Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000708.1 Hibiscus syriacus cultivar Beakdansim tig00001376_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: 81210
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Found at i:13277 original size:20 final size:21
Alignment explanation
Indices: 13253--13300 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
13243 ATGATTCTTG
*
13253 ATATCGATATC-ACATGAACA
1 ATATCGATATCAACACGAACA
*
13273 TTATCGATATCAACACGAACA
1 ATATCGATATCAACACGAACA
13294 ATATCGA
1 ATATCGA
13301 AATTGCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (21 bp):
ATATCGATATCAACACGAACA
Found at i:13893 original size:35 final size:35
Alignment explanation
Indices: 13847--13921 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
13837 AAAATACTTC
13847 AATTTAAGGTTTAGAATGTAATTAAAGTATTTTAG
1 AATTTAAGGTTTAGAATGTAATTAAAGTATTTTAG
* * *
13882 AATTTAGGGTTTAGAATGTAATTCAAGTATTTTGG
1 AATTTAAGGTTTAGAATGTAATTAAAGTATTTTAG
13917 AATTT
1 AATTT
13922 TGAACATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGTAATTAAAGTATTTTAG
Found at i:22320 original size:2 final size:2
Alignment explanation
Indices: 22313--22351 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22303 ACAAATGTTC
22313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22352 GAAGGATAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23318 original size:131 final size:131
Alignment explanation
Indices: 23084--23571 Score: 658
Period size: 131 Copynumber: 3.7 Consensus size: 131
23074 TTCTAAGAGA
* * * ** *
23084 GAAAATGATAATATCCAATTATTTCTGATCGAGAATAAATGACCTCTCATGA-CTTAAAGCATTC
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCAT-ACCTTAAAGCAATC
* *
23148 ATTTATTACTCCAATCGAAATGAAGAA-ATATAACTATTTCGTCTTAAAATTCAATATCAATTCG
65 ATTTATTACTCCAATCGAAATGAA-AATATATCACTATTTCGTCTTAAAATTCAATATTAATTCG
23212 AGT
129 AGT
*
23215 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAACCAATCA
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCA
* * * * *
23280 TTTATTGCTCCAATCGAAATGAAGATATATCATTATTTCATCTTAAAATTCAATATTGATTCGAG
66 TTTATTACTCCAATCGAAATGAAAATATATCACTATTTCGTCTTAAAATTCAATATTAATTCGAG
23345 T
131 T
** *
23346 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGATTTCTCATACCTTAAAGCAGTCA
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCA
* * *
23411 TTTATTGCTCCAATCGAAATGAAAATATATCACTATTCCGTCTTAAAAATCAATATTAATTCGAG
66 TTTATTACTCCAATCGAAATGAAAATATATCACTATTTCGTCTTAAAATTCAATATTAATTCGAG
*
23476 A
131 T
* * * * * * *
23477 GAAAACGGTAACATCAAATTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAG-AATTT
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAA-TC
* *
23541 ATTTATTACTCCAACCGAAATGAAAAGATAT
65 ATTTATTACTCCAATCGAAATGAAAATATAT
23572 TATTATTCTC
Statistics
Matches: 317, Mismatches: 37, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
130 3 0.01
131 314 0.99
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (131 bp):
GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCA
TTTATTACTCCAATCGAAATGAAAATATATCACTATTTCGTCTTAAAATTCAATATTAATTCGAG
T
Found at i:24082 original size:15 final size:15
Alignment explanation
Indices: 24062--24143 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
24052 TTTCGGAAAA
*
24062 TGAATTACTGGAGTT
1 TGAATTACTGGAATT
24077 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
24092 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
24107 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
24122 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
24136 TGAATTAC
1 TGAATTAC
24144 ATTTCTGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.20
15 47 0.80
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:24108 original size:45 final size:44
Alignment explanation
Indices: 24056--24143 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 44
24046 TTGGTTTTTC
* **
24056 GGAAAATGAATTACTGGAGTTTGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACT
24101 GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
24144 ATTTCTGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (44 bp):
GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACT
Found at i:24141 original size:29 final size:30
Alignment explanation
Indices: 24062--24143 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
24052 TTTCGGAAAA
***
24062 TGAATTACTGGAGTTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
24092 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
24122 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
24144 ATTTCTGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:24149 original size:20 final size:20
Alignment explanation
Indices: 24126--24175 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
24116 GGAATTTGAA
24126 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
24146 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
24166 TTCTGGAAAA
1 TTCTGGAAAA
24176 CATCTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:24430 original size:30 final size:28
Alignment explanation
Indices: 24374--24475 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 28
24364 TTTACTAAAA
*
24374 TATTATTGAAATATATAAATAA-TATTAT
1 TATTATT-AAATATATAAAAAATTATTAT
24402 TCATTATTAAATATATAAAAAATTTATTAT
1 T-ATTATTAAATATATAAAAAA-TTATTAT
* *
24432 ATATTATTAAA-ATAAAATAAAATATCTTA-
1 -TATTATTAAATATATAA-AAAAT-TATTAT
24461 TATTATTATAATATA
1 TATTATTA-AATATA
24476 ATTGATTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
28 22 0.35
29 14 0.22
30 26 0.41
31 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (28 bp):
TATTATTAAATATATAAAAAATTATTAT
Found at i:24489 original size:28 final size:28
Alignment explanation
Indices: 24373--24519 Score: 82
Period size: 28 Copynumber: 4.9 Consensus size: 28
24363 CTTTACTAAA
* * * *
24373 ATATTATTGAAAT-ATATAAATAATATT
1 ATATTATTAAAATAAAATAAATTATTTT
*
24400 ATTCATTATTAAATATATAAA-AAATTTATTAT
1 A-T-ATTATTAAA-ATA-AAATAAA-TTATTTT
* *
24432 ATATTATTAAAATAAAATAAAATATCTT
1 ATATTATTAAAATAAAATAAATTATTTT
* * **
24460 ATATTATTATAATATAATTGATTATTTT
1 ATATTATTAAAATAAAATAAATTATTTT
24488 ATATAATATTAAAAATATAATATAATATTATT
1 ATAT--TATT-AAAATA-AA-ATAA-ATTATT
24520 ATAAATATTA
Statistics
Matches: 89, Mismatches: 18, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
27 1 0.01
28 34 0.38
29 14 0.16
30 15 0.17
31 9 0.10
32 8 0.09
33 2 0.02
34 6 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATTATTAAAATAAAATAAATTATTTT
Found at i:24498 original size:15 final size:16
Alignment explanation
Indices: 24460--24523 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 16
24450 AAAATATCTT
24460 ATATTATTATAATATA
1 ATATTATTATAATATA
*
24476 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
24493 ATATTAAAAATATAATATA
1 ATATT---ATTATAATATA
24512 ATATTATTATAA
1 ATATTATTATAA
24524 ATATTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
15 3 0.08
16 8 0.21
17 8 0.21
18 8 0.21
19 11 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:24523 original size:30 final size:30
Alignment explanation
Indices: 24377--24538 Score: 99
Period size: 31 Copynumber: 5.4 Consensus size: 30
24367 ACTAAAATAT
*
24377 TATTGAAATATATAA-ATAATATTATTCAT--
1 TATT-AAAAATATAATATAATATTATT-ATAA
* *
24406 TATTAAATATATAA-AAAAT-TTATTAT-A
1 TATTAAAAATATAATATAATATTATTATAA
* * * *
24433 TATTATTAAAATAAAATAAAATA-TCTTATAT
1 TATTA--AAAATATAATATAATATTATTATAA
* * *
24464 TATT-ATAATATAAT-TGATTATTTTATATAA
1 TATTAAAAATATAATAT-AATATTAT-TATAA
24494 TATTAAAAATATAATATAATATTATTATAAA
1 TATTAAAAATATAATATAATATTATTAT-AA
24525 TATTAATAAATATA
1 TATTAA-AAATATA
24539 TTTTAAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
26 2 0.02
27 10 0.09
28 25 0.24
29 13 0.12
