Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 211 of 235
Found at i:71857754 original size:68 final size:67
Alignment explanation
Indices: 71857682--71857867 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 67
71857672 CATCATGTGT
* * *
71857682 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACC
71857744 ATGTAG
62 ATGTAG
** * * *
71857750 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
71857815 AG
66 AG
* * *
71857817 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATA-TGTAGCTAGGTCGCATGGGTGGATAC-AAGTG
71857868 TTCACCATGT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 25 0.25
67 31 0.31
68 15 0.15
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:71857787 original size:64 final size:64
Alignment explanation
Indices: 71857706--71857889 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
71857696 AGACATTATG
* *
71857706 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
71857770 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
71857835 AA
63 AA
* * * *
71857837 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
71857890 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:71860346 original size:30 final size:30
Alignment explanation
Indices: 71860311--71860367 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
71860301 TTTACGAGTC
*
71860311 TAGGGGGAAAAATGTAATTTTGACAAAGTT
1 TAGGGGCAAAAATGTAATTTTGACAAAGTT
*
71860341 TAGGGGCAAAATTGTAATTTTGACAAA
1 TAGGGGCAAAAATGTAATTTTGACAAA
71860368 ATATGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTTTGACAAAGTT
Found at i:71863876 original size:35 final size:35
Alignment explanation
Indices: 71863830--71863896 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
71863820 TGACAGTTAC
71863830 GGCTGAATAGATTTAACAATTTCTTCTGAGATATT
1 GGCTGAATAGATTTAACAATTTCTTCTGAGATATT
71863865 GGCTGAATAGATTTAACAATTTCTTCTGAGAT
1 GGCTGAATAGATTTAACAATTTCTTCTGAGAT
71863897 GTTCTATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (35 bp):
GGCTGAATAGATTTAACAATTTCTTCTGAGATATT
Found at i:71869717 original size:22 final size:22
Alignment explanation
Indices: 71869692--71869778 Score: 115
Period size: 22 Copynumber: 4.0 Consensus size: 22
71869682 GCACTAATGA
*
71869692 ACAGAGAGCACTAAAATGCTAT
1 ACAGAGAGCACTAAAGTGCTAT
71869714 ACAGAGAGCACTAAAGTGCTAT
1 ACAGAGAGCACTAAAGTGCTAT
*
71869736 ACAGAGAGCAC-AGATGTGCTAGT
1 ACAGAGAGCACTA-AAGTGCTA-T
*
71869759 -CAGAGAGCACTAATGTGCTA
1 ACAGAGAGCACTAAAGTGCTA
71869779 ATAATCAGAG
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
21 1 0.02
22 57 0.95
23 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (22 bp):
ACAGAGAGCACTAAAGTGCTAT
Found at i:71878902 original size:18 final size:18
Alignment explanation
Indices: 71878868--71878902 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71878858 AATGAGTAGT
* *
71878868 AGAAGAAGATGATGATGA
1 AGAAGAAGAAGAAGATGA
71878886 AGAAGAAGAAGAAGATG
1 AGAAGAAGAAGAAGATG
71878903 TTGAGGGTGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.34, T:0.11
Consensus pattern (18 bp):
AGAAGAAGAAGAAGATGA
Found at i:71879324 original size:12 final size:12
Alignment explanation
Indices: 71879307--71879331 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71879297 TTTCTTTAAG
71879307 GAAAAAAGAAAA
1 GAAAAAAGAAAA
71879319 GAAAAAAGAAAA
1 GAAAAAAGAAAA
71879331 G
1 G
71879332 CAGCAAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
GAAAAAAGAAAA
Found at i:71881701 original size:41 final size:41
Alignment explanation
Indices: 71881647--71881729 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
71881637 ATATATATTG
*
71881647 ATATTGTTGTTGATTAAGTTGATATCACAACTCAACTCGAT
1 ATATTATTGTTGATTAAGTTGATATCACAACTCAACTCGAT
71881688 ATATTATTGTTGATTAAGTTGATATCACAACTCAACTCGAT
1 ATATTATTGTTGATTAAGTTGATATCACAACTCAACTCGAT
71881729 A
1 A
71881730 CTAACTCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (41 bp):
ATATTATTGTTGATTAAGTTGATATCACAACTCAACTCGAT
Found at i:71881891 original size:23 final size:24
Alignment explanation
Indices: 71881865--71881910 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
71881855 TTTCATATGT
71881865 TATAATTAATCAATT-TTAAATCA
1 TATAATTAATCAATTATTAAATCA
* * *
71881888 TATATTTTATCATTTATTAAATC
1 TATAATTAATCAATTATTAAATC
71881911 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
TATAATTAATCAATTATTAAATCA
Found at i:71882247 original size:22 final size:22
Alignment explanation
Indices: 71882203--71882249 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
71882193 ATTTTTTAAG
*
71882203 TTTTAAGATTTTTTTTGAGTTT
1 TTTTAAGATTTTTTATGAGTTT
*
71882225 TTTTTAGATTTTTTAATGA-TTT
1 TTTTAAGATTTTTT-ATGAGTTT
71882247 TTT
1 TTT
71882250 GGATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTTAAGATTTTTTATGAGTTT
Found at i:71882636 original size:19 final size:19
Alignment explanation
Indices: 71882612--71882656 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
71882602 TTTTATAAAT
71882612 ATAATATGAAAAAATAATTA
1 ATAATATGAAAAAAT-ATTA
*
71882632 A-AATAAGAAAAAATATTA
1 ATAATATGAAAAAATATTA
71882650 ATAATAT
1 ATAATAT
71882657 ATTTACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 16 0.73
20 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATGAAAAAATATTA
Found at i:71884464 original size:21 final size:21
Alignment explanation
Indices: 71884435--71884476 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
71884425 CAAAAATGTG
*
71884435 TTTGAGTCAAATA-TGTTTTC
1 TTTGAGTCAAAAAGTGTTTTC
71884455 TTTGAAGTCAAAAAGTGTTTTC
1 TTTG-AGTCAAAAAGTGTTTTC
71884477 AAATTCACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (21 bp):
TTTGAGTCAAAAAGTGTTTTC
Found at i:71885924 original size:43 final size:43
Alignment explanation
Indices: 71885871--71885961 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
71885861 AGAGTGGCAG
* * *
71885871 TTTATTTGTAAATATGTTGTGCATCCACAGTCC-AGTGGTAGTT
1 TTTATCTGTAAATATGTTGTGCACCCACA-ACCTAGTGGTAGTT
71885914 TTTATCTGTAAATATGTTGTGCACCCACAACCTAGTGGTAGTT
1 TTTATCTGTAAATATGTTGTGCACCCACAACCTAGTGGTAGTT
71885957 TTTAT
1 TTTAT
71885962 TTGCAAAGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 2 0.05
43 42 0.95
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (43 bp):
TTTATCTGTAAATATGTTGTGCACCCACAACCTAGTGGTAGTT
Found at i:71888292 original size:12 final size:13
Alignment explanation
Indices: 71888275--71888312 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
71888265 AAAAAATGTG
71888275 ATAATTATAA-TT
1 ATAATTATAATTT
71888287 ATAATT-TAATTT
1 ATAATTATAATTT
*
71888299 ATAATTATTATTT
1 ATAATTATAATTT
71888312 A
1 A
71888313 AAAAATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 3 0.13
12 14 0.61
13 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATAATTATAATTT
Found at i:71888302 original size:18 final size:18
Alignment explanation
Indices: 71888279--71888313 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
71888269 AATGTGATAA
71888279 TTATAATTATAATTTAAT
1 TTATAATTATAATTTAAT
*
71888297 TTATAATTATTATTTAA
1 TTATAATTATAATTTAA
71888314 AAAATTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATAATTATAATTTAAT
Found at i:71889880 original size:24 final size:25
Alignment explanation
Indices: 71889840--71889896 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
71889830 TTTTTTTATT
*
71889840 AATAAAAAATTGTAAA-TA-TGTGAA
1 AATAAAAAATAGTAAATTATTGT-AA
71889864 AATTAAAAAATAG-AAATTATTGTAA
1 AA-TAAAAAATAGTAAATTATTGTAA
71889889 AATAAAAA
1 AATAAAAA
71889897 GTTGAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 11 0.38
25 15 0.52
26 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (25 bp):
AATAAAAAATAGTAAATTATTGTAA
Found at i:71889903 original size:24 final size:23
Alignment explanation
Indices: 71889840--71889903 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
71889830 TTTTTTTATT
71889840 AATAAAAAATTGTAAATATGTGAA
1 AATAAAAAATTG-AAATATGTGAA
*
71889864 AATTAAAAAATAGAAATTAT-TGTAA
1 AA-TAAAAAATTGAAA-TATGTG-AA
*
71889889 AATAAAAAGTTGAAA
1 AATAAAAAATTGAAA
71889904 ATAAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (23 bp):
AATAAAAAATTGAAATATGTGAA
Found at i:71891197 original size:3 final size:3
Alignment explanation
Indices: 71891189--71891318 Score: 260
Period size: 3 Copynumber: 43.3 Consensus size: 3
71891179 TCGCAAGTAA
71891189 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
71891237 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
71891285 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
71891319 TTTTGATCCT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 127 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:71892275 original size:21 final size:21
Alignment explanation
Indices: 71892251--71892290 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
71892241 GTTAATGATC
71892251 AAATTAAAAAAAATAAAAATT
1 AAATTAAAAAAAATAAAAATT
* **
71892272 AAATTGACCAAAATAAAAA
1 AAATTAAAAAAAATAAAAA
71892291 CGTGACTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATTAAAAAAAATAAAAATT
Found at i:71892449 original size:18 final size:17
Alignment explanation
Indices: 71892422--71892480 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
71892412 AACACCAATT
*
71892422 TAATCAAAATCTTAAATA
1 TAATCTAAAT-TTAAATA
71892440 TAATCTAAATTTATAATA
1 TAATCTAAATTTA-AATA
71892458 TAAT-TAAAATTTTAAATCA
1 TAATCT-AAA-TTTAAAT-A
71892477 TAAT
1 TAAT
71892481 ATGTTTCCAG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 4 0.11
18 23 0.64
19 9 0.25
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATCTAAATTTAAATA
Found at i:71897087 original size:19 final size:19
Alignment explanation
Indices: 71897065--71897111 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
71897055 CTTCCTTTCT
71897065 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
71897084 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
71897103 TTTGCATTA
1 TTTGCATTA
71897112 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:71899065 original size:19 final size:19
Alignment explanation
Indices: 71899043--71899089 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
71899033 CTTCCTTTCT
71899043 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
71899062 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
71899081 TTTGCATTA
1 TTTGCATTA
71899090 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:71901892 original size:6 final size:6
Alignment explanation
Indices: 71901881--71901907 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
71901871 GTTATATGGA
71901881 AAAGGC AAAGGC AAAGGC AAAGGC AAA
