Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 28
Found at i:688253 original size:25 final size:26
Alignment explanation
Indices: 688217--688270 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
688207 TTAAATGCCA
*
688217 TTAAATAAATAA-ATATTTTTTTTATT
1 TTAAATAAATAATATA-TTTATTTATT
*
688243 TTAAA-AAATAATCTATTTATTTATT
1 TTAAATAAATAATATATTTATTTATT
688268 TTA
1 TTA
688271 CAAACCTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAAATAAATAATATATTTATTTATT
Found at i:689067 original size:17 final size:18
Alignment explanation
Indices: 689034--689067 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
689024 CCGTTATTAA
689034 TGAACCGGTCAGAACCGT
1 TGAACCGGTCAGAACCGT
*
689052 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
689068 GACTGACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGT
Found at i:689221 original size:29 final size:29
Alignment explanation
Indices: 689188--689258 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
689178 TATTGCTGAG
689188 CTCGACTCAAACTTTAAAAGTAAGCTCAA
1 CTCGACTCAAACTTTAAAAGTAAGCTCAA
689217 CTCGACTCAAACTTTAAAAGTAAGCTCAA
1 CTCGACTCAAACTTTAAAAGTAAGCTCAA
689246 CTCGACTCAAACT
1 CTCGACTCAAACT
689259 CACGAACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (29 bp):
CTCGACTCAAACTTTAAAAGTAAGCTCAA
Found at i:694791 original size:30 final size:30
Alignment explanation
Indices: 694723--694797 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
694713 TGTTAGATGG
* *
694723 GGTAGGTCGCCATGCACGCTCAGCGACCTA
1 GGTAGGTCGCCATGCACGCCCAACGACCTA
**
694753 -CCAGGTCGCCATGCACGCCCAACGACCTA
1 GGTAGGTCGCCATGCACGCCCAACGACCTA
694782 GGTAGGTCGCCATGCA
1 GGTAGGTCGCCATGCA
694798 ATCCATGTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 25 0.66
30 13 0.34
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.15
Consensus pattern (30 bp):
GGTAGGTCGCCATGCACGCCCAACGACCTA
Found at i:694809 original size:17 final size:17
Alignment explanation
Indices: 694787--694821 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
694777 ACCTAGGTAG
694787 GTCGCCATGCAATCCAT
1 GTCGCCATGCAATCCAT
694804 GTCGCCATGCAATCCAT
1 GTCGCCATGCAATCCAT
694821 G
1 G
694822 CTTGACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (17 bp):
GTCGCCATGCAATCCAT
Found at i:700342 original size:76 final size:74
Alignment explanation
Indices: 700198--700369 Score: 202
Period size: 76 Copynumber: 2.3 Consensus size: 74
700188 ATAATATTTC
* * * * *
700198 GATTGCAACCGAAAATATTACATTCTTCATAACATTTTTAATTATAACTCTAAACCCACCGTAGT
1 GATTACAACCGAAAATATTACATTCTTCATAACATTTTCAACTATAACTCTAAACCCACCATAAT
700263 TTAACTTTTT
66 TTAAC-TTTT
* * * * * *
700273 AGTTTACAACCGAAAATATTACATTCTTCATAACATTTTCGACTGTAAGTCCTAAACTC-TCATA
1 -GATTACAACCGAAAATATTACATTCTTCATAACATTTTCAACTATAACT-CTAAACCCACCATA
700337 ATTTAACTTTT
64 ATTTAACTTTT
*
700348 GATTGCAACCGAAAATATTACA
1 GATTACAACCGAAAATATTACA
700370 AATTTTTAAG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
74 20 0.24
75 4 0.05
76 51 0.62
77 7 0.09
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.37
Consensus pattern (74 bp):
GATTACAACCGAAAATATTACATTCTTCATAACATTTTCAACTATAACTCTAAACCCACCATAAT
TTAACTTTT
Found at i:708441 original size:22 final size:23
Alignment explanation
Indices: 708413--708465 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
708403 GGACGAAATT
*
708413 ACTGTAGCAAGGGTATCGGTA-C
1 ACTGTAGCAAGGGTATCGATACC
708435 ACTGTAGC-AGGGTATCGATACC
1 ACTGTAGCAAGGGTATCGATACC
*
708457 CCTGTAGCA
1 ACTGTAGCA
708466 TTCTGGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (23 bp):
ACTGTAGCAAGGGTATCGATACC
Found at i:711819 original size:19 final size:19
Alignment explanation
Indices: 711797--711843 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
711787 ATTTTATACT
* *
711797 ATTGAAAATATTAATTAAA
1 ATTGAAAAAATAAATTAAA
*
711816 ATTGAAAAAATAAATTAAG
1 ATTGAAAAAATAAATTAAA
*
711835 ATAGAAAAA
1 ATTGAAAAA
711844 CTCTTCTAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATTGAAAAAATAAATTAAA
Found at i:716196 original size:61 final size:60
Alignment explanation
Indices: 716127--716241 Score: 212
Period size: 61 Copynumber: 1.9 Consensus size: 60
716117 CATCCGTTTT
*
716127 TGTCCAGGTCTATAAAAACATTTTATTATATTATATATTTATTTATTTATTATTATTAATA
1 TGTCCAGGTCTATAAAAACATTATATTATATTATATATTTATTTA-TTATTATTATTAATA
716188 TGTCCAGGTCTATAAAAACATTATATTATATTATATATTTATTTATTATTATTA
1 TGTCCAGGTCTATAAAAACATTATATTATATTATATATTTATTTATTATTATTA
716242 ATATATTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
60 9 0.17
61 44 0.83
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (60 bp):
TGTCCAGGTCTATAAAAACATTATATTATATTATATATTTATTTATTATTATTATTAATA
Found at i:716233 original size:22 final size:22
Alignment explanation
Indices: 716208--716261 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
716198 TATAAAAACA
*
716208 TTATATTATATTATATATTTAT
1 TTATATTATAATATATATTTAT
*
716230 TTATTATTATTAATATATTTTTAT
1 TTA-TATTA-TAATATATATTTAT
716254 TT-TATTAT
1 TTATATTAT
716262 TTTTACAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 1 0.04
22 8 0.29
23 5 0.18
24 14 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATATTATAATATATATTTAT
Found at i:716262 original size:14 final size:16
Alignment explanation
Indices: 716216--716266 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
716206 CATTATATTA
*
716216 TATTATATATTTATTTAT
1 TATTAT-TAATTATTT-T
716234 TATTATTAATATATTTT
1 TATTATTAAT-TATTTT
716251 TATT-TT-ATTATTTT
1 TATTATTAATTATTTT
716265 TA
1 TA
716267 CAGGCCATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 8 0.26
15 2 0.06
16 2 0.06
17 8 0.26
18 11 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTATTAATTATTTT
Found at i:716262 original size:22 final size:22
Alignment explanation
Indices: 716207--716262 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
716197 CTATAAAAAC
716207 ATTATATTA-TATTATATATTT
1 ATTATATTATTATTATATATTT
716228 ATT-TATTATTATTAATATATTT
1 ATTATATTATTATT-ATATATTT
*
716250 -TTATTTTATTATT
1 ATTATATTATTATT
716263 TTTACAGGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 5 0.16
21 9 0.29
22 17 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTATATTATTATTATATATTT
Found at i:716358 original size:33 final size:32
Alignment explanation
Indices: 716312--716397 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 32
716302 TTCAAAAAAT
*
716312 AAACCAACGTATTTGAGTCTGATTGAAACACTA
1 AAACCAACATATTTGAGTCT-ATTGAAACACTA
*
716345 AAACCAACATATTTGAGTCCTATTGAAATACTA
1 AAACCAACATATTTGAGT-CTATTGAAACACTA
*
716378 AAATCGAAGCAT-TTTGAGTC
1 AAA-CCAA-CATATTTGAGTC
716398 CAAGTAGGAC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
33 32 0.68
34 12 0.26
35 3 0.06
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (32 bp):
AAACCAACATATTTGAGTCTATTGAAACACTA
Found at i:716748 original size:26 final size:25
Alignment explanation
Indices: 716682--716751 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
716672 CTTTTTATTT
*
716682 TATTTTTTTATTTATTTACTTTATA
1 TATTTTTTTATTTCTTTACTTTATA
* *
716707 TATATTTTTCATTTTCTCTTAATTT-TAA
1 TAT-TTTTTTA-TTTCT-TTACTTTAT-A
716735 TATTTTTTTATTTCTTT
1 TATTTTTTTATTTCTTT
716752 TTACATTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 5 0.14
26 11 0.30
27 11 0.30
28 10 0.27
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (25 bp):
TATTTTTTTATTTCTTTACTTTATA
Found at i:720705 original size:110 final size:110
Alignment explanation
Indices: 720512--721480 Score: 1506
Period size: 110 Copynumber: 8.8 Consensus size: 110
720502 GATGGTGGTT
* *
720512 GCTCAACTTCACAGAGAAGGGGCGACTGACGGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
720577 AATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
* * *
720622 GCTCAACTTCATAGCGAAGGGGTGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
720687 AATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
*
720732 GCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
720797 AATTTCAATTTCACAGCGAATGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
* *
720842 GCTCAACTTCACAGTGAAGGGGC-AGCT-ATCTGTCAACAAATAACTTTTCAGTTTCATTCAGAG
1 GCTCAACTTCACAGCGAAGGGGCGA-CTGA-CTGTCAACAAACAACTTTTCAGTTTCATTCAGAG
*
720905 TCAATTTCAACTTCACAGTGAATGATATTGGACTCGAGACAACACAA
64 TCAATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
* * * * *
720952 GCTCAACTTCATAGAGAAGAGGCGACTGACTGTCAACAAATAACTTTTTAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
721017 AATTTCAACTTCACAGCGAAAGATATTGAACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
* * * * *
721062 GCTCAACTTCACAGCGAAGGGGCGACTAAATGTCAACAATCAACTTTTTAGTTTCATTTAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
721127 AATTTCAACTTCACAGC-AATGATATTGGACTAGAGACAACACAA
66 AATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
721171 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
721236 AATTTCAACTTCACAGTGAAAGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
* * * *
721281 GCTCAACTTCACA-CTGAAGGGGCGACTGATTGTCAACAAACAACTTTTTAGTTTTATTTAGAGT
1 GCTCAACTTCACAGC-GAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
**
721345 CAATTTCAACTTCACAGCGAATGATAATTGCTCTCGAGACAACACAA
65 CAATTTCAACTTCACAGCGAATGAT-ATTGGACTCGAGACAACACAA
* * *
721392 GCTCAACTTCACTGCGAAGGGGCGACTGACTGTTAACAAACAAC-TTTC----TAATTTCAGAGT
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA-TTCAGAGT
* *
721452 CAATTTCAACTTCACGGCGAAGGATATTG
65 CAATTTCAACTTCACAGCGAATGATATTG
721481 CCTCTAATCA
Statistics
Matches: 793, Mismatches: 57, Indels: 22
0.91 0.07 0.03
Matches are distributed among these distances:
106 6 0.01
107 30 0.04
109 102 0.13
110 594 0.75
111 60 0.08
112 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
Found at i:721850 original size:84 final size:83
Alignment explanation
Indices: 721603--722125 Score: 496
Period size: 84 Copynumber: 6.3 Consensus size: 83
721593 AATTGTGCCC
* * * * * *
721603 ACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCAAAGGCACAACATTTGCAGTATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGT
* ***
721668 CGAGAAGGGTTATATACCA
66 CGAGAAGGGTTATCT-GTG
* * * * * * * * *
721687 ACCGAAGACCCTCGATTTCGATTACACTCAGCTTCGAGGGAACATCATTTACAACATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCGAAGGCACATCATTTACAGCATAACTTAAG
* *
721752 GCTTA-AAGGGTTATCTGTG
65 TC-GAGAAGGGTTATCTGTG
* * *
721771 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAG
***
721836 TCGAGAAGGGTTATCTACCA
65 TCGAGAAGGGTTATCT-GTG
* ** *
721856 ACCAAAGACCTTCGAGTTCGATTACGCTCAGCTTAAAGGCACATCATTTACAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGT
* *
