Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5469637
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 25
Found at i:6034 original size:16 final size:15
Alignment explanation
Indices: 6000--6034 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5990 CTTCCCCCCC
*
6000 TTTTAATGTTCACAG
1 TTTTAATGTTCAAAG
6015 TTTTAATGTTCAAAAG
1 TTTTAATGTTC-AAAG
6031 TTTT
1 TTTT
6035 TCTTTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (15 bp):
TTTTAATGTTCAAAG
Found at i:31328 original size:229 final size:229
Alignment explanation
Indices: 30927--31386 Score: 920
Period size: 229 Copynumber: 2.0 Consensus size: 229
30917 CCACAGGTCC
30927 CACACCACATCACAGTGCAGAAACAAATGTGAGACCGACTCATTACACTTCCTGCACAAAGAGCA
1 CACACCACATCACAGTGCAGAAACAAATGTGAGACCGACTCATTACACTTCCTGCACAAAGAGCA
30992 CACAGTGTCTTCCACCCCAGTAACTCCTCTCTTTAGCAGTTCCTCCTTCACCACTACTCTGTGAT
66 CACAGTGTCTTCCACCCCAGTAACTCCTCTCTTTAGCAGTTCCTCCTTCACCACTACTCTGTGAT
31057 GAGCAAGTTGCCAAACAAAGGTTTCCACTCGTGGTGGAGCTACCCCCTTCCAAACATATCTTTCC
131 GAGCAAGTTGCCAAACAAAGGTTTCCACTCGTGGTGGAGCTACCCCCTTCCAAACATATCTTTCC
31122 CAATTACCTTCTACTTCATCATTACCCTCTCTAT
196 CAATTACCTTCTACTTCATCATTACCCTCTCTAT
31156 CACACCACATCACAGTGCAGAAACAAATGTGAGACCGACTCATTACACTTCCTGCACAAAGAGCA
1 CACACCACATCACAGTGCAGAAACAAATGTGAGACCGACTCATTACACTTCCTGCACAAAGAGCA
31221 CACAGTGTCTTCCACCCCAGTAACTCCTCTCTTTAGCAGTTCCTCCTTCACCACTACTCTGTGAT
66 CACAGTGTCTTCCACCCCAGTAACTCCTCTCTTTAGCAGTTCCTCCTTCACCACTACTCTGTGAT
31286 GAGCAAGTTGCCAAACAAAGGTTTCCACTCGTGGTGGAGCTACCCCCTTCCAAACATATCTTTCC
131 GAGCAAGTTGCCAAACAAAGGTTTCCACTCGTGGTGGAGCTACCCCCTTCCAAACATATCTTTCC
31351 CAATTACCTTCTACTTCATCATTACCCTCTCTAT
196 CAATTACCTTCTACTTCATCATTACCCTCTCTAT
31385 CA
1 CA
31387 AAATACAATT
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 231 1.00
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.27
Consensus pattern (229 bp):
CACACCACATCACAGTGCAGAAACAAATGTGAGACCGACTCATTACACTTCCTGCACAAAGAGCA
CACAGTGTCTTCCACCCCAGTAACTCCTCTCTTTAGCAGTTCCTCCTTCACCACTACTCTGTGAT
GAGCAAGTTGCCAAACAAAGGTTTCCACTCGTGGTGGAGCTACCCCCTTCCAAACATATCTTTCC
CAATTACCTTCTACTTCATCATTACCCTCTCTAT
Found at i:49217 original size:24 final size:25
Alignment explanation
Indices: 49166--49222 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
49156 ATAAATTGCA
49166 CCGAAGTG-TCGCGTAGAACTTTGTC
1 CCGAAG-GATCGCGTAGAACTTTGTC
49191 CCGAAGGATCGCGTAGAA-TTTGTC
1 CCGAAGGATCGCGTAGAACTTTGTC
49215 CCGAAGGA
1 CCGAAGGA
49223 CCACATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 15 0.48
25 16 0.52
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (25 bp):
CCGAAGGATCGCGTAGAACTTTGTC
Found at i:49464 original size:30 final size:31
Alignment explanation
Indices: 49415--49485 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 31
49405 ACATAATTTA
* *
49415 TATCGCATAGACATATCATTTT-CATACCTT
1 TATCACATAAACATATCATTTTCCATACCTT
*
49445 TATCACATAAACATTTCATTTTCCATACCTT
1 TATCACATAAACATATCATTTTCCATACCTT
49476 TATCACATAA
1 TATCACATAA
49486 TTCATATAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (31 bp):
TATCACATAAACATATCATTTTCCATACCTT
Found at i:52556 original size:57 final size:57
Alignment explanation
Indices: 52468--52582 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
52458 ATTACCTAAA
52468 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
*
52525 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
52582 G
1 G
52583 AAGGTTCCAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (57 bp):
GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
Found at i:78344 original size:58 final size:60
Alignment explanation
Indices: 78271--78402 Score: 180
Period size: 59 Copynumber: 2.2 Consensus size: 60
78261 GTAAGGTGAT
* *
78271 CATTTTATAACTTTTAATAGTCG-GGGACTTAATAAAGCAATATTCTATAGTT-GGGGAC
1 CATTTTATAACTTTTAATAGTCGAAGGACTTAATAAAACAATATTCTATAGTTAGGGGAC
* * * *
78329 TATTTTATAATTTTTAATAGTCGAAGGACTTAATAAAATATTATTCTATAGTTAGGGGAC
1 CATTTTATAACTTTTAATAGTCGAAGGACTTAATAAAACAATATTCTATAGTTAGGGGAC
78389 CATTTT-TATACTTT
1 CATTTTATA-ACTTT
78403 ACCCTTTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 21 0.33
59 27 0.43
60 15 0.24
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAGTCGAAGGACTTAATAAAACAATATTCTATAGTTAGGGGAC
Found at i:83470 original size:103 final size:101
Alignment explanation
Indices: 83322--83537 Score: 351
Period size: 103 Copynumber: 2.1 Consensus size: 101
83312 GTAGAGGGTC
*
83322 TATGTGGTCCTTCGGGACATATGTATTCTTTGGAACATGTGTGAGGACTAGTGAGACACATACTT
1 TATGTGGTCCTTCGAGACATATGTATTCTTTGGAACATGTGTGAGGACTAGTGAGACACATACTT
*
83387 GATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 GATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* * * * *
83423 TATGTGGTCTTTCGAGACATATATGTATTTTTTGGAACATGTGTGAGGTCTGGTGAGATACATAC
1 TATGTGGTCCTTCGAGAC--ATATGTATTCTTTGGAACATGTGTGAGGACTAGTGAGACACATAC
83488 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
64 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
83526 TATGTGGTCCTT
1 TATGTGGTCCTT
83538 ATGGACATTA
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
101 16 0.15
103 89 0.85
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (101 bp):
TATGTGGTCCTTCGAGACATATGTATTCTTTGGAACATGTGTGAGGACTAGTGAGACACATACTT
GATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:83587 original size:23 final size:23
Alignment explanation
Indices: 83554--83616 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
83544 ATTATTATAT
83554 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
83577 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
83600 GGTACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
83617 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:84928 original size:135 final size:135
Alignment explanation
Indices: 84684--84931 Score: 383
Period size: 135 Copynumber: 1.8 Consensus size: 135
84674 TATCCATCTC
* *
84684 TGAGGGTTTCGTTGAAGGACAACTACGTAGTTCCACCTTTCCTCAGGCATAAGATCTACCTGTCG
1 TGAGGGTTTCGTTGAAGGACAACTACGTAGTTCCACCTTTCCTAAGGCATAAGATCTACCTGTCC
* * *
84749 GATTCTCTTCATCACTTCCGCCCTTCTCTTCTTCGCCGATAGTCACAGATTTCACGATCCCGATC
66 GACTCTCTTCATCACTTCCACCCTTCTCTTCTTCGCCGACAGTCACAGATTTCACGATCCCGATC
84814 TACTA
131 TACTA
* * *
84819 TGAGGGTTTCGTTGAAGGACGACTCCGCT-GTTCCACCTTTTCTAAGGC-TCAAGATCTACCTGT
1 TGAGGGTTTCGTTGAAGGACAACTACG-TAGTTCCACCTTTCCTAAGGCAT-AAGATCTACCTGT
*
84882 CCGACTCTCTTCATCACTTCCACCCTTCTCTTCTTTGCCGACAGTCACAG
64 CCGACTCTCTTCATCACTTCCACCCTTCTCTTCTTCGCCGACAGTCACAG
84932 CATTCTCCAT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
134 1 0.01
135 100 0.98
136 1 0.01
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.32
Consensus pattern (135 bp):
TGAGGGTTTCGTTGAAGGACAACTACGTAGTTCCACCTTTCCTAAGGCATAAGATCTACCTGTCC
GACTCTCTTCATCACTTCCACCCTTCTCTTCTTCGCCGACAGTCACAGATTTCACGATCCCGATC
TACTA
Found at i:94345 original size:16 final size:16
Alignment explanation
Indices: 94324--94368 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
94314 ATCCAATTTG
94324 ACCTGAATCGAAAA-CA
1 ACCTGAATC-AAAATCA
*
94340 ACCTGAATCAAAATTA
1 ACCTGAATCAAAATCA
*
94356 ACCTGAAGCAAAA
1 ACCTGAATCAAAA
94369 GTGATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (16 bp):
ACCTGAATCAAAATCA
Found at i:98375 original size:2 final size:2
Alignment explanation
Indices: 98368--98400 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
98358 TGTTACAAGT
98368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
98401 TGAATAGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:107113 original size:52 final size:52
Alignment explanation
Indices: 107035--107179 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 52
107025 CTAAATTAAA
* *
107035 TATTAGATATGATCAATTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
* * *
107087 TATTAGATAGGATCATTTTTAATTAGATAAAATTAGTTTTT-TTTTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
107138 TATTAGATAGGATCATTTTTAATT--ATAGAATCA--TTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
107180 GTTGCTAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
47 4 0.05
48 3 0.04
49 7 0.08
51 33 0.39
52 37 0.44
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:111596 original size:20 final size:20
Alignment explanation
Indices: 111571--111661 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
111561 TAAATTAAAT
*
111571 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
111591 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
111611 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
111623 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
111643 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
111662 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:111686 original size:53 final size:52
Alignment explanation
Indices: 111570--111719 Score: 275
Period size: 53 Copynumber: 2.9 Consensus size: 52
111560 CTAAATTAAA
*
111570 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
111622 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
111675 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
111720 GTTGCTAATT
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 10 0.10
52 35 0.36
53 51 0.53
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:111701 original size:20 final size:20
Alignment explanation
Indices: 111676--111715 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
111666 TCTATTAGTT
*
111676 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
111696 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
111716 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:116489 original size:5 final size:5
Alignment explanation
Indices: 116479--116504 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
116469 CCCCACCTTA
116479 CCCTC CCCTC CCCTC CCCTC CCCTC C
1 CCCTC CCCTC CCCTC CCCTC CCCTC C
116505 AACTCAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (5 bp):
CCCTC
Found at i:125884 original size:18 final size:18
Alignment explanation
Indices: 125861--125915 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
125851 GCACTGAATG
125861 TTTGTCCCGAAGGACCAC
1 TTTGTCCCGAAGGACCAC
*
125879 TTTGTCCCGAAGGATCAC
1 TTTGTCCCGAAGGACCAC
* *
125897 TATGTCCCGAAAGACCAC
1 TTTGTCCCGAAGGACCAC
125915 T
1 T
125916 GTAAATCCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (18 bp):
TTTGTCCCGAAGGACCAC
Found at i:127739 original size:23 final size:23
Alignment explanation
Indices: 127713--127790 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
127703 CACCATAACT
127713 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
127736 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
