Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 60 of 310
Found at i:18878644 original size:25 final size:25
Alignment explanation
Indices: 18878598--18878645 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18878588 AACATACATT
*
18878598 TAGGTAAAATCGACAAAGCAAAAAG
1 TAGGTAAAATCGACAAACCAAAAAG
* *
18878623 TAGGTTAAATCGA-AAACCCAAAA
1 TAGGTAAAATCGACAAACCAAAAA
18878646 CCAAAACCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.54, C:0.15, G:0.17, T:0.15
Consensus pattern (25 bp):
TAGGTAAAATCGACAAACCAAAAAG
Found at i:18886410 original size:28 final size:28
Alignment explanation
Indices: 18886378--18886434 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
18886368 CACACCGTAA
18886378 TGGATAACCCGAAAAACGACTAAAACCC
1 TGGATAACCCGAAAAACGACTAAAACCC
18886406 TGGATAACCCGAAAAACGACTAAAACCC
1 TGGATAACCCGAAAAACGACTAAAACCC
18886434 T
1 T
18886435 TACCTTAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.28, G:0.14, T:0.12
Consensus pattern (28 bp):
TGGATAACCCGAAAAACGACTAAAACCC
Found at i:18900435 original size:89 final size:89
Alignment explanation
Indices: 18900325--18900512 Score: 313
Period size: 89 Copynumber: 2.1 Consensus size: 89
18900315 AAAGTTCCTG
* *
18900325 CTCCTATCTAGAATAATTGTTTCCATCTTGTGAGTCTTGGTTGTCATAGCTACTAAACTTTTACA
1 CTCC-ATCTAGAATAATTGTTTCCAACTTGTGAGTCTTGGTTGTCATAACTACTAAACTTTTACA
*
18900390 TTCTAAAACTTTCTATAAGTGATTC
65 TTCTAAAACTTTCCATAAGTGATTC
* *
18900415 CTCCATCTCGAATAATTGTTTCCAACTTGTGAGTCTTGGTTGTCATAACTGCTAAACTTTTACAT
1 CTCCATCTAGAATAATTGTTTCCAACTTGTGAGTCTTGGTTGTCATAACTACTAAACTTTTACAT
18900480 TCTAAAACTTTCCATAAGTGATTC
66 TCTAAAACTTTCCATAAGTGATTC
*
18900504 TTCCATCTA
1 CTCCATCTA
18900513 TACTACCTCT
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 87 0.96
90 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.41
Consensus pattern (89 bp):
CTCCATCTAGAATAATTGTTTCCAACTTGTGAGTCTTGGTTGTCATAACTACTAAACTTTTACAT
TCTAAAACTTTCCATAAGTGATTC
Found at i:18901352 original size:18 final size:18
Alignment explanation
Indices: 18901329--18901365 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18901319 CTAAATAAAG
18901329 TCTGCTTGAATTTTCTTT
1 TCTGCTTGAATTTTCTTT
18901347 TCTGCTTGAATTTTCTTT
1 TCTGCTTGAATTTTCTTT
18901365 T
1 T
18901366 ACATACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.11, T:0.62
Consensus pattern (18 bp):
TCTGCTTGAATTTTCTTT
Found at i:18902408 original size:18 final size:18
Alignment explanation
Indices: 18902387--18902448 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
18902377 TTCTTTATAT
18902387 TATTTTAATTAATTTTAA
1 TATTTTAATTAATTTTAA
* * *
18902405 TATTTCT-ATAAAATTTAT
1 TATTT-TAATTAATTTTAA
*
18902423 TATTTTAATTATTTTTTAA
1 TATTTTAATTA-ATTTTAA
18902442 TACTTTT
1 TA-TTTT
18902449 TTTGTAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 1 0.03
18 21 0.64
19 7 0.21
20 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTAATTAATTTTAA
Found at i:18902608 original size:6 final size:7
Alignment explanation
Indices: 18902593--18902617 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18902583 TCTAAAAGAA
18902593 TTTTATT
1 TTTTATT
18902600 TTTTATT
1 TTTTATT
18902607 TTTTATT
1 TTTTATT
18902614 TTTT
1 TTTT
18902618 GCTGGCATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:18902974 original size:17 final size:19
Alignment explanation
Indices: 18902938--18902975 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
18902928 CCGGAAAATG
*
18902938 AATAATTATGTTTATTAAA
1 AATAATTATATTTATTAAA
18902957 AATAATT-TATTT-TTAAA
1 AATAATTATATTTATTAAA
18902974 AA
1 AA
18902976 ATGCAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AATAATTATATTTATTAAA
Found at i:18909190 original size:4 final size:4
Alignment explanation
Indices: 18909181--18909214 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
18909171 AAGTTTTATT
18909181 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
18909215 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:18909222 original size:22 final size:22
Alignment explanation
Indices: 18909164--18909223 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
18909154 AAGTGGCCCA
*
18909164 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
18909188 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
18909209 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
18909224 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:18912986 original size:4 final size:4
Alignment explanation
Indices: 18912977--18913010 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
18912967 AAGTTTTATT
18912977 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
18913011 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:18913018 original size:22 final size:22
Alignment explanation
Indices: 18912960--18913019 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
18912950 AAGTGGCCCA
*
18912960 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
18912984 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
18913005 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
18913020 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:18915184 original size:16 final size:16
Alignment explanation
Indices: 18915163--18915217 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
18915153 AATAAATATC
18915163 TTTTTAAAAAATGTAA
1 TTTTTAAAAAATGTAA
* *
18915179 TTTTTATAATAAATAT-C
1 TTTTTA-AA-AAATGTAA
*
18915196 TTTTTAAAAAATGTAT
1 TTTTTAAAAAATGTAA
18915212 TTTTTA
1 TTTTTA
18915218 TACTTTGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 5 0.16
16 14 0.44
17 8 0.25
18 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (16 bp):
TTTTTAAAAAATGTAA
Found at i:18915195 original size:33 final size:33
Alignment explanation
Indices: 18915153--18915219 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
18915143 GAGAGGAAAG
18915153 AATAAATATCTTTTTAAAAAATGTAATTTTTAT
1 AATAAATATCTTTTTAAAAAATGTAATTTTTAT
*
18915186 AATAAATATCTTTTTAAAAAATGTATTTTTTAT
1 AATAAATATCTTTTTAAAAAATGTAATTTTTAT
18915219 A
1 A
18915220 CTTTGTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (33 bp):
AATAAATATCTTTTTAAAAAATGTAATTTTTAT
Found at i:18915200 original size:18 final size:16
Alignment explanation
Indices: 18915153--18915207 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
18915143 GAGAGGAAAG
18915153 AATAAATATCTTTTTA
1 AATAAATATCTTTTTA
* *
18915169 AA-AAATGTAATTTTTA
1 AATAAATAT-CTTTTTA
18915185 TAATAAATATCTTTTTA
1 -AATAAATATCTTTTTA
18915202 AA-AAAT
1 AATAAAT
18915208 GTATTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 9 0.28
16 10 0.31
17 8 0.25
18 5 0.16
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (16 bp):
AATAAATATCTTTTTA
Found at i:18915215 original size:15 final size:15
Alignment explanation
Indices: 18915163--18915215 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
18915153 AATAAATATC
18915163 TTTTTAAAAAATGTAA
1 TTTTTAAAAAATGT-A
* *
18915179 TTTTTATAATAAATATC
1 TTTTTA-AA-AAATGTA
18915196 TTTTTAAAAAATGTA
1 TTTTTAAAAAATGTA
18915211 TTTTT
1 TTTTT
18915216 TATACTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 10 0.32
16 8 0.26
17 8 0.26
18 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (15 bp):
TTTTTAAAAAATGTA
Found at i:18916628 original size:15 final size:15
Alignment explanation
Indices: 18916608--18916659 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
18916598 ACGATAAAAC
18916608 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
18916623 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
18916642 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
18916657 ATT
1 ATT
18916660 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:18916723 original size:16 final size:16
Alignment explanation
Indices: 18916692--18916728 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
18916682 ATGTGAATAA
18916692 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
18916708 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
18916724 TATTA
1 TATTA
18916729 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:18916778 original size:22 final size:22
Alignment explanation
Indices: 18916752--18916795 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18916742 ATATTAAATA
18916752 ATTTATTAAAATAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
* *
18916774 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
18916796 TATATGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTAAAATAATAATTTAT
Found at i:18917771 original size:157 final size:157
Alignment explanation
Indices: 18917485--18917797 Score: 572
Period size: 157 Copynumber: 2.0 Consensus size: 157
18917475 TTGAGTAATA
**
18917485 TAAAGAGAATGTCTAACCAAACTAAATGATGCAGAGAATGATACAACAATTACCACATAATTTGC
1 TAAAGAGAACATCTAACCAAACTAAATGATGCAGAGAATGATACAACAATTACCACATAATTTGC
*
18917550 TTCATTCACAAATATTTCCTCAAAGAACATGCTTGCATCTCAGTTCAATGCTTTTGAAGGCAAAC
66 TTCATTCACAAATATTTCCTCAAAGAACATGCTTGCATCTCAATTCAATGCTTTTGAAGGCAAAC
*
18917615 AGAAGTCCAGAACATTGCAATGTCATC
131 AAAAGTCCAGAACATTGCAATGTCATC
*
18917642 TAAAGAGAACATCTAACCAAACTAAATGATGCAGAGAATGATACGACAATTACCACATAATTTGC
1 TAAAGAGAACATCTAACCAAACTAAATGATGCAGAGAATGATACAACAATTACCACATAATTTGC