721921 CAATAAGGGTTATC--TG
66 CGAGAAGGGTTATCTGTG
* * * * * * * *
721937 -CCAAAGGCCATCGAGTTCGATTACACTCAGTTTCGAGGGCACATCATTTACAGAATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAG-CTCGAAGGCACATCATTTACAGCATAACTTAAG
* *
722001 GCTAGAAGGGTTATCTGTG
65 TCGAGAAGGGTTATCTGTG
* * * *
722020 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAG
**
722085 TCGAGAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTG-TG
*
722105 ACCAAAGACCTTCAAGTTCGA
1 ACCAAAGACCTTCGAGTTCGA
722126 AAGGCATATC
Statistics
Matches: 350, Mismatches: 78, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
80 27 0.08
81 38 0.11
83 3 0.01
84 193 0.55
85 88 0.25
86 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGT
CGAGAAGGGTTATCTGTG
Found at i:722030 original size:165 final size:163
Alignment explanation
Indices: 721604--722105 Score: 502
Period size: 165 Copynumber: 3.0 Consensus size: 163
721594 ATTGTGCCCA
* * * * * * * * * *
721604 CCAAAGACCTTCGAGTTTGACTACGCTCAGCTCAAAGGCACAACATTTGCAGTATAGCTTAAGTC
1 CCAAAGACCATCGAGTTCGACTACACTCAGCTCGAAGGCACATCATTTACAGAATAACTCAAGGC
* * * * * * * *
721669 GAGAAGGGTTATATACCAACCGAAGACCCTCGATTTCGATTACACTCAGCTTCGAGGGAACATCA
66 GAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTT-AAAGGCACATCA
* * *
721734 TTTACAACATAACTCAAGGCTTAAAGGGTTATCTGTG
130 TTTACAACATAACTTAAGTCAT-AAGGGTTATC--TG
* * * * * * *
721771 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAG
1 -CC-AAAGACCATCGAGTTCGACTACACTCAGCTCGAAGGCACATCATTTACAGAATAACTCAAG
*
721836 TCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTTAAAGGCACATC
64 GCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTTAAAGGCACATC
* *
721901 ATTTACAGCATAGCTTAAGTCAATAAGGGTTATCTG
129 ATTTACAACATAACTTAAGTC-ATAAGGGTTATCTG
* * * *
721937 CCAAAGGCCATCGAGTTCGATTACACTCAGTTTCGAGGGCACATCATTTACAGAATAACTCAAGG
1 CCAAAGACCATCGAGTTCGACTACACTCAG-CTCGAAGGCACATCATTTACAGAATAACTCAAGG
* *** * ** *
722002 CTAGAAGGGTTATCT-GTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
65 CGAGAAGGGTTATCTACCAACC-AAAGACCTTCGAGTTCGATTACGCTCAGCTTAAAGGCACATC
* *
722066 ATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTG
129 ATTTACAACATAACTTAAGTC-ATAAGGGTTATCTG
722102 CCAA
1 CCAA
722106 CCAAAGACCT
Statistics
Matches: 286, Mismatches: 44, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
164 27 0.09
165 115 0.40
166 2 0.01
168 37 0.13
169 105 0.37
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (163 bp):
CCAAAGACCATCGAGTTCGACTACACTCAGCTCGAAGGCACATCATTTACAGAATAACTCAAGGC
GAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTTAAAGGCACATCAT
TTACAACATAACTTAAGTCATAAGGGTTATCTG
Found at i:722045 original size:249 final size:247
Alignment explanation
Indices: 721603--722358 Score: 913
Period size: 249 Copynumber: 3.1 Consensus size: 247
721593 AATTGTGCCC
* * * *
721603 ACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCAAAGGCACAACATTTGCAGTATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGATTACGCTCAGCT-AAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * *
721668 CGAGAAGGGTTATATACCAACCGAAGACCCTCGATTTCGATTACACTCAGCTTCGAGGGAACATC
65 CAAGAAGGGTTATCTACC-A---AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
721733 ATTTACA-ACATAACTCAAGGCTTA-AAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTA
126 ATTTACAGA-ATAACTCAAGGC-TAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTA
*
721796 CGCTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCA
189 CGCTCAGCTCAAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-CCA
*
721856 ACCAAAGACCTTCGAGTTCGATTACGCTCAGCTTAAAGGCACATCATTTACAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGATTACGCTCAGC-TAAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * * *
721921 CAATAAGGGTTATCTGCCAAAGGCCATCGAGTTCGATTACACTCAGTTTCGAGGGCACATCATTT
65 CAAGAAGGGTTATCTACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
721986 ACAGAATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
130 ACAGAATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
* *
722051 GCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCA
195 GCTCAAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-CCA
* *
722105 ACCAAAGA-C--C---TTC-A--A-GTTC-G--AAAGGCATATCATTTGCAGCATAGCTTAAGTC
1 ACCAAAGACCTTCGAGTTCGATTACGCTCAGCTAAAGGCACATCATTTGCAGCATAGCTTAAGTC
* * * *
722157 TAGAAGGGATATCTTCCAAAGACCCTCGAGTTCGATTACACTTAGCTTCGAGGGCACATCATTTA
66 AAGAAGGGTTATCTACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
* * * * * * * * *
722222 CGGCATAACTCAAGGCTAGAAAGGTTATCTGTCA-AAAAAGACCTTTGAGTTCGACTTCACTCAC
131 CAGAATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * * *
722286 CTCAAAGGCACCATCATTTACAGCAT-AGTTCAAGGCAAGAAGGGCTATCT---
196 CTCAAAGGCA-TATCATTTGCAGCATAACTT-AAGTCGAGAAGGGTTATCTCCA
*
722336 GCCAAAGACCTTCGAGTTCGATT
1 ACCAAAGACCTTCGAGTTCGATT
722359 CTATTCAGCT
Statistics
Matches: 443, Mismatches: 46, Indels: 41
0.84 0.09 0.08
Matches are distributed among these distances:
231 7 0.02
232 1 0.00
234 38 0.09
235 145 0.33
237 3 0.01
238 2 0.00
239 3 0.01
240 1 0.00
242 1 0.00
243 3 0.01
246 1 0.00
248 3 0.01
249 160 0.36
250 1 0.00
252 1 0.00
253 72 0.16
254 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (247 bp):
ACCAAAGACCTTCGAGTTCGATTACGCTCAGCTAAAGGCACATCATTTGCAGCATAGCTTAAGTC
AAGAAGGGTTATCTACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
CAGAATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAG
CTCAAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTCCA
Found at i:722304 original size:235 final size:235
Alignment explanation
Indices: 721890--722340 Score: 627
Period size: 235 Copynumber: 1.9 Consensus size: 235
721880 CGCTCAGCTT
* * *
721890 AAAGGCACATCATTTACAGCATAGCTTAAGTCAATAAGGGTTATCTGCCAAAGGCCATCGAGTTC
1 AAAGGCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGATATCTGCCAAAGACCATCGAGTTC
* * *
721955 GATTACACTCAGTTTCGAGGGCACATCATTTACAGAATAACTCAAGGCTAGAAGGGTTATCTGTG
66 GATTACACTCAGCTTCGAGGGCACATCATTTACAGAATAACTCAAGGCTAGAAAGGTTATCTGTC
* * * * * *
722020 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAACTT-AA
131 ACAAAAAGACCTTCGAGTTCGACTACACTCACCTCAAAGGCACATCATTTACAACAT-ACTTCAA
* * *
722084 GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTCG
195 GGCAAGAAGGGCTATCTGCCAACCAAAGACCTTCAAGTTCG
* * * * *
722125 AAAGGCATATCATTTGCAGCATAGCTTAAGTCTAGAAGGGATATCTTCCAAAGACCCTCGAGTTC
1 AAAGGCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGATATCTGCCAAAGACCATCGAGTTC
* * *
722190 GATTACACTTAGCTTCGAGGGCACATCATTTACGGCATAACTCAAGGCTAGAAAGGTTATCTGTC
66 GATTACACTCAGCTTCGAGGGCACATCATTTACAGAATAACTCAAGGCTAGAAAGGTTATCTGTC
* * * *
722255 A-AAAAAGACCTTTGAGTTCGACTTCACTCACCTCAAAGGCACCATCATTTACAGCATAGTTCAA
131 ACAAAAAGACCTTCGAGTTCGACTACACTCACCTCAAAGGCA-CATCATTTACAACATACTTCAA
722319 GGCAAGAAGGGCTATCTGCCAA
195 GGCAAGAAGGGCTATCTGCCAA
722341 AGACCTTCGA
Statistics
Matches: 187, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
234 37 0.20
235 150 0.80
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (235 bp):
AAAGGCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGATATCTGCCAAAGACCATCGAGTTC
GATTACACTCAGCTTCGAGGGCACATCATTTACAGAATAACTCAAGGCTAGAAAGGTTATCTGTC
ACAAAAAGACCTTCGAGTTCGACTACACTCACCTCAAAGGCACATCATTTACAACATACTTCAAG
GCAAGAAGGGCTATCTGCCAACCAAAGACCTTCAAGTTCG
Found at i:722709 original size:5 final size:5
Alignment explanation
Indices: 722699--722741 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
722689 CTACAAAAAC
722699 ATTAT ATTAT ATTAT ATTAT -TTAT -TTATT ATTATT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA-T ATTA-T ATTAT ATT
722742 TTTATTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 7 0.19
5 20 0.56
6 9 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
ATTAT
Found at i:722726 original size:8 final size:9
Alignment explanation
Indices: 722700--722752 Score: 51
Period size: 8 Copynumber: 6.1 Consensus size: 9
722690 TACAAAAACA
722700 TTATATTAT
1 TTATATTAT
722709 ATTATATTAT
1 -TTATATTAT
722719 TTAT-TTA-
1 TTATATTAT
722726 TTATTATTA-
1 TTA-TATTAT
722735 TTATATT-T
1 TTATATTAT
*
722743 TTATTTTAT
1 TTATATTAT
722752 T
1 T
722753 ATTTTTGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
7 3 0.08
8 14 0.37
9 12 0.32
10 9 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTATATTAT
Found at i:722729 original size:3 final size:3
Alignment explanation
Indices: 722699--722755 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
722689 CTACAAAAAC
722699 ATT A-T ATT A-T ATT A-T ATT ATTT ATTT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT ATT
*
722742 TTT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT
722756 TTTGTAGGCC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 10 0.22
3 29 0.63
4 7 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:722738 original size:25 final size:24
Alignment explanation
Indices: 722703--722755 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
722693 AAAAACATTA
722703 TATTATATTATATTATTTA-TTTAT
1 TATTATATTATATT-TTTATTTTAT
722727 TATTATTATTATATTTTTATTTTAT
1 TATTA-TATTATATTTTTATTTTAT
722752 TATT
1 TATT
722756 TTTGTAGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TATTATATTATATTTTTATTTTAT
Found at i:722842 original size:33 final size:33
Alignment explanation
Indices: 722805--722891 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
722795 TTCACAAAAT
*
722805 AAACCAACATATTTGAGTCTTATTGAAACACTA
1 AAACCAACATATTTGAGTCCTATTGAAACACTA
722838 AAACCAACATATTTGAGTCCTATTGAAACACTA
1 AAACCAACATATTTGAGTCCTATTGAAACACTA
722871 AAACCGAAGCAT-TTTGAGTCC
1 AAACC-AA-CATATTTGAGTCC
722892 AAGTAGGACT
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
33 37 0.73
34 11 0.22
35 3 0.06
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (33 bp):
AAACCAACATATTTGAGTCCTATTGAAACACTA
Found at i:723238 original size:26 final size:26
Alignment explanation
Indices: 723173--723241 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
723163 TTTTTTATTT
*
723173 TATTTTTTATTTATTTACTTTATATA
1 TATTTTTTATTTCTTTACTTTATATA
* *
723199 TATTTTTCATTTTCTCTTAATTT-TA-A
1 TATTTTTTA-TTTCT-TTACTTTATATA
723225 TATTTTTTTATTTCTTT
1 TA-TTTTTTATTTCTTT
723242 TTACATTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
25 2 0.06
26 16 0.44
27 12 0.33
28 6 0.17
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (26 bp):
TATTTTTTATTTCTTTACTTTATATA
Found at i:723294 original size:14 final size:15
Alignment explanation
Indices: 723264--723308 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
723254 ATATACATAT
*
723264 ATATTCATTTTTATTA
1 ATATT-ATTATTATTA
723280 ATATTATTA-TATTA
