGACTTAC
* * * * * *
14445462 GGTGTTTTTTTCGATCATTTTTATTTTTTAG-CCTAC
1 AGTGTTGTCTT-GATCATATTTATTTTTTTGACTTAC
* *
14445498 GGTGTTGTCCTGATCATATTTATTCTTTTT
1 AGTGTTGTCTTGATCATATTTATT-TTTTT
14445528 TACATGTGGT
Statistics
Matches: 162, Mismatches: 38, Indels: 18
0.74 0.17 0.08
Matches are distributed among these distances:
34 1 0.01
35 62 0.38
36 61 0.38
37 38 0.23
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.56
Consensus pattern (36 bp):
AGTGTTGTCTTGATCATATTTATTTTTTTGACTTAC
Found at i:14445345 original size:96 final size:96
Alignment explanation
Indices: 14445164--14445346 Score: 226
Period size: 95 Copynumber: 1.9 Consensus size: 96
14445154 TATCCTGGTC
* * * * *
14445164 ATCATCTTTATTTTTTTAACTTGTGGTGTTGTCTCGATTATTTTTATTTTTTAACTTACGGTGTT
1 ATCATCTTTATTTTTTCAACCTGTAGTGTTGTCTCGATTATCTTTATTTTTTAACTTACAGTGTT
*
14445229 GTCCCGATTATATTTATTTTTTTGACCTACG
66 GTCCCGATCATATTTATTTTTTTGACCTACG
* * * *
14445260 ATCATCTTTA-TTTTTCGACCTGTAGTGTTGTCTTGGTTATCTTTATTTTTTTGACTTACAGTGT
1 ATCATCTTTATTTTTTCAACCTGTAGTGTTGTCTCGATTATCTTTA-TTTTTTAACTTACAGTGT
** *
14445324 TGTCTTG-TCATTTTTATTTTTTT
65 TGTCCCGATCATATTTATTTTTTT
14445347 CACTTGCAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
95 42 0.58
96 31 0.42
ACGTcount: A:0.16, C:0.13, G:0.14, T:0.57
Consensus pattern (96 bp):
ATCATCTTTATTTTTTCAACCTGTAGTGTTGTCTCGATTATCTTTATTTTTTAACTTACAGTGTT
GTCCCGATCATATTTATTTTTTTGACCTACG
Found at i:14445402 original size:72 final size:73
Alignment explanation
Indices: 14445323--14445527 Score: 183
Period size: 72 Copynumber: 2.8 Consensus size: 73
14445313 ACTTACAGTG
* *** * *
14445323 TTGTCTTG-TCATTTTTATTTTTTTC-ACTTGC-AGTGTTGTTTTGATCATATTTGTTTTTTCTG
1 TTGTCTTGATCATTTTTATTTTTTTCGACCTGCGA-TGTTGTACCGATCATATTTATTTTTT-TA
14445385 ACCTATGGTA
64 ACCTATGGTA
* *
14445395 TTGTCTTGATTATATTTA--TTTTTCGACCTGCGATGTTGTACCGATCATATTTATTTTTTTAAC
1 TTGTCTTGATCATTTTTATTTTTTTCGACCTGCGATGTTGTACCGATCATATTTATTTTTTTAAC
*
14445458 CTATGGTG
66 CTATGGTA
* * * * *
14445466 TTTTTTTCGATCATTTTTA-TTTTTTAG-CCTACGGTGTTGT-CCTGATCATATTTATTCTTTTT
1 TTGTCTT-GATCATTTTTATTTTTTTCGACCTGCGATGTTGTACC-GATCATATTTATT-TTTTT
14445528 TACATGTGGT
Statistics
Matches: 110, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
71 23 0.21
72 68 0.62
73 19 0.17
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (73 bp):
TTGTCTTGATCATTTTTATTTTTTTCGACCTGCGATGTTGTACCGATCATATTTATTTTTTTAAC
CTATGGTA
Found at i:14445655 original size:11 final size:11
Alignment explanation
Indices: 14445639--14445677 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
14445629 TTTCCAAAAG
*
14445639 AACAAAACAAC
1 AACAAAACAAA
14445650 AACAAAACAAA
1 AACAAAACAAA
*
14445661 AACAAAAACCAA
1 AAC-AAAACAAA
14445673 AACAA
1 AACAA
14445678 TATAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (11 bp):
AACAAAACAAA
Found at i:14447695 original size:21 final size:22
Alignment explanation
Indices: 14447671--14447711 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
14447661 AGTTGAATGA
14447671 TTTGTTTGGTT-GATTTTTATG
1 TTTGTTTGGTTAGATTTTTATG
14447692 TTTGTTTGGTTAGATTTTTA
1 TTTGTTTGGTTAGATTTTTA
14447712 AAGAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.12, C:0.00, G:0.22, T:0.66
Consensus pattern (22 bp):
TTTGTTTGGTTAGATTTTTATG
Found at i:14459164 original size:16 final size:16
Alignment explanation
Indices: 14459143--14459173 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14459133 CAATCCTAAC
*
14459143 TTTCTTTTTTTATTTT
1 TTTCTTGTTTTATTTT
14459159 TTTCTTGTTTTATTT
1 TTTCTTGTTTTATTT
14459174 AGCATTACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTCTTGTTTTATTTT
Found at i:14460778 original size:17 final size:16
Alignment explanation
Indices: 14460737--14460789 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
14460727 AATTACACGG
*
14460737 AATAATTTTATATATA
1 AATAATTATATATATA
*
14460753 ATTAATTATATATAATA
1 AATAATTATATAT-ATA
*
14460770 AATAGTTATA-ACTATA
1 AATAATTATATA-TATA
14460786 AATA
1 AATA
14460790 TATAAATGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 19 0.61
17 12 0.39
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
AATAATTATATATATA
Found at i:14460826 original size:20 final size:21
Alignment explanation
Indices: 14460779--14460826 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
14460769 AAATAGTTAT
* *
14460779 AACTATAAATATATAAATGCA
1 AACTATAAAAATATAAATACA
14460800 AAC-ATAAAAATA-AAATACA
1 AACTATAAAAATATAAATACA
*
14460819 TACTATAA
1 AACTATAA
14460827 GTTTTAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 8 0.35
20 12 0.52
21 3 0.13
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.25
Consensus pattern (21 bp):
AACTATAAAAATATAAATACA
Found at i:14461324 original size:21 final size:21
Alignment explanation
Indices: 14461280--14461326 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14461270 GTCAACTCAA
*
14461280 GTCAAAATTACATAAAACTTG
1 GTCAAAATTACATAAAACTAG
*
14461301 GTCAAAATTA-ATAGAACTGAG
1 GTCAAAATTACATAAAACT-AG
14461322 GTCAA
1 GTCAA
14461327 TCCTCAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.26
Consensus pattern (21 bp):
GTCAAAATTACATAAAACTAG
Found at i:14463958 original size:16 final size:16
Alignment explanation