127759 CGTAGAATTGCACC-ATAGTGCCA
1 CATATAATTGCACCGA-AGTGCCA
*
127782 TATAATAAT
1 CAT-ATAAT
127791 GTCAATAAGG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 40 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:127982 original size:103 final size:103
Alignment explanation
Indices: 127797--128009 Score: 309
Period size: 103 Copynumber: 2.1 Consensus size: 103
127787 TAATGTCAAT
* * * **
127797 AAGGACCACATATCATTCCTTTAGAACCATATACATATACTAGGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAACCATATACATATACCAAGGATCAAGTATATGTCTCAAAA
* * *
127862 GACTTCACACATGTTCCAAAGAATACATATATATCTCG
66 GACCTCACACATATTCCAAAGAATACATATATATCCCG
* * *
127900 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCAAAA
1 AAGGACCACATATCATTCCTTAAGAACCATATACATATACCAAGGATCAAGTATATGTCTCAAAA
* *
127965 GACCTCACACCTATTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATATTCCAAAGAATACATATATATCCCG
128003 AAGGACC
1 AAGGACC
128010 GCGTAGACCC
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAACCATATACATATACCAAGGATCAAGTATATGTCTCAAAA
GACCTCACACATATTCCAAAGAATACATATATATCCCG
Found at i:128953 original size:64 final size:64
Alignment explanation
Indices: 128800--128957 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 64
128790 ATTCCCTACC
* * * *
128800 GATGAATCGATGCACTACTTGTGCATCGGTGCACAAAATACATTCGATGTTTGTTTATTATTAG
1 GATGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTGTTTATTATTAA
* * * * *
128864 GATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATG-TT-TTTATT-TTAA
1 GATGCATCGATGCACTACC-TGTGCATCGATGCACAAAATACATTCGATGTTTGTTTATTATT--
128925 AA
63 AA
*
128927 GAGTGCATCGATACACTACCTGTGCATCGAT
1 GA-TGCATCGATGCACTACCTGTGCATCGAT
128958 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
61 2 0.03
62 6 0.08
63 7 0.09
64 59 0.77
65 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (64 bp):
GATGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTGTTTATTATTAA
Found at i:132523 original size:103 final size:103
Alignment explanation
Indices: 132347--132559 Score: 318
Period size: 103 Copynumber: 2.1 Consensus size: 103
132337 TAATGTCCAT
* * * * **
132347 AAGGACCACATATCATTCCTTTAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCAAAA
* * *
132412 GACTTCACACATGTTCTAAAGAATACATATATGTCCCG
66 GACCTCACACATATTCCAAAGAATACATATATGTCCCG
*
132450 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTATCTCAAAA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCAAAA
* *
132515 GACCTCACACCTATTCCAAAGAATACATATATGTCTCG
66 GACCTCACACATATTCCAAAGAATACATATATGTCCCG
132553 AAGGACC
1 AAGGACC
132560 GCGTAGACCC
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCAAAA
GACCTCACACATATTCCAAAGAATACATATATGTCCCG
Found at i:136840 original size:23 final size:23
Alignment explanation
Indices: 136814--136891 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
136804 CACCACAACT
136814 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
136837 CATATAATTGCACC-AGAGTACCA
1 CATATAATTGCACCGA-AGTGCCA
* * *
136860 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
136883 TATAATAAT
1 CAT-ATAAT
136892 GTCCATAAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.02
23 39 0.89
24 4 0.09
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:137074 original size:103 final size:103
Alignment explanation
Indices: 136898--137110 Score: 336
Period size: 103 Copynumber: 2.1 Consensus size: 103
136888 TAATGTCCAT
* * * **
136898 AAGGACCACATATCATTCCTTTAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAAAA
* *
136963 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATATTCCAAAGAATACATATATGTCCCG
*
137001 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCAAAA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAAAA
* *
137066 GACCTCACACCTATTCCAAAGAATACATATATGTCTCG
66 GACCTCACACATATTCCAAAGAATACATATATGTCCCG
137104 AAGGACC
1 AAGGACC
137111 GCGTAGACCC
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAAAA
GACCTCACACATATTCCAAAGAATACATATATGTCCCG
Found at i:138032 original size:64 final size:64
Alignment explanation
Indices: 137879--138036 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
137869 ATTCCCTACC
* * * ** *
137879 GATGAATCGATGCACTACTTGTGCATCGGTGCACAAAATACATTCGATGTTTGTTTATTACTGG
1 GATGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTGTTTATTAAAGA
* * * * *
137943 GATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTACATTCGATGTTT-TTATTTTAAA-
1 GATGCATCGATGCACTACC-TGTGCATCGATGCACAAAATACATTCGATGTTTGTT-TATTAAAG
138005 A
64 A
138006 GAGTGCATCGATGCACTACCTGTGCATCGAT
1 GA-TGCATCGATGCACTACCTGTGCATCGAT
138037 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
63 6 0.08
64 68 0.88
65 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
GATGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTGTTTATTAAAGA
Found at i:140275 original size:2 final size:2
Alignment explanation
Indices: 140268--140303 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
140258 TATAACATTT
140268 TA TA TA TA TA 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 TA TA TA TA TA
140304 ATTTTTAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:140377 original size:19 final size:18
Alignment explanation
Indices: 140330--140378 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
140320 AAATGACAAG
*
140330 ATTTATATTTTTATATTAG
1 ATTTAT-TTTTTATATTAC
*
140349 ATTTACTTTTTTACTTTTAC
1 ATTTA-TTTTTTA-TATTAC
140369 ATTTATTTTT
1 ATTTATTTTT
140379 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTATTTTTTATATTAC
Found at i:147964 original size:22 final size:21
Alignment explanation
Indices: 147938--147999 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
147928 AGACAAGCTG
*
147938 TTAATATCAGGAGTTATTTGAT
1 TTAAT-TCAGGAGTTATATGAT
* *
147960 TTAATTCCAGGGGTTACATGAT
1 TTAATT-CAGGAGTTATATGAT
*
147982 ATAATTTCAGGAGTTATA
1 TTAA-TTCAGGAGTTATA
148000 ACAGCTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (21 bp):
TTAATTCAGGAGTTATATGAT
Found at i:153002 original size:22 final size:22
Alignment explanation
Indices: 152977--153031 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
152967 CTGTTAATAT
* *
152977 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
152999 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
153021 CTGGAGTTATA
1 CAGGAGTTATA
153032 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:153932 original size:2 final size:2
Alignment explanation
Indices: 153927--153955 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
153917 TCAAAATTTA
153927 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
153956 TGAATGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:154033 original size:5 final size:5
Alignment explanation
Indices: 154023--154048 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
154013 GGGGTTTCTA
154023 GTTTT GTTTT GTTTT GTTTT GTTTT G
1 GTTTT GTTTT GTTTT GTTTT GTTTT G
154049 AAGAGAGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (5 bp):
GTTTT
Found at i:154250 original size:2 final size:2
Alignment explanation
Indices: 154243--154270 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
154233 ATTTGAAGGT
154243 TA 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 TA
154271 AAATGCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:156808 original size:30 final size:30
Alignment explanation
Indices: 156774--156858 Score: 109
Period size: 33 Copynumber: 2.7 Consensus size: 30
156764 AGCTCCACTC
156774 CATCACCCACCACCACCATGACTCCAATGT
1 CATCACCCACCACCACCATGACTCCAATGT
*
156804 CATCACCACCCCCCACCACCATGACTCCAATGT
1 CAT---CACCCACCACCACCATGACTCCAATGT
*
156837 CATCA-CCACCCACCAGCATGAC
1 CATCACCCA-CCACCACCATGAC
156859 GCCTCCCTCG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 2 0.04
30 17 0.35
33 29 0.60
ACGTcount: A:0.29, C:0.49, G:0.07, T:0.14
Consensus pattern (30 bp):
CATCACCCACCACCACCATGACTCCAATGT
Found at i:156820 original size:33 final size:33
Alignment explanation
Indices: 156777--156851 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
156767 TCCACTCCAT
156777 CACCCACCACCACCATGACTCCAATGTCATCAC
1 CACCCACCACCACCATGACTCCAATGTCATCAC
*
156810 CACCCCCCACCACCATGACTCCAATGTCATCAC
1 CACCCACCACCACCATGACTCCAATGTCATCAC
156843 CACCCACCA
1 CACCCACCA
156852 GCATGACGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.29, C:0.52, G:0.05, T:0.13
Consensus pattern (33 bp):
CACCCACCACCACCATGACTCCAATGTCATCAC
Found at i:167195 original size:24 final size:24
Alignment explanation
Indices: 167153--167201 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
167143 TAACTTTTAT
*
167153 ATCTGACTCGCACGTTATGATCGA
1 ATCTGACTCGCACGATATGATCGA
* *
167177 ATCTGACTTGCATGATATGATCGA
1 ATCTGACTCGCACGATATGATCGA
167201 A
1 A
167202 CCTCGAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
ATCTGACTCGCACGATATGATCGA
Found at i:175535 original size:23 final size:23
Alignment explanation
Indices: 175471--175535 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
175461 TTTTGCAAAC
* * * *
175471 ATGTTCATTTAATGTTCACGATT
1 ATGTTCGTTTAATATTCATGAAT
*
175494 ATGTTCGTTTAACATTCATGAAT
1 ATGTTCGTTTAATATTCATGAAT
175517 ATGTTCGTTTAATATTCAT
1 ATGTTCGTTTAATATTCAT
175536 TTAATGTTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (23 bp):
ATGTTCGTTTAATATTCATGAAT
Found at i:198439 original size:20 final size:21
Alignment explanation
Indices: 198399--198442 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
198389 CTTCCCTCCC
*
198399 TACATCATTAATTAAATTTTA
1 TACATCATTAATTAAAGTTTA
198420 TACATCATTAA-TAAAGTTTA
1 TACATCATTAATTAAAGTTTA
198440 TAC
1 TAC
198443 TTATTGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (21 bp):
TACATCATTAATTAAAGTTTA
Found at i:198764 original size:2 final size:2
Alignment explanation
Indices: 198757--198800 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
198747 AAACTTTTGA
198757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
198798 AT A
1 AT A
198801 AAAATAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:201669 original size:165 final size:165
Alignment explanation
Indices: 201397--201726 Score: 660
Period size: 165 Copynumber: 2.0 Consensus size: 165
201387 TCAAAGCAGA
201397 TCAAATCCCCTCCATCAGCACAAATCATACAGGCATCGTCGCTTTCGGTGCGGGCTTAATGTCGT
1 TCAAATCCCCTCCATCAGCACAAATCATACAGGCATCGTCGCTTTCGGTGCGGGCTTAATGTCGT
201462 TGAATTTGTGCCTTTCTTGCTCATCCTCGTCTTCCCAAGCTTCGATTTGGCAGTCCAACAAGGAA
66 TGAATTTGTGCCTTTCTTGCTCATCCTCGTCTTCCCAAGCTTCGATTTGGCAGTCCAACAAGGAA
201527 AGCTGAGACCCTGCTAGAACTACATGCTGGTAAGG
131 AGCTGAGACCCTGCTAGAACTACATGCTGGTAAGG
201562 TCAAATCCCCTCCATCAGCACAAATCATACAGGCATCGTCGCTTTCGGTGCGGGCTTAATGTCGT
