Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014688.1 Corchorus olitorius cultivar O-4 contig14721, 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: 136879
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:854 original size:255 final size:253
Alignment explanation
Indices: 399--906 Score: 899
Period size: 255 Copynumber: 2.0 Consensus size: 253
389 TTTTTTTAAA
*
399 AAAAATAAATTTCAATAAAATAAAATATATTAAAAATATATTTAATTTTATTCCACGTGTCACCT
1 AAAAATAAATTTCAATAAAATAAAATATATTAAAAAAATATTTAATTTTATTCCACGTGTCACCT
* * *
464 GCCACGTTAGCAAAAAAGACGGTGTTAGTGTCACGTCAGCATATTTGACGGGTCTGTCACGGCAT
66 GCCACGTCAGCAAAAAAGACGGTGTTAGTGCCACGTCAGCATATTTGACGGGTCTGTCACGGCAC
* * *
529 GCTAACGTGAGGGACCTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAA
131 ACTAACGTGAGGGACCTCGGATGATAGGTTCTAATAGTAGAGGGACGAATTTGTAGAAAAAAAAA
594 GTACAGGGACCAAAATCAACATTTCGTATAATACAGGGACCTCCCGGGTACGTTTTACC
196 GTACAGGGACCAAAATCAACATTTCGTATAATACAGGGACCTCCCGGGTAC-TTTTACC
* *
653 AAAAGTAAATTTCAATAAAATAAAATATATTAAAAAAATATTTACTTTTTATTCCACGTGTCACC
1 AAAAATAAATTTCAATAAAATAAAATATATTAAAAAAATATTTA-ATTTTATTCCACGTGTCACC
718 TGCCACGTCAGCAAAAAAGACGGTGTTAGTGCCACGTCAGCATATTTGACGGGTCTGTCACGGCA
65 TGCCACGTCAGCAAAAAAGACGGTGTTAGTGCCACGTCAGCATATTTGACGGGTCTGTCACGGCA
*
783 CACTAACGTGAGGGATCTCGGATGATAGGTTCTAATAGTAGAGGGACGAATTTGTAGAAAAAAAA
130 CACTAACGTGAGGGACCTCGGATGATAGGTTCTAATAGTAGAGGGACGAATTTGTAGAAAAAAAA
*
848 AGTACAGGGACCAAAATCAACATTTCGTATAGTACAGGGACCTCCCGGGTACTTTTACC
195 AGTACAGGGACCAAAATCAACATTTCGTATAATACAGGGACCTCCCGGGTACTTTTACC
907 CAGGTAAAAG
Statistics
Matches: 242, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
254 49 0.20
255 193 0.80
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (253 bp):
AAAAATAAATTTCAATAAAATAAAATATATTAAAAAAATATTTAATTTTATTCCACGTGTCACCT
GCCACGTCAGCAAAAAAGACGGTGTTAGTGCCACGTCAGCATATTTGACGGGTCTGTCACGGCAC
ACTAACGTGAGGGACCTCGGATGATAGGTTCTAATAGTAGAGGGACGAATTTGTAGAAAAAAAAA
GTACAGGGACCAAAATCAACATTTCGTATAATACAGGGACCTCCCGGGTACTTTTACC
Found at i:1393 original size:3 final size:3
Alignment explanation
Indices: 1387--1434 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
1377 TAATTTATTT
1387 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1435 TCATTAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16411 original size:26 final size:25
Alignment explanation
Indices: 16351--16401 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
16341 AGCCATGAAT
16351 ACCCATCAAAGGGTATACCGTAAAC
1 ACCCATCAAAGGGTATACCGTAAAC
16376 ACCCATCAAA-GGTATACCGTAAAC
1 ACCCATCAAAGGGTATACCGTAAAC
16400 AC
1 AC
16402 ACCCACCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.41, C:0.29, G:0.14, T:0.16
Consensus pattern (25 bp):
ACCCATCAAAGGGTATACCGTAAAC
Found at i:19111 original size:102 final size:105
Alignment explanation
Indices: 18980--19204 Score: 350
Period size: 102 Copynumber: 2.2 Consensus size: 105
18970 TTTTAATTTA
*
18980 GACTAAACTTAGTG-AATTAGTTATATATTTTATTTCTAAAACCCTATAACAAT-ATTATTAATT
1 GACTAAACTTAGTGAAACTAGTTATATATTTTATTTCTAAAACCCTATAACAATAATTATTAATT
*
19043 ATGGAATTTACCCTTAAAATAAAAA-AAAA-TTAATTCGG
66 ATGAAATTTACCCTTAAAATAAAAATAAAATTTAATTCGG
* *
19081 GACTAAACTTAGTGAAACTAGTTTTGTATTTTATTTCTAAAACCCTATAACAATAAATTATTAAT
1 GACTAAACTTAGTGAAACTAGTTATATATTTTATTTCTAAAACCCTATAACAAT-AATTATTAAT
* *
19146 TTTGAAATTTACCCTTAAAATAAAAATAAAATTTTAATTTGG
65 TATGAAATTTACCCTTAAAATAAAAATAAAA-TTTAATTCGG
19188 GACTAAACTTAGTGAAA
1 GACTAAACTTAGTGAAA
19205 TTAAGGCTAA
Statistics
Matches: 112, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
101 14 0.12
102 36 0.32
104 33 0.29
105 4 0.04
107 25 0.22
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (105 bp):
GACTAAACTTAGTGAAACTAGTTATATATTTTATTTCTAAAACCCTATAACAATAATTATTAATT
ATGAAATTTACCCTTAAAATAAAAATAAAATTTAATTCGG
Found at i:37196 original size:106 final size:106
Alignment explanation
Indices: 37077--37288 Score: 388
Period size: 106 Copynumber: 2.0 Consensus size: 106
37067 TTAATAGGTA
*
37077 GATGATTTATTTATGGGAGTTTCTTGAGTTCCAGGGGTTTATTTATGGTAGTTTCTTGAGTTGAT
1 GATGATTTATTTATGGGAGTTTCTTGAGTTCCAGGGGTTTATTTATGGTAGTTTATTGAGTTGAT
*
37142 TTCCCATTTAGATGTTTGAGCATAAAGGGTTTTATTCTGAT
66 TTCCCATTTACATGTTTGAGCATAAAGGGTTTTATTCTGAT
37183 GATGATTTATTTATGGGAGTTTCTTGAGTTCCAGGGGTTTATTTATGGTAGTTTATTGAGTTGAT
1 GATGATTTATTTATGGGAGTTTCTTGAGTTCCAGGGGTTTATTTATGGTAGTTTATTGAGTTGAT
* *
37248 TTCTCATTTACATGTTTGAGCATAAAGGGTTTTATTTTGAT
66 TTCCCATTTACATGTTTGAGCATAAAGGGTTTTATTCTGAT
37289 TGTAATGAGA
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.21, C:0.08, G:0.24, T:0.47
Consensus pattern (106 bp):
GATGATTTATTTATGGGAGTTTCTTGAGTTCCAGGGGTTTATTTATGGTAGTTTATTGAGTTGAT
TTCCCATTTACATGTTTGAGCATAAAGGGTTTTATTCTGAT
Found at i:37494 original size:115 final size:116
Alignment explanation
Indices: 37275--37506 Score: 421
Period size: 115 Copynumber: 2.0 Consensus size: 116
37265 GAGCATAAAG
* *
37275 GGTTTTATTTTGATTGTAATGAGATTTCACATGTACCCGCTAAAAAAAGTTTGATTTTGTAATAT
1 GGTTTTATTCTGATTGTAATGAGATTTCACATGTACCAGCTAAAAAAAGTTTGATTTTGTAATAT
*
37340 TAGAGTGTGTTTAGGGTAATGATGATGACCGGTGAACCTTATAACGATTGC
66 TAGAGTGTGTTTAGGATAATGATGATGACCGGTGAACCTTATAACGATTGC
37391 GGTTTTATTCTGATTGTAATGAGATTTCACATGTACCAGCTAAAAAAAGTTTGA-TTTGTAATAT
1 GGTTTTATTCTGATTGTAATGAGATTTCACATGTACCAGCTAAAAAAAGTTTGATTTTGTAATAT
*
37455 TAGAGTGTGTTTAGGATAATGATGATGACCGGTGAACCTTATAACGGTTGC
66 TAGAGTGTGTTTAGGATAATGATGATGACCGGTGAACCTTATAACGATTGC
37506 G
1 G
37507 TGAAAATATG
Statistics
Matches: 112, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
115 60 0.54
116 52 0.46
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (116 bp):
GGTTTTATTCTGATTGTAATGAGATTTCACATGTACCAGCTAAAAAAAGTTTGATTTTGTAATAT
TAGAGTGTGTTTAGGATAATGATGATGACCGGTGAACCTTATAACGATTGC
Found at i:37526 original size:2 final size:2
Alignment explanation
Indices: 37519--37544 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37509 AAAATATGGT
37519 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
37545 GAGGCAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:40529 original size:33 final size:33
Alignment explanation
Indices: 40489--40595 Score: 127
Period size: 33 Copynumber: 3.4 Consensus size: 33
40479 GGTTTTGTCC
40489 GATGTGGCAATGCCATGTGGGTCAGTTTGGTAT
1 GATGTGGCAATGCCATGTGGGTCAGTTTGGTAT
** **
40522 GATGTGGCAA-G-CATCAGCGGT---TTT-GTCC
1 GATGTGGCAATGCCATGTG-GGTCAGTTTGGTAT
40550 GATGTGGCAATGCCATGTGGGTCAGTTTGGTAT
1 GATGTGGCAATGCCATGTGGGTCAGTTTGGTAT
40583 GATGTGGCAATGC
1 GATGTGGCAATGC
40596 TTGCCACATC
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
28 12 0.20
29 7 0.12
30 4 0.07
31 4 0.07
32 7 0.12
33 25 0.42
ACGTcount: A:0.19, C:0.15, G:0.36, T:0.31
Consensus pattern (33 bp):
GATGTGGCAATGCCATGTGGGTCAGTTTGGTAT
Found at i:40541 original size:61 final size:61
Alignment explanation
Indices: 40472--40592 Score: 242
Period size: 61 Copynumber: 2.0 Consensus size: 61
40462 GGCATTGCCA
40472 CATCAGCGGTTTTGTCCGATGTGGCAATGCCATGTGGGTCAGTTTGGTATGATGTGGCAAG
1 CATCAGCGGTTTTGTCCGATGTGGCAATGCCATGTGGGTCAGTTTGGTATGATGTGGCAAG
40533 CATCAGCGGTTTTGTCCGATGTGGCAATGCCATGTGGGTCAGTTTGGTATGATGTGGCAA
1 CATCAGCGGTTTTGTCCGATGTGGCAATGCCATGTGGGTCAGTTTGGTATGATGTGGCAA
40593 TGCTTGCCAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (61 bp):
CATCAGCGGTTTTGTCCGATGTGGCAATGCCATGTGGGTCAGTTTGGTATGATGTGGCAAG
Found at i:40553 original size:28 final size:30
Alignment explanation
Indices: 40472--40565 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 30
40462 GGCATTGCCA
40472 CATCAGCGGTTTTGTCCGATGTGGCAATGC
1 CATCAGCGGTTTTGTCCGATGTGGCAATGC
** **
40502 CATGTG-GGTCAGTTTGGTATGATGTGGCAA-G-
1 CATCAGCGGT---TTT-GTCCGATGTGGCAATGC
40533 CATCAGCGGTTTTGTCCGATGTGGCAATGC
1 CATCAGCGGTTTTGTCCGATGTGGCAATGC
40563 CAT
1 CAT
40566 GTGGGTCAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
28 12 0.24
29 7 0.14
30 7 0.14
31 4 0.08
32 7 0.14
33 12 0.24
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (30 bp):
CATCAGCGGTTTTGTCCGATGTGGCAATGC
Found at i:40679 original size:29 final size:29
Alignment explanation
Indices: 40633--40708 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
40623 ATTAGGCTAA
* * *
40633 GGGGTAAAACGTCCCAAAATTGAAGTTTA-
1 GGGGCAAAACGT-CCAAAATTAAAGTTCAT
*
40662 GGGAGCAAAATGTCCAAAATTAAAGTTCAT
1 GGG-GCAAAACGTCCAAAATTAAAGTTCAT
40692 GGGGCAAAACGTCCAAA
1 GGGGCAAAACGTCCAAA
40709 CGCTATAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 30 0.75
30 10 0.25
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (29 bp):
GGGGCAAAACGTCCAAAATTAAAGTTCAT
Found at i:40876 original size:31 final size:32
Alignment explanation
Indices: 40797--40897 Score: 98
Period size: 31 Copynumber: 3.1 Consensus size: 32
40787 TGTATTACTG
* *
40797 ACGTGGCAATGCCACGTCGGATCAAAAATGTC
1 ACGTGACAATGCCACGTCGGATCAAAAATGCC
* * *
40829 ATGT-ACTAATGACACGTTGGA-CAAAAATGCC
1 ACGTGAC-AATGCCACGTCGGATCAAAAATGCC
* *
40860 ACGTGACAATGCCACGTCAGACCAAGGAAATGCC
1 ACGTGACAATGCCACGTCGGATCAA--AAATGCC
40894 ACGT
1 ACGT
40898 CAATAATATT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