Indices: 14463937--14463970 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14463927 GAATGTGTTT
14463937 TTTTTAAATAAATATA
1 TTTTTAAATAAATATA
* *
14463953 TTTTTAGATAATTATA
1 TTTTTAAATAAATATA
14463969 TT
1 TT
14463971 ATTACATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTTTAAATAAATATA
Found at i:14467935 original size:5 final size:5
Alignment explanation
Indices: 14467921--14467965 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
14467911 AAATTAATTC
* *
14467921 CTTTT CTTTT TTTTT CTTTT CTTTT CTTTT CTTTT CTTTC CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
14467966 TTATTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:14467937 original size:10 final size:10
Alignment explanation
Indices: 14467922--14467977 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
14467912 AATTAATTCC
14467922 TTTTCTTTTT
1 TTTTCTTTTT
*
14467932 TTTTCTTTTC
1 TTTTCTTTTT
*
14467942 TTTTCTTTTC
1 TTTTCTTTTT
14467952 TTTTCTTTCCTT
1 TTTTCTTT--TT
*
14467964 TTTTATTTTT
1 TTTTCTTTTT
14467974 TTTT
1 TTTT
14467978 TTTAAACAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
10 33 0.80
12 8 0.20
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:14467941 original size:15 final size:15
Alignment explanation
Indices: 14467921--14467980 Score: 77
Period size: 15 Copynumber: 3.9 Consensus size: 15
14467911 AAATTAATTC
14467921 CTTTTCTTTTTTTTT
1 CTTTTCTTTTTTTTT
*
14467936 CTTTTCTTTTCTTTT
1 CTTTTCTTTTTTTTT
14467951 CTTTTCTTTCCTTTTTT
1 CTTTTCTTT--TTTTTT
*
14467968 ATTTT-TTTTTTTT
1 CTTTTCTTTTTTTT
14467981 AAACAAGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
14 5 0.12
15 23 0.57
16 3 0.08
17 9 0.22
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTCTTTTTTTTT
Found at i:14468020 original size:53 final size:52
Alignment explanation
Indices: 14467962--14468073 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 52
14467952 TTTTCTTTCC
* * * *
14467962 TTTTTTATT-TTTTTTTTTTAAACAAGAAATAAATCAAATTTAAAACAAAATGT
1 TTTTTTATTCTCTTTTCTTTAAACAA-AAACAAATCAAATTTAAAACAAAA-AT
*
14468015 TTTTTTCTTCTCTTTTCTTTAAACAAAAACAAATCAAATTTAAAACAAAAAT
1 TTTTTTATTCTCTTTTCTTTAAACAAAAACAAATCAAATTTAAAACAAAAAT
14468067 TTTTTTA
1 TTTTTTA
14468074 AAAAAAGTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
52 7 0.13
53 31 0.60
54 14 0.27
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (52 bp):
TTTTTTATTCTCTTTTCTTTAAACAAAAACAAATCAAATTTAAAACAAAAAT
Found at i:14468550 original size:27 final size:27
Alignment explanation
Indices: 14468493--14468582 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
14468483 GGGGTTTAGA
**
14468493 TTAGGGTTAGGGTTTTAGGGTTTAAAG-T
1 TTAGGGTTA-GGTTTTAGGG-TTAGGGTT
*
14468521 TTAGGGTTAGGTTTTAAGGTTAGGGTT
1 TTAGGGTTAGGTTTTAGGGTTAGGGTT
*
14468548 TTAGGTTTAGAG-TTTAGGGTTAGGGTT
1 TTAGGGTTAG-GTTTTAGGGTTAGGGTT
*
14468575 TTAAGGTT
1 TTAGGGTT
14468583 TTGAGGTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
26 4 0.08
27 39 0.74
28 10 0.19
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (27 bp):
TTAGGGTTAGGTTTTAGGGTTAGGGTT
Found at i:14468575 original size:41 final size:41
Alignment explanation
Indices: 14468497--14468600 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
14468487 TTTAGATTAG
14468497 GGTTAGGGTTTTAGGGTTTAAAGTTTAGGGTTAGGTTTTAA
1 GGTTAGGGTTTTAGGGTTTAAAGTTTAGGGTTAGGTTTTAA
*
14468538 GGTTAGGGTTTTA-GGTTTAGAGTTTAGGGTTAGGGTTTTAA
1 GGTTAGGGTTTTAGGGTTTAAAGTTTAGGGTTA-GGTTTTAA
* *
14468579 GGTTTTGAGGTTTTTGGGTTTA
1 GG-TTAG-GGTTTTAGGGTTTA
14468601 GCATTTTGGG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
40 18 0.32
41 23 0.41
42 3 0.05
43 6 0.11
44 6 0.11
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (41 bp):
GGTTAGGGTTTTAGGGTTTAAAGTTTAGGGTTAGGTTTTAA
Found at i:14468627 original size:7 final size:7
Alignment explanation
Indices: 14468493--14468674 Score: 92
Period size: 7 Copynumber: 26.3 Consensus size: 7
14468483 GGGGTTTAGA
14468493 TTAGGG-
1 TTAGGGT
14468499 TTAGGGTT
1 TTAGGG-T
14468507 TTAGGGT
1 TTAGGGT
**
14468514 TTAAAGT
1 TTAGGGT
14468521 TTAGGG-
1 TTAGGGT
*
14468527 TTAGGTT
1 TTAGGGT
*
14468534 TTAAGG-
1 TTAGGGT
14468540 TTAGGGTT
1 TTAGGG-T
14468548 TTA-GGT
1 TTAGGGT
*
14468554 TTAGAGT
1 TTAGGGT
14468561 TTAGGG-
1 TTAGGGT
14468567 TTAGGGTT
1 TTAGGG-T
*
14468575 TTAAGGTT
1 TT-AGGGT
*
14468583 TTGAGGTT
1 TT-AGGGT
*
14468591 TTTGGGT
1 TTAGGGT
**
14468598 TTAGCAT
1 TTAGGGT
*
14468605 TTTGGGT
1 TTAGGGT
**
14468612 TTAAAGT
1 TTAGGGT
14468619 TTAGGGT
1 TTAGGGT
*
14468626 TTTGGGT
1 TTAGGGT
*
14468633 TT-GGAT
1 TTAGGGT
*
14468639 TTGGGGT
1 TTAGGGT
14468646 TT-GAGGT
1 TTAG-GGT
14468653 TTAGGGT
1 TTAGGGT
**
14468660 TT-GAAT
1 TTAGGGT
14468666 TTAGGGT
1 TTAGGGT
14468673 TT
1 TT
14468675 GGATTTGGGG
Statistics
Matches: 131, Mismatches: 32, Indels: 25
0.70 0.17 0.13
Matches are distributed among these distances:
6 36 0.27
7 70 0.53
8 22 0.17
9 3 0.02
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:14468647 original size:13 final size:13
Alignment explanation
Indices: 14468629--14468685 Score: 69
Period size: 13 Copynumber: 4.3 Consensus size: 13
14468619 TTAGGGTTTT
*
14468629 GGGTTTGGATTTG
1 GGGTTTGGATTTA
*
14468642 GGGTTTGAGGTTTA
