Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009197.1 Corchorus capsularis cultivar CVL-1 contig09218, 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: 131399
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:851 original size:31 final size:31
Alignment explanation
Indices: 806--890 Score: 154
Period size: 31 Copynumber: 2.8 Consensus size: 31
796 GGCATGCCAC
806 GTGTCAC-TTTTGGTACACGTGGCGTGACAT
1 GTGTCACTTTTTGGTACACGTGGCGTGACAT
836 GTGTCACTTTTTGGTACACGTGGCGTGACAT
1 GTGTCACTTTTTGGTACACGTGGCGTGACAT
*
867 GTGTCACTTTTTGGTACATGTGGC
1 GTGTCACTTTTTGGTACACGTGGC
891 ACTGTGGCGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 7 0.13
31 46 0.87
ACGTcount: A:0.15, C:0.19, G:0.29, T:0.36
Consensus pattern (31 bp):
GTGTCACTTTTTGGTACACGTGGCGTGACAT
Found at i:1776 original size:17 final size:17
Alignment explanation
Indices: 1742--1776 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1732 TGAGATTTTT
* *
1742 TAAATTATAATTAGCAA
1 TAAATTATAATAACCAA
1759 TAAATTATAATAACCAA
1 TAAATTATAATAACCAA
1776 T
1 T
1777 CGTACATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (17 bp):
TAAATTATAATAACCAA
Found at i:11886 original size:3 final size:3
Alignment explanation
Indices: 11878--11909 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11868 CTAGCCTTAT
*
11878 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11910 TAATTAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23626 original size:21 final size:21
Alignment explanation
Indices: 23600--23640 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23590 CATTTCCTTC
23600 TCCTTC-TCCTTCACCATCCAA
1 TCCTTCTTCCTT-ACCATCCAA
*
23621 TCCTTCTTCCTTGCCATCCA
1 TCCTTCTTCCTTACCATCCA
23641 CTACTACACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.15, C:0.46, G:0.02, T:0.37
Consensus pattern (21 bp):
TCCTTCTTCCTTACCATCCAA
Found at i:24259 original size:2 final size:2
Alignment explanation
Indices: 24252--24276 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24242 TAATATACTC
24252 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
24277 AGGAAGCCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25333 original size:6 final size:6
Alignment explanation
Indices: 25322--25349 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
25312 ACTTTAAAGC
25322 AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAA
25350 CCTTTAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:50331 original size:1 final size:1
Alignment explanation
Indices: 50325--50350 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
50315 GAAAAGTTGC
50325 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
50351 CAACAAGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:54421 original size:19 final size:21
Alignment explanation
Indices: 54397--54445 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
54387 ACGTGGCGTG
54397 ACATGTGG-C-ACTTTTTGGT
1 ACATGTGGACGACTTTTTGGT
54416 ACATGTGGCACGACTTTTTGGT
1 ACATGTGG-ACGACTTTTTGGT
54438 ACATGTGG
1 ACATGTGG
54446 TGTGTCACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.30
21 1 0.04
22 18 0.67
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (21 bp):
ACATGTGGACGACTTTTTGGT
Found at i:54435 original size:53 final size:52
Alignment explanation
Indices: 54375--54477 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 52
54365 GTCACGTGTC
*
54375 ACTTTTTGGTACACGTGGCGTG-ACATGTGGCACTTTTTGGTACATGTGGCACG
1 ACTTTTTGGTACACGTGGCGTGCACATGT--CACTTTTTGGTACACGTGGCACG
* *
54428 ACTTTTTGGTACATGTGGTGTGTCACATGTCACTTTTTGGTACACGTGGC
1 ACTTTTTGGTACACGTGGCGTG-CACATGTCACTTTTTGGTACACGTGGC
54478 GTGCCACGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
53 39 0.87
55 6 0.13
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.37
Consensus pattern (52 bp):
ACTTTTTGGTACACGTGGCGTGCACATGTCACTTTTTGGTACACGTGGCACG
Found at i:57597 original size:22 final size:22
Alignment explanation
Indices: 57553--57597 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
57543 ACATGAAACC
* *
57553 AAACTTAAAAGTATAAAACTAA
1 AAACTTAAAAATATAAAAATAA
57575 AAACTTAAAAATA-AATAAATAA
1 AAACTTAAAAATATAA-AAATAA
57597 A
1 A
57598 TAAGATGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (22 bp):
AAACTTAAAAATATAAAAATAA
Found at i:57846 original size:70 final size:70
Alignment explanation
Indices: 57764--57918 Score: 192
Period size: 70 Copynumber: 2.2 Consensus size: 70
57754 TTGTTTAGAT
*
57764 TTTTA-TAGTTTTACTCAACTAAAAACTCTATTTTTGT-T-TAATTAAATATAATAT-GTCTATA
1 TTTTACTA-TTTTACTCAACTAAAAA-TCT-TTTTTGTATATAATTAAATATAATATCCT-TATA
