Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 128 of 335
Found at i:38350012 original size:69 final size:69
Alignment explanation
Indices: 38349912--38350107 Score: 293
Period size: 69 Copynumber: 2.8 Consensus size: 69
38349902 TCTCGAATGC
* * * * *
38349912 ACAAATGAGAAAGAGAGGGAGGGAGCTTGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTACAG
38349977 ATAG
66 ATAG
* **
38349981 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTCAGGACAATTACAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTACAG
38350046 ATAG
66 ATAG
* * *
38350050 ACAAATAAGAAAGAGAGTGTGGAAGCATGCTTGGAGGCATGGATTGGAGGTTGGGACA
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACA
38350108 GTCAAGGATA
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 114 1.00
ACGTcount: A:0.35, C:0.10, G:0.36, T:0.19
Consensus pattern (69 bp):
ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTACAG
ATAG
Found at i:38350585 original size:26 final size:26
Alignment explanation
Indices: 38350549--38350600 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
38350539 TTGAAAAGAT
38350549 AATCAAATTTTGGCATGACTGTATAC
1 AATCAAATTTTGGCATGACTGTATAC
38350575 AATCAAATTTTGGCATGACTGTATAC
1 AATCAAATTTTGGCATGACTGTATAC
38350601 TTAAAGATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (26 bp):
AATCAAATTTTGGCATGACTGTATAC
Found at i:38352857 original size:19 final size:18
Alignment explanation
Indices: 38352820--38352860 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
38352810 ATATTAAAAC
*
38352820 ATATACATGACATACATA
1 ATATACATGACAAACATA
*
38352838 ATATACATGATAGAACATA
1 ATATACATGACA-AACATA
38352857 ATAT
1 ATAT
38352861 GATATTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.29
Consensus pattern (18 bp):
ATATACATGACAAACATA
Found at i:38354387 original size:18 final size:18
Alignment explanation
Indices: 38354360--38354403 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
38354350 GGGTTAGTGG
*
38354360 GTTTTAGGTAGGTTATTT
1 GTTTTGGGTAGGTTATTT
38354378 GTTTTGGGTAGGTTATTT
1 GTTTTGGGTAGGTTATTT
38354396 GTTTTGGG
1 GTTTTGGG
38354404 CTCAAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.55
Consensus pattern (18 bp):
GTTTTGGGTAGGTTATTT
Found at i:38358095 original size:13 final size:13
Alignment explanation
Indices: 38358068--38358105 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
38358058 AATTTAGAAG
38358068 TTTTACTTTTAATT
1 TTTTACTTTT-ATT
38358082 TTTTACTTTTATT
1 TTTTACTTTTATT
*
38358095 TCTTA-TTTTAT
1 TTTTACTTTTAT
38358106 ATTATGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 6 0.26
13 7 0.30
14 10 0.43
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTACTTTTATT
Found at i:38358530 original size:44 final size:43
Alignment explanation
Indices: 38358446--38358692 Score: 379
Period size: 43 Copynumber: 5.7 Consensus size: 43
38358436 TTTATTGGAA
* *
38358446 AAAAACGCCACTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
38358489 AAAAGCGCCGCTAAAGGTAAAGGCTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
* * *
38358533 ACAAGCGCCGCTAAAGGTAAAGGCTTTTTAGTGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
*
38358577 AAAAG-GCCGCTAAAGGTCGAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
38358619 AAAAGCGCCGCTAAAGGTCGAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
38358662 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGC
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
38358693 AACGCTTTTT
Statistics
Matches: 190, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
42 23 0.12
43 102 0.54
44 65 0.34
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:38358806 original size:31 final size:31
Alignment explanation
Indices: 38358771--38358851 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
38358761 CTTCCTGCAT
* *
38358771 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
38358802 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
38358833 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
38358852 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:38364802 original size:9 final size:9
Alignment explanation
Indices: 38364788--38365004 Score: 134
Period size: 9 Copynumber: 23.6 Consensus size: 9
38364778 TATTTAAGTA
38364788 TTATGTAAG
1 TTATGTAAG
*
38364797 TTATGTAAT
1 TTATGTAAG
*
38364806 TTATGATATG
1 TTATG-TAAG
* * *
38364816 ATATAT-AT
1 TTATGTAAG
*
38364824 TTATGTAAA
1 TTATGTAAG
* *
38364833 TTATAT-AT
1 TTATGTAAG
*
38364841 TTATCTAAG
1 TTATGTAAG
*
38364850 TTATATAAG
1 TTATGTAAG
38364859 TTATGTAAG
1 TTATGTAAG
*
38364868 TTATGTAAA
1 TTATGTAAG
*
38364877 TTATGATATAAAA
1 TTATG---T-AAG
*
38364890 TATATTTAAG
1 T-TATGTAAG
38364900 TATTATGTAAG
1 --TTATGTAAG
38364911 TTATGTAAG
1 TTATGTAAG
* *
38364920 TTATAT-AT
1 TTATGTAAG
*
38364928 TTATCTAAG
1 TTATGTAAG
*
38364937 TTATATAAG
1 TTATGTAAG
*
38364946 TTATGTATG
1 TTATGTAAG
*
38364955 TTATATAAG
1 TTATGTAAG
38364964 TTATGTAAG
1 TTATGTAAG
* *
38364973 TTATATATG
1 TTATGTAAG
*
38364982 TTATATAAG
1 TTATGTAAG
*
38364991 TTATGTAAA
1 TTATGTAAG
38365000 TTATG
1 TTATG
38365005 ATATCAAATA
Statistics
Matches: 162, Mismatches: 35, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
8 16 0.10
9 122 0.75
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:38364867 original size:18 final size:18
Alignment explanation
Indices: 38364788--38365004 Score: 162
Period size: 18 Copynumber: 12.3 Consensus size: 18
38364778 TATTTAAGTA
* *
38364788 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
38364806 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
38364824 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
38364841 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
38364859 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
*
38364877 TTATG--A--TATA-AAA
1 TTATGTAAGTTATATAAG
* *
38364890 TATATTTAAGTATTATGTAAG
1 T-TATGTAAG--TTATATAAG
*
38364911 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
38364928 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
38364946 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
38364964 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
38364982 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
38365000 TTATG
1 TTATG
38365005 ATATCAAATA
Statistics
Matches: 158, Mismatches: 30, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
13 4 0.03
14 6 0.04
16 2 0.01
17 37 0.23
18 89 0.56
19 7 0.04
20 10 0.06
21 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:38364898 original size:114 final size:120
Alignment explanation
Indices: 38364764--38365035 Score: 351
Period size: 123 Copynumber: 2.3 Consensus size: 120
38364754 ACTAGTTATG
* *
38364764 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAA-TT-TATGA-TA-T-GATATAT-A
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATAT-ATTACTAGATATATAA
* * *
38364823 TTTATGTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
65 GTTATGTAAATTATATAAGTTATCTAAGTTATATAAGTTATATAAGTTATGTAAAT
*
38364878 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATA-TTA-CT-AGATATAT
** * *
38364943 AAGTTATGTATGTTATATAAGTTATGTAAGTTATATATGTTATATAAGTTATGTAAAT
63 AAGTTATGTAAATTATATAAGTTATCTAAGTTATATAAGTTATATAAGTTATGTAAAT
* *
38365001 TATGATATCAAATATATTTATGTATTATGTAAGTT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTT
38365036 TTTTATTTCA
Statistics
Matches: 136, Mismatches: 12, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
114 39 0.29
115 3 0.02
116 3 0.02
117 2 0.01
119 1 0.01
121 6 0.04
122 14 0.10
123 68 0.50
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (120 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTACTAGATATATAAG
TTATGTAAATTATATAAGTTATCTAAGTTATATAAGTTATATAAGTTATGTAAAT
Found at i:38365129 original size:15 final size:15
Alignment explanation
Indices: 38365109--38365164 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
38365099 AAGTAGCGGG
38365109 ATTAAATAATATTTA
1 ATTAAATAATATTTA
38365124 ATTAAATAATATTT-
1 ATTAAATAATATTTA
38365138 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
38365153 ATTAAATAATAT
1 ATTAAATAATAT
38365165 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:38365369 original size:24 final size:24
Alignment explanation
Indices: 38365341--38365408 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
38365331 ACTTAAATGG
38365341 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
38365365 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
38365389 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
38365409 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:38370024 original size:113 final size:110
Alignment explanation
Indices: 38369825--38370029 Score: 234
Period size: 113 Copynumber: 1.8 Consensus size: 110
38369815 GGCGCTTTTA
* *
38369825 TATAAAGCGCCACTAATAACAAGGTAATAACGATGCCGTTTTGCAATCTGTTGACAGATTTTTGT
1 TATAAAGCGCCACTAATAACAAGGTAATAACGATGCCGTTTTACAATCTGTTAACAGATTTTTGT
* *
38369890 GGCATTTTTGGATAAAACGCCAGTAATTCTCACCTTTTGCGGCGTT
66 GGCATTTTT-GAGAAAACGCCACTAATTCTCACCTTTTGCGGCGTT
* * * * * *
38369936 TATAGAAGCGCCATTAATAACAAGGGT-GTAGACGATGTCGTTTTACATTCTTTTAATAGATGTT
1 TATA-AAGCGCCACTAATAACAA-GGTAATA-ACGATGCCGTTTTACAATCTGTTAACAGAT-TT
* *
38370000 TTGTGGCGTTGTTT-AGAAAGCGCCACTAAT
62 TTGTGGCATT-TTTGAGAAAACGCCACTAAT
38370030 AACTAAGCTT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
111 4 0.05
112 19 0.25
113 40 0.52
114 11 0.14
115 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (110 bp):
TATAAAGCGCCACTAATAACAAGGTAATAACGATGCCGTTTTACAATCTGTTAACAGATTTTTGT
GGCATTTTTGAGAAAACGCCACTAATTCTCACCTTTTGCGGCGTT
Found at i:38370144 original size:3 final size:3
Alignment explanation
Indices: 38370138--38370163 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38370128 TTTTTCTCTT