1 GGGTTTG-GATTTA
*
14468656 GGGTTTGAATTTA
1 GGGTTTGGATTTA
*
14468669 GGGTTTGGATTTG
1 GGGTTTGGATTTA
14468682 GGGT
1 GGGT
14468686 CTCACAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
13 26 0.70
14 11 0.30
ACGTcount: A:0.12, C:0.00, G:0.44, T:0.44
Consensus pattern (13 bp):
GGGTTTGGATTTA
Found at i:14468647 original size:27 final size:27
Alignment explanation
Indices: 14468623--14468675 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
14468613 TAAAGTTTAG
* * *
14468623 GGTTTTGGGTTTGGATTTGGGGTTTGA
1 GGTTTAGGGTTTGAATTTAGGGTTTGA
14468650 GGTTTAGGGTTTGAATTTAGGGTTTG
1 GGTTTAGGGTTTGAATTTAGGGTTTG
14468676 GATTTGGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (27 bp):
GGTTTAGGGTTTGAATTTAGGGTTTGA
Found at i:14468655 original size:34 final size:35
Alignment explanation
Indices: 14468590--14468661 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 35
14468580 GTTTTGAGGT
*
14468590 TTTTGGGTTTAGCATTTTGGGTTTAAAGTTTAGGG
1 TTTTGGGTTTAGCATTTGGGGTTTAAAGTTTAGGG
* * *
14468625 TTTTGGGTTT-GGATTTGGGGTTTGAGGTTTAGGG
1 TTTTGGGTTTAGCATTTGGGGTTTAAAGTTTAGGG
14468659 TTT
1 TTT
14468662 GAATTTAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
34 23 0.70
35 10 0.30
ACGTcount: A:0.12, C:0.01, G:0.36, T:0.50
Consensus pattern (35 bp):
TTTTGGGTTTAGCATTTGGGGTTTAAAGTTTAGGG
Found at i:14471170 original size:47 final size:47
Alignment explanation
Indices: 14471117--14471350 Score: 202
Period size: 47 Copynumber: 4.9 Consensus size: 47
14471107 GAAAAGGATC
* *
14471117 CTATAAAATAGGTAGCAAACTTTAAAAAATCTGTTTGAAAAGGGCTT
1 CTATAAAATAGGCATCAAACTTTAAAAAATCTGTTTGAAAAGGGCTT
* * * * *
14471164 CTATAAAATAGTCATCAAACTTAAAAAATAATTTGTCTAGAAAA-GGCTC
1 CTATAAAATAGGCATCAAACTT-TAAAA-AATCTGT-TTGAAAAGGGCTT
* * * * * * *
14471213 CTATAAAATATGCACCAGACTTTAAAAAATATATCTGTAAAGGGCTT
1 CTATAAAATAGGCATCAAACTTTAAAAAATCTGTTTGAAAAGGGCTT
* * * * *
14471260 CTATGAAGTAGGCATCAAACTTT-AAAAATTTGGCTAGAAAAGGGCTT
1 CTATAAAATAGGCATCAAACTTTAAAAAATCT-GTTTGAAAAGGGCTT
* * * * *
14471307 TTATAAAATAGGCATTAGACTTTAAAAAATCTATTTGGAAAGGG
1 CTATAAAATAGGCATCAAACTTTAAAAAATCTGTTTGAAAAGGG
14471351 GTTGATCTAT
Statistics
Matches: 142, Mismatches: 39, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
46 11 0.08
47 82 0.58
48 15 0.11
49 28 0.20
50 6 0.04
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (47 bp):
CTATAAAATAGGCATCAAACTTTAAAAAATCTGTTTGAAAAGGGCTT
Found at i:14471240 original size:49 final size:47
Alignment explanation
Indices: 14471103--14471241 Score: 138
Period size: 49 Copynumber: 2.9 Consensus size: 47
14471093 TTTTAACCTA
* * *
14471103 TCTAGAAAAGGATCCTATAAAATAGGTAGCAAACTTT-AAAAAATCTG
1 TCTAGAAAAGGCTCCTATAAAATA-GCACCAAACTTTAAAAAAATCTG
* * * * *
14471150 T-TTGAAAAGGGCTTCTATAAAATAGTCATCAAACTTAAAAAATAATTTG
1 TCTAGAAAA-GGCTCCTATAAAATAG-CACCAAACTTTAAAAA-AATCTG
*
14471199 TCTAGAAAAGGCTCCTATAAAATATGCACCAGACTTTAAAAAA
1 TCTAGAAAAGGCTCCTATAAAATA-GCACCAAACTTTAAAAAA
14471242 TATATCTGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
46 7 0.09
47 22 0.30
48 5 0.07
49 33 0.45
50 7 0.09
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (47 bp):
TCTAGAAAAGGCTCCTATAAAATAGCACCAAACTTTAAAAAAATCTG
Found at i:14471350 original size:94 final size:95
Alignment explanation
Indices: 14471104--14471350 Score: 291
Period size: 96 Copynumber: 2.6 Consensus size: 95
14471094 TTTAACCTAT
* * * * *
14471104 CTAGAAAAGGATCCTATAAAATAGGTAGCAAACTTTAAAAAATCTGTTTGAAAAGGGCTTCTATA
1 CTAGAAAAGGCTCCTATAAAATAGGCACCAGACTTTAAAAAATCTATTTGAAAAGGGCTTCTATA
* *
14471169 AAATAGTCATCAAACTTAAAAAATAATTTGT
66 AAATAGGCATCAAACTT-AAAAATAATTTGG
* * * * *
14471200 CTAGAAAAGGCTCCTATAAAATATGCACCAGACTTTAAAAAATATATCTGTAAAGGGCTTCTATG
1 CTAGAAAAGGCTCCTATAAAATAGGCACCAGACTTTAAAAAATCTATTTGAAAAGGGCTTCTATA
* *
14471265 AAGTAGGCATCAAACTT-TAAA-AATTTGG
66 AAATAGGCATCAAACTTAAAAATAATTTGG
** ** *
14471293 CTAGAAAAGGGCTTTTATAAAATAGGCATTAGACTTTAAAAAATCTATTTGGAAAGGG
1 CTAGAAAA-GGCTCCTATAAAATAGGCACCAGACTTTAAAAAATCTATTTGAAAAGGG
14471351 GTTGATCTAT
Statistics
Matches: 128, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 14 0.11
94 44 0.34
96 70 0.55
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (95 bp):
CTAGAAAAGGCTCCTATAAAATAGGCACCAGACTTTAAAAAATCTATTTGAAAAGGGCTTCTATA
AAATAGGCATCAAACTTAAAAATAATTTGG
Found at i:14473077 original size:26 final size:27
Alignment explanation
Indices: 14473048--14473113 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
14473038 TTGCTAAAAT
14473048 TAAAGAAAACAAGAAAAAAGAT-TTTG
1 TAAAGAAAACAAGAAAAAAGATATTTG
*
14473074 TAAACAAGAAAACAAGAAAAGAGATATTTG
1 T--A-AAGAAAACAAGAAAAAAGATATTTG
*
14473104 -AATGAAAACA
1 TAAAGAAAACA
14473114 CTTCTTGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
26 9 0.26
27 1 0.03
28 1 0.03
29 19 0.56
30 4 0.12
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.17
Consensus pattern (27 bp):
TAAAGAAAACAAGAAAAAAGATATTTG
Found at i:14473206 original size:17 final size:17
Alignment explanation
Indices: 14473186--14473231 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
14473176 GCAATACTTT
14473186 AACTAAAAGAAA-TAAA
1 AACTAAAAGAAACTAAA
14473202 GAACT-AAAGAAACTTAAA
1 -AACTAAAAGAAAC-TAAA
14473220 AACTAAAAGAAA
1 AACTAAAAGAAA
