Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013552.1 Corchorus olitorius cultivar O-4 contig13585, 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: 47289
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:2779 original size:36 final size:36
Alignment explanation
Indices: 2732--2801 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
2722 TTCAATAACC
* *
2732 TTACATCTTTTGTGATTTTGGTTATCATATTTCTTA
1 TTACATCTTTTGTAATTTTGATTATCATATTTCTTA
*
2768 TTACATTTTTTGTAATTTTGATTATCATATTTCT
1 TTACATCTTTTGTAATTTTGATTATCATATTTCT
2802 CCAAAATCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.21, C:0.10, G:0.09, T:0.60
Consensus pattern (36 bp):
TTACATCTTTTGTAATTTTGATTATCATATTTCTTA
Found at i:3730 original size:208 final size:203
Alignment explanation
Indices: 3317--3729 Score: 697
Period size: 205 Copynumber: 2.0 Consensus size: 203
3307 GCTTAATAAC
* *
3317 TTTATCAATGGTGAATATTATTAATTTTTTAAGTCTAAGATTACTAATAAAGTTGTAGTGAATAA
1 TTTATCAATGGTGAATATCATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGTGAATAA
* *
3382 GATACAACACATTATTATTATATATAAAACTATACAAAAAAAAGTAGTTGAACATTAGTGGTTGA
66 GATACAACACATTACTATTATATATAAAACTATACAAAAAAAAATAGTTGAACATTAGTGGTTGA
3447 TTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATTATAAAAGATATTAAAGA
131 TTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAA-TATTATAAAAGATATTAAAGA
3512 TCCGATTTA
195 TCCGATTTA
* *
3521 TTTATCAATGGTGAATGTCATTAATTTTTTTAAGTCTAGGATTACTAACAAAGTTGTAGTGAATA
1 TTTATCAATGGTGAATATCATTAA-TTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGTGAATA
*
3586 AGATACAACACATTACTATCATATATATAGAACTATACCAAAAAAAAATAGTTGAACATTAGTGG
65 AGATACAACACATTACTAT--TATATATAAAACTATA-CAAAAAAAAATAGTTGAACATTAGTGG
3651 TTGATTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTC-AAA-ATTATAAAAGATATT-A
127 TTGATTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATATTATAAAAGATATTAA
3713 AGATCCGATTTA
192 AGATCCGATTTA
3725 TTTAT
1 TTTAT
3730 TATTAAGGAA
Statistics
Matches: 198, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
204 40 0.20
205 71 0.36
207 18 0.09
208 69 0.35
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (203 bp):
TTTATCAATGGTGAATATCATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGTGAATAA
GATACAACACATTACTATTATATATAAAACTATACAAAAAAAAATAGTTGAACATTAGTGGTTGA
TTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATATTATAAAAGATATTAAAGAT
CCGATTTA
Found at i:3832 original size:25 final size:24
Alignment explanation
Indices: 3798--3844 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
3788 ACGTTTGCAC
*
3798 AAATATCTAAGAATTTGAATTAAAA
1 AAATACCTAAGAATTT-AATTAAAA
3823 AAATACCTAAGAATTTAATTAA
1 AAATACCTAAGAATTTAATTAA
3845 TGTAAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (24 bp):
AAATACCTAAGAATTTAATTAAAA
Found at i:3889 original size:39 final size:40
Alignment explanation
Indices: 3835--3915 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
3825 ATACCTAAGA
*
3835 ATTTAATTAATGTAAGTATTTCAGTTATTATA-GTATTAC
1 ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC
*
3874 ATTTAATTAATGTAAGTATTTTAGTTATTATATATATTAC
1 ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC
3914 AT
1 AT
3916 AGGAATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.51
Consensus pattern (40 bp):
ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC
Found at i:5893 original size:52 final size:52
Alignment explanation
Indices: 5832--5930 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
5822 GTGTCAAAAC
5832 TTCAATTAGAGATCCGACCCTTTGATTAAAGTGTTAAATAAGATTAACGTAG
1 TTCAATTAGAGATCCGACCCTTTGATTAAAGTGTTAAATAAGATTAACGTAG
*
5884 TTCAATTAGAGATCCGACTCTTTGATTAAAGTGTTAAATAAGATTAA
1 TTCAATTAGAGATCCGACCCTTTGATTAAAGTGTTAAATAAGATTAA
5931 TGTTTTCCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (52 bp):
TTCAATTAGAGATCCGACCCTTTGATTAAAGTGTTAAATAAGATTAACGTAG
Found at i:14975 original size:6 final size:6
Alignment explanation
Indices: 14960--14993 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
14950 TTAAAAAATG
*
14960 GAAAAT GAAAAA GAAAAA GAAAAA GAAAAA GAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAA
14994 TACTACTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:25757 original size:88 final size:88
Alignment explanation
Indices: 25602--25776 Score: 269
Period size: 88 Copynumber: 2.0 Consensus size: 88
25592 AAGTGGGCAG
*
25602 AAAGGAATCCCAGGCCATAAATACAAATGTTTTATCGCACGATGAATAATAGACATCTTATACTC
1 AAAGGAATCCCAGGCCATAAATACAAATGTTTTATCGCACGATGAATAATAGACATCTCATACTC
*
25667 CTACCCTTGTTTTTGCATAATAC
66 CTACCCCTGTTTTTGCATAATAC
* * * * * *
25690 AAAGGAATTCCAGGCCTTAAATACAAATGTTTTATCTCACGATGAATGATAGACCTCTCATATTC
1 AAAGGAATCCCAGGCCATAAATACAAATGTTTTATCGCACGATGAATAATAGACATCTCATACTC
*
25755 CTACCCCTGTTTTTGGATAATA
66 CTACCCCTGTTTTTGCATAATA
25777 TCATATGGCT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (88 bp):
AAAGGAATCCCAGGCCATAAATACAAATGTTTTATCGCACGATGAATAATAGACATCTCATACTC
CTACCCCTGTTTTTGCATAATAC
Found at i:30987 original size:121 final size:127
Alignment explanation
Indices: 30746--30995 Score: 377
Period size: 121 Copynumber: 2.0 Consensus size: 127
30736 TAAGAAATAA
* *
30746 ATTTAAAAAATTCTTATATATATAGGTTTTTTAATTAAAATATTAAAATGGTAAAAATAAAATAG
1 ATTTAAAAAATTCTTATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAAT---ATA-
*
30811 CTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAATAAAACTGTAAAAGTA
62 CTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAATAAAACTATAAAAGTA
30876 T
127 T
30877 ATTTAAAAAATTC-TA-ATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAAT-TA-TA-
1 ATTTAAAAAATTCTTATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATATACTAT
* *
30937 AA-GATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTGAAACTATAAAAGT
66 AAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAATAAAACTATAAAAGT
30996 TTAAACAATG
Statistics
Matches: 114, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
121 54 0.47
122 2 0.02
123 2 0.02
125 2 0.02
129 39 0.34
130 2 0.02
131 13 0.11
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (127 bp):
ATTTAAAAAATTCTTATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATATACTAT
AAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAATAAAACTATAAAAGTAT
Found at i:35295 original size:19 final size:19
Alignment explanation
Indices: 35273--35311 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
35263 AATAATTACC
35273 ATATATA-T-ATATAAAAT
1 ATATATAGTAATATAAAAT
*
35290 ATATATAGTAATATAAATT
1 ATATATAGTAATATAAAAT
35309 ATA
1 ATA
35312 ATTTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATATATAGTAATATAAAAT
Found at i:35372 original size:14 final size:14
Alignment explanation
Indices: 35353--35387 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
35343 TGAGGCTTCA
35353 AAGCCCAAGAAGCG
1 AAGCCCAAGAAGCG
*
35367 AAGCCCAAGAAGTG
1 AAGCCCAAGAAGCG
35381 AAGCCCA
1 AAGCCCA
35388 CGGCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.29, G:0.26, T:0.03
Consensus pattern (14 bp):
AAGCCCAAGAAGCG
Found at i:40681 original size:68 final size:69
Alignment explanation
Indices: 40587--40824 Score: 311
Period size: 68 Copynumber: 3.6 Consensus size: 69
40577 ATTTAGTAAA
* *
40587 GGTCATTTGCATCATGTAG-TGCATATTGAGTAGGGTCATCTTG-ATAATGTAGTTGCATATTCA
1 GGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGTCATCTTGCATAATGTAGTTGCATATTCA
40650 GTAG
66 GTAG
*
40654 GGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGTCATC-TGCATCATGTAGTTGCATATTCA
1 GGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGTCATCTTGCATAATGTAGTTGCATATTCA
40718 GTAG
66 GTAG
*
40722 GGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGTCATC-TGCATCATG-A-TCTGC--A-TC
1 GGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGTCATCTTGCATAATGTAGT-TGCATATTC
40781 ATGTAG
65 A-GTAG
* *
40787 GGTCA--T-AATCATATAGTTGCATATTCAGTAGGGCTCAT
1 GGTCATCTGCATCATGTAGTTGCATATTCAGTAGGG-TCAT
40825 ATAGTTGCAT
Statistics
Matches: 161, Mismatches: 5, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
62 25 0.16
63 5 0.03
64 3 0.02
65 10 0.06
66 1 0.01
67 24 0.15
68 93 0.58
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (69 bp):
GGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGTCATCTTGCATAATGTAGTTGCATATTCA
GTAG
Found at i:40721 original size:102 final size:101
Alignment explanation
Indices: 40563--41839 Score: 395
Period size: 87 Copynumber: 14.5 Consensus size: 101
40553 TTTCCAGGGG
* * * * *
40563 TCATGTAGCTGTATATTTAGTAAAGGTCATTTGCATCATGTAG-TGCATATTGAGTAGGGTCATC
1 TCATGTAGTTGCATATTCAGT-AGGGTCA-TTGCATCATGTAGTTGCATATTCAGTAGGGTCATC
40627 TTG-ATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
64 -TGCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
40665 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGTCATCT
1 TCATGTAGTTGCATATTCAGTAGGGTCAT-TGCATCATGTAGTTGCATATTCAGTAGGGTCATCT
*
40730 GCATCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
65 GCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* *
40767 TCATG-A-TCTGC--A-TCATGTAGGGTCA-T-AATCATATAGTTGCATATTCAGTAGGG----C
1 TCATGTAGT-TGCATATTCA-GTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCATC
40821 T-CAT-A--TAGTTGCATATTCAGTAGGG----CT-CA
64 TGCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
*
40850 T-A--TAGTTGCATATTCAGTAGGG-C--T-CAT-A--TAGTTGCATATTCAGTAGGG---GC--
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCATCTG
40900 CAT--T-TAGTTGCATATTCAGTAGGG----CT-CA
66 CATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
*
40928 T-A--TAGTTGCATATTCAGTAGGG-----GC--CATATAGTTGCATATTCAGTAGGG-----T-
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCATCTG
*
40977 CAT-A--TAGTTGCATATTCAGTAGGGTCA--T-AA
66 CATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * * * *
41007 TCATATAGTTGCATATTCTGTA-GGTC----CAT-A--TAGTTGCATATTCAATAGGGGCCATAA
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTA-GGGTCAT-C
*
41064 T-CAT-A--TAGTTACATATTCAGTAGGG------GC-
64 TGCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * * * * * *
41091 -CATATAGTTGCATATTCAGTAGGGGCCA-T-AATCATATAGTTACATATTTAGTAGGG---GC-
1 TCATGTAGTTGCATATTCAGTA-GGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCATCT
41149 -CAT-A--TAGTTGCATATTCAGTAGGG------G--
65 GCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * * *
41174 TCATATAGTTGCATATTCAGTATGGTCA-T-AATCATATAGTTGCATATTCAGTAAGGG-----T
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGT-AGGGTCATCT
*
41232 -CAT-A--TAGTTGCATATTCAGTAGGGTC--CT-AA
65 GCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * * * *
41262 TCATATAGTTGCATATTCAGTAGGGTCA-T-AATCATATAGTTGCATATTCAGTAGGGCCATAAT
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCAT-CT
* *
41325 -CAT-A--TAGTTGCATATTCAGTAGGGCCA--T-AA
65 GCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * * * *
41355 TCATATAGTTGCATATTCAGTAAGGCCA-T-AATCATATAGTTGCATATTCAGTAGGG-CA----
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCATCTG
41413 -AT-A--TAGTTGCATATTCAGTAGGG--A-C--CA
66 CATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * *
41440 T-A--TAGTTGCATATTCAGTAGGGTCA-T-AATCATATAGTTGCATATTCAGTAGGGTCATAAT
