Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012661.1 Corchorus olitorius cultivar O-4 contig12694, 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: 110858
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:13651 original size:2 final size:2
Alignment explanation
Indices: 13646--13678 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13636 TCACCAAAAA
13646 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
13679 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:32263 original size:30 final size:29
Alignment explanation
Indices: 32223--32314 Score: 103
Period size: 30 Copynumber: 3.1 Consensus size: 29
32213 TCAAATATCA
*
32223 AATGTCCCCAACCAAAGTCAGACGAGTCAG
1 AATGTACCCAACC-AAGTCAGACGAGTCAG
* * *
32253 AATTTACCCAACCCAACTCAAACGAGTCAG
1 AATGTACCCAA-CCAAGTCAGACGAGTCAG
* *
32283 AATGTACCCAACCAAGCCCAGACAAGTCAG
1 AATGTACCCAACCAAG-TCAGACGAGTCAG
32313 AA
1 AA
32315 CCCACCACAA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 4 0.08
30 45 0.88
31 2 0.04
ACGTcount: A:0.40, C:0.32, G:0.15, T:0.13
Consensus pattern (29 bp):
AATGTACCCAACCAAGTCAGACGAGTCAG
Found at i:50442 original size:3 final size:3
Alignment explanation
Indices: 50434--50461 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
50424 ATCATTACCA
50434 AGC AGC AGC AGC AGC AGC AGC AGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC A
50462 AAAACAGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:54441 original size:17 final size:16
Alignment explanation
Indices: 54394--54443 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
54384 ATAAACCCAT
*
54394 GTAATCTTTGATCACCG
1 GTAATC-TTGATCACTG
*
54411 GTGATCTTGCATCACTG
1 GTAATCTTG-ATCACTG
54428 GTAATCTTAGATCACT
1 GTAATCTT-GATCACT
54444 AGTGATCTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 3 0.11
17 24 0.86
18 1 0.04
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (16 bp):
GTAATCTTGATCACTG
Found at i:54451 original size:17 final size:16
Alignment explanation
Indices: 54401--54451 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
54391 CATGTAATCT
*
54401 TTGATCACCGGTGATC
1 TTGATCACTGGTGATC
*
54417 TTGCATCACTGGTAATC
1 TTG-ATCACTGGTGATC
*
54434 TTAGATCACTAGTGATC
1 TT-GATCACTGGTGATC
54451 T
1 T
54452 GGGGGTGATC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 3 0.10
17 25 0.86
18 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (16 bp):
TTGATCACTGGTGATC
Found at i:56139 original size:16 final size:16
Alignment explanation
Indices: 56118--56149 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56108 GTATCCAATG
*
56118 TGATCACTGGATATCA
1 TGATCACTAGATATCA
56134 TGATCACTAGATATCA
1 TGATCACTAGATATCA
56150 AAGGGTTAGT
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:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (16 bp):
TGATCACTAGATATCA
Found at i:56625 original size:36 final size:36
Alignment explanation
Indices: 56574--56647 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
56564 CCCGGATCTC
* *
56574 ACGGTTCAGTCACGGTGCCACTTACGAATTGAGCTA
1 ACGGTTCAGTCACGGTGCCACTCACCAATTGAGCTA
*
56610 ACGGTTCAG-CTACGGTGCCACTCACCAATTGAGTTA
1 ACGGTTCAGTC-ACGGTGCCACTCACCAATTGAGCTA
56646 AC
1 AC
56648 AATTTGGGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (36 bp):
ACGGTTCAGTCACGGTGCCACTCACCAATTGAGCTA
Found at i:64999 original size:2 final size:2
Alignment explanation
Indices: 64992--65019 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
64982 ATTGGTAATT
64992 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
65020 GCTTGGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:70934 original size:36 final size:36
Alignment explanation
Indices: 70777--70925 Score: 218
Period size: 36 Copynumber: 4.2 Consensus size: 36
70767 GATGTTGCTC
*
70777 ATGCTCATGCTCATGCTGATGATGCTTCGCAAGAGT
1 ATGCTCATGCTCATGCTGATGATGCTTCACAAGAGT
*
70813 ATGTTCATGCTCATG-TCGATGATGCTTCACAAGAGT
1 ATGCTCATGCTCATGCT-GATGATGCTTCACAAGAGT
70849 ATGCTCATGCTCATGCTGATGATGCTTCAC-A-AG-
1 ATGCTCATGCTCATGCTGATGATGCTTCACAAGAGT
*
70882 ATGTTCATGCTCATGCTGATGATGCTTCACAAGAAG-
1 ATGCTCATGCTCATGCTGATGATGCTTCACAAG-AGT
70918 ATGCTCAT
1 ATGCTCAT
70926 TCCGATGCTA
Statistics
Matches: 103, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
33 29 0.28
34 3 0.03
35 2 0.02
36 68 0.66
37 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (36 bp):
ATGCTCATGCTCATGCTGATGATGCTTCACAAGAGT
Found at i:70934 original size:69 final size:72
Alignment explanation
Indices: 70777--70925 Score: 236
Period size: 69 Copynumber: 2.1 Consensus size: 72
70767 GATGTTGCTC
*
70777 ATGCTCATGCTCATGCTGATGATGCTTCGCAAGAGTATGTTCATGCTCATGTCGATGATGCTTCA
1 ATGCTCATGCTCATGCTGATGATGCTTCACAAGAGTATGTTCATGCTCATGTCGATGATGCTTCA
70842 CAAGAGT
66 CAAGAGT
70849 ATGCTCATGCTCATGCTGATGATGCTTCAC-A-AG-ATGTTCATGCTCATG-CTGATGATGCTTC
1 ATGCTCATGCTCATGCTGATGATGCTTCACAAGAGTATGTTCATGCTCATGTC-GATGATGCTTC
70910 ACAAGAAG-
65 ACAAG-AGT
70918 ATGCTCAT
1 ATGCTCAT
70926 TCCGATGCTA
Statistics
Matches: 74, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
68 1 0.01
69 39 0.53
70 4 0.05
71 1 0.01
72 29 0.39
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (72 bp):
ATGCTCATGCTCATGCTGATGATGCTTCACAAGAGTATGTTCATGCTCATGTCGATGATGCTTCA
CAAGAGT
Found at i:74611 original size:14 final size:14
Alignment explanation
Indices: 74576--74604 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
74566 TATCTATTTA
74576 AGTATATTAAAAAT
1 AGTATATTAAAAAT
74590 AGTATATTAAAAAT
1 AGTATATTAAAAAT
74604 A
1 A
74605 TAGTATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AGTATATTAAAAAT
Found at i:75847 original size:28 final size:28
Alignment explanation
Indices: 75816--75871 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
75806 TTCCAATTTG
*
75816 GTGCTTCATTGTTCTAGAGAGTATCTAA
1 GTGCTTCATTGTTCTAGAGAGCATCTAA
75844 GTGCTTCATTGTTCTAGAGAGCATCTAA
1 GTGCTTCATTGTTCTAGAGAGCATCTAA
75872 ATTTGAATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (28 bp):
GTGCTTCATTGTTCTAGAGAGCATCTAA
Found at i:86603 original size:31 final size:32
Alignment explanation
Indices: 86547--86608 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
86537 ACATGGCATT
86547 GCCACGTCGGACAAAAAATGCCACGTGGCAAA