14473232 GAAAAGAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.27
17 8 0.31
18 11 0.42
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.13
Consensus pattern (17 bp):
AACTAAAAGAAACTAAA
Found at i:14482244 original size:20 final size:20
Alignment explanation
Indices: 14482198--14482250 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
14482188 AAATTCATAA
* * *
14482198 AATGGATCAATCCCCTACAT
1 AATGGATCAATCACCTAAAG
* *
14482218 AAGGGATCGATCACCTAAAG
1 AATGGATCAATCACCTAAAG
14482238 AATGGATCAATCA
1 AATGGATCAATCA
14482251 GGTGCAATAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (20 bp):
AATGGATCAATCACCTAAAG
Found at i:14484546 original size:111 final size:111
Alignment explanation
Indices: 14484346--14484558 Score: 374
Period size: 110 Copynumber: 1.9 Consensus size: 111
14484336 GCTTGTAATG
14484346 TGGCTAAATAAACAAAGAAAAGGGAAATAATATAAAAAGGCTCAAAATAAGGGTACAAGGGATGC
1 TGGCTAAATAAACAAAGAAAAGGGAAATAATATAAAAAGGCTCAAAATAAGGGTACAAGGGATGC
14484411 ATTATCACAAGGTGGGCTCGAAAAAAGCTGAAATGATCTAGTAACA
66 ATTATCACAAGGTGGGCTCGAAAAAAGCTGAAATGATCTAGTAACA
*
14484457 TGGCTAAATAAACAAAGAAAAGGGAAATAATAT-AAAAGGCTCAAAATAAGGGTACGAGGGATGC
1 TGGCTAAATAAACAAAGAAAAGGGAAATAATATAAAAAGGCTCAAAATAAGGGTACAAGGGATGC
* * * *
14484521 ATTATCACGAGGTGGGCTTGAAAAAAGCTCAAACGATC
66 ATTATCACAAGGTGGGCTCGAAAAAAGCTGAAATGATC
14484559 CAAACAATTG
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
110 64 0.66
111 33 0.34
ACGTcount: A:0.46, C:0.12, G:0.23, T:0.18
Consensus pattern (111 bp):
TGGCTAAATAAACAAAGAAAAGGGAAATAATATAAAAAGGCTCAAAATAAGGGTACAAGGGATGC
ATTATCACAAGGTGGGCTCGAAAAAAGCTGAAATGATCTAGTAACA
Found at i:14490021 original size:2 final size:2
Alignment explanation
Indices: 14489985--14490010 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14489975 GATTATGTTC
14489985 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
14490011 CTTGCATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14490353 original size:22 final size:22
Alignment explanation
Indices: 14490296--14490343 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
14490286 AAAAAGCAAG
14490296 CATTCAAATGCTTTATCCAAAA
1 CATTCAAATGCTTTATCCAAAA
*
14490318 CATTCAAATGCTTTATCCAAAG
1 CATTCAAATGCTTTATCCAAAA
14490340 CATT
1 CATT
14490344 TGAATTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (22 bp):
CATTCAAATGCTTTATCCAAAA
Found at i:14499494 original size:2 final size:2
Alignment explanation
Indices: 14499487--14499517 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14499477 AAGTTGAAAG
*
14499487 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14499518 AGTAAAACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:14501927 original size:14 final size:14
Alignment explanation
Indices: 14501908--14501937 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14501898 AATTTCCAGC
*
14501908 TTTCCTTTTATTTA
1 TTTCCTTTAATTTA
14501922 TTTCCTTTAATTTA
1 TTTCCTTTAATTTA
14501936 TT
1 TT
14501938 ATAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTCCTTTAATTTA
Found at i:14501978 original size:22 final size:22
Alignment explanation
Indices: 14501944--14501985 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14501934 TATTATAATT
*
14501944 AATTATAATATTGTT-AATTCA
1 AATTATAAAATTGTTCAATTCA
14501965 AATTAATAAAATTGTTCAATT
1 AATT-ATAAAATTGTTCAATT
14501986 TGCTAAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
AATTATAAAATTGTTCAATTCA
Found at i:14502463 original size:21 final size:21
Alignment explanation
Indices: 14502437--14502477 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
14502427 TATAATAAAA
14502437 TATAAATATTTTAAAAAATAC
1 TATAAATATTTTAAAAAATAC
14502458 TATAAATATTTTAAAAAATA
1 TATAAATATTTTAAAAAATA
14502478 TTAAACACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TATAAATATTTTAAAAAATAC
Found at i:14506280 original size:14 final size:14
Alignment explanation
Indices: 14506261--14506289 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14506251 TAATGATGAG
14506261 CTTTTTAGCTTGAT
1 CTTTTTAGCTTGAT
14506275 CTTTTTAGCTTGAT
1 CTTTTTAGCTTGAT
14506289 C
1 C
14506290 AACACAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
CTTTTTAGCTTGAT
Found at i:14514587 original size:26 final size:26
Alignment explanation
Indices: 14514551--14514605 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
14514541 GTGTCCGGGG
* *
14514551 CCATTGAGGTCCGAGCCTAATTAGAC
1 CCATTAAGGTCCGAGCCCAATTAGAC
* *
14514577 CCATTAAGGTCCGGGCCCAATTAGGC
1 CCATTAAGGTCCGAGCCCAATTAGAC
14514603 CCA
1 CCA
14514606 CCAAATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (26 bp):
CCATTAAGGTCCGAGCCCAATTAGAC
Found at i:14521231 original size:13 final size:13
Alignment explanation
Indices: 14521213--14521248 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
14521203 CATTCAATTG
14521213 GAGATATTTTTCA
1 GAGATATTTTTCA
*
14521226 GAGATATTTTTTA
1 GAGATATTTTTCA
14521239 GAGATATTTT
1 GAGATATTTT
14521249 AAGGTTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.50
Consensus pattern (13 bp):
GAGATATTTTTCA
Found at i:14521383 original size:17 final size:15
Alignment explanation
Indices: 14521357--14521396 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
