Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 43 of 143
Found at i:13495891 original size:43 final size:42
Alignment explanation
Indices: 13495843--13495969 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 42
13495833 AACACATTGG
* * *
13495843 AATATATTCATAATAGGAAAGAATAAGAAAATTTACCTAAAAA
1 AATATATTCA-AATAAGAAAGAATAAAAAAACTTACCTAAAAA
* * * ** *
13495886 AATATATTTAAAATATGAAAGAATCACTAAACTTACCTAAAAC
1 AATATA-TTCAAATAAGAAAGAATAAAAAAACTTACCTAAAAA
*
13495929 AATATATATCAAATAAGAAAGAATAAAAAAAGTTACCTAAA
1 AATATAT-TCAAATAAGAAAGAATAAAAAAACTTACCTAAA
13495970 TAATCATTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 65 0.94
44 3 0.04
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.25
Consensus pattern (42 bp):
AATATATTCAAATAAGAAAGAATAAAAAAACTTACCTAAAAA
Found at i:13497820 original size:78 final size:78
Alignment explanation
Indices: 13497726--13497908 Score: 215
Period size: 78 Copynumber: 2.3 Consensus size: 78
13497716 GAAGATTCCG
* * *
13497726 ATCTCTTACCTCGAGCCTGGGGCAGGTTGTAGCCATTCGATCTTTTACCCCGAGCCTAGTGCAGA
1 ATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGA
13497791 TCACTATTAGCCT
66 TCACTATTAGCCT
* * * *
13497804 ATCTCTTACC-CTGAGCCTGGGGTAGATTGCAGCCATTTGATCTTTTACCCCGAGCTTGGGGCAG
1 ATCTCTTACCTC-GAGCCTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAG
* * * *
13497868 ATCACCATCATCCG
65 ATCACTATTAGCCT
* * * *
13497882 ATCTTTTACCCCGAACCTGAGGCAGAT
1 ATCTCTTACCTCGAGCCTGGGGCAGAT
13497909 CGCCATCAGC
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
77 1 0.01
78 86 0.98
79 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (78 bp):
ATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGA
TCACTATTAGCCT
Found at i:13497852 original size:39 final size:38
Alignment explanation
Indices: 13497724--13497986 Score: 157
Period size: 39 Copynumber: 6.8 Consensus size: 38
13497714 TTGAAGATTC
* * *
13497724 CGATCTCTTA-CCTCGAGCCTGGGGCAGGTTGTAGCCATT
1 CGATCTTTTACCCT-GAGCCTGGGGCAGATT-CAGCCATT
* * * *
13497763 CGATCTTTTACCCCGAGCCTAGTGCAGA-TCA-CTATT
1 CGATCTTTTACCCTGAGCCTGGGGCAGATTCAGCCATT
* * *
13497799 AGCCTATCTCTTACCCTGAGCCTGGGGTAGATTGCAGCCATT
1 ---CGATCTTTTACCCTGAGCCTGGGGCAGATT-CAGCCATT
* * *
13497841 TGATCTTTTACCCCGAGCTTGGGGCAGA-TCA-CCATCAT
1 CGATCTTTTACCCTGAGCCTGGGGCAGATTCAGCCAT--T
* * *
13497879 CCGATCTTTTACCCCGAACCTGAGGCAGA-TC-GCCA-T
1 -CGATCTTTTACCCTGAGCCTGGGGCAGATTCAGCCATT
* *
13497915 CAGCCAATCTCTCACCCCT-AGCCTGGGGCAGATTGCAGCCATT
1 C-G---ATCTTTTA-CCCTGAGCCTGGGGCAGATT-CAGCCATT
*
13497958 CGATCTTTTACCCTGAGCCTAGGGCAGAT
1 CGATCTTTTACCCTGAGCCTGGGGCAGAT
13497987 CATCATCAGC
Statistics
Matches: 171, Mismatches: 32, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
35 1 0.01
36 10 0.06
37 3 0.02
38 7 0.04
39 129 0.75
40 7 0.04
41 3 0.02
42 9 0.05
43 2 0.01
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (38 bp):
CGATCTTTTACCCTGAGCCTGGGGCAGATTCAGCCATT
Found at i:13497932 original size:78 final size:78
Alignment explanation
Indices: 13497850--13498038 Score: 197
Period size: 78 Copynumber: 2.4 Consensus size: 78
13497840 TTGATCTTTT
* *
13497850 ACCCCGAGCTTGGGGCAGA-T-CA-CCATCATCCGATCTTTTACCCCGAACCT-GAGGCAGATCG
1 ACCCCGAGCCTGGGGCAGATTGCAGCCAT--T-CGATCTTTTACCCCGAACCTAG-GGCAGATCA
13497911 CCATCAGCCAATCTCTC
62 CCATCAGCCAATCTCTC
* * * *
13497928 ACCCCTAGCCTGGGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCTAGGGCAGATCATCAT
1 ACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAACCTAGGGCAGATCACCAT
* *
13497993 CAGCTAATCTCTT
66 CAGCCAATCTCTC
* * * * *
13498006 ACCCCAATCATGGGGCAAATTGCAGTCATTCGA
1 ACCCCGAGCCTGGGGCAGATTGCAGCCATTCGA
13498039 AGCAATAAAG
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 85 0.90
79 3 0.03
80 2 0.02
81 4 0.04
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (78 bp):
ACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAACCTAGGGCAGATCACCAT
CAGCCAATCTCTC
Found at i:13497938 original size:117 final size:117
Alignment explanation
Indices: 13497763--13497994 Score: 324
Period size: 117 Copynumber: 2.0 Consensus size: 117
13497753 TGTAGCCATT
* * * * * *
13497763 CGATCTTTTACCCCGAGCCTAGTGCAGATCACTATTAGCCTATCTCTTACCCTGAGCCTGGGGTA
1 CGATCTTTTACCCCGAACCTAGTGCAGATCACCATCAGCCAATCTCTCACCCTGAGCCTGGGGCA
* * *
13497828 GATTGCAGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCATC
66 GATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCATC
*
13497880 CGATCTTTTACCCCGAACCTGAG-GCAGATCGCCATCAGCCAATCTCTCACCCCT-AGCCTGGGG
1 CGATCTTTTACCCCGAACCT-AGTGCAGATCACCATCAGCCAATCTCTCA-CCCTGAGCCTGGGG
* *
13497943 CAGATTGCAGCCATTCGATCTTTTACCCTGAGCCTAGGGCAGATCATCATCA
64 CAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCA
13497995 GCTAATCTCT
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
117 95 0.94
118 6 0.06
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (117 bp):
CGATCTTTTACCCCGAACCTAGTGCAGATCACCATCAGCCAATCTCTCACCCTGAGCCTGGGGCA
GATTGCAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCATC
Found at i:13498485 original size:17 final size:17
Alignment explanation
Indices: 13498443--13498527 Score: 95
Period size: 17 Copynumber: 5.1 Consensus size: 17
13498433 ATGGAACCTA
13498443 ATTTTAAATTTTAAA-TT
1 ATTTTAAA-TTTAAATTT
13498460 A-TTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
* *
13498476 ATTCTAAATTTAAACTT
1 ATTTTAAATTTAAATTT
*
13498493 ATTTTAAGA-TTGAATTT
1 ATTTTAA-ATTTAAATTT
*
13498510 ATTTTAAAATTAAATTT
1 ATTTTAAATTTAAATTT
13498527 A
1 A
13498528 AAATTAAGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.10
16 10 0.17
17 41 0.71
18 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:13498520 original size:12 final size:12
Alignment explanation
Indices: 13498512--13498543 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
13498502 TTGAATTTAT
13498512 TTTAAAATTAAA
1 TTTAAAATTAAA
*
13498524 TTTAAAATTAAG
1 TTTAAAATTAAA
13498536 TTTAAAAT
1 TTTAAAAT
13498544 GTCCAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (12 bp):
TTTAAAATTAAA
Found at i:13499253 original size:13 final size:13
Alignment explanation
Indices: 13499225--13499266 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13499215 CTAAATGTTT
13499225 TAATAAATAAAT-A
1 TAAT-AATAAATAA
* *
13499238 TAATATTAATTAA
1 TAATAATAAATAA
13499251 TAATAATAAATAA
1 TAATAATAAATAA
13499264 TAA
1 TAA
13499267 AAGGAGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAAATAA
Found at i:13500266 original size:30 final size:29
Alignment explanation
Indices: 13500243--13500526 Score: 342
Period size: 30 Copynumber: 9.8 Consensus size: 29
13500233 ACTTTTCCAT
*
13500243 AATTACATTTTAACCCTTAAACTTCTCAAA
1 AATTACATTTTTACCCTTAAACTTC-CAAA
13500273 AATTACATTTTTACCCTTAAACTTCTCAAA
1 AATTACATTTTTACCCTTAAACTTC-CAAA
* *
13500303 AATTACATTTTT-CCCCTGAACTTCCAAA
1 AATTACATTTTTACCCTTAAACTTCCAAA
* *
13500331 AATTACATTTTTTCCC-TAAACTTCCTAA
1 AATTACATTTTTACCCTTAAACTTCCAAA
* *
13500359 AATCACA-TTTTACCCTTAAACTTCCAAT
1 AATTACATTTTTACCCTTAAACTTCCAAA
**
13500387 AATTACATTTTTACCCTCGAACTTCCAAA
1 AATTACATTTTTACCCTTAAACTTCCAAA
* *
13500416 AATCACATTTTTACCCTTGAACTTCTCAAA
1 AATTACATTTTTACCCTTAAACTTC-CAAA
**
13500446 AATTACATTTTTACCCTCGAACTTCCAAA
1 AATTACATTTTTACCCTTAAACTTCCAAA
* * * *
13500475 AATCACATTTTTACCCGTAAAACTTTCTAA
1 AATTACATTTTTACCC-TTAAACTTCCAAA
*
13500505 AATTACATTTTAACCC-TAAACT
1 AATTACATTTTTACCCTTAAACT
13500527 CTTCGAAACT
Statistics
Matches: 224, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
27 7 0.03
28 53 0.24
29 73 0.33
30 91 0.41
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.37
Consensus pattern (29 bp):
AATTACATTTTTACCCTTAAACTTCCAAA
Found at i:13500343 original size:59 final size:57
Alignment explanation
Indices: 13500247--13500526 Score: 339
Period size: 59 Copynumber: 4.8 Consensus size: 57
13500237 TTCCATAATT
* * *
13500247 ACATTTTAACCCTTAAACTTCTCAAAAATTACATTTTTACCCTTAAACTTCTCAAAAATT
1 ACATTTT-TCCCTTAAACTTC-CAAAAATTACATTTTTACCCTCAAACTTC-CAAAAATC
* * * *
13500307 ACATTTTTCCCCTGAACTTCCAAAAATTACATTTTTTCCCT-AAACTTCCTAAAATC
1 ACATTTTTCCCTTAAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATC
* * *
13500363 ACATTTTACCCTTAAACTTCCAATAATTACATTTTTACCCTCGAACTTCCAAAAATC
1 ACATTTTTCCCTTAAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATC
* *
13500420 ACATTTTTACCCTTGAACTTCTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATC
1 ACATTTTT-CCCTTAAACTTC-CAAAAATTACATTTTTACCCTCAAACTTCCAAAAATC
* * * *
13500479 ACATTTTTACCCGTAAAACTTTCTAAAATTACATTTTAACCCT-AAACT
1 ACATTTTT-CCC-TTAAACTTCCAAAAATTACATTTTTACCCTCAAACT
13500527 CTTCGAAACT
Statistics
Matches: 194, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
56 42 0.22
57 27 0.14
58 35 0.18
59 77 0.40
60 13 0.07
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (57 bp):
ACATTTTTCCCTTAAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATC
Found at i:13504842 original size:46 final size:46
Alignment explanation
Indices: 13504760--13504890 Score: 183
Period size: 46 Copynumber: 2.8 Consensus size: 46
13504750 ACACTAGCGC
*
13504760 GCTCTCTAATTAGCACTGTGTGCT-CTCTTTGATTAGCACTGCGTGT
1 GCTCTCTAATTAGCACTGTGTG-TGCTCTTTGTTTAGCACTGCGTGT
* ** * *
13504806 GTTCTCTAATTAGCACTGTGTGTGCTCCCTGTTTAGCATTGTGTGT
1 GCTCTCTAATTAGCACTGTGTGTGCTCTTTGTTTAGCACTGCGTGT
*
13504852 GCTCTCTGATTAGCACTGTGTGTGCTCTTTGTTTAGCAC
1 GCTCTCTAATTAGCACTGTGTGTGCTCTTTGTTTAGCAC
13504891 GTCTCATGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 72 0.99
ACGTcount: A:0.14, C:0.22, G:0.23, T:0.41
Consensus pattern (46 bp):
GCTCTCTAATTAGCACTGTGTGTGCTCTTTGTTTAGCACTGCGTGT
Found at i:13504946 original size:23 final size:23
Alignment explanation
Indices: 13504760--13504992 Score: 164
Period size: 23 Copynumber: 10.3 Consensus size: 23
13504750 ACACTAGCGC
*
13504760 GCTCTCTAATTAGCAC--TGTGT
1 GCTCTCTGATTAGCACTTTGTGT
**
13504781 GCTCTCTTTGATTAGCACTGCGTGT
1 GCTCTC--TGATTAGCACTTTGTGT
* * *
13504806 GTTCTCTAATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
* *
13504829 GCTCCCTGTTTAGCA-TTGTGTGT
1 GCTCTCTGATTAGCACTT-TGTGT
*
13504852 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
* * * **
13504875 GCTCTTTGTTTAGCACGTCT-CAT
1 GCTCTCTGATTAGCAC-TTTGTGT
*
13504898 GCTCTCTGTTATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTTTGTGT
13504923 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
*
13504946 G----C---TTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
* * *
13504962 ACTCTCTGTTTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
13504985 GCTCTCTG
1 GCTCTCTG
13504993 TTACCCAGCA
Statistics
Matches: 167, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
16 13 0.08
19 1 0.01
20 1 0.01
21 6 0.04
22 1 0.01
23 116 0.69
24 4 0.02
25 25 0.15
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTTTGTGT
Found at i:13504980 original size:39 final size:39
Alignment explanation
Indices: 13504909--13504987 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
13504899 CTCTCTGTTA
*
13504909 TTAGCACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGC
1 TTAGCACTTCGTGTACTCTCTGATTAGCACTTTGTGTGC
* * * *
13504948 TTAGTACTTTGTGTACTCTCTGTTTAGTACTTTGTGTGC
1 TTAGCACTTCGTGTACTCTCTGATTAGCACTTTGTGTGC
13504987 T
1 T
13504988 CTCTGTTACC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.47
Consensus pattern (39 bp):
TTAGCACTTCGTGTACTCTCTGATTAGCACTTTGTGTGC