1 TCAAATCCCCTCCATCAGCACAAATCATACAGGCATCGTCGCTTTCGGTGCGGGCTTAATGTCGT
201627 TGAATTTGTGCCTTTCTTGCTCATCCTCGTCTTCCCAAGCTTCGATTTGGCAGTCCAACAAGGAA
66 TGAATTTGTGCCTTTCTTGCTCATCCTCGTCTTCCCAAGCTTCGATTTGGCAGTCCAACAAGGAA
201692 AGCTGAGACCCTGCTAGAACTACATGCTGGTAAGG
131 AGCTGAGACCCTGCTAGAACTACATGCTGGTAAGG
201727 CTTTTTGGTT
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 165 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (165 bp):
TCAAATCCCCTCCATCAGCACAAATCATACAGGCATCGTCGCTTTCGGTGCGGGCTTAATGTCGT
TGAATTTGTGCCTTTCTTGCTCATCCTCGTCTTCCCAAGCTTCGATTTGGCAGTCCAACAAGGAA
AGCTGAGACCCTGCTAGAACTACATGCTGGTAAGG
Found at i:202279 original size:24 final size:22
Alignment explanation
Indices: 202243--202299 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 22
202233 AAGCTAAGAA
202243 AATA-AAATAAAAATCTCAACATG
1 AATATAAATAAAAATCT-AACA-G
*
202266 AATATAAATTAAAATCTAACAG
1 AATATAAATAAAAATCTAACAG
*
202288 AAAAT-AATAAAA
1 AATATAAATAAAA
202300 TTGTACAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 5 0.17
23 8 0.27
24 11 0.37
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.23
Consensus pattern (22 bp):
AATATAAATAAAAATCTAACAG
Found at i:203156 original size:14 final size:14
Alignment explanation
Indices: 203134--203203 Score: 88
Period size: 14 Copynumber: 4.9 Consensus size: 14
203124 ATTGGTTTTT
203134 TGGAAATTGAATTC
1 TGGAAATTGAATTC
*
203148 TGGATATTGAATTC
1 TGGAAATTGAATTC
*
203162 TGGAAAATGAATTAC
1 TGGAAATTGAATT-C
203177 T-GAAATTTGAATTC
1 TGGAAA-TTGAATTC
*
203191 TGGAAAATGAATT
1 TGGAAATTGAATT
203204 ACATTTCTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
14 36 0.75
15 12 0.25
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.36
Consensus pattern (14 bp):
TGGAAATTGAATTC
Found at i:203454 original size:13 final size:13
Alignment explanation
Indices: 203409--203471 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
203399 AACTTAATAT
203409 TATTATT-TTAAAA
1 TATTATTATT-AAA
*
203422 TATTA-AATTAAAA
1 TATTATTATT-AAA
203435 TATTTATTATTAAA
1 TA-TTATTATTAAA
*
203449 TATTATTTTTAAA
1 TATTATTATTAAA
203462 -ATT-TTATTAA
1 TATTATTATTAA
203472 TAAAAATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 6 0.14
12 3 0.07
13 23 0.53
14 8 0.19
15 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:203606 original size:23 final size:23
Alignment explanation
Indices: 203557--203607 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
203547 GTGTTATATT
**
203557 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
203580 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
203603 ATATT
1 ATATT
203608 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:203664 original size:28 final size:28
Alignment explanation
Indices: 203627--203705 Score: 151
Period size: 28 Copynumber: 2.9 Consensus size: 28
203617 TTATATTAAT
203627 ATTAAATATATAAATAATATTATTCATC
1 ATTAAATATATAAATAATATTATTCATC
203655 ATTAAATATATAAATAATATTATTCATC
1 ATTAAATATATAAATAATATTATTCATC
203683 ATTAAATATATAAATAAT-TTATT
1 ATTAAATATATAAATAATATTATT
203706 ATATATTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 5 0.10
28 46 0.90
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTAAATATATAAATAATATTATTCATC
Found at i:203792 original size:22 final size:23
Alignment explanation
Indices: 203764--203810 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
203754 TTGATTATTT
203764 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
203786 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
203809 TA
1 TA
203811 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:203815 original size:22 final size:22
Alignment explanation
Indices: 203772--203815 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
203762 TTTATTATAA
*
203772 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
203794 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
203816 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:204088 original size:22 final size:22
Alignment explanation
Indices: 204060--204104 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
204050 AAAACATTTT
*
204060 CCGAAAAATGAATTACGTGAAA
1 CCGAAAAATAAATTACGTGAAA
204082 CCGAAAAATAAATTACGTGAAA
1 CCGAAAAATAAATTACGTGAAA
204104 C
1 C
204105 AAACACGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.18
Consensus pattern (22 bp):
CCGAAAAATAAATTACGTGAAA
Found at i:204784 original size:18 final size:19
Alignment explanation
Indices: 204749--204786 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
204739 CACGAAATGT
204749 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
204769 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
204787 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:204957 original size:29 final size:29
Alignment explanation
Indices: 204823--204949 Score: 245
Period size: 29 Copynumber: 4.3 Consensus size: 29
204813 TTTGGTTAGT
204823 TTAACAGGAATGTAAGATTACTGTGTTTGG
1 TTAA-AGGAATGTAAGATTACTGTGTTTGG
204853 TTAAAGGAATGTAAGATTACTGTGTTTGG
1 TTAAAGGAATGTAAGATTACTGTGTTTGG
204882 TTAAAGGAATGTAAGATTACTGTGTTTGG
1 TTAAAGGAATGTAAGATTACTGTGTTTGG
204911 TTAAAGGAATGTAAGATTACTGTGTTTGG
1 TTAAAGGAATGTAAGATTACTGTGTTTGG
204940 TTAAAGGAAT
1 TTAAAGGAAT
204950 AAAAGATTGT
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
29 93 0.96
30 4 0.04
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (29 bp):
TTAAAGGAATGTAAGATTACTGTGTTTGG
Found at i:205094 original size:36 final size:36
Alignment explanation
Indices: 205023--205095 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
205013 GTTGGAAAAT
* *
205023 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
205059 ATTTATATAATTTT-TTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTAAAAATCATAAA
205095 A
1 A
205096 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 18 0.55
37 15 0.45
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
Found at i:206748 original size:114 final size:114
Alignment explanation
Indices: 206509--206798 Score: 291
Period size: 114 Copynumber: 2.6 Consensus size: 114
206499 AGAGACTTCC
* * * * ** *
206509 AGAAACTTCAACTT-GTATTTT-TAAGATCATT-CTACTAGGAGTCTCAATCTTGACTTTGTTAG
1 AGAAACTTCAGCTTGGTATTTTCTAAGACCGTTCCT-CAAGGAACCTCAATCTTGACTTTCTTAG
* * * *
206571 GACTTGTATCCTAGAAAACTCATTTTAGTCTTTCTCAGGATTGTTTCCCT
65 GACTTGTATCCTAGAAAACTCAATTTAGTCTTCCTCAAGATTGTTTCCAT
* * * *
206621 ATAAACTTCAGCTTGGTCTTTTTTAAGACCGTTCCTCTAGGAACCTCAATCTTGACTTTCTTAGG
1 AGAAACTTCAGCTTGGTATTTTCTAAGACCGTTCCTCAAGGAACCTCAATCTTGACTTTCTTAGG
* * **
206686 ACTTTTATCCTATAAAGTTCAATTTAGTCTTCCTCAAGATTGTTTCCAT
66 ACTTGTATCCTAGAAAACTCAATTTAGTCTTCCTCAAGATTGTTTCCAT
* *** * * * *
206735 AGAAACCTT-AGCTTTGTATTTTCTAAGATTTTTCTTCAAGGAACATCATTCTTGATTTTCTTAG
1 AGAAA-CTTCAGCTTGGTATTTTCTAAGACCGTTCCTCAAGGAACCTCAATCTTGACTTTCTTAG
206799 AACATGTCTC
Statistics
Matches: 146, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
112 12 0.08
113 6 0.04
114 123 0.84
115 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (114 bp):
AGAAACTTCAGCTTGGTATTTTCTAAGACCGTTCCTCAAGGAACCTCAATCTTGACTTTCTTAGG
ACTTGTATCCTAGAAAACTCAATTTAGTCTTCCTCAAGATTGTTTCCAT
Found at i:210849 original size:24 final size:24
Alignment explanation
Indices: 210822--210869 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
210812 GGCTCGATTT
210822 TCTTCCAACAGTCAGACCTTTTAA
1 TCTTCCAACAGTCAGACCTTTTAA
210846 TCTTCCAACAGTCAGACCTTTTAA
1 TCTTCCAACAGTCAGACCTTTTAA
210870 ATTCCAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (24 bp):
TCTTCCAACAGTCAGACCTTTTAA
Found at i:211241 original size:24 final size:26
Alignment explanation
Indices: 211214--211272 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
211204 TCCTACATGG
*
211214 TTAATTT-A-CTTCACTGTAATTTGT
1 TTAATTTCATCTTCAATGTAATTTGT
211238 TTAATTGCTTCATCTTCAATGTAATTTGT
1 TTAA-T--TTCATCTTCAATGTAATTTGT
211267 TTAATT
1 TTAATT
211273 GTTTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
24 4 0.14
25 1 0.03
26 1 0.03
27 2 0.07
28 2 0.07
29 19 0.66
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.54
Consensus pattern (26 bp):
TTAATTTCATCTTCAATGTAATTTGT
Found at i:211431 original size:20 final size:20
Alignment explanation
Indices: 211371--211433 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
211361 CTTGTTATTT
211371 TTGTTAAGGTAATCTGTTTAA
1 TTGTT-AGGTAATCTGTTTAA
** *
211392 TTGTTTATCTATAATATGTTTAA
1 TTG-TTA--GGTAATCTGTTTAA
211415 TTGTTAGGTAATCTGTTTA
1 TTGTTAGGTAATCTGTTTA
211434 GAATTTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 10 0.30
21 4 0.12
22 5 0.15
23 14 0.42
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (20 bp):
TTGTTAGGTAATCTGTTTAA
Found at i:214337 original size:139 final size:138
Alignment explanation
Indices: 214181--214552 Score: 393
Period size: 138 Copynumber: 2.7 Consensus size: 138
214171 GTCATAGTTT
* * *
214181 AATTGGTTAGGATTAATAATTAGAACCTTCATTTTAGTTTAAACTT-ACGTTAGTCTTTTAATTT
1 AATTGGTTAGGATTAATAATTAGAGCCTTCATTTTAGTATAAATTTCAC-TTAGTCTTTTAATTT
* * * *
214245 AAGTGAATTTTTAATTTGGTCATCGCTTTTATATCTGAGGTTCCATATTAATTATACGATCTAAT
65 AAGTGAATTTTTAATTTGGTCATCGCTTTTATACCCGAGGTTCCACATTAATTATACGAT-TAAA
*
214310 CATA-TGTTAA
129 CAAATTG-TAA
* * *
214320 ATTTGGTTAGGATTAATAGTTAGAGCCTTCATTTTAG-ATAAATTTCACCTTAGTCTTGTAATTT
1 AATTGGTTAGGATTAATAATTAGAGCCTTCATTTTAGTATAAATTTCA-CTTAGTCTTTTAATTT
* * * * *
214384 -AGATGAATTTTTAATTT-GACATTGCTTTTATGCCCGAGGTTCCGCATTAATTATTCGATTAAA
65 AAG-TGAATTTTTAATTTGGTCATCGCTTTTATACCCGAGGTTCCACATTAATTATACGATTAAA
214447 CAAATTGTAA
129 CAAATTGTAA
* * * * *
214457 AATTGATTAGGTTTAAT-ATTAGAGCCTTCA-TATAGGGTCT-AATTTCATCATAGTCCTTTT-A
1 AATTGGTTAGGATTAATAATTAGAGCCTTCATTTTA--GTATAAATTTCA-CTTAGT-CTTTTAA
* *
214518 TTTAAGAGAATTTTTAATATGGTCATCGCTTTTAT
62 TTTAAGTGAATTTTTAATTTGGTCATCGCTTTTAT
214553 GGAGGTTCCA
Statistics
Matches: 194, Mismatches: 29, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
135 3 0.02
136 12 0.06
137 52 0.27
138 63 0.32
139 63 0.32
140 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (138 bp):
AATTGGTTAGGATTAATAATTAGAGCCTTCATTTTAGTATAAATTTCACTTAGTCTTTTAATTTA
AGTGAATTTTTAATTTGGTCATCGCTTTTATACCCGAGGTTCCACATTAATTATACGATTAAACA
AATTGTAA
Found at i:218625 original size:2 final size:2
Alignment explanation
Indices: 218620--218662 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
218610 ATATCCATCC
218620 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
218661 AT
1 AT
218663 TAAAAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:222336 original size:64 final size:64
Alignment explanation
Indices: 222268--222488 Score: 234
Period size: 64 Copynumber: 3.5 Consensus size: 64
222258 TTGAAGGTGT