31 24 0.44
32 20 0.36
34 11 0.20
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.18
Consensus pattern (32 bp):
ACGTGACAATGCCACGTCGGATCAAAAATGCC
Found at i:46680 original size:19 final size:19
Alignment explanation
Indices: 46637--46680 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
46627 TATAATAATA
46637 ATAATTAATTACAATTGATC
1 ATAA-TAATTACAATTGATC
* * *
46657 CTAATAATTACAGTTGATT
1 ATAATAATTACAATTGATC
46676 ATAAT
1 ATAAT
46681 TAGTCAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (19 bp):
ATAATAATTACAATTGATC
Found at i:47003 original size:188 final size:188
Alignment explanation
Indices: 46686--47063 Score: 702
Period size: 188 Copynumber: 2.0 Consensus size: 188
46676 ATAATTAGTC
46686 AAACAATATCTCCAATTAATTACACGTGGTTCTACCAAATCAAGCTAAATAAAATCTTCAATCAA
1 AAACAATATCTCCAATTAATTACACGTGGTTCTACCAAATCAAGCTAAATAAAATCTTCAATCAA
*
46751 TTTCTTGGATCTCATGGAAAGGATGGAAATCCCCTGCCCCAAGTTTTGTGCCCCACTTCATGCCC
66 TTTCTTGGATCTCATGGAAAGGATGGAAATCCCCTGCCCCAAGTTTTATGCCCCACTTCATGCCC
46816 CATCCACCAAATCATGCCACATGTCCCTTGTATTATACCTTGTTTGTTTTTAAGTTTT
131 CATCCACCAAATCATGCCACATGTCCCTTGTATTATACCTTGTTTGTTTTTAAGTTTT
*
46874 AAACAATATCTCCAATTAATTACACGTGGTTCTACCAAATCAAGCTAAATCAAATCTTCAATCAA
1 AAACAATATCTCCAATTAATTACACGTGGTTCTACCAAATCAAGCTAAATAAAATCTTCAATCAA
* *
46939 TTTCTTGGATCTCATGGAAATGATGGAAATCCCCTGCCTCAAGTTTTATGCCCCACTTCATGCCC
66 TTTCTTGGATCTCATGGAAAGGATGGAAATCCCCTGCCCCAAGTTTTATGCCCCACTTCATGCCC
* *
47004 CATTCACCAAATCATGCCACATGTCCCTTGTGTTATACCTTGTTTGTTTTTAAGTTTT
131 CATCCACCAAATCATGCCACATGTCCCTTGTATTATACCTTGTTTGTTTTTAAGTTTT
47062 AA
1 AA
47064 CAAGTAATAT
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 184 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (188 bp):
AAACAATATCTCCAATTAATTACACGTGGTTCTACCAAATCAAGCTAAATAAAATCTTCAATCAA
TTTCTTGGATCTCATGGAAAGGATGGAAATCCCCTGCCCCAAGTTTTATGCCCCACTTCATGCCC
CATCCACCAAATCATGCCACATGTCCCTTGTATTATACCTTGTTTGTTTTTAAGTTTT
Found at i:47408 original size:18 final size:18
Alignment explanation
Indices: 47374--47411 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47364 GCATTGCTGG
*
47374 TGACCCAGCGATGAGACT
1 TGACCCAGCGATAAGACT
47392 TGACCCAGC-AGTAAGACT
1 TGACCCAGCGA-TAAGACT
47410 TG
1 TG
47412 GTTCATTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (18 bp):
TGACCCAGCGATAAGACT
Found at i:81946 original size:181 final size:180
Alignment explanation
Indices: 81595--81930 Score: 602
Period size: 181 Copynumber: 1.9 Consensus size: 180
81585 TGTGGAGTTG
*
81595 ACACATGTCCGTTTTTTAATTAATTAAGTTTTAAATATTTCAATCTAGTCCCTAGAGGACACATG
1 ACACATGTCCGTTTTTTAATTAATTAAGTTTTAAATATTTCAATCTAGTCCCTAAAGGACACATG
*
81660 TCACCCTTCAGGACCCGCATGTGTAGTCTGCTAAACTCCACTGATGGTGTATTGAATAATTTTCC
66 TCACCCTTCAGGACCCGCATGTGTAGTCTGCTAAACTCCACTGACGGTGTATTGAATAATTTTCC
81725 TTAATGTTAGGGTAATTATTTGATACACCGGCAGTGTAAATTTGGACTCC
131 TTAATGTTAGGGTAATTATTTGATACACCGGCAGTGTAAATTTGGACTCC
*
81775 ACACATGTCCGTTTTTTGAATTAATTAAGTTTTATATATTTCAATCTAGTCCCTAAAGGACACAT
1 ACACATGTCCGTTTTTT-AATTAATTAAGTTTTAAATATTTCAATCTAGTCCCTAAAGGACACAT
* *
81840 GTCACCCTTCA-GATTCTGCATGTGTAGTCTGCTAAACTCCACTGACGGTGTATTGAATAATTTT
65 GTCACCCTTCAGGA-CCCGCATGTGTAGTCTGCTAAACTCCACTGACGGTGTATTGAATAATTTT
81904 CCTTAATGTTAGGGTAATTATTTGATA
129 CCTTAATGTTAGGGTAATTATTTGATA
81931 TACTGGTGGT
Statistics
Matches: 149, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
180 19 0.13
181 130 0.87
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (180 bp):
ACACATGTCCGTTTTTTAATTAATTAAGTTTTAAATATTTCAATCTAGTCCCTAAAGGACACATG
TCACCCTTCAGGACCCGCATGTGTAGTCTGCTAAACTCCACTGACGGTGTATTGAATAATTTTCC
TTAATGTTAGGGTAATTATTTGATACACCGGCAGTGTAAATTTGGACTCC
Found at i:82578 original size:19 final size:20
Alignment explanation
Indices: 82545--82583 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
82535 TGTATATTAG
*
82545 TTATATTTATATAATTGAAT
1 TTATATTTATATAATCGAAT
*
82565 TTATA-TTATGTAATCGAAT
1 TTATATTTATATAATCGAAT
82584 AGTTTGGCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (20 bp):
TTATATTTATATAATCGAAT
Found at i:83112 original size:18 final size:18
Alignment explanation
Indices: 83089--83127 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
83079 AATCTTACGC
* *
83089 CCCCAAATAACCCTTCGT
1 CCCCAAATAACACTCCGT
83107 CCCCAAATAACACTCCGT
1 CCCCAAATAACACTCCGT
83125 CCC
1 CCC
83128 TCCGCCACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.49, G:0.05, T:0.18
Consensus pattern (18 bp):
CCCCAAATAACACTCCGT
Found at i:83333 original size:75 final size:74
Alignment explanation
Indices: 83244--83392 Score: 262
Period size: 75 Copynumber: 2.0 Consensus size: 74
83234 AACGACTGCT
*
83244 TCCTTCTCAAGAAGCTTGTTCATCAGAAGAAAAACCTTCTCATCAACAACTCCCGATGCCACTCC
1 TCCTTCTCAAGAAGCTTCTTCATCAGAAGAAAAACCTTCTCATCAACAACTCCCGATGCCACT-C
83309 CACCAGTTCA
65 CACCAGTTCA
* *
83319 TCCTTCTCAAGAAGCTTCTTCATCAGAAGAAAAGCCTTCTTATCAACAACTCCCGATGCCACTCC
1 TCCTTCTCAAGAAGCTTCTTCATCAGAAGAAAAACCTTCTCATCAACAACTCCCGATGCCACTCC
83384 ACCAGTTCA
66 ACCAGTTCA
83393 CCGTAACCCC
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 11 0.15
75 60 0.85
ACGTcount: A:0.30, C:0.34, G:0.11, T:0.25
Consensus pattern (74 bp):
TCCTTCTCAAGAAGCTTCTTCATCAGAAGAAAAACCTTCTCATCAACAACTCCCGATGCCACTCC
ACCAGTTCA
Found at i:83814 original size:53 final size:53
Alignment explanation
Indices: 83748--83855 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
83738 TAGGAGAAAG
*
83748 TAAGTAAGCCATTCCAAACAGTTATTAGGTTATTTCAATTGATAAATTAGGGT
1 TAAGTAAGCCATTCCAAACAATTATTAGGTTATTTCAATTGATAAATTAGGGT
83801 TAAGTAAGCCATTCCAAACAATTATTAGGTTATTTCAATTGATAAATTAGGGT
1 TAAGTAAGCCATTCCAAACAATTATTAGGTTATTTCAATTGATAAATTAGGGT
83854 TA
1 TA
83856 TTAACACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (53 bp):
TAAGTAAGCCATTCCAAACAATTATTAGGTTATTTCAATTGATAAATTAGGGT
Found at i:86812 original size:317 final size:317
Alignment explanation
Indices: 86371--87337 Score: 1038
Period size: 317 Copynumber: 3.0 Consensus size: 317
86361 ATGGTTTTTG
* * * * *
86371 GCATACAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCCACATTGAATATAAGGA
1 GCATAAAGACTCCTTGAAATATCTATATTCATCTAACC-AATCTCAGCCACATTGGATTTAAGGA
* *
86436 TTTGTTTTTACGAGCATCTGAATCTTGTTTTGATTTAATTAGAAATTAATTCGAAAAAAAATGGA
65 TTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-AAAAAAAAAGGA
* * * *
86501 AAAATGATATTAAAAGCGTGAAAAGCCTGTCAATCTTTTTGGCATTGAATTATATATTTTTTCTG
129 AAAATGATATTAGAAGCGTGAAAAACCTGTCAATCTTTTTGGCGTTGAATTATATATTTTTTATG
* * * *
86566 AATATT-TCATAAAAAATTAAGAAAAAATTTTTCTGGTCAGTTTTTAGTCGAAATCGTGTACTAA
194 AGTATTGTCGTAAAAAATTAAGAAAAAATTTTTCGGGTAAGTTTTTAGTCGAAATCGTGTACTAA
* *
86630 CCATTACGGTTTTCGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGA-CT
259 CCATTACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATCT
* * *
86688 GACA-GAAGACTCCTTGAAATATCTATATTCATCTAACCAATTCTAAGCCACAATGGATTTAAGG
1 G-CATAAAGACTCCTTGAAATATCTATATTCATCTAACCAA-TCTCAGCCACATTGGATTTAAGG
* * * *
86752 ATTTATTTTTACGAGCATCTGAATCTTGTTTCAATTTAATAAGAAATAAATTCAAAAAAAAAGGA
64 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAAAAAAAAAGGA
* * * * *
86817 AAAACGATATTGGAAGCGTGAAAAACCAGTCAAACTTTTTTGGCGTTGAATTACATATTTTTTAT
129 AAAATGATATTAGAAGCGTGAAAAACCTGTCAATC-TTTTTGGCGTTGAATTATATATTTTTTAT
* * * *
86882 GAGTATTGTTGCAAAGAATTGAGGAAAAAA-TTTTCGGGTAAGTTTTTGCAAAATTTTAGTCGAA
193 GAGTATTGTCGTAAAAAATT-AAGAAAAAATTTTTCGGGTAAG----T------TTTTAGTCGAA
* * * * **
86946 ATCGTTTACT---CATTCATGGTTTTTGGCTAAAAACGTGTTCCGGGGTGCCGACTCAGTTTTGC
247 ATCGTGTACTAACCATT-ACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGC
* *
87008 ATAATTTTT
311 ATGA--TCT
* * * *
87017 GCATAAAGACTTCTTGAAATATCTATATTCATCCTCATCGAACCAAACCCAGCCACGTTGGATTT
1 GCATAAAGACTCCTTGAAATATCTATATTCA---TC-T--AACCAATCTCAGCCACATTGGATTT
* * * *
87082 AACGATTTGTTTTTACAAGCATCTGATTCTTGTTTCGATTGAATTAGAAATTAATTCGGAAAAAA
60 AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC--AAAAAA
* *
87147 AGAAGGAAAAATGATATTAGAAGCGT-AATAAATCCT-TCAATATTTTTGGCGTTGAATTGTATA
123 A-AAGGAAAAATGATATTAGAAGCGTGAA-AAA-CCTGTCAATCTTTTTGGCGTTGAATTATATA
* * *
87210 TTTTTTTATGAGTATTGTGGTAAAAAATTGAG-AAAAATTTTT-GGGTAAGTTTTTAGCCGAAAT
185 -TTTTTTATGAGTATTGTCGTAAAAAATTAAGAAAAAATTTTTCGGGTAAGTTTTTAGTCGAAAT
* * * * * *
87273 CATGTACTAACAATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGTCTCAGTTTTCCATG
249 CGTGTACTAACCATTACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATG
87338 GTTTTTGTCA
Statistics
Matches: 532, Mismatches: 82, Indels: 62
0.79 0.12 0.09
Matches are distributed among these distances:
316 42 0.08
317 130 0.24
318 20 0.04
319 8 0.02
322 1 0.00
325 22 0.04
326 43 0.08
327 41 0.08
328 24 0.05
329 27 0.05
331 1 0.00
332 2 0.00
333 1 0.00
334 63 0.12
335 18 0.03
336 33 0.06
337 54 0.10
338 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (317 bp):
GCATAAAGACTCCTTGAAATATCTATATTCATCTAACCAATCTCAGCCACATTGGATTTAAGGAT
TTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAAAAAAAAAGGAAA
AATGATATTAGAAGCGTGAAAAACCTGTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAG
TATTGTCGTAAAAAATTAAGAAAAAATTTTTCGGGTAAGTTTTTAGTCGAAATCGTGTACTAACC
ATTACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATCT
Found at i:87857 original size:552 final size:548
Alignment explanation
Indices: 86809--87905 Score: 1386
Period size: 552 Copynumber: 2.0 Consensus size: 548
86799 AAATTCAAAA
* *
86809 AAAAAGGAAAAACGATATTGGAAGCGTGAAAAACCAGTCAAACTTTTTTGGCGTTGAATTACATA
1 AAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCAGTCAAACTTTTTTGGCGTTAAATTACATA
* *
86874 TTTTTTATGAGTATTGTTGCAAAGAATTGAGGAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTT
66 TTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTT
* * ** ** * *
86939 AGTCGAAATCGTTTACTCATTCATGGTTTTTGGCTAAAAACGTGTTCCGGGGTGCCGACTCAGTT
131 AGTCGAAATCGTGTACTCATTCACGGTTTTTGGCTAAAAACGCATTAAGGAGTGCCGACTCAATT
* *
87004 TTGCATAATTTTTGCATAAAGACTTCTTGAAATATCTATATTCATCCTCATCGAACCAAACCCAG
196 TTGCATAATTTTTGCACAAAGACTTCCTGAAATATCTATATTCA--CTCA-C-AACCAAACCCAG
* * * *
87069 CCACGTTGGATTTAACGATTTGTTTTTACAAGCATCTGATTCTTGTTTCGATTGAATTAGAAATT
257 CCACATTGGATATAACGATTTGTTTTTACAAGCATCTGAATCTTATTTCGATTGAATTAGAAATT
* * * *
87134 AATTCGGAAAAAAAGAAGGAAAAATGATATTAGAAGCGTAATAAATCCTTCAATATTTTTGGCGT
322 AATTCGGAAAAAAAGAAGGAAAAACGATATTAGAAGCGTAATAAACCCGTCAATATTTTTGGCAT
* * **
87199 TGAATTGTATATTTTTTTATGAGTATTGTGGTAAAAAATTGAGAAAAATTTTTGGGTAAGTTTTT
387 TGAATTATATATTTTTTTATGAATATTGTCATAAAAAATTGAGAAAAATTTTTGGGTAAGTTTTT
* * * *
87264 AGCCGAAATCATGTACTAACAATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGTCTCAG
452 AGCCAAAATCATGTACTAACAATCACGGTTTTCGGCTAAAAACGCGTTTCGGGGCCCCGACTCAG
* * *
87329 TTTTCCATGGTTTTTGTCATAAAGACTCTTTC
517 TTTTCCATGATTTTTGGCAGAAAGACTCTTTC
* * ** *
87361 AAAATGGAAAAACGATATTAGAATCGTGAAAAAAAAACCCTTCAAA-TTTTTTGGTGTTAAATTA
1 AAAAAGGAAAAACGATATTAGAAGCGTG----AAAAACCAGTCAAACTTTTTTGGCGTTAAATTA
* * * *
87425 TATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAGTTTTTGCAAAA
62 CATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTAAGTTTTTGCAAAA
* * * * *
87490 TTTTAGTGGAAATCGTGTACTAACCATT-ACGGTTTTTGGCTAAAACCGCATTAAGGAGTTCTGT
127 TTTTAGTCGAAATCGTGTACT---CATTCACGGTTTTTGGCTAAAAACGCATTAAGGAGTGCCGA
* *
87554 CTCAATTTTGCATGATTTTTGGCGCAAAGAC-TCCTGAAATATCTATATTCA-TCA-AACCAAAT
189 CTCAATTTTGCATAATTTTT-GCACAAAGACTTCCTGAAATATCTATATTCACTCACAACCAAA-
* * * * * *
87616 CTCATCCACATTGGATATAAGGATTTGTTTTTTCGAGCATCTGAATCTTATTTCGATTTAATTAG
252 CCCAGCCACATTGGATATAACGATTTGTTTTTACAAGCATCTGAATCTTATTTCGATTGAATTAG
* * *
87681 AAATTAATTCGGAAAAAATA-ATGGAAAAACGATATTAGAAGCGTGAA-AAGCCCGTCAATCTTT
317 AAATTAATTCGGAAAAAA-AGAAGGAAAAACGATATTAGAAGCGT-AATAAACCCGTCAATATTT
*
87744 TTGGCATTGAATTATATA-TTTTTTCTGAATATT-TCATAAAAAATTGAGAAAAAACTTTTCT-G
380 TTGGCATTGAATTATATATTTTTTTATGAATATTGTCATAAAAAATTGAG-AAAAA-TTTT-TGG
* * * * *
87806 GTCAGTTTTTAGTCAAAATCGTGTACTAACTATTACGGTTTTCGGCTAAAAACGCGTTTCGGGGC
442 GTAAGTTTTTAGCCAAAATCATGTACTAACAATCACGGTTTTCGGCTAAAAACGCGTTTCGGGGC
87871 CCCGACTCAGTTTTCCATGATTTTTGGCAGAAAGA
507 CCCGACTCAGTTTTCCATGATTTTTGGCAGAAAGA
87906 TTCCTTGACA
Statistics
Matches: 467, Mismatches: 64, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
550 13 0.03
551 25 0.05
552 241 0.52
553 4 0.01
554 3 0.01
555 94 0.20
556 12 0.03
557 63 0.13
558 12 0.03
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (548 bp):
AAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCAGTCAAACTTTTTTGGCGTTAAATTACATA
TTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTT
AGTCGAAATCGTGTACTCATTCACGGTTTTTGGCTAAAAACGCATTAAGGAGTGCCGACTCAATT
TTGCATAATTTTTGCACAAAGACTTCCTGAAATATCTATATTCACTCACAACCAAACCCAGCCAC
ATTGGATATAACGATTTGTTTTTACAAGCATCTGAATCTTATTTCGATTGAATTAGAAATTAATT
CGGAAAAAAAGAAGGAAAAACGATATTAGAAGCGTAATAAACCCGTCAATATTTTTGGCATTGAA
TTATATATTTTTTTATGAATATTGTCATAAAAAATTGAGAAAAATTTTTGGGTAAGTTTTTAGCC
AAAATCATGTACTAACAATCACGGTTTTCGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTT
CCATGATTTTTGGCAGAAAGACTCTTTC
Found at i:89267 original size:321 final size:323
Alignment explanation
Indices: 88582--89386 Score: 917
Period size: 321 Copynumber: 2.5 Consensus size: 323
88572 AGAAAGACTC
* * *
88582 CTTAGTCACAATGGATATAAGGATTTGTTTTTACGAGCATCTCAATCTTTGTTTCGATTTAATTA
1 CTTAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATC-TTGTTTCGATTTAATTA
* * ** *
88647 GAAATAAATTCGGAAAAAA-AGGAAAAACGATATTGGAAGCGTGAAAA-CCCTTCAATTTTTTTG
65 GAAATTAATTCAGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC-TCAATCTTTTTG
* * * * * *
88710 ACGTTAAATTATATATTTTTTCTGAGTATTATGGCAAAAAATTTGGGAAAAACTTTTCGGGTCAG
129 ACGTTGAATTATATATTTTTTCCGAGTACTATGACAAAAAATCTGGGAAAAACGTTTCGGGTCAG
*
88775 TTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGACTTTTGGCTAAAAACGCGTTCT
194 ---TT-----ATTTTAACCGAAATCGTGTACTAACCATCACGACTTTTGACTAAAAACGCGTTCT
*
88840 AGAGCCCCGACTCAATTTTGCATAATTTTTAGCACAAAGACTCATTAAAGTATCTATATTCATCG
251 AGAGCCACGACTCAATTTTGCATAATTTTTAGCACAAAGACTCATTAAAGTATCTATATTCATCG
88905 AAACAAAT
316 AAACAAAT
* * * *
88913 GTCAGCCACATTGGATATAAGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAG
1 CTTAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* * * *
88978 AAATTAATTCAGAAAAAATA-GAAAAGCGATATTATACGCGTGAAAAGCCCATCAATCTTTTTGG
66 AAATTAATTCAGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC-TCAATCTTTTTGA
*
89042 CGTTGAATTATATATTTTTTCCGAGTACTGTGACAAAAAA-CTGGGAATAAACGTTTCGGGTCAG
130 CGTTGAATTATATATTTTTTCCGAGTACTATGACAAAAAATCTGGGAA-AAACGTTTCGGGTCAG
* * ** * *
89106 -T-TTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTGACTAAAAATGCGTTC-AGGGGCCA
194 TTATTTTAACCGAAATCGTGTACTAACCATCACGACTTTTGACTAAAAACGCGTTCTA-GAGCCA
* ** * * * * * * *
89168 CGGCTCTGTTTTGCATGATTTTTGGCGTC-AAGACTCCTTGAAA-TATCTTTATTCATCTAATCA
258 CGACTCAATTTTGCATAATTTTTAGC-ACAAAGACTCATT-AAAGTATCTATATTCATCGAAACA
89231 AAT
321 AAT
* * * *
89234 CTTAGCCACATTGGATTTAAGGATTTATTTTTACGTGCATCTGAATTTTGTTTCGATTTAATTAG
1 CTTAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* * **
89299 AAATTAATTCAAATAAAAAAGTATGAAAAACGATATTAAAAGCGTGAAAAGTACTCCAATCTTTT
66 AAATTAATTC--AGAAAAAA-TAGGAAAAACGATATTAAAAGCGTGAAAAGCCCT-CAATCTTTT
* *
89364 TGACATTGAATTATATATATTTT
127 TGACGTTGAATTATATATTTTTT
89387 ATGAGTATTT
Statistics
Matches: 405, Mismatches: 58, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
320 1 0.00
321 168 0.41
322 4 0.01
323 7 0.02
324 3 0.01
325 54 0.13
327 1 0.00
330 61 0.15
331 106 0.26
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (323 bp):
CTTAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
AAATTAATTCAGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCCTCAATCTTTTTGAC
GTTGAATTATATATTTTTTCCGAGTACTATGACAAAAAATCTGGGAAAAACGTTTCGGGTCAGTT
ATTTTAACCGAAATCGTGTACTAACCATCACGACTTTTGACTAAAAACGCGTTCTAGAGCCACGA
CTCAATTTTGCATAATTTTTAGCACAAAGACTCATTAAAGTATCTATATTCATCGAAACAAAT
Found at i:89911 original size:54 final size:54
Alignment explanation
Indices: 89829--89939 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
89819 ACCTAGTTAC
89829 TCTACCATATGAATTCATTAAGAAACATTTTAAGCCAGATACAGAAATTGTGAT
1 TCTACCATATGAATTCATTAAGAAACATTTTAAGCCAGATACAGAAATTGTGAT
89883 TCTACCATATGAATTCATTAAGAAACATTTTAAGCCAGATACAGAAATTGTGAT
1 TCTACCATATGAATTCATTAAGAAACATTTTAAGCCAGATACAGAAATTGTGAT
89937 TCT
1 TCT
89940 TCAAGTTGCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (54 bp):
TCTACCATATGAATTCATTAAGAAACATTTTAAGCCAGATACAGAAATTGTGAT
Found at i:101835 original size:10 final size:10
Alignment explanation
Indices: 101820--101845 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
101810 TTGTACTTTG
101820 TGTATTACTA
1 TGTATTACTA
101830 TGTATTACTA
1 TGTATTACTA
101840 TGTATT
1 TGTATT
101846 CTTTGTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.54
Consensus pattern (10 bp):
TGTATTACTA
Found at i:102538 original size:20 final size:19
Alignment explanation
Indices: 102508--102545 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
102498 TTGCTGTCTT
102508 GTTTTGCTGCTGTTTTTGC
1 GTTTTGCTGCTGTTTTTGC
102527 GTTTTAGCTGCTGTTTTTG
1 GTTTT-GCTGCTGTTTTTG
102546 AGTACCAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.03, C:0.13, G:0.26, T:0.58
Consensus pattern (19 bp):
GTTTTGCTGCTGTTTTTGC
Found at i:108725 original size:14 final size:14
Alignment explanation
Indices: 108708--108741 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
108698 AAAAAGATTT
*
108708 AAAAAAAAACGCAG
1 AAAAAAAAACCCAG
108722 AAAAAAAAACCCAG
1 AAAAAAAAACCCAG
108736 AAAAAA
1 AAAAAA
108742 TAGCGGGTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.76, C:0.15, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACCCAG
Found at i:109066 original size:22 final size:21
Alignment explanation
Indices: 109021--109068 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
109011 TGCCCCTCCA
*
109021 TGATTTTAGATGTTGTTGGGT
1 TGATTTTAGATGTTGTTGGAT
* *
109042 TGATTTTTGATGTTGTTTTGAT
1 TGATTTTAGATGTTG-TTGGAT
109064 TGATT
1 TGATT
109069 AAGGTTGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (21 bp):
TGATTTTAGATGTTGTTGGAT