Found at i:13504993 original size:23 final size:23
Alignment explanation
Indices: 13504948--13505027 Score: 90
Period size: 23 Copynumber: 3.4 Consensus size: 23
13504938 CTTTGTGTGC
*
13504948 TTAGTACTTTGTGTACTCTCTGT
1 TTAGTACTTTGTGTGCTCTCTGT
13504971 TTAGTACTTTGTGTGCTCTCTGT
1 TTAGTACTTTGTGTGCTCTCTGT
* * *
13504994 TACCCAGCAC-TTATGTGCTCTCTGT
1 T---TAGTACTTTGTGTGCTCTCTGT
13505019 TTAGTACTT
1 TTAGTACTT
13505028 CGGTACTCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 4 0.09
23 24 0.51
25 15 0.32
26 4 0.09
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (23 bp):
TTAGTACTTTGTGTGCTCTCTGT
Found at i:13508393 original size:312 final size:312
Alignment explanation
Indices: 13507828--13508455 Score: 1166
Period size: 312 Copynumber: 2.0 Consensus size: 312
13507818 ATTTTTGCGA
13507828 AAAAATAGATTGAAAGACTTGTAAAATTCATTTAATTGACATGCAAAACATTCAAGATAGCCATA
1 AAAAATAGATTGAAAGACTTGTAAAATTCATTTAATTGACATGCAAAACATTCAAGATAGCCATA
*
13507893 ATTATAACAGAAAATATCTACAAAAAATGAAAGTTAATAGAGTTATCTGTTCAATTTCTATGGTG
66 ATTATAACAGAAAATATCTACAAAAAATGAAAGTGAATAGAGTTATCTGTTCAATTTCTATGGTG
* *
13507958 TGTTGCTTCTCTTGAAATTAGGTTCTTACCCTATTGTTTCTTCTCTTTGGTGGTTGGACTTGAGT
131 TATTGCTTCTCTTGAAATTAGGTTCTTACCCTATTGTTTCTTCTCTTTGGTGGTTGGACTTGAAT
*
13508023 TTCAGGAGATGCAAGAGAAACAAGGGCTGCTGTTTCTGGGTTTATCAATTTTAAACCATTTAGTA
196 TTCAGGAGATGCAAGAGAAACAAGGGCTGCTGTTTCTGGGTCTATCAATTTTAAACCATTTAGTA
13508088 AATCATGTCAGAAATAAGAAACATATCTTTACTATACTATATAAATATAAGT
261 AATCATGTCAGAAATAAGAAACATATCTTTACTATACTATATAAATATAAGT
* *
13508140 AAAAATAGATTGAAAGACTTGTAAAATTCATTTAATTGACATGTAAAACATTCAATATAGCCATA
1 AAAAATAGATTGAAAGACTTGTAAAATTCATTTAATTGACATGCAAAACATTCAAGATAGCCATA
*
13508205 ATTATAACAGAAAATATCTACAAAAAATGGAAGTGAATAGAGTTATCTGTTCAATTTCTATGGTG
66 ATTATAACAGAAAATATCTACAAAAAATGAAAGTGAATAGAGTTATCTGTTCAATTTCTATGGTG
13508270 TATTGCTTCTCTTGAAATTAGGTTCTTACCCTATTGTTTCTTCTCTTTGGTGGTTGGACTTGAAT
131 TATTGCTTCTCTTGAAATTAGGTTCTTACCCTATTGTTTCTTCTCTTTGGTGGTTGGACTTGAAT
* *
13508335 TTCAGGAGATGCAAGAGAAACAAGGGCTGCTGTTTCTGGGTCTATCATTTTTAAACCATTTGGTA
196 TTCAGGAGATGCAAGAGAAACAAGGGCTGCTGTTTCTGGGTCTATCAATTTTAAACCATTTAGTA
*
13508400 AATCATGTTAGAAATAAGAAACATATCTTTACTATACTATATAAATATAAGT
261 AATCATGTCAGAAATAAGAAACATATCTTTACTATACTATATAAATATAAGT
13508452 AAAA
1 AAAA
13508456 TTTAACGATA
Statistics
Matches: 306, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
312 306 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (312 bp):
AAAAATAGATTGAAAGACTTGTAAAATTCATTTAATTGACATGCAAAACATTCAAGATAGCCATA
ATTATAACAGAAAATATCTACAAAAAATGAAAGTGAATAGAGTTATCTGTTCAATTTCTATGGTG
TATTGCTTCTCTTGAAATTAGGTTCTTACCCTATTGTTTCTTCTCTTTGGTGGTTGGACTTGAAT
TTCAGGAGATGCAAGAGAAACAAGGGCTGCTGTTTCTGGGTCTATCAATTTTAAACCATTTAGTA
AATCATGTCAGAAATAAGAAACATATCTTTACTATACTATATAAATATAAGT
Found at i:13508520 original size:43 final size:41
Alignment explanation
Indices: 13508472--13508597 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 41
13508462 GATACATTGG
* * * *
13508472 AATATAATTAGAACAGGAAAGAGTAAGAAATTTTACCTAAAAC
1 AATATATTTA-AATAGGAAAGAATAAGAAA-CTTACCTAAAAC
* *
13508515 AATATATTTAATATAGAAAATAATAAGTAAACTTACCTAAAAC
1 AATATATTTAA-ATAGGAAAGAATAAG-AAACTTACCTAAAAC
* *
13508558 AATATATTTAAAATAGGAAAGAATCAGAAAAGTTACCTAA
1 AATATATTT-AAATAGGAAAGAATAAG-AAACTTACCTAA
13508598 GGAATCCTTC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.01
43 63 0.91
44 5 0.07
ACGTcount: A:0.55, C:0.09, G:0.10, T:0.26
Consensus pattern (41 bp):
AATATATTTAAATAGGAAAGAATAAGAAACTTACCTAAAAC
Found at i:13511572 original size:43 final size:43
Alignment explanation
Indices: 13511450--13511572 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 43
13511440 GACACATTGG
* * * **
13511450 AATATATTTAGAACAGGAAAGAGTAAGAAATTTTACCTAAAAC
1 AATATATTTAAAATAGGAAAGAATAAGAAAACTTACCTAAAAC
* * * *
13511493 AATATATTTAATATAGAAAATAATAAGTAAACTTACCTAAAAC
1 AATATATTTAAAATAGGAAAGAATAAGAAAACTTACCTAAAAC
* * *
13511536 AATATATTTAAAATAGGAAAGACTCAGAAAAGTTACC
1 AATATATTTAAAATAGGAAAGAATAAGAAAACTTACC
13511573 CAAGGAATGC
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.53, C:0.10, G:0.11, T:0.27
Consensus pattern (43 bp):
AATATATTTAAAATAGGAAAGAATAAGAAAACTTACCTAAAAC
Found at i:13511973 original size:20 final size:21
Alignment explanation
Indices: 13511935--13511973 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
13511925 AACCCTAAAT
*
13511935 CTCAAACTCATAAACTATTTC
1 CTCAAACTCATAAAATATTTC
*
13511956 CTCAAAC-CCTAAAATATT
1 CTCAAACTCATAAAATATT
13511974 AAACCCTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (21 bp):
CTCAAACTCATAAAATATTTC
Found at i:13511999 original size:21 final size:20
Alignment explanation
Indices: 13511975--13512014 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13511965 TAAAATATTA
13511975 AACCCTAAACCTATAACCTTG
1 AACCCTAAACCTA-AACCTTG
*
13511996 AACCCTAAACTTAAACCTT
1 AACCCTAAACCTAAACCTT
13512015 AAATCTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.40, C:0.33, G:0.03, T:0.25
Consensus pattern (20 bp):
AACCCTAAACCTAAACCTTG
Found at i:13514486 original size:22 final size:22
Alignment explanation
Indices: 13514418--13514486 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
13514408 AACAGGAAAG
13514418 AATAAG-AAATTTTACCTAAAAC
1 AATAAGTAAA-TTTACCTAAAAC
* * * * *
13514440 AATATATTTAATATA--GAAAAT
1 AATA-AGTAAATTTACCTAAAAC
13514461 AATAAGTAAATTTACCTAAAAC
1 AATAAGTAAATTTACCTAAAAC
13514483 AATA
1 AATA
13514487 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 12 0.36
23 4 0.12
24 2 0.06
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (22 bp):
AATAAGTAAATTTACCTAAAAC
Found at i:13514519 original size:43 final size:43
Alignment explanation
Indices: 13514397--13514519 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 43
13514387 GACACATTGG
* * *
13514397 AATATATTTAGAACAGGAAAGAATAAGAAATTTTACCTAAAAC
1 AATATATTTAAAATAGGAAAGAATAAGAAAATTTACCTAAAAC
* * * *
13514440 AATATATTTAATATAGAAAATAATAAGTAAATTTACCTAAAAC
1 AATATATTTAAAATAGGAAAGAATAAGAAAATTTACCTAAAAC
* * *
13514483 AATATATTTAAAATAGGGAAGAATCAGAAAAGTTACC
1 AATATATTTAAAATAGGAAAGAATAAGAAAATTTACC
13514520 CAAGGAATCC
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.28
Consensus pattern (43 bp):
AATATATTTAAAATAGGAAAGAATAAGAAAATTTACCTAAAAC
Found at i:13514967 original size:20 final size:21
Alignment explanation
Indices: 13514928--13514967 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13514918 TAAAATATTA
13514928 AACCCCAAACTTATAACCTTG
1 AACCCCAAACTTATAACCTTG
*
13514949 AACCCTAAACTTA-AACCTT
1 AACCCCAAACTTATAACCTT
13514968 AAATCTCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.40, C:0.33, G:0.03, T:0.25
Consensus pattern (21 bp):
AACCCCAAACTTATAACCTTG
Found at i:13515196 original size:21 final size:22
Alignment explanation
Indices: 13515155--13515197 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
13515145 TATGGGGAAA
*
13515155 AAAACAAAATGAATAAAGTTTG
1 AAAACAAAATGAACAAAGTTTG
13515177 AAAA-AAAA-GAACAAATGTTTG
1 AAAACAAAATGAACAAA-GTTTG
13515198 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (22 bp):
AAAACAAAATGAACAAAGTTTG
Found at i:13519324 original size:81 final size:81
Alignment explanation
Indices: 13519177--13519333 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
13519167 ATAAACCGAT
* * * *
13519177 AATCTTAGCACCCAGTGCCTAGCAAATAAAGCATAGAAGTGAACCCAGCTCTGGTTGGTTTGACC
1 AATCTTAGCACCCAGTGCCTAGCAAATAAACCATAGAAGTGAACCCAGCTCTGATTGGATTAACC
13519242 AACAAATAATCCGTCA
66 AACAAATAATCCGTCA
* * ** * * *
13519258 AATCTTGGCACCTAGTGCCTAGCAGTTAAACCGT-GAAAGTGAGCCTAGCTCTGATTGGATTAAC
1 AATCTTAGCACCCAGTGCCTAGCAAATAAACCATAG-AAGTGAACCCAGCTCTGATTGGATTAAC
**
13519322 CAATGAATAATC
65 CAACAAATAATC
13519334 AATTCAACTC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
80 1 0.02
81 61 0.98
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (81 bp):
AATCTTAGCACCCAGTGCCTAGCAAATAAACCATAGAAGTGAACCCAGCTCTGATTGGATTAACC
AACAAATAATCCGTCA
Found at i:13525436 original size:14 final size:14
Alignment explanation
Indices: 13525417--13525469 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 14
13525407 CTATAATCCC
13525417 AAACCCTAAAAC-CA
1 AAACCC-AAAACTCA
13525431 AAACCCAAAACTCA
1 AAACCCAAAACTCA
*
13525445 AATCCC-AAACTCA
1 AAACCCAAAACTCA
*
13525458 TAACCCTAAAAC
1 AAACCC-AAAAC
13525470 CATGAACCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 16 0.48
14 13 0.39
15 4 0.12
ACGTcount: A:0.53, C:0.36, G:0.00, T:0.11
Consensus pattern (14 bp):
AAACCCAAAACTCA
Found at i:13525490 original size:42 final size:41
Alignment explanation
Indices: 13525418--13525500 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 41
13525408 TATAATCCCA
13525418 AACCCTAAAACCAAAACCCAAAACTCAAATCCCAAACTCAT
1 AACCCTAAAACCAAAACCCAAAACTCAAATCCCAAACTCAT
* *
13525459 AACCCTAAAACCATGAACCC-AAACCCTAAATCCCAAACTCAT
1 AACCCTAAAACCA-AAACCCAAAACTC-AAATCCCAAACTCAT
13525501 CAACTATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 18 0.47
42 20 0.53
ACGTcount: A:0.48, C:0.37, G:0.01, T:0.13
Consensus pattern (41 bp):
AACCCTAAAACCAAAACCCAAAACTCAAATCCCAAACTCAT
Found at i:13528225 original size:80 final size:80
Alignment explanation
Indices: 13528089--13528239 Score: 221
Period size: 80 Copynumber: 1.9 Consensus size: 80
13528079 ACCAAACCCG
* * * * * *
13528089 TCAATTCATGGAACCCGGTTCCTAGCAGATAAATCGCGGTAAGTGAGCCCAGCTCTAGTTGGATT
1 TCAATTCATGGAACCCAGTGCCCAGCAGATAAATCGCGATAAATGAGCCCAACTCTAGTTGGATT
13528154 AACCAATGAATTCCT
66 AACCAATGAATTCCT
* * *
13528169 TCAATTCATGGCACCTAGTGCCCAGCAGATAAATCGTGATAAATGAGCCCAACTCTAGTTGGATT
1 TCAATTCATGGAACCCAGTGCCCAGCAGATAAATCGCGATAAATGAGCCCAACTCTAGTTGGATT
13528234 AACCAA
66 AACCAA
13528240 CGGTTTACGC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (80 bp):
TCAATTCATGGAACCCAGTGCCCAGCAGATAAATCGCGATAAATGAGCCCAACTCTAGTTGGATT
AACCAATGAATTCCT
Found at i:13530943 original size:43 final size:43
Alignment explanation
Indices: 13530895--13530978 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
13530885 GACACATTTG
* * *
13530895 AATATATTTAGAATTGGAAAGAATAAGAAAATTTACCTAAACC
1 AATATATTTAAAATAGGAAAAAATAAGAAAATTTACCTAAACC
*
13530938 AATATATTTAAAATAGGAAAAAATTAGAAAATTTACCTAAA
1 AATATATTTAAAATAGGAAAAAATAAGAAAATTTACCTAAA
13530979 AAATCCTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.29
Consensus pattern (43 bp):
AATATATTTAAAATAGGAAAAAATAAGAAAATTTACCTAAACC
Found at i:13531660 original size:25 final size:24
Alignment explanation
Indices: 13531614--13531661 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
13531604 TGTTTGTTTA
13531614 TAATTTAAAAAGTTAATTATTAAAG
1 TAATTTAAAAAGTTAA-TATTAAAG
13531639 TAATTTAATTAAAGTTAA-ATTAA
1 TAATTTAA--AAAGTTAATATTAA
13531662 GTTGGAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 13 0.62
27 8 0.38
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
TAATTTAAAAAGTTAATATTAAAG
Found at i:13535832 original size:29 final size:29
Alignment explanation
Indices: 13535798--13535856 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
13535788 TCCACCTTAA
* *
13535798 CACAAATTCTCAACGAACAAGTTCTTCAC
1 CACAAACTCTCAACGAACAAGTTCTCCAC
13535827 CACAAACTCTCAACGAACAAGTTCTCCAC
1 CACAAACTCTCAACGAACAAGTTCTCCAC
13535856 C
1 C
13535857 TCTTCCAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.36, G:0.07, T:0.20