1 GCCACGTCGGACAAAAAATGCCACGTGGCAAA
* * *
86579 GCCACGTTGGAC-TAAAATGTCACGTGGCAA
1 GCCACGTCGGACAAAAAATGCCACGTGGCAA
86609 GGTCATGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.34, C:0.26, G:0.26, T:0.15
Consensus pattern (32 bp):
GCCACGTCGGACAAAAAATGCCACGTGGCAAA
Found at i:106062 original size:40 final size:40
Alignment explanation
Indices: 106006--106081 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
105996 AATAATTGAA
* *
106006 AAAGGGATAAATATTTAAAAAAGTGACCAATGAGAGATAG
1 AAAGGGACAAACATTTAAAAAAGTGACCAATGAGAGATAG
*
106046 AAAGGGACAAACATTTAAAAAAGTGATCAATGAGAG
1 AAAGGGACAAACATTTAAAAAAGTGACCAATGAGAG
106082 CTATCTCTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.53, C:0.07, G:0.22, T:0.18
Consensus pattern (40 bp):
AAAGGGACAAACATTTAAAAAAGTGACCAATGAGAGATAG
Found at i:106111 original size:42 final size:42
Alignment explanation
Indices: 106060--106564 Score: 380
Period size: 42 Copynumber: 12.3 Consensus size: 42
106050 GGACAAACAT
* * * *
106060 TTAAAAAAGTGATCAATGAGAGCTATCTCTCCAAACAATAAA
1 TTAAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
*
106102 TTAAAAAAGTGACCGATGA-A-C--TCTCTCCAAACATTTAA
1 TTAAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
106140 TT-AAAAAGTGACCGATGAGAGCTGT-TCCTCCAAAC----AA
1 TTAAAAAAGTGACCGATGAGAGCTGTCT-CTCCAAACATTAAA
* *
106177 TTAAAAAAGTGACCGATGAGAGTTATCTCTCCAAACATTAAA
1 TTAAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
* *
106219 TAAAAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTTAA
1 T-TAAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
*** ** * * ** * *
106262 -TAATAGCTGTTTCTCCA--A-A-CAT-T-TAATTAAAAAAGTGACAAATA
1 TTAA-AAAAGTGAC-CGATGAGAGC-TGTCT-CTCCAAACA-T---TAA-A
* * *
106306 TTAAAAAAAAGTGACCGATGAGAGTTGTCTCTCCAAACAATCAA
1 TT--AAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
106350 TTAAAAAAAGT-ACCGATGAGAGCTGTCTCTCCAAACATTAAA
1 TT-AAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
* * *
106392 TTAAAAAAAATGATCGATGAGAGCTGTCTCTCCAAACATTTAA
1 TT-AAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
* * *
106435 TTAAAAAAGTAACTGATAAGAGCTGTCTCTCCAAAC----AA
1 TTAAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
**
106473 TTAAAAAAAGTGACCGATGAGAATTGTCTCTCCAAAC---AAA
1 TT-AAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
* *
106513 --AAAAAAGTGATCGATGAGAGCTGTCTCTCCAAACATTTAA
1 TTAAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
106553 TTAAAAAAGTGA
1 TTAAAAAAGTGA
106565 AAAATATATA
Statistics
Matches: 368, Mismatches: 57, Indels: 76
0.73 0.11 0.15
Matches are distributed among these distances:
37 51 0.14
38 52 0.14
39 38 0.10
40 9 0.02
41 13 0.04
42 101 0.27
43 80 0.22
44 4 0.01
45 4 0.01
46 4 0.01
47 3 0.01
48 2 0.01
49 6 0.02
50 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (42 bp):
TTAAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACATTAAA
Found at i:106158 original size:79 final size:79
Alignment explanation
Indices: 106062--106256 Score: 238
Period size: 79 Copynumber: 2.4 Consensus size: 79
106052 ACAAACATTT
* * * *
106062 AAAAAAGTGATCAATGAGAGCTATCTCTCCAAACAATAAATTAAAAAAGTGACCGATGA-A-CTC
1 AAAAAAGTGACCGATGAGAGCTGTCTCTCCAAAC---AAATTAAAAAAGTGACCGATGAGATATC
*
106125 TCTCCAAACATTTAAT-
63 TCTCCAAACATTAAATA
*
106141 TAAAAAGTGACCGATGAGAGCTGT-TCCTCCAAAC-AATTAAAAAAGTGACCGATGAGAGTTATC
1 AAAAAAGTGACCGATGAGAGCTGTCT-CTCCAAACAAATTAAAAAAGTGACCGATGAGA--TATC
106204 TCTCCAAACATTAAATAA
63 TCTCCAAACATTAAAT-A
106222 AAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACA
1 AAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACA
106257 TTTAATAATA
Statistics
Matches: 100, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
75 21 0.21
76 1 0.01
78 1 0.01
79 45 0.45
81 31 0.31
82 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (79 bp):
AAAAAAGTGACCGATGAGAGCTGTCTCTCCAAACAAATTAAAAAAGTGACCGATGAGATATCTCT
CCAAACATTAAATA
Found at i:106622 original size:265 final size:253
Alignment explanation
Indices: 106062--106777 Score: 834
Period size: 265 Copynumber: 2.8 Consensus size: 253
106052 ACAAACATTT
* * * *
106062 AAAAAAGTGATCAATGAGAGCTATCTCTCCAAACAATAAATTAAAAAAGTGACCGATGA-A-C-T
1 AAAAAAGTGACCGATGAGAGTTGTCTCTCCAAACAATAAA-TAAAAAAGTGACCGATGAGAGCTT
*
106124 CTCTCCAAACATTTAATT-AAAAAGTGACCGATGAGAGCTGT-TCCTCCAAAC----AATTAAAA
65 CTCTCCAAACATTTAATTAAAAAAGTGATCGATGAGAGCTGTCT-CTCCAAACATTTAATTAAAA
* * * *
106183 AAGTGACCGATGAGAGTTATCTCTCCAAACATTAAATAAAAAAAAGTGACCGATGAGAGCTGTCT
129 AAGTGACCGATGAGAGCTGTCTCTCCAAAC--T-AATTAAAAAAAGTGACCGATGAGAGTTGTCT
*** * *
106248 CTCCAAAC-ATTTAATAATAGCTGTTTCTCCAAACATTTAATTAAAAAAGTGACAAATATTAA
191 CTCCAAACAAAAAAATAATAGCTGTCTCTCCAAACATTTAATTAAAAAAGTGAAAAATATTAA
*
106310 AAAAAAGTGACCGATGAGAGTTGTCTCTCCAAACAATCAATTAAAAAAAGT-ACCGATGAGAGCT
1 AAAAAAGTGACCGATGAGAGTTGTCTCTCCAAACAAT-AAAT-AAAAAAGTGACCGATGAGAGCT
* *
106374 GTCTCTCCAAACATTAAATTAAAAAAAATGATCGATGAGAGCTGTCTCTCCAAACATTTAATTAA
64 -TCTCTCCAAACATTTAATT-AAAAAAGTGATCGATGAGAGCTGTCTCTCCAAACATTTAATTAA
* * * *
106439 AAAAGTAACTGATAAGAGCTGTCTCTCCAAAC-AATTAAAAAAAGTGACCGATGAGAATTGTCTC
127 AAAAGTGACCGATGAGAGCTGTCTCTCCAAACTAATTAAAAAAAGTGACCGATGAGAGTTGTCTC
106503 TCCAAACAAAAAAAAAGTGATCGATGAGAGCTGTCTCTCCAAACATTTAATTAAAAAAGTGAAAA
192 TCCAAAC--AAAAAAA-T-A---AT---AGCTGTCTCTCCAAACATTTAATTAAAAAAGTGAAAA
106568 ATA-TATA
247 ATATTA-A
*
106575 AAAAAAGTGACCGAT-ATGAGTTGTCTCTCCAAACAATGAAATAAAAAAGTGACCGATGAGAGTT
1 AAAAAAGTGACCGATGA-GAGTTGTCTCTCCAAACAAT-AAATAAAAAAGTGACCGATGAGAGCT
* * *
106639 ATCTCTCCAAACATTTAATTAAAAAAGTGATCGATAAGAGTTGTCTTTCCAAACATTTAA-TAGA
64 -TCTCTCCAAACATTTAATTAAAAAAGTGATCGATGAGAGCTGTCTCTCCAAACATTTAATTA-A
* *
106703 AAAAGTGACCGAGGAGAGCTGTCTCTCCAAACGTTGAATT-AAAAAAGAGACCGATGAGAGTTGT
127 AAAAGTGACCGATGAGAGCTGTCTCTCCAAAC--T-AATTAAAAAAAGTGACCGATGAGAGTTGT
106767 CTCTCCAAACA
189 CTCTCCAAACA
106778 TTTAATTAAA
Statistics
Matches: 400, Mismatches: 36, Indels: 47
0.83 0.07 0.10
Matches are distributed among these distances:
248 42 0.10
249 11 0.03
250 1 0.00
252 18 0.05
254 65 0.16
255 1 0.00
257 3 0.01
258 34 0.09
259 1 0.00
262 2 0.00
263 2 0.00
264 76 0.19
265 108 0.27
267 32 0.08
268 4 0.01
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (253 bp):