Found at i:116320 original size:33 final size:33
Alignment explanation
Indices: 116278--116345 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
116268 TGGATGATGA
116278 AAGTTAGGAGAAGGAATTGAGTCCAAAAAAACC
1 AAGTTAGGAGAAGGAATTGAGTCCAAAAAAACC
116311 AAGTTAGGAGAAGGAATTGAGTCCAAAAAAACC
1 AAGTTAGGAGAAGGAATTGAGTCCAAAAAAACC
116344 AA
1 AA
116346 AAAAAATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.50, C:0.12, G:0.24, T:0.15
Consensus pattern (33 bp):
AAGTTAGGAGAAGGAATTGAGTCCAAAAAAACC
Found at i:118256 original size:29 final size:30
Alignment explanation
Indices: 118217--118290 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
118207 AAATTGCAAA
* * *
118217 TTCAAGGGGCAAAATGTCTAAAGT-TA-AAG
1 TTCAGGGGGCAAAACGTC-AAAATATACAAG
*
118246 TTTAGGGGGCAAAACGTCAAAATCATACAAG
1 TTCAGGGGGCAAAACGTCAAAAT-ATACAAG
118277 TTCAGGGGGCAAAA
1 TTCAGGGGGCAAAA
118291 AAGGGCTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.11
29 15 0.41
30 2 0.05
31 16 0.43
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.20
Consensus pattern (30 bp):
TTCAGGGGGCAAAACGTCAAAATATACAAG
Found at i:122232 original size:6 final size:6
Alignment explanation
Indices: 122221--122265 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
122211 GACAGGGTAC
* *
122221 ATATCT ATATCT ATATCT ATATTT ATATCT ATATTT ATA-CT ATAT
1 ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATAT
122266 TAAAAAGTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (6 bp):
ATATCT
Found at i:122238 original size:12 final size:12
Alignment explanation
Indices: 122221--122266 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
122211 GACAGGGTAC
*
122221 ATATCTATATCT
1 ATATCTATATTT
122233 ATATCTATATTT
1 ATATCTATATTT
122245 ATATCTATATTT
1 ATATCTATATTT
122257 ATA-CTATATT
1 ATATCTATATT
122267 AAAAAGTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 7 0.21
12 26 0.79
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (12 bp):
ATATCTATATTT
Found at i:127972 original size:322 final size:320
Alignment explanation
Indices: 126904--128487 Score: 1720
Period size: 322 Copynumber: 4.9 Consensus size: 320
126894 CTTTCATGGT
* * * * * *
126904 TTTTTGGCTAAAAACTCGTTCCGGAGTCCCGACTCAATTTTGCATGATTTTTGGCTA-AAA-ACT
1 TTTTTGGCTAAAAACGCGTTTCGG-GCCCCGACTCAGTTTTGAATAATTTTTGGC-AGAAAGACT
* * * *
126967 CCTTGAAATATCTGTATTTATCGAACCAAATCTCAGCCACATTGTATATAAGAATTTGTTTTTAC
64 CATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGTATATAAGAATTTGTTTTTAC
*
127032 GAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATAATGGAAATACGAT
129 GAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATAATGGAAAAACGAT
* *
127097 ATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGTGTTGAATTATATATTTTTCTGAATATTTTG
194 ATTAGAAGCGTGAAAAGGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTCTGAATATTTTG
*
127162 CAAAAAAA-TGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCATATACTAATCATCACGG
259 CAAAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCATGTACT-A-CATCACGG
* * * * *
127225 TTTTTGGCTAAAAATGTGTTTCGGGTCCCAACTCAGTTTTGCATAATTTTTGGC-GAAAAGACTC
1 TTTTTGGCTAAAAACGCGTTTCGGGCCCCGACTCAGTTTTGAATAATTTTTGGCAG-AAAGACTC
* * * * * *
127289 -TGTGAAATATCTATATTCATTTAACCAAATCTCAGACACAATGGATTTAAGGATTTGTTTTTAC
65 AT-TGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGTATATAAGAATTTGTTTTTAC
* * **
127353 GAGCATCTCAATCTTAATTTCGATTTAATTAGAAAGAAATTCGG--AAAAA-AA-GGAAAAACGA
129 GAGCATCTAAATCTT-GTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATAATGGAAAAACGA
* * * * * *
127414 TACTAGAAGCATGAAAA--CTCTTCAATTTTTTTGGCGTTAAATTATATATTTTTCTGAGTATTG
193 TATTAGAAGCGTGAAAAGGC-CGTCAATCTTTTTGGCGTTGAATTATATATTTTTCTGAATATT-
* * * * **
127477 TGGC-AAAAAATTGGGGAAAACTTTTCGGGTCAGTTTTTTGCAAAATTTTAACCGAAATTGTGTA
256 TTGCAAAAAAATTGAGAAAAACTTTTCGGGTCAG-----T------TTTTAGCCGAAATCATGTA
*
127541 CTAACCATCACGA
310 CT-A-CATCACGG
* * * * * *
127554 CTTTTGGTTAAAAGCGCGTTACGGAGCCCCGACTCAATTTTGCATAATTTTTGGTGCA-AAA-AC
1 TTTTTGGCTAAAAACGCGTTTCGG-GCCCCGACTCAGTTTTGAATAATTTTT-G-GCAGAAAGAC
* * * * *
127617 TCATTGAAATATCTATATTCATCGAATCAAATCTCAGTCACATTGTATATAATAATTTGGTTTTA
63 TCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGTATATAAGAATTTGTTTTTA
* * *
127682 CGATCATTTAAATCTTGTTTCGATTTAAATAGAAATTAATTCGGAAAAAAATAATGGAAAAACGA
128 CGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATAATGGAAAAACGA
*
127747 TATTAGAAGCATGAAAAGGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTT
193 TATTAGAAGCGTGAAAAGGCCGTCAATCTTTTTGGCGTTGAATTATATA-TTTTTCTGAATATTT
127812 TGCAAAAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCATGTACT-CATCACGG
257 TGC-AAAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCATGTACTACATCACGG
* * * * * * ** *
127876 TTTTTTGCTAAAAACACGTTTCATGGCCCCGGCTTAGTTTTGAATGAGGTTTGGCAGAAAGACTT
1 TTTTTGGCTAAAAACGCGTTTC-GGGCCCCGACTCAGTTTTGAATAATTTTTGGCAGAAAGACTC
* *
127941 ATTGAAAT-TCCTATATTCATCTAAGCAAATCTCAGCCACATTGTACATAAGAATTTGTTTTTAC
65 ATTGAAATAT-CTATATTCATCTAACCAAATCTCAGCCACATTGTATATAAGAATTTGTTTTTAC
* * *
128005 GAGCATCTATATCTTGTTTCGATTTAATTAGAAATTACTTC--AAGAAAATAAAT-GAAAAATCG
129 GAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAAT-AATGGAAAAA-CG
* *
128067 ATATTAGAAACGTGAAATGGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTCTGAATATTT
192 ATATTAGAAGCGTGAAAAGGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTCTGAATATTT
*
128132 TGCAAAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCACGTACTAACCATCACG
257 TGCAAAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCATGTACT-A-CATCACG
128197 G
320 G
* * * * * * * * *
128198 GTTGTGGCTAAAAACGCGTTTCATGGCGCTGGCTTAGTTTTGAATGATTTTTGGTAGAAAGACTC
1 TTTTTGGCTAAAAACGCGTTTC-GGGCCCCGACTCAGTTTTGAATAATTTTTGGCAGAAAGACTC
* * * * * * *
128263 CTTGAAATATCTATATTCATCTAACCAAACCTCAGCCTCAATGGATTTAA-AGATTTGATTTTAC
65 ATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGTATATAAGA-ATTTGTTTTTAC
* * *
128327 GGGCATCTGAAA-CTTTGTTTTGATTTAATTAGAAATAAATTCGGAGAAAAAA-AAT-GAAAATA
129 GAGCATCT-AAATC-TTGTTTCGATTTAATTAGAAATTAATTCGGA-AAAAAATAATGGAAAA-A
* * * * * *
128389 CGATATTAGAAGCGTGAAAAAGCCTTCAATTTTTTTGGCGTTGAATTGTATATTTTTTCTCAGTA
190 CGATATTAGAAGCGTGAAAAGGCCGTCAATCTTTTTGGCGTTGAATTATATA-TTTTTCTGAATA
* * *
128454 TTGTGGAAAAAAATTGAGGAAAAACCTTTCGGGT
254 TTTTGCAAAAAAATTGA-GAAAAACTTTTCGGGT
128488 ATATTTTTAC
Statistics
Matches: 1069, Mismatches: 142, Indels: 99
0.82 0.11 0.08
Matches are distributed among these distances:
316 1 0.00
317 44 0.04
318 47 0.04
319 53 0.05
320 70 0.07
321 149 0.14
322 285 0.27
323 30 0.03
324 54 0.05
325 45 0.04
326 20 0.02
329 68 0.06
330 92 0.09
331 11 0.01
332 4 0.00
333 26 0.02
334 29 0.03
335 14 0.01
336 27 0.03
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (320 bp):
TTTTTGGCTAAAAACGCGTTTCGGGCCCCGACTCAGTTTTGAATAATTTTTGGCAGAAAGACTCA
TTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGTATATAAGAATTTGTTTTTACGA
GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATAATGGAAAAACGATAT
TAGAAGCGTGAAAAGGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTCTGAATATTTTGCA
AAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCATGTACTACATCACGG
Found at i:129211 original size:101 final size:101
Alignment explanation
Indices: 129084--129269 Score: 252
Period size: 101 Copynumber: 1.8 Consensus size: 101
129074 AACGATATTA
* * *
129084 GAAACGTGAAAAACCCGTCAATTTTTTTGGCATTGAATTATATATTTTTTCTAAATATT-TTGCG
1 GAAACGTGAAAAACCCGTCAATTTTTTTGGCATTAAATT-T-TATTTTTTCTAAATATTGTGGCA
129148 AAAAATT-GACAAAAACTTTTCGGGAGAGTTTTTAGCC
64 AAAAATTGGACAAAAACTTTTCGGGAGAGTTTTTAGCC
* * * * *
129185 GAAATCGTG-AAAATCCTTCAATTTTTTTGGCGTTAAATTTTTTTTTTTCTAAGTATTGTGGCAA
1 GAAA-CGTGAAAAACCCGTCAATTTTTTTGGCATTAAATTTTATTTTTTCTAAATATTGTGGCAA
129249 AAAATTGGACAAAAACTTTTC
65 AAAATTGGACAAAAACTTTTC
129270 AAGTCAGTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
99 15 0.20
100 11 0.15
101 44 0.59
102 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (101 bp):
GAAACGTGAAAAACCCGTCAATTTTTTTGGCATTAAATTTTATTTTTTCTAAATATTGTGGCAAA
AAATTGGACAAAAACTTTTCGGGAGAGTTTTTAGCC
Found at i:130389 original size:657 final size:655
Alignment explanation
Indices: 129288--132840 Score: 3888
Period size: 657 Copynumber: 5.4 Consensus size: 655
129278 TTTTGCAAAA
* * * * * * *
129288 TTTTAGCCGAAATCGTGTTCTAATCATCACGGCTTTTGGCTAAAAACTCGTTACGGAGCCCCGGC
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGG-GCCCCGAC
* * * * * *
129353 TCAATTTTGCATAATTTTTGGCACAAAAACTCATTGAAATATCTATATTCATCGAACCAAATCTC
65 TCAGTTTTGCATAATTTTTGGAAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTC
* * * * * * * *
129418 AGTCACATTGTATATAAAAATTTGCTTTTACGAGCATCT-AAA-TCTTGTTTCGATTTAATTCGA
130 A-ACACAATGGATTTAAAGATTTGATTTTACGAGCATCTGAAACT-TTATTTCGATTTAATTAGA
* * * * ** * * *
129481 AATTAATTCGAAAAAATATAATGGAAAAACAATATTAGAAGCATGAAAAGGCCGTCAATCTTTTC
193 AATAAATTCGGAAAAA-A-AATGAAAAAACGATATTAGAAGCATGAAAAACCCTTCAATTTTTTT
* * * * * * *
129546 GGCGTTGAATTATATATTTTTTCTAAATATT-TTGAAAAATATTGAGAAAAAACTTTTTGGGTC-