Consensus pattern (29 bp):
CACAAACTCTCAACGAACAAGTTCTCCAC
Found at i:13536516 original size:49 final size:49
Alignment explanation
Indices: 13536376--13536508 Score: 191
Period size: 49 Copynumber: 2.8 Consensus size: 49
13536366 TCAAACTATA
* *
13536376 AGCAAACATCAGTAATACCTTTTAAGTATC-C-AAA-CCCCGTGAACTGC
1 AGCAAACATCAGTAGTACCTTATAAGTATCTCAAAATCCCC-TGAACTGC
* *
13536423 AGCAAACATCAGTAGTACCTTGTAAGTATATCAAAATCCCCTGAACTGC
1 AGCAAACATCAGTAGTACCTTATAAGTATCTCAAAATCCCCTGAACTGC
*
13536472 AGCAAACATCAGTAGTACCTCATAAGTATCTCAAAAT
1 AGCAAACATCAGTAGTACCTTATAAGTATCTCAAAAT
13536509 GTCCTGAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
47 27 0.35
48 1 0.01
49 45 0.58
50 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (49 bp):
AGCAAACATCAGTAGTACCTTATAAGTATCTCAAAATCCCCTGAACTGC
Found at i:13538370 original size:16 final size:16
Alignment explanation
Indices: 13538349--13538379 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13538339 TTGTGGATCC
13538349 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
13538365 CATTTTATCTTTATT
1 CATTTTACCTTTATT
13538380 TTCACATTAT
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:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:13542523 original size:20 final size:21
Alignment explanation
Indices: 13542487--13542539 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
13542477 TATTCTTGCA
*
13542487 TAAAACTAAAAAGGAAACAAA-
1 TAAAAATAAAAAGGAAA-AAAG
*
13542508 TGAAAATAAAAA-GAAAAAAG
1 TAAAAATAAAAAGGAAAAAAG
13542528 TAAAAATAAAAA
1 TAAAAATAAAAA
13542540 TTGAAATGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.11
20 15 0.54
21 10 0.36
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.11
Consensus pattern (21 bp):
TAAAAATAAAAAGGAAAAAAG
Found at i:13552580 original size:10 final size:10
Alignment explanation
Indices: 13552567--13552591 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13552557 TTTATCATAA
13552567 TTTTTTTTCT
1 TTTTTTTTCT
13552577 TTTTTTTTCT
1 TTTTTTTTCT
13552587 TTTTT
1 TTTTT
13552592 CCTTTTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:13552591 original size:17 final size:18
Alignment explanation
Indices: 13552569--13552614 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
13552559 TATCATAATT
*
13552569 TTTTTTCTTTTTTTTTC-
1 TTTTTTCTTTTTTTCTCA
*
13552586 TTTTTTC-CTTTTTCTCA
1 TTTTTTCTTTTTTTCTCA
13552603 TTTTTTCTTTTT
1 TTTTTTCTTTTT
13552615 CAAGTGACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 7 0.29
17 14 0.58
18 3 0.12
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTCTTTTTTTCTCA
Found at i:13561492 original size:13 final size:14
Alignment explanation
Indices: 13561474--13561503 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13561464 GTCAACGCAA
13561474 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
13561487 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
13561501 TCA
1 TCA
13561504 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:13567302 original size:6 final size:6
Alignment explanation
Indices: 13567291--13567317 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13567281 TTCATCACTT
13567291 TTTCCC TTTCCC TTTCCC TTTCCC TTT
1 TTTCCC TTTCCC TTTCCC TTTCCC TTT
13567318 TCATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCC
Found at i:13584100 original size:3 final size:3
Alignment explanation
Indices: 13584092--13584153 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
13584082 CGGGGCAACA
* * *
13584092 TCT TCT TCT TTT TCT TCCT TC- TCT TCT TTT TCT TCT TCC T-T TCTT
1 TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TC-T
*
13584137 TCT TCT TCT TCT ACT TC
1 TCT TCT TCT TCT TCT TC
13584154 AATACTCATA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 3 0.06
3 38 0.81
4 6 0.13
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:13584118 original size:18 final size:17
Alignment explanation
Indices: 13584095--13584153 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 17
13584085 GGCAACATCT
13584095 TCTTCTTTTTCTTCCTTC
1 TCTTCTTTTTCTT-CTTC
13584113 TCTTCTTTTTCTTCTTC
1 TCTTCTTTTTCTTCTTC
13584130 -CTTTCTTTCTTCTTCTTC
1 TC-TTCTTT-TTCTTCTTC
13584148 TACTTC
1 T-CTTC
13584154 AATACTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.03
17 10 0.27
18 22 0.59
19 3 0.08
20 1 0.03
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (17 bp):
TCTTCTTTTTCTTCTTC
Found at i:13584118 original size:21 final size:20
Alignment explanation
Indices: 13584092--13584148 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
13584082 CGGGGCAACA
13584092 TCTTCTTCTTTTTCTTCCTT
1 TCTTCTTCTTTTTCTTCCTT
13584112 CTCTTCTT-TTTCTTCTTCCTT
1 -TCTTCTTCTTT-TTCTTCCTT
*
13584133 TCTTTCTTCTTCTTCT
1 TC-TTCTTCTTTTTCT
13584149 ACTTCAATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.16
21 25 0.78
22 2 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
TCTTCTTCTTTTTCTTCCTT
Found at i:13597734 original size:43 final size:42
Alignment explanation
Indices: 13597599--13598012 Score: 488
Period size: 43 Copynumber: 9.7 Consensus size: 42
13597589 CGCTAAAGAT
* * * *
13597599 AACGCCGCGAAAGAACATGGTCTTTAGCGGTGCTTTCCTACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCCCACA
* *
13597641 AACGCCACTAAAGAACATGGTCTTCAGCGGCG-CTTCCCTACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCCC-ACA
* *
13597683 AATGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCCCCCGA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCCCAC-A
* * * *
13597726 AACGCCGCTAAAGAACATGGTTTTTAGCAGTGCTTTCCCCACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTT-CCCACA
* *
13597769 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCAACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-CTTCCCACA
* *
13597812 AATGCCGCTAAAGAACACGGTCTTTAGCGGCGCCTTCCACACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCC-CACA
* * * *
13597855 AACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTACCGCA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-CTTCCCACA
*
13597898 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTACCCACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTT-CCCACA
* * * *
13597941 AACGCCGCTAAAAAACATGGTCTTTAGCAGCGCTTTTGCCACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-CTTCCCACA
* * * *
13597984 AATGTCGCTAAAGAACATTGTTTTTAGCG
1 AACGCCGCTAAAGAACATGGTCTTTAGCG
13598013 ACGCTTTTCA
Statistics
Matches: 321, Mismatches: 42, Indels: 17
0.84 0.11 0.04
Matches are distributed among these distances:
41 4 0.01
42 68 0.21
43 236 0.74
44 13 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (42 bp):
AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCCCACA
Found at i:13598013 original size:129 final size:127
Alignment explanation
Indices: 13597599--13598028 Score: 546
Period size: 129 Copynumber: 3.4 Consensus size: 127
13597589 CGCTAAAGAT
* * ** *
13597599 AACGCCGCGAAAGAACATGGTCTTTAGCGGTGC-TTT-CCTACAAACGCCACTAAAGAACATGGT
1 AACGCCGCTAAAGAACATGGTTTTTAGCGACGCTTTTACC-ACAAACGCCGCTAAAGAACATGGT
* *
13597662 CTTCAGCGGCGC-TTCCCTACAAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCCCCCGA
65 CTTTAGCGGCGCTTTCCC-ACAAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCCCAC-A
* **
13597726 AACGCCGCTAAAGAACATGGTTTTTAGC-AGTGCTTTCCCCACAAACGCCGCTAAAGAACATGGT
1 AACGCCGCTAAAGAACATGGTTTTTAGCGA-CGCTTTTACCACAAACGCCGCTAAAGAACATGGT
* *
13597790 CTTTAGCGGCGCTTTTCCAACAAATGCCGCTAAAGAACACGGTCTTTAGCGGCGCCTTCCACACA
65 CTTTAGCGGCGC-TTTCCCACAAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCC-CACA
* *
13597855 AACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTACCGCAAACGCCGCTAAAGAACATGGTC
1 AACGCCGCTAAAGAACATGGTTTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGGTC
* * * * *
13597920 TTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAAACATGGTCTTTAGCAGCGCTTTTGCCACA
66 TTTAGCGGCGCTTT-CCCACAAATGCCGCTAAAGAACATGGTCTTTAGCGGCGC-CTTCCCACA
* * *
13597984 AATGTCGCTAAAGAACATTGTTTTTAGCGACGCTTTT-CACACAAA
1 AACGCCGCTAAAGAACATGGTTTTTAGCGACGCTTTTAC-CACAAA
13598029 TGCCATTAAA
Statistics
Matches: 267, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
127 29 0.11
128 40 0.15
129 188 0.70
130 10 0.04
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (127 bp):
AACGCCGCTAAAGAACATGGTTTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGGTC
TTTAGCGGCGCTTTCCCACAAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCCCACA
Found at i:13598039 original size:86 final size:85
Alignment explanation
Indices: 13597599--13598028 Score: 549
Period size: 86 Copynumber: 5.0 Consensus size: 85
13597589 CGCTAAAGAT
* * *
13597599 AACGCCGCGAAAGAACATGGTCTTTAGCGGTGC-TTTCCTACAAACGCCACTAAAGAACATGGTC
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGAACATGGTC
* *
13597663 TTCAGCGGCGC-TTCCCTACA
65 TTTAGCGGCGCTTTCCCCACA
* * * * *
13597683 AATGCCGCTAAAGAACATGGTCTTTAGCGGCGCCTTCCCCCGAAACGCCGCTAAAGAACATGGTT
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCAC-AAACGCCGCTAAAGAACATGGTC
* *
13597748 TTTAGCAGTGCTTTCCCCACA
65 TTTAGCGGCGCTTTCCCCACA
* *
13597769 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCAACAAATGCCGCTAAAGAACACGGTC
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGAACATGGTC
* *
13597834 TTTAGCGGCGCCTTCCACACA
65 TTTAGCGGCGCTTTCCCCACA
* *
13597855 AACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTACCGCAAACGCCGCTAAAGAACATGGTC
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGAACATGGTC
*
13597920 TTTAGCGGCGCTTTACCCACA
65 TTTAGCGGCGCTTTCCCCACA
* * * * * *
13597941 AACGCCGCTAAAAAACATGGTCTTTAGCAGCGCTTTTGCCACAAATGTCGCTAAAGAACATTGTT
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGAACATGGTC
* * *
13598006 TTTAGCGACGCTTTTCACACA
65 TTTAGCGGCGCTTTCCCCACA
13598027 AA
1 AA
13598029 TGCCATTAAA
Statistics
Matches: 300, Mismatches: 41, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
84 31 0.10
85 33 0.11
86 233 0.78
87 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (85 bp):
AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGAACATGGTCT
TTAGCGGCGCTTTCCCCACA
Found at i:13603863 original size:8 final size:8
Alignment explanation
Indices: 13603840--13603875 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
13603830 TTTAGGGTTT
*
13603840 AATAAATA
1 AATAATTA
*
13603848 ACTAATTA
1 AATAATTA
13603856 AATAATTA
1 AATAATTA
13603864 AATAATTA
1 AATAATTA
13603872 AATA
1 AATA
13603876 TTATGGTCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATTA
Found at i:13604030 original size:21 final size:22
Alignment explanation
Indices: 13604006--13604060 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
13603996 ATATTTGTTC
13604006 TATTTTTAATAATTTAAT-ATT
1 TATTTTTAATAATTTAATAATT
*
13604027 TA-TTTAATATAATTTAATAATT
1 TATTTTTA-ATAATTTAATAATT
13604049 TAATATTTTAAT
1 T-AT-TTTTAAT
13604061 TAAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
20 4 0.15
21 12 0.44
22 4 0.15
23 1 0.04
24 2 0.07
25 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTTTAATAATTTAATAATT
Found at i:13604137 original size:21 final size:22
Alignment explanation
Indices: 13604113--13604167 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
13604103 AATATTGTTC
*
13604113 TATTTTTAATAATTTAAT-ATT
1 TATTTTTAATAATTGAATAATT
13604134 TA-TTTTATATAATTGAATAATT
1 TATTTTTA-ATAATTGAATAATT
13604156 TAATATTTTAAT
1 T-AT-TTTTAAT