18917707 TTCATTCACAAATATTTCCTCAAAGAACATGCTTGCATCTCAATTCAATGCTTTTGAAGGCAAAC
66 TTCATTCACAAATATTTCCTCAAAGAACATGCTTGCATCTCAATTCAATGCTTTTGAAGGCAAAC
*
18917772 AAAAGTCCAGATCATTGCAATGTCAT
131 AAAAGTCCAGAACATTGCAATGTCAT
18917798 TTCCAAAAAC
Statistics
Matches: 150, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 150 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.27
Consensus pattern (157 bp):
TAAAGAGAACATCTAACCAAACTAAATGATGCAGAGAATGATACAACAATTACCACATAATTTGC
TTCATTCACAAATATTTCCTCAAAGAACATGCTTGCATCTCAATTCAATGCTTTTGAAGGCAAAC
AAAAGTCCAGAACATTGCAATGTCATC
Found at i:18921865 original size:26 final size:24
Alignment explanation
Indices: 18921835--18921884 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
18921825 AAATAAAAAA
*
18921835 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
18921861 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
18921885 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:18921904 original size:21 final size:21
Alignment explanation
Indices: 18921855--18921913 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
18921845 ATAATAAATC
*
18921855 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
18921875 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
18921897 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
18921914 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:18921990 original size:15 final size:16
Alignment explanation
Indices: 18921960--18921992 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18921950 AAATGGTTAT
18921960 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
18921977 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
18921992 A
1 A
18921993 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:18933326 original size:48 final size:48
Alignment explanation
Indices: 18933255--18933448 Score: 343
Period size: 48 Copynumber: 4.0 Consensus size: 48
18933245 TACAAGATAA
* * *
18933255 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTTAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
18933303 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
18933351 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
18933399 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
18933447 AT
1 AT
18933449 GTGTGTGTAA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:18933638 original size:37 final size:37
Alignment explanation
Indices: 18933588--18933699 Score: 199
Period size: 37 Copynumber: 3.0 Consensus size: 37
18933578 TGGAAATATA
18933588 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
18933625 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATT-T
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
*
18933661 TGTCCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 T-TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
18933699 T
1 T
18933700 CGAGCTAAAG
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
36 2 0.03
37 68 0.94
38 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
Found at i:18937235 original size:15 final size:15
Alignment explanation
Indices: 18937217--18937247 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18937207 GTAAAATATG
18937217 TAAATCGGTTAATAA
1 TAAATCGGTTAATAA
*
18937232 TAAATTGGTTAATAA
1 TAAATCGGTTAATAA
18937247 T
1 T
18937248 GGATTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (15 bp):
TAAATCGGTTAATAA
Found at i:18938811 original size:112 final size:112
Alignment explanation
Indices: 18938606--18938833 Score: 366
Period size: 112 Copynumber: 2.0 Consensus size: 112
18938596 CAGTTGCCTG
* *
18938606 CACATATTTTCACACTTATGGACAAGGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACA
1 CACATATTTTCACACTTATAGACAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACA
* * * * *
18938671 CATGCGACCAATTATCTGGTACATGTAGTAGCTTGCACTTAGTACTA
66 CATCCGACCAATTATCCGATACACGTAGTAGCCTGCACTTAGTACTA
* * *
18938718 CACATATTTTCACACTTGTAGCCAAAGCTATCTGGTACGCATAGTAGCCTGCATTTAGTACTACA
1 CACATATTTTCACACTTATAGACAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACA
18938783 CATCCGACCAATTATCCGATACACGTAGTAGCCTGCACTTAGTACTA
66 CATCCGACCAATTATCCGATACACGTAGTAGCCTGCACTTAGTACTA
18938830 CACA
1 CACA
18938834 CGTGACCTAA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (112 bp):
CACATATTTTCACACTTATAGACAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACA
CATCCGACCAATTATCCGATACACGTAGTAGCCTGCACTTAGTACTA
Found at i:18938868 original size:50 final size:50
Alignment explanation
Indices: 18938759--18939089 Score: 337
Period size: 50 Copynumber: 6.6 Consensus size: 50
18938749 CTGGTACGCA
* * *
18938759 TAGTAGCCTGCATTTAGTACTACACATC-CGACC-AATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACA-CGTGACCGAATTATCGGATACACG
* ** *
18938808 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAATTATCGGATACACG
* * * * * *
18938858 TCGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTGCGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-TTATCGGATACACG
* * ** *
18938909 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAATTATCGGATACACG
* * * * *
18938959 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-TTATCGGATACACG
* * * * *
18939010 TAGTAGCCTGCACTTAGTATTACACATGTGA-CAAATTATC-CAGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAATTATCGGA-TACACG
*
18939059 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
18939090 ACTCACAATT
Statistics
Matches: 231, Mismatches: 46, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
48 1 0.00
49 65 0.28
50 90 0.39
51 75 0.32
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCGAATTATCGGATACACG
Found at i:18938931 original size:101 final size:101
Alignment explanation
Indices: 18938759--18939089 Score: 438
Period size: 101 Copynumber: 3.3 Consensus size: 101
18938749 CTGGTACGCA
* * * * * * *
18938759 TAGTAGCCTGCATTTAGTACTACACATC-CGA-CCAA-TTATCCGATACACGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACA-CGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCAC
18938821 TTAGTACTACACACGTGACCTAACCATCTGATACACG
65 TTAGTACTACACACGTGACCTAACCATCTGATACACG
* *
18938858 TCGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTGCGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
*
18938923 TAGTACTACACACATGACCTAACCATCTGATACACG
66 TAGTACTACACACGTGACCTAACCATCTGATACACG
*
18938959 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
* * * ** * *
18939024 TAGTATTACACATGTGA-CAAATTATC-CAGTACATG
66 TAGTACTACACACGTGACCTAACCATCTGA-TACACG
*
18939059 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
18939090 ACTCACAATT
Statistics
Matches: 205, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
98 1 0.00
99 27 0.13
100 43 0.21
101 134 0.65
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
TAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:18939740 original size:13 final size:13
Alignment explanation
Indices: 18939730--18939763 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
18939720 AAATTTTCAA
18939730 GAAATCATTTCGT
1 GAAATCATTTCGT
18939743 GAAATCATTTCGT
1 GAAATCATTTCGT
18939756 GAAATCAT
1 GAAATCAT
18939764 AGACCATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (13 bp):
GAAATCATTTCGT
Found at i:18943970 original size:122 final size:122
Alignment explanation
Indices: 18943753--18943990 Score: 424
Period size: 122 Copynumber: 2.0 Consensus size: 122
18943743 TATCTAGTAC
*
18943753 GCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTCGTAGCCTGCA
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCA
* *
18943818 CTTAGTATTACACAAGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACTGTAT
66 CTTAGTACTACACAAGTGATCGAAGTTATCGGGTACACATAGTAGCCTGCACTGTAT
*
18943875 GCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCTTGCA
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCA
18943940 CTTAGTACTACACACA-TGATCGAAGTTATCGGGTACACATAGTAGCCTGCA
66 CTTAGTACTACACA-AGTGATCGAAGTTATCGGGTACACATAGTAGCCTGCA
18943991 TTTAGTACTA
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
122 110 0.99
123 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (122 bp):
GCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCA
CTTAGTACTACACAAGTGATCGAAGTTATCGGGTACACATAGTAGCCTGCACTGTAT
Found at i:18944024 original size:49 final size:49
Alignment explanation
Indices: 18943876--18944060 Score: 226
Period size: 49 Copynumber: 3.7 Consensus size: 49
18943866 GCACTGTATG
** * *
18943876 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACA
* * * * *
18943926 CGTAGTAGCTTGCACTTAGTACTACACACATGATCGAAGTTATCGGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACA
* * *
18943977 CATAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
*
18944026 TATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
18944061 TCGCAATGGA
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
49 42 0.37
50 35 0.31
51 36 0.32
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
Found at i:18961282 original size:13 final size:13
Alignment explanation
Indices: 18961249--18961283 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18961239 GGTTTTTGTA
18961249 TAACCATTTCATC
1 TAACCATTTCATC
*
18961262 TAAACATTTCATC
1 TAACCATTTCATC
*
18961275 TTACCATTT
1 TAACCATTT