256 GGCGTTGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTGAGGAAAAACTTTTCGGATCA
* ** * * *
129609 A-----G----TTTTTAGCCGAAATAATGTATTAACTATCACGGTTTTTTGGCTAAAAACGCGTT
321 ATTTCTGCAAAATTTTAGCCGAAATCGTGTACTAACTATCATGATTTTTTGGCTAAAAACGCGTT
* ** * * * * *
129665 TC--ATGGCCCTGGCTTAGTTTTGAATGAGTTTTGGCATAAAGACTCCTTGAAATATCTATATTC
386 CCGGA-GTTCC-GGCTCAATTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTC
** * * *
129728 ATCGAGTCAAATCTCAGTCGCATTGTATATAAGAATTTGTTTTTACAAGCATCTAAATCTTGTTT
449 ATCGAACCAAATCTCAGACACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTT
* * * *
129793 CGATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAAAACAATATTAGAAGCATGAAATGGCC
514 CGATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAAAACGATATTAGAAGCGTGAAAAGCCC
129858 GTCAATCTTTTTGGCGTTGAATTATATA-TTTTTCTGAATATTTTGCAAAAAAATTGAGAAAAAC
579 GTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTGC-AAAAAATTGAGAAAAAC
*
129922 TTTTCGGGTAAGT
643 TTTTCGGGTCAGT
* * * *
129935 TTTTAGCTGAAATCATGTACTAACCATCACGGGTTTTGGCTAAAAACGCGTTTCATGGCCTCGAC
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTC-GGGCCCCGAC
* * *
130000 TTAGTTTTGAATGATTTTTGGAAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTC
65 TCAGTTTTGCATAATTTTTGGAAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTC
*
130065 AACCACAATGGATTTAAAGATTTGATTTTACGAGCATCTGAAACTTTATTTTGATTTAATTAGAA
130 AA-CACAATGGATTTAAAGATTTGATTTTACGAGCATCTGAAACTTTATTTCGATTTAATTAGAA
* * *
130130 ATAAATTCGGGGAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCTTTAA-TTTTTTGG
194 ATAAATTC-GGAAAAAAAATGAAAAAACGATATTAGAAGCATGAAAAACCCTTCAATTTTTTTGG
** * * *
130194 TTTTGAATTATATATTTTTTCTTAGTATTGTGG-AAAAAATTGAGAAAAAACCTTTCGGATCAAT
258 CGTTGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTGAGGAAAAACTTTTCGGATCAAT
*
130258 TTCTGCAAAATTTTAGCCGAAATCGTGTAATAACTATCATGATTTTTTTGGCTAAAAACGCGTTC
323 TTCTGCAAAATTTTAGCCGAAATCGTGTACTAACTATCATGA-TTTTTTGGCTAAAAACGCGTTC
* * *
130323 CGGAGTTCCGCCTCAATTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATTTGTATTCATC
387 CGGAGTTCCGGCTCAATTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATC
* * *
130388 GAACCAAATCTCA-ACAACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCG
452 GAACCAAATCTCAGAC-ACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCG
* * *
130452 ATTTAATTAGAAATTAATTCGG-AAAAA-GATGGAAAAATGATATTAGAAGCGTGAAAAACCCGT
516 ATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGT
* * * *
130515 CAATTTTTTTGGCGTTGAATTATCTATTTTTTCTAAATATTTTGCAAAAAATTGAGAAACACTTT
581 CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAGAAAAACTTT
* *
130580 TCGGTTTAGT
646 TCGGGTCAGT
* * ** * * *
130590 TATTCGCCGAAATTGTGTACT-A--ATCATGGTTTTTGGCTAAAAATGTGTTTCGGG---C--C-
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGCCCCGACT
* *
130646 CAGTTTTGCATAATTTTTGG-CGAAAAGACTCCTTGAAATATCTATATTCATTTAACCAAATCTC
66 CAGTTTTGCATAATTTTTGGAAG-AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTC
* * * * *
130710 AGACACAATGGATTTAAGGATTTGTTTTTACGAGCATCT-CAATTTTAATTTCGATTTAATAAGA
130 A-ACACAATGGATTTAAAGATTTGATTTTACGAGCATCTGAAACTTT-ATTTCGATTTAATTAGA
* * *
130774 AATAAATTC-GAAAGAAAAA-GGAAAAACTATATTAGAAGCATG-AAAACGCTTCAATTTTTTTG
193 AATAAATTCGGAAA-AAAAATGAAAAAACGATATTAGAAGCATGAAAAACCCTTCAATTTTTTTG
* *
130836 GCG-TGAAATTATATA-TTTTTCTGAGTATTGTGGCAAAAAAATTGGGGAAAAACTTTTC-AAGT
257 GCGTTG-AATTATATATTTTTTCTGAGTATTGTGG-AAAAAAATTGAGGAAAAACTTTTCGGA-T
* * * * * * * *
130898 CAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGA-CTTTTGGTTAACAGCGC
319 CA-ATTTCTGCAAAATTTTAGCCGAAATCGTGTACTAACTATCATGATTTTTTGGCTAAAAACGC
** * * * * *
130962 GTTCCGGAGCCCCGACTCAATTTTGTATAATTTTTGGCGCAAAGACTCATTGAAATATCTATATT
383 GTTCCGGAGTTCCGGCTCAATTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATT
* * * * *
131027 CATCGAATCAAATCTCAGCCACATTGTATATAAGAAGTTGGTTTTACGAGCATTTAAATCTTGTT
448 CATCGAACCAAATCTCAGACACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTGTT
* *
131092 TCGATTTAAATA-AAATTAATTCGGGAAAAAAGTAATGGAAAAACGATATTAGAAGCATGAAAAG
513 TCGATTTAATTAGAAATTAATTC-GGAAAAAA-TAATGGAAAAACGATATTAGAAGCGTGAAAAG
* **
131156 GCCGTCAATCTTTTTGATGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAGAAAA
576 CCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAG--AA
*
131221 AAACTTTTCAGGTCAGT
639 AAACTTTTCGGGTCAGT
* * * * *
131238 TTTTAGCCGAAATCATGTACGAACCATCACGGTTTTTAGCGAAAAACGCGTTTCATGTCCCCGAC
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTC-GGGCCCCGAC
* * * * *
131303 TTAGTTTTGAATGATTTTT-GACAGAATGACTCCTTGAAATACCTATATTCATCTAACCAAATCT
65 TCAGTTTTGCATAATTTTTGGA-AGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
* * * * * *
131367 CAGCCACAATGGATTTAAGGATTTGATCTTACGAGCATCTGAATCTTTCTTTTGATTTAATTAGA
129 CA-ACACAATGGATTTAAAGATTTGATTTTACGAGCATCTGAAACTTTATTTCGATTTAATTAGA
* *
131432 AATAAATTCGGGAAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAAGCCTTCAATTTTTTTT
193 AATAAATTC-GGAAAAAAAATGAAAAAACGATATTAGAAGCATGAAAAACCCTTCAA-TTTTTTT
* * * *
131497 GGCGTTGAACTGTATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGAT-A
256 GGCGTTGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTGAGGAAAAACTTTTCGGATCA
*
131561 TATTTTTGCAAAATTTTAGTCGAAATCGTGTACTTTTTTTTTTGCCAACGAAATCGTGTACTAAC
321 -A--TTT-C-------T-G-C-AAA------A------TTTTAG-C--CGAAATCGTGTACTAAC
* * * * * * * * *
131626 TTTCGTGGTTTTTTGGCTAAAAACGCGTTCCGGAATTCCGTCTTAGTTTTGTATGAGTTTTGGCA
357 TATCATGATTTTTTGGCTAAAAACGCGTTCCGGAGTTCCGGCTCAATTTTGCATGATTTTTGGC-
* * * *
131691 G-AAAGACTCATTGAAATATCTATATTCATAGAGCCAAATCTCAGCCACATTGTATATAAGAATT
421 GTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGACACATTGTATATAAGAATT
*
131755 TGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATAATGGT
486 TGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATAATGGA
* * * ** *
131820 AATACGATACTAGAAGCGTGAAAAGCCCGCCAATCAATTTGGCATTGAATTATATA-TTTTTCTG
551 AAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTG
*
131884 AATACTTTGCAAAAAATAATGAGAAAAACTTTTCGGGTCAGT
616 AATATTTTGCAAAAAAT--TGAGAAAAACTTTTCGGGTCAGT
* * * * ** * *
131926 TTTTAGCTGAAATCATATACTAACCATTACGTTTTTTTCCTAAAAGCGCGTTTCGGGTCCCGACT
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGCCCCGACT
* *
131991 CAGTTTTGCATGATTTTT-GACAGAAAGACTCTTTGAAATATCTATATTCATCTAACCAAATCTC
66 CAGTTTTGCATAATTTTTGGA-AGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTC
* * * ** * * * *
132055 AGGCACAATGCATTTAAAAATTTGATTTTATAAGCATCTGAATCATAATTT-GATTTAATTATAA
130 A-ACACAATGGATTTAAAGATTTGATTTTACGAGCATCTGAAACTTTATTTCGATTTAATTAGAA
* *
132119 ATAAATTCCGGGAAAAAAAAT-AAAAAACGATATTAGAAG-AGTGAAAAATCCTTTAATTTTTTT
194 ATAAATT-C-GGAAAAAAAATGAAAAAACGATATTAGAAGCA-TGAAAAACCCTTCAATTTTTTT
** * *
132182 GAAGTTGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTGAGGAAAAACCTTTCGGGTCA
256 GGCGTTGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTGAGGAAAAACTTTTCGGATCA
*
132247 ATTTCTGCAAAATTTTAGCCGAAATCTTGTACTAACTATCATGATTTTTTGGCTAAAAACGCGTT
321 ATTTCTGCAAAATTTTAGCCGAAATCGTGTACTAACTATCATGATTTTTTGGCTAAAAACGCGTT
* *
132312 CCGGAGTTCCGGCTCAATTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATTTGTATTCAT
386 CCGGAGTTCCGGCTCAATTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCAT
* * * *
132377 CGAACCAAATCTCA-ACAACATAGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTC
451 CGAACCAAATCTCAGAC-ACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTC
* * *
132441 GATTTAATTAGAAATTAATTCGG-AAAAA-AATGGAAAAATGATATTATAAGCGTGAAAAGCCCC
515 GATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCG
* * * * *
132504 TCAATTTTTTTGGCGTTGAATTATCTATTTTTTCTAAAAATTTTGCAAAAAATTGAGAAACACTT
580 TCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAGAAAAACTT
*
132569 TTCGGGTTAGT
645 TTCGGGTCAGT
** * * * * *
132580 TTTTCA-CCGAAATTGTGTACTAATCATCATGGTTTTTGACTAAAAATGTC-TTTCGGGCCCCGG
1 TTTT-AGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACG-CGTTTCGGGCCCCGA
* * *
132643 CTCAGTTTTGCATAATTTTAGG-CGAAAAGACTCCTTGAAATATCTATATTCATTTAACCAAATC
64 CTCAGTTTTGCATAATTTTTGGAAG-AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
* * * * * *
132707 TCAGACACAATGGATTTAAGGATTTGTTTTTATGAGCATCTCAATCTTAATTTCGATTTAATTAG
128 TCA-ACACAATGGATTTAAAGATTTGATTTTACGAGCATCTGAAACTTTATTTCGATTTAATTAG
* *
132772 AAATAAAATCGGAAAAGAAAA-GGAAAAACGATATTAGAAGCATG-AAAACCCTTCAATTTTTTT
192 AAATAAATTCGGAAAA-AAAATGAAAAAACGATATTAGAAGCATGAAAAACCCTTCAATTTTTTT
132835 GGCGTT
256 GGCGTT
132841 TTTTTGCAAA
Statistics
Matches: 2448, Mismatches: 352, Indels: 206
0.81 0.12 0.07
Matches are distributed among these distances:
642 39 0.02
643 178 0.07
644 40 0.02
645 155 0.06
646 139 0.06
647 176 0.07
648 61 0.02
649 7 0.00
651 26 0.01
652 27 0.01
653 28 0.01
654 191 0.08
655 169 0.07
656 79 0.03
657 322 0.13
658 115 0.05
659 12 0.00
660 29 0.01
661 11 0.00
662 41 0.02
663 24 0.01
666 1 0.00
671 1 0.00
672 4 0.00
673 2 0.00
674 4 0.00
675 1 0.00
680 1 0.00
682 1 0.00
683 3 0.00
685 63 0.03
686 56 0.02
687 122 0.05
688 87 0.04
689 72 0.03