AAAAAAGTGACCGATGAGAGTTGTCTCTCCAAACAATAAATAAAAAAGTGACCGATGAGAGCTTC
TCTCCAAACATTTAATTAAAAAAGTGATCGATGAGAGCTGTCTCTCCAAACATTTAATTAAAAAA
GTGACCGATGAGAGCTGTCTCTCCAAACTAATTAAAAAAAGTGACCGATGAGAGTTGTCTCTCCA
AACAAAAAAATAATAGCTGTCTCTCCAAACATTTAATTAAAAAAGTGAAAAATATTAA
Found at i:106638 original size:42 final size:42
Alignment explanation
Indices: 106575--106795 Score: 302
Period size: 42 Copynumber: 5.3 Consensus size: 42
106565 AAAATATATA
* * *
106575 AAAAAAGTGACCGAT-ATGAGTTGTCTCTCCAAACAATGAAAT
1 AAAAAAGTGACCGATGA-GAGTTGTCTCTCCAAACATTTAATT
*
106617 AAAAAAGTGACCGATGAGAGTTATCTCTCCAAACATTTAATT
1 AAAAAAGTGACCGATGAGAGTTGTCTCTCCAAACATTTAATT
* * *
106659 AAAAAAGTGATCGATAAGAGTTGTCTTTCCAAACATTTAA-T
1 AAAAAAGTGACCGATGAGAGTTGTCTCTCCAAACATTTAATT
* * * *
106700 AGAAAAAGTGACCGAGGAGAGCTGTCTCTCCAAACGTTGAATT
1 A-AAAAAGTGACCGATGAGAGTTGTCTCTCCAAACATTTAATT
*
106743 AAAAAAGAGACCGATGAGAGTTGTCTCTCCAAACATTTAATT
1 AAAAAAGTGACCGATGAGAGTTGTCTCTCCAAACATTTAATT
106785 AAAAAAGTGAC
1 AAAAAAGTGAC
106796 AAATATTAAA
Statistics
Matches: 155, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
41 2 0.01
42 150 0.97
43 3 0.02
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (42 bp):
AAAAAAGTGACCGATGAGAGTTGTCTCTCCAAACATTTAATT
Found at i:106653 original size:104 final size:99
Alignment explanation
Indices: 106474--106668 Score: 293
Period size: 104 Copynumber: 1.9 Consensus size: 99
106464 TCCAAACAAT
* *
106474 TAAAAAAAGTGACCGATGAGAATTGTCTCTCCAAACAAAAAAAAAGTGATCGATGAGAGCTGTCT
1 TAAAAAAAGTGACCGATGAGAATTGTCTCTCCAAACAAAAAAAAAGTGACCGATGAGAGCTATCT
106539 CTCCAAACATTTAATTAAAAAAGTGAAAAATATA
66 CTCCAAACATTTAATTAAAAAAGTGAAAAATATA
*
106573 TAAAAAAAGTGACCGAT-ATGAGTTGTCTCTCCAAACAATGAAATAAAAAAGTGACCGATGAGAG
1 TAAAAAAAGTGACCGATGA-GAATTGTCTCTCCAAAC----AAA-AAAAAAGTGACCGATGAGAG
*
106637 TTATCTCTCCAAACATTTAATTAAAAAAGTGA
60 CTATCTCTCCAAACATTTAATTAAAAAAGTGA
106669 TCGATAAGAG
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
98 1 0.01
99 33 0.38
103 3 0.03
104 49 0.57
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.24
Consensus pattern (99 bp):
TAAAAAAAGTGACCGATGAGAATTGTCTCTCCAAACAAAAAAAAAGTGACCGATGAGAGCTATCT
CTCCAAACATTTAATTAAAAAAGTGAAAAATATA
Found at i:106696 original size:146 final size:138
Alignment explanation
Indices: 106437--106710 Score: 370
Period size: 146 Copynumber: 1.9 Consensus size: 138
106427 ACATTTAATT
* * *
106437 AAAAAAGTAACTGATAAGAGCTGTCTCTCCAAACAATTAAAAAAAGTGACCGATGAGAATTGTCT
1 AAAAAAGTAACCGATAAGAGCTGTCTCTCCAAACAATAAAAAAAAGTGACCGATGAGAATTATCT
*
106502 CTCCAAACAAAAAAAAAGTGATCGATGAGAGCTGTCTCTCCAAACATTTAATTA-AAAAAGTGAA
66 CTCCAAACAAAAAAAAAGTGATCGATAAGAGCTGTCTCTCCAAACATTTAA-TAGAAAAAGTGAA
106566 AAATATATA
130 AAATATATA
* * * *
106575 AAAAAAGTGACCGATATGAGTTGTCTCTCCAAACAATGAAATAAAAAAGTGACCGATGAGAGTTA
1 AAAAAAGTAACCGATAAGAGCTGTCTCTCCAAACAAT--AA-AAAAAAGTGACCGATGAGAATTA
* *
106640 TCTCTCCAAACATTTAATTAAAAAAGTGATCGATAAGAGTTGTCTTTCCAAACATTTAATAGAAA
63 TCTCTCCAAACA---AA--AAAAAAGTGATCGATAAGAGCTGTCTCTCCAAACATTTAATAGAAA
106705 AAGTGA
123 AAGTGA
106711 CCGAGGAGAG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
138 33 0.28
140 1 0.01
141 33 0.28
144 2 0.02
145 2 0.02
146 46 0.39
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (138 bp):
AAAAAAGTAACCGATAAGAGCTGTCTCTCCAAACAATAAAAAAAAGTGACCGATGAGAATTATCT
CTCCAAACAAAAAAAAAGTGATCGATAAGAGCTGTCTCTCCAAACATTTAATAGAAAAAGTGAAA
AATATATA
Found at i:107681 original size:335 final size:330
Alignment explanation
Indices: 106916--110858 Score: 3817
Period size: 335 Copynumber: 11.8 Consensus size: 330
106906 AGAGCTATAC
* * ** *
106916 TAACCATCACGGTTTTTTGGCT-AAGAA-CGCATCAAGGGCCCCTACTCAGGTTTGCATGATTTT
1 TAACCATCACAGTTTTTTGGCTAAAAAAGCGTTTC-AGGGCCCCTACTCAGTTTTGCATGATTTT
* * * * *
106979 TGGCGCCGAGACAACTTGAAATATCCATATTCATGTAATAAAATCTTAGCCACATT-GCAAATTA
65 TGGCGCCAAGAC-TCTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAG-AATTTA
* ** * * **
107043 GAATTTGTTTTTACGAGCATTTGAAAATTGTTTTGATTTAATTAGAAATTAATTTGGAAAAAAT-
128 GAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAAATA
* * * * * * *
107107 TGGGAAAACGATATTAGAAACGTCAAAAGCCCTTCAATATTTTTAGCAT-TTGAATTATATATTT
193 T-GAAAAACGATATTA-AAACGTCAAAAG-TCTTCAATCTTTTT-G-GTGTTAAATTATA-AATA
* *
107171 TTTTAAGAGTATTTTAGCCCAAAAAATT-AGGAAATATTTTTCGGGTCAATTTTCACAAAATTTT
252 TTTTATGAGTATTTT--CTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTT
107235 AGCCGAAATCGTGTAA
315 AGCCGAAATCGTGTAA
* * ** * *
107251 TAACCATCACAG-TTTTTGGCTAAAAAAGGGTTTC-GGGGCATTGGCTCAGTTTTGCGTGATTTT
1 TAACCATCACAGTTTTTTGGCTAAAAAAGCGTTTCAGGGCCCCT-ACTCAGTTTTGCATGATTTT
* * * * * *
107314 TTGCGCCAAGACTCCATGAGATATCCATATTCATCTAATCAAATTTCAGCCACATTAGATTTTAG
65 TGGCGCCAAGACT-CTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAGAATTTAG
* *
107379 AATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAAGTAT
129 AATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAAATAT
* *
107444 GAAAAACGATATTAAAAGCGTGAAAAGTCTTCCAATC-TTTTGGTGTTAAATTGTAAATATTTTA
194 GAAAAACGATATTAAAA-CGTCAAAAGTCTT-CAATCTTTTTGGTGTTAAATTATAAATATTTTA
* * * * *
107508 TGAGTATTTTCTCAAAAAATTGAGGAAATGTTTTTCGGGTCATTTTTTACAAAATTTTAGTCAAA
257 TGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAGCCGAA
* *
107573 ATTGTGTAC
322 ATCGTGTAA
* * * **
107582 TAACCCATCACAGTTTTTTTTTGTCTAAAAACGTGTTTCAGATCCCCTACTCAGTTTTGCATGAT
1 TAA-CCATCACAG---TTTTTTGGCTAAAAAAGCGTTTCAGGGCCCCTACTCAGTTTTGCATGAT
* * ** * * * *
107647 ATTTGGCGCCGAGACT-TATGAAATATTTATATTCATGTAATAAAATCTCACCCATATTGGAATT
62 TTTTGGCGCCAAGACTCT-TGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAGAATT
* *
107711 TAGAATTTGTTTTTACGAGCATTTGAA-CATTGTTTCGATTTAATTAGAAATTAATTC-GAAAAA
126 TAGAATTTGTTTTTACGAGCATCTGAATC-TTGTTTCGATTTAATTAAAAATTAATTCAG-AAAA
* ** ** *
107774 AATAGGAAAAACGATATTAGAAACGTCAAAAACACTTCAATCTTTTTGGCATCT-AATTATATAT
189 AATATGAAAAACGATATTA-AAACGTC-AAAAGTCTTCAATCTTTTTGGTGT-TAAATTATAAAT
* * * * * *
107838 TTTTTACGAGAATTTTATCCCAAAAATTTAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTT
251 ATTTTATGAGTATTTTCT-CAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTT
107903 AGCCGAAATCGTGTAA
315 AGCCGAAATCGTGTAA
* * * * * ** * *
107919 TAACCATCACTG-TTTTTAGCTAAAAAAGCGTTCCGGGGCACCGCCTCAGTTATGCTTGATTTTT