13604168 TAAATATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 4 0.14
23 1 0.04
24 2 0.07
25 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTTTTAATAATTGAATAATT
Found at i:13604229 original size:66 final size:66
Alignment explanation
Indices: 13604154--13604350 Score: 159
Period size: 66 Copynumber: 3.2 Consensus size: 66
13604144 AATTGAATAA
13604154 TTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAAAATAATTAATTA
1 TTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAAAATAATTAATTA
13604219 T
66 T
* ** * *** ** * * *
13604220 TTTAATA-TTT-GTTCTATTTTTAATAATTTAATATTTATTTAAT-A-TAATT----GAA-TAAT
1 TTTAATATTTTAATTAAATATTT--GGGTTTAAGGTTTAATAAATAACTAATTAAAATAATTAAT
13604276 T-T
64 TAT
* *
13604278 ---AAGATTTTAATTAAATATTTGGGTTTAAGGTTTAACAAATAACTAATTAAAATAATTAATTA
1 TTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAAAATAATTAATTA
13604340 T
66 T
13604341 TTTAATATTT
1 TTTAATATTT
13604351 GTTCTATTTT
Statistics
Matches: 89, Mismatches: 27, Indels: 30
0.61 0.18 0.21
Matches are distributed among these distances:
55 15 0.17
56 4 0.04
57 12 0.13
58 1 0.01
59 5 0.06
60 2 0.02
61 2 0.02
62 5 0.06
63 1 0.01
64 12 0.13
65 4 0.04
66 26 0.29
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (66 bp):
TTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAAAATAATTAATTA
T
Found at i:13604265 original size:121 final size:120
Alignment explanation
Indices: 13603791--13604758 Score: 1332
Period size: 120 Copynumber: 8.2 Consensus size: 120
13603781 ATGGTTGCAA
* * * * *
13603791 ATAATTAAATAATTAAATATATTGAATTAAATATTTGTGTTTAGGGTTTAATAAATAACTAATTA
1 ATAATTGAATAATTTAATAT-TTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTA
* * * *
13603856 AATAATTAAATAATTAAATATTATGGTCGTTATTTTTAATAATTTAATATTTATTTAAT
65 AATAATTAATTATTTTAATATT-TGTTC--TATTTTTAATAATTTAATATTTATTTAAT
* *
13603915 ATAATTGAATAGTTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTTATAAATAACTAATTAA
1 ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAA
13603980 ATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
66 ATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
* *
13604035 ATAATTTAATAATTTAATATTTTAATTAAATATTTAGGTTTAAGGTTTAATAAATAACTAATT--
1 ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAA
* * * * *
13604098 AT-TTTAA-TATTGTT-CTATTT-TT-AATAATTTAAT-ATTT-AT-TTTATATAATT
66 ATAATTAATTATT-TTAATATTTGTTCTAT-TTTTAATAATTTAATATTTATTTAA-T
* *
13604148 GAATAATTTAATATTTTAAT--------TAAATATTTGGGTTTAAGGTTTAATAAATAACTAATT
1 --ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATT
13604205 AAAATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
64 -AAATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
* *
13604263 ATAATTGAATAATTTAAGATTTTAATTAAATATTTGGGTTTAAGGTTTAACAAATAACTAATTAA
1 ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATT-A
**
13604328 AATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATAACTATTTAAT
65 AATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
* *
13604384 ATAATTGAATAATTTAATATTTTAATTAAATATTTGAGTTTATGGTTTAATAAATAAC-------
1 ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAA
*
13604442 -----TAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATAATTATTTAAT
66 ATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
* *
13604492 ATAATTGAATAATTTAATATTTTTATTAAATATTTGGGTTTATGGTTTAATAAATAACTAATTAA
1 ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAA
13604557 ATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
66 ATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
*
13604612 ATAATTGAATAATTTAATGTTTTAATTAAATATTTGGGTTTATA-GTTTAATAAATAACTAATTA
1 ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTA-AGGTTTAATAAATAACTAATTA
*
13604676 AATAATTAATTATATTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
65 AATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
13604732 ATAATTGAATAATTTAATATTTTAATT
1 ATAATTGAATAATTTAATATTTTAATT
13604759 GAGTTTTGTT
Statistics
Matches: 761, Mismatches: 46, Indels: 78
0.86 0.05 0.09
Matches are distributed among these distances:
107 36 0.05
108 105 0.14
110 2 0.00
111 6 0.01
112 17 0.02
113 26 0.03
114 12 0.02
115 28 0.04
116 17 0.02
117 6 0.01
118 2 0.00
120 278 0.37
121 146 0.19
122 4 0.01
123 59 0.08
124 17 0.02
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (120 bp):
ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAA
ATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAAT
Found at i:13604305 original size:228 final size:228
Alignment explanation
Indices: 13603886--13604758 Score: 1261
Period size: 228 Copynumber: 3.8 Consensus size: 228
13603876 TTATGGTCGT
*
13603886 TATTTTTAATAATTTAATATTTATTTAATATAATTGAATAGTTTAATATTTTAATTAAATATTTG
1 TATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTG
*
13603951 GGTTTAAGGTTTTATAAATAACTAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTTAAT
66 GGTTTAAGGTTTAATAAATAACTAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTTAAT
* *
13604016 AATTTAATATTTATTTAATATAATTTAATAATTTAATATTTTAATTAAATATTTAGGTTTAAGGT
131 AATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGT
13604081 TTAATAAATAACTAATTATTTTAATA-TTGTTC
196 TTAATAAATAACTAATTATTTTAATATTTGTTC
*
13604113 TATTTTTAATAATTTAATATTTATTTTATATAATTGAATAATTTAATATTTTAATTAAATATTTG
1 TATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTG
13604178 GGTTTAAGGTTTAATAAATAACTAATTAAAATAATTAATTATTTTAATATTTGTTCTATTTTTAA
66 GGTTTAAGGTTTAATAAATAACTAATT-AAATAATTAATTATTTTAATATTTGTTCTATTTTTAA
*
13604243 TAATTTAATATTTATTTAATATAATTGAATAATTTAAGATTTTAATTAAATATTTGGGTTTAAGG
130 TAATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGG
*
13604308 TTTAACAAATAACTAATTAAAATAATTAATTATTTTAATATTTGTTC
195 --T------T---TAA-T-AAATAACTAATTATTTTAATATTTGTTC
**
13604355 TATTTTTAATAATTTAATAACTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTG
1 TATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTG
* *
13604420 AGTTTATGGTTTAATAAATAAC------------TAATTATTTTAATATTTGTTCTATTTTTAAT
66 GGTTTAAGGTTTAATAAATAACTAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTTAAT
* * *
13604473 AATTTAATAATTATTTAATATAATTGAATAATTTAATATTTTTATTAAATATTTGGGTTTATGGT
131 AATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGT
13604538 TTAATAAATAACTAATTAAATAATTAATTATTTTAATATTTGTTC
196 TTAATAAATAAC------------TAATTATTTTAATATTTGTTC
*
13604583 TATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAATGTTTTAATTAAATATTTG
1 TATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTG
*
13604648 GGTTTATA-GTTTAATAAATAACTAATTAAATAATTAATTATATTAATATTTGTTCTATTTTTAA
66 GGTTTA-AGGTTTAATAAATAACTAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTTAA
13604712 TAATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATT
130 TAATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATT
13604759 GAGTTTTGTT
Statistics
Matches: 581, Mismatches: 25, Indels: 67
0.86 0.04 0.10
Matches are distributed among these distances:
216 6 0.01
217 1 0.00
218 3 0.01
221 1 0.00
227 90 0.15
228 201 0.35
229 91 0.16
230 1 0.00
236 1 0.00
239 3 0.01
240 75 0.13
241 20 0.03
242 88 0.15
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (228 bp):
TATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTG
GGTTTAAGGTTTAATAAATAACTAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTTAAT
AATTTAATATTTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGT
TTAATAAATAACTAATTATTTTAATATTTGTTC
Found at i:13604414 original size:349 final size:348
Alignment explanation
Indices: 13603791--13604758 Score: 1629
Period size: 349 Copynumber: 2.8 Consensus size: 348
13603781 ATGGTTGCAA
* * * * *
13603791 ATAATTAAATAATTAAATATATTGAATTAAATATTTGTGTTTAGGGTTTAATAAATAACTAATTA
1 ATAATTGAATAATTTAATAT-TTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTA
* * * *
13603856 AATAATTAAATAATTAAATATTATGGTCGTTATTTTTAATAATTTAATATTTATTTAATATAATT
65 AATAATTAATTATTTTAATATT-TGTTC--TATTTTTAATAATTTAATATTTATTTAATATAATT
* * *
13603921 GAATAGTTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTTATAAATAACTAATTAAATAATT
127 GAATAATTTAAGATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAAATAATT
*
13603986 AATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTTAATAATTTA
192 AATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTA
13604051 ATATTTTAATTAAATATTT-AGGTTTAAGGTTTAATAAATAACTAATTATTTTAATA-TTGTTCT
257 ATATTTTAATTAAATATTTGA-GTTTAAGGTTTAATAAATAACTAATTATTTTAATATTTGTTCT
* *
13604114 ATTTTTAATAATTTAATATTTATTTTAT
321 ATTTTTAATAATTTAATAATTATTTAAT
13604142 ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAA
1 ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATT-A
13604207 AATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAA
65 AATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAA
*
13604272 TAATTTAAGATTTTAATTAAATATTTGGGTTTAAGGTTTAACAAATAACTAATTAAAATAATTAA
130 TAATTTAAGATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATT-AAATAATTAA
**
13604337 TTATTTTAATATTTGTTCTATTTTTAATAATTTAATAACTATTTAATATAATTGAATAATTTAAT
194 TTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAAT
*
13604402 ATTTTAATTAAATATTTGAGTTTATGGTTTAATAAATAACTAATTATTTTAATATTTGTTCTATT
259 ATTTTAATTAAATATTTGAGTTTAAGGTTTAATAAATAACTAATTATTTTAATATTTGTTCTATT
13604467 TTTAATAATTTAATAATTATTTAAT
324 TTTAATAATTTAATAATTATTTAAT
* *
13604492 ATAATTGAATAATTTAATATTTTTATTAAATATTTGGGTTTATGGTTTAATAAATAACTAATTAA
1 ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAA
13604557 ATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAAT
66 ATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAAT
13604622 AATTTAATG-TTTTAATTAAATATTTGGGTTTATA-GTTTAATAAATAACTAATTAAATAATTAA
131 AATTTAA-GATTTTAATTAAATATTTGGGTTTA-AGGTTTAATAAATAACTAATTAAATAATTAA
*
13604685 TTATATTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAAT
194 TTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAAT
13604750 ATTTTAATT
259 ATTTTAATT
13604759 GAGTTTTGTT
Statistics
Matches: 586, Mismatches: 25, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
348 169 0.29
349 238 0.41
350 141 0.24
351 38 0.06
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (348 bp):
ATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAA
ATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAAT
AATTTAAGATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTAAATAATTAATT
ATTTTAATATTTGTTCTATTTTTAATAATTTAATATTTATTTAATATAATTGAATAATTTAATAT
TTTAATTAAATATTTGAGTTTAAGGTTTAATAAATAACTAATTATTTTAATATTTGTTCTATTTT
TAATAATTTAATAATTATTTAAT
Found at i:13605077 original size:31 final size:31
Alignment explanation
Indices: 13605039--13605129 Score: 173
Period size: 31 Copynumber: 2.9 Consensus size: 31
13605029 TGTTTTTACA
13605039 GTTAAATAAGGGAGATAAAGGAGAGTGAACG
1 GTTAAATAAGGGAGATAAAGGAGAGTGAACG
13605070 GTTAAATAAGGGAGATAAAGGAGAGTGAACG
1 GTTAAATAAGGGAGATAAAGGAGAGTGAACG
*
13605101 GTTAAATAAGGGAGATAAAGGGGAGTGAA
1 GTTAAATAAGGGAGATAAAGGAGAGTGAA
13605130 GTTGAAAAAG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.45, C:0.02, G:0.36, T:0.16
Consensus pattern (31 bp):
GTTAAATAAGGGAGATAAAGGAGAGTGAACG
Found at i:13607073 original size:41 final size:41
Alignment explanation
Indices: 13607024--13607113 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
13607014 GTTTATGGAA
* ** *
13607024 AAACGCCGCTATTTCTTGATTTTTAGCGGCG-TTTTTCACAT