690 150 0.06
691 11 0.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (655 bp):
TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGCCCCGACT
CAGTTTTGCATAATTTTTGGAAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCA
ACACAATGGATTTAAAGATTTGATTTTACGAGCATCTGAAACTTTATTTCGATTTAATTAGAAAT
AAATTCGGAAAAAAAATGAAAAAACGATATTAGAAGCATGAAAAACCCTTCAATTTTTTTGGCGT
TGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTGAGGAAAAACTTTTCGGATCAATTTC
TGCAAAATTTTAGCCGAAATCGTGTACTAACTATCATGATTTTTTGGCTAAAAACGCGTTCCGGA
GTTCCGGCTCAATTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAAC
CAAATCTCAGACACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTA
ATTAGAAATTAATTCGGAAAAAATAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATC
TTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAGAAAAACTTTTCGGG
TCAGT
Found at i:131342 original size:325 final size:320
Alignment explanation
Indices: 129288--131557 Score: 2193
Period size: 325 Copynumber: 7.0 Consensus size: 320
129278 TTTTGCAAAA
* * * * * * *
129288 TTTTAGCCGAAATCGTGTTCTAATCATCACGGCTTTTGGCTAAAAACTCGTTACGGAGCCCCGGC
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTC--AGCCCCGAC
* * * * * *
129353 TCAATTTTGCATAATTTTTGGC-ACAAAAACTCATTGAAATATCTATATTCATCGAACCAAATCT
64 TTAGTTTTGAATGATTTTTGGCGA-AAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * *
129417 CAGTCACATTGTATATAAAAATTTGCTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTCGAA
128 CAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTATTTCGATTTAATTAGAA
* * * *
129482 ATTAATTCGAAAAAATATAATGGAAAAACAATATTAGAAGCATGAAAAGGCCGTCAATCTTTTCG
193 ATTAATTCGGAAAAA-A-AATGGAAAAACGATATTAGAAGCATGAAAAAGCCGTCAATCTTTTTG
* **
129547 GCGTTGAATTATATATTTTTTCTAAATATTTTG-AAAAATATTGAGAAAAAACTTTTTGGGTCAG
256 GCGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAA-ATTGAGAAAAAACTTTTCAGGTCAG
129611 T
320 T
* * * * *
129612 TTTTAGCCGAAATAATGTATTAACTATCACGGTTTTTTGGCTAAAAACGCGTTTCATGGCCCTGG
1 TTTTAGCCGAAATCATGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTTCA--GCCCCGA
* **
129677 CTTAGTTTTGAATGAGTTTTGGC-ATAAAGACTCCTTGAAATATCTATATTCATCGAGTCAAATC
63 CTTAGTTTTGAATGATTTTTGGCGA-AAAGACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * * *
129741 TCAGTCGCATTGTATATAAGAATTTGTTTTTACAAGCATCTAAATCTTGTTTCGATTTAATTAGA
127 TCAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTATTTCGATTTAATTAGA
* **
129806 AATTAATTCGGAAAAAATAATGGAAAAACAATATTAGAAGCATGAAATGGCCGTCAATCTTTTTG
192 AATTAATTCGGAAAAAA-AATGGAAAAACGATATTAGAAGCATGAAAAAGCCGTCAATCTTTTTG
* *
129871 GCGTTGAATTATATA-TTTTTCTGAATATTTTGCAAAAAAATTGAG-AAAAACTTTTCGGGTAAG
256 GCGTTGAATTATATATTTTTTCTGAATATTTTGC-AAAAAATTGAGAAAAAACTTTTCAGGTCAG
129934 T
320 T
* * *
129935 TTTTAGCTGAAATCATGTACTAACCATCACGGGTTTTGGCTAAAAACGCGTTTCATGGCCTCGAC
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCA--GCCCCGAC
* *
130000 TTAGTTTTGAATGATTTTTGG-AAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
64 TTAGTTTTGAATGATTTTTGGCGA-AAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * * *
130064 CAACCACAATGGATTTAA-AGATTTGATTTTACGAGCATCTGAAA-CTTTATTTTGATTTAATTA
128 CAGCCACATTGTATATAAGA-ATTTGTTTTTACGAGCATCT-AAATC-TTATTTCGATTTAATTA
* * * * * * *
130127 GAAATAAATTCGGGGAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCTTTAAT-TTTT
190 GAAATTAATTC-GGAAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAAGCCGTCAATCTTTT
** * * * * *
130191 TGGTTTTGAATTATATATTTTTTCTTAGTATTGTGGAAAAAATTGAGAAAAAACCTTTC-GGATC
254 TGGCGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAGAAAAAACTTTTCAGG-TC
*
130255 AATTTCTGCAAAA
318 -A-----G----T
* * * * * * **
130268 TTTTAGCCGAAATCGTGTAATAACTATCATGATTTTTTTGGCTAAAAACGCGTTCCGGAGTTCCG
1 TTTTAGCCGAAATCATGTACTAACCATCACG--GTTTTTGGCTAAAAACGCGTTTC--AGCCCCG
* * * * * * *
130333 CCTCAATTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATTTGTATTCATCGAACCAAATC
62 ACTTAGTTTTGAATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * * *
130398 TCAACAACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGA
127 TCAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTATTTCGATTTAATTAGA
* * * * *
130463 AATTAATTCGG-AAAAAGATGGAAAAATGATATTAGAAGCGTGAAAAACCCGTCAATTTTTTTGG
192 AATTAATTCGGAAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAAGCCGTCAATCTTTTTGG
* * * *
130527 CGTTGAATTATCTATTTTTTCTAAATATTTTGCAAAAAATTGAG-AAACACTTTTC-GGTTTAGT
257 CGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAGAAAAAACTTTTCAGG-TCAGT
* * ** * * * **
130590 TATTCGCCGAAATTGTGTACT-A--ATCATGGTTTTTGGCTAAAAATGTGTTTC-GGGCC--C--
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGCCCCGACTT
* * **
130647 AGTTTTGCATAATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATTTAACCAAATCTCAG
66 AGTTTTGAATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAG
* * * * * * * *
130712 ACACAATGGATTTAAGGATTTGTTTTTACGAGCATCTCAATTTTAATTTCGATTTAATAAGAAAT
131 CCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTT-ATTTCGATTTAATTAGAAAT
* * * * *
130777 AAATTC-GAAAGAAAAA-GGAAAAACTATATTAGAAGCATGAAAACG-CTTCAATTTTTTTGGCG
195 TAATTCGGAAA-AAAAATGGAAAAACGATATTAGAAGCATGAAAAAGCCGTCAATCTTTTTGGCG
* * * * *
130839 -TGAAATTATATA-TTTTTCTGAGTATTGTGGCAAAAAAATTGGGGAAAAACTTTTCAAGTCAGT
259 TTG-AATTATATATTTTTTCTGAATATT-TTGC-AAAAAATTGAGAAAAAACTTTTCAGGTCAG-
130902 TTTTT
320 ----T
* ** * * * *
130907 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGACTTTTGGTTAACAGCGCGTTCCGGAGC
1 ------TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTC--AGC
* * * * * * *
130972 CCCGACTCAATTTTGTATAATTTTTGGCGCAAAGACTCATTGAAATATCTATATTCATCGAATCA
58 CCCGACTTAGTTTTGAATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAACCA
* * * * *
131037 AATCTCAGCCACATTGTATATAAGAAGTTGGTTTTACGAGCATTTAAATCTTGTTTCGATTTAAA
123 AATCTCAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTATTTCGATTTAAT
*
131102 TA-AAATTAATTCGGGAAAAAAGTAATGGAAAAACGATATTAGAAGCATGAAAAGGCCGTCAATC
188 TAGAAATTAATTC-GGAAAAAA--AATGGAAAAACGATATTAGAAGCATGAAAAAGCCGTCAATC
**
131166 TTTTTGATGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAGAAAAAAACTTTTCA
250 TTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAG-AAAAAACTTTTCA
131231 GGTCAGT
314 GGTCAGT
* * *
131238 TTTTAGCCGAAATCATGTACGAACCATCACGGTTTTTAGCGAAAAACGCGTTTCATGTCCCCGAC
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCA-G-CCCCGAC
* * * *
131303 TTAGTTTTGAATGATTTTTGAC-AGAATGACTCCTTGAAATACCTATATTCATCTAACCAAATCT
64 TTAGTTTTGAATGATTTTTGGCGA-AAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * * * * * *
131367 CAGCCACAATGGATTTAAGGATTTGATCTTACGAGCATCTGAATCTTTCTTTTGATTTAATTAGA
128 CAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATC-TTATTTCGATTTAATTAGA
* * * * *
131432 AATAAATTCGGGAAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAAGCCTTCAATTTTTTTT
192 AATTAATTC-GGAAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAAGCCGTCAA-TCTTTTT
* * * * *
131497 GGCGTTGAACTGTATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAG
255 GGCGTTGAATTATATATTTTTTCTGAATATT-TTGCAAAAAATTGAGAAAAAACTTTTCAG
131558 ATATATTTTT
Statistics
Matches: 1617, Mismatches: 253, Indels: 150
0.80 0.13 0.07
Matches are distributed among these distances:
309 14 0.01
310 122 0.08
311 60 0.04
312 18 0.01
313 1 0.00
314 3 0.00
317 20 0.01
319 6 0.00
321 2 0.00
322 167 0.10
323 166 0.10
324 104 0.06
325 333 0.21
326 80 0.05
327 32 0.02
329 4 0.00
331 12 0.01
332 67 0.04
333 168 0.10
334 30 0.02
335 150 0.09
336 42 0.03
337 16 0.01
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (320 bp):
TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGCCCCGACTT
AGTTTTGAATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAG
CCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTATTTCGATTTAATTAGAAATT
AATTCGGAAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAAGCCGTCAATCTTTTTGGCGTT
GAATTATATATTTTTTCTGAATATTTTGCAAAAAATTGAGAAAAAACTTTTCAGGTCAGT
Found at i:134585 original size:325 final size:322
Alignment explanation
Indices: 133573--135300 Score: 1812
Period size: 325 Copynumber: 5.3 Consensus size: 322
133563 TTTCATGGTT
* * * *
133573 TTTTTGGCTAATAACGCG-TTCCGGAGTCCCGGCTCAATTTTGCATGATTTTTGGC-TAAAGACT
1 TTTTTGGCTAAAAACGCGTTTCAGG-GCCCCGGCTCAATTTTGCATGATTTTTGGCAGAAAGACT
* * * *
133636 CCTTGAAATATCTGTATTTATCGAACCAAATCTCAGTCACATTGTATATAACGATTTGTTTTTAC
65 CCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGTATATAAGGATTTGATTTTAC
* * * * * *
133701 GAGCATCTGAATCTTATTTTGATTTTATTAGAAATTAATTC--AAAAAAAATGGAAATACGATAT
130 GAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAATGGAAAAACGATAT
* * *
133764 TAGAAGCGTGAAAAACCCGTCAAT-TGTTTTGGCATTGAATTATATATTTTTTCTAAATATTTTG
195 TAGAAGCGTGAAAAGCCCGTCAATCT-TTTTGGCGTTGAATTATAT-TTTTTTCTGAATATTTTG
** * *
133828 --CGAAAAATTGAGAAAAACTTTTCGGGTTAGTTTTTATCCGAAATCGTGTACTAACCATCACGG
258 AAAAAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGG
* * *
133891 TTTTTGGCTAAAAACGCGTTTC-GGGCCCCGGCTCAGTTTTGCATGATTTTTGACAGATAGACTC
1 TTTTTGGCTAAAAACGCGTTTCAGGGCCCCGGCTCAATTTTGCATGATTTTTGGCAGAAAGACTC