1 AAAGGC AAAGGC AAAGGC AAAGGC AAA
71901908 AAAAAACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.30, T:0.00
Consensus pattern (6 bp):
AAAGGC
Found at i:71901922 original size:8 final size:8
Alignment explanation
Indices: 71901909--71901937 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
71901899 AAAGGCAAAA
71901909 AAAAACAC
1 AAAAACAC
71901917 AAAAACAC
1 AAAAACAC
71901925 AAAAACAC
1 AAAAACAC
71901933 AAAAA
1 AAAAA
71901938 AAACAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAACAC
Found at i:71901929 original size:9 final size:9
Alignment explanation
Indices: 71901908--71901947 Score: 57
Period size: 8 Copynumber: 4.7 Consensus size: 9
71901898 CAAAGGCAAA
71901908 AAAAAACAC
1 AAAAAACAC
71901917 -AAAAACAC
1 AAAAAACAC
71901925 -AAAAACAC
1 AAAAAACAC
*
71901933 AAAAAAAAC
1 AAAAAACAC
71901942 AAAAAA
1 AAAAAA
71901948 ATTCTAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 16 0.55
9 13 0.45
ACGTcount: A:0.82, C:0.17, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAACAC
Found at i:71903191 original size:66 final size:66
Alignment explanation
Indices: 71903091--71903217 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
71903081 CATTCATATA
*
71903091 ATAACACATCTACTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTACTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
71903156 C
66 C
* *
71903157 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTACTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
71903218 TAAGCATAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (66 bp):
ATAACACATCTACTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:71903470 original size:43 final size:43
Alignment explanation
Indices: 71903281--71904401 Score: 631
Period size: 43 Copynumber: 25.7 Consensus size: 43
71903271 ATTCACAAGC
* * * *
71903281 CTTAAGCCCCTAAGCAATAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * *
71903326 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * * * * *
71903370 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGTAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * *
71903412 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * **
71903455 CTTAACCCCCGAAGCAGTAGGG-AGACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTA-ACAGATCGAAGATGAAGAT
* * * * *
71903498 CTTTAATCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA-T
* * * *
71903542 CTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA-T
* *
71903585 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * * **
71903630 CTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * * *
71903673 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGA-AGAT
* * *
71903717 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * *
71903762 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * * * * * *
71903806 CTTAAACCCGTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * *
71903848 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGGAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * *
71903891 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* * * * *
71903935 TTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA-T
* *
71903978 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGACTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * **
71904023 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGAT-AATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * * *
71904066 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA-T
* * * * *
71904110 CTTAAACCCCTAAGCAGTAGGATAACTG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * ** * * **
71904155 CTTAGCCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * * *
71904198 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGA-AGAT
* * * *
71904242 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * * * *
71904287 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* * * * * **
71904330 CTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* *
71904374 CTTAAACCCCTAAGTAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
71904402 GCTGGAAATT
Statistics
Matches: 847, Mismatches: 177, Indels: 105
0.75 0.16 0.09
Matches are distributed among these distances:
42 64 0.08
43 332 0.39
44 231 0.27
45 213 0.25
46 7 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
Found at i:71903701 original size:132 final size:132
Alignment explanation
Indices: 71903543--71904314 Score: 1128
Period size: 132 Copynumber: 5.9 Consensus size: 132
71903533 TTTACAAGCC
*
71903543 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
*
71903608 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGATGGG
66 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
71903673 CT
131 CT
* *
71903675 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
* * *
71903740 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG
66 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
71903805 -T
131 CT
* * * * * * * *
71903806 CTTAAACCCGTAATCGGTAGGGTAAC-AGACCGAA-TTGC-AGATCTT-ATCTCCCTAAGCAGTA
1 -TTAACCCCCTAAGCAGTAGGGTAACAAG-CCAAATTTACAAG-CCTTAAAC-CCCTAAGCAGTA
* * ** * *
71903867 GGGAAACA-GATCGAAGA--TGGAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATG
62 GGGTAACAGGCT-GAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATG
*
71903929 ATGGGTT
126 ATGGGCT
*
71903936 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
* *
71904001 AACAGGCTGAAGACTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATAATGGG
66 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
71904066 CT
131 CT
*
71904068 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGAT
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
* * * *
71904133 AACTGGCTGAAGATTTACAGATCTTAGCCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG
66 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
71904198 CT
131 CT
* *
71904200 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
* * *
71904265 AACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAG
66 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
71904315 GTTGAATTTA
Statistics
Matches: 574, Mismatches: 53, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
129 70 0.12
130 38 0.07
131 39 0.07
132 427 0.74
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (132 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
CT
Found at i:71903918 original size:261 final size:263
Alignment explanation
Indices: 71903543--71904314 Score: 1121
Period size: 261 Copynumber: 2.9 Consensus size: 263
71903533 TTTACAAGCC
* * *
71903543 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGT
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGAT
*
71903608 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGATGGG
66 AACAGGCTGAAGA-TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
71903673 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGG
130 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGG
*
71903738 GTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-
195 GTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGA-GAAT
71903802 GGG-T
259 GGGCT
* * * * * * *
71903806 CTTAAACCCGTAATCGGTAGGGTAAC-AGACCGAA-TTGC-AGATCTT-ATCTCCCTAAGCAGTA
1 -TTAAACCCCTAAGCAGTAGGGTAACAAG-CCAAATTTACAAG-CCTTAAAC-CCCTAAGCAGTA
* ** * *
71903867 GGGA-AACA-GATCGAAGA-TGGAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATG
62 -GGATAACAGGCT-GAAGATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATG
* * * *
71903929 ATGGGTTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCA
125 ATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCA
*
71903994 GTAGGGTAACAGGCTGAAGACTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGA
190 GTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGA
*
71904059 TAATGGGCT
255 GAATGGGCT
*
71904068 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGAT
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGAT
* * * *
71904133 AACTGGCTGAAGATTTACAGATCTTAGCCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG
66 AACAGGCTGAAGA-TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
71904198 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGG
130 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGG
* * *
71904263 GTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAG
195 GTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
71904315 GTTGAATTTA
Statistics
Matches: 447, Mismatches: 46, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
260 2 0.00
261 196 0.44
262 35 0.08
263 35 0.08
264 179 0.40
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (263 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGAT
AACAGGCTGAAGATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGC
TTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGG
TAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGAGAATGG
GCT
Found at i:71904122 original size:436 final size:435
Alignment explanation
Indices: 71903269--71904400 Score: 1363
Period size: 436 Copynumber: 2.6 Consensus size: 435
71903259 TAGAATCAGT
* * * *
71903269 GAATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
71903334 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGA
66 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGA
*
71903399 CCGAATTGTAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCC
131 CCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCC
* *
71903464 CGAAGCAGTAGGGAGACAGATCGAAGATGATGGGCTTTAATCCCCTAAGCAGTAGGGTAACAAGC
196 CGAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
*
71903529 CAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCC
261 CAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAACTTACAAGCCTTAACCCC
* * *
71903594 CTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
326 CTAAGCAGTAGGGAAACAGGCTAAAGA-TTACAGAGCTTAACCCCCTAAGCAGTAGGGAAACAGA
* *** * * *
71903659 TCCAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
390 GCCAAGATGACAAGCCTTAAACCCCTAAGCAGTAGGATAACAAGCC
71903705 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
*
71903770 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCGTAATCGGTAGGGTAACAGA
66 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGA
*
71903835 CCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGGAGATCTTAACCCC
131 CCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCC
* * *
71903900 CTAAGTAGTAGGGAAACAGATCGAAGATGATGGGTTTTAACCCCCTAAGCAGTAGGGTAACAAGC