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCAT-CT
* * *
41500 -CAT-A--TAGTTGCATATTCAGTAAGGCCA--T-AA
65 GCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * * * *
41530 TCATATAATTGCATATTCAGTA-GG--A---C--CATATAGTTGCATATTCAGTAAGGTTATACT
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCAT-CT
41587 -CAT-A--TAGTTGCATATTCAGTAGGG----C--CA
65 GCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * * * *
41614 T-A--TAGTTGCATATTCAGTAGAGTCA-T-AATCATATAGTTGCATATTCAGTAGGGCCATAAT
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCAT-CT
* *
41674 -CAT-A--TAGTTGCATATTCAGTAGGGCCA--T-AA
65 GCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * * *
41704 TCATATAGTTGCATATTCAGTA-GG--A---C--CATATAGTTGCATATTCAGTAAGGTCATAAT
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCAT-CT
*
41761 -CAT-A--TAGTTGCATATTCAGTAGGGTC--CT-AA
65 GCATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * *
41791 TCATATAGTTGCATATTCAGTAGGGTCA-T-AATCATATAGTTGCATATTC
1 TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTC
41840 GGTTAGTTTT
Statistics
Matches: 1025, Mismatches: 57, Indels: 195
0.80 0.04 0.15
Matches are distributed among these distances:
76 1 0.00
77 24 0.02
78 89 0.09
79 4 0.00
80 2 0.00
81 41 0.04
82 73 0.07
83 84 0.08
84 58 0.06
85 6 0.01
87 210 0.20
88 120 0.12
89 3 0.00
90 23 0.02
91 5 0.00
92 7 0.01
93 133 0.13
96 25 0.02
97 1 0.00
98 3 0.00
99 10 0.01
100 2 0.00
101 24 0.02
102 77 0.08
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (101 bp):
TCATGTAGTTGCATATTCAGTAGGGTCATTGCATCATGTAGTTGCATATTCAGTAGGGTCATCTG
CATAATGTAGTTGCATATTCAGTAGGGTCATCTGCA
Found at i:40818 original size:31 final size:31
Alignment explanation
Indices: 40636--41839 Score: 1216
Period size: 31 Copynumber: 41.4 Consensus size: 31
40626 CTTGATAATG
* *
40636 TAGTTGCATATTCAGTAGGGTCATCTGCATCATG
1 TAGTTGCATATTCAGTAGGGTCA--T-AATCATA
* *
40670 TAGTTGCATATTCAGTAGGGTCATCTGCATCATG
1 TAGTTGCATATTCAGTAGGGTCA--T-AATCATA
* *
40704 TAGTTGCATATTCAGTAGGGTCATCTGCATCATG
1 TAGTTGCATATTCAGTAGGGTCA--T-AATCATA
*
40738 TAGTTGCATATTCAGTAGGGTCAT-CTGCATCA
1 TAGTTGCATATTCAGTAGGGTCATAAT-CAT-A
40770 T-GATCTGC--A-TCATGTAGGGTCATAATCATA
1 TAG-T-TGCATATTCA-GTAGGGTCATAATCATA
40800 TAGTTGCATATTCAGTAGGG-C----TCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
40826 TAGTTGCATATTCAGTAGGG-C----TCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
40852 TAGTTGCATATTCAGTAGGG-C----TCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
* *
40878 TAGTTGCATATTCAGTAGGGGC-----CATT
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
40904 TAGTTGCATATTCAGTAGGG-C----TCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
40930 TAGTTGCATATTCAGTAGGGGC-----CATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
40956 TAGTTGCATATTCAGTAGGG------TCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
40981 TAGTTGCATATTCAGTAGGGTCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41012 TAGTTGCATATTCTGTA-GGTC-----CATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
* *
41037 TAGTTGCATATTCAATAGGGGCCATAATCATA
1 TAGTTGCATATTCAGTA-GGGTCATAATCATA
* *
41069 TAGTTACATATTCAGTAGGGGC-----CATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41095 TAGTTGCATATTCAGTAGGGGCCATAATCATA
1 TAGTTGCATATTCAGTA-GGGTCATAATCATA
* * *
41127 TAGTTACATATTTAGTAGGGGC-----CATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41153 TAGTTGCATATTCAGTAGGG-----GTCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41179 TAGTTGCATATTCAGTATGGTCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
41210 TAGTTGCATATTCAGTAAGGG------TCATA
1 TAGTTGCATATTCAGT-AGGGTCATAATCATA
*
41236 TAGTTGCATATTCAGTAGGGTCCTAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
41267 TAGTTGCATATTCAGTAGGGTCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41298 TAGTTGCATATTCAGTAGGGCCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41329 TAGTTGCATATTCAGTAGGGCCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
* *
41360 TAGTTGCATATTCAGTAAGGCCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
41391 TAGTTGCATATTCAGTAGGG-C---A--ATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41416 TAGTTGCATATTCAGTAGGG-----ACCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
41442 TAGTTGCATATTCAGTAGGGTCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
41473 TAGTTGCATATTCAGTAGGGTCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
* *
41504 TAGTTGCATATTCAGTAAGGCCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
* *
41535 TAATTGCATATTCAGTA-GG-----ACCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
* * *
41560 TAGTTGCATATTCAGTAAGGTTATACTCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
41591 TAGTTGCATATTCAGTAGGG-C-----CATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41616 TAGTTGCATATTCAGTAGAGTCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41647 TAGTTGCATATTCAGTAGGGCCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41678 TAGTTGCATATTCAGTAGGGCCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41709 TAGTTGCATATTCAGTA-GG-----ACCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41734 TAGTTGCATATTCAGTAAGGTCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
*
41765 TAGTTGCATATTCAGTAGGGTCCTAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
41796 TAGTTGCATATTCAGTAGGGTCATAATCATA
1 TAGTTGCATATTCAGTAGGGTCATAATCATA
41827 TAGTTGCATATTC
1 TAGTTGCATATTC
41840 GGTTAGTTTT
Statistics
Matches: 1054, Mismatches: 44, Indels: 147
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.00
25 137 0.13
26 261 0.25