* * * * * *
133955 CTTAAAATATCTATATTCATCTAACCAAATCTCAGGT-ACAATGGATTTAAGGATTTAATTTTAC
66 CTTGAAATATCTATATTCATCGAACCAAATCTCA-GTCACATTGTATATAAGGATTTGATTTTAC
* * * * *
134019 GAGCATTTCAATCTTTGTTTCGATTTAATTAGAAATAAATTCTGATAAA-AA-GGAAAAACGATA
130 GAGCATCTAAATC-TTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAATGGAAAAACGATA
* * * * * * * *
134082 TTAGAAGCGTGAAAA-TCCTTCAATTTTTTTGGTGTTAAATTAT-GTTTTTTCTGAGTATTGT-A
194 TTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATTTTTTTCTGAATATTTTGA
* * *
134144 GAAAAAAATTGGAGAAAAACTTTTCTGGTCAGCTTTTGCAAAATTTTAGCCGAAATCGTGTTCTA
259 AAAAAAAATT-GAGAAAAACTTTTCGGGTCAG----T------TTTTAGCCGAAATCGTGTACTA
*
134209 ATCATCACGG
313 ACCATCACGG
* * * * *
134219 CTTTTGGCTAAAAACGCGTTAC-GAAGCCCCGGCTCAATTTTGCATTATTTTTGGC-GCAAAAAC
1 TTTTTGGCTAAAAACGCGTTTCAG-GGCCCCGGCTCAATTTTGCATGATTTTTGGCAG-AAAGAC
* * * ** *
134282 TCATTGAAATATTTCTATTCATCGAACCAAATCTCAGTCACATTGTATATAAAAATTTGCTTTTA
64 TCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGTATATAAGGATTTGATTTTA
*
134347 CGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTC-GAAAACGTATAATGGAAAAACA
129 CGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAA---ATAATGGAAAAACG
* * * *
134411 ATATTAGAAGCATGAAAAGGCTGTCAATCTTTTCGGCGTTGAATTATATTTTTTTCTGAATATTT
191 ATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATTTTTTTCTGAATATTT
*
134476 TGAAAAAAAAATTGAGAAAAAACTTTGT-GGGTCAGTTTTTAGCCGAAATCATGTACTAACCATC
256 TGAAAAAAAAATTGAG-AAAAACTTT-TCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATC
*
134540 ACTG
319 ACGG
* * * *
134544 TTTTTGGCTAAAAACGCGTTTCATGGCCCCGGCTTAATTTTGAATGAGTTTTGGCAGAAAGACTC
1 TTTTTGGCTAAAAACGCGTTTCAGGGCCCCGGCTCAATTTTGCATGATTTTTGGCAGAAAGACTC
* * * * *
134609 CTTGAAATATCTATATTCATCGAGCCAAATCTCAGCCGCATTGTATATAAGAATTTGTTTTTACG
66 CTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGTATATAAGGATTTGATTTTACG
*
134674 AGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAATACGATAT
131 AGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAATAATGGAAAAACGATAT
* * * *
134739 TAGAAGCGTGAAATGCCCATCAATCTTTTTGGCTTTGAATTATATATTTTTCTGAATATTTTGCA
195 TAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATTTTTTTCTGAATATTTTG-A
* * *
134804 AAAAAAAAATGAG--AAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCACGA
259 AAAAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGG
* * * *
134866 TTTTTGGCTAAAAACGCGTTTCATGGCCCCGGCTCAGTTTTGCATGATTTTTGACAGAAAAACTC
1 TTTTTGGCTAAAAACGCGTTTCAGGGCCCCGGCTCAATTTTGCATGATTTTTGGCAGAAAGACTC
* * * * ** *
134931 CTTGAAATATCTTTATTCATCTAACCAAATCTCAGGCACAATACATTTAAGGATTTGATTTTACG
66 CTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGTATATAAGGATTTGATTTTACG
* * * * *
134996 AGCATCTGAATCTTAATTTTGATTTAATTAGAAATAAATTCTGCGAAAAA-AATGAAAAAACGAT
131 AGCATCTAAATCTT-GTTTCGATTTAATTAGAAATTAATTC-G-GAAAAATAATGGAAAAACGAT
* * * ** * * * *
135060 ATTAGAGGCGTGAAAAACCCTTTTATTTTTTTGGCGTTGAATCATATATTTTTTCTGAGTATTGT
193 ATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATAT-TTTTTTCTGAATATTTT
** * * **
135125 G-GGAAAAAATTGAGGGAAAACCTTTCGGGTTAATTTCCGCAAAATTTTAGCCGAAATCGTGTAC
257 GAAAAAAAAATTGA-GAAAAACTTTTCGGG------T---C-AGTTTTTAGCCGAAATCGTGTAC
* * *
135189 TAACTATCATGAT
311 TAACCATCACG-G
* * **
135202 TTTTTGGCTAAAAAGGCG-TTCCGGAGTTCCGGCTCAATTTTGCATGATTTTTGGC-GTAAAGAC
1 TTTTTGGCTAAAAACGCGTTTCAGG-GCCCCGGCTCAATTTTGCATGATTTTTGGCAG-AAAGAC
*
135265 TCCTTGAAATATCTGTATTCATCGAACCAAATCTCA
64 TCCTTGAAATATCTATATTCATCGAACCAAATCTCA
135301 ACAACATTTA
Statistics
Matches: 1182, Mismatches: 169, Indels: 100
0.81 0.12 0.07
Matches are distributed among these distances:
316 14 0.01
317 34 0.03
318 128 0.11
319 56 0.05
320 2 0.00
321 5 0.00
322 179 0.15
323 74 0.06
324 92 0.08
325 203 0.17
326 2 0.00
327 8 0.01
328 80 0.07
329 93 0.08
330 1 0.00
331 4 0.00
332 25 0.02
333 21 0.02
334 19 0.02
335 59 0.05
336 83 0.07
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (322 bp):
TTTTTGGCTAAAAACGCGTTTCAGGGCCCCGGCTCAATTTTGCATGATTTTTGGCAGAAAGACTC
CTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACATTGTATATAAGGATTTGATTTTACG
AGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAATGGAAAAACGATATT
AGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATTTTTTTCTGAATATTTTGAAA
AAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGG
Found at i:134848 original size:647 final size:636
Alignment explanation
Indices: 133574--135300 Score: 1831
Period size: 647 Copynumber: 2.7 Consensus size: 636
133564 TTCATGGTTT
* * * * * *
133574 TTTTGGCTAATAACGCGTTCCGGAGTCCCGGCTCAATTTTGCATGATTTTTGGCTAAAGACTCCT
1 TTTTGGCTAAAAACGCGTTACGAAGCCCCGGCTCAATTTTGCATGATTTTTGGCGAAAAACTCCT
* * * *
133639 TGAAATATCTGTATTTATCGAACCAAATCTCAGTCACATTGTATATAACGATTTGTTTTTACGAG
66 TGAAATAT-TTTATTCATCGAACCAAATCTCAGTCACATTGTATATAAAGATTTGATTTTACGAG
* * *
133704 CATCTGAATCTTATTTTGATTTTATTAGAAATTAATTCAAAAAAAATGGAAATACGATATTAGAA
130 CATCTGAATCTTATTTTGATTTAATTAGAAATTAATTCAAAAAAAATGGAAAAACAATATTAGAA
* * **
133769 GCGTGAAAAACCCGTCAATTGTTTTGGCATTGAATTATATATTTTTTCTAAATATTTTGCGAAAA
195 GCATGAAAAACCCGTCAATTGTTTCGGCATTGAATTATATATTTTTTCTAAATATTTTGAAAAAA
* * *
133834 ATTGAGAAAAACTTTTCGGGTTAGTTTTTATCCGAAATCGTGTACTAACCATCACGGTTTTTGGC
260 ATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGC
* * * *
133899 TAAAAACGCGTTTCGGGCCCCGGCTCAGTTTTGCATGATTTTTGACAGATAGACTCCTTAAAATA
325 TAAAAACGCGTTTCGGGCCCCGGCTCAATTTTGAATGAGTTTTGACAGAAAGACTCCTTAAAATA
* ** * * * *
133964 TCTATATTCATCTAACCAAATCTCAGGTACAATGGATTTAAGGATTTAATTTTACGAGCATTTCA
390 TCTATATTCATCGAACCAAATCTCAGCCACAATGGATATAAGAATTTAATTTTACGAGCATCTAA
* *
134029 ATCTTTGTTTCGATTTAATTAGAAATAAATTCTGATAAAAAGGAAAAACGATATTAGAAGCGTGA
455 ATCTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAGGAAAAACGATATTAGAAGCGTGA
* * * * * * *
134094 AAATCCTTCAATTTTTTTGGTGTTAAATTATGTTTTTTCTGAGTATTGTAGAAAAAAATTGGAGA
520 AAATCCATCAATCTTTTTGGTGTTAAATTATATTTTTTCTGAATATTGCAAAAAAAAAATGGAG-
* * * * *
134159 AAAACTTTTCTGGTCAGCTTTTGCAAAATTTTAGCCGAAATCGTGTTCTAATCATCACGGC
584 AAAACTTTTCGGGTCAG---TT-----ATTTTAGCCGAAATCGTATACTAACCATCACGAC
* *
134220 TTTTGGCTAAAAACGCGTTACGAAGCCCCGGCTCAATTTTGCATTATTTTTGGCGCAAAAACTCA
1 TTTTGGCTAAAAACGCGTTACGAAGCCCCGGCTCAATTTTGCATGATTTTTGGCG-AAAAACTCC
* *
134285 TTGAAATATTTCTATTCATCGAACCAAATCTCAGTCACATTGTATATAAAAATTTGCTTTTACGA
65 TTGAAATATTT-TATTCATCGAACCAAATCTCAGTCACATTGTATATAAAGATTTGATTTTACGA
* * * *
134350 GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAACGTATAATGGAAAAACAATAT
129 GCATCTGAATCTTATTTTGATTTAATTAGAAATTAATTC-AAAA---AAAATGGAAAAACAATAT
** * * *
134415 TAGAAGCATGAAAAGGCTGTCAATCT-TTTCGGCGTTGAATTATAT-TTTTTTCTGAATATTTTG
190 TAGAAGCATGAAAAACCCGTCAAT-TGTTTCGGCATTGAATTATATATTTTTTCTAAATATTTTG
134478 AAAAAAAAATTGAGAAAAAACTTTGT-GGGTCAGTTTTTAGCCGAAATCATGTACTAACCATCAC
254 --AAAAAAATTGAG-AAAAACTTT-TCGGGTCAGTTTTTAGCCGAAATCATGTACTAACCATCAC
* * * *
134542 TGTTTTTGGCTAAAAACGCGTTTCATGGCCCCGGCTTAATTTTGAATGAGTTTTGGCAGAAAGAC
315 GGTTTTTGGCTAAAAACGCGTTTC-GGGCCCCGGCTCAATTTTGAATGAGTTTTGACAGAAAGAC
* * * * * **
134607 TCCTTGAAATATCTATATTCATCGAGCCAAATCTCAGCCGCATTGTATATAAGAATTTGTTTTTA
379 TCCTTAAAATATCTATATTCATCGAACCAAATCTCAGCCACAATGGATATAAGAATTTAATTTTA
* *
134672 CGAGCATCTAAATC-TTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAATACGA
444 CGAGCATCTAAATCTTTGTTTCGATTTAATTAGAAATAAATTCGG-AAAAA-AA-GGAAAAACGA
*
134736 TATTAGAAGCGTG-AAATGCCCATCAATCTTTTTGGCT-TTGAATTATATATTTTTCTGAATATT
506 TATTAGAAGCGTGAAAAT--CCATCAATCTTTTTGG-TGTTAAATTATAT-TTTTTCTGAATA--
134799 TTGCAAAAAAAAAAT-GAG-AAACTTTTCGGGTCAG-T-TTTTAGCCGAAATCGTATACTAACCA
565 TTGCAAAAAAAAAATGGAGAAAACTTTTCGGGTCAGTTATTTTAGCCGAAATCGTATACTAACCA
*
134860 TCACGAT
630 TCACGAC
* * * *
134867 TTTTGGCTAAAAACGCGTTTC-ATGGCCCCGGCTCAGTTTTGCATGATTTTTGACAGAAAAACTC
1 TTTTGGCTAAAAACGCGTTACGA-AGCCCCGGCTCAATTTTGCATGATTTTTGGC-GAAAAACTC
* * * ** * *
134931 CTTGAAATATCTTTATTCATCTAACCAAATCTCAGGCACAATACATTTAAGGATTTGATTTTACG
64 CTTGAAATAT-TTTATTCATCGAACCAAATCTCAGTCACATTGTATATAAAGATTTGATTTTACG
* * * *
134996 AGCATCTGAATCTTAATTTTGATTTAATTAGAAATAAATTCTGCGAAAAAAATGAAAAAACGATA
128 AGCATCTGAATCTT-ATTTTGATTTAATTAGAAATTAA-T-T-CAAAAAAAATGGAAAAACAATA
* * * ** * * * * * * *
135061 TTAGAGGCGTGAAAAACCCTTTTATTTTTTTGGCGTTGAATCATATATTTTTTCTGAGTATTGTG
189 TTAGAAGCATGAAAAACCCGTCAATTGTTTCGGCATTGAATTATATATTTTTTCTAAATATT-TT
* * * ** *
135126 GGAAAAAATTGAGGGAAAACCTTTCGGGTTAATTTCCGCAAAATTTTAGCCGAAATCGTGTACTA
253 GAAAAAAATTGA-GAAAAACTTTTCGGG------T---C-AGTTTTTAGCCGAAATCATGTACTA
* * * * * ** * * *
135191 ACTATCATGATTTTTTGGCTAAAAAGGCGTTCCGGAGTTCCGGCTCAATTTTGCATGATTTTTGG
307 ACCATCACG-GTTTTTGGCTAAAAACGCGTTTCGG-GCCCCGGCTCAATTTTGAATGAGTTTTGA
* *
135256 C-GTAAAGACTCCTTGAAATATCTGTATTCATCGAACCAAATCTCA
370 CAG-AAAGACTCCTTAAAATATCTATATTCATCGAACCAAATCTCA
135301 ACAACATTTA
Statistics
Matches: 908, Mismatches: 127, Indels: 80
0.81 0.11 0.07
Matches are distributed among these distances:
646 53 0.06
647 316 0.35
648 42 0.05
649 3 0.00
650 21 0.02
651 53 0.06
652 11 0.01
653 97 0.11
654 103 0.11