30 21 0.20
31 27 0.25
32 8 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
TATTAAAAATATAATATAATATTATTATAA
Found at i:24533 original size:10 final size:10
Alignment explanation
Indices: 24492--24537 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
24482 TATTTTATAT
24492 AATATTAA-A
1 AATATTAATA
24501 AATA-TAATA
1 AATATTAATA
24510 TAATATTATTATA
1 -AATATTA--ATA
24523 AATATTAATA
1 AATATTAATA
24533 AATAT
1 AATAT
24538 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.09
9 5 0.16
10 12 0.38
11 2 0.06
12 7 0.22
13 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATATTAATA
Found at i:24540 original size:21 final size:22
Alignment explanation
Indices: 24493--24549 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
24483 ATTTTATATA
*
24493 ATATTAAAAATA-TAATATAAT
1 ATATTATAAATATTAATATAAT
24514 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
24536 ATATTTTAAATATT
1 ATATTATAAATATT
24550 TTAATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.41
22 14 0.44
23 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:24554 original size:23 final size:21
Alignment explanation
Indices: 24500--24549 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
24490 ATAATATTAA
*
24500 AAATA-TAATATAATATTATTAT
1 AAATATTAATA-AATA-TATTTT
24522 AAATATTAATAAATATATTTT
1 AAATATTAATAAATATATTTT
24543 AAATATT
1 AAATATT
24550 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTAATAAATATATTTT
Found at i:24795 original size:42 final size:42
Alignment explanation
Indices: 24736--24855 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
24726 ATGAATTACA
*
24736 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
24778 TTCCGGTAAATGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
24820 TTCCGGAAAACGAATTACGTGAAACAAACACTGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
24856 TTCGGGGAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:25537 original size:14 final size:14
Alignment explanation
Indices: 25518--25545 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25508 TTAAGAACTC
25518 TCTCTTTCTTTCTT
1 TCTCTTTCTTTCTT
25532 TCTCTTTCTTTCTT
1 TCTCTTTCTTTCTT
25546 CAGTCGGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TCTCTTTCTTTCTT
Found at i:27140 original size:43 final size:43
Alignment explanation
Indices: 26915--27133 Score: 312
Period size: 43 Copynumber: 5.1 Consensus size: 43
26905 TGGTAACAAA
*** * * * ** *
26915 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTATCTAAT
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
* * *
26958 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTTCAAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
*
27001 AAACGCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
27044 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
*
27087 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
27130 AAAC
1 AAAC
27134 ATCGCAAAAG
Statistics
Matches: 162, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 162 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
Found at i:27167 original size:43 final size:43
Alignment explanation
Indices: 27033--27208 Score: 135
Period size: 43 Copynumber: 4.1 Consensus size: 43
27023 ATTTAGCGGA
* * ** * *
27033 GTTTTTCCCACAAACGCCGCAATAGGTGTTGAG-ATTTAGCGGC
1 GTTTTTCCCACAAACGCCGCAAAAGATCATG-GTATATAGCGAC
* * * * *
27076 GTTTTTCCCACAAACGCCGCAATAGGTCTTGAG-ATTTAGCGGC
1 GTTTTTCCCACAAACGCCGCAAAAGATCATG-GTATATAGCGAC
**
27119 GTTTTTCCCACAAACATCGCAAAAGATC-TGGTATATAGCGAC
1 GTTTTTCCCACAAACGCCGCAAAAGATCATGGTATATAGCGAC
*** * *
27161 GTTTTTTAGAACAAACGCCGCAAAAGATCAT-ATCTATAGCGAC
1 G-TTTTTCCCACAAACGCCGCAAAAGATCATGGTATATAGCGAC
27204 GTTTT
1 GTTTT
27209 AAGATACAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 15 0.13
43 99 0.85
44 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
GTTTTTCCCACAAACGCCGCAAAAGATCATGGTATATAGCGAC
Found at i:27167 original size:86 final size:86
Alignment explanation
Indices: 26983--27183 Score: 262
Period size: 86 Copynumber: 2.3 Consensus size: 86
26973 TGTTGATATT
*
26983 TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTTCCCACAAAC
1 TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAAC
* * * * *
27048 GCCGCAATAGGTGTTGAGATT
66 ACCGCAAAAGATGCTGAGATA
* * *
27069 TAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
1 TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAAC
*
27134 ATCGCAAAAGAT-CTG-GTATA
66 ACCGCAAAAGATGCTGAG-ATA
* *
27154 TAGCGACGTTTTTTAGAACAAACGCCGCAA
1 TAGCGGCGTTTTTT-CAACAAACGCCGCAA
27184 AAGATCATAT
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
84 1 0.01
85 16 0.16
86 82 0.83
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (86 bp):
TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAAC
ACCGCAAAAGATGCTGAGATA
Found at i:27167 original size:129 final size:129
Alignment explanation
Indices: 26910--27183 Score: 293
Period size: 129 Copynumber: 2.1 Consensus size: 129
26900 GCGTTTGGTA
* * * * *
26910 ACAAAAAACGCCGCAATAGGTAACGATATATAGCGGCGTTTATCTAATAAACGCCGCAATAGGTG
1 ACAACAAACGCCGCAATAGGTAACGAGATATAGCGGCGTTTATCCAACAAACGCCGCAATAGGTC
* * * * * * *
26975 TTGATATTTAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTT
66 TTGAGATTTAGCGGCGTTTTTCCAACAAACACCGCAAAAGATGCTGAGATATAGCGGAGTTTTT
* * *** * * *
27039 CCCACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTC
1 ACAACAAACGCCGCAATAGGTAACGAGATATAGCGGCGTTTATCCAACAAACGCCGCAATAGGTC
* *
27104 TTGAGATTTAGCGGCGTTTTTCCCACAAACATCGCAAAAGAT-CTG-GTATATAGC-GACGTTTT
66 TTGAGATTTAGCGGCGTTTTTCCAACAAACACCGCAAAAGATGCTGAG-ATATAGCGGA-G-TTT
27166 TT
128 TT
*
27168 AGAACAAACGCCGCAA
1 ACAACAAACGCCGCAA
27184 AAGATCATAT
Statistics
Matches: 117, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
127 3 0.03
128 9 0.08
129 105 0.90
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (129 bp):
ACAACAAACGCCGCAATAGGTAACGAGATATAGCGGCGTTTATCCAACAAACGCCGCAATAGGTC
TTGAGATTTAGCGGCGTTTTTCCAACAAACACCGCAAAAGATGCTGAGATATAGCGGAGTTTTT
Found at i:27362 original size:21 final size:21
Alignment explanation
Indices: 27336--27394 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
27326 ATTTTCCAAT
*
27336 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
27357 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
27378 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
27395 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:28305 original size:36 final size:36
Alignment explanation
Indices: 28264--28379 Score: 205
Period size: 36 Copynumber: 3.2 Consensus size: 36
28254 GGAATGTATC
28264 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
1 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
28300 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
1 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
* * *
28336 TAAATTCCACTTGAACAGCAGCAGTAGAATGTTGAT
1 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
28372 TAAATTCC
1 TAAATTCC
28380 CAACCGTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 77 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (36 bp):
TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
Found at i:32194 original size:138 final size:133
Alignment explanation
Indices: 32022--32301 Score: 416
Period size: 133 Copynumber: 2.1 Consensus size: 133
32012 AGAAGAAGAA
* *
32022 AAAAACCAGAAATCAGAAGGCAAAACAAGTTTCAGAAAATAAAAAATGAATTCTACCTAGAGATC
1 AAAACCCAGAAATCAGAAGGCAAAACAAGTTTCAG-----AAAAAATGAATTCTACCCAGAGATC
*
32087 TAATTCACATAAAAGTAAACAAATTCACACCCCCAATGAGGCTAAGAACTAATAGAATGGACTTT
61 TAATTCACATAAAAGTAAACAAATTCACACCCCCAATGAGGCTAAGAACTAAAAGAATGGACTTT
* *
32152 TATAAAAC
126 CAGAAAAC
* * **
32160 AAAACCCAGAAATCATAAGGTAAAACAAGTTTCAGGGAAAATGAATTCTACCCAGAGATCTAATT