18961284 TTTTACACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (13 bp):
TAACCATTTCATC
Found at i:18963484 original size:13 final size:13
Alignment explanation
Indices: 18963466--18963490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18963456 TAATGGTATA
18963466 TTGAATCCATGAC
1 TTGAATCCATGAC
18963479 TTGAATCCATGA
1 TTGAATCCATGA
18963491 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:18964074 original size:27 final size:27
Alignment explanation
Indices: 18964039--18964217 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
18964029 TTAAATTGTA
18964039 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
18964066 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
18964093 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
18964120 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
18964148 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
18964175 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
18964202 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
18964218 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:18964155 original size:82 final size:81
Alignment explanation
Indices: 18964041--18964196 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
18964031 AAATTGTATA
* *
18964041 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18964105 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
18964122 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18964187 TGCGAGTTGA
65 TGCGAATTGA
18964197 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18964208 original size:82 final size:81
Alignment explanation
Indices: 18964037--18964217 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
18964027 GATTAAATTG
* *
18964037 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18964102 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
18964118 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18964182 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
18964200 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
18964218 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18972135 original size:27 final size:27
Alignment explanation
Indices: 18972104--18972281 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18972094 TAAATTGTAC
18972104 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18972131 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18972157 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18972185 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18972213 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18972240 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18972267 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18972282 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18972218 original size:82 final size:81
Alignment explanation
Indices: 18972105--18972260 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18972095 AAATTGTACA
* *
18972105 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18972169 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18972186 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18972251 TGCGAGTTGA
65 TGCGAATTGA
18972261 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18972272 original size:82 final size:81
Alignment explanation
Indices: 18972101--18972281 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
18972091 GATTAAATTG
* *
18972101 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18972166 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18972182 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18972246 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18972264 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18972282 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18974728 original size:16 final size:16
Alignment explanation
Indices: 18974704--18974749 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
18974694 ACAGAAAATC
*
18974704 AAAGGAGAAGAAAAACG
1 AAAGAAGAAGAAAAA-G
18974721 -AAGAAGAAGGAAAAAG
1 AAAGAAGAA-GAAAAAG
18974737 AAAGAA-AAGAAAA
1 AAAGAAGAAGAAAA
18974750 GAATTTCGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.19
16 10 0.38
17 11 0.42
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGAAAAAG
Found at i:18974790 original size:45 final size:45
Alignment explanation
Indices: 18974734--18974829 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
18974724 AAGAAGGAAA
*
18974734 AAGAAAGAAAAGAAAAGAATTTCGGTAGCAAGGGTTTGGAAGAGG
1 AAGAAAGAAAAGAAAAGAATTTCAGTAGCAAGGGTTTGGAAGAGG
*
18974779 AAGAAAGAAAAGAAAAGAATTTCAGTAGCAATGGTTTGGAAGAGG
1 AAGAAAGAAAAGAAAAGAATTTCAGTAGCAAGGGTTTGGAAGAGG
18974824 AAGAAA
1 AAGAAA
18974830 CGACAGAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.50, C:0.04, G:0.30, T:0.16
Consensus pattern (45 bp):
AAGAAAGAAAAGAAAAGAATTTCAGTAGCAAGGGTTTGGAAGAGG
Found at i:18977248 original size:27 final size:27
Alignment explanation
Indices: 18977217--18977394 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18977207 TAAATTGTAC
18977217 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18977244 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18977270 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18977298 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18977326 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18977353 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18977380 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18977395 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18977331 original size:82 final size:81
Alignment explanation
Indices: 18977218--18977373 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18977208 AAATTGTACA
* *
18977218 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18977282 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18977299 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18977364 TGCGAGTTGA
65 TGCGAATTGA
18977374 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18977385 original size:82 final size:81
Alignment explanation
Indices: 18977214--18977394 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
18977204 GATTAAATTG
* *
18977214 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18977279 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18977295 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18977359 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18977377 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18977395 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18980281 original size:27 final size:27
Alignment explanation
Indices: 18980250--18980427 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18980240 TAAATTGTAC
18980250 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18980277 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18980303 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18980331 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18980359 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18980386 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18980413 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18980428 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18980364 original size:82 final size:81
Alignment explanation
Indices: 18980251--18980406 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18980241 AAATTGTACA
* *
18980251 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18980315 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18980332 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18980397 TGCGAGTTGA
65 TGCGAATTGA
18980407 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18980418 original size:82 final size:81
Alignment explanation
Indices: 18980247--18980427 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
18980237 GATTAAATTG
* *
18980247 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18980312 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18980328 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18980392 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18980410 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18980428 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18987554 original size:18 final size:18
Alignment explanation
Indices: 18987529--18987570 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18987519 CCTGTGTGCC
18987529 CTGCCCGTATGGGCCCACA
1 CTGCCCGTAT-GGCCCACA
*
18987548 C-GCCCGTGTGGCCCACA
1 CTGCCCGTATGGCCCACA
18987565 CTGCCC
1 CTGCCC
18987571 AATTTGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 11 0.52
19 1 0.05
ACGTcount: A:0.12, C:0.48, G:0.26, T:0.14
Consensus pattern (18 bp):
CTGCCCGTATGGCCCACA
Found at i:18988162 original size:16 final size:16
Alignment explanation
Indices: 18988143--18988183 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
18988133 AAATCGAAGG
18988143 AGAAGAAAAATGAAA-A
1 AGAAGAAAAA-GAAAGA
18988159 AGAAGGAAAAAGAAAGA
1 AGAA-GAAAAAGAAAGA
18988176 A-AAGAAAA
1 AGAAGAAAA
18988184 GAATTTCGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.22
16 10 0.43
17 8 0.35