* *
57825 ATTATTTTA
62 ACTATTATA
* *
57834 TTTTACTATTTTACTCAACTAAAAATCTTTTTTTTATATAATTAAATCTAATATCCTTATAACTA
1 TTTTACTATTTTACTCAACTAAAAATCTTTTTTGTATATAATTAAATATAATATCCTTATAACTA
57899 TTATA
66 TTATA
*
57904 TTTTACCATTTTACT
1 TTTTACTATTTTACT
57919 ATTTTAATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
68 6 0.08
69 4 0.05
70 62 0.83
71 3 0.04
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.52
Consensus pattern (70 bp):
TTTTACTATTTTACTCAACTAAAAATCTTTTTTGTATATAATTAAATATAATATCCTTATAACTA
TTATA
Found at i:65442 original size:31 final size:30
Alignment explanation
Indices: 65396--65507 Score: 107
Period size: 31 Copynumber: 3.9 Consensus size: 30
65386 GGCATGCCAC
65396 GTGTCACTTTTTTGGTACACGTGGCGTGACA
1 GTGTCAC-TTTTTGGTACACGTGGCGTGACA
*
65427 TGTGTCACTTTTTGGTACATGTGGC---AC-
1 -GTGTCACTTTTTGGTACACGTGGCGTGACA
*
65454 --G--ACTTTTTGGTACATGTGGCGTGCCACA
1 GTGTCACTTTTTGGTACACGTGGCGTG--ACA
65482 -TGTCACTTTTTGGTACACGTGGCGTG
1 GTGTCACTTTTTGGTACACGTGGCGTG
65508 TTATGTCGGA
Statistics
Matches: 69, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
22 19 0.28
24 1 0.01
27 2 0.03
28 2 0.03
29 1 0.01
31 37 0.54
32 7 0.10
ACGTcount: A:0.15, C:0.20, G:0.29, T:0.37
Consensus pattern (30 bp):
GTGTCACTTTTTGGTACACGTGGCGTGACA
Found at i:65463 original size:53 final size:53
Alignment explanation
Indices: 65404--65504 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
65394 ACGTGTCACT
** *
65404 TTTTTGGTACACGTGGCGTGACATGTGTCACTTTTTGGTACATGTGGCACGAC
1 TTTTTGGTACACGTGGCGTGACACATGTCACTTTTTGGTACACGTGGCACGAC
* *
65457 TTTTTGGTACATGTGGCGTGCCACATGTCACTTTTTGGTACACGTGGC
1 TTTTTGGTACACGTGGCGTGACACATGTCACTTTTTGGTACACGTGGC
65505 GTGTTATGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.16, C:0.20, G:0.28, T:0.37
Consensus pattern (53 bp):
TTTTTGGTACACGTGGCGTGACACATGTCACTTTTTGGTACACGTGGCACGAC
Found at i:82788 original size:3 final size:3
Alignment explanation
Indices: 82773--82841 Score: 66
Period size: 3 Copynumber: 23.0 Consensus size: 3
82763 CAGCAAGAGG
* * * * *
82773 AGC AGC CGC AGC AGC AGC AGC AGC AAC AAC AGC AAC AGC AGC AGC AAC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
* * *
82821 AAC AGC AAC ATC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC
82842 CCCAGCTTCT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.41, C:0.35, G:0.23, T:0.01
Consensus pattern (3 bp):
AGC
Found at i:97244 original size:33 final size:33
Alignment explanation
Indices: 97201--97335 Score: 153
Period size: 33 Copynumber: 4.1 Consensus size: 33
97191 TCCATGAGGA
*
97201 GGCGGTTTCGGAGACACTATCCGATGCATCTCC
1 GGCGGTTTCGGAGACACTATCCGCTGCATCTCC
* * * * *
97234 GGCGGATTCGGAAATACTTTCCCCTGCATCTCC
1 GGCGGTTTCGGAGACACTATCCGCTGCATCTCC
* * * *
97267 GGCGGCTTCGGAGACACTGTCCGTTGCATGTCC
1 GGCGGTTTCGGAGACACTATCCGCTGCATCTCC
* * *
97300 GGCGGTTTCGGACACACTCTGCGCTGCATCTCC
1 GGCGGTTTCGGAGACACTATCCGCTGCATCTCC
97333 GGC
1 GGC
97336 TGTACTCGAA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.24
Consensus pattern (33 bp):
GGCGGTTTCGGAGACACTATCCGCTGCATCTCC
Found at i:97310 original size:66 final size:66
Alignment explanation
Indices: 97201--97335 Score: 180
Period size: 66 Copynumber: 2.0 Consensus size: 66
97191 TCCATGAGGA
* * *
97201 GGCGGTTTCGGAGACACTATCCGATGCATCTCCGGCGGATTCGGAAATACTTTCCCCTGCATCTC
1 GGCGGCTTCGGAGACACTATCCGATGCATCTCCGGCGGATTCGGAAACACTCTCCCCTGCATCTC
97266 C
66 C
* * * * * * *
97267 GGCGGCTTCGGAGACACTGTCCGTTGCATGTCCGGCGGTTTCGGACACACTCTGCGCTGCATCTC
1 GGCGGCTTCGGAGACACTATCCGATGCATCTCCGGCGGATTCGGAAACACTCTCCCCTGCATCTC
97332 C
66 C
97333 GGC
1 GGC
97336 TGTACTCGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.24
Consensus pattern (66 bp):
GGCGGCTTCGGAGACACTATCCGATGCATCTCCGGCGGATTCGGAAACACTCTCCCCTGCATCTC
C
Found at i:98531 original size:2 final size:2
Alignment explanation
Indices: 98524--98558 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
98514 ATCTAACATA
* *
98524 AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
98559 AGTGATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:99502 original size:49 final size:50
Alignment explanation
Indices: 99430--99533 Score: 149
Period size: 49 Copynumber: 2.1 Consensus size: 50
99420 CAGACTATAG
* *
99430 CATCAATTTTCTCTGTTGATTATTAGTAT-TGGTAATTG-TTTTTGGTAAT
1 CATCAAATTTCTCTGTTGATTATTAGT-TCTGGCAATTGTTTTTTGGTAAT
*
99479 CATCAAATTTCTCTGTTGATTATTAGTTCTGGCATTTGTTTTTTTGGTAAT
1 CATCAAATTTCTCTGTTGATTATTAGTTCTGGCAATTG-TTTTTTGGTAAT
99530 CATC
1 CATC
99534 TTGTTCTGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
48 1 0.02