1 AAACGCCGCTATTACTTGACCTTTAGCGACGTTTTTTC-CAT
* *
13607065 AAACGCCGCTATTACTTTACCTTTAGCGATGTTTTTTCCAT
1 AAACGCCGCTATTACTTGACCTTTAGCGACGTTTTTTCCAT
13607106 AAACGCCG
1 AAACGCCG
13607114 TTAATGTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 36 0.86
42 6 0.14
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (41 bp):
AAACGCCGCTATTACTTGACCTTTAGCGACGTTTTTTCCAT
Found at i:13608316 original size:17 final size:17
Alignment explanation
Indices: 13608294--13608326 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13608284 GTTCTTATTG
13608294 ATAGTTAGTGGAATATA
1 ATAGTTAGTGGAATATA
*
13608311 ATAGTTAGTTGAATAT
1 ATAGTTAGTGGAATAT
13608327 GATGTTTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (17 bp):
ATAGTTAGTGGAATATA
Found at i:13608630 original size:41 final size:41
Alignment explanation
Indices: 13608562--13608821 Score: 209
Period size: 41 Copynumber: 6.3 Consensus size: 41
13608552 TTAAATAAAA
* * * *
13608562 TAGCGGCGTTTATAGAAAAGCGTCGCTAATGCTCTGATCTT
1 TAGCGGCGTTTATGGTAAAGCGCCGCTAATGCTCTGACCTT
* * * **
13608603 TAGTGGTGTTTATGGTAAAGCGCCGCTAATACTCTGGTCTT
1 TAGCGGCGTTTATGGTAAAGCGCCGCTAATGCTCTGACCTT
* * * *
13608644 TAGCGACGATTGTGGGAAAGCGCCGCTAATGCTCTAAAGGACCTT
1 TAGCGGCGTTTATGGTAAAGCGCCGCTAATGCTCT----GACCTT
* * * * *
13608689 TGGCGGAGTTTATGATAAAGCGCCACTAATGATCTGACCTT
1 TAGCGGCGTTTATGGTAAAGCGCCGCTAATGCTCTGACCTT
* * * *
13608730 TAGCAGTGTTTATAGG-AAAGCGCCACTAAAGCTCTGACCTT
1 TAGCGGCGTTTAT-GGTAAAGCGCCGCTAATGCTCTGACCTT
* * * * *
13608771 TAGCGGCATATATGATAAAGCCCCGC-AATGATCTGACCTT
1 TAGCGGCGTTTATGGTAAAGCGCCGCTAATGCTCTGACCTT
*
13608811 TAGCGACGTTT
1 TAGCGGCGTTT
13608822 TCTCTTCAAA
Statistics
Matches: 170, Mismatches: 43, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
40 21 0.12
41 118 0.69
42 1 0.01
45 30 0.18
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (41 bp):
TAGCGGCGTTTATGGTAAAGCGCCGCTAATGCTCTGACCTT
Found at i:13608731 original size:86 final size:83
Alignment explanation
Indices: 13608562--13608818 Score: 220
Period size: 86 Copynumber: 3.1 Consensus size: 83
13608552 TTAAATAAAA
* * * * * * * * * *
13608562 TAGCGGCGTTTATAGAAAAGCGTCGCTAATGCTCTGATCTTTAGTGG-TGTTTATGGTAAAGCGC
1 TAGCGACGATTATAGGAAAGCGCCACTAAAGCTCTGACCTTTAGCGGCAGTTTATGATAAAGCGC
**
13608626 CGCTAAT-ACTCTGGTCTT
66 CGCTAATGA-TCTGACCTT
* * * * *
13608644 TAGCGACGATTGTGGGAAAGCGCCGCTAATGCTCTAAAGGACCTTTGGCGG-AGTTTATGATAAA
1 TAGCGACGATTATAGGAAAGCGCCACTAAAGCTCT----GACCTTTAGCGGCAGTTTATGATAAA
*
13608708 GCGCCACTAATGATCTGACCTT
62 GCGCCGCTAATGATCTGACCTT
* * * *
13608730 TAGC-AGTGTTTATAGGAAAGCGCCACTAAAGCTCTGACCTTTAGCGGCA-TATATGATAAAGCC
1 TAGCGA-CGATTATAGGAAAGCGCCACTAAAGCTCTGACCTTTAGCGGCAGTTTATGATAAAGCG
13608793 CCGC-AATGATCTGACCTT
65 CCGCTAATGATCTGACCTT
13608811 TAGCGACG
1 TAGCGACG
13608819 TTTTCTCTTC
Statistics
Matches: 142, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
81 19 0.13
82 56 0.39
83 1 0.01
85 1 0.01
86 64 0.45
87 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (83 bp):
TAGCGACGATTATAGGAAAGCGCCACTAAAGCTCTGACCTTTAGCGGCAGTTTATGATAAAGCGC
CGCTAATGATCTGACCTT
Found at i:13611869 original size:15 final size:14
Alignment explanation
Indices: 13611839--13611872 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13611829 CAACAAATTA
13611839 TTTCTTTTTCTCTT
1 TTTCTTTTTCTCTT
*
13611853 TTTCTTTTCTTTCTT
1 TTTCTTTT-TCTCTT
13611868 TTTCT
1 TTTCT
13611873 CACTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTTTCTCTT
Found at i:13611883 original size:23 final size:23
Alignment explanation
Indices: 13611839--13611883 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13611829 CAACAAATTA
*
13611839 TTTCTTTTTCTCTTTTTCTTTTC
1 TTTCTTTTTCTCCTTTTCTTTTC
13611862 TTTCTTTTTCTCACTTTT-TTTT
1 TTTCTTTTTCTC-CTTTTCTTTT
13611884 ATAGGTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCTTTTTCTCCTTTTCTTTTC
Found at i:13625320 original size:33 final size:33
Alignment explanation
Indices: 13625283--13625362 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
13625273 AAAAGTGAAG
* * *
13625283 GGAACATCTATCAGGGCAGCTTCATGAATGATT
1 GGAACATCTATCAGGGAAACTTCATCAATGATT
* * * *
13625316 GGAACGTCTATCGGGGAAACTTTATCATTGATT
1 GGAACATCTATCAGGGAAACTTCATCAATGATT
13625349 GGAACATCTATCAG
1 GGAACATCTATCAG
13625363 CATAGCTTCA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (33 bp):
GGAACATCTATCAGGGAAACTTCATCAATGATT
Found at i:13625376 original size:33 final size:32
Alignment explanation
Indices: 13625283--13625377 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 32
13625273 AAAAGTGAAG
* * *
13625283 GGAACATCTATCAGGGCAGCTTCATGAATGATT
1 GGAACATCTATCA-GGAAGCTTCATCATTGATT
* * * *
13625316 GGAACGTCTATCGGGGAAACTTTATCATTGATT
1 GGAACATCTATC-AGGAAGCTTCATCATTGATT
*
13625349 GGAACATCTATCAGCATAGCTTCATCATT
1 GGAACATCTATCAGGA-AGCTTCATCATT
13625378 CTATTCGACG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
32 2 0.04
33 46 0.96
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (32 bp):
GGAACATCTATCAGGAAGCTTCATCATTGATT
Found at i:13628534 original size:43 final size:43
Alignment explanation
Indices: 13628486--13628613 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
13628476 GACACATTGG
* * *
13628486 AATATATTTAGAACAATAAAGAATAAGAAAATTTACCTAAAAC
1 AATATATTTAAAATAAGAAAGAATAAGAAAATTTACCTAAAAC
* * *
13628529 AATATATTTAAAATTAGAAAGAATCAA-TAAATCTACCTAAAAC
1 AATATATTTAAAATAAGAAAGAAT-AAGAAAATTTACCTAAAAC
* * * * *
13628572 CATATATTTAAAATAGGAAAGAATCAGAAAAGTTAACTAAAA
1 AATATATTTAAAATAAGAAAGAATAAGAAAATTTACCTAAAA
13628614 AATCCTTCAG
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 66 0.96
44 2 0.03
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.26
Consensus pattern (43 bp):
AATATATTTAAAATAAGAAAGAATAAGAAAATTTACCTAAAAC
Found at i:13635159 original size:17 final size:17
Alignment explanation
Indices: 13635136--13635183 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
13635126 TATATATATG
*
13635136 AAAATGCAATGACAATG
1 AAAATGCAATGACAATA
* **
13635153 TAAATGCAGCGACAATA
1 AAAATGCAATGACAATA
13635170 AAAATGCAATGACA
1 AAAATGCAATGACA
13635184 TTAATAATGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.17, T:0.17
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:13636706 original size:18 final size:17
Alignment explanation
Indices: 13636683--13636726 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
13636673 CTGTTATGGC
* *
13636683 TGCATTTGCTCTTGTGGT
1 TGCATTTGCT-ATGTGCT
13636701 TGCATTTGGCTATGTGCT
1 TGCATTT-GCTATGTGCT
13636719 TGCATTTG
1 TGCATTTG
13636727 ATCAGGAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (17 bp):
TGCATTTGCTATGTGCT
Found at i:13641993 original size:40 final size:40
Alignment explanation
Indices: 13641634--13641976 Score: 488
Period size: 40 Copynumber: 8.6 Consensus size: 40
13641624 AAATAAGAGT
* *
13641634 TATTCAAGCTACGGCTTAACAGGCTATGAGCCGGTGTTAA
1 TATTCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAA
* * * **
13641674 TATTCAAGCTACGGCTTAGTAGGCTATGAGTCAATGTTAA
1 TATTCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAA
*
13641714 TATTCAAGCTACGACTTAGCAGGCTACGAGCCGGTGTTAA
1 TATTCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAA
* * * *
13641754 TATTCAAGCTACAGCTTAGCAGGCAACGAGCTGGTGTAAA
1 TATTCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAA
* *
13641794 TATTCAAGCTACGGCTTAGCAAGCTACGAGCCGATGTTAA
1 TATTCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAA
* *
13641834 TATTCAAGCTACAGCTTAGCAGGCTACGAGCCGGTGTAAA
1 TATTCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAA
* * *
13641874 TATTTAAGCTACGGCTTAGCAGGCTACGAGACGGTGTAAA
1 TATTCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAA
* * *
13641914 TATTCAAGTTACGGCTTAGCAGGCTATGAGCCAGTGTTAA
1 TATTCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAA
13641954 TATTCAAGCTACGGCTTAGCAGG
1 TATTCAAGCTACGGCTTAGCAGG
13641977 TTACAAGATG
Statistics
Matches: 267, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 267 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (40 bp):
TATTCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAA
Found at i:13644167 original size:43 final size:43
Alignment explanation
Indices: 13644119--13644213 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
13644109 GACACATTGG
*
13644119 AATATATTTAGAACACAAAAGAATAAGAAAATTTACCTAAAAC
1 AATATATTTAAAACACAAAAGAATAAGAAAATTTACCTAAAAC
* ** ** * *
13644162 AATATATTTAAAATAGGAAAGAATCGGTAAATTTACCTGAAAC
1 AATATATTTAAAACACAAAAGAATAAGAAAATTTACCTAAAAC
13644205 AATATATTT
1 AATATATTT
13644214 TAAATCAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (43 bp):
AATATATTTAAAACACAAAAGAATAAGAAAATTTACCTAAAAC
Found at i:13644225 original size:43 final size:43
Alignment explanation
Indices: 13644147--13644229 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 43
13644137 AAGAATAAGA
13644147 AAATTTACCTAAAACAATATATTTAAAATAGGAAAGAATCGGT
1 AAATTTACCTAAAACAATATATTTAAAATAGGAAAGAATCGGT
* *
13644190 AAATTTACCTGAAACAATATATTTTAAATCA-GAAAGAATC
1 AAATTTACCTAAAACAATATATTTAAAAT-AGGAAAGAATC
13644230 AAAAAAGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.29
Consensus pattern (43 bp):
AAATTTACCTAAAACAATATATTTAAAATAGGAAAGAATCGGT
Found at i:13644592 original size:13 final size:13
Alignment explanation
Indices: 13644556--13644614 Score: 59
Period size: 13 Copynumber: 4.3 Consensus size: 13
13644546 AACCCCAAAC
13644556 CCCAAACTCATAA
1 CCCAAACTCATAA
13644569 CCCTAAAAC-CATGAA
1 CCC--AAACTCAT-AA
13644584 CCCAAAC-CATCAA
1 CCCAAACTCAT-AA
13644597 CCCCAAACTCATAA
1 -CCCAAACTCATAA
13644611 CCCA
1 CCCA
13644615 TTACCCCAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 16 0.40
14 12 0.30
15 12 0.30
ACGTcount: A:0.44, C:0.42, G:0.02, T:0.12
Consensus pattern (13 bp):
CCCAAACTCATAA
Found at i:13644603 original size:14 final size:14
Alignment explanation
Indices: 13644553--13644613 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
13644543 CTTAACCCCA
13644553 AACCCCAAACTCAT
1 AACCCCAAACTCAT
*
13644567 AACCCTAAAAC-CAT
1 AACCC-CAAACTCAT
13644581 GAA-CCCAAAC-CAT
1 -AACCCCAAACTCAT
13644594 CAACCCCAAACTCAT
1 -AACCCCAAACTCAT
13644609 AACCC
1 AACCC
13644614 ATTACCCCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.22
14 22 0.55
15 9 0.22
ACGTcount: A:0.44, C:0.43, G:0.02, T:0.11
Consensus pattern (14 bp):
AACCCCAAACTCAT
Found at i:13644932 original size:22 final size:20
Alignment explanation
Indices: 13644898--13644937 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
13644888 ATATTGAATA
13644898 TAAATAGGATTAATTAAGGC
1 TAAATAGGATTAATTAAGGC
13644918 TAAATAAGTGATTAATTAAG
1 TAAAT-AG-GATTAATTAAG
13644938 TTAATTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (20 bp):
TAAATAGGATTAATTAAGGC
Found at i:13646430 original size:43 final size:42
Alignment explanation
Indices: 13646382--13646508 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 42
13646372 GACACATTGG
* * *
13646382 AATATATTCATAATAGGAAAGAATAAGAAAATTTACCTAAAAC
1 AATATATTTAAAATAGGAAAGAATCAGAAAA-TTACCTAAAAC
*
13646425 AATATATTTAAAATAGGACAGAATCAGTAAAATTACCTAAAAC
1 AATATATTTAAAATAGGAAAGAATCAG-AAAATTACCTAAAAC
*
13646468 AATATATTTAAAATAAGAAAGAATCAGAAAAGTTACCTAAA
1 AATATATTTAAAATAGGAAAGAATCAGAAAA-TTACCTAAA
13646509 GAATCGTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 4 0.05