38370138 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
38370164 TCCTATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:38370256 original size:28 final size:27
Alignment explanation
Indices: 38370204--38370256 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
38370194 GGTCTCTCTA
*
38370204 ATATATTTAAATTTTAGATTTATTTGC
1 ATATATTTAAATTTTAGATTCATTTGC
*
38370231 ATATACTTTAATTTTTA-ATATCATTT
1 ATATA-TTTAAATTTTAGAT-TCATTT
38370257 AGTCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATTTAAATTTTAGATTCATTTGC
Found at i:38370439 original size:12 final size:12
Alignment explanation
Indices: 38370422--38370454 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
38370412 CATTAATATC
38370422 TATATATATCAA
1 TATATATATCAA
*
38370434 TATATATATCCA
1 TATATATATCAA
38370446 TATATATAT
1 TATATATAT
38370455 ATTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATATCAA
Found at i:38371268 original size:12 final size:12
Alignment explanation
Indices: 38371251--38371276 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38371241 TTTTCTATTC
38371251 AAACGCCGCTAA
1 AAACGCCGCTAA
38371263 AAACGCCGCTAA
1 AAACGCCGCTAA
38371275 AA
1 AA
38371277 CCCTATTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:38372503 original size:9 final size:9
Alignment explanation
Indices: 38372489--38372534 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
38372479 TATAGTTTGA
38372489 TATTCGAAT
1 TATTCGAAT
38372498 TATTCGAAT
1 TATTCGAAT
*
38372507 TATTCGAGT
1 TATTCGAAT
*
38372516 TATTCGAGT
1 TATTCGAAT
38372525 TATTCGAAT
1 TATTCGAAT
38372534 T
1 T
38372535 TGAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:38372599 original size:9 final size:9
Alignment explanation
Indices: 38372585--38372617 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
38372575 ATTCGAGTTG
38372585 ACTCGAATA
1 ACTCGAATA
38372594 ACTCGAATA
1 ACTCGAATA
38372603 ACTCGAATA
1 ACTCGAATA
38372612 ACTCGA
1 ACTCGA
38372618 TTCGTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.21
Consensus pattern (9 bp):
ACTCGAATA
Found at i:38372783 original size:15 final size:15
Alignment explanation
Indices: 38372753--38372781 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38372743 ACTATTAGTA
38372753 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
38372768 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
38372782 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:38375220 original size:31 final size:31
Alignment explanation
Indices: 38375182--38375273 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 31
38375172 GAGTTTGAGA
38375182 ATCAAATTAATAAAATTTGTAAATATGAAGG
1 ATCAAATTAATAAAATTTGTAAATATGAAGG
* * * * *
38375213 ATTAAATTTATTAAATTATTTAAA-ATTAA-G
1 ATCAAATTAATAAAATT-TGTAAATATGAAGG
* * *
38375243 ATCAAATTGATAAAATATGTAAGTATTGAAG
1 ATCAAATTAATAAAATTTGTAAATA-TGAAG
38375274 ACTAAATATG
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
29 4 0.09
30 15 0.33
31 21 0.47
32 5 0.11
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (31 bp):
ATCAAATTAATAAAATTTGTAAATATGAAGG
Found at i:38375852 original size:187 final size:187
Alignment explanation
Indices: 38375534--38375909 Score: 628
Period size: 187 Copynumber: 2.0 Consensus size: 187
38375524 GTTATTTGAT
*
38375534 TGTAGCACCCCAAACCCGGCCCAGAAGTTATGGCCAGATCCGGCATGCCACATAAAAAAAAACGT
1 TGTAGCACCCCAAACCCGGCCCAGAAGTTATGGCCAGATCCGACATGCCACAT--AAAAAAACGT
**** *
38375599 TAAAAATTTTTTTCCATTCTAAGTCCAGAAAATCGTACTTGATGTTCAAAAGATTAATTCATTAA
64 TAAAAAAAAATTTCAATTCTAAGTCCAGAAAATCGTACTTGATGTTCAAAAGATTAATTCATTAA
38375664 GGGTTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGAGGTGGTGAGTC
129 GGGTTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGAGGTGGTGAGTC
* *
38375723 TGTAGCACCCCAAACCCGGCCCAGAAGTTATGGCCAGATCCGACATGCCACAT-CAAAAATGTTA
1 TGTAGCACCCCAAACCCGGCCCAGAAGTTATGGCCAGATCCGACATGCCACATAAAAAAACGTT-
38375787 AAAAAAAAATTTCAATTCTAAGTCCAGAAAATCGTACTTGATGTTCAAAAGATTAATTCATTAAG
65 AAAAAAAAATTTCAATTCTAAGTCCAGAAAATCGTACTTGATGTTCAAAAGATTAATTCATTAAG
* *
38375852 GGTTAAGGTGAATGGAAGCTTTGCACCAGGTAGGAAACCGGAAAAGAGGTGGTGAGTC
130 GGTTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGAGGTGGTGAGTC
38375910 CATCGGACTG
Statistics
Matches: 176, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
186 8 0.05
187 116 0.66
189 52 0.30
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (187 bp):
TGTAGCACCCCAAACCCGGCCCAGAAGTTATGGCCAGATCCGACATGCCACATAAAAAAACGTTA
AAAAAAAATTTCAATTCTAAGTCCAGAAAATCGTACTTGATGTTCAAAAGATTAATTCATTAAGG
GTTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGAGGTGGTGAGTC
Found at i:38376687 original size:137 final size:137
Alignment explanation
Indices: 38376441--38376863 Score: 778
Period size: 137 Copynumber: 3.1 Consensus size: 137
38376431 TATTGGGCCT
**
38376441 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
38376506 AGCCCCTTATTCAGATAACAGTAGGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
38376571 CATATGC
131 CATATGC
*
38376578 AAGCCCATTTGGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
38376643 AGCCCCTTATTCAGATAACAGTATGGCCCATAAGG-CCATTTCAAAATACATGCAACATCAGTAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCAT-AGGCCCATTTCAAAATACATGCAACATCAGTAA
38376707 ACATATGC
130 ACATATGC
38376715 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
38376780 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
38376844 CATATGC
131 CATATGC
38376851 AAGCCCATTTGGG
1 AAGCCCATTTGGG
38376864 GAGACTACTC
Statistics
Matches: 278, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
136 25 0.09
137 250 0.90
138 3 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:38378673 original size:26 final size:26
Alignment explanation
Indices: 38378635--38378718 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
38378625 CATGATATTC
*
38378635 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
38378661 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
38378687 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
38378713 TTATCA
1 TTATCA
38378719 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:38379815 original size:27 final size:26
Alignment explanation
Indices: 38379778--38379892 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
38379768 AGCATGGCTG
* *
38379778 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
38379804 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
38379832 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
38379859 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
38379886 CCAGAAC
1 CCAGAAC
38379893 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:38379837 original size:54 final size:54
Alignment explanation
Indices: 38379778--38379892 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
38379768 AGCATGGCTG
*
38379778 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
38379832 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
38379886 CCAGAAC
1 CCAGAAC
38379893 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:38381539 original size:26 final size:26
Alignment explanation
Indices: 38381503--38381612 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
38381493 CATGAAATTC
38381503 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
38381529 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
38381555 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
38381581 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
38381607 TTATCA
1 TTATCA
38381613 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:38385598 original size:27 final size:26
Alignment explanation
Indices: 38385561--38385675 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
38385551 AGCATGGCTG
** *
38385561 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
38385587 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
38385615 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
38385642 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
38385669 CCAGAAC
1 CCAGAAC
38385676 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 16 0.20
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:38385620 original size:54 final size:54
Alignment explanation
Indices: 38385561--38385675 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
38385551 AGCATGGCTG
* *
38385561 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
38385615 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
38385669 CCAGAAC
1 CCAGAAC
38385676 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:38385839 original size:28 final size:25
Alignment explanation
Indices: 38385777--38385850 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
38385767 AAAATTAACC
* *
38385777 CTAGGGGTATAACGGTAATTTTGCA
1 CTAGGGGTATAACAGTAATTTTCCA
38385802 CTAGGGGTATAACAGTAATTTTCCATA
1 CTAGGGGTATAACAGTAATTTTCC--A
* *
38385829 CATAGGGGTATTATAGTAATTT
1 C-TAGGGGTATAACAGTAATTT
38385851 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 22 0.52
27 2 0.05
28 18 0.43
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (25 bp):
CTAGGGGTATAACAGTAATTTTCCA
Found at i:38387320 original size:26 final size:26
Alignment explanation
Indices: 38387284--38387393 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
38387274 CATGAAATTC
*
38387284 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
38387310 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
38387336 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
38387362 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
38387388 TTATCA
1 TTATCA
38387394 AATTATATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:38395748 original size:7 final size:7