196 CGAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
* * *
71903965 CAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGACTTAC-AGATCTTAAC
261 CAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGC-CAA-ACTTACAAG-CCTTAAC
* * *
71904029 CCCCTAAGCAGTAGGGAAACA-GATCAAAGA-TA-ATGGGCTTTAACCCCCTAAGCAGTAGGGTA
323 CCCCTAAGCAGTAGGGAAACAGGCT-AAAGATTACA-GAGC-TTAACCCCCTAAGCAGTAGGGAA
* ** *
71904091 ACA-AGCCAA-ATTTACAAGCCTTAAACCCCTAAGCAGTAGGATAACTGGCT
385 ACAGAGCCAAGA-TGACAAGCCTTAAACCCCTAAGCAGTAGGATAACAAGCC
* * ** * * * * * * * **
71904141 GAAGATTTACAGATCTTAGCCCCCTAAGCAGTAGGGAAACA-GATAAAAAATGA-TGGGCTTTAA
1 G-A-ATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATC-TTAA
* * * ** * *
71904204 CCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTAC-AA--ACCTTAAACCCCTAAGCAGTAGGGT
63 CCCCCTAAGCAGTAGGGAAACAGA-TCGAA--GACGAAGGGTCTTAAACCCCTAATCGGTAGGGT
* * * * * * * * * * * *
71904265 AACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGA
125 AACAGACCG-A-A-TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGA
** * * * * *
71904329 TCTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGCCTTAAACCCCTAAGTAGTAG
186 TCTTAACCCCCGAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAG
71904394 GGTAACA
251 GGTAACA
71904401 GGCTGGAAAT
Statistics
Matches: 604, Mismatches: 75, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
435 2 0.00
436 359 0.59
437 69 0.11
438 71 0.12
439 103 0.17
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (435 bp):
GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGA
CCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCC
CGAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
CAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAACTTACAAGCCTTAACCCC
CTAAGCAGTAGGGAAACAGGCTAAAGATTACAGAGCTTAACCCCCTAAGCAGTAGGGAAACAGAG
CCAAGATGACAAGCCTTAAACCCCTAAGCAGTAGGATAACAAGCC
Found at i:71904221 original size:393 final size:393
Alignment explanation
Indices: 71903419--71904269 Score: 1210
Period size: 393 Copynumber: 2.2 Consensus size: 393
71903409 GATCTTATCT
* * * * * *
71903419 CCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCCGAAGCAGTAGGGAGACAGA
1 CCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAA-CCCCTAAGCAGTAGGGAAACAGA
* * * *
71903484 TCGAAGATGATGGGCTTTAATCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACC
65 TCGAAGATGATGAGCTTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTGACAAGCCTTAACC
71903549 CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
130 CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
* * *
71903614 CTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGATGGGCTTTAA
195 CTGAAGACTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATAATGGGCTTTAA
* *
71903679 CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACA
260 CCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTTAAACCCCTAAGCAGTAGGATAACA
** *
71903744 GGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTT
325 GGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAACGAAGGGTCTT
71903809 AAAC
390 AAAC
* * * *
71903813 CCGTAATCGGTAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAAC-CCCTAAGCAGTAGGGAAACAGA
* * * * *** **
71903877 TCGAAGATG--GAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGA-TGATGGGTTTTA
65 TCGAAGATGATGAGCT-TTAACCCCCTAAGCAGTAGGGAAACA-AGCCAA-ATTGACAAGCCTTA
71903939 ACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAAC
127 ACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAAC
71904004 AGGCTGAAGACTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATAATGGGCTT
192 AGGCTGAAGACTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATAATGGGCTT
*
71904069 TAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGATA
257 TAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTTAAACCCCTAAGCAGTAGGATA
* * * *
71904134 ACTGGCTGAAGATTTACAGATCTTAGCCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG-
322 ACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAACGAAGGGT
*
71904198 CTTTAACC
387 C-TTAAAC
* * * * *
71904206 CCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGTAACAGA-CCGAAGTTGCAGATCTT-AACCCCTAAGCAGTAGGGAAACAG
71904270 GCTGAAGATT
Statistics
Matches: 404, Mismatches: 45, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
391 3 0.01
392 26 0.06
393 322 0.80
394 51 0.13
395 2 0.00
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (393 bp):
CCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAACCCCTAAGCAGTAGGGAAACAGAT
CGAAGATGATGAGCTTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTGACAAGCCTTAACCC
CCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
TGAAGACTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATAATGGGCTTTAAC
CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTTAAACCCCTAAGCAGTAGGATAACAG
GCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAACGAAGGGTCTTA
AAC
Found at i:71904366 original size:88 final size:88
Alignment explanation
Indices: 71903500--71904354 Score: 429
Period size: 88 Copynumber: 9.8 Consensus size: 88
71903490 ATGATGGGCT
* * * * * *
71903500 TTAATCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGT
1 TTAACCCCCTAACCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGA
* * **