1 AAAACCCAGAAATCAGAAGGCAAAACAAGTTTCAGAAAAAATGAATTCTACCCAGAGATCTAATT
* *
32225 CACATAAAAGTAAACAAATTCACGCCCCCAATGAGGCTAAGAACTAAAAGAATGGACTTTCAGGA
66 CACATAAAAGTAAACAAATTCACACCCCCAATGAGGCTAAGAACTAAAAGAATGGACTTTCAGAA
32290 AAC
131 AAC
32293 AAAACCCAG
1 AAAACCCAG
32302 CAAGATGAAA
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
133 99 0.76
138 32 0.24
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (133 bp):
AAAACCCAGAAATCAGAAGGCAAAACAAGTTTCAGAAAAAATGAATTCTACCCAGAGATCTAATT
CACATAAAAGTAAACAAATTCACACCCCCAATGAGGCTAAGAACTAAAAGAATGGACTTTCAGAA
AAC
Found at i:32944 original size:41 final size:39
Alignment explanation
Indices: 32911--33299 Score: 289
Period size: 41 Copynumber: 9.5 Consensus size: 39
32901 GGCGTTTTAA
* *
32911 AAAACAAACGCCACTAAAGTACAAGTCTAGCGGCGTTTTT
1 AAAA-AAACGCCACTAAAGTACGAGTCTAGCGGCGTTTGT
*
32951 AAAAAAACGCCACTAATGTACGAGTCTATAGCGGCGTTTGT
1 AAAAAAACGCCACTAAAGTACGAGTC--TAGCGGCGTTTGT
* * * *
32992 ATAAAAACACCACTAATGTACGAGTCTATAGCGGTGTTTGT
1 AAAAAAACGCCACTAAAGTACGAGTC--TAGCGGCGTTTGT
* * * *
33033 ATATAAACGCCACTAAAGTACAAGCCTATAGCGGCGTTTGT
1 AAAAAAACGCCACTAAAGTACGAG--TCTAGCGGCGTTTGT
* *
33074 AAACACAAACGCCACAAAATTA-GAGTCTATAGCGGCGTTTGT
1 AAA-A-AAACGCCACTAAAGTACGAGTC--TAGCGGCGTTTGT
* * * * *
33116 ATAAAAATGCCACTAAAGTACTACTCTATCGCGACGTTTTGT
1 AAAAAAACGCCACTAAAGTACGAGTCTA--GCGGCG-TTTGT
* * *
33158 ATAAAAACACCGCTAAAGT-CGAGTCTATAGCGGCGTTTGT
1 AAAAAAACGCCACTAAAGTACGAGTC--TAGCGGCGTTTGT
* ** * * *
33198 ATAAAAACGCTGCTAAAGTACAACTCTATTGTGGCGTTT-T
1 AAAAAAACGCCACTAAAGTACGAGTCTA--GCGGCGTTTGT
*
33238 ATATAAAAACGCCACTAAAGTACGAGTCTATAACGGCGTTTGT
1 A-A-AAAAACGCCACTAAAGTACGAGTC--TAGCGGCGTTTGT
* *
33281 ATAAAAACGCCGCTAAAGT
1 AAAAAAACGCCACTAAAGT
33300 TACCATTTTG
Statistics
Matches: 282, Mismatches: 45, Indels: 43
0.76 0.12 0.12
Matches are distributed among these distances:
39 24 0.09
40 42 0.15
41 130 0.46
42 65 0.23
43 19 0.07
44 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (39 bp):
AAAAAAACGCCACTAAAGTACGAGTCTAGCGGCGTTTGT
Found at i:33024 original size:82 final size:83
Alignment explanation
Indices: 32916--33299 Score: 458
Period size: 82 Copynumber: 4.7 Consensus size: 83
32906 TTTAAAAAAC
* * * * * *
32916 AAACGCCACTAAAGTACAAGTC--TAGCGGCGTTTTTAAAAAAACGCCACTAATGTACGAGTCTA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAACTCTA
32979 TAGCGGCG-TTTGTATAA
66 TAGCGGCGTTTTGTATAA
* * * *
32996 AAACACCACTAATGTACGAGTCTATAGCGGTGTTTGTATATAAACGCCACTAAAGTACAAGC-CT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAA-CTCT
*
33060 ATAGCGGCG-TTTGTAAACA
65 ATAGCGGCGTTTTGTATA-A
* * * *
33079 CAAACGCCACAAAATTA-GAGTCTATAGCGGCGTTTGTATAAAAATGCCACTAAAGTACTACTCT
1 -AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAACTCT
* *
33143 ATCGCGACGTTTTGTATAA
65 ATAGCGGCGTTTTGTATAA
* * **
33162 AAACACCGCTAAAGT-CGAGTCTATAGCGGCGTTTGTATAAAAACGCTGCTAAAGTACAACTCTA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAACTCTA
* * *
33226 TTGTGGCGTTTTATATAA
66 TAGCGGCGTTTTGTATAA
* *
33244 AAACGCCACTAAAGTACGAGTCTATAACGGCGTTTGTATAAAAACGCCGCTAAAGT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGT
33300 TACCATTTTG
Statistics
Matches: 257, Mismatches: 38, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
80 19 0.07
82 131 0.51
83 88 0.34
84 19 0.07
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (83 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAACTCTA
TAGCGGCGTTTTGTATAA
Found at i:33183 original size:165 final size:165
Alignment explanation
Indices: 32899--33299 Score: 508
Period size: 165 Copynumber: 2.4 Consensus size: 165
32889 CTTTAAACTT
* * *
32899 GCGGCGTTTTAAAAAACAAACGCCACTAAAGTACAAGTC--TAGCGGCGTTTTTAAAAAAACGCC
1 GCGGCGTTTT-AAAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
* * * * *
32962 ACTAATGTACGAGTCTATAGCGGCGTTTGTATAAAAACACCACTAATGTACGAGTCTATAGCGGT
65 ACTAAAGTACGACTCTATAGCGACGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGC
*
33027 GTTTGTATATAAACGCCACTAAAGTACAAGC-CTATA
130 GTTTGTATAAAAACGCCACTAAAGTACAA-CTCTATA
* * * *
33063 GCGGCGTTTGTAAACACAAACGCCACAAAATTA-GAGTCTATAGCGGCGTTTGTATAAAAATGCC
1 GCGGCGTTT-TAAAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
* * *
33127 ACTAAAGTACTACTCTATCGCGACGTTTTGTATAAAAACACCGCTAAAGT-CGAGTCTATAGCGG
65 ACTAAAGTACGACTCTATAGCGACG-TTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGG
** *
33191 CGTTTGTATAAAAACGCTGCTAAAGTACAACTCTATT
129 CGTTTGTATAAAAACGCCACTAAAGTACAACTCTATA
* * *
33228 GTGGCGTTTTATATAA-AAACGCCACTAAAGTACGAGTCTATAACGGCGTTTGTATAAAAACGCC
1 GCGGCGTTTTA-AAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
*
33292 GCTAAAGT
65 ACTAAAGT
33300 TACCATTTTG
Statistics
Matches: 203, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
163 4 0.02
164 45 0.22
165 132 0.65
166 22 0.11
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (165 bp):
GCGGCGTTTTAAAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
CTAAAGTACGACTCTATAGCGACGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGCG
TTTGTATAAAAACGCCACTAAAGTACAACTCTATA
Found at i:33325 original size:83 final size:81
Alignment explanation
Indices: 32897--33328 Score: 342
Period size: 82 Copynumber: 5.3 Consensus size: 81
32887 AACTTTAAAC
* * * * *
32897 TTGCGGCGTTTTAA-AAAACAAACGCCACTAAAGTACAAGTC--TAGCGGCGTTTTTAAAAAAAC
1 TTGCGGCG-TTTAATATAA-AAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAAC
*
32959 GCCACTAATGTACGAGTC-TA
64 GCCACTAAAGTAC-A--CATA
* * * * *
32979 TAGCGGCGTTT-GTATAAAAACACCACTAATGTACGAGTCTATAGCGGTGTTTGTATATAAACGC
1 TTGCGGCGTTTAATATAAAAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGC
*
33043 CACTAAAGTACAAGCCTA
66 CACTAAAGTAC-A-CATA
* * * * * * *
33061 TAGCGGCGTTTGTAA-ACACAAACGCCACAAAATTA-GAGTCTATAGCGGCGTTTGTATAAAAAT
1 TTGCGGCG-TT-TAATATAAAAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAAC
*
33124 GCCACTAAAGTACTACTCTA
64 GCCACTAAAGTAC-AC-ATA
* * ** *
33144 TCGCGACGTTTTGTATAAAAACACCGCTAAAGT-CGAGTCTATAGCGGCGTTTGTATAAAAACGC
1 TTGCGGCGTTTAATATAAAAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGC
** *
33208 TGCTAAAGTACAACTCTA
66 CACTAAAGTAC-AC-ATA
* * * *
33226 TTGTGGCGTTTTATATAAAAACGCCACTAAAGTACGAGTCTATAACGGCGTTTGTATAAAAACGC
1 TTGCGGCGTTTAATATAAAAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGC
* *
33291 CGCTAAAGTTAC-CATT
66 CACTAAAG-TACACATA
* * *
33307 TTGTGGCGTTTAAAATATAAAC
1 TTGCGGCGTTTAATATAAAAAC
33329 GCCGCTATAT
Statistics
Matches: 287, Mismatches: 51, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
80 19 0.07
81 28 0.10
82 135 0.47
83 87 0.30
84 18 0.06
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (81 bp):
TTGCGGCGTTTAATATAAAAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGC
CACTAAAGTACACATA
Found at i:35790 original size:4 final size:4
Alignment explanation
Indices: 35781--35810 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
35771 AAAAATAATA
35781 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
35811 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:35822 original size:12 final size:14
Alignment explanation
Indices: 35773--35816 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
35763 AATGGAGTAA
35773 AAAT-AATAA-AAT
1 AAATAAATAATAAT
35785 AAATAAATAAATAAAT
1 AAATAAAT-AAT-AAT
35801 AAATAAATAATAAT
1 AAATAAATAATAAT
35815 AA
1 AA
35817 TAATAAACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 7 0.25
15 3 0.11
16 11 0.39
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAAATAATAAT
Found at i:38117 original size:247 final size:248
Alignment explanation
Indices: 37681--39400 Score: 1568
Period size: 247 Copynumber: 7.0 Consensus size: 248
37671 TTTTATTGAT