49 33 0.67
51 15 0.31
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (50 bp):
CATCAAATTTCTCTGTTGATTATTAGTTCTGGCAATTGTTTTTTGGTAAT
Found at i:104283 original size:60 final size:58
Alignment explanation
Indices: 104167--104284 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 58
104157 CTTAGGCTGC
*
104167 AAACTGTTGTTCCTGAAAGGGTTTGGGACATGATCAAGTATAGTTTTGTTGGATTCCT
1 AAACTGTTGTTCCTGAAAGGGTTTGGCACATGATCAAGTATAGTTTTGTTGGATTCCT
*
104225 AAACTGTTGTTCCTTTAAAGGGTTTGGAACACATGAT-ATAGT-TAGTTTTGCTT-GATTCCT
1 AAACTGTTGTTCC-TGAAAGGGTTTGG--CACATGATCA-AGTATAGTTTTG-TTGGATTCCT
104285 GGAAATGTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
58 13 0.25
59 12 0.23
60 16 0.30
61 12 0.23
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (58 bp):
AAACTGTTGTTCCTGAAAGGGTTTGGCACATGATCAAGTATAGTTTTGTTGGATTCCT
Found at i:125839 original size:324 final size:324
Alignment explanation
Indices: 124832--126109 Score: 1596
Period size: 323 Copynumber: 4.0 Consensus size: 324
124822 ATGGAAGTCG
* * * *
124832 AAATCGTGTACTAACCATCA-ATATTTTTGACTAAAAACGTGTTTCGGAGCCCCGACTCAATTTT
1 AAATCGTATACTAACCATCACA-GTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTT
* * * *
124896 GAATGATTTTTGACGCAAAGACTCTTTGATTTATCC-ATTTTCATCGAACCAAATGTTAGCCACA
65 GCATGATTTTTGGCGCAAAGACTCCTTGATTTA-CCTATATTCATCGAACCAAATGTTAGCCACA
*
124960 TTGGATATAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTC
129 TTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC
* * * * * *
125025 CG-AAAAAAATGGAAAAACGATATTAGAAGCATGAAAAGCCCGTCAAACTTTTTGGCGTTGAATT
194 GGAAAAAAAATGGAAAAACGATAATAGAAGCGTGAAAAACCCGTCAATCTTTTTGGCATTGAATT
* * ** * * *
125089 ATATATTTTTTTTGAGTATTTTGGCAAAAAATTGATAAAAAAAGTTTCCGGGTCAGTTTTTAGCA
259 ATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAAACTTTTCGGGTCAGTTTTTAGCC
125154 A
324 A
* * ** * * * * ** *
125155 AAATTGTGTACTAATAATCACGGTTTTT-GCTTAAAAACGCATTGCGAAGCTTCGGCTCAATTTT
1 AAATCGTATACTAACCATCACAGTTTTTGGC-TAAAAACGCGTTTCGGAGCCCCGACTCAATTTT
* * * **
125219 GCATGATTTTTTGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTCAATCACAT
65 GCATGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACAT
* * *
125284 TAGATATAAGGATTTGTTTTTACGAGCATCAT-AATATTGTTTCGATTTAATTAAAAATTAATTC
130 TGGATATAAGGATTTGTTTTTACGAGCATC-TGAATCTTGTTTCGATTTAATTAGAAATTAATTC
* ** * * **
125348 GGAAAAAAATTGGAAAATTGATAATAGAAGTGTGAAAAGA-CCTTCAATCTTTTTGGTGTTGAAT
194 GGAAAAAAAATGGAAAAACGATAATAGAAGCGTGAAAA-ACCCGTCAATCTTTTTGGCATTGAAT
* * * * * *
125412 TATACATTTTTTCTGAGTGTTGCGGCAAAAAATTCAGGAAAAAA-ATTTCGGGTCAGTTTTTAGT
258 TATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAAACTTTTCGGGTCAGTTTTTAGC
*
125476 CG
323 CA
* * * *
125478 AAATCGTATACTAACCATCACGGTTTTTGGTTAAAAACGCGTTTCGGAGCCCCGGCTTAATTTTG
1 AAATCGTATACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTG
* * * *
125543 CATGATTTTTGGCACAAAGATTCCTTGATTTACCTATATTCATCGAACTAATTGTTAGCCACATT
66 CATGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATT
* *
125608 GGATATAAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAAATTAATTAGG
131 GGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG
**
125673 AAAAAAAAATGGAAAAACGATGTTAGAAGCGTGAAAAACCCGTCAATCTTTTTGGCATTGAATTA
196 -AAAAAAAATGGAAAAACGATAATAGAAGCGTGAAAAACCCGTCAATCTTTTTGGCATTGAATTA
* * *
125738 TATATTTTTTCTGAGTATTGTGGAAAAAAATTGA-GATAAAACTTTTCGGGTTAGTTTTTAGCCA
260 TATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAAACTTTTCGGGTCAGTTTTTAGCCA
*
125802 AAATCGTATACTAACCATCACAGTTTTTGGCTAAAAACGCGTTGT-AGAGCCCCGACTCAATTTT
1 AAATCGTATACTAACCATCACAGTTTTTGGCTAAAAACGCGTT-TCGGAGCCCCGACTCAATTTT
* * * **
125866 GCATGATTTTTTGCGGAAAGACTCCTTGATTTATCTATATTCATCGAACCAAAAATTAGCCACAT
65 GCATGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACAT
* *
125931 TGGATATAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTT-GATTTAA-TA-AAATTAATTTG
130 TGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG
* * * * * *
125993 GAAGAAGAATGGAAAAATGATAATAGAAGCGTGAAAAACCCGTAAATCTTTTTGACATTAAATTA
195 GAAAAAAAATGGAAAAACGATAATAGAAGCGTGAAAAACCCGTCAATCTTTTTGGCATTGAATTA
* *
126058 TATATTTTTTCTAAGTATCT-TGGCAAAAAATTGA-TAAAAAACCTTTT-GGGTC
260 TATATTTTTTCTGAGTAT-TGTGGCAAAAAATTGAGGAAAAAA-CTTTTCGGGTC
126110 CGGCTCAATT
Statistics
Matches: 818, Mismatches: 123, Indels: 31
0.84 0.13 0.03
Matches are distributed among these distances:
320 95 0.12
321 17 0.02
322 5 0.01
323 359 0.44
324 341 0.42
325 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (324 bp):
AAATCGTATACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTG
CATGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATT
GGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG
AAAAAAAATGGAAAAACGATAATAGAAGCGTGAAAAACCCGTCAATCTTTTTGGCATTGAATTAT
ATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAAACTTTTCGGGTCAGTTTTTAGCCA
Found at i:129079 original size:641 final size:641
Alignment explanation
Indices: 127120--131399 Score: 5782
Period size: 641 Copynumber: 6.7 Consensus size: 641
127110 TAACTCCTTG
* *
127120 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCTATTTAATTATAAATTAATTCGGAC
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG--
* * * ** ** * * **
127185 AAAAAAAAATCGAAAAACGATATTAGAAGTATGAAAATCCCGTCAAACTTTTTGGCATTGAATTA
64 -AAAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTA
* * * * * *
127250 TATATTTTTTCTGAGTATT-TTGACAAAAACTTGA-TAA-AAAAGTTTTCGGGTAAGTTTTTAGC
128 TATATTTTTTCTGAGTGTTGTTG-CAAAAAATTGAGGAATAAAA--ATTCGGGTCAGTTTTTAGT
* * * * *
127312 CAAAATTAGTGTACTAATCATCACAGTTTTTGGATAAAAACGCGTTGCGAAACTCCGACTCAATT
190 CAAAATT-GTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTGCGGAAC-CCGACTCAATT
* *
127377 TTGCATGATATTTT-GCGCAAAGACTCCTTCATTTATCTATATTCATCGAACCAAATGTCAGTCA
253 TTGCATGAT-TTTTGGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTTAGTCA
* * * * *
127441 CATTGGATATAAGGATTTGTTTTTACGAGCCTCTGAATTTTGTTTCAATTTAATTAAAAATTAAA
317 CATTTGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT-AA
* *
127506 TT-G-GAAAAAATCGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGA
381 TTCGAAAAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGA
* *
127569 ATTATATATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTTGGGTAAGTTTTTAG
446 ATTATATATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAG
* *
127634 TTGAAATCGTGTACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGC
511 TCGAAATCGTGTACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGC
* * *
127699 ATGATTTTTGGAGCAAAGACTCCTTGATTTACCTATATTCATGGAACCAAATGTTAGCCACATTG
576 ATGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTT
*
127764 G
641 T
* *
127765 ATATAAGGTTTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCTG-A
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* * *
127829 AAAAA-TGGAAAAACGATATTAGAAACGTGAAAAG-CTCGTCAATCTTTTTGGTGTTGAATTATA
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGAC-CTTCAATCTTTTTGGTGTTGAATTATA
* ** * *
127892 TATTTTTTCTGAGTATT-TTGGCAAAAAATTGATAAAAAAAAACTTTTCGGGTCAGTTTTTAGCC
130 TATTTTTTCTGAGTGTTGTT-GCAAAAAATTGAGGAATAAAAA---TTCGGGTCAGTTTTTAGTC
* * * * * *
127956 AAATTTTTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTGCAGAGCTCCGGCTCAATTTT
191 AAAATTGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTGCGGAAC-CCGACTCAATTTT
* * * * * *
128021 GCATGATTTTTTGCTCAAAGAATCCTTGATTTATCTATATTCATCGAAGCAAATGTCAGTCAGAT
255 GCATGATTTTTGGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTTAGTCACAT
* * * * *
128086 TGGATATAAAGATTTGTTTTTAGGAGCAACTGAATCTTGTTTCGATTTAATTATAAATTAATTCG
320 TTGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG
* * * *
128151 -GAAAAAATTAGAAAAATGATATTCGAAGCGCGAAAAGACCTTCAATCTTTTTGGTGTTGAATTA
385 AAAAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTA
* * * *
128215 TATATTTTTTCTAAGTTTTGCGGCAAAAAATTGAGG-ATAAAAAATCNGGTCAGTTTTTTAG-CG
450 TATATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAG-TTTTTAGTCG
128278 AAAATCGTGTACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCAT
514 -AAATCGTGTACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCAT
*
128343 GATTTTTGGAGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
578 GATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
128407 ATATAAGGATTT-TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-G-A
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
*
128469 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGGGTTGAATTATAT
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
*
128534 ATTTTTTCTGAGTGTTGTTGCAAAAAATTGAGGAATAAAAATTC-GGTCAGTTTTTTAGTCGAAA
131 ATTTTTTCTGAGTGTTGTTGCAAAAAATTGAGGAATAAAAATTCGGGTCAG-TTTTTAGTCAAAA
* * *
128598 TTGTTTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAACCTGACTCAATTTTGCATG
195 TTGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTGCGGAACCCGACTCAATTTTGCATG
* * *
128663 ATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTTAT
260 ATTTTTGGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTTAGTCACATTTGAT
* * *
128728 ATAGGGATTTGTTTTTACGAGTATCTGAATCTTGTTT-GATTTAATTA-AAATTAAGTCGAAAAA
325 ATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAA
*