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (16 bp):
AGAAGAAAAAGAAAGA
Found at i:18996203 original size:40 final size:40
Alignment explanation
Indices: 18996129--18996232 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
18996119 GACATATCGG
* *
18996129 CTAAATATGGCACTTAGTGTGCGGTTCTATATAGCTTCAA
1 CTAAATATGGCACTTAGTGTGCGATTCTAGATAGCTTCAA
* *
18996169 CTAAATTTGGCACTTAGTGTGCGATT-TGAGATAGCTTCAG
1 CTAAATATGGCACTTAGTGTGCGATTCT-AGATAGCTTCAA
** **
18996209 CTATGTACAGCACTTAGTGTGCGA
1 CTAAATATGGCACTTAGTGTGCGA
18996233 GACATCAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.02
40 53 0.98
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (40 bp):
CTAAATATGGCACTTAGTGTGCGATTCTAGATAGCTTCAA
Found at i:18996279 original size:28 final size:28
Alignment explanation
Indices: 18996248--18996308 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
18996238 CAAATATGGA
**
18996248 ACTTAGTGTGGGAAATATTGAGAATGAC
1 ACTTAGTGTGCAAAATATTGAGAATGAC
*
18996276 ACTTAGTGTGCAAAATATTGAGAATGGC
1 ACTTAGTGTGCAAAATATTGAGAATGAC
18996304 ACTTA
1 ACTTA
18996309 ATGAGCGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ACTTAGTGTGCAAAATATTGAGAATGAC
Found at i:18996319 original size:28 final size:28
Alignment explanation
Indices: 18996259--18996320 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
18996249 CTTAGTGTGG
* *
18996259 GAAATATTGAGAATGACACTTAGTGTGC
1 GAAATATTGAGAATGACACTTAATGAGC
* *
18996287 AAAATATTGAGAATGGCACTTAATGAGC
1 GAAATATTGAGAATGACACTTAATGAGC
18996315 GAAATA
1 GAAATA
18996321 CCGAATGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.26
Consensus pattern (28 bp):
GAAATATTGAGAATGACACTTAATGAGC
Found at i:19015988 original size:47 final size:48
Alignment explanation
Indices: 19015877--19016006 Score: 142
Period size: 47 Copynumber: 2.8 Consensus size: 48
19015867 GTGCGAATAA
** * *
19015877 TACCTTGATTTGGCTATAAGAC-ATGGTATAGGTA-TTTAGAGAGGAGT
1 TACCTTGATTTGGCTACGAG-CTATGGTATAGGTACTCTAGAGAGAAGT
* *
19015924 TACCTTAATTTGGCTACGAGCTATGGTATAGGTACTCT-GAGATAAGT
1 TACCTTGATTTGGCTACGAGCTATGGTATAGGTACTCTAGAGAGAAGT
* *
19015971 TACCTTGATTTGGCTACG-GGTCATGGTATATGTACT
1 TACCTTGATTTGGCTACGAGCT-ATGGTATAGGTACT
19016007 TATCAATTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 3 0.04
47 66 0.93
48 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGAGCTATGGTATAGGTACTCTAGAGAGAAGT
Found at i:19020150 original size:17 final size:18
Alignment explanation
Indices: 19020128--19020161 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19020118 TTTATAGTGC
*
19020128 TTGGAAGCTCG-TGAAGG
1 TTGGAAGATCGTTGAAGG
19020145 TTGGAAGATCGTTGAAG
1 TTGGAAGATCGTTGAAG
19020162 CATCGTCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.38, T:0.26
Consensus pattern (18 bp):
TTGGAAGATCGTTGAAGG
Found at i:19021509 original size:49 final size:48
Alignment explanation
Indices: 19021416--19021509 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 48
19021406 CCCTAGGCCG
* *
19021416 TGCATGTTCTCATTTTCTTTTCTTTTCTTTCTTTTTTCTAATTTTGCA
1 TGCATGTTCTCATTTCCTTTTCTTTTCTTTCTTTTTTATAATTTTGCA
19021464 TGCAT-TTCTC-TTTCCATTTTCTTTATTCTTTCTTTTATTAT-ATTTT
1 TGCATGTTCTCATTTCC-TTTTC-TT-TTCTTTCTTTT-TTATAATTTT
19021510 CATTTTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
46 4 0.10
47 10 0.25
48 7 0.17
49 16 0.40
50 3 0.08
ACGTcount: A:0.12, C:0.18, G:0.04, T:0.66
Consensus pattern (48 bp):
TGCATGTTCTCATTTCCTTTTCTTTTCTTTCTTTTTTATAATTTTGCA
Found at i:19026065 original size:21 final size:21
Alignment explanation
Indices: 19026041--19026131 Score: 110
Period size: 21 Copynumber: 4.3 Consensus size: 21
19026031 TTACTTTTTG
19026041 TTCAGCTCTTACAAGCTTCTA
1 TTCAGCTCTTACAAGCTTCTA
** *
19026062 TTCAGCTCTTATGAGCTTCTG
1 TTCAGCTCTTACAAGCTTCTA
* * *
19026083 TTTAGCTCTTACGAGTTTCTA
1 TTCAGCTCTTACAAGCTTCTA
* *
19026104 TTCAGCTCTTATAAGCTTCTG
1 TTCAGCTCTTACAAGCTTCTA
19026125 TTCAGCT
1 TTCAGCT
19026132 TTTGAGCTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (21 bp):
TTCAGCTCTTACAAGCTTCTA
Found at i:19026103 original size:42 final size:42
Alignment explanation
Indices: 19026039--19026131 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
19026029 TTTTACTTTT
*
19026039 TGTTCAGCTCTTACAAGCTTCTATTCAGCTCTTATGAGCTTC
1 TGTTCAGCTCTTACAAGCTTCTATTCAGCTCTTATAAGCTTC
* * *
19026081 TGTTTAGCTCTTACGAGTTTCTATTCAGCTCTTATAAGCTTC
1 TGTTCAGCTCTTACAAGCTTCTATTCAGCTCTTATAAGCTTC
19026123 TGTTCAGCT
1 TGTTCAGCT
19026132 TTTGAGCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (42 bp):
TGTTCAGCTCTTACAAGCTTCTATTCAGCTCTTATAAGCTTC
Found at i:19030599 original size:13 final size:13
Alignment explanation
Indices: 19030581--19030610 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19030571 CTGGCAATCA
19030581 TGTCACACGGCCG
1 TGTCACACGGCCG
*
19030594 TGTCACACGGGCG
1 TGTCACACGGCCG
19030607 TGTC
1 TGTC
19030611 CCTGCTGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
TGTCACACGGCCG
Found at i:19038883 original size:27 final size:26
Alignment explanation
Indices: 19038835--19038886 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19038825 GCGAGGCTGC
*
19038835 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
19038861 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
19038887 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:19039605 original size:27 final size:27
Alignment explanation
Indices: 19039544--19039715 Score: 220
Period size: 27 Copynumber: 6.4 Consensus size: 27
19039534 GGGGCAAAAT
* * *
19039544 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
19039570 GATAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
19039597 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
19039624 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
19039651 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
19039678 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
19039705 AGTAATTCTAC
1 GGTAATTCTAC
19039716 AACTTATCCA
Statistics
Matches: 125, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 11 0.09
27 114 0.91
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:19047050 original size:16 final size:18
Alignment explanation
Indices: 19047031--19047064 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
19047021 CATACGAATT
19047031 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
19047047 CCAAAACGATAGATAGTA
1 CCAAAACGATAGATAGTA
19047065 TGATGAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:19047787 original size:43 final size:43
Alignment explanation
Indices: 19047622--19047789 Score: 241
Period size: 43 Copynumber: 4.0 Consensus size: 43
19047612 AAGTCTGAAC
* *
19047622 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGATA
* * * **
19047663 TCATCTCACCGGTATTATAGCCTACTAGGCCCAAAGCTAGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGATA
* *
19047706 TCATCTCACCAGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGATA
19047749 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGA
19047790 ATGTCACATT
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
41 4 0.04
42 10 0.09
43 95 0.87
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGATA
Found at i:19051541 original size:235 final size:235
Alignment explanation
Indices: 19051130--19051600 Score: 924
Period size: 235 Copynumber: 2.0 Consensus size: 235
19051120 CTTTAAGACA
19051130 TTAGAGAATCAAGAATGATAAGTTGATTTTTAAGAAATTAAATTATAGGTTGTTTCCTCAAGTCT
1 TTAGAGAATCAAGAATGATAAGTTGATTTTTAAGAAATTAAATTATAGGTTGTTTCCTCAAGTCT
19051195 AGGTATTAATTTGAATTAAAATTTACGAGTCTAAACATCAAAAAGCCATAATTTTTTGTGAGATT
66 AGGTATTAATTTGAATTAAAATTTACGAGTCTAAACATCAAAAAGCCATAATTTTTTGTGAGATT
19051260 TTTGAGCCTTTTGAGCATCTATTCATCCTTTTATGCTCACTTTTTTTATTGCTTTGAATGCGTCA
131 TTTGAGCCTTTTGAGCATCTATTCATCCTTTTATGCTCACTTTTTTTATTGCTTTGAATGCGTCA
*
19051325 TTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATG
196 GTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATG
19051365 TTAGAGAATCAAGAATGATAAGTTGATTTTTAAGAAATTAAATTATAGGTTGTTTCCTCAAGTCT
1 TTAGAGAATCAAGAATGATAAGTTGATTTTTAAGAAATTAAATTATAGGTTGTTTCCTCAAGTCT
19051430 AGGTATTAATTTGAATTAAAATTTACGAGTCTAAACATCAAAAAGCCATAATTTTTTGTGAGATT
66 AGGTATTAATTTGAATTAAAATTTACGAGTCTAAACATCAAAAAGCCATAATTTTTTGTGAGATT
*
19051495 TTTGAGCCTTTTGAGCATCTATTCATCCTTTTATGCTCACTTTTTTTATTGCTTTGAGTGCGTCA
131 TTTGAGCCTTTTGAGCATCTATTCATCCTTTTATGCTCACTTTTTTTATTGCTTTGAATGCGTCA
19051560 GTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATG
196 GTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATG
19051600 T
1 T
19051601 CGAGACCACA
Statistics
Matches: 234, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
235 234 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (235 bp):
TTAGAGAATCAAGAATGATAAGTTGATTTTTAAGAAATTAAATTATAGGTTGTTTCCTCAAGTCT
AGGTATTAATTTGAATTAAAATTTACGAGTCTAAACATCAAAAAGCCATAATTTTTTGTGAGATT
TTTGAGCCTTTTGAGCATCTATTCATCCTTTTATGCTCACTTTTTTTATTGCTTTGAATGCGTCA
GTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATG
Found at i:19071154 original size:13 final size:13
Alignment explanation
Indices: 19071136--19071162 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19071126 GCTCCGTAGG
19071136 GACACGCCCGTGT
1 GACACGCCCGTGT
19071149 GACACGCCCGTGT