14521347 GTTCTTTAAA
14521357 TTTC-TGCACTTTAC
1 TTTCTTGCACTTTAC
14521371 ATTTTCTTGCACTTTAC
1 --TTTCTTGCACTTTAC
14521388 TTTCTTGCA
1 TTTCTTGCA
14521397 TTTTTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.39
16 4 0.17
17 10 0.43
ACGTcount: A:0.15, C:0.25, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTCTTGCACTTTAC
Found at i:14521393 original size:15 final size:16
Alignment explanation
Indices: 14521350--14521396 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
14521340 ATTTTTTGTT
*
14521350 CTTTAAATTTC-TGCA
1 CTTTACATTTCTTGCA
14521365 CTTTACATTTTCTTGCA
1 CTTTACA-TTTCTTGCA
14521382 CTTTAC-TTTCTTGCA
1 CTTTACATTTCTTGCA
14521397 TTTTTTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.52
16 4 0.14
17 10 0.34
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.51
Consensus pattern (16 bp):
CTTTACATTTCTTGCA
Found at i:14527795 original size:19 final size:19
Alignment explanation
Indices: 14527757--14527795 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14527747 AAGTATGCAA
* *
14527757 GCTTTAAAGATACATTTAT
1 GCTTCAAAGATACATCTAT
*
14527776 GCTTCAAAGATCCATCTAT
1 GCTTCAAAGATACATCTAT
14527795 G
1 G
14527796 GACTTAAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
GCTTCAAAGATACATCTAT
Found at i:14531873 original size:17 final size:16
Alignment explanation
Indices: 14531841--14531884 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
14531831 CCCTTTTCCC
14531841 TTTTTTCTTTCCCTTA
1 TTTTTTCTTTCCCTTA
*
14531857 TTTTTTCTTCTCTCTTA
1 TTTTTTCTT-TCCCTTA
14531874 TTTTTTTCTTT
1 -TTTTTTCTTT
14531885 TTGGTTGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 7 0.28
18 9 0.36
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTCTTTCCCTTA
Found at i:14533196 original size:33 final size:33
Alignment explanation
Indices: 14533125--14533196 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
14533115 CATCAGCTTT
* * * *
14533125 ATTAATTAGACACTTAATTGCCACATTAGCCTT
1 ATTAAATAGACACTTAATTACCACATTAGCATA
* * *
14533158 GTTAAATAGCCACTTAATTATCACATTAGCATA
1 ATTAAATAGACACTTAATTACCACATTAGCATA
14533191 ATTAAA
1 ATTAAA
14533197 ATGTTTAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (33 bp):
ATTAAATAGACACTTAATTACCACATTAGCATA
Found at i:14538374 original size:18 final size:18
Alignment explanation
Indices: 14538351--14538386 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14538341 AATAAAGATT
14538351 AATTTACATAACTGTAAG
1 AATTTACATAACTGTAAG
*
14538369 AATTTACATAATTGTAAG
1 AATTTACATAACTGTAAG
14538387 TATATATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (18 bp):
AATTTACATAACTGTAAG
Found at i:14538573 original size:18 final size:17
Alignment explanation
Indices: 14538548--14538601 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
14538538 TAAATAAGGA
*
14538548 ATAATACTTAAACAGAG
1 ATAATACTTAAATAGAG
14538565 ATAATTAC-TAAATA-AGG
1 ATAA-TACTTAAATAGA-G
14538582 AATAATACTTAAATAGAG
1 -ATAATACTTAAATAGAG
14538600 AT
1 AT
14538602 CATTACTACC
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
16 1 0.03
17 15 0.48
18 14 0.45
19 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (17 bp):
ATAATACTTAAATAGAG
Found at i:14538584 original size:35 final size:35
Alignment explanation
Indices: 14538538--14538609 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
14538528 TGTAACATAG
14538538 TAAATAAGGAATAATACTTAAACAGAGATAATTAC
1 TAAATAAGGAATAATACTTAAACAGAGATAATTAC
* *
14538573 TAAATAAGGAATAATACTTAAATAGAGATCATTAC
1 TAAATAAGGAATAATACTTAAACAGAGATAATTAC
14538608 TA
1 TA
14538610 CCCTAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (35 bp):
TAAATAAGGAATAATACTTAAACAGAGATAATTAC
Found at i:14538590 original size:17 final size:18
Alignment explanation
Indices: 14538538--14538596 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
14538528 TGTAACATAG
14538538 TAAATAAGGAATAATACT
1 TAAATAAGGAATAATACT
*
14538556 TAAA-CA-GAGATAATTAC-
1 TAAATAAGGA-ATAA-TACT
14538573 TAAATAAGGAATAATACT
1 TAAATAAGGAATAATACT
14538591 TAAATA
1 TAAATA
14538597 GAGATCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
16 2 0.06
17 12 0.35
18 18 0.53
19 2 0.06
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (18 bp):
TAAATAAGGAATAATACT
Found at i:14539358 original size:94 final size:94
Alignment explanation
Indices: 14539197--14539384 Score: 340
Period size: 94 Copynumber: 2.0 Consensus size: 94
14539187 CCCATGTGCA
*
14539197 TGACTTTTAAGGAATAATGTTTCATATTGAATTTAATAAGGATCAATTCTAATATTAAGGCTCAT
1 TGACTTTTAAGGAATAATGTTTCATATTGAATTTAATAAGGATCAAATCTAATATTAAGGCTCAT
*
14539262 AGATAATTCATGCATCTGAAAAGCCATTT
66 AGATAATTCATGCATCAGAAAAGCCATTT
* *
14539291 TGACTTTTAAGGATTAATGTTTCATATTGAATTTAATAAGTATCAAATCTAATATTAAGGCTCAT
1 TGACTTTTAAGGAATAATGTTTCATATTGAATTTAATAAGGATCAAATCTAATATTAAGGCTCAT
14539356 AGATAATTCATGCATCAGAAAAGCCATTT
66 AGATAATTCATGCATCAGAAAAGCCATTT
14539385 GTGAGCAAAG
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (94 bp):
TGACTTTTAAGGAATAATGTTTCATATTGAATTTAATAAGGATCAAATCTAATATTAAGGCTCAT
AGATAATTCATGCATCAGAAAAGCCATTT
Found at i:14552090 original size:15 final size:15
Alignment explanation
Indices: 14552072--14552105 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14552062 AAGTCCACAA