1 ATATTATTATTATTA
*
723294 ATATTTTTATTATTA
1 ATATTATTATTATTA
723309 TTTTCTCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 13 0.50
15 8 0.31
16 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTATTATTATTA
Found at i:733194 original size:163 final size:166
Alignment explanation
Indices: 732985--733464 Score: 743
Period size: 163 Copynumber: 2.9 Consensus size: 166
732975 ACCACCATAG
*
732985 TTCTTCAGAGAGTATAAGACTCAAACAATCTTTAACAATCGCGTCTGCCCCCTATTTCTTCAGAG
1 TTCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAG
* * * * * *
733050 AGTATAAGACTCGAATAATCTTCAATGATCACGTCTGCCCCCCATTTCTTCAGAGAGTATAAGAC
66 AGTATAAGACCCGAACAATCTTCAACGATCGCGTCCGCCCCCTATTTCTTCAGAGAGTATAAGAC
*
733115 TCGAACAATCTTCAACGATCGCGTCTGCCCCCT-AT
131 TCGAACAATCTTCAACGATCGCGTCTGCCACCTGAT
* * *
733150 TTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATATCTTCAGAG
1 TTCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAG
*
733213 AGTATAAGACCCGAACAATCTTCAACAATCGCGTCCGCCCCCTATTTCTTCAGAGAGTATAAGAC
66 AGTATAAGACCCGAACAATCTTCAACGATCGCGTCCGCCCCCTATTTCTTCAGAGAGTATAAGAC
**
733278 TCGAACAATCTTCAACGATCGCGTCTGCCATTTGAT
131 TCGAACAATCTTCAACGATCGCGTCTGCCACCTGAT
* * *
733314 TT-TCTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCTCTATTTCTTCAGA
1 TTCT-TCAGAGAGTATAAGACTCAAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGA
* *
733378 GAGTATAAGACCCGAACAATCTTCAACGATCGTGTCCGCCCCCTATTTCTTCAGAGAGTATGAGA
65 GAGTATAAGACCCGAACAATCTTCAACGATCGCGTCCGCCCCCTATTTCTTCAGAGAGTATAAGA
*
733443 CTTGAACAATCTTCAACGATCG
130 CTCGAACAATCTTCAACGATCG
733465 TAGGGAACCT
Statistics
Matches: 288, Mismatches: 23, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
163 127 0.44
164 21 0.07
165 21 0.07
166 119 0.41
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (166 bp):
TTCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAG
AGTATAAGACCCGAACAATCTTCAACGATCGCGTCCGCCCCCTATTTCTTCAGAGAGTATAAGAC
TCGAACAATCTTCAACGATCGCGTCTGCCACCTGAT
Found at i:733465 original size:55 final size:55
Alignment explanation
Indices: 732985--733464 Score: 714
Period size: 55 Copynumber: 8.7 Consensus size: 55
732975 ACCACCATAG
* * *
732985 TTCTTCAGAGAGTATAAGACTCAAACAATCTTTAACAATCGCGTCTGCCCCCTAT
1 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT
* * * *
733040 TTCTTCAGAGAGTATAAGACTCGAATAATCTTCAATGATCACGTCTGCCCCCCAT
1 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT
733095 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT
1 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT
* * *
733150 TTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTAT
1 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT
* * * *
733203 ATCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCCGCCCCCTAT
1 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT
***
733258 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCATTTGAT
1 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCT-AT
*
733314 TT-TCTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCTCTAT
1 TTCT-TCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT
* * *
733369 TTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACGATCGTGTCCGCCCCCTAT
1 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT
* *
733424 TTCTTCAGAGAGTATGAGACTTGAACAATCTTCAACGATCG
1 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCG
733465 TAGGGAACCT
Statistics
Matches: 386, Mismatches: 34, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
53 48 0.12
54 2 0.01
55 284 0.74
56 52 0.13
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (55 bp):
TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT
Found at i:734474 original size:21 final size:21
Alignment explanation
Indices: 734450--734494 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
734440 AACCCTCATC
*
734450 TTTTATT-TCTCTCTTCTTTTT
1 TTTTATTAT-TCTCTTCATTTT
*
734471 TTTTATTATTCTTTTCATTTT
1 TTTTATTATTCTCTTCATTTT
734492 TTT
1 TTT
734495 CCATTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTATTCTCTTCATTTT
Found at i:742654 original size:14 final size:14
Alignment explanation
Indices: 742635--742670 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
742625 TTCTTTTCTT
742635 CTTCTCTGTCTCTA
1 CTTCTCTGTCTCTA
742649 CTTCTCTGTCTCTA
1 CTTCTCTGTCTCTA
742663 CTTCTCTG
1 CTTCTCTG
742671 ACTTGGTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.06, C:0.36, G:0.08, T:0.50
Consensus pattern (14 bp):
CTTCTCTGTCTCTA
Found at i:748558 original size:19 final size:19
Alignment explanation
Indices: 748531--748591 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
748521 CCTTCTTAAA
* *
748531 TCGTGTGAGTCTAGCCAAG
1 TCGTCTGAGTCGAGCCAAG
748550 TCGTCTGAGTCGAGCCAAG
1 TCGTCTGAGTCGAGCCAAG
* *
748569 TCGTC-AAGCCGAGCCAAG
1 TCGTCTGAGTCGAGCCAAG
748587 TCGTC
1 TCGTC
748592 AATCCGAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 16 0.42
19 22 0.58
ACGTcount: A:0.21, C:0.28, G:0.30, T:0.21
Consensus pattern (19 bp):
TCGTCTGAGTCGAGCCAAG
Found at i:748583 original size:18 final size:18
Alignment explanation
Indices: 748543--748607 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
748533 GTGTGAGTCT
* *
748543 AGCCAAGTCGTCTGAGTCG
1 AGCCAAGTCGTC-AAGCCG
748562 AGCCAAGTCGTCAAGCCG
1 AGCCAAGTCGTCAAGCCG
*
748580 AGCCAAGTCGTCAATCCG
1 AGCCAAGTCGTCAAGCCG
*
748598 AGCTAAGTCG
1 AGCCAAGTCG
748608 ATTTAAGTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
18 30 0.71
19 12 0.29
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (18 bp):
AGCCAAGTCGTCAAGCCG
Found at i:749087 original size:39 final size:39
Alignment explanation
Indices: 749043--749120 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
749033 AAATATTTTT
749043 CTAAACCTACCAATTTTTTATTAAAACACCAAAAGATTA
1 CTAAACCTACCAATTTTTTATTAAAACACCAAAAGATTA
* *
749082 CTAAACTTATCAATTTTTTATTAAAACACCAAAAGATTA
1 CTAAACCTACCAATTTTTTATTAAAACACCAAAAGATTA
749121 ATGTAATGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (39 bp):
CTAAACCTACCAATTTTTTATTAAAACACCAAAAGATTA
Found at i:749582 original size:21 final size:19
Alignment explanation
Indices: 749558--749601 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
749548 TTGTCATTCA
749558 CATGTGCAATGATGATTGTCC
1 CATGTG-AAT-ATGATTGTCC
* *
749579 CATGTGACTCTGATTGTCC
1 CATGTGAATATGATTGTCC
749598 CATG
1 CATG
749602 GGTCCTATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 2 0.10
21 6 0.29
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (19 bp):
CATGTGAATATGATTGTCC
Found at i:753374 original size:17 final size:19
Alignment explanation
Indices: 753341--753376 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
753331 AAATTTTCTC
753341 AAATTATTAAGAACCCTAA
1 AAATTATTAAGAACCCTAA
753360 AAATT-TTAA-AACCCTAA
1 AAATTATTAAGAACCCTAA
753377 TTTCAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (19 bp):
AAATTATTAAGAACCCTAA
Found at i:755566 original size:60 final size:59
Alignment explanation
Indices: 755363--755601 Score: 230
Period size: 60 Copynumber: 4.0 Consensus size: 59
755353 TTCCTATATG
* * *
755363 ATGGCTCTTTTGCTTTGTGCACTGGGTAAGTCCTTATGGAACTT-AGGGCACTACCCTCAT
1 ATGGCTCATTTGCTTTGTGCATTGGGTAAGTCCTTATAG-ACTTGAGGGCACT-CCCTCAT
* * * * * * * * * *
755423 GTGGCTTATTTTCCTTATGCATTAGGTAAGTCCTTATGGACCTGAGGACACTCCCTTCAG
1 ATGGCTCATTTGCTTTGTGCATTGGGTAAGTCCTTATAGACTTGAGGGCACTCCC-TCAT
* * *
755483 GTGGCTCATTTTCTTTCTGCATTGGGTAAGTCCTTATAGACTTGAGGGCACTCCCATCAT
1 ATGGCTCATTTGCTTTGTGCATTGGGTAAGTCCTTATAGACTTGAGGGCACTCCC-TCAT
* * * *
755543 ATGGCTCATTTGCTTTGTACATTGGATAAGCCCTTCTAGA-TCTGAGGGCACTCCTCTCA
1 ATGGCTCATTTGCTTTGTGCATTGGGTAAGTCCTTATAGACT-TGAGGGCACTCC-CTCA
755602 AGTAACTCCT
Statistics
Matches: 148, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
59 7 0.05
60 140 0.95
61 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (59 bp):
ATGGCTCATTTGCTTTGTGCATTGGGTAAGTCCTTATAGACTTGAGGGCACTCCCTCAT
Found at i:755595 original size:120 final size:120
Alignment explanation
Indices: 755364--755596 Score: 276
Period size: 120 Copynumber: 1.9 Consensus size: 120
755354 TCCTATATGA
* * *
755364 TGGCTCTTTTGCTTTGTGCACTGGGTAAGTCCTTATGGAACTTAGGGCACTACCCTCATGTGGCT
1 TGGCTCTTTTGCTTTCTGCACTGGGTAAGTCCTTATAGAACTTAGGGCACTACCCTCATATGGCT
* * * * *
755429 TATTTTCCTTATGCATTAGGTAAGTCCTTATGGACCTGAGGACACTCCCTTCAGG
66 CATTTGCCTTATACATTAGGTAAGCCCTTATAGACCTGAGGACACTCCCTTCAGG
*
755484 TGGCTCATTTT-CTTTCTGCATTGGGTAAGTCCTTATAG-ACTTGAGGGCACT-CCCATCATATG
1 TGGCTC-TTTTGCTTTCTGCACTGGGTAAGTCCTTATAGAACTT-AGGGCACTACCC-TCATATG
* * * * *
755546 GCTCATTTGCTTTGTACATT-GGATAAGCCCTTCTAGATCTGAGGGCACTCC
63 GCTCATTTGCCTTATACATTAGG-TAAGCCCTTATAGACCTGAGGACACTCC
755597 TCTCAAGTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
119 9 0.09
120 82 0.86
121 4 0.04
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (120 bp):
TGGCTCTTTTGCTTTCTGCACTGGGTAAGTCCTTATAGAACTTAGGGCACTACCCTCATATGGCT
CATTTGCCTTATACATTAGGTAAGCCCTTATAGACCTGAGGACACTCCCTTCAGG
Found at i:756182 original size:35 final size:35
Alignment explanation
Indices: 756140--756206 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
756130 TAATTATGTT
*
756140 TTTAAAGGTTTTTGGTTACGCTTGATTTTAAAGGG
1 TTTAAAGGTGTTTGGTTACGCTTGATTTTAAAGGG
756175 TTTAAAGGTGTTTGGTTACGCTTGATTTTAAA
1 TTTAAAGGTGTTTGGTTACGCTTGATTTTAAA
756207 TGGTCTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.46
Consensus pattern (35 bp):
TTTAAAGGTGTTTGGTTACGCTTGATTTTAAAGGG
Found at i:756222 original size:35 final size:35
Alignment explanation
Indices: 756150--756222 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
756140 TTTAAAGGTT
* *
756150 TTTGGTTACGCTTGATTTTAAAGGGTTTAAAGGTG
1 TTTGGTTACGCTTGATTTTAAAGGGTTGAAAGATG
*
756185 TTTGGTTACGCTTGATTTTAAATGGTCTGAAA-ATG
1 TTTGGTTACGCTTGATTTTAAAGGGT-TGAAAGATG
756220 TTT
1 TTT
756223 TAGAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 30 0.88
36 4 0.12
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (35 bp):
TTTGGTTACGCTTGATTTTAAAGGGTTGAAAGATG
Found at i:761836 original size:38 final size:37
Alignment explanation
Indices: 761759--761836 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
761749 TTTTTATATT
*
761759 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
761796 TTTAATTTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAA-TTTTGTAAAAAAAATTATATAAATATTAT-CAA
761834 TTT
1 TTT
761837 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 18 0.51
38 17 0.49
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:771987 original size:13 final size:13
Alignment explanation