43 68 0.89
44 4 0.05
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.25
Consensus pattern (42 bp):
AATATATTTAAAATAGGAAAGAATCAGAAAATTACCTAAAAC
Found at i:13646846 original size:21 final size:20
Alignment explanation
Indices: 13646822--13646899 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 20
13646812 CCAAAACCAA
13646822 AACCCTAAATCTCAAACTCAT
1 AACCCTAAATC-CAAACTCAT
*
13646843 AACCCTAAA-CCATGAATTCA-
1 AACCCTAAATCCA--AACTCAT
*
13646863 AACCATAAATCCCAAACTCAT
1 AACCCTAAAT-CCAAACTCAT
*
13646884 -ACCCTATAACCCAAAC
1 AACCCTA-AATCCAAAC
13646900 CCTAAAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
19 2 0.04
20 25 0.54
21 16 0.35
22 3 0.07
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (20 bp):
AACCCTAAATCCAAACTCAT
Found at i:13650057 original size:43 final size:43
Alignment explanation
Indices: 13650009--13650134 Score: 173
Period size: 43 Copynumber: 2.9 Consensus size: 43
13649999 GACACATTGG
* * *
13650009 AATATATTTAGAACACAAAAGAATAAGAAAATTTACCTAAAAT
1 AATATATTTAAAATAGAAAAGAATAAGAAAATTTACCTAAAAT
* *
13650052 AATATATTTAAAATAGGAAAGAATCAA-TAAATTTACCTAAAAT
1 AATATATTTAAAATAGAAAAGAAT-AAGAAAATTTACCTAAAAT
* *
13650095 AATATATTTAAAATAGAAAAGAATCAGAAAAGTTACCTAA
1 AATATATTTAAAATAGAAAAGAATAAGAAAATTTACCTAA
13650135 CAAATCCTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
42 1 0.01
43 69 0.96
44 2 0.03
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (43 bp):
AATATATTTAAAATAGAAAAGAATAAGAAAATTTACCTAAAAT
Found at i:13650513 original size:42 final size:40
Alignment explanation
Indices: 13650434--13650521 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 40
13650424 CTCGAACCCA
*
13650434 AAAACCAAAACCCAAACCCCAAACCTCAAACACGTAACACT
1 AAAACCAAAACCCAAACCACAAACCTCAAACACGTAAC-CT
* * * **
13650475 AAAACCATGAACCCAAACCATAAATCTCAAACTTGTAACCT
1 AAAACCA-AAACCCAAACCACAAACCTCAAACACGTAACCT
*
13650516 ATAACC
1 AAAACC
13650522 TTAAACCCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 14 0.36
42 25 0.64
ACGTcount: A:0.49, C:0.34, G:0.03, T:0.14
Consensus pattern (40 bp):
AAAACCAAAACCCAAACCACAAACCTCAAACACGTAACCT
Found at i:13652243 original size:24 final size:24
Alignment explanation
Indices: 13652214--13652264 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
13652204 AGAAATAATT
13652214 TTTCAATTAAACTATGTTTATTTG
1 TTTCAATTAAACTATGTTTATTTG
* *
13652238 TTTCAATTAAACTCTTTTTATTTG
1 TTTCAATTAAACTATGTTTATTTG
13652262 TTT
1 TTT
13652265 GAGTAAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTATGTTTATTTG
Found at i:13652273 original size:24 final size:24
Alignment explanation
Indices: 13652214--13652277 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
13652204 AGAAATAATT
* * *
13652214 TTTCAATTAAACTATGTTTATTTG
1 TTTCAATAAAACTCTTTTTATTTG
*
13652238 TTTCAATTAAACTCTTTTTATTTG
1 TTTCAATAAAACTCTTTTTATTTG
* *
13652262 TTTGAGTAAAACTCTT
1 TTTCAATAAAACTCTT
13652278 ATTAGTCTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (24 bp):
TTTCAATAAAACTCTTTTTATTTG
Found at i:13655671 original size:24 final size:24
Alignment explanation
Indices: 13655584--13655658 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
13655574 AGAAATAATC
*
13655584 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
13655608 TTTTAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
13655632 TTTCAATTAAACTCTTTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
13655656 TTT
1 TTT
13655659 GAGTAAAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.23, C:0.11, G:0.08, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:13657095 original size:24 final size:24
Alignment explanation
Indices: 13657009--13657082 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
13656999 AGAAATAATC
*
13657009 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
13657033 TTTCAATTAAACTC-GTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
13657056 TTTCAATTAAACTCTTTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
13657080 TTT
1 TTT
13657083 GAGTAAAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.49
24 24 0.51
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:13657968 original size:43 final size:42
Alignment explanation
Indices: 13657920--13658003 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
13657910 GACACATTGG
* *
13657920 AATATAATTAGAACAGGAAAGAATAAGAAAATTCACCTAAAAC
1 AATATAATTAAAACAGGAAAGAATAAGAAAATT-ACATAAAAC
* * *
13657963 AATATATTTAAAATAGGAAAGAATAAGTAAATTACATAAAA
1 AATATAATTAAAACAGGAAAGAATAAGAAAATTACATAAAA
13658004 TCTTCTTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 7 0.19
43 29 0.81
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.23
Consensus pattern (42 bp):
AATATAATTAAAACAGGAAAGAATAAGAAAATTACATAAAAC
Found at i:13683782 original size:21 final size:19
Alignment explanation
Indices: 13683744--13683782 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
13683734 TTAGTAATAT
*
13683744 CAACATATTATTATCAAAG
1 CAACATATTATTAACAAAG
13683763 CAACATATATATATAACAAA
1 CAACATAT-TAT-TAACAAA
13683783 AATAAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.28
Consensus pattern (19 bp):
CAACATATTATTAACAAAG
Found at i:13684438 original size:16 final size:16
Alignment explanation
Indices: 13684415--13684486 Score: 126
Period size: 16 Copynumber: 4.5 Consensus size: 16
13684405 CGTTTGGTTC
13684415 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
13684431 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
13684447 ACTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
13684463 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
13684479 GCTGTAAT
1 GCTGTAAT
13684487 CAGTAATTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.26
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:13684561 original size:44 final size:46
Alignment explanation
Indices: 13684468--13684561 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
13684458 ATAGAGCTGT
* *
13684468 AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGATTGG
1 AATGGAATAGAGCTGTAATCAATAATTCAATTGTTTGGTTGAATGG
* *
13684514 AATGGAATAGAGTTGTAAT-AAT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAATAATTCAAT-TGTTTGGTTGAATGG
13684558 AATG
1 AATG
13684562 ATGCTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 2 0.05
46 18 0.42
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAATAATTCAATTGTTTGGTTGAATGG
Found at i:13684722 original size:58 final size:55
Alignment explanation
Indices: 13684655--13684800 Score: 168
Period size: 58 Copynumber: 2.5 Consensus size: 55
13684645 AATTTTAATG
*
13684655 ATTATTATTAAATATAATTGAATAAAAATAT-TAATTTATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATT-AATAAAAATATGTAATTTA-ATAA-TAT-TTTTAACATA
* *
13684713 ATTATTATTAAATACAATTTAATAAAATAATATGTAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAA-TTAAT-AAA-AATATGTAATTTAATAATATTTTTAACATA
*
13684771 ATTATTATTAAAATATGAATTAGTAAAAAT
1 ATTATTATT-AAATAT-AATTAATAAAAAT
13684801 TATAATATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
57 3 0.04
58 40 0.52
59 17 0.22
60 10 0.13
61 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (55 bp):
ATTATTATTAAATATAATTAATAAAAATATGTAATTTAATAATATTTTTAACATA
Found at i:13688007 original size:31 final size:31
Alignment explanation
Indices: 13687944--13688022 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
13687934 TAACATAGGT
* *
13687944 ACTTATTTAACTACAA-A-AATAATTTAAAA
1 ACTTATTTAAATAAAATATAATAATTTAAAA
* *
13687973 ACTTATTTAAATAAAATATAATCATTTAAGA
1 ACTTATTTAAATAAAATATAATAATTTAAAA
13688004 ACTTATTTAAA-AAATATAT
1 ACTTATTTAAATAAA-ATAT
13688023 TAGCCATTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 14 0.33
30 4 0.09
31 25 0.58
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (31 bp):
ACTTATTTAAATAAAATATAATAATTTAAAA
Found at i:13690522 original size:2 final size:2
Alignment explanation
Indices: 13690478--13690510 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13690468 TAGAAAATGC
13690478 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13690511 CCTACATATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13692376 original size:7 final size:7
Alignment explanation
Indices: 13692364--13692399 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
13692354 ATAACACATC
13692364 AATAAAT
1 AATAAAT
13692371 AATAAAT
1 AATAAAT
13692378 AATAAAT
1 AATAAAT
*
13692385 AATTAAAA
1 AA-TAAAT
13692393 AATAAAT
1 AATAAAT
13692400 GCTAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAAAT
Found at i:13692391 original size:22 final size:22
Alignment explanation
Indices: 13692366--13692408 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13692356 AACACATCAA
*
13692366 TAAATAATAAATAATAAATAAT
1 TAAAAAATAAATAATAAATAAT
**
13692388 TAAAAAATAAATGCTAAATAA
1 TAAAAAATAAATAATAAATAA
13692409 AATAATGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAAAATAAATAATAAATAAT
Found at i:13694652 original size:30 final size:30
Alignment explanation
Indices: 13694608--13694664 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
13694598 TTATGCTTTC
13694608 CTATCATTCTTAATAGTTTTTAAATAATCTA
1 CTATCATTCTTAATA-TTTTTAAATAATCTA
* *
13694639 CTAT-ATTTTTAATATTTTTTAATAAT
1 CTATCATTCTTAATATTTTTAAATAAT
13694665 TATTCAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.46
30 9 0.38
31 4 0.17
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (30 bp):
CTATCATTCTTAATATTTTTAAATAATCTA
Found at i:13695622 original size:29 final size:28
Alignment explanation
Indices: 13695589--13695653 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
13695579 AAATTTCTAG
*
13695589 TTTTTTTTTTAATTTTTAAGGGGTCC-AAA
1 TTTTTTTTTTAATTTTTAA-AGG-CCTAAA
*
13695618 TTTTTTTTTTAGTTTTTAAAGGCCTAAA
1 TTTTTTTTTTAATTTTTAAAGGCCTAAA
13695646 TTTTTTTT
1 TTTTTTTT
13695654 AAAAACTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.06
28 13 0.39
29 18 0.55
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.62
Consensus pattern (28 bp):
TTTTTTTTTTAATTTTTAAAGGCCTAAA
Found at i:13696463 original size:12 final size:13
Alignment explanation
Indices: 13696440--13696468 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13696430 TATAGTTTTA
13696440 AAGATGGAAGAAG
1 AAGATGGAAGAAG
13696453 AAGAT-GAAGAAG
1 AAGATGGAAGAAG
13696465 AAGA
1 AAGA
13696469 AAAGAGGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.07
Consensus pattern (13 bp):
AAGATGGAAGAAG
Found at i:13697569 original size:17 final size:17
Alignment explanation
Indices: 13697544--13697578 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13697534 GTTTTTTATA
*
13697544 TATATTTTTTAAAATTT
1 TATAATTTTTAAAATTT
13697561 TATAATTTTTAAAATTT
1 TATAATTTTTAAAATTT
13697578 T
1 T
13697579 GTTGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATAATTTTTAAAATTT
Found at i:13699150 original size:20 final size:18
Alignment explanation
Indices: 13699113--13699152 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
13699103 GCAATGCACC
*
13699113 TTACCTACAAATATAGAA
1 TTACCTACAAACATAGAA
13699131 TTACCTACAATCACATAGAA
1 TTACCTACAA--ACATAGAA
13699151 TT
1 TT
13699153 TACATTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (18 bp):
TTACCTACAAACATAGAA
Found at i:13700719 original size:22 final size:21
Alignment explanation
Indices: 13700667--13700719 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