71903565 AACAAGC-CAA-ATTTACAAGCC
66 AACAGGCTGAAGATTTACAAATC
* * * * * *
71903586 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGG
1 TTAACCCCCTAACCAGTAGGGTAACAAGCCG-A-ATTTACAAACCTTAAACCCCTAAGCAGTAGG
* * * ****
71903651 GAAACA-GATCCAAGA-TGA-TGGGC
64 GAAACAGGCT-GAAGATTTACAAATC
*
71903674 TTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGG
1 -TTAACCCCCTAACCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGG
* *
71903739 TAACAGGCTGAAGATTTACAGATC
65 AAACAGGCTGAAGATTTACAAATC
* * * * ** * * *
71903763 TTAACCCCCTAAGCAGTAGGGAAAC-AGATCGAA--GACGAAGGGTCTTAAACCCGTAATCGGTA
1 TTAACCCCCTAACCAGTAGGGTAACAAG-CCGAATTTAC-AA--ACCTTAAACCCCTAAGCAGTA
* * * * *
71903825 GGGTAACAGACCG-A-A-TTGCAGATC
62 GGGAAACAGGCTGAAGATTTACAAATC
* * * * * ** ** * * * *
71903849 TTATCTCCCTAAGCAGTAGGGAAAC-AGATCGAAGATGGAGATCTTAACCCCCTAAGTAGTAGGG
1 TTAACCCCCTAACCAGTAGGGTAACAAG-CCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGG
* * **** *
71903913 AAACA-GATCGAAGA-TGATGGGTT
65 AAACAGGCT-GAAGATTTACAAATC
* * * * *
71903936 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGT
1 TTAACCCCCTAACCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGA
* *
71904001 AACAGGCTGAAGACTTACAGATC
66 AACAGGCTGAAGATTTACAAATC
* * * * ** ** * *
71904024 TTAACCCCCTAAGCAGTAGGGAAAC-AGATCAAAGATA-ATGGGCTTTAACCCCCTAAGCAGTAG
1 TTAACCCCCTAACCAGTAGGGTAACAAG-CCGAATTTACA--AACCTTAAACCCCTAAGCAGTAG
* * * **
71904087 GGTAACAAGC-CAA-ATTTACAAGCC
63 GGAAACAGGCTGAAGATTTACAAATC
* * * ** * * * **
71904111 TTAAACCCCTAAGCAGTAGGATAACTGGCTGAAGATTTACAGATCTTAGCCCCCTAAGCAGTAGG
1 TTAACCCCCTAACCAGTAGGGTAACAAGCCG-A-ATTTACAAACCTTAAACCCCTAAGCAGTAGG
* * * * * ****
71904176 GAAACA-GATAAAAAATGA-TGGGC
64 GAAACAGGCTGAAGATTTACAAATC
*
71904199 TTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGG
1 -TTAACCCCCTAACCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGG
*
71904264 TAACAGGCTGAAGATTTACAAATC
65 AAACAGGCTGAAGATTTACAAATC
* ** * * *
71904288 TTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGATCTT-AACCCCTTAAGCAGTTGGG
1 TTAACCCCCTAACCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCC-TAAGCAGTAGGG
71904352 AAA
65 AAA
71904355 TAGATCGAAG
Statistics
Matches: 597, Mismatches: 138, Indels: 66
0.75 0.17 0.08
Matches are distributed among these distances:
85 23 0.04
86 69 0.12
87 177 0.30
88 200 0.34
89 126 0.21
90 2 0.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (88 bp):
TTAACCCCCTAACCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGA
AACAGGCTGAAGATTTACAAATC
Found at i:71904377 original size:132 final size:130
Alignment explanation
Indices: 71903543--71904417 Score: 825
Period size: 132 Copynumber: 6.7 Consensus size: 130
71903533 TTTACAAGCC
*
71903543 TTAACCCCCTAAGCAGTAGGGTAACAAG-CC-AAATTTACAAGCCTTAACCCCCTAAGCAGTAGG
1 TTAACCCCCTAAGCAGTAGGG-AA-AAGACCGAAA-TTACAAGCCTTAAACCCCTAAGCAGTAGG
* * * * *
71903606 GTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGATG
63 GTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGAT-AAAAATTAAG
71903671 GGCT
127 GGCT
* *
71903675 TTAACCCCCTAAGCAGTAGGGTAACAAG-CCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCAGTAGGG-AA-AAGACCGAAATTACAAGCCTTAAACCCCTAAGCAGTAGGG
* * * **
71903739 TAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGG
64 TAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGAT-AAAAATTAAGG
71903804 G-T
128 GCT
* * * * * * * *
71903806 CTTAAACCCGTAATCGGTAGGGTAACAGACCG-AATTGC-AGATCTT-ATCTCCCTAAGCAGTAG
1 -TTAACCCCCTAAGCAGTAGGG-AAAAGACCGAAATTACAAG-CCTTAAAC-CCCTAAGCAGTAG
* * ** * * * * *
71903868 GGAAACA-GATCGAAGA--TGGAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGA
62 GGTAACAGGCT-GAAGATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGAT-AAAAATTA
* *
71903930 TGGGTT
125 AGGGCT
*
71903936 TTAACCCCCTAAGCAGTAGGGTAACAAG-CC-AAATTTACAAGCCTTAACCCCCTAAGCAGTAGG
1 TTAACCCCCTAAGCAGTAGGG-AA-AAGACCGAAA-TTACAAGCCTTAAACCCCTAAGCAGTAGG
* * *
71903999 GTAACAGGCTGAAGACTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGA-TAAT
63 GTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGAT-AAAAATTAA-
71904063 GGGCT
126 GGGCT
71904068 TTAACCCCCTAAGCAGTAGGGTAACAAG-CC-AAATTTACAAGCCTTAAACCCCTAAGCAGTAGG
1 TTAACCCCCTAAGCAGTAGGG-AA-AAGACCGAAA-TTACAAGCCTTAAACCCCTAAGCAGTAGG
* * * * * *
71904131 ATAACTGGCTGAAGATTTACAGATCTTAGCCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATG
63 GTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGAT-AAAAATTAAG
71904196 GGCT
127 GGCT
* *
71904200 TTAACCCCCTAAGCAGTAGGGTAACAAG-CCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCAGTAGGG-AA-AAGACCGAAATTACAAGCCTTAAACCCCTAAGCAGTAGGG
* * * ** * *
71904264 TAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGA
64 TAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAATTA-AGG
*
71904329 TC-
128 GCT
* * * * *** *
71904331 TTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGCCTTAAACCCCTAAGTAGTAGGG
1 TTAACCCCCTAAGCAGTAGGGAAA-AGACCGAA-ATTACAAGCCTTAAACCCCTAAGCAGTAGGG
71904396 TAACAGGCTGGAA-A-TTACAAAT
64 TAACAGGCT-GAAGATTTACAAAT
71904418 TTTTTTTTCC
Statistics
Matches: 645, Mismatches: 75, Indels: 47
0.84 0.10 0.06
Matches are distributed among these distances:
129 70 0.11
130 42 0.07
131 76 0.12
132 449 0.70