** * * * * * * *
37681 AGATAACCCTTCTTTCCTTGAGCTATACTGTAAATGATGTGCCTTAGAGTTGAGCGTAGTTGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCAGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * * * * *
37746 TCGAAGGTCTTTGGCAGATAGCCCTTATAGCCTTGAGTTATACCT-CAAATAATGTG-TCGTTGA
66 TCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT-GCTGCAAATGATGTGCTTGTTGA
* * * * * *** * *
37809 GCTGACCATAATCGAACTCAAAGGTCTTTGGTTGGCAGATAGCCATTCTCTACTTAAGTTATACT
130 GCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCT
* * * *
37874 GCAAATGTTGTGCCTTTGAACTGAGTGTAATCAAACTCGAAGGTCTTTTTTGGC
195 GCAAATGATGTGCCTTTGAACTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGGC
* * * *
37928 AGATAACCCTTCTAACCTTGAGTTATGCAGCACATGATGTGCCTTGGAGCAT-AACGTAGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCAGCAAATGATGTGCCTTGGAGC-TGAGCGTAGTCGAA
** * * * * * *
37992 CTCGAAGGTCTTTGATAGATAGCCCTTCTAGCCTTGAGCTATACCGCAGATGATGTG-TTGTTGA
65 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCTTGTTGA
* * * * * *
38056 GCTGAGCATAATCAAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
130 GCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCT
* * * * * * *
38121 GCAAATGTTGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTAGC
195 GCAAATGATGTGCCTTTGAACTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGGC
* *
38175 AGATAACCCTTCTAGCCTTGAGTTATG-ATGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCA-GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * * * *
38239 CTCAAAGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGATATGTTGTAAATGATGTGCCT-TTGA
65 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCTTGTTGA
* * *
38303 GCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGAT
130 GCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCT
*
38367 GTAAATGATGTG-CTTTGGAGA-TGAGCGTAGTCGAACTCGAAGGTC---TTTGGC
195 GCAAATGATGTGCCTTT-GA-ACTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGGC
* * * * *
38418 AGATAGCCCTTCTAGCCTTGAGTTATATC-GCAAATGATGTGTCGTT-GAGCTGAGCATAATCGA
1 AGATAACCCTTCTAGCCTTGAGTTAT-GCAGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
** * * *
38481 ACTTAAAGGTCTTTGGCTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGTTATGCCT
64 ACTCGAAGGTCTTTGGC----AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCTT
* *
38546 -TTGAGTTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTT
125 GTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTT
* * * *
38609 ATGCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTC---TTTGGC
190 ATGCTGCAAATGATGTGCCTTTGAACTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGGC
* * * * * * * * * *
38665 AGATAGCCCTTCTAGCATTAAGCTATACCGCAAATGATGTGTCATT-GAGCTTAGCATAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCAGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
* * * *
38729 CTCAAAGGTCTTTGGTTGGTAGATAGCCCTTCTCGACTTAATCTATGCTGCAAAT-ATTGTGCCT
65 CTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA-TGTGCTT
* * * *
38793 -TTAAGTTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGGCAAATAACCCTTCTAGCCTTGAGTT
125 GTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTT
* * * * * * *
38856 ATGCTGCAAATGATGTGCCCTTAAAGCTGAGTGAAATCGAACTCGAGGGTC---TTTGGA
190 ATGCTGCAAATGATGTGCCTTTGAA-CTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGGC
* * * * * * *
38913 AGATAGCCCTTCTCGACTTAAGCTATGCTA-CAAATGATGTACCTTGAAGCTGAGCGTAGTCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGC-AGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * * * * *
38977 CTCGAAGGTCTTTGGAGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAAGATGTGCCTTG
65 CTCGAAGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CTTG
* * * * * * *
39042 --GAGCTGAACATAGTCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGTTA
126 TTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTA
** * * * ** *
39101 TATTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAATTCAAAGGTCTTTGGTGAC
191 TGCTGCAAATGATGTGCCTTTGAACTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGGC
* * * * * * *
39159 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGAAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCAGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
* *
39224 CTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCTTG--G
65 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT-GCTTGTTG
* * *
39287 AGCTGAGCGTATTCGAACTCGAAGGTCTTTGG-AGACAGATAACCCTTCTAGCCTTGAGTTATGC
129 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGC
* * * *
39351 TGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGATCTTT
194 TGCAAATGATGTGCCTTTGAA-CTGAGCGTAGTCGAACTCGAAGGTCTTT
39401 GGATGACAGA
Statistics
Matches: 1228, Mismatches: 202, Indels: 85
0.81 0.13 0.06
Matches are distributed among these distances:
243 89 0.07
244 112 0.09
245 6 0.00
246 105 0.09
247 796 0.65
248 115 0.09
249 1 0.00
251 4 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (248 bp):
AGATAACCCTTCTAGCCTTGAGTTATGCAGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCTTGTTGAG
CTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
CAAATGATGTGCCTTTGAACTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGGC
Found at i:38294 original size:327 final size:328
Alignment explanation
Indices: 37676--39443 Score: 1763
Period size: 327 Copynumber: 5.4 Consensus size: 328
37666 GACAATTTTA
* ** * * * * *
37676 TTGATAGATAACCCTTCTTTCCTTGAGCTATACTGTAAATGATGTGCCT-TAGAGTTGAGCGTAG
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG-TTGTTGAGCTGAGCATAG
* * * * * *
37740 TTGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTATAGCCTTGAGTTATACCT-CAAATAATG
65 TCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATA-CTGCAAATGATG
* * * * * * *** *
37800 TGTCGTTGAGCTGACCATAATCGAACTCAAAGGTCTTTGGTTGGCAGATAGCCATTCTCTACTTA
129 TGCCTTTGAGCTGAGCGTAATCGAACTCAAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTG
* * * * * *
37865 AGTTATACTGCAAATGTTGTGCCTTTGAA-CTGAGTGTAATCAAACTCGAAGGTCTTTTTTGGCA
193 AGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGAAATCGAACTCGAAGGTC---TTTGGCA
* * * * * * *
37929 GATAACCCTTCT-AACCTTGAGTTATGC-AGCACATGATGTGCCTTGGAGCAT-AACGTAGTCAA
255 GATAGCCCTTCTCGA-CTTAAGCTATGCTA-CAAATGATGTGCCTTGGAGC-TGAGCGTAGTCGA
37991 ACTCGAAGGTCT
317 ACTCGAAGGTCT
* * * * * * *
38003 TTGATAGATAGCCCTTCTAGCCTTGAGCTATACCGCAGATGATGTGTTGTTGAGCTGAGCATAAT
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGTTGTTGAGCTGAGCATAGT
* * * * *
38068 CAAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTTGTG
66 CGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTG
* * * *
38133 CATTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTAGCAGATAACCCTTCTAGCCTTGAGT
131 CCTTTGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGT
* * ** * * *
38198 TATGATGCAAATGATATG-CCTTGGAGCTGAACGTAGTCGAACTCAAAGGTCTTTGGCAGATAGC
196 TATGCTGCAAATGATATGCCCTTGAAGCTGAGTGAAATCGAACTCGAAGGTCTTTGGCAGATAGC
* * * ** *
38262 CCTTTTCGACTTAAGATATGTTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGG
261 CCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
38327 TCTT
326 TC-T
* * *
38331 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGA-TGTAAATGATGTGCTT-TGGAGATGAGCG
1 T--TGACAGATAACCCTTCTAGCCTTGAGTTAT-ACTGTAAATGATGTG-TTGTTGAGCTGAGCA
* * *
38394 TAGTCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTAGCCTTGAGTTATA-TCGCAAATG
62 TAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATACT-GCAAATG
* * * * * * * * *
38454 ATGTGTCGTTGAGCTGAGCATAATCGAACTTAAAGGTCTTTGGCTGGAAGATAGCCCTTCTCGAC
126 ATGTGCCTTTGAGCTGAGCGTAATCGAACTCAAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCC
* * * * * *