Indices: 771969--771994 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
771959 AGCATTTAAG
771969 TTCAAACATCCAA
1 TTCAAACATCCAA
771982 TTCAAACATCCAA
1 TTCAAACATCCAA
771995 ATCATCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (13 bp):
TTCAAACATCCAA
Found at i:772000 original size:22 final size:21
Alignment explanation
Indices: 771971--772012 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
771961 CATTTAAGTT
*
771971 CAAACATCCAATTCAAACATC
1 CAAACATCAAATTCAAACATC
771992 CAAATCATCAAATTCAAACAT
1 CAAA-CATCAAATTCAAACAT
772013 AACAATCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (21 bp):
CAAACATCAAATTCAAACATC
Found at i:772029 original size:17 final size:17
Alignment explanation
Indices: 772007--772041 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
771997 CATCAAATTC
772007 AAACATAACAATCCAAA
1 AAACATAACAATCCAAA
*
772024 AAACATATCAATCCAAA
1 AAACATAACAATCCAAA
772041 A
1 A
772042 CATTTTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.14
Consensus pattern (17 bp):
AAACATAACAATCCAAA
Found at i:772909 original size:51 final size:51
Alignment explanation
Indices: 772833--772934 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
772823 GGAGAACTTA
772833 TTATTTCCTTTGCATTATCTAAGTTGTCATTATCTAATCCAATTGTGTTAG
1 TTATTTCCTTTGCATTATCTAAGTTGTCATTATCTAATCCAATTGTGTTAG
772884 TTATTTCCTTTGCATTATCTAAGTTGTCATTATCTAATCCAATTGTGTTAG
1 TTATTTCCTTTGCATTATCTAAGTTGTCATTATCTAATCCAATTGTGTTAG
772935 CAATGTAGGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.49
Consensus pattern (51 bp):
TTATTTCCTTTGCATTATCTAAGTTGTCATTATCTAATCCAATTGTGTTAG
Found at i:774028 original size:23 final size:23
Alignment explanation
Indices: 773974--774054 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
773964 CCATAACCGG
*
773974 AAGGGGGTATCGGTACCC--TCG
1 AAGGGGGTATCGGTACCCATTCA
*
773995 TAGGGGGTATCGGTACCCATTCA
1 AAGGGGGTATCGGTACCCATTCA
*
774018 AAGGGGATATCGGTACCCATTCA
1 AAGGGGGTATCGGTACCCATTCA
774041 AAGGGGGTATCGGT
1 AAGGGGGTATCGGT
774055 GCTTGGCGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
21 17 0.32
23 36 0.68
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.22
Consensus pattern (23 bp):
AAGGGGGTATCGGTACCCATTCA
Found at i:777634 original size:20 final size:21
Alignment explanation
Indices: 777595--777634 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
777585 GAAGCTTTAA
* *
777595 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
777616 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
777635 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:782794 original size:33 final size:34
Alignment explanation
Indices: 782703--782802 Score: 152
Period size: 32 Copynumber: 3.0 Consensus size: 34
782693 AACATCTACC
*
782703 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTC-AAG
782738 AAACATTTACCAAACTTTG-AAACCATTTTCAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAG
782771 -AACATTTACCAAACTTTGAAAACCATTTTCAA
1 AAACATTTACCAAACTTTGAAAACCATTTTCAA
782803 AGTTGGTTGC
Statistics
Matches: 62, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
32 18 0.29
33 16 0.26
34 5 0.08
35 9 0.15
36 14 0.23
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (34 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAG
Found at i:787082 original size:36 final size:35
Alignment explanation
Indices: 787026--787105 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 35
787016 ACCCATTCTT
*
787026 ATTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 ATTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
* *
787060 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 A-TTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
787096 ATTTTCAAAG
1 ATTTTCAAAG
787106 TTGGTTGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
34 1 0.02
35 14 0.34
36 26 0.63
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (35 bp):
ATTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
Found at i:795028 original size:22 final size:21
Alignment explanation
Indices: 794986--795025 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
794976 GAGTTTATTT
*
794986 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
795007 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
795026 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:796623 original size:21 final size:22
Alignment explanation
Indices: 796586--796632 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
796576 CAAGAGGAAT
796586 CGGTACCCCCTTGGGGGCGAAA
1 CGGTACCCCCTTGGGGGCGAAA
*
796608 CGGTACCCCCTTGGGGG-GAAC
1 CGGTACCCCCTTGGGGGCGAAA
796629 CGGT
1 CGGT
796633 TCCCTCTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.15, C:0.32, G:0.38, T:0.15
Consensus pattern (22 bp):
CGGTACCCCCTTGGGGGCGAAA
Found at i:800927 original size:42 final size:42
Alignment explanation
Indices: 800868--801039 Score: 127
Period size: 42 Copynumber: 4.1 Consensus size: 42
800858 TTGTGGCCAA
* * * *
800868 AAACGCCACTAATTCTCTTACT-TTTGGTGGCTTTTTTTCCAT
1 AAACGCCGCTAATTCTCTT-CTCTTTAGTGGCTTTTTTACCAC
* *
800910 AAACGTCGCTAATTCTCTTGTCTTTAGTGGCTTTTTTACCAC
1 AAACGCCGCTAATTCTCTTCTCTTTAGTGGCTTTTTTACCAC
* * * *
800952 AAACGCCGCTAATGT-TATTGGT-TTTAGTAGCCTTTTTTGCCAC
1 AAACGCCGCTAAT-TCTCTT-CTCTTTAGT-GGCTTTTTTACCAC
* * * * * *
800995 AAACACCTCTAATACTATTGTTTTTAGTGGCGTTTTTT-CCAC
1 AAACGCCGCTAATTCTCTTCTCTTTAGTGGC-TTTTTTACCAC
801037 AAA
1 AAA
801040 TGACGCTACT
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 66 0.61
43 42 0.39
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (42 bp):
AAACGCCGCTAATTCTCTTCTCTTTAGTGGCTTTTTTACCAC
Found at i:801022 original size:85 final size:84
Alignment explanation
Indices: 800916--801113 Score: 247
Period size: 85 Copynumber: 2.3 Consensus size: 84
800906 CCATAAACGT
* * * * ** *
800916 CGCTAATTCTCTTGTCTTTAGTGGC-TTTTTTACCACAAACGCCGCTAATGTTATTGGTTTTAGT
1 CGCTAATACTATTGTTTTTAGTGGCGTTTTTT-CCACAAACGACGCTAATACTATTGATTTTAGT
*
800980 AGCCTTTTTTGCCACAAACA-C
65 -GCCTATTTTGCCACAAA-ATC
* * *
801001 CTCTAATACTATTGTTTTTAGTGGCGTTTTTTCCACAAATGACGCTACTACTATTGATTTTAGTG
1 CGCTAATACTATTGTTTTTAGTGGCGTTTTTTCCACAAACGACGCTAATACTATTGATTTTAGTG
*
801066 GCTATTTTGCCACAAAATC
66 CCTATTTTGCCACAAAATC
801085 CGCTAATACTATTGTTTTTAGTGGCGTTT
1 CGCTAATACTATTGTTTTTAGTGGCGTTT
801114 GTAATATAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
83 1 0.01
84 44 0.45
85 47 0.48
86 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (84 bp):
CGCTAATACTATTGTTTTTAGTGGCGTTTTTTCCACAAACGACGCTAATACTATTGATTTTAGTG
CCTATTTTGCCACAAAATC
Found at i:801053 original size:42 final size:41
Alignment explanation
Indices: 800889--801109 Score: 201
Period size: 42 Copynumber: 5.2 Consensus size: 41
800879 ATTCTCTTAC
* * * * *
800889 TTTTGGTGGCTTTTTTTCCATAAACGTCGCTAATTCTCTTGT
1 TTTTAGTGGC-TTTTTTCCACAAACGACGCTAATACTATTGT
* * ** *
800931 CTTTAGTGGCTTTTTTACCACAAACGCCGCTAATGTTATTGG
1 TTTTAGTGGCTTTTTT-CCACAAACGACGCTAATACTATTGT
* *
800973 TTTTAGTAGCCTTTTTTGCCACAAAC-ACCTCTAATACTATTGT
1 TTTTAGT-GGCTTTTTT-CCACAAACGA-CGCTAATACTATTGT
* * *
801016 TTTTAGTGGCGTTTTTTCCACAAATGACGCTACTACTATTGA
1 TTTTAGTGGC-TTTTTTCCACAAACGACGCTAATACTATTGT
* ***
801058 TTTTAGTGGCTATTTTGCCACAAAATCCGCTAATACTATTGT
1 TTTTAGTGGCT-TTTTTCCACAAACGACGCTAATACTATTGT
801100 TTTTAGTGGC
1 TTTTAGTGGC
801110 GTTTGTAATA
Statistics
Matches: 146, Mismatches: 27, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
41 7 0.05
42 98 0.67
43 41 0.28
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.43
Consensus pattern (41 bp):
TTTTAGTGGCTTTTTTCCACAAACGACGCTAATACTATTGT
Found at i:802549 original size:83 final size:82
Alignment explanation
Indices: 802463--802787 Score: 284
Period size: 83 Copynumber: 3.9 Consensus size: 82
802453 TGTTTAGCGG
* * *
802463 CGTTTGCTGAAAAAACACCACTATAGATTAACCCTATTACGGCATTTATATAAAAAAGCCGCTAA
1 CGTTTGTTGAAAAAACACCACTATAGATGAA-CCTATTACGGCATTTGTATAAAAAAGCCGCTAA
*
802528 AGTACTACTCTGTTGTTG-
65 AGTACTACTCTGTT-ATGA
* * * * * *
802546 CGTTTATT-AAAAAA-AGCCACTATAGATGAACCCTATTGCAGCGTTTGTATAAAAAAATCTGCT
1 CGTTTGTTGAAAAAACA-CCACTATAGATGAA-CCTATTACGGCATTTGTAT-AAAAAAGCCGCT
* * * *
802609 AAAGTACTAAT-TTTTCACGC
63 AAAGTACTACTCTGTT-ATGA
* * * * *
802629 CGTTTGTTG-AGAAACGCCACTATTGATGAACTTATTACGGCATTTGTATAAAAACGCCGCTAAA
1 CGTTTGTTGAAAAAACACCACTATAGATGAACCTATTACGGCATTTGTATAAAAAAGCCGCTAAA
*
802693 GTACTACTCTGTTCTGA
66 GTACTACTCTGTTATGA
* ** * * * *
802710 CGTTTGTTGAATAAACGTCACTATA-AGTGAACCTAATTGCGGCATTTTTATATAAACGCCGCTA
1 CGTTTGTTGAAAAAACACCACTATAGA-TGAACCT-ATTACGGCATTTGTATAAAAAAGCCGCTA
*
802774 AAGTACAACTCTGT
64 AAGTACTACTCTGT
802788 CGCGGTGTTT
Statistics
Matches: 195, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
81 31 0.16
82 75 0.38
83 89 0.46
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (82 bp):
CGTTTGTTGAAAAAACACCACTATAGATGAACCTATTACGGCATTTGTATAAAAAAGCCGCTAAA
GTACTACTCTGTTATGA
Found at i:803382 original size:10 final size:10
Alignment explanation
Indices: 803367--803393 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
803357 AAAGTATATT
803367 TAATTAATTA
1 TAATTAATTA
803377 TAATTAATTA
1 TAATTAATTA
803387 TAATTAA
1 TAATTAA
803394 AATGGACAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAATTAATTA
Found at i:805457 original size:32 final size:32
Alignment explanation
Indices: 805419--805494 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
805409 TCAAATTAGG
*
805419 TCAGTTGGTTTTTGGGTCGGGTCAAAATCGAA
1 TCAGTTGGTTTTCGGGTCGGGTCAAAATCGAA
* * * *
805451 TCAGTTGGTGTTCGGGTCTGGTCAATATCGGA
1 TCAGTTGGTTTTCGGGTCGGGTCAAAATCGAA
805483 TC-GATTGGTTTT
1 TCAG-TTGGTTTT
805495 GATTCGGGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 1 0.03
32 36 0.97
ACGTcount: A:0.17, C:0.13, G:0.32, T:0.38
Consensus pattern (32 bp):
TCAGTTGGTTTTCGGGTCGGGTCAAAATCGAA
Found at i:805527 original size:36 final size:36
Alignment explanation
Indices: 805487--805559 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
805477 ATCGGATCGA
* *
805487 TTGGTTTTGATTCGGGA-CAAGCTTTAGATTTTCGGG
1 TTGGTTTCGATTC-GGATCAACCTTTAGATTTTCGGG
*
805523 TTGGTTTCGGTTCGGATCAACCTTTAGATTTTCGGG
1 TTGGTTTCGATTCGGATCAACCTTTAGATTTTCGGG
805559 T
1 T
805560 CAATTCGAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 3 0.09
36 30 0.91
ACGTcount: A:0.15, C:0.14, G:0.29, T:0.42
Consensus pattern (36 bp):
TTGGTTTCGATTCGGATCAACCTTTAGATTTTCGGG
Found at i:812460 original size:14 final size:14
Alignment explanation
Indices: 812438--812478 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
812428 TCGATTATAT
*
812438 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