Alignment explanation
Indices: 38395732--38395764 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
38395722 TCTCCCATTC
*
38395732 TCTTTGT
1 TCTTTAT
38395739 TCTTTAT
1 TCTTTAT
38395746 TCTTTAT
1 TCTTTAT
38395753 TCTTTAT
1 TCTTTAT
38395760 TCTTT
1 TCTTT
38395765 TATTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.09, C:0.15, G:0.03, T:0.73
Consensus pattern (7 bp):
TCTTTAT
Found at i:38397558 original size:26 final size:26
Alignment explanation
Indices: 38397499--38397633 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
38397489 TGATACAAAT
38397499 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
38397524 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
38397550 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
38397576 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
38397602 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
38397628 TGATAA
1 TGATAA
38397634 GAATATCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:38399145 original size:25 final size:25
Alignment explanation
Indices: 38399117--38399167 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
38399107 TTTACAGTTT
38399117 TACCCTAGGAGATAAATT-ACCGAAA
1 TACCCTAGG-GATAAATTGACCGAAA
* *
38399142 TACCCTAGGGTTAAATTGACCTAAA
1 TACCCTAGGGATAAATTGACCGAAA
38399167 T
1 T
38399168 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (25 bp):
TACCCTAGGGATAAATTGACCGAAA
Found at i:38403522 original size:26 final size:26
Alignment explanation
Indices: 38403493--38403600 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
38403483 TGGTACAAAT
38403493 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38403519 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38403545 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38403571 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38403597 TGAT
1 TGAT
38403601 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38408149 original size:22 final size:22
Alignment explanation
Indices: 38408124--38408212 Score: 60
Period size: 22 Copynumber: 4.1 Consensus size: 22
38408114 TTAATTTTAA
*
38408124 TATTATGTA-TACTATTATATTT
1 TATTATCTATTACTATTATA-TT
*
38408146 TATTA-CTATTATTATTATATT
1 TATTATCTATTACTATTATATT
* *
38408167 TATTATTTATT-TTATTTATTATT
1 TATTATCTATTACTA-TTA-TATT
* * *
38408190 TATTAGC-ATTAGTATTATTTT
1 TATTATCTATTACTATTATATT
38408211 TA
1 TA
38408213 CTTAATACTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
21 17 0.31
22 27 0.49
23 11 0.20
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (22 bp):
TATTATCTATTACTATTATATT
Found at i:38408160 original size:3 final size:3
Alignment explanation
Indices: 38408136--38408294 Score: 53
Period size: 3 Copynumber: 52.0 Consensus size: 3
38408126 TTATGTATAC
*
38408136 TAT TA- TAT T-T TAT TAC TAT TAT TAT TA- TATT TAT TATT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT
* * * * *
38408179 TATT TAT TATT TAT TAG CAT TAG TAT TAT TTT TACT TAA TACT TA- TAT
1 TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT
* * * * *
38408227 GTA- TAT ATAT TAT ATAG TAT TAT TAA TAGT TCT TTT TGT TAT TAT TAT
1 -TAT TAT -TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * *
38408275 TTT TCT TAA TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
38408295 GTATATATTC
Statistics
Matches: 114, Mismatches: 25, Indels: 34
0.66 0.14 0.20
Matches are distributed among these distances:
2 14 0.12
3 76 0.67
4 24 0.21
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:38408183 original size:16 final size:16
Alignment explanation
Indices: 38408136--38408193 Score: 73
Period size: 16 Copynumber: 3.5 Consensus size: 16
38408126 TTATGTATAC
38408136 TATTATATTTTATTACTAT
1 TATT-TATTTTATT--TAT
*
38408155 TA-TTATTATATTTAT
1 TATTTATTTTATTTAT
38408170 TATTTATTTTATTTAT
1 TATTTATTTTATTTAT
38408186 TATTTATT
1 TATTTATT
38408194 AGCATTAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 5 0.14
16 20 0.56
17 8 0.22
18 1 0.03
19 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTATTTTATTTAT
Found at i:38408692 original size:22 final size:20
Alignment explanation
Indices: 38408646--38408699 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
38408636 TATATGTTCT
* *
38408646 TATTATTACTATATCTATTA
1 TATTATTAGTATTTCTATTA
38408666 T-TTATTAGTATTTACTATTA
1 TATTATTAGTATTT-CTATTA
38408686 CTATTATTAGTATT
1 -TATTATTAGTATT
38408700 ATTTTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 10 0.34
20 7 0.24
21 1 0.03
22 11 0.38
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (20 bp):
TATTATTAGTATTTCTATTA
Found at i:38408795 original size:25 final size:26
Alignment explanation
Indices: 38408745--38408817 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 26
38408735 TTTTTAATAC
38408745 TATATTTTTAATACCATATATATTG-TG
1 TATATTTTTAATA-C-TATATATTGATG
*
38408772 TATATTCTTAATACTATATATTGTATG
1 TATATTTTTAATACTATATATTG-ATG
38408799 TAT-TTTTTAATAACTATAT
1 TATATTTTTAAT-ACTATAT
38408818 TATATGTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.22
26 8 0.20
27 24 0.59
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.53
Consensus pattern (26 bp):
TATATTTTTAATACTATATATTGATG
Found at i:38408881 original size:21 final size:20
Alignment explanation
Indices: 38408843--38408881 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38408833 TATGTACATA
*
38408843 TTTTTAATATTATTTTGTAT
1 TTTTTAATATTATATTGTAT
38408863 TTTTTAATATATATATTGT
1 TTTTTAATAT-TATATTGT
38408882 GTATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTAATATTATATTGTAT
Found at i:38412472 original size:242 final size:243
Alignment explanation
Indices: 38412046--38412535 Score: 856
Period size: 242 Copynumber: 2.0 Consensus size: 243
38412036 TACCGTAAAT
* * *
38412046 AAATTCTGAAAATAAGCCCGTGCAATACCTTCCATTTCCCAAAAGTCTTCCGTTTCCCCTCCACT
1 AAATTCTAAAAATAAGCCCGTGCAATACCCTCAATTTCCCAAAAGTCTTCCGTTTCCCCTCCACT
38412111 TTCATTCTGTAGCTTATTAATATAGTTTCTCCTCCGTCTTTATGTTGCTTGGCTATGAAAAAAAA
66 TTCATTCTGTAGCTTATTAATATAGTTTCTCCTCCGTCTTTATGTTGCTTGGCTATGAAAAAAAA
38412176 CCGTATTCCTATCACCGAATTTCAACCAGTTCAGTCGCACCCTTTGCTCCCAGTAATATTCATCC
131 CCGTATTCCTATCACCGAATTTCAACCAGTTCAGTCGCACCCTTTGCTCCCAGTAATATTCATCC
38412241 TTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
196 TTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
*
38412289 AAATTCTAAAAATAAGCCCGTGCAATACCCTCAATTTCCCAAAAGT-TTCCGTTTCCCTTCCACT
1 AAATTCTAAAAATAAGCCCGTGCAATACCCTCAATTTCCCAAAAGTCTTCCGTTTCCCCTCCACT
* * *
38412353 TTCATTCTGTAGCTTATTAATCTGGTTTCTCCTCCGTCTTTATGTTGCTTGGCTATGAAAAAAAG
66 TTCATTCTGTAGCTTATTAATATAGTTTCTCCTCCGTCTTTATGTTGCTTGGCTATGAAAAAAAA
* * *
38412418 CTGTATTCCTATCACCGAATTTCAACCAGTTCAGTTGCGCCCTTTGCTCCCAGTAATATTCATCC
131 CCGTATTCCTATCACCGAATTTCAACCAGTTCAGTCGCACCCTTTGCTCCCAGTAATATTCATCC
* * *
38412483 TTTTCAATCTCAAAGTTTCGCTGAATCTTTGTGTCAATTATTTTAGCC
196 TTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
38412531 AAATT
1 AAATT
38412536 TGTATCATCC
Statistics
Matches: 234, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
242 191 0.82
243 43 0.18
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (243 bp):
AAATTCTAAAAATAAGCCCGTGCAATACCCTCAATTTCCCAAAAGTCTTCCGTTTCCCCTCCACT
TTCATTCTGTAGCTTATTAATATAGTTTCTCCTCCGTCTTTATGTTGCTTGGCTATGAAAAAAAA
CCGTATTCCTATCACCGAATTTCAACCAGTTCAGTCGCACCCTTTGCTCCCAGTAATATTCATCC
TTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
Found at i:38421113 original size:22 final size:22
Alignment explanation
Indices: 38421087--38421139 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
38421077 AATTAGAGTT
*
38421087 TTAGGGTTTTGAATAAATAAAA
1 TTAGGGTTTTAAATAAATAAAA
*
38421109 TTAGGGTTTTAAATAAATTAAA
1 TTAGGGTTTTAAATAAATAAAA
*
38421131 CTAGGGTTT
1 TTAGGGTTT
38421140 ATGGTGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (22 bp):
TTAGGGTTTTAAATAAATAAAA
Found at i:38421150 original size:30 final size:29
Alignment explanation
Indices: 38421116--38421229 Score: 151
Period size: 30 Copynumber: 3.9 Consensus size: 29
38421106 AAATTAGGGT
*
38421116 TTTAAATAAATTAAACTAGGGTTTATGGTG
1 TTTAAATAAATTAAATTAGGGTTTA-GGTG
38421146 TTTAAATAAATTAAATTAGGGTTCTAGG-G
1 TTTAAATAAATTAAATTAGGGTT-TAGGTG
*
38421175 TTTTAAATAAATTAAATTATGGTTTAGG-G
1 -TTTAAATAAATTAAATTAGGGTTTAGGTG
* *
38421204 TTAAAATTAATTAAATTAGGGTTTAG
1 TTTAAATAAATTAAATTAGGGTTTAG
38421230 TTATTTTAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
28 23 0.30
29 6 0.08
30 46 0.60
31 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (29 bp):
TTTAAATAAATTAAATTAGGGTTTAGGTG
Found at i:38421179 original size:60 final size:58
Alignment explanation
Indices: 38421110--38421226 Score: 180
Period size: 60 Copynumber: 2.0 Consensus size: 58
38421100 TAAATAAAAT
*
38421110 TAGGGTTTTAAATAAATTAAACTAGGGTTTATGGTGTTTAAATAAATTAAATTAGGGTTC
1 TAGGGTTTTAAATAAATTAAACTAGGGTTTA-GG-GTTAAAATAAATTAAATTAGGGTTC
* * *
38421170 TAGGGTTTTAAATAAATTAAATTATGGTTTAGGGTTAAAATTAATTAAATTAGGGTT
1 TAGGGTTTTAAATAAATTAAACTAGGGTTTAGGGTTAAAATAAATTAAATTAGGGTT
38421227 TAGTTATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 22 0.42
59 2 0.04
60 29 0.55
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.41
Consensus pattern (58 bp):
TAGGGTTTTAAATAAATTAAACTAGGGTTTAGGGTTAAAATAAATTAAATTAGGGTTC
Found at i:38421185 original size:82 final size:84
Alignment explanation
Indices: 38421040--38421199 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 84
38421030 TAAAAATTAT
* * * *
38421040 TTAAATTAGCGTTTATGGTTTTTAAATAAATTAAGTAAATTAGAGTTTTAGGGTTTTGAATAAAT
1 TTAAACTAGCGTTTATGGTGTTTAAATAAATT-A-TAAATTAGAGTTCTAGGGTTTTAAATAAAT
38421105 AAAATTAGGGTTTTAAATAAA
64 AAAATTAGGGTTTTAAATAAA
* * *
38421126 TTAAACTAGGGTTTATGGTGTTTAAATAAA-T-TAAATTAGGGTTCTAGGGTTTTAAATAAATTA