133 8 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (130 bp):
TTAACCCCCTAAGCAGTAGGGAAAAGACCGAAATTACAAGCCTTAAACCCCTAAGCAGTAGGGTA
ACAGGCTGAAGATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAATTAAGGGCT
Found at i:71904382 original size:88 final size:86
Alignment explanation
Indices: 71903451--71904414 Score: 508
Period size: 87 Copynumber: 11.0 Consensus size: 86
71903441 TCGAAGATGA
* * * *
71903451 AGATCTTAACCCCCGAAGCAGTAGGGAGACAGATCGAAGATGATGGGCTTTAATCCCCTAAGCAG
1 AGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAG
* **
71903516 TAGGGTAACAAGCCAAATTTAC
65 TAGGGTAACAGGCTGAATTTAC
* * * * * *** *
71903538 A-AGCCTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACAAGCCTTAACCCCCTAAGC
1 AGA-TCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATGGGCCTTAAACCCCTAAGC
71903600 AGTAGGGTAACAGGCTGAAGATTTAC
63 AGTAGGGTAACAGGCTG-A-ATTTAC
* * *
71903626 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCCAAGATGATGGGCTTTAACCCCCTAAGCAG
1 AGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAG
* *
71903691 TAGGGTAACAAGCCGAATTTAC
65 TAGGGTAACAGGCTGAATTTAC
* * * * * ** ** *
71903713 AAACCTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAACCCCCTAAGC
1 AGATCTT-AACCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGATGGGCCTTAAACCCCTAAGC
* * *
71903777 AGTAGGGAAACA-GATCGAA--GAC
63 AGTAGGGTAACAGGCT-GAATTTAC
* * * * * * * ** *
71903799 GAAGGGTCTTAAACCCGTAATCGGTAGGGTAACAGACCGAA-TTGCA--GATCTT-ATCTCCCTA
1 --A-GATCTT-AACCCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATGGGCCTTAAAC-CCCTA
* * ** **
71903860 AGCAGTAGGGAAACA-GATCGAAGATGG
60 AGCAGTAGGGTAACAGGCT-GAATTTAC
* ** *
71903887 AGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGTTTTAACCCCCTAAGCAG
1 AGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAG
* **
71903952 TAGGGTAACAAGCCAAATTTAC
65 TAGGGTAACAGGCTGAATTTAC
* * * * ** ** *
71903974 A-AGCCTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGACTTACAGATCTTAACCCCCTAAG
1 AGA-TCTTAA-CCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGATGGGCCTTAAACCCCTAAG
* * * **
71904037 CAGTAGGGAAACA-GATCAAAGATA-
62 CAGTAGGGTAACAGGCT-GAATTTAC
** * * * * ***
71904061 ATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACAAGCCTTAAACCCCTAAG
1 A-GATC-TTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATGGGCCTTAAACCCCTAAG
* *
71904124 CAGTAGGATAACTGGCTGAAGATTTAC
62 CAGTAGGGTAACAGGCTG-A-ATTTAC
* ** * * *
71904151 AGATCTTAGCCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAG
1 AGATCTTA-ACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAG
* *
71904216 TAGGGTAACAAGCCGAATTTAC
65 TAGGGTAACAGGCTGAATTTAC
* * * * * ***** * *
71904238 AAACCTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAATCTTAACCCCCTAACC
1 AGATCTT-AACCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGATGGGCCTTAAACCCCTAAGC
*
71904302 AGTAGGGTAACAGGTTGAATTTAC
63 AGTAGGGTAACAGGCTGAATTTAC
* * *
71904326 AGATCTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGCCTTAAACCCCTAAGTAG
1 AGATCTTAACCCC-TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAG
*
71904391 TAGGGTAACAGGCTGGAAATTAC
65 TAGGGTAACAGGCT-GAATTTAC
71904414 A
1 A
71904415 AATTTTTTTT
Statistics
Matches: 677, Mismatches: 154, Indels: 91
0.73 0.17 0.10
Matches are distributed among these distances:
84 2 0.00
85 31 0.05
86 77 0.11
87 223 0.33
88 206 0.30
89 134 0.20
90 4 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (86 bp):
AGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAGT
AGGGTAACAGGCTGAATTTAC
Found at i:71904536 original size:68 final size:68
Alignment explanation
Indices: 71904427--71904614 Score: 297
Period size: 68 Copynumber: 2.8 Consensus size: 68
71904417 TTTTTTTTTC
* * *
71904427 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AGGATCTTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCA-AACCTCT
71904491 TCTT
65 TCTT
* *
71904495 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCAAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
71904560 CTT
66 CTT
* *
71904563 CCAGAAATGGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTT
71904615 GAGTGGAAGA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
68 109 0.99
69 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (68 bp):
CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
CTT
Found at i:71905758 original size:18 final size:19
Alignment explanation
Indices: 71905722--71905778 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
71905712 ACTATTACTA
*
71905722 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
71905742 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
71905759 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
71905777 TT
1 TT
71905779 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:71905877 original size:12 final size:12
Alignment explanation
Indices: 71905860--71905889 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
71905850 GTATTTCTAT
71905860 TATATACATATA
1 TATATACATATA
*
71905872 TATATACATTTA
1 TATATACATATA
71905884 TATATA
1 TATATA
71905890 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:71911864 original size:21 final size:21
Alignment explanation
Indices: 71911840--71911883 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