1 TAACCATCACAGTTTTTTGGCTAAAAAAGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATTTTT
* * * * * * *
107983 TGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGCCACAATAGATTTTAGA
66 GGCGCCAAGACT-CTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAGAATTTAGA
*
108048 ATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAAAAATTAATTCAGAAAAAATATG
130 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAAATATG
* *
108113 AAAAACGATATTAAAATCG-CGAAAAGTCCTCCAATCTTTTTGGTGTTAAATTGTAAATATTTTA
195 AAAAACGATATTAAAA-CGTC-AAAAGT-CTTCAATCTTTTTGGTGTTAAATTATAAATATTTTA
* * * * ** *
108177 TGAGTATTTTCTCAAAAAACTGAGGAAATATTTTTCAGGTTACTTTTTTCAAAATTTTAGCCAAA
257 TGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAGCCGAA
*
108242 ATCGTGTAC
322 ATCGTGTAA
* * * * *
108251 TAACCATCACATTTGTTTTTTGGCTAAAAACGTGTTTCAGGGTCCTTACTTAGTTTTGCATGATT
1 TAACCATCACA---GTTTTTTGGCTAAAAAAGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATT
* ** * * * * *
108316 TTTGACGCCGGGAATCCTTAAAATATCCATATTCATGTAA-AAAATCTCATCCACATT-GCAATA
63 TTTGGCGCCAAGACT-CTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAG-AATT
* * * * *
108379 TAGAATTT-TTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTC-GGAAAAA
126 TAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAAA
* * * ** *
108442 T-TGGAAAAACGATTTTAGAAACGTCAAAAGCCCTTCAATATTTTTGGCATCT-AATTATATATA
191 TAT-GAAAAACGATATTA-AAACGTCAAAAG-TCTTCAATCTTTTTGGTGT-TAAATTATAAATA
** * * * *
108505 TTTTTACAATTATTTTAGC-CCAAAAATTTAGAAAATATTTTTCGGGTCAATTTTCACAAAATTT
252 -TTTTATGAGTATTTT--CTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTT
* *
108569 AAGTCGAAATCGTGTAA
314 TAGCCGAAATCGTGTAA
* * * ** * *
108586 TAACCATCACAG-TTTTTGGCTAAAAAAGCGTTCCGGGGCACCGGCTCAGTTTTCCTTGATTTTT
1 TAACCATCACAGTTTTTTGGCTAAAAAAGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATTTTT
* * * ** * * * *
108650 TGCACAAAGACTCCTTGGGATATCCATATTCATCTAATCAAATCTCATCCACAATAGATTTTAGA
66 GGCGCCAAGACT-CTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAGAATTTAGA
* * *
108715 TTTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATTAATTCTAAAAAAAATAT
130 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTC-AGAAAAAATAT
* * * *
108780 GAAAAACGATATTAAAAGCG-CAAAAAGTCCTCCAATCTTTTTGGTGTTAAATTGTATATATTTG
194 GAAAAACGATATTAAAA-CGTC-AAAAGT-CTTCAATCTTTTTGGTGTTAAATTATAAATATTTT
* * ** *
108844 ATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTTACTTTTTTCAAAATTTTAGCCAA
256 ATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAGCCGA
108909 AATCGTG---
321 AATCGTGTAA
* *
108916 T----A-CACGGTTTTTTGGCTAAAAACA-CGTTTCAGGGCCCCTACTCAGTTTTGGATGATTTT
1 TAACCATCACAGTTTTTTGGCTAAAAA-AGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATTTT
* * ** * * *
108975 TGACGTCGGGACTCCTTGAAATATCCATATTCATGTAA-AAAATCTCATCCACATT-GCAATATA
65 TGGCGCCAAGACT-CTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAG-AATTTA
* * * ** * *
109038 GAATTTGTTTTTACGAGCATTTGGATATTCATTCGATTTAATTAGAAATTAATTCGGAAAAAGAT
128 GAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAA-AT
* * * *
109103 -TGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATCTTTTTGGCGTCT-AATTATATATTT
192 AT-GAAAAACGATATTA-AAACGTCAAAAG-TCTTCAATCTTTTTGGTGT-TAAATTATAAATAT
* * * *
109166 TTTACGAGTATTTTGGCCCAAAAAGTT-AGGAAATATTTTTTGGGTCAATTTTCACAAAATTTTA
253 TTTATGAGTATTTT--CTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTA
109230 GCCGAAATCGTGTAA
316 GCCGAAATCGTGTAA
* ** * * ** *
109245 TAACCATAATGGTTTTTTGGCTAAAAAAGCG-TTCTGGGGCACCGGCTCAGTTTTGCTTGATCTT
1 TAACCATCACAGTTTTTTGGCTAAAAAAGCGTTTC-AGGGCCCCTACTCAGTTTTGCATGAT-TT
* * * * * *
109309 TT-ACACAAAGACTCCTTGAGATATCCATATTCATCTAATAAAATCTCAGCCACAATAGATTTTA
64 TTGGCGCCAAGACT-CTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAGAATTTA
*
109373 GAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAGAAAATA
128 GAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAAATA
* * * *
109438 TGGAAAACGATATTAAAAGCG-CGAAAAGTCCTCCAATATTTTTGGTGTTAAATTGTAAATATTT
193 TGAAAAACGATATTAAAA-CGTC-AAAAGT-CTTCAATCTTTTTGGTGTTAAATTATAAATATTT
* * * ** * *
109502 TATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCAGGTTACTTTTTTCAAAATTTTAACCA
255 TATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAGCCG
* *
109567 AAATTGTGTAC
320 AAATCGTGTAA
* *
109578 TAACCATCACAGTTTTTTGGCTAAAAACGCGTTTCAGGGCCCTTACTCAGTTTTGCATGATTTTT
1 TAACCATCACAGTTTTTTGGCTAAAAAAGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATTTTT
* * ** * * * *
109643 GACGTCGGGACTCCTTGAAATATCCATATTCATGTAA-AAAATCTCATCCACA-TGGCAATATAG
66 GGCGCCAAGACT-CTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAG-AATTTAG
* * * * * * *
109706 AATTT-TTTTTACGAGCATTTGAATATTCTTTCGATTTGATTAGAAATTAATTCGGTAAAAGATA
129 AATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAG-AAAAAATA
* * * *
109770 GGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATCTTTTTGGTGTCT-AATTATATATTTTT
193 TGAAAAACGATATTA-AAACGTCAAAAG-TCTTCAATCTTTTTGGTGT-TAAATTATAAATATTT
** ** * * *
109834 TACAAGTATTTTAGCATAAAATTTTAAGAAATATTTTTACGGGGTCAATTTTCACAAAATTTTAG
255 TATGAGTATTTTCTCA-AAAAATTGAGGAAATATTTTT-C-GGGTCAATTTTCACAAAATTTTAG
109899 CCGAAATCGTGTAA
317 CCGAAATCGTGTAA
* * * * ** *
109913 TAACCATCACAGTTTTTTGGCTAAAAAAAGCATTCCGGGGCACCGGCTCAGTTTTGCTTGAATTT
1 TAACCATCACAGTTTTTTGGCT-AAAAAAGCGTTTCAGGGCCCCTACTCAGTTTTGCATG-ATTT
* * * * * * *
109978 TT-GCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGCGACAATAGATTTTA
64 TTGGCGCCAAGACT-CTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAGAATTTA
*
110042 GAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT-AAAATTAATTCATAAAAAATA
128 GAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAAATA
* * * * *
110106 TGAAAAACAATATTAAAAGCG-CGAAAAGTCCTCCAATCTTTTTGGTATTAAATTGTAAATATAT
193 TGAAAAACGATATTAAAA-CGTC-AAAAGT-CTTCAATCTTTTTGGTGTTAAATTATAAATATTT
* * *
110170 TATGAGTATTTTCTCAAAAAATTGAGGAAATGTTTTTCGGGTTAATTTT--CAAAATTTTAGCCA
255 TATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAGCCG
*
110233 AAATCGTGTAC
320 AAATCGTGTAA
* * * * *
110244 TAACCATCATAGGTTTTTGGCTAAAAACGCGTTTCAGGGCTCCTACTAAGTTTTGCATGATTTTT
1 TAACCATCACAGTTTTTTGGCTAAAAAAGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATTTTT
* *** * * *
110309 GACGCTGGGACTTCTTGAAATATCCATATTCATGTAAAAAAAATCTCAGCCACATT-GCAATGTA
66 GGCGCCAAGAC-TCTTGAAATATCCATATTCATCT-AATAAAATCTCAGCCACATTAG-AATTTA
* * * * *
110373 GAATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGGAAAAAA-A
128 GAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAAATA
* * * * * * *
110437 TAGGAAAACGATATAAGAAACGTCAAAAGCCCTTCAATATTTTTGGCGTCT-AATTATATATTTT
193 T-GAAAAACGATATTA-AAACGTCAAAAG-TCTTCAATCTTTTTGGTGT-TAAATTATAAATATT
* * * *
110501 TTACGAGTATTTTAGC-CTAAAAATTTAAGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAG
254 TTATGAGTATTTT--CTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAG
*
110565 CTGAAATCGTGTAA
317 CCGAAATCGTGTAA
* * * * * *
110579 TAACCATCACAG-TTTTTGGCTAAAAAAGCGTTCCGGGGCACCGATTCAGTTTTGCCTGAGTTTT
1 TAACCATCACAGTTTTTTGGCTAAAAAAGCGTTTCAGGGCCCCTACTCAGTTTTGCATGA-TTTT
* * * * * * *
110643 T-GCACCAAGACTCCTGGAGATATCCATATTCAACTAATCAGATCTCAGCCACATTAGATTTTAG
65 TGGCGCCAAGACT-CTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAGAATTTAG
* * *
110707 AATTTGTTTTTATGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTGATTCTGAAAAAATAT
129 AATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAAATAT
* * *
110772 GAAAAACGATATTAAAAGCGTGAAAAGTACTCCAATC--TTTGGTGTTAAATTGTAAATATTTTA
194 GAAAAACGATATTAAAA-CGTCAAAAGT-CTTCAATCTTTTTGGTGTTAAATTATAAATATTTTA
*
110835 TGAGTATTTTCTCAAAAAACTGAG
257 TGAGTATTTTCTCAAAAAATTGAG
Statistics
Matches: 2920, Mismatches: 561, Indels: 259
0.78 0.15 0.07
Matches are distributed among these distances:
324 7 0.00
325 131 0.04
326 118 0.04
327 10 0.00
329 8 0.00
330 74 0.03
331 295 0.10
332 344 0.12
333 601 0.21
334 306 0.10
335 605 0.21
336 289 0.10
337 98 0.03
338 34 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (330 bp):
TAACCATCACAGTTTTTTGGCTAAAAAAGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATTTTT
GGCGCCAAGACTCTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTAGAATTTAGAA
TTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAAATATGA
AAAACGATATTAAAACGTCAAAAGTCTTCAATCTTTTTGGTGTTAAATTATAAATATTTTATGAG
TATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAGCCGAAATCG
TGTAA
Found at i:108084 original size:333 final size:333
Alignment explanation
Indices: 106959--110853 Score: 3792
Period size: 333 Copynumber: 11.7 Consensus size: 333
106949 AAGGGCCCCT
* * * * ** *
106959 ACTCAGGTTTGCATGATTTTTGGCGCCGAGACAACTTGAAATATCCATATTCATGTAATAAAATC
1 ACTCAGTTTTGCATGATTTTTTGCACCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATC
* * * * ** *
107024 TTAGCCAC-ATTGCAAATTAGAATTTGTTTTTACGAGCATTTGAAAATTGTTTTGATTTAATTAG
66 TCAGCCACAATAG-AATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* * * * *
107088 AAATTAATTTGGAAAAAATTGGGAAAACGATATTAGAAA-CGTCAAAAGCCCTTCAATATTTTTA
130 AAATTAATTCGAAAAAAATAGGAAAAACGATATTA-AAAGCGTCAAAAGCCCTTCAATCTTTTT-
* * * *
107152 GCAT-TTGAATTATATATTTTTTTAAGAGTATTTTAGCCCAAAAAA-TTAGGAAATATTTTTCGG
193 G-GTGTTAAATTATATA-TTTTTTACGAGTATTTTA-TCCAAAAAATTTAGGAAATATTTTTCGG
* *
107215 GTCAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGG
255 GTCAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACTGTTTTTGGCTAAAAAAGC
* **
107280 GTTTCGGGGCATTG
320 GTTCCGGGGCACCG
* * * * * * *
107294 GCTCAGTTTTGCGTGATTTTTTGCGCCAAGACTCCATGAGATATCCATATTCATCTAATCAAATT
1 ACTCAGTTTTGCATGATTTTTTGCACCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATC
* * *
107359 TCAGCCACATTAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAA
66 TCAGCCACAATAGAATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * * *
107424 AATTAATT-TAGAAAAAGTATGAAAAACGATATTAAAAGCGTGAAAAG-TCTTCCAATC-TTTTG
131 AATTAATTCGA-AAAAAATAGGAAAAACGATATTAAAAGCGTCAAAAGCCCTT-CAATCTTTTTG
* * * * * * *
107486 GTGTTAAATTGTAAATATTTTATGAGTATTTTCT-CAAAAAATTGAGGAAATGTTTTTCGGGTCA
194 GTGTTAAATTATATATTTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCGGGTCA
* * * * * * * * *
107550 TTTTTTACAAAATTTTAGTCAAAATTGTGTACTAACCCATCACAGTTTTTTTTTGTCTAAAAACG
259 ATTTTCACAAAATTTTAGCCGAAATCGTGTAATAA-CCATCAC----TGTTTTTGGCTAAAAAAG
* * * ** * *
107615 TGTTTCAGATCCCCT
319 CGTTCCGGGGCACCG
* * * * ** *
107630 ACTCAGTTTTGCATGATATTTGGCGCCGAGACT--TATGAAATATTTATATTCATGTAATAAAAT
1 ACTCAGTTTTGCATGATTTTTTGCACCAAGACTCCT-TGAAATATCCATATTCATCTAATAAAAT
* * * * *
107693 CTCACCCATATTGGAATTTAGAATTTGTTTTTACGAGCATTTGAA-CATTGTTTCGATTTAATTA
65 CTCAGCCACAATAGAATTTAGAATTTGTTTTTACGAGCATCTGAATC-TTGTTTCGATTTAATTA
* *
107757 GAAATTAATTCGAAAAAAATAGGAAAAACGATATTAGAAA-CGTCAAAAACACTTCAATCTTTTT
129 GAAATTAATTCGAAAAAAATAGGAAAAACGATATTA-AAAGCGTCAAAAGCCCTTCAATCTTTTT
** * *
107821 GGCATCT-AATTATATATTTTTTACGAGAATTTTATCCCAAAAATTTAGGAAATATTTTTCGGGT
193 GGTGT-TAAATTATATATTTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCGGGT
*
107885 CAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACTGTTTTTAGCTAAAAAAGCGT
257 CAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACTGTTTTTGGCTAAAAAAGCGT
107950 TCCGGGGCACCG
322 TCCGGGGCACCG
* * * * * *
107962 CCTCAGTTATGCTTGATTTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATC
1 ACTCAGTTTTGCATGATTTTTTGCACCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATC
* * *
108027 TCAGCCACAATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAAA
66 TCAGCCACAATAGAATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * *
108092 AATTAATTC-AGAAAAAATATGAAAAACGATATTAAAATCG-CGAAAAGTCCTCCAATCTTTTTG
131 AATTAATTCGA-AAAAAATAGGAAAAACGATATTAAAAGCGTC-AAAAGCCCTTCAATCTTTTTG
* * * * * * * * *
108155 GTGTTAAATTGTAAATATTTTATGAGTATTTTCT-CAAAAAACTGAGGAAATATTTTTCAGGTTA
194 GTGTTAAATTATATATTTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCGGGTCA
* ** * * * *
108219 CTTTTTTCAAAATTTTAGCCAAAATCGTGTACTAACCATCACATTTGTTTTTTGGCTAAAAACGT
259 ATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCAC---TG-TTTTTGGCTAAAAAAGC
* * **
108284 GTTTCAGGGTC-CTT
320 G-TTCCGGGGCACCG
* * ** * * *
108298 ACTTAGTTTTGCATGA-TTTTTGACGCCGGGAATCCTTAAAATATCCATATTCATGTAA-AAAAT
1 ACTCAGTTTTGCATGATTTTTTG-CACCAAGACTCCTTGAAATATCCATATTCATCTAATAAAAT
* * * * * *
108361 CTCATCCAC-ATTGCAATATAGAATTT-TTTTTACGAGCATTTGAATATTCTTTCGATTTAATTA
65 CTCAGCCACAATAG-AATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