1 GACACGCCCGTGT
19071162 G
1 G
19071163 CGATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:19079377 original size:59 final size:59
Alignment explanation
Indices: 19079285--19079460 Score: 284
Period size: 59 Copynumber: 3.0 Consensus size: 59
19079275 GGTGATAGTT
19079285 TGATCGATGTCTCCGACA-TCCCTTGATCCCCGGTACTAACTTGGCGGCACTATAAGAAG
1 TGATCGATGTCTCCGA-AGTCCCTTGATCCCCGGTACTAACTTGGCGGCACTATAAGAAG
*
19079344 TGATCGATGTCTCCGAAGTCCCTTGATCCCCGGTACTAACTT-GCTAGCACTATAAGAAG
1 TGATCGATGTCTCCGAAGTCCCTTGATCCCCGGTACTAACTTGGC-GGCACTATAAGAAG
* * *
19079403 TGATCGATGTCTCCGAAGTCCCTTGATCCTCGGTACTGACTTGGTGGCACTATAAGAA
1 TGATCGATGTCTCCGAAGTCCCTTGATCCCCGGTACTAACTTGGCGGCACTATAAGAA
19079461 AATGAAAAAG
Statistics
Matches: 109, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
58 3 0.03
59 105 0.96
60 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (59 bp):
TGATCGATGTCTCCGAAGTCCCTTGATCCCCGGTACTAACTTGGCGGCACTATAAGAAG
Found at i:19079920 original size:48 final size:48
Alignment explanation
Indices: 19079846--19080158 Score: 231
Period size: 48 Copynumber: 6.5 Consensus size: 48
19079836 CAAATTGCCG
* * *
19079846 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGACTA
* * * * * * *
19079894 ATACCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA-GACTA
* * * *
19079942 ATGCCATGTCCTAGATATGGTCTTACACTGGCTCTCATAAT-GTGACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGACTA
* * * * * *
19079990 ACGCCGTGTCCCAGACATGGTCTTACACTAG-TACACAAATCGACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATCGAGACTA
* * * * *
19080038 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCACAAC-ATTG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA--GACTA
* * * * * * * *
19080086 ATGCCATGTTCTAAACATGGTCTTACACTGGCTCTCATATTGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGACTA
* *
19080134 ACGCCATGTCCTAGACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
19080159 TACTAGCACA
Statistics
Matches: 211, Mismatches: 44, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
47 6 0.03
48 202 0.96
49 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGACTA
Found at i:19080009 original size:96 final size:95
Alignment explanation
Indices: 19079845--19080074 Score: 257
Period size: 96 Copynumber: 2.4 Consensus size: 95
19079835 GCAAATTGCC
* * * *
19079845 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCAATACCATGTCCCAGAC
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATATCGAGACCAACACCATGTCCCAGAC
* *** **
19079910 ATGGTCTTACACTAGCT-CTCGTCTCAATGCT
65 ATGGTCTTACACTAG-TACACAAATCAACACT
* * * * *
19079941 GATGCCATGTCCTAGATATGGTCTTACACTGGCTCTCATAAT-GTGACTAACGCCGTGTCCCAGA
1 GATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCAT-ATCGAGACCAACACCATGTCCCAGA
*
19080005 CATGGTCTTACACTAGTACACAAATCGACACT
64 CATGGTCTTACACTAGTACACAAATCAACACT
19080037 GATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCA
1 GATGCCATG-TCCAGACATGGTCTTACACTGGCTCTCA
19080075 CAACATTGCT
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
95 3 0.03
96 106 0.94
97 4 0.04
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (95 bp):
GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATATCGAGACCAACACCATGTCCCAGACA
TGGTCTTACACTAGTACACAAATCAACACT
Found at i:19080112 original size:144 final size:144
Alignment explanation
Indices: 19079848--19080170 Score: 407
Period size: 144 Copynumber: 2.2 Consensus size: 144
19079838 AATTGCCGAT
* ** **
19079848 GCCATGTCCCAGACATGGTCTTACACTGGCT-CACATGTCGAGGCCAATACCATGTCCCAGACAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-TACACAAATCGACACCAATACCATGTCCCAGACAT
* * * *
19079912 GGTCTTACACTAGCTCTCGTCTCAATGCTGATGCCATGTCCTAGATATGGTCTTACACTGGCTCT
65 GGTCTTACACTAGCTCTCGACACAATGCTGATGCCATGTCCTAAACATGGTCTTACACTGGCTCT
19079977 CATAATGTGACTAAC
130 CATAATGTGACTAAC
* ** * *
19079992 GCCGTGTCCCAGACATGGTCTTACACTAGTACACAAATCGACACTGATGCCATGTTCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTAGTACACAAATCGACACCAATACCATGTCCCAGACATG
* * *
19080057 GTCTTACACTGGCTCTC-ACAACATTGCTGATGCCATGTTCTAAACATGGTCTTACACTGGCTCT
66 GTCTTACACTAGCTCTCGAC-ACAATGCTGATGCCATGTCCTAAACATGGTCTTACACTGGCTCT
* * *
19080121 CATATTGTGGCTGAC
130 CATAATGTGACTAAC
* * *
19080136 GCCATGTCCTAGACATGGTCTTATACTAGCACACA
1 GCCATGTCCCAGACATGGTCTTACACTAGTACACA
19080171 CATCACCCAA
Statistics
Matches: 153, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
143 2 0.01
144 151 0.99
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (144 bp):
GCCATGTCCCAGACATGGTCTTACACTAGTACACAAATCGACACCAATACCATGTCCCAGACATG
GTCTTACACTAGCTCTCGACACAATGCTGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTC
ATAATGTGACTAAC
Found at i:19088935 original size:48 final size:48
Alignment explanation
Indices: 19088859--19089131 Score: 300
Period size: 48 Copynumber: 5.7 Consensus size: 48
19088849 GAGGGCAAAT
* *
19088859 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGA
* * * * * *
19088907 GGCCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCGTCT-GAA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCG-A
* *
19088955 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGA
* * * *
19089003 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAAC-A
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGA
* * * * *
19089050 TTGTCGATGCAATGTTCCAAACATGGTCTTACACTGGCTCTCATATTG-
1 -TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGA
* * *
19089098 TGGCCGACGCCATGTCCCAGATATGGTCTTACAC
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACAC
19089132 GAGTGCACAC
Statistics
Matches: 186, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
47 3 0.02
48 182 0.98
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGA
Found at i:19088985 original size:96 final size:96
Alignment explanation
Indices: 19088857--19089131 Score: 365
Period size: 96 Copynumber: 2.9 Consensus size: 96
19088847 AAGAGGGCAA
*
19088857 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTC
* * *
19088922 CCAGACATAGTCTTACACTAACTCTCGTCTGA-
66 CCAGACATGGTCTTACACTAACTCTC-AC-AAC
* *
19088954 A-TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCGATGCCGATGCCATGTC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTC
**
19089018 CCAGACATGGTCTTACACTGGCTCTCACAAC
66 CCAGACATGGTCTTACACTAACTCTCACAAC
* * * * * * * *
19089049 ATTGTCGATGCAATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGTGGCCGACGCCATGTC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTC
*
19089114 CCAGATATGGTCTTACAC
66 CCAGACATGGTCTTACAC
19089132 GAGTGCACAC
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
94 1 0.01
95 2 0.01
96 153 0.97
97 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (96 bp):
ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTC
CCAGACATGGTCTTACACTAACTCTCACAAC
Found at i:19092842 original size:27 final size:27
Alignment explanation
Indices: 19092812--19092989 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19092802 ATATTGAGTC
* * * *
19092812 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19092839 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19092866 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19092894 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19092921 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19092948 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19092975 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19092990 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19092951 original size:82 final size:81
Alignment explanation
Indices: 19092833--19092988 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19092823 TGCTATATAA
* *
19092833 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19092898 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19092915 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19092979 CACTTAGTGC
65 CACTTAGTGC
19092989 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19101032 original size:27 final size:27
Alignment explanation
Indices: 19101002--19101179 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19100992 ATATTGAGTC
* * * *
19101002 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19101029 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19101056 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19101084 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19101111 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19101138 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19101165 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19101180 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19101141 original size:82 final size:81
Alignment explanation
Indices: 19101023--19101178 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19101013 TGCTATATAA
* *
19101023 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19101088 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19101105 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19101169 CACTTAGTGC
65 CACTTAGTGC
19101179 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19112058 original size:36 final size:36
Alignment explanation
Indices: 19112018--19112090 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