1 TTAAACTAGCGTTTATGGTGTTTAAATAAATTATAAATTAGAGTTCTAGGGTTTTAAATAAATAA
*
38421189 AATTATGGTTT
66 AATTAGGGTTT
38421200 AGGGTTAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
82 38 0.58
85 1 0.02
86 27 0.41
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (84 bp):
TTAAACTAGCGTTTATGGTGTTTAAATAAATTATAAATTAGAGTTCTAGGGTTTTAAATAAATAA
AATTAGGGTTTTAAATAAA
Found at i:38421244 original size:60 final size:60
Alignment explanation
Indices: 38421110--38421239 Score: 167
Period size: 58 Copynumber: 2.2 Consensus size: 60
38421100 TAAATAAAAT
* *
38421110 TAGGGTTTTAAATAAATTAAACTAGGGTTTATGGTGTTTAAATAAATTAAATTAGGGTTC
1 TAGGATTTTAAATAAATTAAACTAGGGTTTATGGTGTTAAAATAAATTAAATTAGGGTTC
* * * *
38421170 TAGGGTTTTAAATAAATTAAATTATGGTTTA-GG-GTTAAAATTAATTAAATTAGGGTT-
1 TAGGATTTTAAATAAATTAAACTAGGGTTTATGGTGTTAAAATAAATTAAATTAGGGTTC
*
38421227 TAGTTATTTTAAA
1 TAG-GATTTTAAA
38421240 AATAACATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
57 3 0.05
58 29 0.46
59 2 0.03
60 29 0.46
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (60 bp):
TAGGATTTTAAATAAATTAAACTAGGGTTTATGGTGTTAAAATAAATTAAATTAGGGTTC
Found at i:38421513 original size:126 final size:124
Alignment explanation
Indices: 38421284--38421531 Score: 311
Period size: 126 Copynumber: 2.0 Consensus size: 124
38421274 CTATTTTGAC
* * **
38421284 CCTAAAGAAATAATTTTGAGAATACACTTCTAACAAATAGTGTAAAAAAACTTCAAGAAGGATGT
1 CCTAAAAAAATAATTTTGAGAAGACACTTCTAACAAATAGTGTAAAAAAACTTCAAGAAGGATAC
** *
38421349 ACTGTCAGCAAAATTATAAAAAAAAGCTCCCATGTGGACGT-TCTTTTTCTACAGTAGTT
66 ACTGTCAGCAAAATTATAAAAAAAAGCTCCCACATGGAC-TCTCTTTTTCCACAGTAGTT
** * ** *
38421408 CCTAAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 CCTAAAAAAATAATTTTGAGAAGACACTTCT-AACAAATAGTGT-AAAAAAACTTCAAGAAGGAT
**
38421473 ACACTGTCAGCAAAATT-TCTGAAAAAAGCTCCCACATGGACTCTCTTTTTCCACAGTAG
64 ACACTGTCAGCAAAATTAT-AAAAAAAAGCTCCCACATGGACTCTCTTTTTCCACAGTAG
38421532 CTCATGCTTG
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
124 27 0.26
125 13 0.12
126 65 0.62
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (124 bp):
CCTAAAAAAATAATTTTGAGAAGACACTTCTAACAAATAGTGTAAAAAAACTTCAAGAAGGATAC
ACTGTCAGCAAAATTATAAAAAAAAGCTCCCACATGGACTCTCTTTTTCCACAGTAGTT
Found at i:38424873 original size:18 final size:18
Alignment explanation
Indices: 38424852--38424886 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38424842 GAAAAGGAAA
*
38424852 CATATAAGGGTTAGGATC
1 CATATAAGGGCTAGGATC
38424870 CATATAAGGGCTAGGAT
1 CATATAAGGGCTAGGAT
38424887 ACGCACCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (18 bp):
CATATAAGGGCTAGGATC
Found at i:38426675 original size:46 final size:44
Alignment explanation
Indices: 38426571--38426678 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
38426561 TGTCTTTGAC
** * * *
38426571 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
38426615 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
38426661 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
38426679 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:38432811 original size:46 final size:44
Alignment explanation
Indices: 38432707--38432814 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
38432697 TGTCTTTGAC
** * * *
38432707 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
38432751 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
38432797 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
38432815 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:38436020 original size:2 final size:2
Alignment explanation
Indices: 38436015--38436046 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
38436005 AAATTAGTGC
38436015 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38436047 ACAATGTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:38437899 original size:69 final size:69
Alignment explanation
Indices: 38437743--38437885 Score: 214
Period size: 69 Copynumber: 2.1 Consensus size: 69
38437733 TTCTCGAATG
* * * *
38437743 AACAAACGAGAAAGAGAGGGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTGAA
1 AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGATTGGAGCTTGGGACAACTGAA
38437808 GATA
66 GATA
* * *
38437812 AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGTTTGGAGGTTGGGACAGCTGAA
1 AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGATTGGAGCTTGGGACAACTGAA
38437877 GATA
66 GATA
*
38437881 GACAA
1 AACAA
38437886 TTTGCAAAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.36, C:0.10, G:0.36, T:0.17
Consensus pattern (69 bp):
AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGATTGGAGCTTGGGACAACTGAA
GATA
Found at i:38441592 original size:3 final size:3
Alignment explanation
Indices: 38441584--38441620 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
38441574 GTTGCTTTAG
38441584 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
38441621 TAGATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:38442478 original size:16 final size:16
Alignment explanation
Indices: 38442457--38442508 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
38442447 TTATATTTAA
38442457 TAATATAATAAATTAT
1 TAATATAATAAATTAT
38442473 TAATATAATAAATTAT
1 TAATATAATAAATTAT
38442489 T--T-TAATAAATTACT
1 TAATATAATAAATTA-T
38442503 TAATAT
1 TAATAT
38442509 TTTAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 10 0.31
14 3 0.09
16 18 0.56
17 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATAATAAATTAT
Found at i:38442544 original size:16 final size:16
Alignment explanation
Indices: 38442523--38442553 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38442513 ATTTTATTTT
38442523 AATAATAATTTTAAAA
1 AATAATAATTTTAAAA
38442539 AATAATAATTTTAAA
1 AATAATAATTTTAAA
38442554 TTACATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATTTTAAAA
Found at i:38442612 original size:15 final size:15
Alignment explanation
Indices: 38442592--38442648 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
38442582 ATTCAATATT
38442592 AATATTTTAATAATA
1 AATATTTTAATAATA
*
38442607 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
38442626 AATATATTAATAATA
1 AATATTTTAATAATA
38442641 AATATTTT
1 AATATTTT
38442649 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:38442951 original size:39 final size:39
Alignment explanation
Indices: 38442883--38442959 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
38442873 GTTATAAAAA
* * *
38442883 GTATTTAGTTACAAAGTTGAGTTTCCAATAGGAGTTTGT
1 GTATTTAGCTACAAAATTGAGTTTCCAATAGGAATTTGT
* * *
38442922 GTATTTGGCTACAAAATTGTGTTTTCAATAGGAATTTG
1 GTATTTAGCTACAAAATTGAGTTTCCAATAGGAATTTG
38442960 AGTAATAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (39 bp):
GTATTTAGCTACAAAATTGAGTTTCCAATAGGAATTTGT
Found at i:38446250 original size:27 final size:27
Alignment explanation
Indices: 38446208--38446406 Score: 238
Period size: 27 Copynumber: 7.4 Consensus size: 27
38446198 GGCCTAGATG
* *
38446208 ACAGAATTATCGTTTTACCCCCGATTT
1 ACAGAATTACCGTTTTACCCTCGATTT
* *
38446235 ACATAATTACCGTTTTACCC-CTAATTT
1 ACAGAATTACCGTTTTACCCTC-GATTT
* * *
38446262 ACATAATTATCGTTTTACCCTCGACTT
1 ACAGAATTACCGTTTTACCCTCGATTT
*
38446289 ACAGAATTACCATTTTACCCTCGATTT
1 ACAGAATTACCGTTTTACCCTCGATTT
*
38446316 ACAGAATTACAGTTTTACCCTCGATTT
1 ACAGAATTACCGTTTTACCCTCGATTT
* ** *
38446343 ATAGAATTACTATTTTACCCTTGATTT
1 ACAGAATTACCGTTTTACCCTCGATTT
**
38446370 ACAGAATTACTATTTTACCCTCGATTT
1 ACAGAATTACCGTTTTACCCTCGATTT
*
38446397 ACAAAATTAC
1 ACAGAATTAC
38446407 TAAAATACCC
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 149 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
ACAGAATTACCGTTTTACCCTCGATTT
Found at i:38446415 original size:27 final size:27
Alignment explanation
Indices: 38446277--38446552 Score: 112
Period size: 27 Copynumber: 10.2 Consensus size: 27
38446267 ATTATCGTTT
* * ***
38446277 TACCCTCGACTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ***
38446304 TACCCTCGATTTACAGAATTA-CAGTTT
1 TACCCTCGATTTACAAAATTACCA-AAA
* * * ***
38446331 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ***
38446358 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
38446385 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
38446412 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* ** *
38446439 TACCC-CTAGTTTGTAAAATTATCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *** *
38446466 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
38446493 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
38446520 TACCC-CTAATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
38446547 TACCCT
1 TACCCT
38446553 TGACTTTCTA
Statistics
Matches: 212, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.03
27 205 0.97
28 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:38446432 original size:81 final size:81
Alignment explanation
Indices: 38446208--38446433 Score: 199
Period size: 81 Copynumber: 2.8 Consensus size: 81
38446198 GGCCTAGATG
* * * * * *** * *
38446208 ACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTA-ATTTACATAATTA-
1 ACAGAATTACCATTTTACCCTCGATTTACAAAATTACAGAAATA-CCCTAGATTTATAAAATTAC
*
38446271 TCGTTTTACCCTCGACTT
65 T-ATTTTACCCTCGACTT
* *** * *
38446289 ACAGAATTACCATTTTACCCTCGATTTACAGAATTACAGTTTTACCCTCGATTTATAGAATTACT
1 ACAGAATTACCATTTTACCCTCGATTTACAAAATTACAGAAATACCCTAGATTTATAAAATTACT
* *
38446354 ATTTTACCCTTGATTT
66 ATTTTACCCTCGACTT
* *
38446370 ACAGAATTACTATTTTACCCTCGATTTACAAAATTACTA-AAATACCCTTAG-TTTGTAAAATTA
1 ACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-AGAAATACCC-TAGATTTATAAAATTA
38446433 C
64 C
38446434 CAAAATACCC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
80 4 0.03
81 114 0.93
82 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
ACAGAATTACCATTTTACCCTCGATTTACAAAATTACAGAAATACCCTAGATTTATAAAATTACT