** ** * *
222268 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATTAGTG
222331 C
64 C
*
222332 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
* * * * * * *
222396 ATCGATGCATAAGTCA-TACATCGATGCATCCCAGTAATAATACAACATCAAATACATTTTA-TG
1 ATCGATGCATAAGT-AGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCA-ATTAGTG
222459 C
64 C
* *
222460 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
222489 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
63 1 0.01
64 124 0.93
65 9 0.07
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
Found at i:227426 original size:63 final size:63
Alignment explanation
Indices: 227359--227576 Score: 230
Period size: 64 Copynumber: 3.5 Consensus size: 63
227349 TTGAAGGTGT
** ** * *
227359 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAAATAA-ATACATCGAATGCAATTTGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATT-AATAAGAAACATCGAATGCAATTAGTGC
*
227422 ATCGATGCATAAGTAGTGCATCGATGTATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAA-GAAACATCGAATGCAATTAGTGC
* * * * *
227486 ATCGATGCATAAGTCA-TGCATCGATGCATCCCAGTAATAATACAACATCAAATAC-ATT-TTGC
1 ATCGATGCATAAGT-AGTGCATCGATGCATCCCATTAATAAGA-AACATCGAATGCAATTAGTGC
* *
227548 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
227577 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
61 1 0.01
62 33 0.25
63 32 0.24
64 67 0.50
65 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAACATCGAATGCAATTAGTGC
Found at i:229895 original size:17 final size:17
Alignment explanation
Indices: 229846--229895 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
229836 TTGTTCATGT
229846 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
*
229863 TTTGAG----TATCAATG
1 TTTG-GTTTCTATGAATG
229877 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
229894 TT
1 TT
229896 AGAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
17 13 0.50
18 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.52
Consensus pattern (17 bp):
TTTGGTTTCTATGAATG
Found at i:230224 original size:22 final size:22
Alignment explanation
Indices: 230173--230231 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
230163 AATGTATGCG
*
230173 AAAAATGTACCA-AA-AGTCATA
1 AAAAATGTGCCACAAGAG-CATA
* * *
230194 AGAATTGTGTCACAAGAGCATA
1 AAAAATGTGCCACAAGAGCATA
230216 AAAAATGTGCCACAAG
1 AAAAATGTGCCACAAG
230232 GATAAAGATC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 8 0.28
22 19 0.66
23 2 0.07
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (22 bp):
AAAAATGTGCCACAAGAGCATA
Found at i:235515 original size:15 final size:15
Alignment explanation
Indices: 235495--235547 Score: 74
Period size: 15 Copynumber: 3.6 Consensus size: 15
235485 CGCAAAAAAT
235495 ATATTTTAAGTTAAA
1 ATATTTTAAGTTAAA
*
235510 ATATTTTAA--AAAA
1 ATATTTTAAGTTAAA
235523 TATATTTTAAGTTAAA
1 -ATATTTTAAGTTAAA
235539 ATATTTTAA
1 ATATTTTAA
235548 AAAATATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 3 0.09
14 9 0.27
15 18 0.55
16 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
ATATTTTAAGTTAAA
Found at i:235520 original size:29 final size:29
Alignment explanation
Indices: 235488--235563 Score: 152
Period size: 29 Copynumber: 2.6 Consensus size: 29
235478 TCGGAAACGC
235488 AAAAAATATATTTTAAGTTAAAATATTTT
1 AAAAAATATATTTTAAGTTAAAATATTTT
235517 AAAAAATATATTTTAAGTTAAAATATTTT
1 AAAAAATATATTTTAAGTTAAAATATTTT
235546 AAAAAATATATTTTAAGT
1 AAAAAATATATTTTAAGT
235564 GATGATAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (29 bp):
AAAAAATATATTTTAAGTTAAAATATTTT
Found at i:235640 original size:21 final size:20
Alignment explanation
Indices: 235615--235656 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
235605 ATAAATATAT
235615 TTAATAAGCTAAGAAAAAAAA
1 TTAATAAGCTAA-AAAAAAAA
* *
235636 TTAATAAGTTAAAACAAAAA
1 TTAATAAGCTAAAAAAAAAA
235656 T
1 T
235657 AAAATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (20 bp):
TTAATAAGCTAAAAAAAAAA
Found at i:241458 original size:40 final size:40
Alignment explanation
Indices: 241414--241495 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
241404 ACCGTAGTGC
*
241414 TACACATTAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
241454 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
241494 TA
1 TA
241496 TAAACCTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:246281 original size:6 final size:7
Alignment explanation
Indices: 246262--246291 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
246252 CATTTAATTA
246262 TATTTTT
1 TATTTTT
246269 TATTTTT
1 TATTTTT
246276 TATTTTT
1 TATTTTT
246283 TATTCTTT
1 TATT-TTT
246291 T
1 T
246292 TATTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:246364 original size:9 final size:9
Alignment explanation
Indices: 246352--246381 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
246342 ATTTTTATTA
246352 TTTATTCTT
1 TTTATTCTT
*
246361 TTTATTCGT
1 TTTATTCTT
246370 TTTATTCTT
1 TTTATTCTT
246379 TTT
1 TTT
246382 TCTCTTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTATTCTT
Found at i:246372 original size:25 final size:25
Alignment explanation
Indices: 246344--246435 Score: 75
Period size: 25 Copynumber: 3.6 Consensus size: 25
246334 TTAATTATAT
246344 TTTTATTATTTATTCTTTTTATTCG
1 TTTTATTATTTATTCTTTTTATTCG
* *
246369 TTTTATTCTTTTTTCTCTTTCT-TTCTG
1 TTTTATTATTTATTCT-TTT-TATTC-G
*
246396 TTTT-TTATTTATTCATTATTATT--
1 TTTTATTATTTATTC-TTTTTATTCG
*
246419 TTTTAGTATTTTATTCT
1 TTTTATTA-TTTATTCT
246436 ATTATATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
23 4 0.07
24 3 0.06
25 22 0.41
26 18 0.33
27 7 0.13
ACGTcount: A:0.14, C:0.10, G:0.03, T:0.73
Consensus pattern (25 bp):
TTTTATTATTTATTCTTTTTATTCG
Found at i:246497 original size:5 final size:5
Alignment explanation
Indices: 246487--246525 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
246477 TATATAATTA
246487 TTATT TTATT TTA-T TTATT TTATT TTA-T TTATT CTTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT -TTATT
246526 GTTTTTGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.26
5 18 0.58
6 5 0.16
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:246506 original size:14 final size:14
Alignment explanation
Indices: 246487--246525 Score: 69
Period size: 14 Copynumber: 2.7 Consensus size: 14
246477 TATATAATTA
246487 TTATTTTATTTTAT
1 TTATTTTATTTTAT
246501 TTATTTTATTTTAT
1 TTATTTTATTTTAT
246515 TTATTCTTATT
1 TTATT-TTATT
246526 GTTTTTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:246719 original size:33 final size:30
Alignment explanation
Indices: 246666--246725 Score: 75
Period size: 33 Copynumber: 1.9 Consensus size: 30
246656 TTTTAGTTTT
*
246666 TATTTTTTGTTTATTCTTATTTGTTTTATC
1 TATTTTTTGTTTATTCTTATTTCTTTTATC
*
246696 TATTTCTTTGTTTTAGTTTTTATTTCTTTT
1 TATTT-TTTG-TTTA-TTCTTATTTCTTTT
246726 TTTCATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.20
31 4 0.16
32 4 0.16
33 12 0.48
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.75
Consensus pattern (30 bp):
TATTTTTTGTTTATTCTTATTTCTTTTATC
Found at i:246776 original size:20 final size:20
Alignment explanation
Indices: 246664--246778 Score: 65
Period size: 20 Copynumber: 5.5 Consensus size: 20
246654 TATTTTAGTT
*
246664 TTTATTTTTTGTTTATTCTTA
1 TTTATTTTTTATTTATT-TTA
* *
246685 TTTGTTTTATCTATTTCTTTGT-
1 TTTATTTT-T-TATTTATTT-TA
* *
246707 TTTAGTTTTTATTTCTTTT-
1 TTTATTTTTTATTTATTTTA
*
246726 TTTCATATTATTA-TTATTATTA
1 TTT-AT-TTTTTATTTATT-TTA
** *
246748 TAGACTTTTTATTTATTTTA
1 TTTATTTTTTATTTATTTTA
246768 TTTATTTTTTA
1 TTTATTTTTTA
246779 ACACTTTGTT
Statistics
Matches: 71, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
19 4 0.06
20 30 0.42
21 21 0.30
22 9 0.13
23 7 0.10
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTATTTTTTATTTATTTTA
Found at i:247862 original size:28 final size:27
Alignment explanation
Indices: 247789--247854 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
247779 TTTTGGATCT
* *
247789 TTATTGTAATTTGTAAAAGTATGGTTG
1 TTATTGTAATTTGAAAAAGTATGGTTA
*
247816 TTATTATAATTTGAAAAAAGTAT-GTTA
1 TTATTGTAATTTG-AAAAAGTATGGTTA
247843 TTATTGTAATTT
1 TTATTGTAATTT
247855 ATGAAAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 26 0.76
28 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (27 bp):
TTATTGTAATTTGAAAAAGTATGGTTA
Found at i:247896 original size:29 final size:27
Alignment explanation
Indices: 247845--247917 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
247835 GTATGTTATT
*
247845 ATTGTAATTTATGAAAAACTTTTGCCTTC
1 ATTGTAATTTAT-AAAAACTTTT-ACTTC
* * *
247874 ATTGTAATTTATAAAGGATTTTTACTTT
1 ATTGTAATTTATAAA-AACTTTTACTTC
*
247902 AATGTAATTTATAAAA
1 ATTGTAATTTATAAAA
247918 GTTCGGTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (27 bp):
ATTGTAATTTATAAAAACTTTTACTTC
Found at i:248672 original size:22 final size:22
Alignment explanation
Indices: 248630--248672 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
248620 TACTTGGATA
248630 GTATCGATACCTCCAAATAAGAT
1 GTATCGATACCT-CAAATAAGAT
248653 GTATCGATACACT-AAATAAG
1 GTATCGATAC-CTCAAATAAG
248673 GGTATCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 10 0.53
24 2 0.11
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (22 bp):
GTATCGATACCTCAAATAAGAT
Found at i:254495 original size:15 final size:15
Alignment explanation
Indices: 254462--254497 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
254452 TATTTAGCTG
* *
254462 GGCGGGCGGATGTGG
1 GGCGGGCGGATGCGA
254477 GGCGGGCGGATGCGA
1 GGCGGGCGGATGCGA
254492 GGCGGG
1 GGCGGG
254498 TAATGTCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.08, C:0.17, G:0.67, T:0.08
Consensus pattern (15 bp):
GGCGGGCGGATGCGA
Found at i:256029 original size:35 final size:34
Alignment explanation
Indices: 255944--256030 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
255934 ATTTGGTATT
*
255944 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
255978 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
256016 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
256031 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:258386 original size:17 final size:18
Alignment explanation
Indices: 258343--258383 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
258333 GAATTATATT
258343 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
258360 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
258378 ATTAAA
1 AGTAAA
258384 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:258444 original size:10 final size:10
Alignment explanation
Indices: 258425--258455 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
258415 ATTAAACAGA
*