*
812452 GTTCATTTATCTTC
1 GTTCATTTATGTTC
812466 GTTCATTTATGTT
1 GTTCATTTATGTT
812479 GATTTATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.59
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:812769 original size:23 final size:23
Alignment explanation
Indices: 812743--812787 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
812733 TGTTTTTTGC
812743 GTTT-TTGTTGTTCGTTTATGTTA
1 GTTTATTG-TGTTCGTTTATGTTA
812766 GTTTATTGTGTTCGTTTATGTT
1 GTTTATTGTGTTCGTTTATGTT
812788 CATTCGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.09, C:0.04, G:0.22, T:0.64
Consensus pattern (23 bp):
GTTTATTGTGTTCGTTTATGTTA
Found at i:812831 original size:10 final size:10
Alignment explanation
Indices: 812816--812841 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
812806 TATCATTTAA
812816 ATGAACGAAC
1 ATGAACGAAC
812826 ATGAACGAAC
1 ATGAACGAAC
812836 ATGAAC
1 ATGAAC
812842 AAGCTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (10 bp):
ATGAACGAAC
Found at i:816503 original size:12 final size:12
Alignment explanation
Indices: 816459--816509 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
816449 TTAATTTCAT
816459 TTATTTATTTTA
1 TTATTTATTTTA
* * *
816471 TTACTTAATATA
1 TTATTTATTTTA
*
816483 TTA--TGTTTTA
1 TTATTTATTTTA
816493 TTATTTATTTTA
1 TTATTTATTTTA
816505 TTATT
1 TTATT
816510 ATTATGGTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 7 0.23
12 23 0.77
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:816506 original size:22 final size:22
Alignment explanation
Indices: 816457--816508 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
816447 TTTTAATTTC
816457 ATTTATT-TATTTTATTACTTA
1 ATTTATTATATTTTATTACTTA
* * *
816478 ATATATTATGTTTTATTATTTA
1 ATTTATTATATTTTATTACTTA
*
816500 TTTTATTAT
1 ATTTATTAT
816509 TATTATGGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTATTATATTTTATTACTTA
Found at i:816522 original size:28 final size:30
Alignment explanation
Indices: 816463--816542 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
816453 TTTCATTTAT
* * * *
816463 TTATTTTATTACTTAATA-TATTATGTTTTA
1 TTATTCTATT-CTTATTATTATTATGGTATA
816493 TTATT-TATT-TTATTATTATTATGGTATA
1 TTATTCTATTCTTATTATTATTATGGTATA
816521 TTATTCTATTCTTATTATTATT
1 TTATTCTATTCTTATTATTATT
816543 GTTTTTTCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.11
28 15 0.34
29 8 0.18
30 16 0.36
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (30 bp):
TTATTCTATTCTTATTATTATTATGGTATA
Found at i:816538 original size:30 final size:29
Alignment explanation
Indices: 816467--816542 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 29
816457 ATTTATTTAT
* * *
816467 TTTATTACTTAATA-TATTATGTTTTATTA
1 TTTATT-CTTATTATTATTATGGTATATTA
816496 TTTATT-TTATTATTATTATGGTATATTA
1 TTTATTCTTATTATTATTATGGTATATTA
816524 TTCTATTCTTATTATTATT
1 TT-TATTCTTATTATTATT
816543 GTTTTTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.12
28 15 0.37
29 10 0.24
30 11 0.27
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (29 bp):
TTTATTCTTATTATTATTATGGTATATTA
Found at i:820013 original size:23 final size:23
Alignment explanation
Indices: 819987--820035 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
819977 GAGAGGCCCC
819987 ATATCCTAAAGGCCATGATGTTA
1 ATATCCTAAAGGCCATGATGTTA
*
820010 ATATCCTGAAGGCCATGATGTTA
1 ATATCCTAAAGGCCATGATGTTA
820033 ATA
1 ATA
820036 CCGTATGCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (23 bp):
ATATCCTAAAGGCCATGATGTTA
Found at i:820918 original size:95 final size:95
Alignment explanation
Indices: 820754--820993 Score: 290
Period size: 95 Copynumber: 2.7 Consensus size: 95
820744 ATATTATTTA
* *
820754 TATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
*
820819 ATTCAGCTAGCCTGATAAAGATGATTATAC
66 ATTCAGCTAACCTGATAAAGATGATTATAC
* * *
820849 TATACAATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTGGTTAAACTCCCTGGCTTTATGGATAA
1 TATACAATAAAGCTTGAGCTATCCCTCTAGA-GCAATTGGTTAAACGCCCCGGCTTTATGGATAA
*
820913 GATTCAGCTAACCTGATAAAGGT-ATT-TAC
65 GATTCAGCTAACCTGATAAAGATGATTATAC
* * *
820942 -AT---ATTAAG-TT--G---TCCCTCTAGAGCAATTGGTAAAATGCCCCGGCTTTATGGAT
1 TATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
820994 CTAGCTAGCC
Statistics
Matches: 131, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
83 35 0.27
84 1 0.01
86 1 0.01
88 2 0.02
89 5 0.04
92 2 0.02
93 3 0.02
94 4 0.03
95 78 0.60
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
ATTCAGCTAACCTGATAAAGATGATTATAC
Found at i:822196 original size:72 final size:72
Alignment explanation
Indices: 822097--822308 Score: 343
Period size: 72 Copynumber: 2.9 Consensus size: 72
822087 TACAGATGAT
* ** **
822097 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAATATTTATTTCCCTTGAGATTGTCATTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
*
822162 ACATACC
66 ACAGACC
*
822169 TTGTCTCACTTGAGATTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
*
822234 ACAGACT
66 ACAGACC
*
822241 TTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
822306 ACA
66 ACA
822309 AGATTTTATC
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 130 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (72 bp):
TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
ACAGACC
Found at i:822221 original size:36 final size:36
Alignment explanation
Indices: 822181--822314 Score: 137
Period size: 36 Copynumber: 3.7 Consensus size: 36
822171 GTCTCACTTG
822181 AGATTGTTTTACTTGAAAGAAGATTTATTTCCCTCA
1 AGATTGTTTTACTTGAAAGAAGATTTATTTCCCTCA
* * * * **
822217 AGATTGTTTTTCTT-AAA-ACAGACTTTGTCTCACTTG
1 AGATTGTTTTACTTGAAAGA-AGA-TTTATTTCCCTCA
* *
822253 AGACTGTTTTACTCGAAAGAAGATTTATTTCCCTCA
1 AGATTGTTTTACTTGAAAGAAGATTTATTTCCCTCA
* * *
822289 AGATTGTTTTTCTTAAAACAAGATTT
1 AGATTGTTTTACTTGAAAGAAGATTT
822315 TATCTCGCTT
Statistics
Matches: 75, Mismatches: 19, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
34 1 0.01
35 6 0.08
36 61 0.81
37 6 0.08
38 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (36 bp):
AGATTGTTTTACTTGAAAGAAGATTTATTTCCCTCA
Found at i:822413 original size:82 final size:82
Alignment explanation
Indices: 822304--822472 Score: 275
Period size: 82 Copynumber: 2.1 Consensus size: 82
822294 GTTTTTCTTA
** * *
822304 AAACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCAAAATGGAAAATTTTGTCTCCCTTGTGAT
1 AAACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCAAAACAGAAAATTTTGTCTCCCTTGAGAC
*
822369 AGTTTCTCTTGAAACAT
66 AATTTCTCTTGAAACAT
* *
822386 AAACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAACTTTTGTCTCCCTTGAGAC
1 AAACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCAAAACAGAAAATTTTGTCTCCCTTGAGAC
822451 AATTTCTCTTGAAACAT
66 AATTTCTCTTGAAACAT
822468 AAACA
1 AAACA
822473 TTGAAAACAT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (82 bp):
AAACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCAAAACAGAAAATTTTGTCTCCCTTGAGAC
AATTTCTCTTGAAACAT
Found at i:822414 original size:43 final size:42
Alignment explanation
Indices: 822304--822472 Score: 152
Period size: 39 Copynumber: 4.1 Consensus size: 42
822294 GTTTTTCTTA
* * *
822304 AAACAAGATTTTATCTCGCTTGAGATAGTTTC-CCTCAAA-AT
1 AAACAA-ATTTTATCTCCCTTGAGATAGTTTCTCTTGAAACAT
** * *
822345 GGA-AAATTTTGTCTCCCTTGTGATAGTTTCTCTTGAAACAT
1 AAACAAATTTTATCTCCCTTGAGATAGTTTCTCTTGAAACAT
* * * *
822386 AAACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
1 AAACAA-ATTTTATCTCCCTTGAGATAGTTTCTCTTGAAACAT
* * *
822429 AAAC---TTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAT
1 AAACAAATTTTATCTCCCTTGAGATAGTTTCTCTTGAAACAT
822468 AAACA
1 AAACA
822473 TTGAAAACAT
Statistics
Matches: 101, Mismatches: 22, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
39 54 0.53
40 7 0.07
41 4 0.04
42 2 0.02
43 34 0.34
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (42 bp):
AAACAAATTTTATCTCCCTTGAGATAGTTTCTCTTGAAACAT
Found at i:822549 original size:37 final size:37
Alignment explanation
Indices: 822482--822568 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
822472 ATTGAAAACA
** * *
822482 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
822518 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
822555 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
822569 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:822568 original size:102 final size:102
Alignment explanation
Indices: 822393--822697 Score: 531
Period size: 102 Copynumber: 3.0 Consensus size: 102
822383 CATAAACAAG
* * * *
822393 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAACTTTTGTCTCCCTTGAGACAATTTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA-AAA-TTTTGTCTCCCTTGAGACAGTTTCT
822458 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
64 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
822497 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
822562 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
822599 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
822663 TGAAACATAAACTTTGAAAACAGTTTCCCTTGAAA
66 TGAAACATAAACATTGAAAACA-TTTCCCTTGAAA
822698 CAAAACCTTT
Statistics
Matches: 195, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
101 51 0.26
102 109 0.56
103 3 0.02
104 32 0.16
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
Found at i:822631 original size:36 final size:36
Alignment explanation
Indices: 822584--822669 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
822574 ATTGAAAACA
** * *
822584 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
822620 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
*
822656 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
822670 TAAACTTTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
Found at i:822686 original size:30 final size:30
Alignment explanation
Indices: 822652--822832 Score: 111
Period size: 29 Copynumber: 5.7 Consensus size: 30
822642 CTCCCTTGAG
822652 ACAGTTTCTCTTGAAACATAAA-CTTTGAAA
1 ACAGTTTCTCTTGAAACA-AAACCTTTGAAA
* *
822682 ACAGTTTCCCTTGAAACAAAACCTTTGAAT
1 ACAGTTTCTCTTGAAACAAAACCTTTGAAA
* * * *
822712 A-TGTTTCTCTTGAAACAAAATTTTTCCTCCCTGGAG
1 ACAGTTTCTCTTGAAACAAAA-----CCT--TTGAAA
*
822748 ACAGTTTCTCTGGAAA-AAAACCTTTGAAA
1 ACAGTTTCTCTTGAAACAAAACCTTTGAAA
*
822777 TC-GTTTTCTCTTGAAACATAAAAAACCTTTGAAA
1 ACAG-TTTCTCTTGAAAC----AAAACCTTTGAAA
*
822811 TC-GTTTCTCTTGGAACACAAAA
1 ACAGTTTCTCTT-GAA-ACAAAA
822833 AGAAAACCTT
Statistics
Matches: 120, Mismatches: 14, Indels: 33
0.72 0.08 0.20
Matches are distributed among these distances:
28 1 0.01
29 35 0.29
30 25 0.21
31 7 0.06
33 8 0.07
34 22 0.18
35 2 0.02