128791 AAATTGGAAAAATGATATTAGAAGGGTGAAAAGACCTTCAATCTTTTTTGGTGTTGAATTATATA
390 AAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATC-TTTTTGGTGTTGAATTATATA
128856 TTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAATC
454 TTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAATC
* * * *
128921 TTGTAGTAACCATC-CGGTTTTTGGCTAAAAACTCGTTTCGGAGCCCCGACTCAAATTTGCTTGA
519 --GT-GT-ACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCATGA
* * * * * **
128985 TTTTTGGGGCAAAGAGTCCTTCATTTATCTATATTTATCGAACCAAATGTTAGCCACATTGG
580 TTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
*
129047 ATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-A
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* *
129111 AAAAA-TGGAAAAATGACATTAGAAGCGTGAAAAGCCCGTT-AATCTTTTTGGTGTTGAATTATA
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACC-TTCAATCTTTTTGGTGTTGAATTATA
* * * * * *
129174 TA-TTTTTCTGAGTATTGTGGCAAAAACTTGA-G-TTAAAACTTTTCGGGTCAGTTTTTAGACAA
130 TATTTTTTCTGAGTGTTGTTGCAAAAAATTGAGGAATAAAA--ATTCGGGTCAGTTTTTAGTCAA
* *** * *
129236 AATCGTGCGGTAACCATCACGGTTTTTAGCTAAAAACGCGTTGCGGAGCCCCGACTCAATTTTGC
193 AATTGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTGCGGA-ACCCGACTCAATTTTGC
* * ** *
129301 ACGATTTTTTGCGCAAAGACTCCTTGATTTATCTACGTTCATCGAACCAACTGTTAGTCACATTT
257 ATGATTTTTGGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTTAGTCACATTT
*
129366 GATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTGGATTTAATTAGAAATTAATTCGGA
322 GATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-GA
* * * *
129431 AGAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTAGCTGTTAAATTAT
386 AAAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTAT
* *
129496 ATA-TTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATATAAATTCGGGTCAGTTTTTAGCCGAA
451 ATATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAA
* * *
129560 ATCGTGTACTAAAATCACGTTTTTTTTGCTAAAAACGCGTTTTC-GAGCCCCAACTCAATTTTGC
516 ATCGTGTAC---CATCACG-GTTTTTTGCTAAAAACGCG-TTTCGGAGCCCCGACTCAATTTTGC
*
129624 ATGATTTTTGACGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTT
576 ATGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTT
129689 T
641 T
* * * *
129690 ATATAAGGATTTGTTTATACGAGCATCTGATTCTTGTTTCGATTTATTTAGAAATTCATTC-GAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* *
129754 AAAAATTTGGAAAAATGATATTAGAGGCGCGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATA
66 AAAAA-TTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATA
* ** * * *
129819 TA-TTTTTCTTAGTGTTGCGGC-AAAAATTGAGGAATATAAATTGGGGTCAGTTTTTAGTCGAAA
130 TATTTTTTCTGAGTGTTGTTGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCAAAA
* *
129882 TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTC-GAAGCCCCGACTCAATTTTGCA
195 TTGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTGCGGAA--CCCGACTCAATTTTGCA
* * * * *
129946 TGATTTTTGGCGCAAAGACTCCTTGTTTTACCTATATTCAACGAACCAAATGTTAGCCACATTTT
258 TGATTTTTGGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTTAGTCACATTTG
* * * * *
130011 ATATAAGGATTTGTTTTTACCAGAATCTGAATCTTATTTCGATTTAATTAAAAATTAATGCGGAA
323 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-GAA
* * *
130076 AAAAATTTGAAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTTTTGAATTATA
387 AAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATA
* ** * *
130141 T-TTTTTT-TTAGTGTTGTTGCAAAAAATTGAGGAATAAAAATTTGGGGCAGTTTTTAGTCGAAA
452 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
* * * * * *
130204 TCGTGTA-CATCATGGTTTTTTGCTAAAAATGTGTTTCGGAACCCTGACTCAATTTTCCATGATT
517 TCGTGTACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCATGATT
* *
130268 TTTGGCGCAAAGACTCCTTGATTTACCTATATTTATCGAACCAAATTTTAGCCACATTTT
582 TTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
* *
130328 ATATAAGGATTTATTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
*
130393 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAA
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
* * * *
130458 ATTTTTTTCTGAATGTTGTTGCAAGAAGTTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
131 A-TTTTTTCTGAGTGTTGTTGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCAAAA
* ** * * *
130523 TCGTGTACTAACCATCAAAGTTTTTTGCTAAAAACGCGTTTCGGAATCCTGACTGAATTTTGCAT
195 TTGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTGCGGAA-CCCGACTCAATTTTGCAT
* * * * *
130588 GATTTTTGGCGCAAACACTCCTTGATTTACCTATATTTATCGAACCAAATGTTAGCCACATTTTA
259 GATTTTTGGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTTAGTCACATTTGA
* *
130653 TATAAGGATTTGTTGTTATGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