258425 GAGAGTATTT
1 GAGAGAATTT
258435 GAGAGAATTT
1 GAGAGAATTT
258445 GAGAGAATTT
1 GAGAGAATTT
258455 G
1 G
258456 GTGTGATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:260217 original size:37 final size:37
Alignment explanation
Indices: 260141--260217 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
260131 TTTTTATATT
* *
260141 TTTAATTTTGTATAAAAAAATATATAAATATTATGAA
1 TTTAATTTTGTATAAAAAAATATATAAAAATTATCAA
*
260178 TTTAATTTT-T-TAAAGAAAATATATAAAAATTTTACAA
1 TTTAATTTTGTATAAA-AAAATATATAAAAATTAT-CAA
260215 TTT
1 TTT
260218 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 4 0.11
36 17 0.49
37 14 0.40
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTAATTTTGTATAAAAAAATATATAAAAATTATCAA
Found at i:264743 original size:17 final size:17
Alignment explanation
Indices: 264721--264755 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
264711 AAACTTGTAT
264721 ATAATATAAAAA-ATTTA
1 ATAATA-AAAAATATTTA
264738 ATAATAAAAAATATTTA
1 ATAATAAAAAATATTTA
264755 A
1 A
264756 ATTTTATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAAAAAATATTTA
Found at i:268285 original size:23 final size:23
Alignment explanation
Indices: 268242--268286 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
268232 CTCTTGTAAT
*
268242 CACTCTGTAACTGGCTCAATAAA
1 CACTCTGTAACAGGCTCAATAAA
*
268265 CACTCTG-AACAGAGCTGAATAA
1 CACTCTGTAACAG-GCTCAATAA
268287 TTGTCAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (23 bp):
CACTCTGTAACAGGCTCAATAAA
Found at i:272910 original size:28 final size:28
Alignment explanation
Indices: 272870--272925 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
272860 TTCGGTGGTC
272870 CATTAAAATCTGTTTAAAATTTATAATA
1 CATTAAAATCTGTTTAAAATTTATAATA
272898 CATTAAAATCTGTTTAAAATTTATAATA
1 CATTAAAATCTGTTTAAAATTTATAATA
272926 AATTGATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (28 bp):
CATTAAAATCTGTTTAAAATTTATAATA
Found at i:273095 original size:31 final size:31
Alignment explanation
Indices: 273053--273127 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
273043 CGAAAAATTT
*
273053 CTTGTTCGTGTTCCTTCGTTAAGGAATGTGG
1 CTTGTTCGTGTTCCTTCGTTAAAGAATGTGG
* *
273084 CTTGTTTGTGTTCTTTCGTTAAAGAATGTGG
1 CTTGTTCGTGTTCCTTCGTTAAAGAATGTGG
*
273115 ATTGTTCGTGTTC
1 CTTGTTCGTGTTC
273128 ATTCATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (31 bp):
CTTGTTCGTGTTCCTTCGTTAAAGAATGTGG
Found at i:274754 original size:76 final size:76
Alignment explanation
Indices: 274601--274760 Score: 182
Period size: 76 Copynumber: 2.1 Consensus size: 76
274591 TACATTTTTT
* * ** *
274601 ATTATATAAATAGTATCAATAAAATATAAATTAAGGTTAAAAAATAAAAAATATTCACAACAATT
1 ATTAAATAAATAGTATCAATAAAATATAAACTAAGACTAAAAAATAAAAAATACTCACAACAATT
*
274666 TAAATAATATA
66 TAAATAACATA
* * *
274677 ATTAAATAAATAGTATACGAATTAAAATATAAACTAATACT-AAAAATAAAAAA-ACT-ATAATA
1 ATTAAATAAATAGTAT-C-AA-TAAAATATAAACTAAGACTAAAAAATAAAAAATACTCACAACA
274739 ATTTAAATAACATA
63 ATTTAAATAACATA
*
274753 ATTTAATA
1 ATTAAATA
274761 TTATTACTGT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
76 39 0.55
77 3 0.04
78 14 0.20
79 15 0.21
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (76 bp):
ATTAAATAAATAGTATCAATAAAATATAAACTAAGACTAAAAAATAAAAAATACTCACAACAATT
TAAATAACATA
Found at i:277329 original size:42 final size:43
Alignment explanation
Indices: 277283--277364 Score: 114
Period size: 42 Copynumber: 1.9 Consensus size: 43
277273 AAGTTTTAAA
* *
277283 TTCTTATATATTTTTATATTTATGA-ATAAAATT-TTATTTTCG
1 TTCTTATATAATTTTATATTT-TAACATAAAATTATTATTTTCG
*
277325 TTCTTTTATAATTTTATATTTTAACATAAAATTATTATTT
1 TTCTTATATAATTTTATATTTTAACATAAAATTATTATTT
277365 ATCTAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 2 0.06
42 27 0.77
43 6 0.17
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (43 bp):
TTCTTATATAATTTTATATTTTAACATAAAATTATTATTTTCG
Found at i:278353 original size:21 final size:21
Alignment explanation
Indices: 278324--278382 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
278314 TTTGAATACT
278324 AAACTAAAGGTAGAT-AATGAAG
1 AAAC-AAAGGTAGATGAATG-AG
278346 AAACAAAGGTAGATGAATGAG
1 AAACAAAGGTAGATGAATGAG
**
278367 AAACAAAAATAGATGA
1 AAACAAAGGTAGATGA
278383 TAGAGACCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 26 0.76
22 8 0.24
ACGTcount: A:0.58, C:0.05, G:0.22, T:0.15
Consensus pattern (21 bp):
AAACAAAGGTAGATGAATGAG
Found at i:278438 original size:13 final size:13
Alignment explanation
Indices: 278420--278444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
278410 TATCTACGGT
278420 AAACATGAATAAA
1 AAACATGAATAAA
278433 AAACATGAATAA
1 AAACATGAATAA
278445 TTGAAGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (13 bp):
AAACATGAATAAA
Found at i:278503 original size:22 final size:22
Alignment explanation
Indices: 278478--278521 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
278468 AACGATTTTA
*
278478 CTGATTACAATGACTAAAACTT
1 CTGATTACAATAACTAAAACTT
278500 CTGATTACAATAACTAAAACTT
1 CTGATTACAATAACTAAAACTT
278522 TCAATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (22 bp):
CTGATTACAATAACTAAAACTT
Found at i:280507 original size:15 final size:15
Alignment explanation
Indices: 280487--280516 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
280477 AGTTGTTTAA
280487 TAATATACAAGTACC
1 TAATATACAAGTACC
*
280502 TAATATGCAAGTACC
1 TAATATACAAGTACC
280517 ATATAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (15 bp):
TAATATACAAGTACC
Found at i:280731 original size:2 final size:2
Alignment explanation
Indices: 280724--280755 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
280714 ATCGACTAGT
280724 TA TA TA 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 TA TA TA
280756 ATTGATGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:285606 original size:59 final size:59
Alignment explanation
Indices: 285478--285633 Score: 188
Period size: 59 Copynumber: 2.6 Consensus size: 59
285468 ATAGTTATGT
* * * *
285478 GATCATTTTGTAACTTTTAATGGT-TGATGAACTCAACAAATCAACGCCATATAATCGAGA
1 GATCATTTTGTAACTTTTAATAGTCAG-TG-ACTCAACAAAGCAACACCATATAATCGAGA
* * * *
285538 AATCATTTTGTAACTTTTAATAGTCAGTGACTCAACAAAGCAACACCCTCTAATCGAGG
1 GATCATTTTGTAACTTTTAATAGTCAGTGACTCAACAAAGCAACACCATATAATCGAGA
* * *
285597 GATCGTTTTGTAACTTTTAATAGTCGGTAACTCAACA
1 GATCATTTTGTAACTTTTAATAGTCAGTGACTCAACA
285634 TACCAACGTC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
59 58 0.70
60 24 0.29
61 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (59 bp):
GATCATTTTGTAACTTTTAATAGTCAGTGACTCAACAAAGCAACACCATATAATCGAGA
Found at i:286995 original size:31 final size:29
Alignment explanation
Indices: 286957--287035 Score: 133
Period size: 31 Copynumber: 2.7 Consensus size: 29
286947 TTTTTTTTAC
286957 AAATATATAAATATGAATATCCCTATAAAAA
1 AAATATATAAATATGAATATCCCTAT--AAA
286988 AAATATATAAATATGAATATCCCTATAAA
1 AAATATATAAATATGAATATCCCTATAAA
287017 AAA-ATATAAATATGAATAT
1 AAATATATAAATATGAATAT
287036 GAAGAAAACT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
28 16 0.33
29 6 0.12
31 26 0.54
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (29 bp):
AAATATATAAATATGAATATCCCTATAAA
Found at i:293289 original size:610 final size:610
Alignment explanation
Indices: 288919--299870 Score: 20259
Period size: 610 Copynumber: 18.0 Consensus size: 610
288909 GTTCTCTTTG
*
288919 TTAAACTAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
*
288984 TGGGTCTAGATATTGAACTATCTAAATCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
* *
289049 TCCTAGTCAGAGTTGATGGGTAGTGGTTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
289114 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTAGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
289179 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
289244 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATC-TTTTTTATGACATGTGA
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
289308 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
391 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
289373 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
456 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
*
289438 CTGTTTCTTAACTTTGTATCTATATT-TTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
521 CTGTTTCTTAACTTTGTATATAT-TTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
*
289502 GTATCCACACCGTTTAATTATTTATA
585 GTACCCACACCGTTTAATTATTTATA
289528 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
*
289593 TGGGTCTAGATATTGAACTATCTAAAGTGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
289658 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
289723 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
*
289788 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCAGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
* *
289853 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTTTATTATATGT
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATC--TTTTTTTATGACATGT
*
289918 GACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTCG
389 GACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTG
*
289983 TGAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCTTGTTCATTTCCTAATTCTGTGATTTTATAT
454 TGAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATAT
*
290048 TTATGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
519 TTCTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
*
290113 GGTACCCATACCGTTTAATTATTTATA
584 GGTACCCACACCGTTTAATTATTTATA
*
290140 TTAAACCAAGTTAGGATTGCTTGAGGGGTAGGTGAAAGACTGTTTTTGGTTT-TTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
290204 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
*
290269 TCTTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
290334 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGTTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
*
290399 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCAGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
* *
290464 CTCGCATTTGTCATCTTAGTCCAATATTGGGTTGTTATTAATTTATCTTTTTTTTATGACATGTG
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATC-TTTTTTTATGACATGTG
290529 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
390 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
290594 GAGATAAG-TTTG-TTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
455 GAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
*
290657 TCTGTTTCTTAACTTTGTATATATTTGTTTCAGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
520 TCTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
290722 GTACCCACACCGTTTAATTATTTATA
585 GTACCCACACCGTTTAATTATTTATA