19112008 TTACTTTATA
19112018 AGGAATAAAAATATATTATTAAACAAATTAAAAATT
1 AGGAATAAAAATATATTATTAAACAAATTAAAAATT
*
19112054 AGGAATAAAAATATATTATTAAACGAATTAAAAATT
1 AGGAATAAAAATATATTATTAAACAAATTAAAAATT
19112090 A
1 A
19112091 AACACATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (36 bp):
AGGAATAAAAATATATTATTAAACAAATTAAAAATT
Found at i:19114983 original size:7 final size:7
Alignment explanation
Indices: 19114973--19114998 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19114963 TTGTTCATGG
19114973 TTGGTAC
1 TTGGTAC
19114980 TTGGTAC
1 TTGGTAC
19114987 TTGGTAC
1 TTGGTAC
19114994 TTGGT
1 TTGGT
19114999 TAGAGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.31, T:0.46
Consensus pattern (7 bp):
TTGGTAC
Found at i:19129245 original size:32 final size:32
Alignment explanation
Indices: 19129204--19129270 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
19129194 CATATTTACT
19129204 ATAAACATTTTGTTTGGTTGGGTGTAATAGGA
1 ATAAACATTTTGTTTGGTTGGGTGTAATAGGA
19129236 ATAAACATTTTGTTTGGTTGGGTGTAATAGGA
1 ATAAACATTTTGTTTGGTTGGGTGTAATAGGA
19129268 ATA
1 ATA
19129271 GATTACAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.40
Consensus pattern (32 bp):
ATAAACATTTTGTTTGGTTGGGTGTAATAGGA
Found at i:19132114 original size:58 final size:58
Alignment explanation
Indices: 19132046--19132187 Score: 162
Period size: 58 Copynumber: 2.4 Consensus size: 58
19132036 GATTTTTTAA
* * * * * *
19132046 TTTATATAATAATAAATGTATTAAAAATTTTATTAAATTATATATTA-TTTTATTAAGT
1 TTTATTTAATAATAATTATATTAAAAA-ATGATTAAATTATATATTATTTTTATTAAAT
* * *
19132104 TTTATTTAATAATAATTATGTTAAAAAATGGTTAAATTATTTATTATTTTTATTAAAT
1 TTTATTTAATAATAATTATATTAAAAAATGATTAAATTATATATTATTTTTATTAAAT
*
19132162 TATT-TTTAATAATAATTTTATTAAAA
1 T-TTATTTAATAATAATTATATTAAAA
19132188 TTTAATAACA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
57 15 0.21
58 54 0.76
59 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (58 bp):
TTTATTTAATAATAATTATATTAAAAAATGATTAAATTATATATTATTTTTATTAAAT
Found at i:19132165 original size:14 final size:14
Alignment explanation
Indices: 19132146--19132186 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
19132136 TAAATTATTT
19132146 ATTATTTTTATTAA
1 ATTATTTTTATTAA
*
19132160 ATTATTTTTAAT-A
1 ATTATTTTTATTAA
*
19132173 A-TAATTTTATTAA
1 ATTATTTTTATTAA
19132186 A
1 A
19132187 ATTTAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTTTATTAA
Found at i:19132372 original size:16 final size:16
Alignment explanation
Indices: 19132351--19132381 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19132341 TGGATTGTTG
19132351 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCT
19132367 ATTACAGCTCTATTC
1 ATTACAGCTCTATTC
19132382 AATTGCATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCT
Found at i:19134903 original size:6 final size:6
Alignment explanation
Indices: 19134886--19134916 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
19134876 TGTAGGTTTC
*
19134886 TAAAAA TGAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
19134917 GGAAACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:19136167 original size:36 final size:36
Alignment explanation
Indices: 19136127--19136198 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
19136117 ATATCAAAAT
19136127 AAGTTAAAATCACTGTAAAACAACATCTTAGCCTAG
1 AAGTTAAAATCACTGTAAAACAACATCTTAGCCTAG
*
19136163 AAGTTAAAATCATTGTAAAACAACATCTTAGCCTAG
1 AAGTTAAAATCACTGTAAAACAACATCTTAGCCTAG
19136199 TATTACGAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.26
Consensus pattern (36 bp):
AAGTTAAAATCACTGTAAAACAACATCTTAGCCTAG
Found at i:19138387 original size:2 final size:2
Alignment explanation
Indices: 19138380--19138518 Score: 278
Period size: 2 Copynumber: 69.5 Consensus size: 2
19138370 TTGGTTGTAG
19138380 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19138422 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19138464 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19138506 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
19138519 GATAGCATAT
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 137 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:19143426 original size:210 final size:209
Alignment explanation
Indices: 19143032--19143655 Score: 951
Period size: 210 Copynumber: 3.0 Consensus size: 209
19143022 TGGTCGTAAT
* * * * *
19143032 ATTGGCAAAAATTTCAGCTCGAAATTGCATCTTTGGCTCCCGATCTATCCTATATAATCACATAA
1 ATTGGCAAAAATTTCAGCCCGAAGTTGCATCTTTGGCTCTCGATCTATCCTACATAACCACATAA
* *
19143097 CCTTATTTAGATATCAAATACCATAAAACTACTAAAAAAATCATAAATTAACTACTTAAACTATA
66 CCTTATTTAGATATCAAATACCATAAAACTA-T-TAAAAATCATAAATTGACTACTTAAACTATA
*
19143162 AAAACATAAAATATTACTGAATTGACTTAATTTTACTATTAAACATGCTAAAATTATGTGAAAAG
129 AAAACATAAATTATTACTGAATTGACTTAATTTTACTATTAAACATGCTAAAATTATGTGAAAAG
**
19143227 GGATACAAATCGTGAC
194 GGATACAAATCGCAAC
* * * * *
19143243 ATTGGCAAAATTTTGAGCCCGAAGTTGCATCTTTGGCTCTCGATATGTCCTACGTAACCACATAA
1 ATTGGCAAAAATTTCAGCCCGAAGTTGCATCTTTGGCTCTCGATCTATCCTACATAACCACATAA
* *
19143308 CCTTATTTAGATATCAAATGCCATAAAACTATTAAAAATCATAAGTTGACTACTTAAACTATAAA
66 CCTTATTTAGATATCAAATACCATAAAACTATTAAAAATCATAAATTGACTACTTAAACTAT-AA
*
19143373 AAACATAAATTATTACTAAATTGACTTAATTTTACTATTAAACATGCTAAAATTATGTGAAAAGG
130 AAACATAAATTATTACTGAATTGACTTAATTTTACTATTAAACATGCTAAAATTATGTGAAAAGG
*
19143438 GATACAAATTGCAAC
195 GATACAAATCGCAAC
** * * * *
19143453 ATTGGCAAAAATTTCAGCCTAAAGTTGCATTTTTGGCTCTTGATCTATCCTACCTAACCAGATAA
1 ATTGGCAAAAATTTCAGCCCGAAGTTGCATCTTTGGCTCTCGATCTATCCTACATAACCACATAA
* * *
19143518 CCTTATTTAGATATCAAATACCACAAAACTACTAAAAACCATAAATTGACTACTTAAACTATAAA
66 CCTTATTTAGATATCAAATACCATAAAACTATTAAAAATCATAAATTGACTACTTAAACTATAAA
* *
19143583 AACATAAATTATTACTGAATTGACTAAATTTTACTATTAAACATGATAAAATTATGTGAAAAGGG
131 AACATAAATTATTACTGAATTGACTTAATTTTACTATTAAACATGCTAAAATTATGTGAAAAGGG
19143648 ATACAAAT
196 ATACAAAT
19143656 AACATGATCT
Statistics
Matches: 375, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
209 100 0.27
210 190 0.51
211 85 0.23
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (209 bp):
ATTGGCAAAAATTTCAGCCCGAAGTTGCATCTTTGGCTCTCGATCTATCCTACATAACCACATAA
CCTTATTTAGATATCAAATACCATAAAACTATTAAAAATCATAAATTGACTACTTAAACTATAAA
AACATAAATTATTACTGAATTGACTTAATTTTACTATTAAACATGCTAAAATTATGTGAAAAGGG
ATACAAATCGCAAC
Found at i:19155379 original size:11 final size:13
Alignment explanation
Indices: 19155365--19155408 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
19155355 AGATAAATAT
19155365 TATTTT-ATTA-A
1 TATTTTAATTAGA
*
19155376 TATTTTAATAAGA
1 TATTTTAATTAGA
*
19155389 TATTTTAATTATA
1 TATTTTAATTAGA
19155402 TATTTTA
1 TATTTTA
19155409 TTATTATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 6 0.21
12 3 0.11
13 19 0.68
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTTTAATTAGA
Found at i:19155416 original size:11 final size:12
Alignment explanation
Indices: 19155362--19155417 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 12
19155352 ATTAGATAAA
19155362 TATTATTTT-AT
1 TATTATTTTAAT
*
19155373 TAATATTTTAAT
1 TATTATTTTAAT
* *
19155385 AAGATATTTTAAT
1 TA-TTATTTTAAT
19155398 TATATATTTT-AT
1 TAT-TATTTTAAT
19155410 TATTATTT
1 TATTATTT
19155418 AATAAGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
11 13 0.34
12 8 0.21
13 17 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TATTATTTTAAT
Found at i:19158782 original size:63 final size:63
Alignment explanation
Indices: 19158658--19158785 Score: 143
Period size: 63 Copynumber: 2.0 Consensus size: 63
19158648 TTATGACTTC
* * *
19158658 ACTATCAAACATTTACAAAATTAGTAAACTATAACTTGCTTCCTATTTGGAATCTAGAATTTT
1 ACTATCAAACATTTACAAAATTAGTAAACTATAACTTACTTCCTATTTAGAATCGAGAATTTT
** * * * *
19158721 ACTATCAGGCATTTGCAAAATTGGTAATCTATAATTTACTT-CTAGTTTAGAAGTCGA-AATTTT
1 ACTATCAAACATTTACAAAATTAGTAAACTATAACTTACTTCCTA-TTTAGAA-TCGAGAATTTT
19158784 AC
1 AC
19158786 CATTTACCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 3 0.06
63 48 0.89
64 3 0.06
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (63 bp):
ACTATCAAACATTTACAAAATTAGTAAACTATAACTTACTTCCTATTTAGAATCGAGAATTTT
Found at i:19162067 original size:10 final size:10
Alignment explanation
Indices: 19162045--19162112 Score: 58
Period size: 9 Copynumber: 7.4 Consensus size: 10
19162035 AAAATTAGAA
*
19162045 AAAAATA-AG
1 AAAAATATAT
19162054 AAAAATATAT
1 AAAAATATAT
**
19162064 AAAAAT-CGT
1 AAAAATATAT
19162073 AAAAAT-TAT
1 AAAAATATAT
19162082 -AAAATATAT
1 AAAAATATAT
*
19162091 AGAAATATA-
1 AAAAATATAT
19162100 AAAAAT-TAT
1 AAAAATATAT
19162109 AAAA
1 AAAA
19162113 TTTTATAAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
8 7 0.15
9 27 0.56
10 14 0.29
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (10 bp):
AAAAATATAT
Found at i:19162067 original size:19 final size:18
Alignment explanation
Indices: 19162045--19162095 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
19162035 AAAATTAGAA
19162045 AAAAATAAGAAAAATATAT
1 AAAAATAAGAAAAAT-TAT
*
19162064 AAAAAT-CGTAAAAATTAT
1 AAAAATAAG-AAAAATTAT
19162082 AAAATATATAGAAA
1 AAAA-ATA-AGAAA
19162096 TATAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 8 0.31
19 14 0.54
20 3 0.12