36 8 0.07
37 12 0.10
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (30 bp):
ACAGTTTCTCTTGAAACAAAACCTTTGAAA
Found at i:822718 original size:29 final size:29
Alignment explanation
Indices: 822652--822731 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 29
822642 CTCCCTTGAG
822652 ACAGTTTCTCTTGAAACATAAACTTTGAAA
1 ACAGTTTCTCTTGAAACA-AAACTTTGAAA
* *
822682 ACAGTTTCCCTTGAAACAAAACCTTTGAAT
1 ACAGTTTCTCTTGAAACAAAA-CTTTGAAA
*
822712 A-TGTTTCTCTTGAAACAAAA
1 ACAGTTTCTCTTGAAACAAAA
822732 TTTTTCCTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 20 0.44
30 25 0.56
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (29 bp):
ACAGTTTCTCTTGAAACAAAACTTTGAAA
Found at i:822790 original size:95 final size:97
Alignment explanation
Indices: 822405--822832 Score: 331
Period size: 102 Copynumber: 4.3 Consensus size: 97
822395 TTTATCTCGC
* * * * *
822405 TTGAGATA-GTTTCCCTCGAAACAGAAACTTTTGTCTCCCTTGAGACAATTTCTCTTGAAACATA
1 TTGA-ATATGTTTCTCTTGAAACA-AAA-TTTTGTCTCCCTGGAGACAGTTTCTCTGGAAACATA
* * ***
822469 AACATTGAAAACA-TTTCCCTTGAAATGAATTTTGTCTCT
63 AACTTTGAAAACAGTTTCCCTTGAAA-CAA---AAAC-CT
* * *
822508 CTTGAGATA-GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAA
1 -TTGA-ATATGTTTCTCTTGAAACAAAATTTTGTCTCCCTGGAGACAGTTTCTCTGGAAACATAA
* * ***
822572 ACATTGAAAACA-TTTCCCTTGAAATGAATTTTGTCTCT
64 ACTTTGAAAACAGTTTCCCTTGAAA-CAA---AAAC-CT
* * *
822610 CTTGAGATA-GTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAA
1 -TTGA-ATATGTTTCTCTTGAAACAAAATTTTGTCTCCCTGGAGACAGTTTCTCTGGAAACATAA
822673 ACTTTGAAAACAGTTTCCCTTGAAAC-AAAACCT
64 ACTTTGAAAACAGTTTCCCTTGAAACAAAAACCT
822706 TTGAATATGTTTCTCTTGAAACAAAATTTT-TCCTCCCTGGAGACAGTTTCTCTGGAAA-A-AAA
1 TTGAATATGTTTCTCTTGAAACAAAATTTTGT-CTCCCTGGAGACAGTTTCTCTGGAAACATAAA
* *
822768 CCTTTGAAATC-GTTTTCTCTTGAAACATAAAAAACCT
65 -CTTTGAAAACAG-TTTCCCTTGAAAC---AAAAACCT
822805 TTGAA-ATCGTTTCTCTTGGAACACAAAA
1 TTGAATAT-GTTTCTCTT-GAA-ACAAAA
822833 AGAAAACCTT
Statistics
Matches: 299, Mismatches: 12, Indels: 29
0.88 0.04 0.09
Matches are distributed among these distances:
94 7 0.02
95 40 0.13
96 33 0.11
97 1 0.00
98 2 0.01
99 21 0.07
100 4 0.01
101 57 0.19
102 109 0.36
103 3 0.01
104 22 0.07
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (97 bp):
TTGAATATGTTTCTCTTGAAACAAAATTTTGTCTCCCTGGAGACAGTTTCTCTGGAAACATAAAC
TTTGAAAACAGTTTCCCTTGAAACAAAAACCT
Found at i:822848 original size:37 final size:37
Alignment explanation
Indices: 822764--822881 Score: 165
Period size: 37 Copynumber: 3.3 Consensus size: 37
822754 TCTCTGGAAA
*
822764 AAAACCTTTGAAATCGTTTTCTCTT-GAA-AC-ATAA-
1 AAAACCTTTGAAATCG-TTTCTCTTGGAACACAAAAAG
822798 AAAACCTTTGAAATCGTTTCTCTTGGAACACAAAAAG
1 AAAACCTTTGAAATCGTTTCTCTTGGAACACAAAAAG
* *
822835 AAAACCTTTGAAATTGTTTCTCTTGAAACA-AAAAAG
1 AAAACCTTTGAAATCGTTTCTCTTGGAACACAAAAAG
822871 AAAACCTTTGA
1 AAAACCTTTGA
822882 GCATTTTTCT
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
33 8 0.10
34 19 0.25
35 2 0.03
36 20 0.26
37 28 0.36
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (37 bp):
AAAACCTTTGAAATCGTTTCTCTTGGAACACAAAAAG
Found at i:822876 original size:36 final size:36
Alignment explanation
Indices: 822764--822900 Score: 174
Period size: 36 Copynumber: 3.8 Consensus size: 36
822754 TCTCTGGAAA
*
822764 AAAACCTTTGAAATCGTTTTCTCTTGAAAC--ATAA-
1 AAAACCTTTGAAATCG-TTTCTCTTGAAACAAAAAAG
*
822798 AAAACCTTTGAAATCGTTTCTCTTGGAACACAAAAAG
1 AAAACCTTTGAAATCGTTTCTCTTGAAACA-AAAAAG
*
822835 AAAACCTTTGAAATTGTTTCTCTTGAAACAAAAAAG
1 AAAACCTTTGAAATCGTTTCTCTTGAAACAAAAAAG
* *
822871 AAAACCTTTGAGCAT-TTTTCTCTTGAAACA
1 AAAACCTTTGA-AATCGTTTCTCTTGAAACA
822901 CCAAAGCTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
33 12 0.13
34 16 0.17
36 34 0.37
37 30 0.33
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAACCTTTGAAATCGTTTCTCTTGAAACAAAAAAG
Found at i:824341 original size:22 final size:22
Alignment explanation
Indices: 824313--824355 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
824303 CATTTATTTA
824313 TTTTATTATTTAATATATTATG
1 TTTTATTATTTAATATATTATG
* *
824335 TTTTATTATTTATTTTATTAT
1 TTTTATTATTTAATATATTAT
824356 TATTATGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTATTATTTAATATATTATG
Found at i:824355 original size:3 final size:3
Alignment explanation
Indices: 824310--824395 Score: 56
Period size: 3 Copynumber: 28.7 Consensus size: 3
824300 TTTCATTTAT
* *
824310 TTA TT- TTA TTA TT- TAA TATA TTA TGTT TTA TTA TTTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA TTA -TTA TTA TTA TTA
* *
824355 TTA TTA TGGTA -TA TTA TT- TTA TTC TTA TTA TTA TTG TTA TT
1 TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
824396 TTCCTTTTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
2 9 0.14
3 47 0.72
4 7 0.11
5 2 0.03
ACGTcount: A:0.27, C:0.01, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:824385 original size:30 final size:29
Alignment explanation
Indices: 824310--824389 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 29
824300 TTTCATTTAT
* * *
824310 TTATTTTATTATT-TAATATATTATGTTTTA
1 TTATTTTATT-TTATTAT-TATTATGGTATA
824340 TTA-TTTATTTTATTATTATTATGGTATA
1 TTATTTTATTTTATTATTATTATGGTATA
824368 TTATTTTATTCTTATTATTATT
1 TTATTTTATT-TTATTATTATT
824390 GTTATTTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 15 0.34
29 15 0.34
30 14 0.32
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.68
Consensus pattern (29 bp):
TTATTTTATTTTATTATTATTATGGTATA
Found at i:829729 original size:20 final size:19
Alignment explanation
Indices: 829704--829746 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
829694 CAGTCAGGTC
829704 CGGTTGGACCAGGTCGGGTT
1 CGGTTGGACCAGGTCGGG-T
*
829724 CGGTTGGACCGGGTCGGGT
1 CGGTTGGACCAGGTCGGGT
829743 CGGT
1 CGGT
829747 CAAAATGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.07, C:0.21, G:0.49, T:0.23
Consensus pattern (19 bp):
CGGTTGGACCAGGTCGGGT
Found at i:830961 original size:2 final size:2
Alignment explanation
Indices: 830954--830980 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
830944 ATTGAAAAAC
830954 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
830981 AAGCCTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:832300 original size:70 final size:70
Alignment explanation
Indices: 832187--832329 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 70
832177 TCATAGTTGG
832187 GTGGTCATTCAAGTAGTTTACCCTAATAATAAATGTAATGTCACACAAAATAATTATAAAATAAT
1 GTGGTCATTCAAGTAGTTTACCCTAATAATAAATGTAATGTCACACAAAATAATTATAAAATAAT
832252 TTAGA
66 TTAGA
*
832257 GTGGTCATTCAAGTAGTTTACCCTAATATTAAATGTAATGTCACACAAAATAATTATAAAATAAT
1 GTGGTCATTCAAGTAGTTTACCCTAATAATAAATGTAATGTCACACAAAATAATTATAAAATAAT
832322 TTAGA
66 TTAGA
832327 GTG
1 GTG
832330 ACCAAAACAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (70 bp):
GTGGTCATTCAAGTAGTTTACCCTAATAATAAATGTAATGTCACACAAAATAATTATAAAATAAT
TTAGA
Found at i:838361 original size:16 final size:17
Alignment explanation
Indices: 838340--838372 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
838330 TGAAATAAGG
838340 AAAGT-AATAAAAAAAT
1 AAAGTAAATAAAAAAAT
*
838356 AAAGTAAATATAAAAAT
1 AAAGTAAATAAAAAAAT
838373 GAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAGTAAATAAAAAAAT
Found at i:838381 original size:17 final size:18
Alignment explanation
Indices: 838351--838398 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
838341 AAGTAATAAA
*
838351 AAAATAAAGT-AAATATA-
1 AAAATAAA-TAAAATACAT
*
838368 AAAATGAATAAAATACAT
1 AAAATAAATAAAATACAT
838386 AAAATAAATAAAA
1 AAAATAAATAAAA
838399 ATGAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 13 0.50
18 12 0.46
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAATAAATAAAATACAT
Found at i:838415 original size:28 final size:29
Alignment explanation
Indices: 838348--838415 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
838338 GGAAAGTAAT
*
838348 AAAAA-AATAAAGTAAATATAAAAATGAA
1 AAAAATAATAAAATAAATATAAAAATGAA
*
838376 TAAAATACATAAAAT-AA-ATAAAAATGAA
1 AAAAATA-ATAAAATAAATATAAAAATGAA
838404 GAAAAATAATAA
1 -AAAAATAATAA
838416 CACTAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 19 0.56
29 9 0.26
30 6 0.18
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (29 bp):
AAAAATAATAAAATAAATATAAAAATGAA
Found at i:838643 original size:8 final size:8
Alignment explanation
Indices: 838633--838668 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
838623 GTATATAAGT
838633 AAAATAATA
1 AAAAT-ATA
838642 AAAATATA
1 AAAATATA
838650 AAAATATA
1 AAAATATA
838658 AAAATATA
1 AAAATATA
838666 AAA
1 AAA
838669 TGGGAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.81
9 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAATATA
Found at i:838838 original size:17 final size:16
Alignment explanation
Indices: 838814--838854 Score: 73
Period size: 17 Copynumber: 2.5 Consensus size: 16
838804 ATATAATAAG
838814 AAAAACAAGTAATTAA
1 AAAAACAAGTAATTAA
838830 AAGAAACAAGTAATTAA
1 AA-AAACAAGTAATTAA
838847 AAAAACAA
1 AAAAACAA
838855 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.15
Consensus pattern (16 bp):
AAAAACAAGTAATTAA
Found at i:840044 original size:2 final size:2
Alignment explanation
Indices: 840037--840085 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
840027 TAATAATACT
* *
840037 TA TA TA TA TA TA TA TA TA TG TA -A TA TA TA CA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
840077 AA TA TA TA T
1 TA TA TA TA T
840086 GTGTTTATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:840074 original size:30 final size:30
Alignment explanation
Indices: 840027--840087 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
840017 AAAACAACAA
* *
840027 TAATAATACTTATATATATATATATATATG
1 TAATAATACATATATATATAAATATATATG
840057 TAATATATACATA-ATATATAAATATATATG
1 TAATA-ATACATATATATATAAATATATATG
840087 T
1 T
840088 GTTTATTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
TAATAATACATATATATATAAATATATATG
Found at i:840718 original size:33 final size:34
Alignment explanation
Indices: 840647--840781 Score: 156
Period size: 33 Copynumber: 4.0 Consensus size: 34
840637 CGAAGATTTG
840647 GTGTTTCAAGAGAAACAT-TTTCAAAGGTTTTTTTTT
1 GTGTTTCAAGAGAAA-ATGTTTCAAAGG--TTTTTTT
840683 GTGTTTCAAGAGAACAAT-TTT-AAAGGTTTTTTT
1 GTGTTTCAAGAGAA-AATGTTTCAAAGGTTTTTTT
* * *
840716 GTGCTTCAAGAGAAACTGTCTC-AAGG-TTTTTT
1 GTGTTTCAAGAGAAAATGTTTCAAAGGTTTTTTT
840748 GTGTTTCAAGA-AAAACTGTTTCAAAGGTTTTTTT
1 GTGTTTCAAGAGAAAA-TGTTTCAAAGGTTTTTTT
840782 TCAAGGGAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
31 3 0.03
32 23 0.26
33 30 0.34
34 6 0.07
35 5 0.06
36 19 0.22