27 10 0.01
29 3 0.00
30 17 0.02
31 483 0.46
32 48 0.05
33 3 0.00
34 91 0.09
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (31 bp):
TAGTTGCATATTCAGTAGGGTCATAATCATA
Found at i:43182 original size:644 final size:640
Alignment explanation
Indices: 41844--44020 Score: 2463
Period size: 644 Copynumber: 3.4 Consensus size: 640
41834 ATATTCGGTT
* ** * * *
41844 AGTTTTTAGCCGAAATCGTAAACTAACTATCTCGGTTTTTGGCTAAAAACACGTTTCGTGGCCCC
1 AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGTGGCCCC
* * *
41909 TGCTCAGTTTTGCATAATTTTTGGTACAA-AGCTTCCTTTAACTATCTACATTCATTGAACCAAA
66 GGCTCAGTTTTGCATGATTTTTGG-A-AAGA-C-TCCTTTAAATATCTACATTCATTGAACCAAA
* * *
41973 TCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAAG-ATATGAATCTTGATTCGATAAATTT
127 TCTCAGTCAAATTGGATTTAAGAATTTGTTTTTACG-AGCATATAAATCTTGTTTCGATAAATTT
* * * *
42037 AAAAGTAAATTCGGAAAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAA--CATCAAAGTTTT
191 AGAAGTAAATTCGG--GAAAAAATGGAAAAACGATATTAGAAGCGTGAAAACGCTTC-AATTTTT
*
42099 TTTTTCCATTGATTTATATATTTTTCCT-TAGTATTGTGGCAAAAAATTGAGAAATAAAAATTTT
253 TTTTTCCGTTGATTTATATATTTTTCCTAT-GTATTGTGGCAAAAAATTGAGAAA-AAAAATTTT
* * *
42163 T-GGTCAGTTTTTAGCCAAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAACGGGTTTCGG
316 TGGGTCAGTTTTTAGTCGAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAA-TGGTTTCGG
* * * *
42227 GGCTCAGGCTCAGTTTGGCATGATTTTTGGCAGAAAGGCTCCTTTAACTATCTACATTCATTGAA
380 GGCTCAGGCTCAGTTTTGCATGATTTTTGG-AGAAAGACTCCTTGAAATATCTACATTCATTGAA
42292 CCAAATCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAA
444 CCAAATCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAA
*
42357 ATTTAGAAGTAAATTCGGAGAAAAAAAAT-GATAAAACGATATTAGAAGCATGAAAGACCCTTCA
509 ATTTAGAAGTAAATTC-G-G-AAAAAAATGGA-AAAACGATATTAGAAGCGTGAAAGACCCTTCA
* *
42421 ATTTTTTTTTCCATTGATTTATATATTTTTCCTGAGTATTGTGGCAAAAATTGAGAAAAAAAATT
570 ATTTTTTTTTCCGTTGATTTATATATTTTTTCTGAGTATTGTGGCAAAAATTGAGAAAAAAAATT
*
42486 TGGGTT
635 TGGGTC
* *
42492 AGTTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTT-GCTAAAAACGCGTTTCGTGGCCCC
1 AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGTGGCCCC
*
42556 GGCTCAGTTTTGCATGATTTTT-GAAAGCCTCCTTTAAATATCTACATTCATTGAACCAAATCTC
66 GGCTCAGTTTTGCATGATTTTTGGAAAGACTCCTTTAAATATCTACATTCATTGAACCAAATCTC
* * * * *
42620 AGTCAAATTGGATTTAAGAATCTGTTTTGACGAGGATATGAATGTTGTTTCGATAAATTTAGAAG
131 AGTCAAATTGGATTTAAGAATTTGTTTTTACGAGCATATAAATCTTGTTTCGATAAATTTAGAAG
42685 TAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGACGCTTCAATTTTTTTTTTCC
196 TAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAA-ACGCTTCAATTTTTTTTTTCC
42750 GTTGATTTATATATTTTTCCTATGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGGGTCAGT
260 GTTGATTTATATATTTTTCCTATGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGGGTCAGT
* *
42815 TTTTAGTCGAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAATGCGTTTCGGGGCTCTGAC
325 TTTTAGTCGAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAATG-GTTTCGGGGCTCAGGC
* * * *
42880 TCAATTTTACATGATTTTTGGTAGAAAGACTCCATGAAATATCTACATTCATTGTACCAAATCTC
389 TCAGTTTTGCATGATTTTTGG-AGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAATCTC
42945 AGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAGAAG
453 AGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAGAAG
43010 TAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGACCCTTCAATTTTTTTTTCCG
518 TAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGACCCTTCAATTTTTTTTTCCG
* * *
43075 TTGATTTATATATTTTTTCTGAGCATTTTGGCAAGAAATTGAGAAAAAAATTTTTGGGTC
583 TTGATTTATATATTTTTTCTGAGTATTGTGGCAA-AAATTGAGAAAAAAA-ATTTGGGTC
* * * * *
43135 AGTTTTTAATCGAAATCGTGTACTAATCATCATGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCT
1 AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGTGGCCCC
* * *
43200 GGCTCAATTTTGCATGATTTTTGGTAGAAAGACTCCATGAAATATCTACATTCATTGAACCAAAT
66 GGCTCAGTTTTGCATGATTTTT-G--GAAAGACTCCTTTAAATATCTACATTCATTGAACCAAAT
* * * * * *
43265 CTCAGCCAAATTGGATTTAAGGATTTATTTTTACGAGCATCTAAATCTTGTTACGATAAAATTAG
128 CTCAGTCAAATTGGATTTAAGAATTTGTTTTTACGAGCATATAAATCTTGTTTCGATAAATTTAG
* * * **
43330 AAATAAATTCGGGGAAAAAAAAACGAAGGAAAAATGATATTAGAAGTATGAAAATCTGC-TCAA-
193 AAGTAAATTC-GGG----AAAAA--ATGGAAAAACGATATTAGAAGCGTGAAAA-C-GCTTCAAT
* ** * * * *
43393 -TGTTTTTGGCGTTGAATTATATATTTTTTCTGA-GTATTGTGGC-AAAAATTCAGGAAAAAAAT
249 TTTTTTTTTCCGTTGATTTATATATTTTTCCT-ATGTATTGTGGCAAAAAATTGAGAAAAAAAAT
* * ** *
43455 TTTCGGCTTTGTTTTTAGTCGAAATCGTGTAC-AT-CA-CA----ATTT---T-----T-G----
313 TTTTGGGTCAGTTTTTAGTCGAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAATGGTTTC
* * * * *
43500 GGGGC-CCGGTTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTTATCT
378 GGGGCTCAGGCTCAGTTTTGCATGATTTTTGGAG-AAAGACTCCTTGAAATATCTACATTCAT-T
* * * * * **
43564 -AATCAAATCTCTAG-CATATTGAATATAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTTT
441 GAACCAAATCTC-AGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
* * * * * *
43627 ATTTAA-TTAGAAATTAATTTGGAAAAAAATGGAAAAATGATATTAGAAACGTGAAA-AGCCGC-
505 A-TAAATTTAGAAGTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGA-CC-CT
* ** * * * * *
43689 TC-ATTCTTTTTGGCGTTAATTTATATAATTATTCTGCGTATTGTGGCAAAAAATTTAGAAAAAA
567 TCAATTTTTTTTTCCGTTGATTTATATATTTTTTCTGAGTATTGTGGC-AAAAA-TT-GAGAAAA
43753 AAAATTT-GGTC
629 AAAATTTGGGTC
* * * *
43764 AGTTTTTAGTCGAAATCTTGTACTAACCATCACGATTTTTGGGCTAAAAACGCTTTTCG-GTGCT
1 AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCGTTTCGTG-GCC
* * *
43828 CCGGCTCAGCTTTGCATGATTTTTGGCAGAAAGACT-ATTTGAAATATCTATATTCATCT-AACC