ATTTTACCCTCGACTT
Found at i:38446443 original size:54 final size:54
Alignment explanation
Indices: 38446385--38446524 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
38446375 ATTACTATTT
* **
38446385 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
38446439 TACCC-CTAGTTTGTAAAATTA-TCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACT-AAAATACCCTTAGTTTGTAAAATTACCAAAA
*
38446493 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACTAAAATACCC
38446525 CTAATTTACA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.03
54 70 0.96
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:38446547 original size:54 final size:53
Alignment explanation
Indices: 38446385--38446552 Score: 153
Period size: 54 Copynumber: 3.1 Consensus size: 53
38446375 ATTACTATTT
* ** *
38446385 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAG-TT-TACAAATTA-CAGAAA
* * * ** *
38446439 TACCC-CTAGTTTGTAAAATTATCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTAGTTT-ACAAATTACAGAAA
* *
38446493 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTACAAA-TTACAGAAA
38446547 TACCCT
1 TACCCT
38446553 TGACTTTCTA
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 7 0.08
54 82 0.90
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTACAAATTACAGAAA
Found at i:38446548 original size:81 final size:81
Alignment explanation
Indices: 38446400--38446554 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 81
38446390 TCGATTTACA
* * * * **
38446400 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTATCAAA
38446465 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
* *
38446481 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTATCA-A
38446545 AATACCCTTG
65 AATACCCTTG
38446555 ACTTTCTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 2 0.03
81 63 0.97
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTATCAAA
ATACCCTTGGTTTGTG
Found at i:38446732 original size:27 final size:27
Alignment explanation
Indices: 38446655--38446732 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
38446645 AAATGACTAA
* *
38446655 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
38446682 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
38446709 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
38446733 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:38447892 original size:25 final size:25
Alignment explanation
Indices: 38447862--38447909 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38447852 CTATAACATG
* * *
38447862 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38447887 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38447910 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38447993 original size:11 final size:11
Alignment explanation
Indices: 38447957--38448012 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
38447947 CATGGTATGT
38447957 ATGATATGCAC
1 ATGATATGCAC
* *
38447968 ATGACATG--T
1 ATGATATGCAC
38447977 ATGATATGCAC
1 ATGATATGCAC
*
38447988 ATGATATG--T
1 ATGATATGCAC
38447997 ATGATATGCAC
1 ATGATATGCAC
38448008 ATGAT
1 ATGAT
38448013 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:38448012 original size:20 final size:20
Alignment explanation
Indices: 38447946--38448012 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
38447936 ATTTTGATAA
*
38447946 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38447966 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38447986 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38448006 ACATGAT
1 ACATGAT
38448013 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38448092 original size:23 final size:23
Alignment explanation
Indices: 38448062--38448181 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
38448052 AGGAAGTGAA
38448062 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38448085 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
38448109 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38448132 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38448155 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
38448179 AAA
1 AAA
38448182 AGAGGCTAGG
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 48 0.52
24 44 0.48
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:38448117 original size:24 final size:23
Alignment explanation
Indices: 38448061--38448188 Score: 193
Period size: 24 Copynumber: 5.4 Consensus size: 23
38448051 GAGGAAGTGA
38448061 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
38448084 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
38448107 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
38448131 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
38448155 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
38448179 AAAAGAGGCT
1 AAAAG-GGCT
38448189 AGGCCTCCAG
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
23 43 0.44
24 50 0.52
25 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:38448130 original size:47 final size:47
Alignment explanation
Indices: 38448061--38448181 Score: 224
Period size: 47 Copynumber: 2.6 Consensus size: 47
38448051 GAGGAAGTGA
38448061 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
38448108 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
38448155 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
38448182 AGAGGCTAGG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:38448430 original size:31 final size:31
Alignment explanation
Indices: 38448395--38448455 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
38448385 CGTTTACAGT
38448395 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
38448426 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
38448456 AAATATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:38449883 original size:31 final size:30
Alignment explanation
Indices: 38449841--38449903 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
38449831 CCTTTTCATA
*
38449841 TTTCATTTTCATAACACTGGGCCGAAGCCT
1 TTTCATTTTCATAACACTAGGCCGAAGCCT
**
38449871 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCAT-TTTCATAACACTAGGCCGAAGCCT
38449902 TT
1 TT
38449904 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (30 bp):
TTTCATTTTCATAACACTAGGCCGAAGCCT
Found at i:38450149 original size:24 final size:24
Alignment explanation
Indices: 38450097--38450262 Score: 203
Period size: 24 Copynumber: 7.0 Consensus size: 24
38450087 GATTTATCAT
*
38450097 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
38450122 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
*
38450146 ATAACTGGGGGATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
** *
38450169 ATAACTGGGGTGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
38450193 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
38450217 ATAACTGGGGCATAAGCCC-TTAA
1 ATAACTGGGGCATAAGCCCTTTTA
*
38450240 ATAACTGGGGCATTAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38450263 TCACTTCCTT
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
23 40 0.33
24 71 0.58
25 12 0.10
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:38450258 original size:71 final size:70
Alignment explanation
Indices: 38450097--38450262 Score: 226
Period size: 71 Copynumber: 2.3 Consensus size: 70
38450087 GATTTATCAT
* * *
38450097 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGGATAAG
1 ATAACTGG-GGCTTAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
*
38450162 CCCTTTA
64 CCCTTAA
* *
38450169 ATAACTGGGG-TGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 ATAACTGGGGCT-T-AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
38450233 CCCTTAA
64 CCCTTAA
38450240 ATAACTGGGGCATTAGCCCTTTT
1 ATAACTGGGGC-TTAGCCCTTTT
38450263 TCACTTCCTT
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
71 70 0.83
72 13 0.15
73 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (70 bp):
ATAACTGGGGCTTAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCC
CTTAA
Found at i:38450262 original size:47 final size:48
Alignment explanation
Indices: 38450097--38450262 Score: 203
Period size: 47 Copynumber: 3.5 Consensus size: 48
38450087 GATTTATCAT
* * *
38450097 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
* ** *
38450146 ATAACTGGGGGATAAGCCC-TTTAATAACTGGGGTGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
38450193 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTAA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
38450240 ATAACTGGGGCATTAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38450263 TCACTTCCTT
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
47 66 0.65
48 24 0.24
49 12 0.12
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:38450334 original size:9 final size:9
Alignment explanation
Indices: 38450320--38450372 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
38450310 ACATCATGTG
38450320 CATATCATA
1 CATATCATA
38450329 CATATCATA
1 CATATCATA
38450338 TGCATATCATA
1 --CATATCATA
* *
38450349 CATGTCATGTG
1 CATATCA--TA
38450360 CATATCATA
1 CATATCATA
38450369 CATA
1 CATA
38450373 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:38450341 original size:20 final size:20
Alignment explanation
Indices: 38450312--38450378 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
38450302 TTATGATTAC
38450312 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38450332 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38450352 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38450372 ACCATGT
1 ATCATGT
38450379 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:38450343 original size:11 final size:11
Alignment explanation
Indices: 38450312--38450368 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