37 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.44
Consensus pattern (34 bp):
GTGTTTCAAGAGAAAATGTTTCAAAGGTTTTTTT
Found at i:840756 original size:32 final size:32
Alignment explanation
Indices: 840677--840801 Score: 125
Period size: 33 Copynumber: 4.0 Consensus size: 32
840667 TCAAAGGTTT
* * *
840677 TTTTTTGTGTTTCAAGAGAACAAT-TTTAAAGG
1 TTTTTTGTGTTTCAAGAGAA-ACTGTCTCAAGG
*
840709 TTTTTTTGTGCTTCAAGAGAAACTGTCTCAAGG
1 -TTTTTTGTGTTTCAAGAGAAACTGTCTCAAGG
* *
840742 TTTTTTGTGTTTCAAGAAAAACTGTTTCAAAGG
1 TTTTTTGTGTTTCAAGAGAAACTGTCTC-AAGG
*
840775 --TTTT-T-TTTCAAGGGAAACTGTCTCAAG
1 TTTTTTGTGTTTCAAGAGAAACTGTCTCAAG
840802 AAAGACAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
28 3 0.04
29 16 0.20
30 1 0.01
31 4 0.05
32 27 0.34
33 29 0.36
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (32 bp):
TTTTTTGTGTTTCAAGAGAAACTGTCTCAAGG
Found at i:840779 original size:65 final size:61
Alignment explanation
Indices: 840677--840801 Score: 157
Period size: 61 Copynumber: 2.0 Consensus size: 61
840667 TCAAAGGTTT
840677 TTTTTTGTGTTTCAAGAGAACAATTTTAAAGGTTTTTTTGTGCTTCAAGAGAAACTGTCTCAAGG
1 TTTTTTGTGTTTCAAGAGAACAATTTTAAAGG-TTTTTT-T--TTCAAGAGAAACTGTCTCAAGG
*
840742 TTTTTTGTGTTTCAAGA-AA-AACTGTTTCAAAGG-TTTTTTTTCAAGGGAAACTGTCTCAAG
1 TTTTTTGTGTTTCAAGAGAACAA-T-TTT-AAAGGTTTTTTTTTCAAGAGAAACTGTCTCAAG
840802 AAAGACAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
61 20 0.36
63 3 0.05
64 8 0.14
65 20 0.36
66 5 0.09
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (61 bp):
TTTTTTGTGTTTCAAGAGAACAATTTTAAAGGTTTTTTTTTCAAGAGAAACTGTCTCAAGG
Found at i:840793 original size:29 final size:32
Alignment explanation
Indices: 840647--840800 Score: 115
Period size: 33 Copynumber: 4.8 Consensus size: 32
840637 CGAAGATTTG
*
840647 GTGTTTCAAGAGAAACAT-TTTCAAAGGTTTTTTTTT
1 GTGTTTCAAGAGAAAC-TGTCTCAAAGG----TTTTT
* *
840683 GTGTTTCAAGAGAACAAT-T-TTAAAGGTTTTTTT
1 GTGTTTCAAGAGAA-ACTGTCTCAAAGG--TTTTT
*
840716 GTGCTTCAAGAGAAACTGTCTC-AAGGTTTTTT
1 GTGTTTCAAGAGAAACTGTCTCAAAGG-TTTTT
* *
840748 GTGTTTCAAGAAAAACTGTTTCAAAGG-TTTT
1 GTGTTTCAAGAGAAACTGTCTCAAAGGTTTTT
*
840779 -T-TTTCAAGGGAAACTGTCTCAA
1 GTGTTTCAAGAGAAACTGTCTCAA
840801 GAAAGACAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
29 18 0.17
30 1 0.01
31 4 0.04
32 27 0.26
33 29 0.28
34 1 0.01
35 6 0.06
36 16 0.16
37 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (32 bp):
GTGTTTCAAGAGAAACTGTCTCAAAGGTTTTT
Found at i:840827 original size:36 final size:36
Alignment explanation
Indices: 840780--840854 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
840770 AAAGGTTTTT
*
840780 TTTCAAGGGAAACTGTCTCAAGAAAGACAAAATTTG
1 TTTCAAAGGAAACTGTCTCAAGAAAGACAAAATTTG
*
840816 TTTCAAAGGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAAGGAAACTGTCTCAAGAAAGACAAAATTTG
840852 TTT
1 TTT
840855 TAAGAGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTCAAAGGAAACTGTCTCAAGAAAGACAAAATTTG
Found at i:840870 original size:17 final size:17
Alignment explanation
Indices: 840848--840880 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
840838 AGAGACAAAA
840848 TTTGTTTTAAGAGAAAT
1 TTTGTTTTAAGAGAAAT
840865 TTTGTTTTAAGAGAAA
1 TTTGTTTTAAGAGAAA
840881 CTGTCTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
TTTGTTTTAAGAGAAAT
Found at i:842336 original size:95 final size:95
Alignment explanation
Indices: 842170--842349 Score: 290
Period size: 95 Copynumber: 1.9 Consensus size: 95
842160 ATGTAAATAC
* * * *
842170 CTTTATCAAGTTAGCTTAATCTTATCCATAAAGCTGGGGCGTTTAACCAATTGCCTTAGAGGGAC
1 CTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGAC
*
842235 ATCTCAAGCTTTATTGTATAGTATAATCAT
66 AACTCAAGCTTTATTGTATAGTATAATCAT
*
842265 CTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG-CTCTAGAGGGA
1 CTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCT-TAGAGGGA
842329 CAACTCAAGCTTTATTGTATA
65 CAACTCAAGCTTTATTGTATA
842350 TAAATAATAT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 2 0.03
95 76 0.97
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (95 bp):
CTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGAC
AACTCAAGCTTTATTGTATAGTATAATCAT
Found at i:845431 original size:13 final size:13
Alignment explanation
Indices: 845413--845446 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
845403 AAACATAATA
845413 GGTTTTGGAATGT
1 GGTTTTGGAATGT
845426 GGTTTTGGAATGT
1 GGTTTTGGAATGT
845439 GGTTTTGG
1 GGTTTTGG
845447 GGTAGGCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.41, T:0.47
Consensus pattern (13 bp):
GGTTTTGGAATGT
Found at i:846393 original size:71 final size:71
Alignment explanation
Indices: 846277--846416 Score: 280
Period size: 71 Copynumber: 2.0 Consensus size: 71
846267 TTAAAAGTCA
846277 AAATATGTGTTAGAAGAGATAAATAAATAATAAAGAAAGTAAAACAAATGAAATAAGGAAAGTAA
1 AAATATGTGTTAGAAGAGATAAATAAATAATAAAGAAAGTAAAACAAATGAAATAAGGAAAGTAA
846342 TAAAGT
66 TAAAGT
846348 AAATATGTGTTAGAAGAGATAAATAAATAATAAAGAAAGTAAAACAAATGAAATAAGGAAAGTAA
1 AAATATGTGTTAGAAGAGATAAATAAATAATAAAGAAAGTAAAACAAATGAAATAAGGAAAGTAA
846413 TAAA
66 TAAA
846417 AAAATAAAGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.61, C:0.01, G:0.16, T:0.21
Consensus pattern (71 bp):
AAATATGTGTTAGAAGAGATAAATAAATAATAAAGAAAGTAAAACAAATGAAATAAGGAAAGTAA
TAAAGT
Found at i:846427 original size:16 final size:17
Alignment explanation
Indices: 846406--846438 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
846396 TGAAATAAGG
846406 AAAGT-AATAAAAAAAT
1 AAAGTAAATAAAAAAAT
*
846422 AAAGTAAATATAAAAAT
1 AAAGTAAATAAAAAAAT
846439 GAATAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAGTAAATAAAAAAAT
Found at i:846606 original size:33 final size:32
Alignment explanation
Indices: 846563--846626 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
846553 AAAGGAAGAT
846563 AAAAAGATAAA-AATATAGAATAAAA-ATAAAAG
1 AAAAAGATAAATAA-ATA-AATAAAATATAAAAG
846595 AAAATAGATAAATAAATAAATAAAATATAAAA
1 AAAA-AGATAAATAAATAAATAAAATATAAAA
846627 AGGTAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 11 0.38
33 16 0.55
34 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (32 bp):
AAAAAGATAAATAAATAAATAAAATATAAAAG
Found at i:846677 original size:13 final size:13
Alignment explanation
Indices: 846659--846684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
846649 ATATATAAGT
846659 AAAATAATAATAA
1 AAAATAATAATAA
846672 AAAATAATAATAA
1 AAAATAATAATAA
846685 TATAAAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATAATAATAA
Found at i:846682 original size:16 final size:16
Alignment explanation
Indices: 846661--846692 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
846651 ATATAAGTAA
846661 AATAATAATAAAAAAT
1 AATAATAATAAAAAAT
*
846677 AATAATAATATAAAAT
1 AATAATAATAAAAAAT
846693 GGGAAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAATAATAAAAAAT
Found at i:846847 original size:17 final size:17
Alignment explanation
Indices: 846825--846857 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
846815 ATAATAAGAA
846825 AAACAAGTAATTAAAAG
1 AAACAAGTAATTAAAAG
846842 AAACAAGTAATTAAAA
1 AAACAAGTAATTAAAA
846858 AAATTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (17 bp):
AAACAAGTAATTAAAAG
Found at i:847942 original size:14 final size:15
Alignment explanation
Indices: 847917--847945 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
847907 TTGGGGTCTG
847917 TTGGGCTGCACGTGT
1 TTGGGCTGCACGTGT
847932 TTGGGCT-CACGTGT
1 TTGGGCTGCACGTGT
847946 GTGTGTGGTA
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:0.07, C:0.21, G:0.38, T:0.34
Consensus pattern (15 bp):
TTGGGCTGCACGTGT
Found at i:848059 original size:2 final size:2
Alignment explanation
Indices: 848052--848098 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
848042 TAATAATACT
* * *
848052 TA TA TA TA TA TA TA TG TA -A TA TA TA CA TA -A TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
848092 TA TA TA T
1 TA TA TA T
848099 GTTTATTGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:848075 original size:11 final size:11
Alignment explanation
Indices: 848052--848098 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
848042 TAATAATACT
848052 TATATAT-ATA
1 TATATATAATA
*
848062 TATATGTAATA
1 TATATATAATA
*
848073 TATACATAATA
1 TATATATAATA
*
848084 TATAAAT-ATA
1 TATATATAATA
848094 TATAT
1 TATAT
848099 GTTTATTGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 13 0.42
11 18 0.58
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (11 bp):
TATATATAATA
Found at i:851007 original size:34 final size:34
Alignment explanation
Indices: 850960--851029 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
850950 GATAAGTAGC
*
850960 TTGATATCATTTAAGATAATCTTGAGTTCGAGTA
1 TTGATATCATTTAAGATAATATTGAGTTCGAGTA
*
850994 TTGATATCGTTTAAGATAATATTGAGTTCGAGTA
1 TTGATATCATTTAAGATAATATTGAGTTCGAGTA
851028 TT
1 TT
851030 TATGTATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (34 bp):
TTGATATCATTTAAGATAATATTGAGTTCGAGTA
Found at i:858870 original size:60 final size:59
Alignment explanation
Indices: 858652--859317 Score: 812
Period size: 60 Copynumber: 10.9 Consensus size: 59
858642 TCGAGACAAC
* * *
858652 ACAAGATTGAATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAA
1 ACAATATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTG-AA
* *
858712 CTTACAAGATTGGATTTCAACTTCACAAAGAAGGAATATCCAACTCAAAGCCAATTTGGTGAA
1 ---ACAATATTGGATTTCAACTTCACAACGAAGG-ATATCCAACTCAAAGCCAATTTGGTGAA
* *
858775 GCACAATATTGGATTTCAACTTCACAGCGAAGGATATCCAACTAAAAGCCAATTTGGTGAA
1 --ACAATATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA
*
858836 ACAATACTTGGATTTCAACTTCACAACGAAGGATATCTAACTCAAAGCCAATTTGGTGAA
1 ACAATA-TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA
* * *
858896 GCACAAGATTAGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGTCAATTTGGTGAA
1 --ACAATATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA
* *
858957 ACAATACTTGTATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAA
1 ACAATA-TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTG-AA
* * * *
859018 TTTACAAGATTGGATATT-AACTTCACAACGAAGGATATCCAACTTAAAGTCAATTCGGTGAA
1 ---ACAATATTGGAT-TTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA
* * * * *
859080 GCAGTACTTGGATTTCAACTTCACAGCGAAGGATATCCAACTCAAAGTCGATTTGGTGAGA
1 ACAATA-TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA-A
* * *
859141 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAAATTGGTGAA
1 -ACAATATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA
* * *
859201 GCAATATTTGGATTTCAACTTCACAACGAAGGATATCAAACTTAAAGCCAATTTGGTGAA