64 CCGGCTCAGTTTTGCATGATTTTT-G--GAAAGACTCCTTT-AAATATCTACATTCAT-TGAACC
* * * * * * * *
43891 AAATCTCAGACACATTGGATTTAAGAATTTTTTTTTACGTGCATTTAAAACTTGTTTCAATTTAA
124 AAATCTCAGTCAAATTGGATTTAAGAATTTGTTTTTACGAGCATATAAATCTTGTTTCGA-TAAA
* **
43956 -TTAGAATTAAATTC-GG-AAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTTTTCAATTTT
188 TTTAGAAGTAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAACGCTTCAATTTT
44018 TTT
252 TTT
44021 GGCGTTAAAT
Statistics
Matches: 1337, Mismatches: 147, Indels: 115
0.84 0.09 0.07
Matches are distributed among these distances:
621 26 0.02
622 4 0.00
623 8 0.01
628 2 0.00
629 82 0.06
630 289 0.22
631 25 0.02
635 1 0.00
637 1 0.00
641 112 0.08
642 23 0.02
643 154 0.12
644 296 0.22
645 8 0.01
646 1 0.00
647 43 0.03
648 134 0.10
649 5 0.00
650 2 0.00
651 2 0.00
652 45 0.03
653 41 0.03
654 2 0.00
655 29 0.02
656 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (640 bp):
AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGTGGCCCC
GGCTCAGTTTTGCATGATTTTTGGAAAGACTCCTTTAAATATCTACATTCATTGAACCAAATCTC
AGTCAAATTGGATTTAAGAATTTGTTTTTACGAGCATATAAATCTTGTTTCGATAAATTTAGAAG
TAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAACGCTTCAATTTTTTTTTTCCG
TTGATTTATATATTTTTCCTATGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGGGTCAGTT
TTTAGTCGAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAATGGTTTCGGGGCTCAGGCTC
AGTTTTGCATGATTTTTGGAGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAATCTCAGT
CAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAGAAGTAA
ATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGACCCTTCAATTTTTTTTTCCGTTG
ATTTATATATTTTTTCTGAGTATTGTGGCAAAAATTGAGAAAAAAAATTTGGGTC
Found at i:43252 original size:323 final size:322
Alignment explanation
Indices: 41844--44056 Score: 2412
Period size: 323 Copynumber: 6.9 Consensus size: 322
41834 ATATTCGGTT
* ** * * * *
41844 AGTTTTTAGCCGAAATCGTAAACTAACTATCTCGGTTTTTGGCTAAAAACACGTTTCGTGGCCCC
1 AGTTTTTAGTCGAAATCGTGTACTATC-ATCACGGTTTTTGGCTAAAAACGCGTTTCG-GGGCCC
* * * *
41909 T-GCTCAGTTTTGCATAATTTTTGGTACAAAG-CTTCCTTTAACTATCTACATTCATTGAACCAA
64 TGGCTCAGTTTTGCATGATTTTTGGTAGAAAGAC-TCCTTGAAATATCTACATTCATTGAACCAA
* *
41972 ATCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAAG-ATATGAATCTTGATTCGATAAATT
128 ATCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACG-AGCATCTGAATCTTGTTTCGATAAATT
* *
42036 TAAAAGTAAATTCGGAAAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAA--CATCAAAGTTT
192 TAGAAGTAAATTCGG--AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAACCCTTC-AA-TTT
* * *
42098 TTTTTTCCATTGATTTATATATTTTTCCTTAGTATTGTGGCAAAAAATTGAGAAATAAAAATTTT
253 TTTTTTCCGTTGATTTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAA-AAAAATTTT
42163 T-GGTC
317 TGGGTC
* * * * *
42168 AGTTTTTAGCCAAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAACGGGTTTCGGGGCTCA
1 AGTTTTTAGTCGAAATCGTGTACTAT-CATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCT
* * * * *
42233 GGCTCAGTTTGGCATGATTTTTGGCAGAAAGGCTCCTTTAACTATCTACATTCATTGAACCAAAT
65 GGCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAAT
42298 CTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAG
130 CTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAG
*
42363 AAGTAAATTCGGAGAAAAAAAAT-GATAAAACGATATTAGAAGCATGAAAGACCCTTCAATTTTT
195 AAGTAAATTC-G-G-AAAAAAATGGA-AAAACGATATTAGAAGCGTGAAA-ACCCTTCAATTTTT
* *
42427 TTTTCCATTGATTTATATATTTTTCCTGAGTATTGTGGC-AAAAATTGAGAAAAAAAA--TTTGG
255 TTTTCCGTTGATTTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGG
*
42489 GTT
320 GTC
* * * * *
42492 AGTTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTT-GCTAAAAACGCGTTTCGTGGCCCC
1 AGTTTTTAGTCGAAATCGTGTACT-ATCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCT
* *
42556 GGCTCAGTTTTGCATGA-TTTT--T-GAAAGCCTCCTTTAAATATCTACATTCATTGAACCAAAT
65 GGCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAAT
* * * * * *
42617 CTCAGTCAAATTGGATTTAAGAATCTGTTTTGACGAGGATATGAATGTTGTTTCGATAAATTTAG
130 CTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAG
* *
42682 AAGTAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGACGCTTCAATTTTTTTTT
195 AAGTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAA-ACCCTTCAA-TTTTTTTT
*
42747 TCCGTTGATTTATATATTTTTCCT-ATGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGGGT
258 TCCGTTGATTTATATATTTTTTCTGA-GTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGGGT
42811 C
322 C
* *
42812 AGTTTTTAGTCGAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAATGCGTTTCGGGGCTCT
1 AGTTTTTAGTCGAAATCGTGTACTAT-CATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCT
* * * * *
42877 GACTCAATTTTACATGATTTTTGGTAGAAAGACTCCATGAAATATCTACATTCATTGTACCAAAT
65 GGCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAAT
42942 CTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAG
130 CTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAG
43007 AAGTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGACCCTTCAATTTTTTTTT
195 AAGTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAA-ACCCTTCAATTTTTTTTT
* * *
43072 CCGTTGATTTATATATTTTTTCTGAGCATTTTGGCAAGAAATTGAG-AAAAAAATTTTTGGGTC
259 CCGTTGATTTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGGGTC
* *
43135 AGTTTTTAATCGAAATCGTGTACTAATCATCATGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCT
1 AGTTTTTAGTCGAAATCGTGTACT-ATCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCT
* *
43200 GGCTCAATTTTGCATGATTTTTGGTAGAAAGACTCCATGAAATATCTACATTCATTGAACCAAAT
65 GGCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAAT
* * * * *