38519 TTAAGCTATGCTGCAAATGTTATGCCTTTG-AGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTG
190 TTGAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGAAATCGAACTCGAAGGTC--T-TTG
* * * * * *
38583 GCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGA
252 GCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
38648 ACTCGAAGGTCT
317 ACTCGAAGGTCT
* * * * * * * ** * *
38660 TTGGCAGATAGCCCTTCTAGCATTAAGCTATACCGCAAATGATGTGTCATTGAGCTTAGCATAAT
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGTTGTTGAGCTGAGCATAGT
* * *
38725 CGAACTCAAAGGTCTTTGGTTGGTAGATAGCCCTTCTCGACTTAA-TCTATGCTGCAAAT-ATTG
66 CGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGT-TATACTGCAAATGA-TG
* * * * *
38788 TGCCTTTAAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAAATAACCCTTCTAGCCTTGA
129 TGCCTTTGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGA
* * * *
38853 GTTATGCTGCAAATGATGTGCCCTTAAAGCTGAGTGAAATCGAACTCGAGGGTCTTTGGAAGATA
194 GTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGAAATCGAACTCGAAGGTCTTTGGCAGATA
* *
38918 GCCCTTCTCGACTTAAGCTATGCTACAAATGATGTACCTTGAAGCTGAGCGTAGTCGAACTCGAA
259 GCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
38983 GGTCT
324 GGTCT
* * *
38988 TTGGAGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAAGATGTGCCTTG--GAGCTGAAC
1 TT---GACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG--TTGTTGAGCTGAGC
*
39051 ATAGTCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGTTATATTGCAAATG
61 ATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATG
* * * *
39112 ATGTGCCTTTGAGCTGAGCGTAGTCGAATTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCT
126 ATGTGCCTTTGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCT
* * * *
39177 TGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCGAGGGTCTTTGGCAG
191 TGAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGAAATCGAACTCGAAGGTCTTTGGCAG
* * *
39242 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCTTGGAGCTGAGCGTATTCGAACTC
256 ATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
39307 GAAGGTCT
321 GAAGGTCT
* *** * *
39315 TTGGAGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCG
1 TT---GACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGTTGTTG-AGCTGAGCA
* * * * ** *
39380 TAGTCGAACTCGAAGATCTTTGGATGACAGATAACATTTCTCGACTTAAGCTATACTGCAAATG
62 TAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATG
39444 GTTTGTATAA
Statistics
Matches: 1186, Mismatches: 210, Indels: 85
0.80 0.14 0.06
Matches are distributed among these distances:
325 1 0.00
326 71 0.06
327 515 0.43
328 107 0.09
329 12 0.01
330 231 0.19
331 213 0.18
332 35 0.03
333 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (328 bp):
TTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGTTGTTGAGCTGAGCATAGT
CGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTG
CCTTTGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGT
TATGCTGCAAATGATATGCCCTTGAAGCTGAGTGAAATCGAACTCGAAGGTCTTTGGCAGATAGC
CCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
TCT
Found at i:38600 original size:410 final size:411
Alignment explanation
Indices: 37701--39401 Score: 1839
Period size: 410 Copynumber: 4.1 Consensus size: 411
37691 TCTTTCCTTG
* * * * * *
37701 AGCTATACTGTAAATGATGTGCCTTAGAGTTGAGCGTAGTTGAACTCGAAGGTC--T-TTGGCAG
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTTGGCAG
* * * * * *
37763 ATAGCCCTTATAGCCTTGAGTTAT-ACCT-CAAATAATGTGTCGTT-GAGCTGACCATAATCGAA
66 ATAACCCTTCTAGCCTTGAGTTATGA--TGCAAATGATGTG-CCTTGGAGCTGAACATAGTCGAA
* * *
37825 CTCAAAGGTCTTTGGTTGGCAGATAGCCATTCTCTACTTAAGTTATACTGCAAATGTTGTGCCTT
128 CTCAAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTT
* * * * ** * *
37890 TGAACTGAGTGTAATCAAACTCGAAGGTCTTTTTTGGCAGATAACCCTTCTAACCTTGAGTTATG
189 TGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATG
* * * * * **
37955 CA-GCACATGATGTG-CCTTGGAGCAT-AACGTAGTCAAACTCGAAGGTCTTTGATAGATAGCCC
254 -ATGCAAATGATGTGCCCTTGAAG-ATGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCC
* * * ** *
38017 TTCTAGCCTTGAGCTATACCGCAGATGATGTGTTGTT-GAGCTGAGCATAATCAAACTCAAAGGT
317 TTCTAGCCTTGAGCTATGCTGCAAATGATGTGTCCTTAGAGCTGAGCATAATCGAACTCAAAGGT
* *
38081 CTTTGGTTGGCAGATAACCCTTCTCGACTTA
382 CTTTGG-TGGAAGATAGCCCTTCTCGACTTA
* * * * *
38112 AGTTATGCTGCAAATGTTGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTAGCAG
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTTGGCAG
* *
38177 ATAACCCTTCTAGCCTTGAGTTATGATGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAACTC
66 ATAACCCTTCTAGCCTTGAGTTATGATGCAAATGATGTGCCTTGGAGCTGAACATAGTCGAACTC
* * ** *
38242 AAAGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGATATGTTGTAAATGATGTGCCTTTGAGCTG
131 AAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTTGAGCTG
* * *
38307 AGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAA
196 AGCGTAATCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGCAAA
* * *
38372 TGATGTG-CTTTGGAGATGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCT
261 TGATGTGCCCTTGAAGATGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCT
* * * *
38436 TGAGTTAT-ATCGCAAATGATGTGTCGTT-GAGCTGAGCATAATCGAACTTAAAGGTCTTTGGCT
326 TGAGCTATGCT-GCAAATGATGTGTCCTTAGAGCTGAGCATAATCGAACTCAAAGGTCTTTGG-T
38499 GGAAGATAGCCCTTCTCGACTTA
389 GGAAGATAGCCCTTCTCGACTTA
* * * *
38522 AGCTATGCTGCAAATGTTATGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAG
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTTGGCAG
* * *
38587 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTC
66 ATAACCCTTCTAGCCTTGAGTTATGATGCAAATGATGTGCCTTGGAGCTGAACATAGTCGAACTC
* * * * * *
38652 GAAGGTCTTTGGCAGATAGCCCTTCTAG-CATTAAGCTATACCGCAAATGATGTGTCATTGAGCT
131 AAAGGTCTTTGGCAGATAGCCCTTCTCGAC-TTAAGTTATACTGCAAATGATGTGCCTTTGAGCT
* * ** * * * * *
38716 TAGCATAATCGAACTCAAAGGTCTTTGGTTGGTAGATAGCCCTTCTCGACTT-AATCTATGCTGC
195 GAGCGTAATCGAACTCAAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGT-TATGATGC
* * * * *
38780 AAAT-ATTGTG-CCTTTAAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAAATAACCCTT
258 AAATGA-TGTGCCCTTGAAGATGAGCGTAATCGAACTCGAAGGTC--T-TTGGCAGATAGCCCTT
* * * * * *
38843 CTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTAAAGCTGAGTGA-AATCGAACTCGAGGGTC
319 CTAGCCTTGAGCTATGCTGCAAATGATGTGTCCTTAGAGCTGAG-CATAATCGAACTCAAAGGTC
38907 -TT--TGGAAGATAGCCCTTCTCGACTTA
383 TTTGGTGGAAGATAGCCCTTCTCGACTTA
* * * ** *
38933 AGCTATGCTACAAATGATGTACC-TTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGAGACA
1 AGCTATGCTGCAAATGATGTGCCTTTG-AGCTGAGCGTAATCGAACTCGAAGGTCTTTGTTGGCA
* * *
38997 GATAACCCTTCTAGCCTTGAGTTATGCTGTAAAAGATGTGCCTTGGAGCTGAACATAGTCGAACT
65 GATAACCCTTCTAGCCTTGAGTTATGATGCAAATGATGTGCCTTGGAGCTGAACATAGTCGAACT
* *
39062 CGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATATTGCAAATGATGTGCCTTTGAGCT
130 CAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTTGAGCT
* * * *
39127 GAGCGTAGTCGAATTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAA
195 GAGCGTAATCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGCAA
* * * * * * *
39192 ATGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGAC
260 ATGATGTGCCCTTGAAGATGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCC
* * * * * * *
39257 TTAAGCTATGCTGCAAATGATGT-ACCTTGGAGCTGAGCGTATTCGAACTCGAAGGTCTTTGG-A
325 TTGAGCTATGCTGCAAATGATGTGTCCTTAGAGCTGAGCATAATCGAACTCAAAGGTCTTTGGTG
* * * *
39320 GACAGATAACCCTTCTAGCCTTG
390 GA-AGATAGCCCTTCTCGACTTA
* * * * * *
39343 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGATCTTTG
1 AGCTATGCTGCAAATGATGTGCCTTTG-AGCTGAGCGTAATCGAACTCGAAGGTCTTTG
39402 GATGACAGAT
Statistics
Matches: 1102, Mismatches: 158, Indels: 60
0.83 0.12 0.05
Matches are distributed among these distances:
407 26 0.02
408 41 0.04
409 7 0.01