* * * *
108424 GAAATTAATTCG-GAAAAATTGGAAAAACGATTTTAGAAA-CGTCAAAAGCCCTTCAATATTTTT
129 GAAATTAATTCGAAAAAAATAGGAAAAACGATATTA-AAAGCGTCAAAAGCCCTTCAATCTTTTT
** * * * * *
108487 GGCATCT-AATTATATATATTTTTACAATTATTTTAGCCCAAAAATTTAGAAAATATTTTTCGGG
193 GGTGT-TAAATTATATAT-TTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCGGG
* * *
108551 TCAATTTTCACAAAATTTAAGTCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGCG
256 TCAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACTGTTTTTGGCTAAAAAAGCG
108616 TTCCGGGGCACCG
321 TTCCGGGGCACCG
* * * * ** *
108629 GCTCAGTTTTCCTTGATTTTTTGCACAAAGACTCCTTGGGATATCCATATTCATCTAATCAAATC
1 ACTCAGTTTTGCATGATTTTTTGCACCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATC
* * * * *
108694 TCATCCACAATAGATTTTAGATTTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAA
66 TCAGCCACAATAGAATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * *
108759 AATTAATTCTAAAAAAAATATGAAAAACGATATTAAAAGCG-CAAAAAGTCCTCCAATCTTTTTG
131 AATTAATTC-GAAAAAAATAGGAAAAACGATATTAAAAGCGTC-AAAAGCCCTTCAATCTTTTTG
* * * * * * *
108823 GTGTTAAATTGTATATATTTGATGAGTATTTTCT-CAAAAAATTGAGGAAATATTTTTCGGGTTA
194 GTGTTAAATTATATATTTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCGGGTCA
* ** * **
108887 CTTTTTTCAAAATTTTAGCCAAAATCGTG---T-A-CA-CGGT-TTTTTGGCTAAAAACA-CGTT
259 ATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACTGTTTTTGGCTAAAAA-AGCGTT
* * * *
108944 TCAGGGCCCCT
323 CCGGGGCACCG
* ** *
108955 ACTCAGTTTTGGATGA-TTTTTG-ACGTCGGGACTCCTTGAAATATCCATATTCATGTAA-AAAA
1 ACTCAGTTTTGCATGATTTTTTGCAC--CAAGACTCCTTGAAATATCCATATTCATCTAATAAAA
* * * * * * **
109017 TCTCATCCAC-ATTGCAATATAGAATTTGTTTTTACGAGCATTTGGATATTCATTCGATTTAATT
64 TCTCAGCCACAATAG-AATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
* *
109081 AGAAATTAATTCGGAAAAAGATTGGAAAAACGATATTAGAAA-CGTCAAAAGCCCTTCAATCTTT
128 AGAAATTAATTC-GAAAAAAATAGGAAAAACGATATTA-AAAGCGTCAAAAGCCCTTCAATCTTT
* ** * * *
109145 TTGGCGTCT-AATTATATATTTTTTACGAGTATTTTGGCCCAAAAAGTTAGGAAATATTTTTTGG
191 TTGGTGT-TAAATTATATATTTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCGG
*
109209 GTCAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCAT-AATGGTTTTTTGGCTAAAAAA
255 GTCAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACT-G-TTTTTGGCTAAAAAA
*
109273 GCGTTCTGGGGCACCG
318 GCGTTCCGGGGCACCG
* * * * * *
109289 GCTCAGTTTTGCTTGATCTTTTACACAAAGACTCCTTGAGATATCCATATTCATCTAATAAAATC
1 ACTCAGTTTTGCATGATTTTTTGCACCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATC
* *
109354 TCAGCCACAATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAA
66 TCAGCCACAATAGAATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * *
109419 AATTAATTC-AGAGAAAATATGG-AAAACGATATTAAAAGCG-CGAAAAGTCCTCCAATATTTTT
131 AATTAATTCGA-AAAAAATA-GGAAAAACGATATTAAAAGCGTC-AAAAGCCCTTCAATCTTTTT
* * * * * * * *
109481 GGTGTTAAATTGTAAATATTTTATGAGTATTTTCT-CAAAAAATTGAGGAAATATTTTTCAGGTT
193 GGTGTTAAATTATATATTTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCGGGTC
* ** * * * * * *
109545 ACTTTTTTCAAAATTTTAACCAAAATTGTGTACTAACCATCACAGTTTTTTGGCTAAAAACGCGT
258 AATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACTG-TTTTTGGCTAAAAAAGCGT
* * *
109610 TTCAGGGC-CCTT
322 TCCGGGGCACC-G
** *
109622 ACTCAGTTTTGCATGA-TTTTTG-ACGTCGGGACTCCTTGAAATATCCATATTCATGTAA-AAAA
1 ACTCAGTTTTGCATGATTTTTTGCAC--CAAGACTCCTTGAAATATCCATATTCATCTAATAAAA
* * * * * * *
109684 TCTCATCCAC-ATGGCAATATAGAATTT-TTTTTACGAGCATTTGAATATTCTTTCGATTTGATT
64 TCTCAGCCACAATAG-AATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
* *
109747 AGAAATTAATTCGGTAAAAGATAGGAAAAACGATATTAGAAA-CGTCAAAAGCCCTTCAATCTTT
128 AGAAATTAATTC-GAAAAAAATAGGAAAAACGATATTA-AAAGCGTCAAAAGCCCTTCAATCTTT
* * * *
109811 TTGGTGTCT-AATTATATATTTTTTACAAGTATTTTA-GCATAAAATTTTAAGAAATATTTTTAC
191 TTGGTGT-TAAATTATATATTTTTTACGAGTATTTTATCCA-AAAAATTTAGGAAATATTTTT-C
*
109874 GGGGTCAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTTTGGCTAAAA
253 -GGGTCAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACTG-TTTTTGGCT-AAA
*
109939 AAAGCATTCCGGGGCACCG
315 AAAGCGTTCCGGGGCACCG
* * * * * *
109958 GCTCAGTTTTGCTTGAATTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATC
1 ACTCAGTTTTGCATGATTTTTTGCACCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATC
* *
110023 TCAGCGACAATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA-A
66 TCAGCCACAATAGAATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * *
110087 AATTAATTC-ATAAAAAATATGAAAAACAATATTAAAAGCG-CGAAAAGTCCTCCAATCTTTTTG
131 AATTAATTCGA-AAAAAATAGGAAAAACGATATTAAAAGCGTC-AAAAGCCCTTCAATCTTTTTG
* * * * * * * * * *
110150 GTATTAAATTGTAAATATATTATGAGTATTTTCT-CAAAAAATTGAGGAAATGTTTTTCGGGTTA
194 GTGTTAAATTATATATTTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCGGGTCA
* * *
110214 ATTTT--CAAAATTTTAGCCAAAATCGTGTACTAACCATCA-TAGGTTTTTGGCTAAAAACGCGT
259 ATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACT--GTTTTTGGCTAAAAAAGCGT
* * * *
110276 TTCAGGGCTCCT
322 TCCGGGGCACCG
* ** * * *
110288 ACTAAGTTTTGCATGA-TTTTTG-ACGCTGGGACTTCTTGAAATATCCATATTCATGTAAAAAAA
1 ACTCAGTTTTGCATGATTTTTTGCAC-C-AAGACTCCTTGAAATATCCATATTCATCT-AATAAA
* * * * *
110351 ATCTCAGCCAC-ATTGCAATGTAGAATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAAT
63 ATCTCAGCCACAATAG-AATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
* *
110415 TAGAAATTAATTCGGAAAAAAATAGG-AAAACGATA-TAAGAAACGTCAAAAGCCCTTCAATATT
127 TAGAAATTAATTC-GAAAAAAATAGGAAAAACGATATTAA-AAGCGTCAAAAGCCCTTCAATCTT
* * * *
110478 TTTGGCGTCT-AATTATATATTTTTTACGAGTATTTTAGCCTAAAAATTTAAGAAATATTTTTCG
190 TTTGGTGT-TAAATTATATATTTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCG
* *
110542 GGTCAATTTTCACAAAATTTTAGCTGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAG
254 GGTCAATTTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACTGTTTTTGGCTAAAAAAG
110607 CGTTCCGGGGCACCG
319 CGTTCCGGGGCACCG
* * * * * * * *
110622 ATTCAGTTTTGCCTGAGTTTTTGCACCAAGACTCCTGGAGATATCCATATTCAACTAATCAGATC
1 ACTCAGTTTTGCATGATTTTTTGCACCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATC
* * * *
110687 TCAGCCACATTAGATTTTAGAATTTGTTTTTATGAGCATCTGAATCTTGTTTCGATTTAATTAAA
66 TCAGCCACAATAGAATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * ** *