43265 CTCAGCCAAATTGGATTTAAGGATTTATTTTTACGAGCATCTAAATCTTGTTACGATAAAATTAG
130 CTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAG
* * * ** *
43330 AAATAAATTCGGGGAAAAAAAAACGAAGGAAAAATGATATTAGAAGTATGAAAA-TCTGCTCAA-
195 AAGTAAATTC--GG---AAAAAA--ATGGAAAAACGATATTAGAAGCGTGAAAACCCT--TCAAT
* ** * * *
43393 TGTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAATTCAGGAAAAAAATTT
251 TTTTTTTTCCGTTGATTTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTT
* * *
43457 TCGGCTT
316 TTGGGTC
* *
43464 TGTTTTTAGTCGAAATCGTGTAC-ATCA-CA---ATTTT---T--------G----GGGGCCC-G
1 AGTTTTTAGTCGAAATCGTGTACTATCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCTG
* * * * *
43508 GTTCAGTTTTGCATGATTTTTGG-CGTAAAGACTCCTTGAAATATCTATATTTATCT-AATCAAA
66 GCTCAGTTTTGCATGATTTTTGGTAG-AAAGACTCCTTGAAATATCTACATTCAT-TGAACCAAA
* * * * ** *
43571 TCTCTAG-CATATTGAATATAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTTTATTTAA-T
129 TCTC-AGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA-TAAATT
* * * * * *
43634 TAGAAATTAATTTGGAAAAAAATGGAAAAATGATATTAGAAACGTGAAAAGCCGC-TC-ATTCTT
192 TAGAAGTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAA-CC-CTTCAATTTTT
** * * * * * **
43697 TTTGGCGTTAATTTATATAATTATTCTGCGTATTGTGGCAAAAAATTTAGAAAAAAAAAATTT-G
255 TTTTCCGTTGATTTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGG
43761 GTC
320 GTC
* * * * *
43764 AGTTTTTAGTCGAAATCTTGTACTAACCATCACGATTTTTGGGCTAAAAACGCTTTTCGGTGCTC
1 AGTTTTTAGTCGAAATCGTGTACT-ATCATCACGGTTTTT-GGCTAAAAACGCGTTTCGGGGC-C
* * ** *
43829 C-GGCTCAGCTTTGCATGATTTTTGGCAGAAAGACTATTTGAAATATCTATATTCATCT-AACCA
63 CTGGCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCAT-TGAACCA
* * * * * * * * * *
43892 AATCTCAGACACATTGGATTTAAGAATTTTTTTTTACGTGCATTTAAAACTTGTTTCAATTTAA-
127 AATCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA-TAAAT
* **
43956 TTAGAATTAAATTCGG--AAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTTTTCAA-TTTT
191 TTAGAAGTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAACCCTTCAATTTTT
** * *
44018 TTTGGCGTTAAATTATATATTTTTTCTGAGTATTGTGGC
255 TTTTCCGTTGATTTATATATTTTTTCTGAGTATTGTGGC
44057 GTTGAAATCG
Statistics
Matches: 1642, Mismatches: 173, Indels: 151
0.84 0.09 0.08
Matches are distributed among these distances:
299 1 0.00
300 87 0.05
301 18 0.01
302 9 0.01
303 3 0.00
305 2 0.00
306 5 0.00
307 110 0.07
308 13 0.01
310 1 0.00
312 1 0.00
316 39 0.02
317 44 0.03
318 19 0.01
319 107 0.07
320 43 0.03
321 102 0.06
322 19 0.01
323 374 0.23
324 269 0.16
325 188 0.11
326 18 0.01
327 48 0.03
328 18 0.01
329 76 0.05
330 28 0.02
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (322 bp):
AGTTTTTAGTCGAAATCGTGTACTATCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCTG
GCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAATC
TCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAGA
AGTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAACCCTTCAATTTTTTTTTCC
GTTGATTTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGGGTC
Found at i:43663 original size:630 final size:628
Alignment explanation
Indices: 41844--44056 Score: 2309
Period size: 630 Copynumber: 3.5 Consensus size: 628
41834 ATATTCGGTT
* ** * * * *
41844 AGTTTTTAGCCGAAATCGTAAACTAACTATCTCGGTTTTTGGCTAAAAACACGTTTCGTGGCCCC
1 AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCG-GGGCCC
* * * * *
41909 TGCTCAGTTTTGCATAATTTTTGGTACAAAG-CTTCCTTTAACTATCTACATTCATTGAACCAAA
65 GGCTCAGTTTTGCATGATTTTTGGTAGAAAGAC-TCCTTGAAATATCTACATTCATTGAACCAAA
* * * * * *
41973 TCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAAG-ATATGAATCTTGATTCGATAAATTT
129 TCTCAGACAAATTGGATTTAAGAATTTATTTTTACG-AGCATATAAATCTTGTTTCGATAAAATT
* *
42037 A-AAAGTAAATTCGGAAAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAACAT-C-AAAGTTT
193 AGAAA-TAAATTCGG--GAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAC-TGCTCAA--TT
** * * * * *
42098 TTTTTTCCATTGATTTATATATTTTTCCTTAGTATTGTGGCAAAAAATTGAGAAATAAAAATTTT
252 TTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAA-AAAAATTTT
* * * * *
42163 TGG-TCAGTTTTTAGCCAAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAACGGGTTTCGG
316 CGGCTCAGTTTTTAGTCGAAATCGTGTACTATCCATCA--G-ATTT-G-T---ATC--G--T-GG
* * * * * *
42227 GGCTCAGGCTCAGTTTGGCATGATTTTTGGCAGAAAGGCTCCTTTAACTATCTACATTCATTGAA
368 GGCTCCGACTCAGTTTTGCATGATTTTTGGC-GAAAGACTCCTTGAAATATCTACATTCATTGAA
42292 CCAAATCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAA
432 CCAAATCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAA
*
42357 ATTTAGAAGTAAATTCGGAGAAAAAAAAT-GATAAAACGATATTAGAAGCATGAAAGACCCTTCA
497 ATTTAGAAGTAAATTC-G-G-AAAAAAATGGA-AAAACGATATTAGAAGCGTGAAAGACCCTTCA
* *
42421 ATTTTTTTTTCCATTGATTTATATATTTTTCCTGAGTATTGTGGCAAAAATTGAGAAAAAAAATT
558 ATTTTTTTTTCCGTTGATTTATATATTTTTTCTGAGTATTGTGGCAAAAATTGAGAAAAAAAATT
*
42486 TGGGTT
623 TGGGTC
* * *
42492 AGTTTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTT-GCTAAAAACGCGTTTCGTGGCCCC
1 AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCG-GGGCCC
* *
42556 GGCTCAGTTTTGCATGA-TTTT--T-GAAAGCCTCCTTTAAATATCTACATTCATTGAACCAAAT
65 GGCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAAT
* * * * * * * *
42617 CTCAGTCAAATTGGATTTAAGAATCTGTTTTGACGAGGATATGAATGTTGTTTCGATAAATTTAG
130 CTCAGACAAATTGGATTTAAGAATTTATTTTTACGAGCATATAAATCTTGTTTCGATAAAATTAG
*
42682 AAGTAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGAC-GCTTCAATTTTTTTT
195 AAATAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAA-ACTGC-TCAA--TTTTTT
** * * * * *
42746 TTCCGTTGATTTATATATTTTTCCT-ATGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTTGGG
256 TGGCGTTGAATTATATATTTTTTCTGA-GTATTGTGGCAAAAAATTCAGAAAAAAAATTTTCGGC
*
42810 TCAGTTTTTAGTCGAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAATGCGTTTCGGGGCT
320 TCAGTTTTTAGTCGAAATCGTGTACTATCCATCA--G-ATTT-G-T----AT-CG--T-GGGGCT
* * * * * *
42875 CTGACTCAATTTTACATGATTTTTGGTAGAAAGACTCCATGAAATATCTACATTCATTGTACCAA
372 CCGACTCAGTTTTGCATGATTTTTGG-CGAAAGACTCCTTGAAATATCTACATTCATTGAACCAA
42940 ATCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTT
436 ATCTCAGTCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTT
43005 AGAAGTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGACCCTTCAATTTTTTT
501 AGAAGTAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGACCCTTCAATTTTTTT
* * *
43070 TTCCGTTGATTTATATATTTTTTCTGAGCATTTTGGCAAGAAATTGAGAAAAAAATTTTTGGGTC
566 TTCCGTTGATTTATATATTTTTTCTGAGTATTGTGGCAA-AAATTGAGAAAAAAA-ATTTGGGTC
* * *
43135 AGTTTTTAATCGAAATCGTGTACTAATCATCATGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCT
1 AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCC-
* *
43200 GGCTCAATTTTGCATGATTTTTGGTAGAAAGACTCCATGAAATATCTACATTCATTGAACCAAAT
65 GGCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAAT
* * * *
43265 CTCAGCCAAATTGGATTTAAGGATTTATTTTTACGAGCATCTAAATCTTGTTACGATAAAATTAG
130 CTCAGACAAATTGGATTTAAGAATTTATTTTTACGAGCATATAAATCTTGTTTCGATAAAATTAG
* * ** *
43330 AAATAAATTCGGGGAAAAAAAAACGAAGGAAAAATGATATTAGAAGTATGAAAATCTGCTCAATG
195 AAATAAATTC-GGG----AAAAA--ATGGAAAAACGATATTAGAAGCGTGAAAA-CTGCTCAATT
*
43395 TTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAATTCAGGAAAAAAATTTTC
252 TTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAATTTTC
** **
43459 GGCTTTGTTTTTAGTCGAAATCGTGTAC-AT-CA-CA-ATTT-T-T-G-GGGGC-CCGGTTCAGT
317 GGCTCAGTTTTTAGTCGAAATCGTGTACTATCCATCAGATTTGTATCGTGGGGCTCCGACTCAGT
* * *
43515 TTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTTATCT-AATCAAATCTCTAG-
382 TTTGCATGATTTTTGGCG-AAAGACTCCTTGAAATATCTACATTCAT-TGAACCAAATCTC-AGT
* * * * ** * * *
43578 CATATTGAATATAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTTTATTTAA-TTAGAAATT
444 CAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA-TAAATTTAGAAGTA
* * * * **
43642 AATTTGGAAAAAAATGGAAAAATGATATTAGAAACGTGAAA-AGCCGC-TC-ATTCTTTTTGGCG
508 AATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAGA-CC-CTTCAATTTTTTTTTCCG
* * * * *
43704 TTAATTTATATAATTATTCTGCGTATTGTGGCAAAAAATTTAGAAAAAAAAAATTT-GGTC
571 TTGATTTATATATTTTTTCTGAGTATTGTGGC-AAAAA-TT-GAGAAAAAAAATTTGGGTC
* * * *
43764 AGTTTTTAGTCGAAATCTTGTACTAACCATCACGATTTTTGGGCTAAAAACGCTTTTCGGTGCTC
1 AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCGTTTCGGGGC-C
* * ** *
43829 CGGCTCAGCTTTGCATGATTTTTGGCAGAAAGACTATTTGAAATATCTATATTCATCT-AACCAA
64 CGGCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCAT-TGAACCAA
* * * * * * **
43893 ATCTCAGACACATTGGATTTAAGAATTTTTTTTTACGTGCATTTAAAACTTGTTTCAATTTAATT
128 ATCTCAGACAAATTGGATTTAAGAATTTATTTTTACGAGCATATAAATCTTGTTTCGATAAAATT
* **
43958 AGAATTAAATTC-GG-AAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTTTTCAATTTTTTT
193 AGAAATAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAACTGCTCAATTTTTTT
*
44021 GGCGTTAAATTATATATTTTTTCTGAGTATTGTGGC
257 GGCGTTGAATTATATATTTTTTCTGAGTATTGTGGC
44057 GTTGAAATCG
Statistics
Matches: 1373, Mismatches: 147, Indels: 117
0.84 0.09 0.07
Matches are distributed among these distances:
621 68 0.05
622 4 0.00
623 4 0.00
628 2 0.00
629 80 0.06
630 294 0.21
631 24 0.02
635 1 0.00
637 1 0.00
641 112 0.08
642 24 0.02
643 163 0.12
644 279 0.20
645 11 0.01
646 5 0.00
647 39 0.03
648 134 0.10
649 5 0.00
650 2 0.00
651 2 0.00
652 45 0.03
653 41 0.03
654 2 0.00
655 29 0.02
656 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (628 bp):
AGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCG
GCTCAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAATC
TCAGACAAATTGGATTTAAGAATTTATTTTTACGAGCATATAAATCTTGTTTCGATAAAATTAGA
AATAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAACTGCTCAATTTTTTTGGCG
TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAATTTTCGGCTCAGTT
TTTAGTCGAAATCGTGTACTATCCATCAGATTTGTATCGTGGGGCTCCGACTCAGTTTTGCATGA
TTTTTGGCGAAAGACTCCTTGAAATATCTACATTCATTGAACCAAATCTCAGTCAAATTGGATTT
AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATAAATTTAGAAGTAAATTCGGAAAAAA
ATGGAAAAACGATATTAGAAGCGTGAAAGACCCTTCAATTTTTTTTTCCGTTGATTTATATATTT
TTTCTGAGTATTGTGGCAAAAATTGAGAAAAAAAATTTGGGTC
Found at i:46951 original size:319 final size:319
Alignment explanation
Indices: 45110--47283 Score: 1478
Period size: 321 Copynumber: 6.8 Consensus size: 319
45100 TGTACTAACC
* * ** * * *
45110 ATCACGGTTTTTGGACTAAAAACGTGTTTC-GAGACCTTAGCTTAGTTTTGTATGA-TTTTTGAC
1 ATCACAGTTTTTGG-CTAAAAACGCGTTTCGGAG-CCCGA-CTCAGTTTTGCATGATTTTTTGGC
* * * ** *** * *
45173 AG-AAATACTCTTTGAAATATCTATATTCATTTAACCAAATCTCAAATACATTAGATCTAAGGAT
63 -GCAAAGACGCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGAT
** * * * *
45237 TGGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAA-TTAAATT-CG-GAAAAATGGA
127 TTATTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAAAACTT-AATTCCGAAAAAAATGGA
* * * * * *
45299 AAAACGATATTAGAAGCATAAAAATCC-TTTAAT-TTTTTGGCGTTGAATTATATATTTTTCCTG
191 AAAACGATATTAGAAGCGTGAAAAGCCGGTTAATCTTTTTGGCGTTGAATTATATATTTTTTCTT
* ** ** * *
45362 AGTATTGTGGCAAAAAATTGAGGAAAACCTTTTCGGGTCAAATTTTGC--AAACTTTTAGACGTA
256 AGTATTGTGGCAAAAAATTCAGGAAAAAATTTTCGGGTCAGTTTTTGCTGAAA-TTTTAGCCGAA
* * * *
45425 ATCGTGC-GCTTTTTTTTTTTTGCTAAAAATGCGTTTCGG-GACTCC-ATCTCAGTTTTGCATAA
1 ATC--ACAG-------TTTTTGGCTAAAAACGCGTTTCGGAG-C-CCGA-CTCAGTTTTGCATGA