21 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAAATAAGAAAAATTAT
Found at i:19162085 original size:27 final size:27
Alignment explanation
Indices: 19162055--19162113 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
19162045 AAAAATAAGA
*
19162055 AAAATATATAAAAATCGT-AAAAATTAT
1 AAAATATATAAAAAT-ATAAAAAATTAT
*
19162082 AAAATATATAGAAATATAAAAAATTAT
1 AAAATATATAAAAATATAAAAAATTAT
19162109 AAAAT
1 AAAAT
19162114 TTTATAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (27 bp):
AAAATATATAAAAATATAAAAAATTAT
Found at i:19162252 original size:9 final size:10
Alignment explanation
Indices: 19162202--19162254 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
19162192 AAAAGAAATA
19162202 TTTTA-TAAT
1 TTTTATTAAT
* *
19162211 TTTTCTTTAAC
1 TTTT-ATTAAT
*
19162222 TTTTATTGAT
1 TTTTATTAAT
19162232 TTTTATTAAT
1 TTTTATTAAT
19162242 TTTTATT-AT
1 TTTTATTAAT
19162251 TTTT
1 TTTT
19162255 TGTCACATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 10 0.28
10 19 0.53
11 7 0.19
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:19162255 original size:20 final size:19
Alignment explanation
Indices: 19162202--19162255 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
19162192 AAAAGAAATA
*
19162202 TTTTATAATTTTTCTTTAAC
1 TTTTATTATTTTT-TTTAAC
* *
19162222 TTTTATTGATTTTTATTAAT
1 TTTTATT-ATTTTTTTTAAC
19162242 TTTTATTATTTTTT
1 TTTTATTATTTTTT
19162256 GTCACATGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.21
20 17 0.59
21 6 0.21
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTATTATTTTTTTTAAC
Found at i:19162393 original size:19 final size:19
Alignment explanation
Indices: 19162357--19162401 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
19162347 TTAAAGGGGC
* * *
19162357 TTTTTGATGCATTTTATAA
1 TTTTTTATGAATTGTATAA
19162376 TTTTTTATGAATTGTATAA
1 TTTTTTATGAATTGTATAA
*
19162395 TATTTTA
1 TTTTTTA
19162402 ATTTATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (19 bp):
TTTTTTATGAATTGTATAA
Found at i:19162457 original size:20 final size:21
Alignment explanation
Indices: 19162423--19162476 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
19162413 TATTTTTTAC
*
19162423 AATTTTTATAAAAAAATTT-CT
1 AATTTTTAT-AAAAAATTTAAT
*
19162444 AATTTTTA-ATAAAATTTAAT
1 AATTTTTATAAAAAATTTAAT
*
19162464 AATTTTTCTAAAA
1 AATTTTTATAAAA
19162477 TTTATTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 11 0.41
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTTTTATAAAAAATTTAAT
Found at i:19162459 original size:19 final size:19
Alignment explanation
Indices: 19162435--19162489 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
19162425 TTTTTATAAA
*
19162435 AAAATTTCTAATTTTTAAT
1 AAAATTTATAATTTTTAAT
*
19162454 AAAATTTAATAATTTTT-CT
1 AAAATTT-ATAATTTTTAAT
*
19162473 AAAATTTATTATTTTTA
1 AAAATTTATAATTTTTA
19162490 TTTTTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 8 0.26
19 15 0.48
20 8 0.26
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
AAAATTTATAATTTTTAAT
Found at i:19162470 original size:21 final size:21
Alignment explanation
Indices: 19162418--19162476 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
19162408 TTTTTTATTT
*
19162418 TTTACAATTTTTATAAAAAAA
1 TTTATAATTTTTATAAAAAAA
* *
19162439 TTTCTAA-TTTT-TAATAAAA
1 TTTATAATTTTTATAAAAAAA
*
19162458 TTTAATAATTTTTCTAAAA
1 TTT-ATAATTTTTATAAAA
19162477 TTTATTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 10 0.33
20 7 0.23
21 9 0.30
22 4 0.13
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTATAATTTTTATAAAAAAA
Found at i:19162817 original size:28 final size:26
Alignment explanation
Indices: 19162777--19162844 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 26
19162767 GGGATGGCTG
19162777 GGAATGAGAAAAGGAAAAGAGAAGGGAA
1 GGAATGA-AAAAGGAAAAGA-AAGGGAA
19162805 GGAATGGAAAAA-G---AGAAAGGGAA
1 GGAAT-GAAAAAGGAAAAGAAAGGGAA
*
19162828 GGAAAGAAAAAGGAAAA
1 GGAATGAAAAAGGAAAA
19162845 TAATAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
22 6 0.18
23 12 0.35
24 3 0.09
26 1 0.03
27 1 0.03
28 9 0.26
29 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (26 bp):
GGAATGAAAAAGGAAAAGAAAGGGAA
Found at i:19162828 original size:23 final size:22
Alignment explanation
Indices: 19162786--19162843 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
19162776 GGGAATGAGA
*
19162786 AAAGGAAAAGAG-AAGGGAAGG
1 AAAGAAAAAGAGAAAGGGAAGG
*
19162807 AATGGAAAAAGAGAAAGGGAAGG
1 AA-AGAAAAAGAGAAAGGGAAGG
19162830 AAAGAAAAAG-GAAA
1 AAAGAAAAAGAGAAA
19162844 ATAATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 6 0.19
22 15 0.47
23 11 0.34
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (22 bp):
AAAGAAAAAGAGAAAGGGAAGG
Found at i:19164163 original size:50 final size:51
Alignment explanation
Indices: 19164074--19164195 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 51
19164064 GTGCCTTTCG
* * * * * *
19164074 TTGCTGATGCTAAGGCGGTTCCTGCATTGGAGACTCCTCAAGTTTCAGTGT
1 TTGCTGATACTAAGGCTGTTCCTGAATTGGAGACTCCTCAAGCTCCAGTAT
* * *
19164125 TTGCTGATACT-AGGCTGTTCCT-AAGTTGGAGGCTCCTCATGCTCCGGTAT
1 TTGCTGATACTAAGGCTGTTCCTGAA-TTGGAGACTCCTCAAGCTCCAGTAT
*
19164175 TTGCTGATCCTAAGGCTGTTC
1 TTGCTGATACTAAGGCTGTTC
19164196 TTGCGTTGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 1 0.02
50 39 0.66
51 19 0.32
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.34
Consensus pattern (51 bp):
TTGCTGATACTAAGGCTGTTCCTGAATTGGAGACTCCTCAAGCTCCAGTAT
Found at i:19168584 original size:14 final size:14
Alignment explanation
Indices: 19168542--19168587 Score: 58
Period size: 13 Copynumber: 3.2 Consensus size: 14
19168532 AAAGAGAATG
19168542 GAAAATAAAGAAAA
1 GAAAATAAAGAAAA
19168556 -AAAATAAAGTTAAAA
1 GAAAATAAAG--AAAA
*
19168571 GAACATAAAGAAAA
1 GAAAATAAAGAAAA
19168585 GAA
1 GAA
19168588 TTAAATTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 9 0.32
14 7 0.25
15 4 0.14
16 8 0.29
ACGTcount: A:0.74, C:0.02, G:0.13, T:0.11
Consensus pattern (14 bp):
GAAAATAAAGAAAA
Found at i:19169596 original size:97 final size:97
Alignment explanation
Indices: 19169489--19169739 Score: 307
Period size: 97 Copynumber: 2.6 Consensus size: 97
19169479 TAATGTTAAT
*
19169489 GTAATTAATATTTTCTTTTAATAAGAAAATAATATTAAATAATTATCATT-AAAAAGTTAAATAA
1 GTAATTAATATTTTCTTTTAATAAGAAAATAAGATTAAATAATTATCATTCAAAAA-TTAAATAA
* *
19169553 TTAATAAAGT-TTTTTATGTTAATGATAATGAAA
65 TTAATAAA-TATTTTAATGTTAATGATAATAAAA
* * **
19169586 GTAATTAATATTTTATTTTAGT-AGACAAATAAGA-TAAATAATTATTGTTCAAAAATTAAATAA
1 GTAATTAATATTTTCTTTTAATAAGA-AAATAAGATTAAATAATTATCATTCAAAAATTAAATAA
19169649 TTAATAAATAATTTTAATGTTAATGATAATAAAA
65 TTAATAAAT-ATTTTAATGTTAATGATAATAAAA
* * * * * *
19169683 ATAATTAAGATTTTCTTGT-ATAGGAAAATAAGATTAAATAATTA-AATTTAAAAATTA
1 GTAATTAATATTTTCTTTTAATAAGAAAATAAGATTAAATAATTATCATTCAAAAATTA
19169740 TTAAAGGTAT
Statistics
Matches: 132, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
95 1 0.01
96 51 0.39
97 80 0.61
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.41
Consensus pattern (97 bp):
GTAATTAATATTTTCTTTTAATAAGAAAATAAGATTAAATAATTATCATTCAAAAATTAAATAAT
TAATAAATATTTTAATGTTAATGATAATAAAA
Found at i:19169926 original size:6 final size:6
Alignment explanation
Indices: 19169915--19169969 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
19169905 TTTTATTTCA
* * * *
19169915 TTTATT TTTATT TTTATT TGTATT TTTGTT GTTATT TGT-TT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
19169962 TTAATT TT
1 TTTATT TT
19169970 CAGACTTATA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
5 4 0.10
6 35 0.90
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:19169939 original size:22 final size:22
Alignment explanation
Indices: 19169891--19169933 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19169881 TTACTGATTC
19169891 CATTTAGTTTTATGTTTTATTT
1 CATTTAGTTTTATGTTTTATTT
*
19169913 CATTTATTTTTAT-TTTTATTT
1 CATTTAGTTTTATGTTTTATTT
19169934 GTATTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (22 bp):
CATTTAGTTTTATGTTTTATTT
Found at i:19169940 original size:18 final size:18
Alignment explanation
Indices: 19169917--19169968 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
19169907 TTATTTCATT
19169917 TATTTTTATTTTTATTTG
1 TATTTTTATTTTTATTTG
* *
19169935 TATTTTTGTTGTTATTTG
1 TATTTTTATTTTTATTTG
*
19169953 T-TTTTTATTTTAATTT
1 TATTTTTATTTTTATTT
19169969 TCAGACTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 12 0.41
18 17 0.59
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (18 bp):
TATTTTTATTTTTATTTG
Found at i:19169960 original size:11 final size:11
Alignment explanation
Indices: 19169893--19169969 Score: 59
Period size: 12 Copynumber: 6.7 Consensus size: 11
19169883 ACTGATTCCA
19169893 TTTAGTTTTATGT
1 TTTA-TTTTAT-T
*
19169906 TTTATTTCATT
1 TTTATTTTATT
*
19169917 TAT-TTTTATT
1 TTTATTTTATT
19169927 TTTATTTGTATT
1 TTTATTT-TATT
*
19169939 TTTGTTGTTATT
1 TTTATT-TTATT
19169951 TGTT-TTTTATT
1 T-TTATTTTATT
*
19169962 TTAATTTT
1 TTTATTTT
19169970 CAGACTTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
10 9 0.17
11 16 0.30
12 21 0.40
13 7 0.13
ACGTcount: A:0.16, C:0.01, G:0.08, T:0.75
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:19169998 original size:15 final size:15
Alignment explanation