14552072 ACATAAAATTAAAAG
1 ACATAAAATTAAAAG
* *
14552087 ACATGAATTTAAAAG
1 ACATAAAATTAAAAG
14552102 ACAT
1 ACAT
14552106 GATATTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (15 bp):
ACATAAAATTAAAAG
Found at i:14552246 original size:16 final size:16
Alignment explanation
Indices: 14552225--14552259 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14552215 GCTTGAGAGT
14552225 AAATTGCAAAAAACTA
1 AAATTGCAAAAAACTA
* *
14552241 AAATTGCATAAAATTA
1 AAATTGCAAAAAACTA
14552257 AAA
1 AAA
14552260 GGATAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.09, G:0.06, T:0.23
Consensus pattern (16 bp):
AAATTGCAAAAAACTA
Found at i:14552639 original size:16 final size:16
Alignment explanation
Indices: 14552612--14552644 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14552602 TACTAAAATA
14552612 GAAAGTTTTTGAATTAG
1 GAAAGTTTTTG-ATTAG
14552629 GAAAG-TTTTGATTAG
1 GAAAGTTTTTGATTAG
14552644 G
1 G
14552645 GTTTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (16 bp):
GAAAGTTTTTGATTAG
Found at i:14552830 original size:21 final size:22
Alignment explanation
Indices: 14552785--14552831 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
14552775 CTAACAAATT
14552785 TTAACCTACTCAAACATGAAAA
1 TTAACCTACTCAAACATGAAAA
*
14552807 TTAACCTACTTAAACATG-AAA
1 TTAACCTACTCAAACATGAAAA
14552828 TTAA
1 TTAA
14552832 AGGACATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (22 bp):
TTAACCTACTCAAACATGAAAA
Found at i:14553638 original size:20 final size:20
Alignment explanation
Indices: 14553610--14553652 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
14553600 ATGGAGACTT
*
14553610 AGTTGGCTCATAGGCGAACA
1 AGTTAGCTCATAGGCGAACA
*
14553630 AGTTAGCTCATAGGTGAACA
1 AGTTAGCTCATAGGCGAACA
14553650 AGT
1 AGT
14553653 AGTAAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (20 bp):
AGTTAGCTCATAGGCGAACA
Found at i:14555075 original size:9 final size:9
Alignment explanation
Indices: 14555061--14555085 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14555051 CCATTTACTT
14555061 ACAATTAAC
1 ACAATTAAC
14555070 ACAATTAAC
1 ACAATTAAC
14555079 ACAATTA
1 ACAATTA
14555086 GGTGGGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (9 bp):
ACAATTAAC
Found at i:14555737 original size:15 final size:15
Alignment explanation
Indices: 14555728--14555789 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
14555718 CTTTTTCTCT
14555728 TTTTTAT-TTTTTTA
1 TTTTTATATTTTTTA
14555742 TTTTTTATATTTTATTTA
1 -TTTTTATA-TTT-TTTA
*
14555760 TTTTTAT-TTTATTA
1 TTTTTATATTTTTTA
* *
14555774 TTTTTTTCTTTTTTA
1 TTTTTATATTTTTTA
14555789 T
1 T
14555790 ACTTCATCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.22
15 17 0.43
17 10 0.25
18 4 0.10
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTATATTTTTTA
Found at i:14555738 original size:8 final size:8
Alignment explanation
Indices: 14555727--14555787 Score: 72
Period size: 8 Copynumber: 7.6 Consensus size: 8
14555717 ACTTTTTCTC
14555727 TTTTTTAT
1 TTTTTTAT
14555735 TTTTTTAT
1 TTTTTTAT
14555743 TTTTTATAT
1 TTTTT-TAT
14555752 TTTATTTA-
1 TTT-TTTAT
14555760 -TTTTTAT
1 TTTTTTAT
*
14555767 TTTATTAT
1 TTTTTTAT
*
14555775 TTTTTTCT
1 TTTTTTAT
14555783 TTTTT
1 TTTTT
14555788 ATACTTCATC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 4 0.09
7 2 0.04
8 30 0.65
9 8 0.17
10 2 0.04
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTAT
Found at i:14565550 original size:16 final size:16
Alignment explanation
Indices: 14565529--14565567 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14565519 ACTTGTCAAA
14565529 AATTTAAAAAATATTG
1 AATTTAAAAAATATTG
**
14565545 AATTTAAACCATATTG
1 AATTTAAAAAATATTG
*
14565561 GATTTAA
1 AATTTAA
14565568 TGGTTTCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (16 bp):
AATTTAAAAAATATTG
Found at i:14566926 original size:22 final size:22
Alignment explanation
Indices: 14566888--14566929 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14566878 ACCTAAAAAT
*
14566888 TCCTTTTTGATTCTTTATGATC
1 TCCTTTTTAATTCTTTATGATC
14566910 TCCTCTTTTAATT-TTTATGA
1 TCCT-TTTTAATTCTTTATGA
14566930 ATCGAAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.60
Consensus pattern (22 bp):
TCCTTTTTAATTCTTTATGATC
Found at i:14571409 original size:14 final size:14
Alignment explanation
Indices: 14571377--14571410 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14571367 TTCCATTTGT
14571377 TTTTTAAAAAATAA
1 TTTTTAAAAAATAA
* *
14571391 CTTTTAAAAAATGA
1 TTTTTAAAAAATAA
14571405 TTTTTA
1 TTTTTA
14571411 CATTTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (14 bp):
TTTTTAAAAAATAA
Found at i:14577570 original size:79 final size:79
Alignment explanation
Indices: 14577439--14577596 Score: 262
Period size: 79 Copynumber: 2.0 Consensus size: 79
14577429 AGCTACATAT
* * *
14577439 TCAACTTCAATTGTGGATTAAGTAACACTATTTTGTTTCTTAAAAAACCAAGATATGAGCATATT
1 TCAACTTCAATTGTGAATTAAGTAACACTATTTTATTGCTTAAAAAACCAAGATATGAGCATATT
14577504 CTTAAATAATTGAC
66 CTTAAATAATTGAC
* * *
14577518 TCAACTTTAATTGTGAATTGAGTAACACTATTTTATTGCTTAAAAAACCAAGATATGGGCATATT
1 TCAACTTCAATTGTGAATTAAGTAACACTATTTTATTGCTTAAAAAACCAAGATATGAGCATATT
14577583 CTTAAATAATTGAC
66 CTTAAATAATTGAC