110752 AATTGATTCTG-AAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTACTCCAATC--TTTGG
131 AATTAATTC-GAAAAAAATAGGAAAAACGATATTAAAAGCGTCAAAAGCCCTTCAATCTTTTTGG
* * * * *
110814 TGTTAAATTGTAAATATTTTATGAGTATTTTCT-CAAAAAA
195 TGTTAAATTATATATTTTTTACGAGTATTTTATCCAAAAAA
110854 CTGAG
Statistics
Matches: 2874, Mismatches: 561, Indels: 255
0.78 0.15 0.07
Matches are distributed among these distances:
324 5 0.00
325 137 0.05
326 118 0.04
327 2 0.00
328 4 0.00
329 8 0.00
330 79 0.03
331 289 0.10
332 334 0.12
333 603 0.21
334 290 0.10
335 587 0.20
336 277 0.10
337 103 0.04
338 38 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (333 bp):
ACTCAGTTTTGCATGATTTTTTGCACCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATC
TCAGCCACAATAGAATTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
AATTAATTCGAAAAAAATAGGAAAAACGATATTAAAAGCGTCAAAAGCCCTTCAATCTTTTTGGT
GTTAAATTATATATTTTTTACGAGTATTTTATCCAAAAAATTTAGGAAATATTTTTCGGGTCAAT
TTTCACAAAATTTTAGCCGAAATCGTGTAATAACCATCACTGTTTTTGGCTAAAAAAGCGTTCCG
GGGCACCG
Found at i:108260 original size:668 final size:665
Alignment explanation
Indices: 106913--110858 Score: 5927
Period size: 668 Copynumber: 5.9 Consensus size: 665
106903 ATGAGAGCTA
* * * *
106913 TACTAACCATCACGGTTTTTTGGCTAAGAACGC--ATCAAGGGCCCCTACTCAGGTTTGCATGAT
1 TACTAACCATCACAGTTTTTTGGCTAAAAACGCGTTTC-AGGGCCCCTACTCAGTTTTGCATGAT
* * * * *
106976 TTTTGGCGCCGAGAC-AACTTGAAATATCCATATTCATGTAATAAAATCTTAGCCACATTGCAA-
65 TTTTGACGCCGGGACTTA--TGAAATATCCATATTCATGTAA-AAAATCTCATCCACATTGCAAT
* * * *
107039 ATTAGAATTTGTTTTTACGAGCATTTGAAAATTGTTTTGATTTAATTAGAAATTAATTTGG-AAA
127 A-TAGAATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGGAAAA
* * * *
107103 AAATTGGGAAAACGATATTAGAAACGTCAAAAGCCCTTCAATATTTTTAGCATTTGAATTATATA
191 AAATAGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATATTTTTGGCATCT-AATTATATA
* *
107168 TTTTTTTAAGAGTATTTTAGCCCAAAAAATTAGGAAATATTTTTCGGGTCAATTTTCACAAAATT
255 -TTTTTTACGAGTATTTTAGCCCAAAAATTTAGGAAATATTTTTCGGGTCAATTTTCACAAAATT
* * **
107233 TTAGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGGGTTTCGGGGCATTGGCTC
319 TTAGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGCGTTCCGGGGCACCGGCTC
* * * * *
107298 AGTTTTGCGTGATTTTTTGCGCCAAGACTCCATGAGATATCCATATTCATCTAATCAAATTTCAG
384 AGTTTTGCTTGATTTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAG
*
107363 CCACATTAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATT
449 CCACAATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATT
* * * *
107428 AATTTAGAAAAAGTATGAAAAACGATATTAAAAGCGTGAAAAGTCTTCCAATC-TTTTGGTGTTA
514 AATTCAGAAAAAATATGAAAAACGATATTAAAAGCGCGAAAAGTCCTCCAATCTTTTTGGTGTTA
* *
107492 AATTGTAAATATTTTATGAGTATTTTCTCAAAAAATTGAGGAAATGTTTTTCGGGTCA-TTTTTT
579 AATTGTAAATATTTTATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTTACTTTTTT
* *
107556 ACAAAATTTTAGTCAAAATTGTG
644 -CAAAATTTTAGCCAAAATCGTG
* * **
107579 TACTAACCCATCACAGTTTTTTTTTGTCTAAAAACGTGTTTCAGATCCCCTACTCAGTTTTGCAT
1 TACTAA-CCATCACAG---TTTTTTGGCTAAAAACGCGTTTCAGGGCCCCTACTCAGTTTTGCAT
* * * ** * * *
107644 GATATTTGGCGCCGAGACTTATGAAATATTTATATTCATGTAATAAAATCTCACCCATATTGGAA
62 GATTTTTGACGCCGGGACTTATGAAATATCCATATTCATGTAA-AAAATCTCATCCACATTGCAA
* * *
107709 TTTAGAATTTGTTTTTACGAGCATTTGAACATTGTTTCGATTTAATTAGAAATTAATTC-GAAAA
126 TATAGAATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGGAAAA
* * *
107773 AAATAGGAAAAACGATATTAGAAACGTCAAAAACACTTCAATCTTTTTGGCATCTAATTATATAT
191 AAATAGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATATTTTTGGCATCTAATTATATAT
* *
107838 TTTTTACGAGAATTTTATCCCAAAAATTTAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTT
256 TTTTTACGAGTATTTTAGCCCAAAAATTTAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTT
* * *
107903 AGCCGAAATCGTGTAATAACCATCACTGTTTTTAGCTAAAAAAGCGTTCCGGGGCACCGCCTCAG
321 AGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGCGTTCCGGGGCACCGGCTCAG
*
107968 TTATGCTTGATTTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGCC
386 TTTTGCTTGATTTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGCC
*
108033 ACAATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAAAAATTAA
451 ACAATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAA
*
108098 TTCAGAAAAAATATGAAAAACGATATTAAAATCGCGAAAAGTCCTCCAATCTTTTTGGTGTTAAA
516 TTCAGAAAAAATATGAAAAACGATATTAAAAGCGCGAAAAGTCCTCCAATCTTTTTGGTGTTAAA
* *
108163 TTGTAAATATTTTATGAGTATTTTCTCAAAAAACTGAGGAAATATTTTTCAGGTTACTTTTTTCA
581 TTGTAAATATTTTATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTTACTTTTTTCA
108228 AAATTTTAGCCAAAATCGTG
646 AAATTTTAGCCAAAATCGTG
* * * *
108248 TACTAACCATCACATTTGTTTTTTGGCTAAAAACGTGTTTCAGGGTCCTTACTTAGTTTTGCATG
1 TACTAACCATCACA---GTTTTTTGGCTAAAAACGCGTTTCAGGGCCCCTACTCAGTTTTGCATG
108313 ATTTTTGACGCCGGGAATCCTTA--AAATATCCATATTCATGTAAAAAATCTCATCCACATTGCA
63 ATTTTTGACGCCGGG-A--CTTATGAAATATCCATATTCATGTAAAAAATCTCATCCACATTGCA
108376 ATATAGAATTT-TTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGG--A
125 ATATAGAATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGGAAA
* *
108438 AAAATTGGAAAAACGATTTTAGAAACGTCAAAAGCCCTTCAATATTTTTGGCATCTAATTATATA
190 AAAATAGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATATTTTTGGCATCTAATTATATA
* * *
108503 TATTTTTACAATTATTTTAGCCCAAAAATTTAGAAAATATTTTTCGGGTCAATTTTCACAAAATT
255 T-TTTTTACGAGTATTTTAGCCCAAAAATTTAGGAAATATTTTTCGGGTCAATTTTCACAAAATT
* *
108568 TAAGTCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGCGTTCCGGGGCACCGGCTC
319 TTAGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGCGTTCCGGGGCACCGGCTC
* * *
108633 AGTTTTCCTTGATTTTTTGCACAAAGACTCCTTGGGATATCCATATTCATCTAATCAAATCTCAT
384 AGTTTTGCTTGATTTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAG
* *
108698 CCACAATAGATTTTAGATTTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATT
449 CCACAATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATT
* *
108763 AATTCTAAAAAAAATATGAAAAACGATATTAAAAGCGCAAAAAGTCCTCCAATCTTTTTGGTGTT
514 AATTC-AGAAAAAATATGAAAAACGATATTAAAAGCGCGAAAAGTCCTCCAATCTTTTTGGTGTT
* *
108828 AAATTGTATATATTTGATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTTACTTTTT
578 AAATTGTAAATATTTTATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTTACTTTTT
108893 TCAAAATTTTAGCCAAAATCGTG
643 TCAAAATTTTAGCCAAAATCGTG
* * *
108916 ---T----A-CACGGTTTTTTGGCTAAAAACACGTTTCAGGGCCCCTACTCAGTTTTGGATGATT
1 TACTAACCATCACAGTTTTTTGGCTAAAAACGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATT
*
108973 TTTGACGTCGGGACTCCT-TGAAATATCCATATTCATGTAAAAAATCTCATCCACATTGCAATAT
66 TTTGACGCCGGGACT--TATGAAATATCCATATTCATGTAAAAAATCTCATCCACATTGCAATAT
* * *
109037 AGAATTTGTTTTTACGAGCATTTGGATATTCATTCGATTTAATTAGAAATTAATTCGGAAAAAGA
129 AGAATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
* * *
109102 TTGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATCTTTTTGGCGTCTAATTATATATTTT
194 TAGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATATTTTTGGCATCTAATTATATATTTT
* * *
109167 TTACGAGTATTTTGGCCCAAAAAGTTAGGAAATATTTTTTGGGTCAATTTTCACAAAATTTTAGC
259 TTACGAGTATTTTAGCCCAAAAATTTAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAGC
* ** *
109232 CGAAATCGTGTAATAACCATAATGGTTTTTTGGCTAAAAAAGCGTTCTGGGGCACCGGCTCAGTT
324 CGAAATCGTGTAATAACCATCACAG-TTTTTGGCTAAAAAAGCGTTCCGGGGCACCGGCTCAGTT
* * *
109297 TTGCTTGATCTTTTACACAAAGACTCCTTGAGATATCCATATTCATCTAATAAAATCTCAGCCAC
388 TTGCTTGATTTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGCCAC
109362 AATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATT
453 AATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATT
* * *
109427 CAGAGAAAATATGGAAAACGATATTAAAAGCGCGAAAAGTCCTCCAATATTTTTGGTGTTAAATT
518 CAGAAAAAATATGAAAAACGATATTAAAAGCGCGAAAAGTCCTCCAATCTTTTTGGTGTTAAATT
*
109492 GTAAATATTTTATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCAGGTTACTTTTTTCAAA
583 GTAAATATTTTATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTTACTTTTTTCAAA
* *
109557 ATTTTAACCAAAATTGTG
648 ATTTTAGCCAAAATCGTG
*
109575 TACTAACCATCACAGTTTTTTGGCTAAAAACGCGTTTCAGGGCCCTTACTCAGTTTTGCATGATT
1 TACTAACCATCACAGTTTTTTGGCTAAAAACGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATT
* *
109640 TTTGACGTCGGGACTCCT-TGAAATATCCATATTCATGTAAAAAATCTCATCCACATGGCAATAT
66 TTTGACGCCGGGACT--TATGAAATATCCATATTCATGTAAAAAATCTCATCCACATTGCAATAT
* * *
109704 AGAATTT-TTTTTACGAGCATTTGAATATTCTTTCGATTTGATTAGAAATTAATTCGGTAAAAGA
129 AGAATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
* **
109768 TAGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATCTTTTTGGTGTCTAATTATATATTTT
194 TAGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATATTTTTGGCATCTAATTATATATTTT
* ** * *
109833 TTACAAGTATTTTAGCATAAAATTTTAAGAAATATTTTTACGGGGTCAATTTTCACAAAATTTTA
259 TTACGAGTATTTTAGCCCAAAAATTTAGGAAATATTTTT-C-GGGTCAATTTTCACAAAATTTTA
*
109898 GCCGAAATCGTGTAATAACCATCACAGTTTTTTGGCTAAAAAAAGCATTCCGGGGCACCGGCTCA
322 GCCGAAATCGTGTAATAACCATCACAG-TTTTTGGCT-AAAAAAGCGTTCCGGGGCACCGGCTCA
*
109963 GTTTTGCTTGAATTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGC
385 GTTTTGCTTGATTTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGC
*
110028 GACAATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT-AAAATTA
450 CACAATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTA
* * *
110092 ATTCATAAAAAATATGAAAAACAATATTAAAAGCGCGAAAAGTCCTCCAATCTTTTTGGTATTAA
515 ATTCAGAAAAAATATGAAAAACGATATTAAAAGCGCGAAAAGTCCTCCAATCTTTTTGGTGTTAA
* * *
110157 ATTGTAAATATATTATGAGTATTTTCTCAAAAAATTGAGGAAATGTTTTTCGGGTTA--ATTTTC
580 ATTGTAAATATTTTATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTTACTTTTTTC
110220 AAAATTTTAGCCAAAATCGTG
645 AAAATTTTAGCCAAAATCGTG
* * * *
110241 TACTAACCATCATAGGTTTTTGGCTAAAAACGCGTTTCAGGGCTCCTACTAAGTTTTGCATGATT
1 TACTAACCATCACAGTTTTTTGGCTAAAAACGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATT
* * * *
110306 TTTGACGCTGGGACTTCTTGAAATATCCATATTCATGTAAAAAAAATCTCAGCCACATTGCAATG
66 TTTGACGCCGGGACTT-ATGAAATATCCATATTCATGT--AAAAAATCTCATCCACATTGCAATA
110371 TAGAATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGGAAAAAA
128 TAGAATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGGAAAAAA
* *
110436 ATAGG-AAAACGATATAAGAAACGTCAAAAGCCCTTCAATATTTTTGGCGTCTAATTATATATTT
193 ATAGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATATTTTTGGCATCTAATTATATATTT
* *
110500 TTTACGAGTATTTTAGCCTAAAAATTTAAGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAG
258 TTTACGAGTATTTTAGCCCAAAAATTTAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAG
* **
110565 CTGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGCGTTCCGGGGCACCGATTCAGTT
323 CCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGCGTTCCGGGGCACCGGCTCAGTT
* * * * * *
110630 TTGCCTGAGTTTTTGCACCAAGACTCCTGGAGATATCCATATTCAACTAATCAGATCTCAGCCAC
388 TTGCTTGATTTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGCCAC
* * *
110695 ATTAGATTTTAGAATTTGTTTTTATGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTGATT
453 AATAGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATT
* * *
110760 CTGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTACTCCAATC--TTTGGTGTTAAATT
518 CAGAAAAAATATGAAAAACGATATTAAAAGCGCGAAAAGTCCTCCAATCTTTTTGGTGTTAAATT
*
110823 GTAAATATTTTATGAGTATTTTCTCAAAAAACTGAG
583 GTAAATATTTTATGAGTATTTTCTCAAAAAATTGAG
Statistics
Matches: 3006, Mismatches: 229, Indels: 93
0.90 0.07 0.03
Matches are distributed among these distances:
654 2 0.00
656 2 0.00
657 107 0.04
658 48 0.02
659 219 0.07
660 227 0.08
661 1 0.00
662 1 0.00
663 47 0.02
664 138 0.05
665 63 0.02
666 383 0.13
667 422 0.14
668 817 0.27
669 320 0.11
670 164 0.05
671 42 0.01
672 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (665 bp):
TACTAACCATCACAGTTTTTTGGCTAAAAACGCGTTTCAGGGCCCCTACTCAGTTTTGCATGATT
TTTGACGCCGGGACTTATGAAATATCCATATTCATGTAAAAAATCTCATCCACATTGCAATATAG
AATTTGTTTTTACGAGCATTTGAATATTCTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATA
GGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAATATTTTTGGCATCTAATTATATATTTTTT
ACGAGTATTTTAGCCCAAAAATTTAGGAAATATTTTTCGGGTCAATTTTCACAAAATTTTAGCCG
AAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGCGTTCCGGGGCACCGGCTCAGTTTTG
CTTGATTTTTTGCACAAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGCCACAAT
AGATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAG
AAAAAATATGAAAAACGATATTAAAAGCGCGAAAAGTCCTCCAATCTTTTTGGTGTTAAATTGTA
AATATTTTATGAGTATTTTCTCAAAAAATTGAGGAAATATTTTTCGGGTTACTTTTTTCAAAATT
TTAGCCAAAATCGTG
Done.