Indices: 19169978--19170007 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19169968 TTCAGACTTA
*
19169978 TATGTTTTATTTTAT
1 TATGTTTTATGTTAT
19169993 TATGTTTTATGTTAT
1 TATGTTTTATGTTAT
19170008 CTCTTTATCT
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:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (15 bp):
TATGTTTTATGTTAT
Found at i:19170020 original size:28 final size:28
Alignment explanation
Indices: 19169983--19170043 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
19169973 ACTTATATGT
* *
19169983 TTTATTTTATTATGTTTTATGT-TATCTC
1 TTTATCTTATTATATTTT-TGTCTATCTC
* *
19170011 TTTATCTTATTTTATTTTTGTCTATCTT
1 TTTATCTTATTATATTTTTGTCTATCTC
19170039 TTTAT
1 TTTAT
19170044 TAGTGTGCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.70
Consensus pattern (28 bp):
TTTATCTTATTATATTTTTGTCTATCTC
Found at i:19170895 original size:6 final size:6
Alignment explanation
Indices: 19170881--19170934 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
19170871 ATTCATTATC
* *
19170881 AAATTA AAATAA AAATAA AAATATA AAATCAA AACT-A AAATAA ATAATAA
1 AAATAA AAATAA AAATAA AAATA-A AAAT-AA AAATAA AAATAA A-AATAA
19170931 AAAT
1 AAAT
19170935 TAGATTAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
5 4 0.10
6 21 0.51
7 15 0.37
8 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (6 bp):
AAATAA
Found at i:19170909 original size:19 final size:18
Alignment explanation
Indices: 19170881--19170934 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
19170871 ATTCATTATC
19170881 AAAT-TAAAATAAAAATAA
1 AAATATAAAATAAAAAT-A
*
19170899 AAATATAAAATCAAAACTA
1 AAATATAAAAT-AAAAATA
19170918 AAATA-AATAATAAAAAT
1 AAATATAA-AATAAAAAT
19170935 TAGATTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 11 0.35
19 15 0.48
20 5 0.16
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (18 bp):
AAATATAAAATAAAAATA
Found at i:19175496 original size:7 final size:7
Alignment explanation
Indices: 19175484--19175515 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
19175474 ATATGGACTA
19175484 AAATATT
1 AAATATT
19175491 AAATATT
1 AAATATT
19175498 AAATATT
1 AAATATT
19175505 AAATATT
1 AAATATT
19175512 AAAT
1 AAAT
19175516 TTTTAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATATT
Found at i:19175533 original size:7 final size:7
Alignment explanation
Indices: 19175523--19175563 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
19175513 AATTTTTAAG
19175523 TTTTTTA
1 TTTTTTA
19175530 TTTTTTA
1 TTTTTTA
19175537 TTTTTTA
1 TTTTTTA
19175544 TTTTTTA
1 TTTTTTA
19175551 TTTTTTA
1 TTTTTTA
19175558 TTTTTT
1 TTTTTT
19175564 TTGAAGATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:19175547 original size:21 final size:22
Alignment explanation
Indices: 19175514--19175563 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
19175504 TAAATATTAA
*
19175514 ATTTTTAAGTTTTTTATTTTTT
1 ATTTTTTAGTTTTTTATTTTTT
19175536 ATTTTTTA-TTTTTTATTTTTT
1 ATTTTTTAGTTTTTTATTTTTT
19175557 ATTTTTT
1 ATTTTTT
19175564 TTGAAGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (22 bp):
ATTTTTTAGTTTTTTATTTTTT
Found at i:19176837 original size:41 final size:41
Alignment explanation
Indices: 19176792--19176969 Score: 198
Period size: 41 Copynumber: 4.2 Consensus size: 41
19176782 GTTATATGAC
* * * *
19176792 TTTTAGTGGCGTTTTACTAAAAGCGCGGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* *
19176833 TTTTAGCGGCGTTTTACCAAAAGCGCCGCGAATGCTCTATT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
19176874 TTTTAGCGGCGTTTTACCAAAAGCGCCGCGCCACTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCG-C-CG---CTAATGCTCTAGT
* * * *
19176919 TTTTAGCAGCGTTTTAACAAAAAACGCCGCTATTGCTC-AGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTAGT
19176960 TTTTAGCGGC
1 TTTTAGCGGC
19176970 ATTTCCGCTA
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
41 79 0.68
42 1 0.01
43 2 0.02
44 2 0.02
45 16 0.14
46 17 0.15
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
Found at i:19176963 original size:87 final size:81
Alignment explanation
Indices: 19176792--19176969 Score: 207
Period size: 86 Copynumber: 2.1 Consensus size: 81
19176782 GTTATATGAC
* * * * *
19176792 TTTTAGTGGCGTTTTACTAAAAGCGCGGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCGGCTAATGCTCTGGTTTTTAGCAGCGTTTTACAAAAAAC
19176857 GCCGCGAATGCTCTATT
66 GCCGCGAATGCTCTA-T
19176874 TTTTAGCGGCGTTTTACCAAAAGCGCCGCGCCACTAATGCTCT-GTTTTTAGCAGCGTTTTAACA
1 TTTTAGCGGCGTTTTACCAAAAGCG-CG-G---CTAATGCTCTGGTTTTTAGCAGCGTTTT-ACA
* *
19176938 AAAAACGCCGCTATTGCTC-AGT
60 AAAAACGCCGCGAATGCTCTA-T
19176960 TTTTAGCGGC
1 TTTTAGCGGC
19176970 ATTTCCGCTA
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
82 23 0.28
83 2 0.02
84 1 0.01
86 28 0.34
87 28 0.34
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCGGCTAATGCTCTGGTTTTTAGCAGCGTTTTACAAAAAAC
GCCGCGAATGCTCTAT
Found at i:19179054 original size:26 final size:26
Alignment explanation
Indices: 19179021--19179073 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
19179011 TTTAAATTGA
19179021 TAGTGATAGATGAAATCTAGGTGAAT
1 TAGTGATAGATGAAATCTAGGTGAAT
19179047 TAGTGATAGATGAAATCTAGGTGAAT
1 TAGTGATAGATGAAATCTAGGTGAAT
19179073 T
1 T
19179074 CTTTCTTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (26 bp):
TAGTGATAGATGAAATCTAGGTGAAT
Found at i:19181061 original size:30 final size:30
Alignment explanation
Indices: 19181025--19181082 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
19181015 AAGACCATTT
*
19181025 CCACATGGGCTGAG-CACACGCCCGTGTGAG
1 CCACATGGGCT-AGCCACACGCCCATGTGAG
19181055 CCACATGGGCTAGCCACACGCCCATGTG
1 CCACATGGGCTAGCCACACGCCCATGTG
19181083 GCAACCTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACATGGGCTAGCCACACGCCCATGTGAG
Found at i:19184411 original size:21 final size:22
Alignment explanation
Indices: 19184376--19184419 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
19184366 TTTTCACTAA
19184376 ACATAGGTCACACGCCCGTGTGG
1 ACATAGG-CACACGCCCGTGTGG
*
19184399 ACATAGG-ACACGCCTGTGTGG
1 ACATAGGCACACGCCCGTGTGG
19184420 GTAGGTCGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.23, C:0.27, G:0.32, T:0.18
Consensus pattern (22 bp):
ACATAGGCACACGCCCGTGTGG
Found at i:19184666 original size:13 final size:13
Alignment explanation
Indices: 19184648--19184681 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19184638 AGGTGCAGGG
19184648 GACACATGGCCAA
1 GACACATGGCCAA
**
19184661 GACACACAGCCAA
1 GACACATGGCCAA
19184674 GACACATG
1 GACACATG
19184682 CCCATGAGGC
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.41, C:0.32, G:0.21, T:0.06
Consensus pattern (13 bp):
GACACATGGCCAA
Found at i:19187373 original size:13 final size:13
Alignment explanation
Indices: 19187355--19187379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19187345 TAATGGTATA
19187355 TTGAATCCATGAT
1 TTGAATCCATGAT
19187368 TTGAATCCATGA
1 TTGAATCCATGA
19187380 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:19189485 original size:47 final size:47
Alignment explanation
Indices: 19188990--19190365 Score: 2284
Period size: 47 Copynumber: 28.6 Consensus size: 47
19188980 TTATTCATTG
* * *
19188990 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
19189037 GAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
19189088 GAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
19189139 GAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
19189190 GAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
19189241 GAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
19189292 GAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
19189343 GAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
19189394 GAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189445 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189492 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189539 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189586 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189633 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189680 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189727 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189774 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189821 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189868 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189915 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19189962 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19190009 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19190056 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19190103 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19190150 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19190197 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
19190244 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
* * * * * * *
19190291 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
* *
19190338 GGATGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
19190366 TCCCGAAGGG
Statistics
Matches: 1311, Mismatches: 14, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 909 0.69
51 402 0.31
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
Done.