14577597 ATGTATCAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (79 bp):
TCAACTTCAATTGTGAATTAAGTAACACTATTTTATTGCTTAAAAAACCAAGATATGAGCATATT
CTTAAATAATTGAC
Found at i:14579919 original size:19 final size:20
Alignment explanation
Indices: 14579897--14579936 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14579887 TTTTTACTCA
*
14579897 TTTTTAGTT-TTTTTCTTTT
1 TTTTTAGTTATTTATCTTTT
*
14579916 TTTTTGGTTATTTATCTTTT
1 TTTTTAGTTATTTATCTTTT
14579936 T
1 T
14579937 CTCACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTTAGTTATTTATCTTTT
Found at i:14580520 original size:24 final size:23
Alignment explanation
Indices: 14580475--14580522 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
14580465 ATACCCAAAC
14580475 AAAGCCCATTTAAAGCCCATAAA
1 AAAGCCCATTTAAAGCCCATAAA
14580498 AAAGTCCC-TTTAAGAGCCCATAAA
1 AAAG-CCCATTTAA-AGCCCATAAA
14580522 A
1 A
14580523 TATATTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.46, C:0.25, G:0.10, T:0.19
Consensus pattern (23 bp):
AAAGCCCATTTAAAGCCCATAAA
Found at i:14583062 original size:7 final size:7
Alignment explanation
Indices: 14583046--14583087 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
14583036 CTATTTTCTA
14583046 AAAAATT
1 AAAAATT
*
14583053 AAACATT
1 AAAAATT
14583060 AAAAATT
1 AAAAATT
*
14583067 -AGAATT
1 AAAAATT
14583073 AAAAAATT
1 -AAAAATT
14583081 AAAAATT
1 AAAAATT
14583088 GGAATTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 5 0.17
7 19 0.66
8 5 0.17
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:14583065 original size:14 final size:14
Alignment explanation
Indices: 14583044--14583084 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
14583034 AACTATTTTC
14583044 TAAAAAATTAAACAT
1 TAAAAAATTAAA-AT
*
14583059 T-AAAAATTAGAAT
1 TAAAAAATTAAAAT
14583072 TAAAAAATTAAAA
1 TAAAAAATTAAAA
14583085 ATTGGAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 19 0.83
15 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (14 bp):
TAAAAAATTAAAAT
Found at i:14584524 original size:18 final size:18
Alignment explanation
Indices: 14584501--14584541 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14584491 TAATTTTGTT
*
14584501 TAATAATAACAACAAGAA
1 TAATAATAACAAAAAGAA
*
14584519 TAATAATAAGAAAAAGAA
1 TAATAATAACAAAAAGAA
14584537 -AATAA
1 TAATAA
14584542 AAAATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (18 bp):
TAATAATAACAAAAAGAA
Found at i:14585073 original size:21 final size:20
Alignment explanation
Indices: 14585031--14585093 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
14585021 TACGTATATG
* **
14585031 AATAGTGTAAATAAAATTAA
1 AATAGTGTAAAAAAAAAGAA
14585051 AATAGTGTTAAAAAAAAAGAA
1 AATAGTG-TAAAAAAAAAGAA
* * *
14585072 AAAAG-GTGAAATAAAAGAA
1 AATAGTGTAAAAAAAAAGAA
14585091 AAT
1 AAT
14585094 TATTCTTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 13 0.37
20 8 0.23
21 14 0.40
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.21
Consensus pattern (20 bp):
AATAGTGTAAAAAAAAAGAA
Found at i:14585599 original size:18 final size:19
Alignment explanation
Indices: 14585559--14585600 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14585549 TAGGATTAAG
*
14585559 TTTTTATGTGTTCATTTTA
1 TTTTTATGTGTTCAGTTTA
14585578 TTTTTATGT-TTCCAGTTT-
1 TTTTTATGTGTT-CAGTTTA
14585596 TTTTT
1 TTTTT
14585601 TTTGAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.71
Consensus pattern (19 bp):
TTTTTATGTGTTCAGTTTA
Found at i:14588073 original size:132 final size:133
Alignment explanation
Indices: 14587880--14588688 Score: 641
Period size: 132 Copynumber: 6.1 Consensus size: 133
14587870 TGGAATCCCA
* * * * *
14587880 AGAATTCAAGAAAGTAGGTTGCAAAAAATGAAATCAAATGTTTC-AAAAAAAA-A-AG---AGCA
1 AGAATTCAAGAAAGTTGATTGCTAAAGATGAAGTCAAATGTTTCAAAAAAAAAGAGAGAAAAGCA
* * * * *
14587939 AAGAAAAAAAGACATACACCTCGAAAATGAAAGTTT-AGAGCAAAAACTGAATGAAGCTTCAGGA
66 AAGAAAAAAAGAAATGCACCTCGAAAATGAAAGTTTAAG-GTAAAAAGTGAATGAAGCTTCAAGA
14588003 AAAT
130 AAAT
* * * * * * * *
14588007 AGAAGTAAAAAAAGTTGATTGTTAAAGATGAAGTCAAATGTTTCAAAAAAGAGGGGGGAAAA-CA
1 AGAATTCAAGAAAGTTGATTGCTAAAGATGAAGTCAAATGTTTCAAAAAAAAAGAGAGAAAAGCA
* * * * * *
14588071 AAGAAAGAAAGAAATGCTCCTCGAAAATGAAAATTCAAGGTAAAAAGTGAATGAAGCTTCAGGAC
66 AAGAAAAAAAGAAATGCACCTCGAAAATGAAAGTTTAAGGTAAAAAGTGAATGAAGCTTCAAGAA
*
14588136 AAC
131 AAT
* * * * *
14588139 AGAATTCAAGAAAGTTGATTGCTAAAAATGAAGGCAAATG-TTC-CAAAAAATG-GGGAAAAGCA
1 AGAATTCAAGAAAGTTGATTGCTAAAGATGAAGTCAAATGTTTCAAAAAAAAAGAGAGAAAAGCA
** * * *
14588201 AAGAAAAAAAAAGAAATGCATTTC-AGAGATGAAAGTTCAAGGTAAAAAGTGAATAAAGCTTCAA
66 AAG--AAAAAAAGAAATGCACCTCGA-AAATGAAAGTTTAAGGTAAAAAGTGAATGAAGCTTCAA
14588265 GAAAAT
128 GAAAAT
* * * * * * ** * *
14588271 ATAATTCAAGAAAATAGATTGCTAAATATGAAATCGAATGTCGTAAAAAAAACAAAAAGAAAAAA
1 AGAATTCAAGAAAGTTGATTGCTAAAGATGAAGTCAAATGT--TTCAAAAAA-AAAGAGAGAAAA
* * * ** * * * *
14588336 GTAAAGAGAAAAAGAATTAAACCTCGGAGATGAAAGTCTAAGGTAAAAAGTGAATAAAGCTTCAA
63 GCAAAGAAAAAAAGAAATGCACCTCGAAAATGAAAGTTTAAGGTAAAAAGTGAATGAAGCTTCAA
*
14588401 AAAAAT
128 GAAAAT
* * *
14588407 AGAACTCAAGAAAGTTGATT-TTAAAGATGAAGTCAAACGTTTCAAAAAAAAAAGAGAGAAAAGC
1 AGAATTCAAGAAAGTTGATTGCTAAAGATGAAGTCAAATGTTTC-AAAAAAAAAGAGAGAAAAGC
* * * ** * *