410 505 0.46
411 383 0.35
412 2 0.00
413 6 0.01
414 108 0.10
415 23 0.02
416 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (411 bp):
AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTTGGCAG
ATAACCCTTCTAGCCTTGAGTTATGATGCAAATGATGTGCCTTGGAGCTGAACATAGTCGAACTC
AAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTTGAGCTG
AGCGTAATCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGCAAA
TGATGTGCCCTTGAAGATGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCT
TGAGCTATGCTGCAAATGATGTGTCCTTAGAGCTGAGCATAATCGAACTCAAAGGTCTTTGGTGG
AAGATAGCCCTTCTCGACTTA
Found at i:39171 original size:657 final size:656
Alignment explanation
Indices: 37681--39442 Score: 2320
Period size: 657 Copynumber: 2.7 Consensus size: 656
37671 TTTTATTGAT
** * * * * *
37681 AGATAACCCTTCTTTCCTTGAGCTATACTGTAAATGATGTGCCTTAGAGTTGAGCGTAGTTGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGATGAGCGTAGTCGAAC
* * *
37746 TCGAAGGTCTTTGGCAGATAGCCCTTATAGCCTTGAGTTATACCT-CAAATAATGTGTCGTTGAG
66 TCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATA-TTGCAAATGATGTGTCGTTGAG
* * * * * * *
37810 CTGACCATAATCGAACTCAAAGGTCTTTGGTTGGCAGATAGCCATTCTCTACTTAAGTTATACTG
130 CTGAGCATAATCGAATTCAAAGGTCTTTGGCTGACAGATAGCCCTTCTCGACTTAAGTTATGCTG
* *
37875 CAAATGTTGTGCCTTTGAACTGAGTGTAATCAAACTCGAAGGTCTTTTTTGGCAGATAACCCTTC
195 CAAATGTTGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTTTGGCAGATAACCCTTC
* * *
37940 TAACCTTGAGTTATGC-AGCACATGATGTGCCTTGGAGCAT-AACGTAGTCAAACTCGAAGGTCT
259 TAGCCTTGAGTTATGCTA-CAAATGATGTGCCTTGGAGC-TGAACGTAGTCGAACTCGAAGGTCT
** * **
38003 TTGATAGATAGCCCTTCTAGCCTTGAGCTATACCGCAGATGATGTGTTGTTGAGCTGAGCATAAT
322 TTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGCAAATGATGTGTCATTGAGCTGAGCATAAT
* *
38068 CAAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT-TATGCTGCAAATGTTGT
387 CGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA-TCTATGCTGCAAATATTGT
* *
38132 GCATTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTAGCAGATAACCCTTCTAGCCTTGAG
451 GCATTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTAGCAAATAACCCTTCTAGCCTTGAG
** * * *
38197 TTATGATGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTCTTTGGCAGATAGC
516 TTATGATGCAAATGATATGCCTTAAAGCTGAACGAAATCGAACTCAAAGGTCTTTGGAAGATAGC
* * ** *
38262 CCTTTTCGACTTAAGATATGTTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGG
581 CCTTCTCGACTTAAGATATGCTACAAATGATGTACCTTTGAGCTGAGCGTAGTCGAACTCGAAGG
*
38327 TCTTTGGTGAC
646 TCTTTGGAGAC
* *
38338 AGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCTTTGGAGATGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGATGAGCGTAGTCGAAC
*
38403 TCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATATCGCAAATGATGTGTCGTTGAGC
66 TCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATATTGCAAATGATGTGTCGTTGAGC
*
38468 TGAGCATAATCGAACTT-AAAGGTCTTTGGCTGGA-AGATAGCCCTTCTCGACTTAAGCTATGCT
131 TGAGCATAATCGAA-TTCAAAGGTCTTTGGCT-GACAGATAGCCCTTCTCGACTTAAGTTATGCT
* *
38531 GCAAATGTTATGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTT
194 GCAAATGTTGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT-TTGGCAGATAACCCTT
38596 CTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTT
258 CTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTT
* * *
38661 TGGCAGATAGCCCTTCTAGCATTAAGCTATACCGCAAATGATGTGTCATTGAGCTTAGCATAATC
323 TGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGCAAATGATGTGTCATTGAGCTGAGCATAATC
* *
38726 GAACTCAAAGGTCTTTGGTTGGTAGATAGCCCTTCTCGACTTAATCTATGCTGCAAATATTGTGC
388 GAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAATCTATGCTGCAAATATTGTGC
* * *
38791 CTTTAAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTT
453 ATTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTAGCAAATAACCCTTCTAGCCTTGAGTT
* * ** * *
38856 ATGCTGCAAATGATGTGCCCTTAAAGCTGAGTGAAATCGAACTCGAGGGTCTTTGGAAGATAGCC
518 ATGATGCAAATGATATG-CCTTAAAGCTGAACGAAATCGAACTCAAAGGTCTTTGGAAGATAGCC
*
38921 CTTCTCGACTTAAGCTATGCTACAAATGATGTACC-TTGAAGCTGAGCGTAGTCGAACTCGAAGG
582 CTTCTCGACTTAAGATATGCTACAAATGATGTACCTTTG-AGCTGAGCGTAGTCGAACTCGAAGG
38985 TCTTTGGAGAC
646 TCTTTGGAGAC
* * * *
38996 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAAGATGTGCCTTGGAGCTGAACATAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGATGAGCGTAGTCGAAC
* * * * *
39061 TCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATATTGCAAATGATGTGCCTTTGAGC
66 TCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATATTGCAAATGATGTGTCGTTGAGC
* * * * * * *
39126 TGAGCGTAGTCGAATTCAAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
131 TGAGCATAATCGAATTCAAAGGTCTTTGGCTGACAGATAGCCCTTCTCGACTTAAGTTATGCTGC
* * * * * *
39190 AAATGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCGAGGGTC--TTTGGCAGATAGCCCTTCT
196 AAATGTTGTGCCTTTG-AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCT
* * * * * * * *
39253 CGACTTAAGCTATGCTGCAAATGATGTACCTTGGAGCTGAGCGTATTCGAACTCGAAGGTCTTTG
260 AGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTT-
* * * * * * * * * *
39318 GAGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAG
324 G-G-CAGATAGCCCTTCTAGCCTTGAGCTATACCGCAAATGATGTGTCATTG-AGCTGAGCATAA
* * * * ** * *
39383 TCGAACTCGAAGATCTTTGGATGACAGATAACATTTCTCGACTTAAGCTATACTGCAAAT
386 TCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAATCTATGCTGCAAAT
39443 GGTTTGTATA
Statistics
Matches: 967, Mismatches: 122, Indels: 30
0.86 0.11 0.03
Matches are distributed among these distances:
655 73 0.08
656 9 0.01
657 517 0.53
658 309 0.32
659 59 0.06
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (656 bp):
AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGATGAGCGTAGTCGAAC
TCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATATTGCAAATGATGTGTCGTTGAGC
TGAGCATAATCGAATTCAAAGGTCTTTGGCTGACAGATAGCCCTTCTCGACTTAAGTTATGCTGC
AAATGTTGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCTA
GCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGG
CAGATAGCCCTTCTAGCCTTGAGCTATACCGCAAATGATGTGTCATTGAGCTGAGCATAATCGAA
CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAATCTATGCTGCAAATATTGTGCATT
TAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTAGCAAATAACCCTTCTAGCCTTGAGTTATG
ATGCAAATGATATGCCTTAAAGCTGAACGAAATCGAACTCAAAGGTCTTTGGAAGATAGCCCTTC
TCGACTTAAGATATGCTACAAATGATGTACCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
GGAGAC
Found at i:39326 original size:164 final size:163
Alignment explanation
Indices: 37681--39443 Score: 1649
Period size: 164 Copynumber: 10.7 Consensus size: 163
37671 TTTTATTGAT
** * * * * * *
37681 AGATAACCCTTCTTTCCTTGAGCTATACTGTAAATGATGTG-CCTTAGAGTTGAGCGTAGTTGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGAGCGTAATCGAA
* * * * * * *
37745 CTCGAAGGTCTTTGGCAGATAGCCCTTATAGCCTTGAGTTATACCT-CAAATAATGTGTCGTT-G
65 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTAT-GCTGCAAATGATGTG-CCTTGG
* * * * *
37808 AGCTGACCATAATCGAACTCAAAGGTCTTTGGTTGGC
128 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGAC
* * *** * * * * * * *
37845 AGATAGCCATTCTCTACTTAAGTTATACTGCAAATGTTGTGCCTTTGAACTGAGTGTAATCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAGCTGAGCGTAATCGAAC
* * * * *
37910 TCGAAGGTCTTTTTTGGCAGATAACCCTTCT-AACCTTGAGTTATGCAGCACATGATGTGCCTTG
66 TCGAAGGTC---TTTGGCAGATAGCCCTTCTCGA-CTTAAGTTATGCTGCAAATGATGTGCCTTG
* * *
37974 GAGCAT-AACGTAGTCAAACTCGAAGGTC-TT--TGAT
127 GAGC-TGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
* * * * * *** * *
38008 AGATAGCCCTTCTAGCCTTGAGCTATACCGCAGATGATGTGTTGTTGAGCTGAGCATAATCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAGCTGAGCGTAATCGAAC
* * * * *
38073 TCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTTGTGCATTT
66 TCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTG
* * *
38138 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTAGC
127 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGA-C
* * * *
38175 AGATAACCCTTCTAGCCTTGAGTTATGATGCAAATGATATG-CCTTGGAGCTGAACGTAGTCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGAGCGTAATCGAA
* * * * * *
38239 CTCAAAGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGATATGTTGTAAATGATGTGCCTTTGAG
65 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
38304 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
130 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
* * * * *
38338 AGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTG-CTTTGGAGATGAGCGTAGTCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGAGCGTAATCGAA
* * * * *
38402 CTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTAT-ATCGCAAATGATGTGTCGTT-G
65 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCT-GCAAATGATGTG-CCTTGG
* * **
38465 AGCTGAGCATAATCGAACTTAAAGGTCTTTGGCTGGA-
128 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GAC
* * * * * * * * * *
38502 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGTTATGCCTTTGAGTTGAGTGTAATCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAGCTGAGCGTAATCGAAC
* * * * *
38567 TCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGG
66 TCGAAGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGG
*
38632 AGCTGAACGTAGTCGAACTCGAAGGTCTTT-G-G-C
128 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
* * * * * * * * * *
38665 AGATAGCCCTTCTAGCATTAAGCTATACCGCAAATGATGTGTCATTGAGCTTAGCATAATCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAGCTGAGCGTAATCGAAC
* *
38730 TCAAAGGTCTTTGGTTGGTAGATAGCCCTTCTCGACTTAA-TCTATGCTGCAAAT-ATTGTGCCT
66 TCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGT-TATGCTGCAAATGA-TGTGCCT
** * * * * *
38793 TTAAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGC
125 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
* * * *
38832 AAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTAAAGCTGAGTGAAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGAGCGTAATCGAA
* * * * * *
38897 CTCGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTACCTTGAAG
65 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
*
38962 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGAGAC
130 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
* * * * *
38996 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAAGATGTG-CCTTGGAGCTGAACATAGTCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGAGCGTAATCGAA
** *
39060 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATATTGCAAATGATGTGCCTTTGAG
65 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
* *
39125 CTGAGCGTAGTCGAATTCAAAGGTCTTTGGTGAC
130 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
* * * *
39159 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGAAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGAGCGTAATCGAA
* * *
39224 CTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCTTGGAG
65 CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
* *
39289 CTGAGCGTATTCGAACTCGAAGGTCTTTGGAGAC
130 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
* * *
39323 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGAGCGTAATCGAA
* * ** * *
39388 CTCGAAGATCTTTGGATGACAGATAACATTTCTCGACTTAAGCTATACTGCAAATG
65 CTCGAAGGTCTTT-G--G-CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATG
39444 GTTTGTATAA
Statistics
Matches: 1332, Mismatches: 224, Indels: 82
0.81 0.14 0.05
Matches are distributed among these distances:
162 4 0.00
163 480 0.36
164 539 0.40
165 15 0.01
166 17 0.01
167 221 0.17
168 56 0.04
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (163 bp):
AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAGCTGAGCGTAATCGAAC
TCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGC
TGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
Found at i:40747 original size:95 final size:95
Alignment explanation
Indices: 40581--40763 Score: 314
Period size: 95 Copynumber: 1.9 Consensus size: 95
40571 ATATGTAAAT
* * *
40581 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTAGCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
40646 AAAACTCAAGCTTTATTGTATATTATAATC
66 AAAACTCAAGCTTTATTGTATATTATAATC
40676 ACCTTTAGCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG-CTCTAGAGG
1 ACCTTTAGCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCT-TAGAGG
*
40740 GACAACTCAAGCTTTATTGTATAT
65 GAAAACTCAAGCTTTATTGTATAT
40764 AAATAATATT
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
94 2 0.02
95 81 0.98
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (95 bp):
ACCTTTAGCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
AAAACTCAAGCTTTATTGTATATTATAATC
Found at i:44633 original size:9 final size:9
Alignment explanation
Indices: 44619--44685 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
44609 AATGAGGGAA
44619 AAATAAAAT
1 AAATAAAAT
44628 AAATAAAAT
1 AAATAAAAT
* *
44637 GGAGTAAAA-
1 -AAATAAAAT
44646 ATAATAAAAT
1 A-AATAAAAT
*
44656 -AATGAAAT
1 AAATAAAAT
44664 AAA-ATAAAT
1 AAATA-AAAT
44673 AAATAATAAT
1 AAATAA-AAT
44683 AAA
1 AAA
44686 CATGGTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
8 7 0.16
9 25 0.56
10 13 0.29
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:44768 original size:5 final size:5
Alignment explanation
Indices: 44734--44787 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
44724 TTAAAAATCG
* *
44734 AAAAG AAAAG AAAAT AAAAT AAAA- ATAAAT AAAAT AAAAT AAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT -AAAAT
44785 AAA
1 AAA
44788 TATATAAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
4 1 0.02
5 38 0.84
6 6 0.13
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:44772 original size:25 final size:25
Alignment explanation
Indices: 44739--44789 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
44729 AATCGAAAAG
44739 AAAAGAAAATAAAATAAAAATAAAT
1 AAAAGAAAATAAAATAAAAATAAAT
*
44764 AAAATAAAATAAAATAAAAATAAAT
1 AAAAGAAAATAAAATAAAAATAAAT
44789 A
1 A
44790 TATAAAAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (25 bp):
AAAAGAAAATAAAATAAAAATAAAT
Found at i:44788 original size:15 final size:15
Alignment explanation
Indices: 44745--44796 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
44735 AAAGAAAAGA
44745 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
44760 AAATAAAAT-AAAAT
1 AAATAAAATAAAAAT
*
44774 AAAATAAAA-ATAAAT
1 -AAATAAAATAAAAAT
*
44789 ATATAAAA
1 AAATAAAA
44797 GGATCAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:50137 original size:14 final size:14
Alignment explanation
Indices: 50118--50153 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
50108 TTAAATGATA
50118 AACAAACAAAAATG
1 AACAAACAAAAATG
50132 AACAAACAAAAATG
1 AACAAACAAAAATG
*
50146 AACGAACA
1 AACAAACA
50154 TAAACGAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.69, C:0.17, G:0.08, T:0.06
Consensus pattern (14 bp):
AACAAACAAAAATG
Found at i:50199 original size:23 final size:23
Alignment explanation
Indices: 50146--50252 Score: 72
Period size: 24 Copynumber: 4.6 Consensus size: 23
50136 AACAAAAATG
** *
50146 AACGAACATAAACGAACGGATGTA
1 AACGAACATAAACGAACACA-ATA
*
50170 AATGAACATAAAC-AAGCACAATA
1 AACGAACATAAACGAA-CACAATA
* *
50193 AACGAACGTAAACGAACACAAACA
1 AACGAACATAAACGAACAC-AATA
* ** *
50217 AATGAACGGAAATGAACACAATA
1 AACGAACATAAACGAACACAATA
* *
50240 AATGAACGTAAAC
1 AACGAACATAAAC
50253 AAATATAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
23 32 0.48
24 35 0.52
ACGTcount: A:0.56, C:0.18, G:0.15, T:0.11
Consensus pattern (23 bp):
AACGAACATAAACGAACACAATA