290748 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
* *
290813 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGATTTGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
290878 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
* *
290943 AAGGGTGGGAGAGTTGAGGAAGATGAAAAGAGAGAGAACGTCTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
291008 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
291073 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATT-A---A--TTTTTTTATGACATGTGA
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
*
291132 CTTTGGTAACGTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
391 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
291197 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
456 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
*
291262 ATGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
521 CTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
*
291327 TACCCATACCGTTTAATTATTTATA
586 TACCCACACCGTTTAATTATTTATA
291352 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTG-TTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
*
291416 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCATTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
*
291481 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGTTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
291546 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGACTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
291611 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
291676 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTT-T-TTTTTATTAT---ATGTG
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTT-TTATGACATGTG
291736 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
390 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
291801 GAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
455 GAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
*
291866 TCTGTTTCTTAACTTTGTATCTATATT-TTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
520 TCTGTTTCTTAACTTTGTATATAT-TTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
* *
291930 AGTATCCACACCGTTTAATTATTTATA
584 GGTACCCACACCGTTTAATTATTTATA
291957 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
292022 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
*
292087 TCCTAGTCGGAGTTGATGGGTAGTGGCTATTGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
292152 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGACTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
*
292217 GTTTAATCTTTAATTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
* *
292282 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAA-TT-T-TTTTTTTATTATATGTGA
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
292344 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
391 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
292409 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
456 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
* *
292474 ATGTTTCTTAACTTTGTATATATTTGTTTCTGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
521 CTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
*
292539 TACCCATACCGTTTAATTATTTATA
586 TACCCACACCGTTTAATTATTTATA
292564 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
* **
292629 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGATTTTTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
292694 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
292759 AAGGGTGGGAGAGTTGAGGAAGATGAAAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
292824 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
292889 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
292954 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
391 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
293019 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
456 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
* * *
293084 CTGTTTCTTAACTTTGTATCTATATT-TTTCAGTCCTAAATGTTCATAGTGTTATAACAGTTATG
521 CTGTTTCTTAACTTTGTATATAT-TTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
* *
293148 GTATCCACACCATTTAATTATTTATA
585 GTACCCACACCGTTTAATTATTTATA
293174 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
* *
293239 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGATTTGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
293304 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
293369 AAGGGTGGGAGAGTTGAGGAAGATGAAAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
293434 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
293499 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
293564 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
391 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
293629 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
456 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
* *
293694 CTGTTTCTTAACTTTGTATCTATATT-TTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATA
521 CTGTTTCTTAACTTTGTATATAT-TTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
*
293758 GTATCCACACCGTTTAATTATTTATA
585 GTACCCACACCGTTTAATTATTTATA
293784 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
293849 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
293914 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
293979 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
*
294044 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCAGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
* *
294109 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTTTATTATATGT
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATC--TTTTTTTATGACATGT
*
294174 GACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTCG
389 GACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTG
*
294239 TGAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCTTGTTCATTTCCTAATTCTGTGATTTTATAT
454 TGAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATAT
*
294304 TTATGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
519 TTCTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
*
294369 GGTACCCATACCGTTTAATTATTTATA
584 GGTACCCACACCGTTTAATTATTTATA
*
294396 TTAAACCAAGTTAGGATTGCTTGAGGGGTAGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
294461 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
*
294526 TCTTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
294591 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGTTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
*
294656 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCAGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
* *
294721 CTCGCATTTGTCATCTTAGTCCAATATTGGGTTGTTATTAATTTATCTTTTTTTTATGACATGTG
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATC-TTTTTTTATGACATGTG
294786 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
390 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
294851 GAGATAAG-TTTG-TTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
455 GAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
*
294914 TCTGTTTCTTAACTTTGTATATATTTGTTTCAGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
520 TCTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
294979 GTACCCACACCGTTTAATTATTTATA
585 GTACCCACACCGTTTAATTATTTATA
295005 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
* *
295070 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGATTTGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
295135 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
* *
295200 AAGGGTGGGAGAGTTGAGGAAGATGAAAAGAGAGAGAACGTCTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
295265 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
295330 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATT-A---AT-TTTTTTTATGACATGTGA
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
*
295390 CTTTGGTAACGTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
391 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
295455 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
456 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
*
295520 ATGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
521 CTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
*
295585 TACCCATACCGTTTAATTATTTATA
586 TACCCACACCGTTTAATTATTTATA
295610 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
*
295675 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCATTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
*
295740 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGTTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
295805 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGACTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
295870 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
295935 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTT-T-TTTTTATTAT---ATGTG
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTT-TTATGACATGTG
295995 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
390 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
296060 GAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
455 GAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
*
296125 TCTGTTTCTTAACTTTGTATCTATATT-TTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
520 TCTGTTTCTTAACTTTGTATATAT-TTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
* *
296189 AGTATCCACACCGTTTAATTATTTATA
584 GGTACCCACACCGTTTAATTATTTATA
296216 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
296281 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
*
296346 TCCTAGTCGGAGTTGATGGGTAGTGGCTATTGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
296411 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGACTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
*
296476 GTTTAATCTTTAATTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
296541 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTT-T-TTTTTATTAT---ATGTG
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTT-TTATGACATGTG
296601 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
390 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
296666 GAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
455 GAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
* *
296731 TATGTTTCTTAACTTTGTATATATTTGTTTCTGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
520 TCTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
* *