14588471 AAGGAAAGAAAGAAATGCACCTTGGAAAA-GAAAGTTTGGGGCAAAAAGTGGATGAAGCTTCAAG
65 AAAGAAAAAAAGAAATGCACC-TCGAAAATGAAAGTTTAAGGTAAAAAGTGAATGAAGCTTCAAG
14588535 AAAAT
129 AAAAT
* * * *
14588540 AGAATTCAAGAAAGTTGATGGCTAAAGATGAAAGT-AAAT-ATTCTAAAAAAAAG-G-GAAAAAC
1 AGAATTCAAGAAAGTTGATTGCTAAAGATG-AAGTCAAATGTTTCAAAAAAAAAGAGAGAAAAGC
* * * * *
14588601 AAAGAAAGAAGGAAAGAAATG-AGCCT-TAGAAATGAGAGTCTAGGGCAAAAAGTGAATGAAGCT
65 AAAG-AA-AA--AAAGAAATGCA-CCTCGA-AAATGAAAGTTTAAGGTAAAAAGTGAATGAAGCT
* *
14588664 TTAGGAAAAT
124 TCAAGAAAAT
*
14588674 AGAATTGAAGAAAGT
1 AGAATTCAAGAAAGT
14588689 AGAATGCCAA
Statistics
Matches: 539, Mismatches: 114, Indels: 51
0.77 0.16 0.07
Matches are distributed among these distances:
127 35 0.06
128 6 0.01
129 7 0.01
130 21 0.04
131 7 0.01
132 188 0.35
133 89 0.17
134 80 0.15
135 20 0.04
136 74 0.14
137 2 0.00
138 10 0.02
ACGTcount: A:0.53, C:0.09, G:0.21, T:0.18
Consensus pattern (133 bp):
AGAATTCAAGAAAGTTGATTGCTAAAGATGAAGTCAAATGTTTCAAAAAAAAAGAGAGAAAAGCA
AAGAAAAAAAGAAATGCACCTCGAAAATGAAAGTTTAAGGTAAAAAGTGAATGAAGCTTCAAGAA
AAT
Found at i:14588749 original size:401 final size:398
Alignment explanation
Indices: 14587923--14588753 Score: 874
Period size: 401 Copynumber: 2.1 Consensus size: 398
14587913 TCAAATGTTT
* * * * * *
14587923 CAAAAA-AAAAAGAGCAAAGAAAAAAAGACA-TACACCTCGAAAATGAAAGT-TTAGAGCAAAAA
1 CAAAAAGAAAAA-AG-AAAGAGAAAAAGA-ATTAAACCTCGGAGATGAAAGTCTAAG-GTAAAAA
* ** * *
14587985 CTGAATGAAGCTTCAGGAAAATAGAAGTAAAAAAAGTTGATTGTTAAAGATGAAGTCAAATGTTT
62 CTGAATAAAGCTTCAAAAAAATAGAACTAAAAAAAGTTGATTGTTAAAGATGAAGTCAAACGTTT
* * * * * *
14588050 CAAAAAAGAGGGGGGAAAACAAAGAAAGAAAGAAATGCTCCTCGAAAATGAAAATTCAAGGTAAA
127 CAAAAAAAAAGAGAGAAAACAAAGAAAGAAAGAAATGCACCTCGAAAATGAAAATTCAAGGCAAA
* * * * *
14588115 AAGTGAATGAAGCTTCAGGACAACAGAATTCAAGAAAGTTGATTGCTAAAAATGAAGGCAAATGT
192 AAGTGAATGAAGCTTCAAGAAAACAGAATTCAAGAAAGTTGATGGCTAAAAATGAAAGCAAATAT
** * * * *
14588180 TCCAAAAAATGGGGAAAAGCAAAGAAAAAAAAAGAAATGCATTTCAGAGATGAAAGTTCAAGGTA
257 TCCAAAAAAAAGGGAAAAACAAAGAAAAAAAAAGAAATGCACTTCAGAAATGAAAGTTCAAGGCA
* * * ***
14588245 AAAAGTGAATAAAGCTTCAAGAAAATATAATTCAAGAAAATAGATTGCTAAATATGAAATCGAAT
322 AAAAGTGAATAAAGCTTCAAGAAAATAGAATTCAAGAAAATAGAATGCAAAATATGAAAAAAAAT
14588310 GTCGTAAAAAAAA
387 GTCG-AAAAAAAA
*
14588323 CAAAAAGAAAAAAGTAAAGAGAAAAAGAATTAAACCTCGGAGATGAAAGTCTAAGGTAAAAAGTG
1 CAAAAAGAAAAAAG-AAAGAGAAAAAGAATTAAACCTCGGAGATGAAAGTCTAAGGTAAAAACTG
* *
14588388 AATAAAGCTTCAAAAAAATAGAACTCAAGAAAGTTGATT-TTAAAGATGAAGTCAAACGTTTCAA
65 AATAAAGCTTCAAAAAAATAGAACTAAAAAAAGTTGATTGTTAAAGATGAAGTCAAACGTTTC-A
* * * ***
14588452 AAAAAAAAGAGAGAAAAGCAAGGAAAGAAAGAAATGCACCTTGGAAAA-GAAAGTTTGGGGCAAA
129 AAAAAAAAGAGAGAAAA-CAAAGAAAGAAAGAAATGCACC-TCGAAAATGAAAATTCAAGGCAAA
* * * *
14588516 AAGTGGATGAAGCTTCAAGAAAATAGAATTCAAGAAAGTTGATGGCTAAAGATGAAAGTAAATAT
192 AAGTGAATGAAGCTTCAAGAAAACAGAATTCAAGAAAGTTGATGGCTAAAAATGAAAGCAAATAT
* * *
14588581 TCTAAAAAAAAGGGAAAAACAAAGAAAGAAGGAAAGAAATG-AGCCTT-AGAAATGAGAG-TCTA
257 TCCAAAAAAAAGGGAAAAACAAAGAAA-AA-AAAAGAAATGCA--CTTCAGAAATGAAAGTTC-A
* * * * * *
14588643 GGGCAAAAAGTGAATGAAGCTTTAGGAAAATAGAATTGAAGAAAGTAGAATGCCAAAAT-TGAAG
317 AGGCAAAAAGTGAATAAAGCTTCAAGAAAATAGAATTCAAGAAAATAGAATG-CAAAATATGAA-
* * *
14588707 TAAAAAATTTC-CAAAAAAT
380 -AAAAAATGTCGAAAAAAAA
* *
14588726 CAAAAATAAAGAAAAAAAGA-AAAAAGAA
1 CAAAAAGAAA-AAAGAAAGAGAAAAAGAA
14588754 AAAAAAAGAG
Statistics
Matches: 354, Mismatches: 62, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
399 23 0.06
400 92 0.26
401 118 0.33
402 19 0.05
403 86 0.24
404 10 0.03
405 6 0.02
ACGTcount: A:0.54, C:0.09, G:0.20, T:0.17
Consensus pattern (398 bp):
CAAAAAGAAAAAAGAAAGAGAAAAAGAATTAAACCTCGGAGATGAAAGTCTAAGGTAAAAACTGA
ATAAAGCTTCAAAAAAATAGAACTAAAAAAAGTTGATTGTTAAAGATGAAGTCAAACGTTTCAAA
AAAAAAGAGAGAAAACAAAGAAAGAAAGAAATGCACCTCGAAAATGAAAATTCAAGGCAAAAAGT
GAATGAAGCTTCAAGAAAACAGAATTCAAGAAAGTTGATGGCTAAAAATGAAAGCAAATATTCCA
AAAAAAAGGGAAAAACAAAGAAAAAAAAAGAAATGCACTTCAGAAATGAAAGTTCAAGGCAAAAA
GTGAATAAAGCTTCAAGAAAATAGAATTCAAGAAAATAGAATGCAAAATATGAAAAAAAATGTCG
AAAAAAAA
Found at i:14590356 original size:26 final size:26
Alignment explanation
Indices: 14590327--14590391 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
14590317 ATTTACTTTA
*
14590327 ACATCTACATCACAAAAAAGACATTC
1 ACATTTACATCACAAAAAAGACATTC
14590353 ACATTTACATCACAAAAAAGACATTC
1 ACATTTACATCACAAAAAAGACATTC
*
14590379 ACATTTGCATCAC
1 ACATTTACATCAC
14590392 TTGCATCTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.46, C:0.26, G:0.05, T:0.23
Consensus pattern (26 bp):
ACATTTACATCACAAAAAAGACATTC
Found at i:14590363 original size:32 final size:31
Alignment explanation
Indices: 14590302--14590389 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 31
14590292 CTTACGTATG
* * *
14590302 CATCATAAGAAAGACATTTAC-TTTAACATCTA
1 CATCACAAAAAAGACATTCACATTT--CATCTA
14590334 CATCACAAAAAAGACATTCACA--T--T-TA
1 CATCACAAAAAAGACATTCACATTTCATCTA
14590360 CATCACAAAAAAGACATTCACATTTGCATC
1 CATCACAAAAAAGACATTCACATTT-CATC
14590390 ACTTGCATCT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
26 24 0.52
27 1 0.02
28 1 0.02
31 2 0.04
32 18 0.39
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (31 bp):
CATCACAAAAAAGACATTCACATTTCATCTA
Done.