38450302 TTATGATTAC
*
38450312 ATCATGTGCAT
1 ATCATATGCAT
38450323 ATCATA--CAT
1 ATCATATGCAT
38450332 ATCATATGCAT
1 ATCATATGCAT
38450343 ATCATA--CAT
1 ATCATATGCAT
* *
38450352 GTCATGTGCAT
1 ATCATATGCAT
38450363 ATCATA
1 ATCATA
38450369 CATACCATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:38451700 original size:28 final size:26
Alignment explanation
Indices: 38451617--38451704 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 26
38451607 GGGCATATTC
* * *
38451617 GTCATTTTACCATACAGGGG-TATTACG
1 GTCA-TTTACCCTATAGGGGCT-TTACA
38451644 GTCATTTACCCTATAGGGGCTTTACA
1 GTCATTTACCCTATAGGGGCTTTACA
*
38451670 GTCACTTTACCCTAATAGGGGCATTT-TA
1 GTCA-TTTACCCT-ATAGGGGC-TTTACA
38451698 GTCATTT
1 GTCATTT
38451705 CATCCTACAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
26 21 0.40
27 16 0.30
28 13 0.25
29 3 0.06
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTACCCTATAGGGGCTTTACA
Found at i:38451765 original size:27 final size:27
Alignment explanation
Indices: 38451735--38451786 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
38451725 GTAAATCAAC
38451735 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
38451762 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
38451787 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:38451838 original size:27 final size:27
Alignment explanation
Indices: 38451822--38451950 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
38451812 CTTTGTAAAT
38451822 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
38451848 TTGAGGGTATTTCGGTAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * *
38451876 CAAGGGTATTTTGGTAATTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
38451903 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
38451930 TAAGGGTATTTTAGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
38451951 GTAAATCGAG
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 87 0.98
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:38451962 original size:27 final size:27
Alignment explanation
Indices: 38451743--38451991 Score: 137
Period size: 27 Copynumber: 9.1 Consensus size: 27
38451733 ACAAACCAAA
* * * *
38451743 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
38451770 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * * *
38451799 GGTATTTCT-GTAACTTTGTAAATTAGG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * **
38451826 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
** * * *
38451853 GGTATTTCGGTAATTTCACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * * *
38451880 GGTATTTTGGTAATTTCACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* *
38451907 GGTATTTTGGTAATTTTACAAA-CTAAG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* *
38451934 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
*** * *
38451961 GGTAAAATAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
38451988 GGTA
1 GGTA
38451992 AAACAGTAAT
Statistics
Matches: 182, Mismatches: 33, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 150 0.82
28 15 0.08
29 15 0.08
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:38451974 original size:81 final size:81
Alignment explanation
Indices: 38451822--38451975 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 81
38451812 CTTTGTAAAT
* * * ***
38451822 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAA
*
38451887 TGGTAATTTCACAAAC
66 TAGTAATTTCACAAAC
* *** * *
38451903 TAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAA
38451968 TAGTAATT
66 TAGTAATT
38451976 CTGTAAATCA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAA
TAGTAATTTCACAAAC
Found at i:38451992 original size:27 final size:27
Alignment explanation
Indices: 38451941--38452075 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
38451931 AAGGGTATTT
*
38451941 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
38451968 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
38451995 CAGTAATTCTATAAATCGACGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
38452022 T-GATAATTCTGTAAATCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * *
38452049 CAGTAATTCTGTAAGTCGAAGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
38452076 CGGGGGTAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:38452111 original size:38 final size:38
Alignment explanation
Indices: 38452032--38452113 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
38452022 TGATAATTCT
* * *
38452032 GTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAAG
1 GTAAAACGAGGGTAAAACAGTAATTCTATAAATCGAAG
* ** **
38452070 GTAAAACGGGGGTAAAATGGTAATTCTATAAATCGGGG
1 GTAAAACGAGGGTAAAACAGTAATTCTATAAATCGAAG
38452108 GTAAAA
1 GTAAAA
38452114 TGGTAATTCT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACAGTAATTCTATAAATCGAAG
Found at i:38452147 original size:26 final size:27
Alignment explanation
Indices: 38452071--38452134 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
38452061 AAGTCGAAGG
*
38452071 TAAAACGGGGGTAAAATGGTAATTCTA
1 TAAATCGGGGGTAAAATGGTAATTCTA
*
38452098 TAAATCGGGGGTAAAATGGTAATTCTG
1 TAAATCGGGGGTAAAATGGTAATTCTA
38452125 TAAATCGGGG
1 TAAATCGGGG
38452135 TACTTTGGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.27
Consensus pattern (27 bp):
TAAATCGGGGGTAAAATGGTAATTCTA
Found at i:38452172 original size:27 final size:27
Alignment explanation
Indices: 38452142--38452231 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
38452132 GGGTACTTTG
*
38452142 GTAATTTTACAAGTTGAAGGTATTTCA
1 GTAATTTTACAAATTGAAGGTATTTCA
* *
38452169 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATTGAAGGTATTTCA
* * *
38452196 GTATTTTTACAAACT-AAGCGTATTTCG
1 GTAATTTTACAAATTGAAG-GTATTTCA
38452223 GTAATTTTA
1 GTAATTTTA
38452232 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATTGAAGGTATTTCA
Found at i:38452183 original size:53 final size:54
Alignment explanation
Indices: 38452126--38452231 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
38452116 GTAATTCTGT
* **
38452126 AAATCG-GGGTACTTT-GGTAATTTTACAAGTTGAAG-GTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAAACT-AAGCGTATTTCAGTAATTTTAC
* *
38452179 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGCGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACTAAGCGTATTTCAGTAATTTTA
38452232 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 12 0.27
54 33 0.73
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACTAAGCGTATTTCAGTAATTTTAC
Found at i:38452245 original size:27 final size:27
Alignment explanation
Indices: 38452142--38452246 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
38452132 GGGTACTTTG
**
38452142 GTAATTTTACAAGTTGAAG-GTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* *
38452169 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
38452196 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
38452223 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
38452247 CTAAACAGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
26 3 0.05
27 54 0.83
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:38467943 original size:26 final size:26
Alignment explanation
Indices: 38467914--38467965 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
38467904 TTCCCAATTT
38467914 AATCCTAACTAAACTTAATTATTTTC
1 AATCCTAACTAAACTTAATTATTTTC
38467940 AATCCTAACTAAACTTAATTATTTTC
1 AATCCTAACTAAACTTAATTATTTTC
38467966 TTAATCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
AATCCTAACTAAACTTAATTATTTTC
Found at i:38468376 original size:17 final size:18
Alignment explanation
Indices: 38468340--38468382 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
38468330 TTCTTTCCCT
* *
38468340 TTTTCTTCCCTGTTTTCG
1 TTTTGTTCCCTGTCTTCG
38468358 TTTTGTTCCCTG-CTTCG
1 TTTTGTTCCCTGTCTTCG
38468375 TTTCTGTT
1 TTT-TGTT
38468383 TCTTTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.00, C:0.26, G:0.14, T:0.60
Consensus pattern (18 bp):
TTTTGTTCCCTGTCTTCG
Found at i:38468761 original size:21 final size:21
Alignment explanation
Indices: 38468737--38468805 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
38468727 AATGCTAATA
38468737 ATAATAATTTAATATAAAACC
1 ATAATAATTTAATATAAAACC
* **
38468758 ATAAT--GTTAAT-TAATAATT
1 ATAATAATTTAATATAA-AACC
38468777 ATAATAATTTAATATAAAACC
1 ATAATAATTTAATATAAAACC
38468798 ATAATAAT
1 ATAATAAT
38468806 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.08
19 12 0.32
21 20 0.53
22 3 0.08
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (21 bp):
ATAATAATTTAATATAAAACC
Found at i:38472335 original size:343 final size:343
Alignment explanation
Indices: 38471709--38472395 Score: 1338
Period size: 343 Copynumber: 2.0 Consensus size: 343
38471699 TTATTGAGTT
38471709 GTACATTTCAGAGGTTGTTCGATTACACGGGGTACTTATTTCTATTGTTTCGGATAGAGATCAGA
1 GTACATTTCAGAGGTTGTTCGATTACACGGGGTACTTATTTCTATTGTTTCGGATAGAGATCAGA
38471774 GGTTTACATCATAGTTTTGGAAGAAATTACAAGATGCACTGGGTACAAATTTACATTTCAGTAAT
66 GGTTTACATCATAGTTTTGGAAGAAATTACAAGATGCACTGGGTACAAATTTACATTTCAGTAAT
38471839 ACTTTTCACCCTCAGACGGATGGTCAATCCAAGCGAGTTATACAGTTACTCGAAGATATGATGTG
131 ACTTTTCACCCTCAGACGGATGGTCAATCCAAGCGAGTTATACAGTTACTCGAAGATATGATGTG
*
38471904 TTGTTGTATTTTTGAGTTCGAAGGTACGTGGGAAAAGTATTTGCCGTTGATTGAATTTGCCTATA
196 TTGTTGTATTTTTGAGTTCGAAGGTACGTGGGAAAAGTATTTACCGTTGATTGAATTTGCCTATA
38471969 ACAATAGTTTTCAATCAAGTATTAAGATGGCACCATACGAAGCTCTATACGGTAGTAAATGTCGA
261 ACAATAGTTTTCAATCAAGTATTAAGATGGCACCATACGAAGCTCTATACGGTAGTAAATGTCGA
38472034 ACACCGTTGTACTGGATA
326 ACACCGTTGTACTGGATA
*
38472052 GTACATTTCAGAGGTTGTTCGATTACACGGGGTACTTATTTCTATTGTTTCGGATAGAGATTAGA
1 GTACATTTCAGAGGTTGTTCGATTACACGGGGTACTTATTTCTATTGTTTCGGATAGAGATCAGA
*