13700657 TATTAGTTTT
13700667 TAATTTTTTTTTAAAATATTTA
1 TAATTTTTTTTT-AAATATTTA
*
13700689 T-ATTATTTTATTTTAATATTTA
1 TAATT-TTTT-TTTAAATATTTA
13700711 GTAATTTTT
1 -TAATTTTT
13700720 CAAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 13 0.50
23 7 0.27
24 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TAATTTTTTTTTAAATATTTA
Found at i:13701250 original size:20 final size:20
Alignment explanation
Indices: 13701225--13701265 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13701215 GAGACAGATT
*
13701225 TTTTTGGATTAATATACAAA
1 TTTTTGGAATAATATACAAA
*
13701245 TTTTTGGAATAATATTCAAA
1 TTTTTGGAATAATATACAAA
13701265 T
1 T
13701266 ATATTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTTTGGAATAATATACAAA
Found at i:13702820 original size:21 final size:22
Alignment explanation
Indices: 13702790--13702830 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13702780 TTTGTATAAT
* *
13702790 ATTTTATTTATTTTTACATGGC
1 ATTTTATTTATATATACATGGC
13702812 ATTTT-TTTATATATACATG
1 ATTTTATTTATATATACATG
13702831 ATTTGTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (22 bp):
ATTTTATTTATATATACATGGC
Found at i:13703565 original size:20 final size:18
Alignment explanation
Indices: 13703519--13703566 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
13703509 TTTTTGTTTT
*
13703519 ATATATGTTGCTTTGATA
1 ATATATGTTGATTTGATA
*
13703537 ATAATATGTTGATATTGCTAA
1 AT-ATATGTTGAT-TTGAT-A
13703558 ATATATGTT
1 ATATATGTT
13703567 TACATTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 9 0.36
20 11 0.44
21 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (18 bp):
ATATATGTTGATTTGATA
Found at i:13705453 original size:17 final size:18
Alignment explanation
Indices: 13705409--13705459 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
13705399 AGCAATAAAT
* *
13705409 TTTTTTTCTTCTTCTTCT
1 TTTTTTTCTTTTTCTTCA
13705427 TTTCTCTTTCTTTTTC-TCA
1 TTT-T-TTTCTTTTTCTTCA
13705446 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
13705460 AAGTGACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 10 0.34
18 4 0.14
19 6 0.21
20 9 0.31
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTTCTTTTTCTTCA
Found at i:13722942 original size:20 final size:20
Alignment explanation
Indices: 13722905--13722942 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13722895 ACTTGAAAAA
*
13722905 GAAAACTGAGAAAAAAAAGG
1 GAAAAATGAGAAAAAAAAGG
13722925 GAAAAATGA-AAAAGAAAA
1 GAAAAATGAGAAAA-AAAA
13722943 CAAATAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.71, C:0.03, G:0.21, T:0.05
Consensus pattern (20 bp):
GAAAAATGAGAAAAAAAAGG
Found at i:13730963 original size:50 final size:49
Alignment explanation
Indices: 13730899--13731673 Score: 621
Period size: 50 Copynumber: 15.5 Consensus size: 49
13730889 ATTAAACTTA
* * *
13730899 CAAAGGCGAATCTTATACCCCTAAAGTTGTAGAAGGCTAGATTGAAGCTG
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAGAGGGC-AGATTGAAGCTG
* * * * *
13730949 CAAAAGCGAATCTTATACTCTTAAAGCTATAGAGGGGTAGATTGAAGCTA
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAGA-GGGCAGATTGAAGCTG
* * *
13730999 CAAAAGTGAATCTTATACCCTTAAAGCTATAGAGGGGCAGATTGAAGCTG
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAGA-GGGCAGATTGAAGCTG
* * * * ** *
13731049 TAAAAGTGAGTCTTATACCTCTAAAATTGTAGAGGGGCAGATTGAAGCCG
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAGA-GGGCAGATTGAAGCTG
** * * * **
13731099 TGAAGGCAAATCTTATACCTCTAAAGCTGTAGAGGGGTTGATTGAAGCTG
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAGA-GGGCAGATTGAAGCTG
* * ** * *
13731149 CAAAGGCGAATCTTATACCTCTAATTCTGTA-ACGGGACAAATTGAAGCTA
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAGA-GGG-CAGATTGAAGCTG
** * * * *
13731199 TGAAAGTGAATCTTATATCCCTAAAGCTATAGAGGGGTAGATTGAAGC--
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAGA-GGGCAGATTGAAGCTG
* * * *
13731247 CATGAAGGCGAATCTTATACACCTAAAGCTATAGAGGGGCAGACTGAAGCTG
1 CA--AAAGCGAATCTTATACCCCTAAAGCTGTAGA-GGGCAGATTGAAGCTG
* * **
13731299 CAAAAGCTAATCTTATACCCCTAAAG-TCGTAGATGGGCAGGTTGAAGCCA
1 CAAAAGCGAATCTTATACCCCTAAAGCT-GTAGA-GGGCAGATTGAAGCTG
* * * * *
13731349 CAAAGGAGAATCTTATACCTCTAAAGCTATAGAGAGGCAGATTGAAGCCG
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAGAG-GGCAGATTGAAGCTG
* * * * * *
13731399 CAAAGGCAAATCTTATACCCCTAAAGATGTAGAAGGGCAAATTAAAGCCG
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAG-AGGGCAGATTGAAGCTG
* * *
13731449 C-GAAGACGAATCTTATACTCCTAAAGCTGTAGAGGGGCAGATTGAAGCTA
1 CAAAAG-CGAATCTTATACCCCTAAAGCTGTAGA-GGGCAGATTGAAGCTG
* * * *
13731499 CAAAAGCAAATCTTATACCCCTAAAGCTGTAGAGGGGTAAATTGAAAC--
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAGA-GGGCAGATTGAAGCTG
* * * *
13731547 CACGAAGATGAATCTTATACCCCTAAAGCTATAGAAGGGCAGA-TGAAGTTG
1 CA-AAAG-CGAATCTTATACCCCTAAAGCTGTAG-AGGGCAGATTGAAGCTG
* * * * *
13731598 TAAAAGTGAATCTTATACCCCTAAAACTGTAGAAGGGCAGATTGAAGTTA
1 CAAAAGCGAATCTTATACCCCTAAAGCTGTAG-AGGGCAGATTGAAGCTG
* * *
13731648 TAGAAGCAAATCTTATACCCCTAAAG
1 CAAAAGCGAATCTTATACCCCTAAAG
13731674 TTGAAGTTAT
Statistics
Matches: 590, Mismatches: 115, Indels: 40
0.79 0.15 0.05
Matches are distributed among these distances:
48 2 0.00
49 49 0.08
50 523 0.89
51 14 0.02
52 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (49 bp):
CAAAAGCGAATCTTATACCCCTAAAGCTGTAGAGGGCAGATTGAAGCTG
Found at i:13731160 original size:150 final size:150
Alignment explanation
Indices: 13730877--13731673 Score: 778
Period size: 150 Copynumber: 5.3 Consensus size: 150
13730867 TCTTATAGTC
* * * * * *
13730877 GTAGAGGGGCAAATT-AAACTTACAAAGGCGAATCTTATACCCCTAAAGTTGTAGA-AGGCTAGA
1 GTAGAGGGGCAGATTGAAGC-TACAAAAGTGAATCTTATACCCCTAAAGCTGTAGAGGGGC-AGA
* * * * * * *
13730940 TTGAAGCTGCAAAAGCGAATCTTATACTCTTAAAGCTATAGAGGGGTAGATTGAAGCTACAAAAG
64 TTGAAGCCGCGAAGGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAG
* *
13731005 TGAATCTTATACCCTTAAAGCT
129 CGAATCTTATACCCCTAAAGCT
* ** * * **
13731027 ATAGAGGGGCAGATTGAAGCTGTAAAAGTGAGTCTTATACCTCTAAAATTGTAGAGGGGCAGATT
1 GTAGAGGGGCAGATTGAAGCTACAAAAGTGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATT
* * * * ** *
13731092 GAAGCCGTGAAGGCAAATCTTATACCTCTAAAGCTGTAGAGGGGTTGATTGAAGCTGCAAAGGCG
66 GAAGCCGCGAAGGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAGCG
* **
13731157 AATCTTATACCTCTAATTCT
131 AATCTTATACCCCTAAAGCT
* * ** * * *
13731177 GTA-ACGGGACAAATTGAAGCTATGAAAGTGAATCTTATATCCCTAAAGCTATAGAGGGGTAGAT
1 GTAGA-GGGGCAGATTGAAGCTACAAAAGTGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGAT
** * *
13731241 TGAAGCCATGAAGGCGAATCTTATACACCTAAAGCTATAGAGGGGCAGACTGAAGCTGCAAAAGC
65 TGAAGCCGCGAAGGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAGC
*
13731306 TAATCTTATACCCCTAAAG-T
130 GAATCTTATACCCCTAAAGCT
* * * * * * * *
13731326 CGTAGATGGGCAGGTTGAAGCCACAAAGGAGAATCTTATACCTCTAAAGCTATAGAGAGGCAGAT
1 -GTAGAGGGGCAGATTGAAGCTACAAAAGTGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGAT
* * * * * * * * *
13731391 TGAAGCCGCAAAGGCAAATCTTATACCCCTAAAGATGTAGAAGGGCAAATTAAAGCCGC-GAAGA
65 TGAAGCCGCGAAGGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAG-
*
13731455 CGAATCTTATACTCCTAAAGCT
129 CGAATCTTATACCCCTAAAGCT
** * *
13731477 GTAGAGGGGCAGATTGAAGCTACAAAAGCAAATCTTATACCCCTAAAGCTGTAGAGGGGTAAATT
1 GTAGAGGGGCAGATTGAAGCTACAAAAGTGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATT
* * ** * * * *
13731542 GAAACCACGAAGATGAATCTTATACCCCTAAAGCTATAGAAGGGCAGA-TGAAGTTGTAAAAGTG
66 GAAGCCGCGAAGGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAGCG
*
13731606 AATCTTATACCCCTAAAACT
131 AATCTTATACCCCTAAAGCT
* * * * **
13731626 GTAGAAGGGCAGATTGAAGTTATAGAAGCAAATCTTATACCCCTAAAG
1 GTAGAGGGGCAGATTGAAGCTACAAAAGTGAATCTTATACCCCTAAAG
13731674 TTGAAGTTAT
Statistics
Matches: 526, Mismatches: 113, Indels: 17
0.80 0.17 0.03
Matches are distributed among these distances:
149 73 0.14
150 445 0.85
151 8 0.02
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (150 bp):
GTAGAGGGGCAGATTGAAGCTACAAAAGTGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATT
GAAGCCGCGAAGGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTGAAGCTGCAAAAGCG
AATCTTATACCCCTAAAGCT
Found at i:13748725 original size:11 final size:11
Alignment explanation
Indices: 13748709--13748753 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
13748699 CACTTATAAA
*
13748709 AGAAAAAAATG
1 AGAAAAAAAAG
13748720 AGAAAAAGAAAG
1 AGAAAAA-AAAG
13748732 AGAAAAGAAAAG
1 AGAAAA-AAAAG
13748744 AAGAAAAAAA
1 -AGAAAAAAA
13748754 TTTTATTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 7 0.23
12 16 0.53
13 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:13760830 original size:42 final size:41
Alignment explanation
Indices: 13760748--13760831 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
13760738 CTTGTTATCC
*
13760748 AACTAAGTTAATTAATAAAGAATAGATAGATACATGCATTA
1 AACTAAGTTAATTAATAAAGAATAGATAGATACATCCATTA
* ** *
13760789 AACTAAGTTAATTAATATAGGTTTAGATAGATAGATCCATTA
1 AACTAAGTTAATTAATA-AAGAATAGATAGATACATCCATTA
13760831 A
1 A
13760832 GAAGCTAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 17 0.46
42 20 0.54
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (41 bp):
AACTAAGTTAATTAATAAAGAATAGATAGATACATCCATTA
Found at i:13764838 original size:32 final size:33
Alignment explanation
Indices: 13764801--13764865 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
13764791 AGATAAAAAT
*
13764801 ATTAAAAT-TTAAAATAAAAAT-ATTGATGTGAC
1 ATTAAAATATTAAAA-AAAAATAAATGATGTGAC
* *
13764833 ATTAAATTATTAAAAAAATATAAATGATGTGAC
1 ATTAAAATATTAAAAAAAAATAAATGATGTGAC
13764866 GTCACTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (33 bp):
ATTAAAATATTAAAAAAAAATAAATGATGTGAC
Found at i:13765057 original size:9 final size:9
Alignment explanation
Indices: 13764971--13765061 Score: 51
Period size: 9 Copynumber: 9.9 Consensus size: 9
13764961 CCTAGCATTG
13764971 TAAAAAA-A
1 TAAAAAATA
*
13764979 TAAAAAAAA
1 TAAAAAATA
*
13764988 TAAAAAATT
1 TAAAAAATA
* *
13764997 TATAAATTA
1 TAAAAAATA
* *
13765006 CTAGAAAATTG
1 -TA-AAAAATA
13765017 TAAAAAAATA
1 T-AAAAAATA
* **
13765027 TAAGATTTA
1 TAAAAAATA
13765036 TTAAAAAAT-
1 -TAAAAAATA
13765045 TAAAAAATA
1 TAAAAAATA
13765054 TAAAAAAT
1 TAAAAAAT
13765062 TACTGATTTT
Statistics
Matches: 62, Mismatches: 15, Indels: 11
0.70 0.17 0.12
Matches are distributed among these distances:
8 15 0.24
9 27 0.44
10 14 0.23
11 6 0.10
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (9 bp):
TAAAAAATA
Found at i:13765058 original size:37 final size:36
Alignment explanation
Indices: 13764973--13765060 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 36
13764963 TAGCATTGTA
**
13764973 AAAAAATA-AAAAAAATAAAAAATTTATAAATTACT
1 AAAAAATATAAAAAAATAAAAAATTTATAAAAAACT
* * * * *
13765008 AGAAAATTGTAAAAAAATATAAGATTTATTAAAAAATT
1 A-AAAAATATAAAAAAATAAAAAATTTA-TAAAAAACT
13765046 AAAAAATATAAAAAA
1 AAAAAATATAAAAAA
13765061 TTACTGATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
35 1 0.02
36 5 0.12
37 28 0.68
38 7 0.17
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (36 bp):
AAAAAATATAAAAAAATAAAAAATTTATAAAAAACT
Found at i:13766019 original size:32 final size:30
Alignment explanation
Indices: 13765954--13766029 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 30
13765944 ATTGAGTTTA
*
13765954 GGGATTTTAG-TTTAGGTTTAAAAAATTGG