324 TATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-GAAA
* * *
130718 AAAAA-TGGAAAAATGATATTAAAAGAGTGAAAAGACCTTCAATCTTTCTGGTGTTGAATTATAT
388 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
*
130782 ATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAA-AAAAATTCGGGTAAGTTTTTAGTCGAAAT
453 ATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAAT
* *
130846 CGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCATTTCGGAGCCTCGACTCAATTTTGCATG
518 CGTG---T-ACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCATG
* * * *
130911 ATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGGATCAACTGTTAGCCACATTAT
579 ATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
*
130974 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* *
131039 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACTTTCAATGTTTTTGGTGTTGAATTATAT
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
* ** * * * * *
131104 ATTATTTCTGAGTGTTGCGGCAAAAAATTTAGAAAAAAAAAATT-GGGTAAGTTTTTAGCCAAAA
131 ATTTTTTCTGAGTGTTGTTGCAAAAAATTGAG-GAATAAAAATTCGGGTCAGTTTTTAGTCAAAA
* * * * * *
131168 TTATGTACTAATCATCATGGTCTTTAGCTAAAAACGCGTTGC-GAAGCTCCGGCTCAATTTTGCA
195 TTGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTGCGGAA-C-CCGACTCAATTTTGCA
* * * *
131232 TGATTTTTTGCGCAAAGACTCCTTGTTTTATCTATATTCATCGAACCAAATGTCAGTCACATTGG
258 TGATTTTTGGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTTAGTCACATTTG
* * * *
131297 ATATAAGGATTTGTTTTTACGAGCCTCTGAATCTT-TTTCAATTTAATTATAAATTAAATT-G-G
323 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT-AATTCGAA
*
131359 AAAAAATCGGAAAAATGATATTAGAAGCGTGAAAAGACCTT
387 AAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTT
Statistics
Matches: 3235, Mismatches: 335, Indels: 132
0.87 0.09 0.04
Matches are distributed among these distances:
635 10 0.00
636 52 0.02
637 176 0.05
638 286 0.09
639 19 0.01
640 348 0.11
641 645 0.20
642 519 0.16
643 293 0.09
644 336 0.10
645 310 0.10
646 241 0.07
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (641 bp):
ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
ATTTTTTCTGAGTGTTGTTGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCAAAAT
TGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTGCGGAACCCGACTCAATTTTGCATGA
TTTTTGGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTTAGTCACATTTGATA
TAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAA
AATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATATATT
TTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAATCGT
GTACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCATGATTTTTG
GCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
Found at i:130092 original size:322 final size:323
Alignment explanation
Indices: 127120--131399 Score: 5720
Period size: 323 Copynumber: 13.3 Consensus size: 323
127110 TAACTCCTTG
* *
127120 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCTATTTAATTATAAATTAATTCGGAC
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG--
* * * ** ** * * **
127185 AAAAAAAAATCGAAAAACGATATTAGAAGTATGAAAATCCCGTCAAACTTTTTGGCATTGAATTA
64 -AAAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTA
* ** * * * * * *
127250 TATATTTTTTCTGAGTATTTTGACAAAAACTTGA-TAA-AAAAGTTTTCGGGTAAGTTTTTAGCC
128 TATATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAA--ATTCGGGTCAGTTTTTAGTC
* * * * * * * * *
127313 AAAATTAGTGTACTAATCATCACAGTTTTTGGATAAAAACGCGTTGCGAAACTCCGACTCAATTT
191 GAAA-TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTT
* * * *
127378 TGCATGATATTTT-GCGCAAAGACTCCTTCATTTATCTATATTCATCGAACCAAATGTCAGTCAC
255 TGCATGAT-TTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCAC
**
127442 ATTGG
319 ATTTT
* * * *
127447 ATATAAGGATTTGTTTTTACGAGCCTCTGAATTTTGTTTCAATTTAATTAAAAATTAAATT-GG-
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT-AATTCGGA
*
127510 AAAAAATCGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATA
65 AAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATA
* * *
127575 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTTGGGTAAGTTTTTAGTTGAAA
130 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
* *
127640 TCGTG---T-ACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCAT
195 TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTTTGCAT
* * **
127701 GATTTTTGGAGCAAAGACTCCTTGATTTACCTATATTCATGGAACCAAATGTTAGCCACATTGG
260 GATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
* *
127765 ATATAAGGTTTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCTG-A