38472117 GGTTTACATCATAGTTTTGGAAGAAATTACAAGATGCACTGGGTACAAATTTACATTTCAGTACT
66 GGTTTACATCATAGTTTTGGAAGAAATTACAAGATGCACTGGGTACAAATTTACATTTCAGTAAT
*
38472182 ACTTTTCACCCTCAGACGGATGGTCAATCCAAGCGAGTTATACAGTTACTCGAAGATATGTTGTG
131 ACTTTTCACCCTCAGACGGATGGTCAATCCAAGCGAGTTATACAGTTACTCGAAGATATGATGTG
38472247 TTGTTGTATTTTTGAGTTCGAAGGTACGTGGGAAAAGTATTTACCGTTGATTGAATTTGCCTATA
196 TTGTTGTATTTTTGAGTTCGAAGGTACGTGGGAAAAGTATTTACCGTTGATTGAATTTGCCTATA
38472312 ACAATAGTTTTCAATCAAGTATTAAGATGGCACCATACGAAGCTCTATACGGTAGTAAATGTCGA
261 ACAATAGTTTTCAATCAAGTATTAAGATGGCACCATACGAAGCTCTATACGGTAGTAAATGTCGA
38472377 ACACCGTTGTACTGGATA
326 ACACCGTTGTACTGGATA
38472395 G
1 G
38472396 AGCTTAATGA
Statistics
Matches: 340, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
343 340 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (343 bp):
GTACATTTCAGAGGTTGTTCGATTACACGGGGTACTTATTTCTATTGTTTCGGATAGAGATCAGA
GGTTTACATCATAGTTTTGGAAGAAATTACAAGATGCACTGGGTACAAATTTACATTTCAGTAAT
ACTTTTCACCCTCAGACGGATGGTCAATCCAAGCGAGTTATACAGTTACTCGAAGATATGATGTG
TTGTTGTATTTTTGAGTTCGAAGGTACGTGGGAAAAGTATTTACCGTTGATTGAATTTGCCTATA
ACAATAGTTTTCAATCAAGTATTAAGATGGCACCATACGAAGCTCTATACGGTAGTAAATGTCGA
ACACCGTTGTACTGGATA
Found at i:38476341 original size:43 final size:42
Alignment explanation
Indices: 38476197--38476363 Score: 124
Period size: 43 Copynumber: 3.9 Consensus size: 42
38476187 GGTTACCGAG
* * * * * *
38476197 ATGTGATTACATATAAGAGCATGTCTGAGACATTGGAATTG-TA
1 ATGTGATTACGTGTAAGACCATGTCTG-GATA-TGGCATCGATA
* * * *
38476240 TTGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTA
1 ATGTGATTACGTGTAAGACCATGTCT-GGATA-TGGCATCGATA
*
38476284 AT-CGATTACGTGTAAGACCATGTCTAGGATAGTGGCATCGAT-
1 ATGTGATTACGTGTAAGACCATGTCT-GGATA-TGGCATCGATA
* * *
38476326 ATGTGATAACATGTAAGACCATATCTGGAATATGGCAT
1 ATGTGATTACGTGTAAGACCATGTCTGG-ATATGGCAT
38476364 TGTATGAAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 10 0.10
43 88 0.86
44 4 0.04
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (42 bp):
ATGTGATTACGTGTAAGACCATGTCTGGATATGGCATCGATA
Found at i:38480845 original size:18 final size:18
Alignment explanation
Indices: 38480814--38480867 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
38480804 AAATTTGGGC
*
38480814 CGTGTGGG-CCACACGGG
1 CGTGTGGGAGCACACGGG
*
38480831 CGTGTGGGAGTACACGGG
1 CGTGTGGGAGCACACGGG
38480849 CGTGTGGGAGCACACGGG
1 CGTGTGGGAGCACACGGG
38480867 C
1 C
38480868 AGGCCATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 8 0.24
18 25 0.76
ACGTcount: A:0.15, C:0.24, G:0.48, T:0.13
Consensus pattern (18 bp):
CGTGTGGGAGCACACGGG
Found at i:38481273 original size:23 final size:24
Alignment explanation
Indices: 38481247--38481291 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
38481237 TAATCCACAC
*
38481247 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
38481270 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
38481292 GTAGGACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:38484860 original size:712 final size:711
Alignment explanation
Indices: 38483498--38484926 Score: 2655
Period size: 712 Copynumber: 2.0 Consensus size: 711
38483488 CCACATAGTG
*
38483498 TGTGGAGGCTGGTGCGTAGGATTCTGATTTTCTGCTATTGTATATTGTATCTGAGAAGGGCCAGG
1 TGTGGAGGCTGGTGCGTAGGATTCTGATTTTCTGCTATTGTATATTGTATCTGAGAAGGGCCAAG
38483563 GCCCTAAATTATATCTGAAACTGTATCCGAATTGGCCAAGGCCCAAACTGAATCTGTAATAGGCT
66 GCCCTAAATTATATCTGAAACTGTATCCGAATTGGCCAAGGCCCAAACTGAATCTGTAATAGGCT
38483628 CAGGCCCCAGACTGTAATTGATTATTTTCTGATGTGTATCTGTATGTATGTTTTCTATGGGGATT
131 CAGGCCCCAGACTGTAATTGATTATTTTCTGATGTGTATCTGTATGTATGTTTTCTATGGGGATT
* * *
38483693 ACACACTGATTTGGTGAAAACTCTCCCCTTTTTCTGTTTAATCTGTATAGGTAATCCCTAGACTT
196 ACAAACTGATTTGGCGAAAACTCACCCCTTTTTCTGTTTAATCTGTATAGGTAATCCCTAGACTT
* *
38483758 AGGTGGATCGGTACAGTGGAGGGCTCAACGGTGACCACCACTCCTGAACTGGTTTATTACTGCTT
261 AGGCGGATCGGTACAGTGGAGGGCTCAACGGTGACCACCACTCCTGAACTGGTTTACTACTGCTT
*
38483823 TTGATTTTATATTATCTTTGGTTATTTACTATTGTAATGTTGAGACTTTGGACTGTTTGGTTTAA
326 TTGATTTTATATTATCTTTGGGTATTTACTATTGTAATGTTGAGACTTTGGACTGTTTGGTTTAA
38483888 ACTGGGATTTTATACTGTTTTTATGGATTTTTAAACTGCAACTCAACAAAACATGTTTGTTTTTT
391 ACTGGGATTTTATACTGTTTTTATGGATTTTTAAACTGCAACTCAACAAAACATGTTTGTTTTTT
38483953 TCTAAAAACTAAGATTTTTTGGTTTTGTAAAATAATTGATTTCAAAATCTTCTGCTTAAAAGACA
456 TCTAAAAACTAAGATTTTTTGGTTTTGTAAAATAATTGATTTCAAAATCTTCTGCTTAAAAGACA
*
38484018 TGTTTTAAGCTAAATCAGCTAGTACACGTTTTTCTGAATTAAATAAAAGTTAATTAACTGGAACT
521 TGTTTTAAGCTAAATCAGCTAGTACACATTTTTCTGAATTAAATAAAAGTTAATTAACTGGAACT
*
38484083 GTTTTGACTTGTCAATCTCGATTTCAAACCCCATTCCATGTGACATCGCTTGATTCGGCCATAAC
586 GTTTTGACTTGTCAATCTCGATTTCAAACCCCATTCCATGTGACATCGCTTAATTCGGCCATAAC
*
38484148 ATCTAGGACGAGTTTGGGGTGTTACATTTAGTGGTATCAGAACTAGGTTGTAAAACTCGGC
651 ATCTAGGACGAGTTTAGGGTGTTACATTTAGTGGTATCAGAACTAGGTTGTAAAACTCGGC
38484209 TGTGGAGGCTGGTGCGTAGGATTCTGATTTTCTGCTATTGTATATTGTATCTGAGAAGGGCCAAG
1 TGTGGAGGCTGGTGCGTAGGATTCTGATTTTCTGCTATTGTATATTGTATCTGAGAAGGGCCAAG
*
38484274 GCCCTAAATTTTATCTGAAACTGTATCCGAATTGGCCAAGGCCCAAACTGAATCTGTAATAGGCT
66 GCCCTAAATTATATCTGAAACTGTATCCGAATTGGCCAAGGCCCAAACTGAATCTGTAATAGGCT
*
38484339 CAGGCCCCAGACTGTAATTGATTATTTTTTGATGTAGTATCTGTATGTATGTTTTCTATGGGGAT
131 CAGGCCCCAGACTGTAATTGATTATTTTCTGATGT-GTATCTGTATGTATGTTTTCTATGGGGAT
38484404 TACAAACTGAGTTT-GCGAAAACTCACCCCTTTTTCTGTTTAATCTGTATAGGTAATCCCTAGAC
195 TACAAACTGA-TTTGGCGAAAACTCACCCCTTTTTCTGTTTAATCTGTATAGGTAATCCCTAGAC
* *
38484468 TTAGGCGGATCGGTGCAGTGGAGGGTTCAACGGTGACCACCACTCCTGAACTGGTTTACTACTGC
259 TTAGGCGGATCGGTACAGTGGAGGGCTCAACGGTGACCACCACTCCTGAACTGGTTTACTACTGC
38484533 TTTTGATTTTATATTATCTTTGGGTATTTACTATTGTAATGTTGAGACTTTGGACTGTTTGGTTT
324 TTTTGATTTTATATTATCTTTGGGTATTTACTATTGTAATGTTGAGACTTTGGACTGTTTGGTTT
38484598 AAACTGGGATTTTATACTGTTTTTATGGATTTTTAAACTGCAACTCAACAAAACATGTTTGTTTT
389 AAACTGGGATTTTATACTGTTTTTATGGATTTTTAAACTGCAACTCAACAAAACATGTTTGTTTT
38484663 TTTCTAAAAACTAAGATTTTTTGGTTTTGTAAAATAATTGATTTCAAAATCTTCTGCTTAAAAGA
454 TTTCTAAAAACTAAGATTTTTTGGTTTTGTAAAATAATTGATTTCAAAATCTTCTGCTTAAAAGA
*
38484728 CATGTTTTAAGCTAAATCAGCTAGTTCACATTTTTCTGAATTAAATAAAAGTTAATTAACTGGAA
519 CATGTTTTAAGCTAAATCAGCTAGTACACATTTTTCTGAATTAAATAAAAGTTAATTAACTGGAA
*
38484793 -TGGTTTTGACTTGTCAATCTTGATTTCAAACCCCATTCCATGTGACATCGCTTAATTCGGCCAT
584 CT-GTTTTGACTTGTCAATCTCGATTTCAAACCCCATTCCATGTGACATCGCTTAATTCGGCCAT
* *
38484857 AACATCTAGGACGGGTTTAGGGTGTTACATTTAGTGGTATCAGAACTAGGTTGTAAAACTTGGC
648 AACATCTAGGACGAGTTTAGGGTGTTACATTTAGTGGTATCAGAACTAGGTTGTAAAACTCGGC
38484921 TGTGGA
1 TGTGGA
38484927 TTATGGGTTT
Statistics
Matches: 697, Mismatches: 18, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
711 163 0.23
712 531 0.76
713 3 0.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (711 bp):
TGTGGAGGCTGGTGCGTAGGATTCTGATTTTCTGCTATTGTATATTGTATCTGAGAAGGGCCAAG
GCCCTAAATTATATCTGAAACTGTATCCGAATTGGCCAAGGCCCAAACTGAATCTGTAATAGGCT
CAGGCCCCAGACTGTAATTGATTATTTTCTGATGTGTATCTGTATGTATGTTTTCTATGGGGATT
ACAAACTGATTTGGCGAAAACTCACCCCTTTTTCTGTTTAATCTGTATAGGTAATCCCTAGACTT
AGGCGGATCGGTACAGTGGAGGGCTCAACGGTGACCACCACTCCTGAACTGGTTTACTACTGCTT
TTGATTTTATATTATCTTTGGGTATTTACTATTGTAATGTTGAGACTTTGGACTGTTTGGTTTAA
ACTGGGATTTTATACTGTTTTTATGGATTTTTAAACTGCAACTCAACAAAACATGTTTGTTTTTT
TCTAAAAACTAAGATTTTTTGGTTTTGTAAAATAATTGATTTCAAAATCTTCTGCTTAAAAGACA
TGTTTTAAGCTAAATCAGCTAGTACACATTTTTCTGAATTAAATAAAAGTTAATTAACTGGAACT
GTTTTGACTTGTCAATCTCGATTTCAAACCCCATTCCATGTGACATCGCTTAATTCGGCCATAAC
ATCTAGGACGAGTTTAGGGTGTTACATTTAGTGGTATCAGAACTAGGTTGTAAAACTCGGC
Found at i:38491698 original size:11 final size:11
Alignment explanation
Indices: 38491678--38491707 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
38491668 CTAAATTTGG
*
38491678 AAAATCATAAA
1 AAAATAATAAA
38491689 AAAATAATAAA
1 AAAATAATAAA
38491700 AAAATAAT
1 AAAATAAT
38491708 TAGGGGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:38498626 original size:39 final size:39
Alignment explanation
Indices: 38498572--38498653 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
38498562 AATTAACCTT
38498572 AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
1 AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
*
38498611 AAAAAAACAACTTAAACTTTTAACGGTCTAGTAGTATTG
1 AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
38498650 AAAA
1 AAAA
38498654 TCTATAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (39 bp):
AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
Found at i:38506253 original size:28 final size:27
Alignment explanation
Indices: 38506217--38506288 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 27
38506207 TATTAAATTG
* *
38506217 TTTAGTTTTAGTTATTTATTGATT-TTAA
1 TTTATTTTTA-TTATTT-TTCATTATTAA
38506245 TTTATTTTTTATTATTTTTCATTATTAA
1 TTTA-TTTTTATTATTTTTCATTATTAA
38506273 -TT-TTTTTATTATTTTT
1 TTTATTTTTATTATTTTT
38506289 TGTTTCCTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 14 0.35
27 7 0.17
28 14 0.35
29 5 0.12
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.72
Consensus pattern (27 bp):
TTTATTTTTATTATTTTTCATTATTAA
Found at i:38506271 original size:13 final size:11
Alignment explanation
Indices: 38506249--38506289 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
38506239 TTTTAATTTA
38506249 TTTTTTATTAT
1 TTTTTTATTAT
38506260 TTTTCATTATTAAT
1 TTTT--TTATT-AT
38506274 TTTTTTATTAT
1 TTTTTTATTAT
38506285 TTTTT
1 TTTTT
38506290 GTTTCCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.41
12 5 0.19
13 5 0.19
14 6 0.22
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:38511030 original size:18 final size:18
Alignment explanation
Indices: 38511009--38511047 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
38510999 TGGGCCATAT
38511009 GGGCGTGTGAGTCCACAC
1 GGGCGTGTGAGTCCACAC
*
38511027 GGGCGTGTGGGTCCACAC
1 GGGCGTGTGAGTCCACAC
38511045 GGG