296796 GTACCCATACTGTTTAATTATTTATA
585 GTACCCACACCGTTTAATTATTTATA
296822 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
* *
296887 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGATTTGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
296952 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
297017 AAGGGTGGGAGAGTTGAGGAAGATGAAAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
297082 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
297147 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
297212 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
391 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
297277 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
456 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
* * *
297342 CTGTTTCTTAACTTTGTATCTATATT-TTTCAGTCCTAAATGTTCATAGTGTTATAACAGTTATG
521 CTGTTTCTTAACTTTGTATATAT-TTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATG
* *
297406 GTATCCACACCATTTAATTATTTATA
585 GTACCCACACCGTTTAATTATTTATA
297432 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
297497 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
*
297562 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTATAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
297627 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
297692 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
297757 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTT-T-TTTTTATTAT---ATGTG
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTT-TTATGACATGTG
297817 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
390 ACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGT
*
297882 GAGATAAGTTTTTTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
455 GAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATT
*
297947 TCTGTTTCTTAACTTTGTATCTATATT-TTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
520 TCTGTTTCTTAACTTTGTATATAT-TTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
* *
298011 AGTATCCACACCGTTTAATTATTTATA
584 GGTACCCACACCGTTTAATTATTTATA
298038 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
298103 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
298168 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
*
298233 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGACTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
298298 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
*
298363 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTT-T-TTTTATTAT---ATGTGA
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
298423 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
391 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
298488 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
456 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
*
298553 ATGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
521 CTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
*
298618 TACCCATACCGTTTAATTATTTATA
586 TACCCACACCGTTTAATTATTTATA
298643 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
*
298708 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTATTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
298773 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
**
298838 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGATTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
**
298903 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCATGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
*
298968 CTCGCATTTGTCATCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTTTATGACATGT
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATC--TTTTTTTATGACATGT
*
299033 GACTTTGGTAACCTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTG
389 GACTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTG
299098 TGAGATAAG-TTTG-TTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATAT
454 TGAGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATAT
299161 TTCTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
519 TTCTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTAT
299226 GGTACCCACACCGTTTAATTATTTATA
584 GGTACCCACACCGTTTAATTATTTATA
299253 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
1 TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
**
299318 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAAATTCGTTTGGT
66 TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
299383 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
131 TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
299448 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
196 AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
299513 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
261 GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
299578 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
326 CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
299643 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
391 CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
* * *
299708 AAATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTTCTAATTCTATGATTTTATATTT
456 AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
299773 CTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
521 CTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
299838 TACCCACACCGTTTAATTATTTATA
586 TACCCACACCGTTTAATTATTTATA
299863 TTAAACCA
1 TTAAACCA
299871 TGATGTTTTG
Statistics
Matches: 10087, Mismatches: 204, Indels: 103
0.97 0.02 0.01
Matches are distributed among these distances:
602 89 0.01
603 408 0.04
604 192 0.02
605 1354 0.13
606 2090 0.21
607 588 0.06
608 301 0.03
609 1185 0.12
610 2523 0.25
611 412 0.04
612 945 0.09
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (610 bp):
TTAAACCAAGTTAGGATTGCTTGAGGGGTCGGTGAAAGACTGTTTTTGGTTTCTTTTATGGGTTA
TGGGTCTAGATATTGAACTATCTAAAGCGTTTTGTTAGGAAATGGTCGTTAAAGGTTCGTTTGGT
TCCTAGTCGGAGTTGATGGGTAGTGGCTATGGTGACTGCTACGTGTTGGTTTTCTTTAGAATAAA
AAGGGTGGGAGAGTTGAGGAAGATGAGAAGAGAGAGAACGGCTGGTTGGTTTAGGATTACTTTAG
GTTTAATCTTTAGTTAGCTTTTATATTAAAGATTTCGGGTAAAATGCTTTTCGGTCCTTCAAACT
CTCGCATTTGTCCTCTTAGTCCAGTATTGGGTTGTTATTAATTTATCTTTTTTTATGACATGTGA
CTTTGGTAACTTTTGTTTTGGTCCCTATGTTATCTCACTTGGATTTACGTAACTTTCTACTTGTG
AGATAAGTTTTGTTTTTTTTAATCCCTCAAGCATGTTCATTTCCTAATTCTGTGATTTTATATTT
CTGTTTCTTAACTTTGTATATATTTGTTTCGGTCCTAAATGTTCATAGTGTTATAGCAGTTATGG
TACCCACACCGTTTAATTATTTATA
Found at i:302737 original size:23 final size:24
Alignment explanation
Indices: 302710--302761 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
302700 GTGTTCATTT
* *
302710 ATTTAT-TGTTCGTGAATATGTTC
1 ATTTATATGTTCGCGAACATGTTC
*
302733 GTTTATATGTTCGCGAACATGTTC
1 ATTTATATGTTCGCGAACATGTTC
302757 ATTTA
1 ATTTA
302762 GCATTCACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (24 bp):
ATTTATATGTTCGCGAACATGTTC
Found at i:303014 original size:2 final size:2
Alignment explanation
Indices: 303007--303097 Score: 168
Period size: 2 Copynumber: 46.5 Consensus size: 2
302997 CTCCCTCACG
303007 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
303049 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
303090 TA TA -A TA T
1 TA TA TA TA T
303098 GGATAATGAA
Statistics
Matches: 87, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 2 0.02
2 85 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:304564 original size:50 final size:50
Alignment explanation
Indices: 304499--304652 Score: 141
Period size: 50 Copynumber: 3.1 Consensus size: 50
304489 ACGTGAGCTA
* * * *
304499 AAAAGAAATAATATAA-AAAAGAAATTGTATAGTAAAA-ATATAAATAAAAT
1 AAAAGAAACAGTATAATAAAAG-AATAGTATAATAAAAGA-ATAAATAAAAT
* * * *
304549 AAAAGTAACAGTATAATAAATGAATAGTATAATAAAAGAATCAATACAAT
1 AAAAGAAACAGTATAATAAAAGAATAGTATAATAAAAGAATAAATAAAAT
* * * * * *
304599 AAAAGAAACAGTACAATAAGAAAAATAATATAGTAAAAGAATAAGTACAAT
1 AAAAGAAACAGTATAATAA-AAGAATAGTATAATAAAAGAATAAATAAAAT
304650 AAA
1 AAA
304653 GGAACAATAC
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
50 52 0.61
51 33 0.39
ACGTcount: A:0.65, C:0.04, G:0.10, T:0.21
Consensus pattern (50 bp):
AAAAGAAACAGTATAATAAAAGAATAGTATAATAAAAGAATAAATAAAAT
Found at i:304579 original size:16 final size:16
Alignment explanation
Indices: 304546--304652 Score: 79
Period size: 17 Copynumber: 6.4 Consensus size: 16
304536 ATATAAATAA
*
304546 AATAAAAGTAACAGTAT
1 AATAAAAG-AATAGTAT
*
304563 AATAAATGAATAGTAT
1 AATAAAAGAATAGTAT
* *
304579 AATAAAAGAATCAATAC
1 AATAAAAGAAT-AGTAT
* *
304596 AATAAAAGAAACAGTAC
1 AATAAAAG-AATAGTAT
* *
304613 AATAAGAAAAATAATAT
1 AATAA-AAGAATAGTAT
* *
304630 AGTAAAAGAATAAGTAC
1 AATAAAAGAAT-AGTAT
304647 AATAAA
1 AATAAA
304653 GGAACAATAC
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
16 22 0.31
17 44 0.63
18 4 0.06
ACGTcount: A:0.64, C:0.06, G:0.10, T:0.21
Consensus pattern (16 bp):
AATAAAAGAATAGTAT
Found at i:305162 original size:13 final size:13
Alignment explanation
Indices: 305144--305178 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
305134 TTGAGGGCAA
305144 AACCTATGCACTT
1 AACCTATGCACTT
305157 AACCTAATGCACTT
1 AACCT-ATGCACTT
305171 AACCTATG
1 AACCTATG
305179 AAAAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.34, C:0.29, G:0.09, T:0.29
Consensus pattern (13 bp):
AACCTATGCACTT
Found at i:307308 original size:23 final size:23
Alignment explanation
Indices: 307282--307326 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
307272 GCATTTCTAT
*
307282 CATTCTACCTGAGATTATATCCC
1 CATTCTACATGAGATTATATCCC
* * *
307305 CATTTTGCATGGGATTATATCC
1 CATTCTACATGAGATTATATCC
307327 TGTCCTGATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (23 bp):
CATTCTACATGAGATTATATCCC
Found at i:308160 original size:67 final size:67
Alignment explanation
Indices: 308049--308182 Score: 223
Period size: 67 Copynumber: 2.0 Consensus size: 67
308039 AACACTTAGT
* * *
308049 AATTTTATGTTTTTCCTACTTCAAAACTAATGAATCAACCATTAAAGTTATTGATTTATAATAAA
1 AATTTTATGTTTTTCCTACCTCAAAACTAATGAATCAACAATTAAAGTTATTGATTTATAACAAA
308114 TC
66 TC
* *
308116 AATTTTATGTTTTTCCTGCCTCAAAACTAATGAATTAACAATTAAAGTTATTGATTTATAACAAA
1 AATTTTATGTTTTTCCTACCTCAAAACTAATGAATCAACAATTAAAGTTATTGATTTATAACAAA
308181 TC
66 TC
308183 GATCACCCGC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (67 bp):
AATTTTATGTTTTTCCTACCTCAAAACTAATGAATCAACAATTAAAGTTATTGATTTATAACAAA
TC
Found at i:311039 original size:3 final size:3
Alignment explanation
Indices: 311033--311066 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
311023 GATAATAATA
311033 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