** * ** *
45487 TTTTTT-ATG-TAAGAACTTCTTGTAATATCTATATTCATCG------A----A-CCACATTGGA
54 TTTTTTGGCGCAAAG-ACGCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGA
* * * * * * * *
45539 TTTAAGGATTTGTTTTTACCAGCCTCCT-AATCTCGTTTCGGTTTAATTAGAAA-TTAATT-TG-
118 TATAAGGATTTATTTTTACGAGCAT-CTGAAACTTGTTTCGATTTAATTA-AAACTTAATTCCGA
* * * * *
45600 -GAAAA---AAAAACAATATTA-AAGGCGTGAAAAACC-TTTCAATTTTTTTGGCGTTGAATTAT
181 AAAAAATGGAAAAACGATATTAGAA-GCGTGAAAAGCCGGTT-AATCTTTTTGGCGTTGAATTAT
* * * * * *
45659 ATATTTTTCCTAAGTATTGTGGCATAAAA-TCGAGGAAAAACTTTTCGGGTCAGTTTCTG-TAAA
244 ATATTTTTTCTTAGTATTGTGGCAAAAAATTC-AGGAAAAAATTTTCGGGTCAGTTTTTGCTGAA
45722 ATTTTAGCAGAAATCGTGTACTA
308 ATTTTAGC------C--G-A--A
* * * * * *
45745 ACCATCAAGGTTTCTAGCTAAAAACGCGTTTCGGAGCCCTGGCTCAATTTTGCATGGTTTTTTGG
1 ATCA-C-A-GTTTTTGGCTAAAAACGCGTTTCGGAGCCC-GACTCAGTTTTGCATGATTTTTTGG
* * * * ** *
45810 CGCAAAAACGCTTTGAAATATATATATATATTCATTGAACCAAATCTCAGTGACGTTGGATATAA
62 CGCAAAGACGCCTTG--A-A-ATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAA
* * * * *
45875 GGATTTATTTTTATGAGCATCTGAAACTTGTTTTGATTTAACTAAAAGTTAATTCGGAAAAAAAA
123 GGATTTATTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAAAACTTAATTCCG-AAAAAAA
* * *
45940 TAGAAAAACGATATTAGAAGCGTGAAAAGCAGGTAAATCTTTTTGGCGTTGAATTATATATTTTT
187 TGGAAAAACGATATTAGAAGCGTGAAAAGCCGGTTAATCTTTTTGGCGTTGAATTATATATTTTT
* *** ** *
46005 TCTGAGTATTGTGGCAAAAAATTCAGGAAAAAAAAATCTGGGTCAGTTTTTAGCTGAAATCATAT
252 TCTTAGTATTGTGGCAAAAAATTCAGGAAAAAATTTTC-GGGTCAGTTTTT-GCTGAAATTTTAG
* *
46070 ACTAA
315 CCGAA
* * * * *
46075 CCATCACGGTTTTTGAGGTAAAAACG-GATTTCGGGGCCCCACCTCAGTTTTGCATGATTTTGT-
1 --ATCACAGTTTTTG-GCTAAAAACGCG-TTTCGGAGCCCGA-CTCAGTTTTGCATGATTTTTTG
* * * * * ** *
46138 GCAG-AAAGACTCTTTGAAATATTTATATTCACCTATTCAAATCTCAGCCACATTGGATTTAAGG
61 GC-GCAAAGACGCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGG
* * * * *
46202 ATTTGTTTTGACGAGCATCTGAATATTTGTTTCGATTTAATTAAAACTAAATTCGGGAAAAAAAT
125 ATTTATTTTTACGAGCATCTGAA-ACTTGTTTCGATTTAATTAAAACTTAATTC-CGAAAAAAAT
* * * * **
46267 GGAAAAACGATATTAGAAGCATGAAAAACC-CTTCAATTTTTTTAACGTTGAATTATATAATTTT
188 GGAAAAACGATATTAGAAGCGTGAAAAGCCGGTT-AATCTTTTTGGCGTTGAATTATAT-ATTTT
* * * * *
46331 TTCTTAGTATTGTGGCAAAAAATTGAGTAAAAACTTTTCGGGTTAGTTTTTGC--AAAATTTAGC
251 TTCTTAGTATTGTGGCAAAAAATTCAGGAAAAAATTTTCGGGTCAGTTTTTGCTGAAATTTTAGC
*
46394 CGTA
316 CGAA
* * * * * **
46398 ATCGTGCGATTTTTTTTGCTAAAAATGTGTTTCGG-GTCATTGACTCAGTTTTGCATGATTTTTT
1 ATC--AC-A-GTTTTTGGCTAAAAACGCGTTTCGGAG-C-CCGACTCAGTTTTGCATGATTTTTT
* ** * * * * * * *
46462 -GCGTAAAGACTTCTTGAAAAATCTATATGCATTGAACCAAATC-CAAGCGACATAGGATTTAAA
60 GGCGCAAAGACGCCTTGAAATATCTATATTCATCGAACCAAATCTC-AGCCACATTGGATATAAG
* * * * * * * *
46525 AATTTGTTTTTACCAGCCTCTTAATCTTGTTTCGATTTAATCACAAA-TTAATT-CGGAAAAAAT
124 GATTTATTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTA-AAACTTAATTCCGAAAAAAAT
* * * * *
46588 GGTAAAATGATATTAAAAGTGTGAAAAGCCTGTTAATCTTTTTGGCGTTGAATTATAT-TTTTTT
188 GGAAAAACGATATTAGAAGCGTGAAAAGCCGGTTAATCTTTTTGGCGTTGAATTATATATTTTTT
* * * * *
46652 TTTAGTATTGTGCCAAAAAATTGAGGAAAAACTTTTCGGATCAGTTTTTGCT-AAATTTTAGCCG
253 CTTAGTATTGTGGCAAAAAATTCAGGAAAAAATTTTCGGGTCAGTTTTTGCTGAAATTTTAGCCG
46716 AA
318 AA
* *
46718 ATCCACAGTTTTTGTCTAAAAACGCGTTTCGGAGCCACGACTCAATTTTGCATGATTTTTTGGCG
1 AT-CACAGTTTTTGGCTAAAAACGCGTTTCGGAGCC-CGACTCAGTTTTGCATGATTTTTTGGCG
* * *
46783 CAAAGTCGCCTTGAAATATCTATATTTATCGAACCAAATCTCGGCCACATTGGATATAAGGATTT
64 CAAAGACGCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTT
*
46848 ATTTTTCCGAGCATCTGAAACTTGTTTCGATTTAATTAGAAA-TTAATTCCGAAAAAAATGGAAA
129 ATTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTA-AAACTTAATTCCGAAAAAAATGGAAA
* * * *
46912 AACAATATTAGAAGCGTGAAAATCCGGTTAATATTTTTGGCGTTGAATTATATATTTTTTCTAAG
193 AACGATATTAGAAGCGTGAAAAGCCGGTTAATCTTTTTGGCGTTGAATTATATATTTTTTCTTAG
* * *
46977 TATTGTGGCAAAAAATTCAGAAAAAAAATTTTCGGGTCAGCTTTTAGCTGAAATTGTGTA-CC-C
258 TATTGTGGCAAAAAATTCAG-GAAAAAATTTTCGGGTCAG-TTTTTGCTGAAATT-T-TAGCCGA
47040 A
319 A
* * * * *
47041 A-CACGGTTTTTGGGCTAAAAACGCGTTTCGAAACCTCGGCTCGGTTTTGCATGA-TTTTTGGCG
1 ATCACAGTTTTT-GGCTAAAAACGCGTTTCGGAGCC-CGACTCAGTTTTGCATGATTTTTTGGCG
* * * *
47104 CAAAGATGTCTTGAACTATCTATATTCATCGAACCAAATATCAGCCACATTGGATATAAGGATTT
64 CAAAGACGCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTT
* * * *
47169 ATTTTTACGAGCATTTGAAAGTTGTTTC----T-A-T-----TTAATT-TGAAAAAAATTAGAAA
129 ATTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAAAACTTAATTCCGAAAAAAA-TGGAAA
* * * * *
47222 AACGATATTAGAAGCGTGAAAAGCCGATCAATTTTTTTTGGCATTGAATTACATATTTTTTC
193 AACGATATTAGAAGCGTGAAAAGCCGGTTAA-TCTTTTTGGCGTTGAATTATATATTTTTTC
47284 CGTAGT
Statistics
Matches: 1472, Mismatches: 279, Indels: 220
0.75 0.14 0.11
Matches are distributed among these distances:
306 2 0.00
307 24 0.02
308 4 0.00
309 82 0.06
310 45 0.03
311 79 0.05
312 6 0.00
314 2 0.00
315 45 0.03
316 10 0.01
317 48 0.03
318 94 0.06
319 115 0.08
320 58 0.04
321 177 0.12
322 96 0.07
323 52 0.04
324 106 0.07
325 68 0.05
326 93 0.06
327 40 0.03
329 18 0.01
330 45 0.03
331 50 0.03
332 5 0.00
335 5 0.00
338 79 0.05
339 16 0.01
340 1 0.00
341 7 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (319 bp):
ATCACAGTTTTTGGCTAAAAACGCGTTTCGGAGCCCGACTCAGTTTTGCATGATTTTTTGGCGCA
AAGACGCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTAT
TTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAAAACTTAATTCCGAAAAAAATGGAAAAAC
GATATTAGAAGCGTGAAAAGCCGGTTAATCTTTTTGGCGTTGAATTATATATTTTTTCTTAGTAT
TGTGGCAAAAAATTCAGGAAAAAATTTTCGGGTCAGTTTTTGCTGAAATTTTAGCCGAA
Done.