Found at i:50233 original size:24 final size:23
Alignment explanation
Indices: 50169--50252 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
50159 GAACGGATGT
** *
50169 AAATGAACATAAAC-AAGCACAAT
1 AAATGAACGGAAACGAA-CACAAC
* *
50192 AAACGAACGTAAACGAACACAAAC
1 AAATGAACGGAAACGAACAC-AAC
* *
50216 AAATGAACGGAAATGAACACAAT
1 AAATGAACGGAAACGAACACAAC
*
50239 AAATGAACGTAAAC
1 AAATGAACGGAAAC
50253 AAATATAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
23 29 0.58
24 21 0.42
ACGTcount: A:0.58, C:0.18, G:0.13, T:0.11
Consensus pattern (23 bp):
AAATGAACGGAAACGAACACAAC
Found at i:50483 original size:14 final size:14
Alignment explanation
Indices: 50466--50495 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50456 AATGAACTAA
50466 AACGAACATAAATG
1 AACGAACATAAATG
50480 AACGAACATAAATG
1 AACGAACATAAATG
50494 AA
1 AA
50496 TATAAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (14 bp):
AACGAACATAAATG
Found at i:51816 original size:27 final size:27
Alignment explanation
Indices: 51769--51832 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
51759 ACAAGCCGAG
* *
51769 TCGAGCTCGAGTATTGCTGAGCTCGAC
1 TCGAACTCGAGTATTGATGAGCTCGAC
*
51796 TTGAACTCGAGTATTGATGAGCTCGAC
1 TCGAACTCGAGTATTGATGAGCTCGAC
51823 TCGAACTCGA
1 TCGAACTCGA
51833 AAACTTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (27 bp):
TCGAACTCGAGTATTGATGAGCTCGAC
Found at i:52020 original size:23 final size:22
Alignment explanation
Indices: 51981--52035 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
51971 AACTCGAGAC
* *
51981 TCGAGCTCGATTGAAGCTTGAT
1 TCGAGCTCGATTCAAGCTCGAT
*
52003 TCTGATCTCGATTCAAGCTCGAT
1 TC-GAGCTCGATTCAAGCTCGAT
52026 TCGAGCTCGA
1 TCGAGCTCGA
52036 CATTGCCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (22 bp):
TCGAGCTCGATTCAAGCTCGAT
Found at i:52025 original size:11 final size:11
Alignment explanation
Indices: 51984--52035 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
51974 TCGAGACTCG
*
51984 AGCTCGATTGA
1 AGCTCGATTCA
* *
51995 AGCTTGATTCTG
1 AGCTCGATTC-A
*
52007 ATCTCGATTCA
1 AGCTCGATTCA
*
52018 AGCTCGATTCG
1 AGCTCGATTCA
52029 AGCTCGA
1 AGCTCGA
52036 CATTGCCCCA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:52913 original size:10 final size:10
Alignment explanation
Indices: 52898--52931 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
52888 ATAAATGAAT
*
52898 GAACATAAAC
1 GAACATAACC
52908 GAACATAACC
1 GAACATAACC
52918 GAACATAACC
1 GAACATAACC
52928 GAAC
1 GAAC
52932 GTTCACGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.53, C:0.26, G:0.12, T:0.09
Consensus pattern (10 bp):
GAACATAACC
Found at i:58671 original size:23 final size:23
Alignment explanation
Indices: 58626--58671 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
58616 TAACCATTTT
*
58626 TTTTATAAAACAATTAAATATTA
1 TTTTATAAAACAATTAAACATTA
58649 TTTTA-AAAACAATTAAGACATTA
1 TTTTATAAAACAATTAA-ACATTA
58672 ATTTGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTTATAAAACAATTAAACATTA
Found at i:59396 original size:18 final size:21
Alignment explanation
Indices: 59373--59411 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59363 GTAAATATAC
59373 AAATAA-AAT-AT-TTACAAA
1 AAATAACAATCATATTACAAA
59391 AAATAACAATCATATTACAAA
1 AAATAACAATCATATTACAAA
59412 CACTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 2 0.11
21 7 0.39
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATAACAATCATATTACAAA
Found at i:61537 original size:88 final size:90
Alignment explanation
Indices: 61435--61605 Score: 249
Period size: 88 Copynumber: 1.9 Consensus size: 90
61425 CTCCTACGTA
* * *
61435 ATGAGGAGGTCTGGTCGAG-GGATGACACAGTTCCTACGTGATGAGGATGATATGCCATATTTA-
1 ATGAGGAGGTCTGGTCG-GTGGATCACACAGTTCCTACGTGATGAGGACGACATGCCATATTTAG
61498 G-GGATGATAACACGGTTTTTATGTG
65 GAGGATGATAACACGGTTTTTATGTG
* *
61523 ATGAGGAGGTCTGGTCGGTGGATCACACGGTTCCTACGTGATGAGGACGACATGCCATCTTTAGG
1 ATGAGGAGGTCTGGTCGGTGGATCACACAGTTCCTACGTGATGAGGACGACATGCCATATTTAGG
*
61588 AAGGGTGATAACACGGTT
66 -AGGATGATAACACGGTT
61606 CCTACGCGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
87 1 0.01
88 56 0.77
89 1 0.01
91 15 0.21
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (90 bp):
ATGAGGAGGTCTGGTCGGTGGATCACACAGTTCCTACGTGATGAGGACGACATGCCATATTTAGG
AGGATGATAACACGGTTTTTATGTG
Found at i:61744 original size:132 final size:132
Alignment explanation
Indices: 61520--61834 Score: 481
Period size: 132 Copynumber: 2.4 Consensus size: 132
61510 CGGTTTTTAT
* *
61520 GTGATGAGGAGGTCTGGTCGGTGGATCACACGGTTCCTACGTGATGAGGACGACATGCCATCTTT
1 GTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGACGACATGCCATCTTT
* *
61585 AGGAAGGGTGATAACACGGTTCCTACGCGATGAGGACGACTGGTTATCAGGTTGACAC-GACTCC
66 AGGAAGGGTGATAACACGGTTCCTACGCGATGAGGACGACTGATTATCAAGTTGACACGGA-TCC
61649 TAC
130 TAC
* * * *
61652 GTGATGAGAAGGTCTGGTTGGGGGATGACACGGTTCCTACGTGTTGAGGACGATA-GACCATCTT
1 GTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGACGACATG-CCATCTT
*
61716 TAGGAAGGGTGATAACACGGTTCCTACGCGATGAGGATGACTGATTATCAAGTTGACACGGATCC
65 TAGGAAGGGTGATAACACGGTTCCTACGCGATGAGGACGACTGATTATCAAGTTGACACGGATCC
61781 TAC
130 TAC
** * *
61784 GCAATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGTGATAAGGAC
1 GTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGAC
61835 AACAGGTTAT
Statistics
Matches: 165, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
131 1 0.01
132 162 0.98
133 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (132 bp):
GTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGACGACATGCCATCTTT
AGGAAGGGTGATAACACGGTTCCTACGCGATGAGGACGACTGATTATCAAGTTGACACGGATCCT
AC
Found at i:62075 original size:30 final size:31
Alignment explanation
Indices: 62008--62090 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
61998 ACAGAATTCA
* * *
62008 TTTT-AAGGGAAAC-GACCCAAAGATGGTTT
1 TTTTCAAGAGAAACAGACTCAAAGATGATTT
62037 TGTTTCAAGAGAAACAGACTCAAAGAT-ATTT
1 T-TTTCAAGAGAAACAGACTCAAAGATGATTT
*
62068 TTTTCAAGAGAAACATACTCAAA
1 TTTTCAAGAGAAACAGACTCAAA
62091 TATTTTGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 1 0.02
30 24 0.51
31 12 0.26
32 10 0.21
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (31 bp):
TTTTCAAGAGAAACAGACTCAAAGATGATTT
Found at i:63738 original size:23 final size:23
Alignment explanation
Indices: 63686--63746 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
63676 ACTTCTTTTC
63686 ATTTTTTTTCTTTGTTTTTCTTT
1 ATTTTTTTTCTTTGTTTTTCTTT
*
63709 -TGCTTTTTTCCTTTG-TTTTCTTT
1 AT--TTTTTTTCTTTGTTTTTCTTT
63732 ATTTTTTTCTCTTTG
1 ATTTTTTT-TCTTTG
63747 CTCTTTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 7 0.22
23 13 0.41
24 12 0.38
ACGTcount: A:0.03, C:0.13, G:0.07, T:0.77
Consensus pattern (23 bp):
ATTTTTTTTCTTTGTTTTTCTTT
Found at i:63739 original size:24 final size:23
Alignment explanation
Indices: 63678--63746 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
63668 TTGCATGTAC
63678 TTCTTTTCATTTTTTTTCTTTGTTT
1 TTCTTTT--TTTTTTTTCTTTGTTT
* *
63703 TTCTTTTGCTTTTTTCCTTTG-TT
1 TTCTTTT-TTTTTTTTCTTTGTTT
*
63726 TTCTTTATTTTTTTCTCTTTG
1 TTCTTT-TTTTTTTTTCTTTG
63747 CTCTTTGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 18 0.49
24 12 0.32
25 7 0.19
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (23 bp):
TTCTTTTTTTTTTTTCTTTGTTT
Found at i:68725 original size:18 final size:18
Alignment explanation
Indices: 68702--68742 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
68692 TCATGTATAA
68702 GGGCTTGTAATTACTGTT
1 GGGCTTGTAATTACTGTT
*
68720 GGGCTTGTAATTAGTGTT
1 GGGCTTGTAATTACTGTT
68738 GGGCT
1 GGGCT
68743 CTGGGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.10, G:0.34, T:0.41
Consensus pattern (18 bp):
GGGCTTGTAATTACTGTT
Done.