1 GGGATTTTGGTTTTAGGTTTAAAAAATTGG
* * **
13765983 GGGATTTTTGGGTTTTAGGTTTCAAAATTTTT
1 GGGA-TTTT-GGTTTTAGGTTTAAAAAATTGG
13766015 GGGATTTTGGTTTTA
1 GGGATTTTGGTTTTA
13766030 AAAATTTTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.10
30 11 0.28
31 5 0.13
32 19 0.49
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (30 bp):
GGGATTTTGGTTTTAGGTTTAAAAAATTGG
Found at i:13766022 original size:24 final size:24
Alignment explanation
Indices: 13765986--13766046 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
13765976 AAATTGGGGG
*
13765986 ATTTTTGGG-TTTTAGG-TTTCAAA
1 ATTTTTGGGATTTT-GGTTTTAAAA
13766009 ATTTTTGGGATTTTGGTTTTAAAA
1 ATTTTTGGGATTTTGGTTTTAAAA
*
13766033 ATTTTGGGGATTTT
1 ATTTTTGGGATTTT
13766047 CGAGATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 11 0.32
24 23 0.68
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.54
Consensus pattern (24 bp):
ATTTTTGGGATTTTGGTTTTAAAA
Found at i:13767080 original size:56 final size:57
Alignment explanation
Indices: 13767013--13767151 Score: 235
Period size: 56 Copynumber: 2.5 Consensus size: 57
13767003 TAATAATTGA
*
13767013 ATGGTAATTTATATATTTGACATGTTGATAATTTATTGAACCGTATT-ATTTAAAAC
1 ATGGTAATTTATATATTTGACATGTTGATAATTTATTGAACCATATTAATTTAAAAC
* *
13767069 ATGGTAATTTATATATTTGATATGTTGATAATTTATTGAATCATATTAATTTAAAAC
1 ATGGTAATTTATATATTTGACATGTTGATAATTTATTGAACCATATTAATTTAAAAC
*
13767126 TTGGTAATTTATATATTTGACATGTT
1 ATGGTAATTTATATATTTGACATGTT
13767152 TGTTGTAATT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
56 44 0.57
57 33 0.43
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (57 bp):
ATGGTAATTTATATATTTGACATGTTGATAATTTATTGAACCATATTAATTTAAAAC
Found at i:13767815 original size:21 final size:19
Alignment explanation
Indices: 13767791--13767883 Score: 66
Period size: 21 Copynumber: 4.8 Consensus size: 19
13767781 GGGTGATGGT
13767791 GGTGGTGAGGGTTCGGGTAAG
1 GGTGGTGAGGGTTCGGG--AG
* *
13767812 GGTGTTGAGGGTTTGGGA-
1 GGTGGTGAGGGTTCGGGAG
* **
13767830 GGTGGTGAGAGTTCAAGTAAG
1 GGTGGTGAGGGTTC--GGGAG
*
13767851 GGTGTTGAGGG-T-GGGAG
1 GGTGGTGAGGGTTCGGGAG
13767868 AGGTGGTGAGGGTTCG
1 -GGTGGTGAGGGTTCG
13767884 ACCAGAGGTG
Statistics
Matches: 54, Mismatches: 12, Indels: 13
0.68 0.15 0.16
Matches are distributed among these distances:
17 3 0.06
18 21 0.39
19 2 0.04
20 4 0.07
21 24 0.44
ACGTcount: A:0.16, C:0.03, G:0.55, T:0.26
Consensus pattern (19 bp):
GGTGGTGAGGGTTCGGGAG
Found at i:13767823 original size:39 final size:38
Alignment explanation
Indices: 13767780--13767884 Score: 129
Period size: 39 Copynumber: 2.7 Consensus size: 38
13767770 AAAGGTGGTA
* *
13767780 AGGGTGATGGTGGTGGTGAGGGTTCGGGTAAGGGTGTTG
1 AGGGTG-TGGAGGTGGTGAGGGTTCGAGTAAGGGTGTTG
* * *
13767819 AGGGTTTGGGAGGTGGTGAGAGTTCAAGTAAGGGTGTTG
1 AGGGTGT-GGAGGTGGTGAGGGTTCGAGTAAGGGTGTTG
*
13767858 AGGGTGGGAGAGGTGGTGAGGGTTCGA
1 AGGGTGTG-GAGGTGGTGAGGGTTCGA
13767885 CCAGAGGTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 2 0.04
39 53 0.96
ACGTcount: A:0.17, C:0.03, G:0.54, T:0.26
Consensus pattern (38 bp):
AGGGTGTGGAGGTGGTGAGGGTTCGAGTAAGGGTGTTG
Found at i:13767924 original size:63 final size:64
Alignment explanation
Indices: 13767847--13768118 Score: 376
Period size: 63 Copynumber: 4.3 Consensus size: 64
13767837 AGAGTTCAAG
***
13767847 TAAGGGTGTTGAGGGTG-GGAGAGGTGGTGAGGGTTC-GACCAGAGGTGCTGTTAGTGAAGGTGT
1 TAAGGGTGTTGAGGGTGAGG-GAGGTGGTGAGGGTTCAGGTAAGAGGTGCTGTTAGTGAAGGTGT
** *
13767910 TAAGGGTGTTGAGGGTGAGGGAGGTGGTGAGGGTTTGGGTAAG-GGTGGTGTTAGTGAAGGTGT
1 TAAGGGTGTTGAGGGTGAGGGAGGTGGTGAGGGTTCAGGTAAGAGGTGCTGTTAGTGAAGGTGT
*
13767973 TAAGGGTGTTGAGGGTGAGGGAGGTGGTGAGGGTTCAGGTAAG-GGTGCTGTTAGTGAAGGTGC
1 TAAGGGTGTTGAGGGTGAGGGAGGTGGTGAGGGTTCAGGTAAGAGGTGCTGTTAGTGAAGGTGT
* * * *
13768036 TGAGGGTGTTGATGGTGAAGGAGGTGGTGAGGGTTCAGGTAAGA-GTGCTATTAGTG-AGGTGT
1 TAAGGGTGTTGAGGGTGAGGGAGGTGGTGAGGGTTCAGGTAAGAGGTGCTGTTAGTGAAGGTGT
* *
13768098 TGAGGGTGTTGAGGGTCAGGG
1 TAAGGGTGTTGAGGGTGAGGG
13768119 TGAGGTTGAT
Statistics
Matches: 189, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
62 23 0.12
63 161 0.85
64 5 0.03
ACGTcount: A:0.19, C:0.04, G:0.51, T:0.27
Consensus pattern (64 bp):
TAAGGGTGTTGAGGGTGAGGGAGGTGGTGAGGGTTCAGGTAAGAGGTGCTGTTAGTGAAGGTGT
Found at i:13768220 original size:3 final size:3
Alignment explanation
Indices: 13768207--13768265 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
13768197 TTACTTATCA
*
13768207 GAT GGT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
13768255 GAT GAT GAT GA
1 GAT GAT GAT GA
13768266 GCTTCAAGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:13770044 original size:24 final size:24
Alignment explanation
Indices: 13770016--13770061 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
13770006 ATCAATAAGG
13770016 TTACTTGATATTTTCCAATATTCT
1 TTACTTGATATTTTCCAATATTCT
*
13770040 TTACTTGATATTTTCTAATATT
1 TTACTTGATATTTTCCAATATT
13770062 TTCCAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.04, T:0.57
Consensus pattern (24 bp):
TTACTTGATATTTTCCAATATTCT
Found at i:13770468 original size:36 final size:36
Alignment explanation
Indices: 13770420--13770610 Score: 300
Period size: 36 Copynumber: 5.4 Consensus size: 36
13770410 CATATGAGAT
*
13770420 TTTTCTTAATTTAAAATTGACAGCAGACTTACTTATG
1 TTTT-TTAATTTAAAATTGACAGCAGACCTACTTATG
13770457 TTTTTTAATTTAAAATTGACAGCAGACCTACTTATG
1 TTTTTTAATTTAAAATTGACAGCAGACCTACTTATG
* * *
13770493 TTTTTAAATTTAAAATTGACAGTAGACTTACTTATG
1 TTTTTTAATTTAAAATTGACAGCAGACCTACTTATG
13770529 TTTTTTAATTTAAAATTGACAGCAGACCTACTTATG
1 TTTTTTAATTTAAAATTGACAGCAGACCTACTTATG
*
13770565 TTTTTAAATTTAAAATTGACAGCAG----ACTTATG
1 TTTTTTAATTTAAAATTGACAGCAGACCTACTTATG
13770597 TTTTTTAATTTAAA
1 TTTTTTAATTTAAA
13770611 TTGCAGGGTC
Statistics
Matches: 145, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
32 20 0.14
36 121 0.83
37 4 0.03
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (36 bp):
TTTTTTAATTTAAAATTGACAGCAGACCTACTTATG
Found at i:13770544 original size:72 final size:72
Alignment explanation
Indices: 13770427--13770610 Score: 331
Period size: 72 Copynumber: 2.6 Consensus size: 72
13770417 GATTTTTCTT
13770427 AATTTAAAATTGACAGCAGACTTACTTATGTTTTTTAATTTAAAATTGACAGCAGACCTACTTAT
1 AATTTAAAATTGACAGCAGACTTACTTATGTTTTTTAATTTAAAATTGACAGCAGACCTACTTAT
13770492 GTTTTTA
66 GTTTTTA
*
13770499 AATTTAAAATTGACAGTAGACTTACTTATGTTTTTTAATTTAAAATTGACAGCAGACCTACTTAT
1 AATTTAAAATTGACAGCAGACTTACTTATGTTTTTTAATTTAAAATTGACAGCAGACCTACTTAT
13770564 GTTTTTA
66 GTTTTTA
13770571 AATTTAAAATTGACAGCAG----ACTTATGTTTTTTAATTTAAA
1 AATTTAAAATTGACAGCAGACTTACTTATGTTTTTTAATTTAAA
13770611 TTGCAGGGTC
Statistics
Matches: 110, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
68 21 0.19
72 89 0.81
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (72 bp):
AATTTAAAATTGACAGCAGACTTACTTATGTTTTTTAATTTAAAATTGACAGCAGACCTACTTAT
GTTTTTA
Found at i:13771916 original size:161 final size:161
Alignment explanation
Indices: 13771525--13771924 Score: 558
Period size: 160 Copynumber: 2.5 Consensus size: 161
13771515 AAACAAGATT
* * * *
13771525 CTAACACAACGGGAACACAGGTATATTGTAAACACTTTCTCATTGTCAATTCCAAATCATAATAA
1 CTAACACAACTGGATCACAGGTATATTGTAAACATTTTCTCATTGTCAATTCCAAATTATAATAA
* * * *
13771590 TCTAATTTCGGTTTTGATTTTTTTGTGTTTTAGTCTGGAACGAGTACGAGAACTAAAATCCAAAA
66 TCTAATTTCGG-TTTCAATTTTTTGTATCTTAGTCTGGAACGAGTACGAGAACTAAAATCCAAAA
*
13771655 AAAGAACGATAGAATACCACAATGCATTCAGC
130 AAAGAACGACAGAATACCACAATGCATTCAGC
*
13771687 CTAACACAACTGGATCATAGGTATATTGTAAACATTTTCTCATTGTCAA-TCCAAATTATAATAA
1 CTAACACAACTGGATCACAGGTATATTGTAAACATTTTCTCATTGTCAATTCCAAATTATAATAA
* * *
13771751 TCTAATTTCGGTTTCAATTTTTTGTATCTTAGTCTGGTATGAGTACGAGAACTACAA-CCTAAAA
66 TCTAATTTCGGTTTCAATTTTTTGTATCTTAGTCTGGAACGAGTACGAGAACTAAAATCC-AAAA
*
13771815 AAAGAACGACA-AATCACCA-ACATGCATTTAGC
130 AAAGAACGACAGAAT-ACCACA-ATGCATTCAGC
* * *
13771847 CTAACACAACTGGATCACAAGTATATCGTAAACATTTTCTCATTGTCAATTCCAAATTAT-TTAA
1 CTAACACAACTGGATCACAGGTATATTGTAAACATTTTCTCATTGTCAATTCCAAATTATAAT-A
*
13771911 ATCTAATTTGGGTT
65 ATCTAATTTCGGTT
13771925 CTGATTATTG
Statistics
Matches: 214, Mismatches: 19, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
159 6 0.03
160 114 0.53
161 49 0.23
162 45 0.21
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (161 bp):
CTAACACAACTGGATCACAGGTATATTGTAAACATTTTCTCATTGTCAATTCCAAATTATAATAA
TCTAATTTCGGTTTCAATTTTTTGTATCTTAGTCTGGAACGAGTACGAGAACTAAAATCCAAAAA
AAGAACGACAGAATACCACAATGCATTCAGC
Found at i:13772209 original size:9 final size:9
Alignment explanation
Indices: 13772195--13772224 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
13772185 TCTTACTGCT
13772195 AATTGTTGA
1 AATTGTTGA
13772204 AATTGTTGA
1 AATTGTTGA
*
13772213 AATGGTTGA
1 AATTGTTGA
13772222 AAT
1 AAT
13772225 GATAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (9 bp):
AATTGTTGA
Found at i:13773760 original size:22 final size:22
Alignment explanation
Indices: 13773733--13773781 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
13773723 AGGGAATAAA
*
13773733 AAACAAAACAACAATATCGATT
1 AAACAAAACAACAACATCGATT
13773755 AAACAAAACAACAACATCGATT
1 AAACAAAACAACAACATCGATT
13773777 AAACA
1 AAACA
13773782 TGATTAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.61, C:0.20, G:0.04, T:0.14
Consensus pattern (22 bp):
AAACAAAACAACAACATCGATT
Found at i:13774144 original size:15 final size:15
Alignment explanation
Indices: 13774124--13774152 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13774114 AAAGAATTTG
13774124 AATGGAGAAGGAGAA
1 AATGGAGAAGGAGAA
13774139 AATGGAGAAGGAGA
1 AATGGAGAAGGAGA
13774153 GAGTTTGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.41, T:0.07
Consensus pattern (15 bp):
AATGGAGAAGGAGAA
Found at i:13774252 original size:19 final size:20
Alignment explanation
Indices: 13774228--13774268 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
13774218 TTTAAATCAA
* *
13774228 TTTTTACTTTTATTT-TGTT
1 TTTTTAATTTAATTTATGTT
13774247 TTTTTAATTTAATTTATGTT
1 TTTTTAATTTAATTTATGTT
13774267 TT
1 TT
13774269 AACTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTAATTTAATTTATGTT
Found at i:13777925 original size:16 final size:16
Alignment explanation
Indices: 13777906--13777990 Score: 55
Period size: 16 Copynumber: 5.2 Consensus size: 16
13777896 CACATAGGGT
13777906 TCGCACATCATA-AGGC
1 TCGCACA-CATATAGGC
13777922 TCGCACACATATAGGC
1 TCGCACACATATAGGC
** *
13777938 TCAAACACAATATTGGC
1 TCGCACAC-ATATAGGC
* **
13777955 TTGCTTACATATAGGC
1 TCGCACACATATAGGC
** *
13777971 TTTCACATAATATAGGC
1 TCGCACA-CATATAGGC
13777988 TCG
1 TCG
13777991 TATATAATAT
Statistics
Matches: 51, Mismatches: 15, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
15 4 0.08
16 28 0.55
17 19 0.37
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (16 bp):
TCGCACACATATAGGC
Found at i:13792326 original size:24 final size:24
Alignment explanation
Indices: 13792275--13792326 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13792265 TTTCACTCCT
*
13792275 AAAAACCTAAACCCTAATTCTTAA
1 AAAAACCTAAACCCTAATCCTTAA
13792299 AAAAACTCT-AACCCTAA-CCTTAA
1 AAAAAC-CTAAACCCTAATCCTTAA
*
13792322 CAAAA
1 AAAAA
13792327 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.36
24 14 0.56
25 2 0.08
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (24 bp):
AAAAACCTAAACCCTAATCCTTAA
Done.