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* * *
127829 AAAAA-TGGAAAAACGATATTAGAAACGTGAAAAG-CTCGTCAATCTTTTTGGTGTTGAATTATA
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGAC-CTTCAATCTTTTTGGTGTTGAATTATA
* ** ** * *
127892 TATTTTTTCTGAGTATTTTGGCAAAAAATTGATAAAAAAAAACTTTTCGGGTCAGTTTTTAG-CC
130 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAA---TTCGGGTCAGTTTTTAGTCG
** * * * *
127956 AAATTTTTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTGC-AGAGCTCCGGCTCAATTT
192 AAA-TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGA-AGCCCCGACTCAATTT
* * * * * * * *
128020 TGCATGATTTTTTGCTCAAAGAATCCTTGATTTATCTATATTCATCGAAGCAAATGTCAGTCAGA
255 TGCATGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACA
**
128085 TTGG
320 TTTT
* * * *
128089 ATATAAAGATTTGTTTTTAGGAGCAACTGAATCTTGTTTCGATTTAATTATAAATTAATTCGG-A
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* * *
128153 AAAAATTAGAAAAATGATATTCGAAGCGCGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
* * * *
128218 ATTTTTTCTAAGTTTTGCGGCAAAAAATTGAGG-ATAAAAAATCNGGTCAGTTTTTTAG-CGAAA
131 ATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAG-TTTTTAGTCG-AA
*
128281 ATCGTG---T-ACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCA
194 ATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTTTGCA
*
128342 TGATTTTTGGAGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
259 TGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
128407 ATATAAGGATTT-TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-G-A
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
*
128469 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGGGTTGAATTATAT
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
**
128534 ATTTTTTCTGAGTGTTGTTGCAAAAAATTGAGGAATAAAAATTC-GGTCAGTTTTTTAGTCGAAA
131 ATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAG-TTTTTAGTCGAAA
* * *
128598 TTGTTTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGAA--CCTGACTCAATTTTGCA
195 TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTC-GAAGCCCCGACTCAATTTTGCA
128661 TGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
259 TGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
* * * *
128726 ATATAGGGATTTGTTTTTACGAGTATCTGAATCTTGTTT-GATTTAATTA-AAATTAAGTCGAAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
*
128789 AAAAATTGGAAAAATGATATTAGAAGGGTGAAAAGACCTTCAATCTTTTTTGGTGTTGAATTATA
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATC-TTTTTGGTGTTGAATTATA
128854 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
130 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
* * * * * * *
128919 TCTTGTAGTAACCATC-CGGTTTTTGGCTAAAAACTCGTTTCGGAGCCCCGACTCAAATTTGCTT
195 TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTTTGCAT
* * * * * **
128983 GATTTTTGGGGCAAAGAGTCCTTCATTTATCTATATTTATCGAACCAAATGTTAGCCACATTGG
260 GATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
*
129047 ATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-A
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* *
129111 AAAAA-TGGAAAAATGACATTAGAAGCGTGAAAAGCCCGTT-AATCTTTTTGGTGTTGAATTATA
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACC-TTCAATCTTTTTGGTGTTGAATTATA
* * * * * * *
129174 TA-TTTTTCTGAGTATTGTGGCAAAAACTTGA-G-TTAAAACTTTTCGGGTCAGTTTTTAGACAA
130 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAA--ATTCGGGTCAGTTTTTAGTCGA
*** * * *
129236 AATCGTGCGGTAACCATCACGGTTTTTAGCTAAAAACGCGTTGCGGAGCCCCGACTCAATTTTGC
193 AATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTTTGC
* * * ** * *
129301 ACGATTTTTTGCGCAAAGACTCCTTGATTTATCTACGTTCATCGAACCAACTGTTAGTCACATTT
258 ATGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTT
*
129366 G
323 T
*
129367 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTGGATTTAATTAGAAATTAATTCGGAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* * *
129432 GAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTAGCTGTTAAATTATA
66 -AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATA
* *
129497 TA-TTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATATAAATTCGGGTCAGTTTTTAGCCGAAA
130 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
* * *
129561 TCGTGTACTAA-AATCACGTTTTTTTTGCTAAAAACGCGTTTTCG-AGCCCCAACTCAATTTTGC
195 TCGTGTACTAACCATCACG-GTTTTTTGCTAAAAACGCG-TTTCGAAGCCCCGACTCAATTTTGC
*
129624 ATGATTTTTGACGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTT
258 ATGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTT
129689 T
323 T
* * * *