1 GGG
38511048 TAGTCTACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.46, T:0.15
Consensus pattern (18 bp):
GGGCGTGTGAGTCCACAC
Found at i:38513597 original size:34 final size:34
Alignment explanation
Indices: 38513515--38513599 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
38513505 CAGTACTATT
* * * *
38513515 TAGTGTACTGGATGGTTTAGCTCATACTAGCATT
1 TAGTGTGCTGGATGGATTAGCTCATACGAGCATC
* * *
38513549 TGGTATGCTGGATGGATTAGCTCATACGAGTATC
1 TAGTGTGCTGGATGGATTAGCTCATACGAGCATC
*
38513583 TAGTGTGCTAGATGGAT
1 TAGTGTGCTGGATGGAT
38513600 AACGTGTACT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (34 bp):
TAGTGTGCTGGATGGATTAGCTCATACGAGCATC
Found at i:38514942 original size:21 final size:21
Alignment explanation
Indices: 38514913--38514953 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38514903 TCAATATCGG
38514913 ACTAAAGTATTAATAATTTAT
1 ACTAAAGTATTAATAATTTAT
* * *
38514934 ACTAGAGTATTGATACTTTA
1 ACTAAAGTATTAATAATTTA
38514954 CAAGGGTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (21 bp):
ACTAAAGTATTAATAATTTAT
Found at i:38516759 original size:31 final size:31
Alignment explanation
Indices: 38516718--38516791 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
38516708 AGGGAATCTA
* *
38516718 GTGGGTGGTTATTTGTGGGACTTAGTGGGAT
1 GTGGGTGGTTAATTATGGGACTTAGTGGGAT
*
38516749 GTGGATGGTTAATTATGGGACTTAGTGGGAT
1 GTGGGTGGTTAATTATGGGACTTAGTGGGAT
38516780 GTGGGTGGTTAA
1 GTGGGTGGTTAA
38516792 GAAATTATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.03, G:0.43, T:0.36
Consensus pattern (31 bp):
GTGGGTGGTTAATTATGGGACTTAGTGGGAT
Found at i:38522859 original size:27 final size:27
Alignment explanation
Indices: 38522829--38523269 Score: 623
Period size: 27 Copynumber: 16.3 Consensus size: 27
38522819 CAAAATTATC
* * *
38522829 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38522856 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38522883 -AAAGTACCCCTGTAGGGTAGAATTACC
1 GAAA-TACCCCTGTAGGGTAGAATTACT
*
38522910 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
38522937 AAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
38522964 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38522991 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
38523018 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
38523045 GAAATACGCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38523072 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
38523099 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
38523126 AAAATACCTCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
38523153 AAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
38523180 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
38523207 GAAATACTCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38523234 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38523261 GAGATACCC
1 GAAATACCC
38523270 TTGTGGGAAA
Statistics
Matches: 375, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
26 3 0.01
27 369 0.98
28 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:38523575 original size:27 final size:26
Alignment explanation
Indices: 38523531--38523582 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38523521 CTCGCTGCAA
*
38523531 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
38523558 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
38523583 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:38523620 original size:67 final size:67
Alignment explanation
Indices: 38523512--38523687 Score: 289
Period size: 67 Copynumber: 2.6 Consensus size: 67
38523502 GAGGAAACGT
*
38523512 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTATGGTGACTTCGTCACAA
38523577 TA
66 TA
* * * *
38523579 TCTGGCAGCCTCGCTGCAATCTAGTGGCCTCACCACATATATCTGTTATGGTGACTTTGTTACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTATGGTGACTTCGTCACAA
38523644 TA
66 TA
* *
38523646 TCTGGCAGCTTCGCTGCAATCTGGTGGCTTCGCCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATAT
38523688 ATATCTGTTC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 100 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTATGGTGACTTCGTCACAA
TA
Found at i:38523901 original size:31 final size:31
Alignment explanation
Indices: 38523866--38523944 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
38523856 TAGCATTCAC
*
38523866 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTG
*
38523897 ATTCT-ATTTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTT-TGATTCTGTCACCTGATACTG
*
38523928 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
38523945 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 4 0.09
31 36 0.84
32 3 0.07
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTG
Found at i:38523913 original size:6 final size:6
Alignment explanation
Indices: 38523866--38523953 Score: 67
Period size: 6 Copynumber: 14.3 Consensus size: 6
38523856 TAGCATTCAC
* *
38523866 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCT- ATTTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG A-TTCTG ATTCTG
*
38523915 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
38523954 AATATTTCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
5 5 0.08
6 51 0.77
7 8 0.12
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:38526163 original size:18 final size:18
Alignment explanation
Indices: 38526142--38526176 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38526132 ATACAAATAA
* *
38526142 TACAATTAATATTAACAT
1 TACAAATAATATAAACAT
38526160 TACAAATAATATAAACA
1 TACAAATAATATAAACA
38526177 ATAAAAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
TACAAATAATATAAACAT
Found at i:38526179 original size:27 final size:27
Alignment explanation
Indices: 38526128--38526179 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
38526118 ATAAGTAACC
**
38526128 AACAATACAAATAATACAATTAATATT
1 AACAATACAAATAATACAAACAATATT
* *
38526155 AACATTACAAATAATATAAACAATA
1 AACAATACAAATAATACAAACAATA
38526180 AAAAACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (27 bp):
AACAATACAAATAATACAAACAATATT
Found at i:38526930 original size:32 final size:35
Alignment explanation
Indices: 38526894--38526965 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 35
38526884 GACTACTAAG
38526894 GTAAAT-CCCTAC-T-TTTTATTTTAAAATTTCAT
1 GTAAATCCCCTACTTCTTTTATTTTAAAATTTCAT
* *
38526926 GTAAATCCCCTTCTTTCTTTTGTTTTAAAATTTCAT
1 GTAAATCCCCTAC-TTCTTTTATTTTAAAATTTCAT
38526962 GTAA
1 GTAA
38526966 TCCTAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 6 0.18
33 5 0.15
35 1 0.03
36 22 0.65
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (35 bp):
GTAAATCCCCTACTTCTTTTATTTTAAAATTTCAT
Found at i:38532908 original size:64 final size:64
Alignment explanation
Indices: 38532807--38532933 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
38532797 TGTATCATGC
* *
38532807 TTATGCCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGC-TCCTAACTAGATGTGATGT
1 TTATGCCAAATAATTAGAATGCTATGATCAAAATGAATCAAATGCAT-CTAACTAGATGTGATGT
*
38532871 TTATGTCAAATAATTAGAATGCTATGATCAAAATGAATCAAATGCATCTAACTAGATGTGATG
1 TTATGCCAAATAATTAGAATGCTATGATCAAAATGAATCAAATGCATCTAACTAGATGTGATG
38532934 AATGATATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 58 0.98
65 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (64 bp):
TTATGCCAAATAATTAGAATGCTATGATCAAAATGAATCAAATGCATCTAACTAGATGTGATGT
Found at i:38534087 original size:21 final size:21
Alignment explanation
Indices: 38534061--38534121 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
38534051 TTCTTTCTTC
*
38534061 TTCTTTTTTTTTGATTTTTAT
1 TTCTTTTTTTTTGATTTTTAA
*
38534082 TTCTTTTTTGATT--TTTTTAA
1 TTCTTTTTT-TTTGATTTTTAA
38534102 TTCTTTTTTTTTGAATTTTT
1 TTCTTTTTTTTTG-ATTTTT
38534122 TAAGGTCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.06
20 15 0.45
21 9 0.27
22 7 0.21
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (21 bp):
TTCTTTTTTTTTGATTTTTAA
Found at i:38534108 original size:18 final size:18
Alignment explanation
Indices: 38534067--38534108 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
38534057 CTTCTTCTTT
**
38534067 TTTTTTGATTTTTATTTC
1 TTTTTTGATTTTTATTAA
38534085 TTTTTTGATTTTT-TTAA
1 TTTTTTGATTTTTATTAA
38534102 TTCTTTT
1 TT-TTTT
38534109 TTTTTGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTTGATTTTTATTAA
Found at i:38534111 original size:23 final size:22
Alignment explanation
Indices: 38534061--38534124 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
38534051 TTCTTTCTTC
38534061 TTCTTTTTTTTTGA-TTTTT-A
1 TTCTTTTTTTTTGATTTTTTAA
*
38534081 -T-TTCTTTTTTGATTTTTTTAA
1 TTCTTTTTTTTTGA-TTTTTTAA
38534102 TTCTTTTTTTTTGAATTTTTTAA
1 TTCTTTTTTTTTG-ATTTTTTAA
38534125 GGTCTCAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 10 0.28
19 1 0.03
20 5 0.14
21 1 0.03
22 1 0.03
23 17 0.47
24 1 0.03
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (22 bp):
TTCTTTTTTTTTGATTTTTTAA
Found at i:38534699 original size:20 final size:20
Alignment explanation
Indices: 38534663--38534703 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
38534653 TTTGCTTTTC
38534663 CTTTTTTTTTCTATTTTTGAA
1 CTTTTTTTTTC-ATTTTTGAA
38534684 CTTTTGTTTTTC-TTTTTGAA
1 CTTTT-TTTTTCATTTTTGAA
38534704 TGCCTTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (20 bp):
CTTTTTTTTTCATTTTTGAA
Found at i:38539801 original size:18 final size:18
Alignment explanation
Indices: 38539780--38539814 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38539770 ATACAAATAA
* *
38539780 TACAATTAATATTAACAT
1 TACAAATAATATAAACAT
38539798 TACAAATAATATAAACA
1 TACAAATAATATAAACA
38539815 ATAAAAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
TACAAATAATATAAACAT
Done.