311067 TAACTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:311405 original size:11 final size:10
Alignment explanation
Indices: 311385--311420 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
311375 TATTATATTA
311385 ATTTAAAATT
1 ATTTAAAATT
311395 ATTTAATAATT
1 ATTTAA-AATT
311406 ATTTAAAATTT
1 ATTTAAAA-TT
311417 ATTT
1 ATTT
311421 TAATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTAAAATT
Found at i:311406 original size:22 final size:21
Alignment explanation
Indices: 311381--311427 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
311371 AAAATATTAT
311381 ATTAATTTAAAA-TTATTTAATA
1 ATTAATTTAAAATTTATTT--TA
311403 ATT-ATTTAAAATTTATTTTA
1 ATTAATTTAAAATTTATTTTA
311423 ATTAA
1 ATTAA
311428 AAAATATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.22
21 9 0.39
22 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTAATTTAAAATTTATTTTA
Found at i:313344 original size:21 final size:21
Alignment explanation
Indices: 313315--313361 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
313305 ATTCTGACTA
313315 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * *
313336 TCGCGTTGCGATTTTTCTAAT
1 TCGCATTGCGATTTTCCAAAT
313357 TCGCA
1 TCGCA
313362 ACGCGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:313382 original size:20 final size:20
Alignment explanation
Indices: 313357--313489 Score: 257
Period size: 20 Copynumber: 6.7 Consensus size: 20
313347 TTTTTCTAAT
313357 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
313377 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
313397 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
313417 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
313437 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
313457 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
*
313477 TCGCAATGCGAAT
1 TCGCAACGCGAAT
313490 CTGACTATCG
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 112 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:313499 original size:20 final size:20
Alignment explanation
Indices: 313476--313527 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
313466 GAATACGTAA
313476 ATCGCAATGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
*
313496 ATCGCAACGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
313516 ATCGCAATGCGA
1 ATCGCAATGCGA
313528 TTTACATAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAATCTGACT
Found at i:313733 original size:22 final size:22
Alignment explanation
Indices: 313707--313772 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
313697 GGCGACATCC
*
313707 GTCCCCATCTCCGACAAAATCA
1 GTCCCCATCTCCGACGAAATCA
* * *
313729 GTCCCCATCTCCAACGATATTA
1 GTCCCCATCTCCGACGAAATCA
* *
313751 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
313773 TTCACGGTCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.27, C:0.38, G:0.12, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:314115 original size:14 final size:14
Alignment explanation
Indices: 314096--314148 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
314086 ACTATCACAA
314096 TGCGATTCTTTCGT
1 TGCGATTCTTTCGT
314110 TGCGATTTTCCTTTCGCGT
1 TGCGA--TT-CTTT--CGT
*
314129 TGCGATTCTTGCGT
1 TGCGATTCTTTCGT
314143 TGCGAT
1 TGCGAT
314149 AGTCAAATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
14 14 0.42
16 5 0.15
17 6 0.18
19 8 0.24
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.45
Consensus pattern (14 bp):
TGCGATTCTTTCGT
Found at i:314164 original size:20 final size:20
Alignment explanation
Indices: 314139--314188 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
314129 TGCGATTCTT
314139 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
314159 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
314179 GTGTTGCGAT
1 GCGTTGCGAT
314189 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:314165 original size:34 final size:33
Alignment explanation
Indices: 314096--314168 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
314086 ACTATCACAA
* ** **
314096 TGCGATTCTTTCGTTGCGATTTTCCTTTCGCGT
1 TGCGATTCTTGCGTTGCGATAGTCAATTCGCGT
314129 TGCGATTCTTGCGTTGCGATAGTCAAATTCGCGT
1 TGCGATTCTTGCGTTGCGATAGTC-AATTCGCGT
314163 TGCGAT
1 TGCGAT
314169 AGTCATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 21 0.62
34 13 0.38
ACGTcount: A:0.12, C:0.22, G:0.25, T:0.41
Consensus pattern (33 bp):
TGCGATTCTTGCGTTGCGATAGTCAATTCGCGT
Found at i:314194 original size:20 final size:20
Alignment explanation
Indices: 314156--314210 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
314146 GATAGTCAAA
* **
314156 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
314176 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
314196 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
314211 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:314218 original size:20 final size:20
Alignment explanation
Indices: 314175--314218 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
314165 CGATAGTCAT
** *
314175 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
314195 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
314215 TTTC
1 TTTC
314219 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:316118 original size:20 final size:20
Alignment explanation
Indices: 316093--316249 Score: 126
Period size: 20 Copynumber: 8.5 Consensus size: 20
316083 AGAATAGTTT
316093 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
316113 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
316133 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
316149 A--ATCACAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
316166 AAAATTGC-AT-C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
316182 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
316200 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
316220 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
316240 ACTATCGCAA
1 ACTATCGCAA
316250 CGAAAGAATC
Statistics
Matches: 112, Mismatches: 11, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
14 10 0.09
15 1 0.01
16 10 0.09
17 8 0.07
18 7 0.06
19 3 0.03
20 73 0.65
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:316321 original size:20 final size:20
Alignment explanation
Indices: 316296--316420 Score: 151
Period size: 20 Copynumber: 6.2 Consensus size: 20
316286 GATTCTCTCG
**
316296 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
**
316316 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
316336 TTTCAATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
316356 TTACGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
* *
316376 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCATTTTCGCA
*
316396 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
316416 TTGCG
1 TTGCG
316421 CTTTTAAGTT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 95 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:316997 original size:21 final size:21
Alignment explanation
Indices: 316929--317009 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 21
316919 GACCTCCCCT
316929 ATCGTTCAAGAGGCCCCTATC
1 ATCGTTCAAGAGGCCCCTATC
** * **
316950 ATCCCTCAAGAGTCCCCTCCC
1 ATCGTTCAAGAGGCCCCTATC
* * *
316971 ACCGTTCAAGAGGCCACTGTC
1 ATCGTTCAAGAGGCCCCTATC
* *
316992 ATCGTTGAAGAGGTCCCT
1 ATCGTTCAAGAGGCCCCT
317010 CCCAACATTT
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTATC
Found at i:317003 original size:42 final size:42
Alignment explanation
Indices: 316931--317013 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
316921 CCTCCCCTAT
*
316931 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* ** *
316973 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
317014 ACATTTTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:318416 original size:14 final size:14
Alignment explanation
Indices: 318397--318432 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
318387 ATTGTTTAAT
318397 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
318411 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
318425 TGATTTGT
1 TGATTTGT
318433 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:318621 original size:67 final size:68
Alignment explanation
Indices: 318538--318667 Score: 199
Period size: 67 Copynumber: 1.9 Consensus size: 68
318528 AAAACAGACT
* ** * *
318538 ATCGCAACGCGGAAATGACTATCGCAACGAGAGAATTGCAATGCG-AAATGAAAATTGCAACGAG
1 ATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCGCAACGAG
318602 AGA
66 AGA
*
318605 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCGCAACG
318668 CAAAACTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
67 40 0.71
68 16 0.29
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (68 bp):
ATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCGCAACGAG
AGA
Found at i:318626 original size:34 final size:34
Alignment explanation
Indices: 318538--318667 Score: 199
Period size: 34 Copynumber: 3.9 Consensus size: 34
318528 AAAACAGACT
* * **
318538 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
* *
318572 ATTGCAATGCG-AAATGAAAATTGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
318605 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
318639 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
318668 CAAAACTAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
33 29 0.33
34 59 0.67
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:318629 original size:20 final size:20
Alignment explanation
Indices: 318604--318665 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
318594 GCAACGAGAG
318604 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATGAA
*
318624 AATCGCAA--CG---A-GAG
1 AATCGCAATGCGAAAATGAA
318638 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATGAA
318658 AATCGCAA
1 AATCGCAA
318666 CGCAAAACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
18 2 0.06
19 1 0.03
20 18 0.53
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
AATCGCAATGCGAAAATGAA
Found at i:318727 original size:34 final size:34
Alignment explanation
Indices: 318684--318777 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 34
318674 TAAATTCGCG
318684 TTGCGATTTTCATTTTCGCATTGCGATTCACTCA
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCA
* *
318718 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCA
* ** * *
318751 TTGCAATAGTCATTTCCGCGTTGCGAT
1 TTGCGATTTTCATTTTCGCATTGCGAT
318778 AGTCAATTCC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 28 0.54
34 24 0.46
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (34 bp):
TTGCGATTTTCATTTTCGCATTGCGATTCACTCA
Done.