129690 ATATAAGGATTTGTTTATACGAGCATCTGATTCTTGTTTCGATTTATTTAGAAATTCATTC-GAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* *
129754 AAAAATTTGGAAAAATGATATTAGAGGCGCGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATA
66 AAAAA-TTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATA
* * *
129819 TA-TTTTTCTTAGTGTTGCGGC-AAAAATTGAGGAATATAAATTGGGGTCAGTTTTTAGTCGAAA
130 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
129882 TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTTTGCAT
195 TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTTTGCAT
* *
129947 GATTTTTGGCGCAAAGACTCCTTGTTTTACCTATATTCAACGAACCAAATGTTAGCCACATTTT
260 GATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
* * * * *
130011 ATATAAGGATTTGTTTTTACCAGAATCTGAATCTTATTTCGATTTAATTAAAAATTAATGCGGAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* *
130076 AAAAATTTGAAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTTTTGAATTATA
66 AAAAA-TTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATA
* ** * *
130141 T-TTTTTT-TTAGTGTTGTTGCAAAAAATTGAGGAATAAAAATTTGGGGCAGTTTTTAGTCGAAA
130 TATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
* * * * *
130204 TCGTG---T-A-CATCATGGTTTTTTGCTAAAAATGTGTTTCGGAA-CCCTGACTCAATTTTCCA
195 TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTC-GAAGCCCCGACTCAATTTTGCA
* *
130263 TGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTTATCGAACCAAATTTTAGCCACATTTT
259 TGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
* *
130328 ATATAAGGATTTATTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
*
130393 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAA
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
* ** * *
130458 ATTTTTTTCTGAATGTTGTTGCAAGAAGTTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
131 A-TTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
** * * *
130523 TCGTGTACTAACCATCAAAGTTTTTTGCTAAAAACGCGTTTCGGAA-TCCTGACTGAATTTTGCA
195 TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTC-GAAGCCCCGACTCAATTTTGCA
* *
130587 TGATTTTTGGCGCAAACACTCCTTGATTTACCTATATTTATCGAACCAAATGTTAGCCACATTTT
259 TGATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
* *
130652 ATATAAGGATTTGTTGTTATGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* * * *
130717 AAAAAATGGAAAAATGATATTAAAAGAGTGAAAAGACCTTCAATCTTTCTGGTGTTGAATTATAT
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
*
130782 ATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAA-AAAAATTCGGGTAAGTTTTTAGTCGAAAT
131 ATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAAT
* * *
130846 CGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCATTTCGGAGCCTCGACTCAATTTTGCATG
196 CGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTTTGCATG
* * * *
130911 ATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGGATCAACTGTTAGCCACATTAT
261 ATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
*
130974 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAA
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* *
131039 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACTTTCAATGTTTTTGGTGTTGAATTATAT
66 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
* * * * * * *
131104 ATTATTTCTGAGTGTTGCGGCAAAAAATTTAGAAAAAAAAAATT-GGGTAAGTTTTTAGCCAAAA
131 ATTTTTTCTGAGTGTTGCGGCAAAAAATTGAG-GAATAAAAATTCGGGTCAGTTTTTAGTCGAAA
** * * * * * * *
131168 TTATGTACTAATCATCATGGTCTTTAGCTAAAAACGCGTTGCGAAGCTCCGGCTCAATTTTGCAT
195 TCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTTTGCAT
* * * * * **
131233 GATTTTTTGCGCAAAGACTCCTTGTTTTATCTATATTCATCGAACCAAATGTCAGTCACATTGG
260 GATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
* * *
131297 ATATAAGGATTTGTTTTTACGAGCCTCTGAATCTT-TTTCAATTTAATTATAAATTAAATT-GG-
1 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT-AATTCGGA
*
131359 AAAAAATCGGAAAAATGATATTAGAAGCGTGAAAAGACCTT
65 AAAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTT
Statistics
Matches: 3521, Mismatches: 365, Indels: 140
0.87 0.09 0.03
Matches are distributed among these distances:
316 170 0.05
317 326 0.09
318 292 0.08
319 225 0.06
320 326 0.09
321 497 0.14
322 560 0.16
323 563 0.16
324 417 0.12
325 86 0.02
326 1 0.00
327 54 0.02
328 4 0.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (323 bp):
ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
AAAAATTGGAAAAATGATATTAGAAGCGTGAAAAGACCTTCAATCTTTTTGGTGTTGAATTATAT
ATTTTTTCTGAGTGTTGCGGCAAAAAATTGAGGAATAAAAATTCGGGTCAGTTTTTAGTCGAAAT
CGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGAAGCCCCGACTCAATTTTGCATG
ATTTTTGGCGCAAAGACTCCTTGATTTACCTATATTCATCGAACCAAATGTTAGCCACATTTT
Done.