655 6 0.01
656 23 0.03
657 68 0.07
658 97 0.11
659 3 0.00
660 12 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (636 bp):
TTTTGGCTAAAAACGCGTTACGAAGCCCCGGCTCAATTTTGCATGATTTTTGGCGAAAAACTCCT
TGAAATATTTTATTCATCGAACCAAATCTCAGTCACATTGTATATAAAGATTTGATTTTACGAGC
ATCTGAATCTTATTTTGATTTAATTAGAAATTAATTCAAAAAAAATGGAAAAACAATATTAGAAG
CATGAAAAACCCGTCAATTGTTTCGGCATTGAATTATATATTTTTTCTAAATATTTTGAAAAAAA
TTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCT
AAAAACGCGTTTCGGGCCCCGGCTCAATTTTGAATGAGTTTTGACAGAAAGACTCCTTAAAATAT
CTATATTCATCGAACCAAATCTCAGCCACAATGGATATAAGAATTTAATTTTACGAGCATCTAAA
TCTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAGGAAAAACGATATTAGAAGCGTGAA
AATCCATCAATCTTTTTGGTGTTAAATTATATTTTTTCTGAATATTGCAAAAAAAAAATGGAGAA
AACTTTTCGGGTCAGTTATTTTAGCCGAAATCGTATACTAACCATCACGAC
Found at i:135604 original size:609 final size:603
Alignment explanation
Indices: 134694--135904 Score: 1623
Period size: 609 Copynumber: 2.0 Consensus size: 603
134684 TCTTGTTTCG
* *
134694 ATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAATACGATATTAGAAGCGTGAAATGCCCAT
1 ATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCAT
* *
134759 CAATCTTTTTGGCTTTGAATTATATATTTTTCTGAATATTTTGCAAAAAAAAAATGAGAAACTTT
66 CAATCTTTTTGGCGTTGAATTATATATTTTTCTAAATATTTTGC--AAAAAAAATGAGAAACTTT
134824 TCGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCACGATTTTTGGCTAAAAACGCGTTTCA
129 TCGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCACGATTTTTGGCTAAAAACGCGTTTCA
* * * *
134889 TGGCCCCGGCTCAGTTTTGCATGATTTTTGACAGAAAAACTCCTTGAAATATCTTTATTCATCTA
194 GGGCCCCGACTCAGTTTTGCATAATTTTTGACAGAAAAACTCCTTGAAATATCTATATTCATCTA
* * *
134954 ACCAAATCTCAGGCACAATACATTTAAGGATTTGATTTTACGAGCATCTGAATCTTAATTTTGAT
259 ACCAAATCTCAGACACAATACATTTAAGGATTTGATTTTACGAGCATCTCAATCTTAATTTCGAT
* * * **
135019 TTAATTAGAAATAAATTCTGCGAAAAAAATGAAAAAACGATATTAGAGGCGTGAAAAACCCTTTT
324 TTAATTAAAAATAAATTC-G-G-AAAAAA-GAAAAAACGATATTAGAAGCATG-AAAACCCTTCA
* *
135084 ATTTTTTTGGCGTTGAATCATATATTTTTTCTGAGTATTGTGGGAAAAAATTGAGGG-AAAACCT
384 ATTTTTTTGGCGTTAAATCATATA-TTTTTCTGAGTATTGTGGCAAAAAATTG-GGGAAAAACCT
* **
135148 TTCGGGTTAA-TTTCCGCAAAATTTTAGCCGAAATCGTGTACTAA-CTATCATGATTTTTTGGCT
447 TTCGGG-TAATTTTCCGCAAAATTTTAGCCGAAATCGTGTACTAACCT-TCACG-GCTTTTGG-T
* ** * * *
135211 AAAAAG-GCGTTCCGGAGTTCCGGCTCAATTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAAT
508 AAAAAGCGCGTTACGGAGCCCCGGCTCAATTTTGCATAATTTTTGGCGCAAAGACTCATTGAAAT
*
135275 ATCTGTATTCATCGAACCAAATCTCAACAAC
573 ATCTATATTCATCGAACCAAATCTCAACAAC
* * * * *
135306 ATTTAATTAGAAATTTATTCGG-AAGAA-AATGGAAAAATGATATTATAAGCGTGAAAAGCCCCT
1 ATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCAT
* * *
135369 CAATTTTTTTGGCGTTGAATTATCTATTTTTTCTAAATATTTTGC-AAAAAATTGAGAAACACTT
66 CAATCTTTTTGGCGTTGAATTATATA-TTTTTCTAAATATTTTGCAAAAAAAATGAG-AA-ACTT
* * * * * * * *
135433 TTCTGGTTAGTTTTTCGCCGAAATTGTGTACTAATCATCAC-AGTTTTTGGCTAAAAATGTGTTT
128 TTCGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCACGA-TTTTTGGCTAAAAACGCGTTT
* *
135497 C-GGGCCCCGACTCAGTTTTGCATAATTTTTGGC-GAAAAGACTTCTTGAAATATCTATATTCAT
192 CAGGGCCCCGACTCAGTTTTGCATAATTTTTGACAGAAAA-ACTCCTTGAAATATCTATATTCAT
* * ** *
135560 TTAACCAAATCTCAGACACATTGGATTTAAGGATTTGTTTTTACGAGCATCTCAATCTTAATTTC
256 CTAACCAAATCTCAGACACAATACATTTAAGGATTTGATTTTACGAGCATCTCAATCTTAATTTC
*
135625 GATTTAATTAAAAATAAATTCGGAAAAAAGGAAAAACGATATTAGAAGCATGAAAACCCTTCAAT
321 GATTTAATTAAAAATAAATTCGGAAAAAAGAAAAAACGATATTAGAAGCATGAAAACCCTTCAAT
* * *
135690 TTTTTTGGCGTTAAATTATATATTTTTCTGGGTATTGTGGCAAAAAATTGGGGAAAAACTTTTCG
386 TTTTTTGGCGTTAAATCATATATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACCTTTCG
** *
135755 GGTAAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCTTCACGGCTTTTGGTTAAAAG
451 GGTAA--TTTTCCGCAAAATTTTAGCCGAAATCGTGTACTAACCTTCACGGCTTTTGGTAAAAAG
135820 CGCGTTACGGAGCCCCGGCTCAATTTTGCATAATTTTTGGCGCAAAGACTCATTGAAATATCTAT
514 CGCGTTACGGAGCCCCGGCTCAATTTTGCATAATTTTTGGCGCAAAGACTCATTGAAATATCTAT
* **
135885 ATTTATCGAATTAAATCTCA
579 ATTCATCGAACCAAATCTCA
135905 GCCACATTGT
Statistics
Matches: 527, Mismatches: 61, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
602 6 0.01
603 44 0.08
604 111 0.21
605 56 0.11
606 8 0.02
607 1 0.00
608 16 0.03
609 130 0.25
610 113 0.21
611 21 0.04
612 21 0.04
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (603 bp):
ATTTAATTAGAAATTAATTCGGAAAAAATAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCAT
CAATCTTTTTGGCGTTGAATTATATATTTTTCTAAATATTTTGCAAAAAAAATGAGAAACTTTTC
GGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCACGATTTTTGGCTAAAAACGCGTTTCAGG
GCCCCGACTCAGTTTTGCATAATTTTTGACAGAAAAACTCCTTGAAATATCTATATTCATCTAAC
CAAATCTCAGACACAATACATTTAAGGATTTGATTTTACGAGCATCTCAATCTTAATTTCGATTT
AATTAAAAATAAATTCGGAAAAAAGAAAAAACGATATTAGAAGCATGAAAACCCTTCAATTTTTT
TGGCGTTAAATCATATATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACCTTTCGGGTAA
TTTTCCGCAAAATTTTAGCCGAAATCGTGTACTAACCTTCACGGCTTTTGGTAAAAAGCGCGTTA
CGGAGCCCCGGCTCAATTTTGCATAATTTTTGGCGCAAAGACTCATTGAAATATCTATATTCATC
GAACCAAATCTCAACAAC
Found at i:136222 original size:320 final size:317
Alignment explanation
Indices: 135306--136506 Score: 1306
Period size: 320 Copynumber: 3.7 Consensus size: 317
135296 TCTCAACAAC
* * * * * *
135306 ATTTAATTAGAAATTTATTCGGAAGAAAATGGAAAAATGATATTATAAGCGTGAAAAGCCCCTCA
1 ATTTAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAGCCCGTCA
* * * *
135371 ATTTTTTTGGCGTTGAATTATCTATTTTTTCTAAATATTTTGCAAAAAATTGAGAAACACTTTTC
66 ATCTTTTTGGCGTTGAATTATATA-TTTTTCTGAATATTTTGCAAAAAATTGAGAAAAACTTTTC
* * * * * * * *
135436 TGGTTAGTTTTTCGCCGAAATTGTGTACTAATCATCACAGTTTTTGGCTAAAAATGTGTTTC-GG
130 GGGTCAGTTTTTAGCCGAAATTATGTACT-A-CATCACGGTTTTTGGCTAAAAACGCGTTTCAGA
* * * *
135500 GCCCCGACTCAGTTTTGCATAATTTTTGGCGAAAAGACTTCTTGAAATATCTATATTCATTTAAC
193 GCCCCGGCTCAGTTTTGAATAATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * * * * * *
135565 CAAATCTCAGACACATTGGATTTAAGGATTTGTTTTTACGAGCATCTCAATCTTAATTTCG
258 TAAATCTCAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTT-GTTTCG
* * *
135626 ATTTAATTAAAAATAAATTCGG-AAAAAA-GGAAAAACGATATTAGAAGCATGAAAA-CCCTTCA
1 ATTTAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAGCCCGTCA
* * ** * *
135688 ATTTTTTTGGCGTTAAATTATATATTTTTCTGGGTATTGTGGCAAAAAATTGGGGAAAAACTTTT
66 ATCTTTTTGGCGTTGAATTATATATTTTTCTGAATATT-TTGCAAAAAATT-GAGAAAAACTTTT
* ** * * *
135753 CGGGTAAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCTTCACGGCTTTTGGTTAAA
129 CGGGTCAG------T------TTTTAGCCGAAATTATGTACT-A-CATCACGGTTTTTGGCTAAA
* * * * * * *
135818 AGCGCGTTACGGAGCCCCGGCTCAATTTTGCATAATTTTTGGCGCAAAGACTCATTGAAATATCT
180 AACGCGTTTCAGAGCCCCGGCTCAGTTTTGAATAATTTTTGGCGAAAAGACTCCTTGAAATATCT
* * * * * * *
135883 ATATTTATCGAATTAAATCTCAGCCACATTGTATATAATAATTTGGTTTTACGAGTATTTAAATC
245 ATATTCATCTAACTAAATCTCAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATC
135948 TTGTTTCG
310 TTGTTTCG
* * *
135956 ATTTAAATATAAATTAATTCGGAAAAAATAATGGAAAAACGATATTAGAAGCATGAAAAGGCCGT
1 ATTTAATTAGAAATTAATTCGG-AAAAA-AATGGAAAAACGATATTAGAAGCATGAAAAGCCCGT
*
136021 CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTG-AAAAATATTGAGAAAAACTC
64 CAATCTTTTTGGCGTTGAATTATATA-TTTTTCTGAATATTTTGCAAAAA-ATTGAGAAAAACTT
*
136085 TTCGGGTCAGTTTTTAGCCGAAATTATGTACGT-CGTCACGGTTTTTGGCTAAAAACGCGTTTCA
127 TTCGGGTCAGTTTTTAGCCGAAATTATGTAC-TACATCACGGTTTTTGGCTAAAAACGCGTTTCA
* * * *
136149 TAGCCCCGGCTTAGTTTTGAATGAGTTTTGGC-AGAAAGACTCCTTGAAAT-TCCTATATTCATC
191 GAGCCCCGGCTCAGTTTTGAATAATTTTTGGCGA-AAAGACTCCTTGAAATAT-CTATATTCATC
*
136212 TAACTAAATCTCGGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCG
254 TAACTAAATCTCAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCG
* * * ***
136276 ATTTAATTAGAAATTAATTCGGGAAAAAAT-GAAAGAACGATATTAGAAGCGTGAAATGGTTGTC
1 ATTTAATTAGAAATTAATTCGGAAAAAAATGGAAA-AACGATATTAGAAGCATGAAAAGCCCGTC
* *
136340 AATCTTTATGGCATTGAATTATATATTTTTCTGAATATTTTGCAAAAAAAATTGAGAAAAACTTT
65 AATCTTTTTGGCGTTGAATTATATATTTTTCTGAATATTTTGC--AAAAAATTGAGAAAAACTTT
*
136405 TCGGGTCAGTTTTTAGCCGAAATTATGTACTAACCATCACGGGTTTTGGCTAAAAACGCGTTTCA
128 TCGGGTCAGTTTTTAGCCGAAATTATGTACT-A-CATCACGGTTTTTGGCTAAAAACGCGTTTCA
* * *
136470 TG-GCCCCGTCTTAGTTTTGAATGATTTTTGGCAGAAA
191 -GAGCCCCGGCTCAGTTTTGAATAATTTTTGGC-GAAA
136507 GTGATTGAGC
Statistics
Matches: 744, Mismatches: 102, Indels: 68
0.81 0.11 0.07
Matches are distributed among these distances:
316 11 0.01
317 60 0.08
318 93 0.12
319 54 0.07
320 177 0.24
321 57 0.08
322 20 0.03
323 2 0.00
324 1 0.00
328 1 0.00
330 67 0.09
331 101 0.14
332 4 0.01
333 2 0.00
334 50 0.07
335 32 0.04
336 12 0.02
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (317 bp):
ATTTAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCATGAAAAGCCCGTCA
ATCTTTTTGGCGTTGAATTATATATTTTTCTGAATATTTTGCAAAAAATTGAGAAAAACTTTTCG
GGTCAGTTTTTAGCCGAAATTATGTACTACATCACGGTTTTTGGCTAAAAACGCGTTTCAGAGCC
CCGGCTCAGTTTTGAATAATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCTAACTAA
ATCTCAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCG
Done.