1 ACAATA-TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA
* * * * *
859261 ACTTGCAAGATTGGATTTTAACTTCACAACGAATGATATCCAACTTAAAGTCAATTT
1 A----CAATATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTT
859318 TGAAGCTATG
Statistics
Matches: 530, Mismatches: 54, Indels: 38
0.85 0.09 0.06
Matches are distributed among these distances:
59 20 0.04
60 192 0.36
61 127 0.24
62 38 0.07
63 117 0.22
64 36 0.07
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (59 bp):
ACAATATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA
Found at i:858917 original size:121 final size:121
Alignment explanation
Indices: 858651--859317 Score: 908
Period size: 121 Copynumber: 5.4 Consensus size: 121
858641 CTCGAGACAA
* *
858651 CACAAGATTGAATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAACTTA
1 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC--A
* * *
858716 CA-AGATTGGATTTCAACTTCACAAAGAAGGAATATCCAACTCAAAGCCAATTTGGTGAAG
64 -ATA-CTTGGATTTCAACTTCACAACGAAGG-ATATCAAACTCAAAGCCAATTTGGTGAAG
* * *
858776 CACAATATTGGATTTCAACTTCACAGCGAAGGATATCCAACTAAAAGCCAATTTGGTGAAACAAT
1 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAAT
*
858841 ACTTGGATTTCAACTTCACAACGAAGGATATCTAACTCAAAGCCAATTTGGTGAAG
66 ACTTGGATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAG
* *
858897 CACAAGATTAGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGTCAATTTGGTGAAACAAT
1 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAAT
* *
858962 ACTTGTATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAATT
66 ACTTGGATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTG-AA-G
* * * * * *
859020 TACAAGATTGGATATT-AACTTCACAACGAAGGATATCCAACTTAAAGTCAATTCGGTGAAGCAG
1 CACAAGATTGGAT-TTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAA
* * * *
859084 TACTTGGATTTCAACTTCACAGCGAAGGATATCCAACTCAAAGTCGATTTGGTG-AG
65 TACTTGGATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAG
* * *
859140 ACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAAATTGGTGAAGCAA
1 -CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAA
* * *
859205 TATTTGGATTTCAACTTCACAACGAAGGATATCAAACTTAAAGCCAATTTGGTGAAA
65 TACTTGGATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAG
* * * * *
859262 CTTGCAAGATTGGATTTTAACTTCACAACGAATGATATCCAACTTAAAGTCAATTT
1 C--ACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTT
859318 TGAAGCTATG
Statistics
Matches: 484, Mismatches: 49, Indels: 20
0.88 0.09 0.04
Matches are distributed among these distances:
120 2 0.00
121 243 0.50
122 28 0.06
123 152 0.31
124 2 0.00
125 57 0.12
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (121 bp):
CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAAT
ACTTGGATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAG
Found at i:859112 original size:244 final size:240
Alignment explanation
Indices: 858650--859316 Score: 944
Period size: 244 Copynumber: 2.7 Consensus size: 240
858640 ACTCGAGACA
*
858650 ACACAAGATTGAATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAACTT
1 ACACAAGATTG-ATTTCAACTTCACAACGAAGGATATCCAACTCAAAG-CAATTTGGTGAAAC--
* * **
858715 ACA-AGATTGGATTTCAACTTCACAAAGAAGGAATATCCAACTCAAAGCCAATTTGGTG-AAGCA
62 A-ATA-ATTGGATTTCAACTTCACAACGAAGG-ATATCAAACTCAAAGCCAATTTGGTGAAATTA
* * * * *
858778 CAATATTGGATTTCAACTTCACAGCGAAGGATATCCAACTAAAAGCCAATTTGGTGAAACAATAC
124 CAAGATTGGATTT-AACTTCACAACGAAGGATATCCAACTTAAAGTCAATTCGGTGAAACAATAC
*
858843 TTGGATTTCAACTTCACAACGAAGGATATCTAACTCAAAGCCAATTTGGTGA-
188 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAG
858895 AGCACAAGATTAGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGTCAATTTGGTGAAACA
1 A-CACAAGATT-GATTTCAACTTCACAACGAAGGATATCCAACTCAAAG-CAATTTGGTGAAACA
* *
858960 ATACTTGTATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAATTTACAA
63 ATAATTGGATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAA-TTACAA
* *
859025 GATTGGATATTAACTTCACAACGAAGGATATCCAACTTAAAGTCAATTCGGTGAAGCAGTACTTG
127 GATTGGAT-TTAACTTCACAACGAAGGATATCCAACTTAAAGTCAATTCGGTGAAACAATACTTG
* * *
859090 GATTTCAACTTCACAGCGAAGGATATCCAACTCAAAGTCGATTTGGTGAG
191 GATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAG
* *
859140 ACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAAATTGGTGAAGCAA
1 ACACAAGATT-GATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC-AATTTGGTGAAACAA
* * *
859205 TATTTGGATTTCAACTTCACAACGAAGGATATCAAACTTAAAGCCAATTTGGTGAAACTTGCAAG
64 TAATTGGATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAA-TTACAAG
*
859270 ATTGGATTTTAACTTCACAACGAATGATATCCAACTTAAAGTCAATT
128 ATTGGA-TTTAACTTCACAACGAAGGATATCCAACTTAAAGTCAATT
859317 TTGAAGCTAT
Statistics
Matches: 385, Mismatches: 28, Indels: 19
0.89 0.06 0.04
Matches are distributed among these distances:
242 25 0.06
243 27 0.07
244 269 0.70
245 5 0.01
246 58 0.15
247 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (240 bp):
ACACAAGATTGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCAATTTGGTGAAACAATA
ATTGGATTTCAACTTCACAACGAAGGATATCAAACTCAAAGCCAATTTGGTGAAATTACAAGATT
GGATTTAACTTCACAACGAAGGATATCCAACTTAAAGTCAATTCGGTGAAACAATACTTGGATTT
CAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAG
Found at i:860979 original size:128 final size:127
Alignment explanation
Indices: 860835--861142 Score: 350
Period size: 128 Copynumber: 2.4 Consensus size: 127
860825 CATCTTTAGG
* *
860835 AAGGGTGATAACACGGTTTCTACGTGATGAGGACGGCTGATTATCTAGGTTGACATAGCTCCTAC
1 AAGGGTGATAACACGGTTTCTACGTGATGAGGACGGCTGATTATCT-GGTTGACACAGCTCATAC
* * * * ** * * *
860900 TTAATAAGGAAATCTAGTCGGGTGATGATACGGTTCCTACGCGATGAGGACG-ACAGACCATCT
65 ATAATAAGGAAATATAGTCAGGTGATGACACGACTCATACGCAATGAAGA-GTACAGACCATCT
* *
860963 AAGGGTGATAACACGG-TTCTTACATGATGAGGACGACTGATTATCTGGGTTGACACAGCTCATA
1 AAGGGTGATAACACGGTTTC-TACGTGATGAGGACGGCTGATTATCT-GGTTGACACAGCTCATA
* * * * * * * *
861027 CATAATGAGGAGATATGGTCAGTTGATGACACGACTCATACGTAATGAAGAGTTCTGGCCATCT
64 CATAATAAGGAAATATAGTCAGGTGATGACACGACTCATACGCAATGAAGAGTACAGACCATCT
* * *
861091 AAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGTTGA
1 AAGGGTGATAACACGGTTTCTACGTGATGAGGACGGCTGATTATCTGGTTGA
861143 AACGGTTGCT
Statistics
Matches: 150, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
127 10 0.07
128 138 0.92
129 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (127 bp):
AAGGGTGATAACACGGTTTCTACGTGATGAGGACGGCTGATTATCTGGTTGACACAGCTCATACA
TAATAAGGAAATATAGTCAGGTGATGACACGACTCATACGCAATGAAGAGTACAGACCATCT
Found at i:863253 original size:25 final size:25
Alignment explanation
Indices: 863224--863281 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
863214 CTTCTGATGG
*
863224 ATGCCCCAATAATCTCCTGATCAGA
1 ATGCCCCAACAATCTCCTGATCAGA
*
863249 ATGCCCCAACCATCTCCTGATCAGA
1 ATGCCCCAACAATCTCCTGATCAGA
863274 ATGCCCCA
1 ATGCCCCA
863282 TTACACATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.21
Consensus pattern (25 bp):
ATGCCCCAACAATCTCCTGATCAGA
Found at i:867156 original size:2 final size:2
Alignment explanation
Indices: 867089--867138 Score: 50
Period size: 2 Copynumber: 25.0 Consensus size: 2
867079 TAAAACATTA
* *
867089 AT AT GT AT AT AT AT AT AT AT AT AT CT AT AT A- AT AT A- AGT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T -AT
867131 AT AT AT AT
1 AT AT AT AT
867139 TCGAATATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
1 2 0.05
2 36 0.90
3 1 0.03
4 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:868669 original size:13 final size:14
Alignment explanation
Indices: 868646--868683 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
868636 GGAATGAAAG
868646 AAAATTCAAATTA-A
1 AAAATT-AAATTAGA
868660 AAAATTAAATTAGA
1 AAAATTAAATTAGA
868674 AAGAATTAAA
1 AA-AATTAAA
868684 ATTCATGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 9 0.41
15 7 0.32
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (14 bp):
AAAATTAAATTAGA
Found at i:869988 original size:3 final size:3
Alignment explanation
Indices: 869980--870043 Score: 94
Period size: 3 Copynumber: 21.7 Consensus size: 3
869970 GTAAATATGT
* * *
869980 TAA TAA TAA TGA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
870028 TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TA
870044 TATTTTAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:873568 original size:47 final size:47
Alignment explanation
Indices: 873489--873582 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
873479 GTCGTGTAGA
873489 ATGCCGCCAACCGTGCCTACGGAGGAAACTGAGGAAACCGAGGCATC
1 ATGCCGCCAACCGTGCCTACGGAGGAAACTGAGGAAACCGAGGCATC
* * *
873536 ATGCTGCCAACCGTGCCTATGGAGGAAGCTGAGGAAACCGAGGCATC
1 ATGCCGCCAACCGTGCCTACGGAGGAAACTGAGGAAACCGAGGCATC
873583 GACATTAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.29, C:0.28, G:0.31, T:0.13
Consensus pattern (47 bp):
ATGCCGCCAACCGTGCCTACGGAGGAAACTGAGGAAACCGAGGCATC
Found at i:876591 original size:29 final size:29
Alignment explanation
Indices: 876439--876591 Score: 69
Period size: 29 Copynumber: 5.1 Consensus size: 29
876429 ATAAAAGTGG
* *
876439 AATATTCAAAAGTTTGGGGACCAATTTAGA
1 AATATTCAAAAGTTTAGGGACAAATTTA-A
* * * * *
876469 AAAATGGTC-ATAGTTTAGGGAGAAAATTAG
1 AATAT--TCAAAAGTTTAGGGACAAATTTAA
* * * *
876499 AATGTTCAAAATTTTAAGGACTAATTTAGA
1 AATATTCAAAAGTTTAGGGACAAATTTA-A
* * * * *
876529 ATGAGATTC-ATAGTTT-GAGGATAAAATTAG
1 A--ATATTCAAAAGTTTAG-GGACAAATTTAA
*
876559 AATATTCAAAAGTTTAGGGACCAATTTAA
1 AATATTCAAAAGTTTAGGGACAAATTTAA
876588 AATA
1 AATA
876592 CGAGTCATAA
Statistics
Matches: 83, Mismatches: 31, Indels: 19
0.62 0.23 0.14
Matches are distributed among these distances:
28 7 0.08
29 32 0.39
30 10 0.12
31 28 0.34
32 6 0.07
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (29 bp):
AATATTCAAAAGTTTAGGGACAAATTTAA
Found at i:876600 original size:60 final size:59
Alignment explanation
Indices: 876420--876609 Score: 195
Period size: 60 Copynumber: 3.2 Consensus size: 59
876410 TATTTGGATG
* * * * *
876420 AGTTTGGGGATAAAAGTGGAATATTCAAAAGTTTGGGGACCAATTTAGAAAAATG-GTCAT
1 AGTTTGAGGATAAAATTAGAATATTCAAAAGTTTAGGGACCAATTTA-AAATA-GAGTCAT
* * * * * * *
876480 AGTTT-AGGGAGAAAATTAGAATGTTCAAAATTTTAAGGACTAATTTAGAATGAGATTCAT
1 AGTTTGA-GGATAAAATTAGAATATTCAAAAGTTTAGGGACCAATTTAAAAT-AGAGTCAT
876540 AGTTTGAGGATAAAATTAGAATATTCAAAAGTTTAGGGACCAATTTAAAATACGAGTCAT
1 AGTTTGAGGATAAAATTAGAATATTCAAAAGTTTAGGGACCAATTTAAAATA-GAGTCAT
* *
876600 AATTTAAGGA
1 AGTTTGAGGA
876610 CATATAATGC
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
59 4 0.04
60 99 0.95
61 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (59 bp):
AGTTTGAGGATAAAATTAGAATATTCAAAAGTTTAGGGACCAATTTAAAATAGAGTCAT
Done.