71911830 TTCAGTTTTA
71911840 CTGTATTTATCTTTTATAAGT
1 CTGTATTTATCTTTTATAAGT
71911861 CTGTATTTATCTTTTATAAGT
1 CTGTATTTATCTTTTATAAGT
71911882 CT
1 CT
71911884 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (21 bp):
CTGTATTTATCTTTTATAAGT
Found at i:71913799 original size:14 final size:13
Alignment explanation
Indices: 71913780--71913809 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
71913770 CCAGAAAAGC
71913780 AAATCATTTTCCAG
1 AAATCATTTTCC-G
71913794 AAATCATTTTCCG
1 AAATCATTTTCCG
71913807 AAA
1 AAA
71913810 AACATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:71917921 original size:28 final size:28
Alignment explanation
Indices: 71917890--71917963 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
71917880 TCAATGCCTT
*
71917890 GCACACTATGTGCCATACTC-AATATCTC
1 GCACACTAAGTGCCATACTCGAA-ATCTC
*
71917918 GCACACTAAGTGCCACACTCGAAATCTC
1 GCACACTAAGTGCCATACTCGAAATCTC
*
71917946 GTACACTAAGTGCCATAC
1 GCACACTAAGTGCCATAC
71917964 ATAGCCGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 39 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCGAAATCTC
Found at i:71917996 original size:40 final size:40
Alignment explanation
Indices: 71917948--71918162 Score: 313
Period size: 40 Copynumber: 5.4 Consensus size: 40
71917938 GAAATCTCGT
* *
71917948 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* *
71917988 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* * *
71918028 ACACTAAGTGTCATACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* * *
71918068 ACACTAAGTGTCATATATAGCCGAAGCTATATCGAATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* * *
71918108 ACACTAAGTGCCATTTATAGCCGAAGCTATGTCGTATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
71918148 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
71918163 AATAACTGAT
Statistics
Matches: 156, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 156 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
Found at i:71918183 original size:80 final size:80
Alignment explanation
Indices: 71917948--71918162 Score: 358
Period size: 80 Copynumber: 2.7 Consensus size: 80
71917938 GAAATCTCGT
71917948 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
71918013 GCTATGTCGAATCAC
66 GCTATGTCGAATCAC
* *
71918028 ACACTAAGTGTCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGTCATATATAGCCGAA
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
*
71918093 GCTATATCGAATCAC
66 GCTATGTCGAATCAC
** * **
71918108 ACACTAAGTGCCATTTATAGCCGAAGCTATGTCGTATCGCACACTAAGTGCCATA
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATA
71918163 AATAACTGAT
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 125 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (80 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
GCTATGTCGAATCAC
Found at i:71919630 original size:7 final size:7
Alignment explanation
Indices: 71919609--71919645 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
71919599 CTTAAAATAA
71919609 ATTTA-C
1 ATTTACC
*
71919615 ATTTTCC
1 ATTTACC
71919622 ATTTACC
1 ATTTACC
71919629 ATTTACC
1 ATTTACC
71919636 ATTTACC
1 ATTTACC
71919643 ATT
1 ATT
71919646 GGTGTCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (7 bp):
ATTTACC
Found at i:71928041 original size:28 final size:28
Alignment explanation
Indices: 71928009--71928065 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
71927999 AAAACATAGA
*
71928009 GGTAGAAAGGAATAGTTTCAATTGATAT
1 GGTAGAAAGGAATAATTTCAATTGATAT
71928037 GGTAGAAAGGAATAATTTCAATTGATAT
1 GGTAGAAAGGAATAATTTCAATTGATAT
71928065 G
1 G
71928066 AAAATTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (28 bp):
GGTAGAAAGGAATAATTTCAATTGATAT
Found at i:71937319 original size:46 final size:46
Alignment explanation
Indices: 71937243--71937340 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 46
71937233 CTTCAAAGCC
*
71937243 CTTTCTTTGCTGCATATTGCGGCGAAGGAGAAGAGAAAAATGATAG
1 CTTTTTTTGCTGCATATTGCGGCGAAGGAGAAGAGAAAAATGATAG
* * *
71937289 CTTTTTTTTCTGCATATTTCGGTGAAGGAGAAGAGAAAAATGATAG
1 CTTTTTTTGCTGCATATTGCGGCGAAGGAGAAGAGAAAAATGATAG
71937335 CTTTTT
1 CTTTTT
71937341 CTTTTTGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (46 bp):
CTTTTTTTGCTGCATATTGCGGCGAAGGAGAAGAGAAAAATGATAG
Found at i:71937415 original size:39 final size:39
Alignment explanation
Indices: 71937371--71937454 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 39
71937361 AAAACTAGTC
*
71937371 AAAATTAGTGAC-CAAATTTCACTTAATTTTGACTTTTCA
1 AAAATT-GTGACTCAAATTTCACCTAATTTTGACTTTTCA
* * **
71937410 AAAATTTTGTCTCCCATTTCACCTAATTTTGACTTTTCA
1 AAAATTGTGACTCAAATTTCACCTAATTTTGACTTTTCA
*
71937449 ACAATT
1 AAAATT
71937455 TTGTCTCCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 3 0.08
39 35 0.92
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (39 bp):
AAAATTGTGACTCAAATTTCACCTAATTTTGACTTTTCA
Found at i:71937455 original size:39 final size:39
Alignment explanation
Indices: 71937386--71937465 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
71937376 TAGTGACCAA
*
71937386 ATTTCACTTAATTTTGACTTTTCAAAAATTTTGTCTCCC
1 ATTTCACCTAATTTTGACTTTTCAAAAATTTTGTCTCCC
*
71937425 ATTTCACCTAATTTTGACTTTTCAACAATTTTGTCTCCC
1 ATTTCACCTAATTTTGACTTTTCAAAAATTTTGTCTCCC
71937464 AT
1 AT
71937466 GGCCAGCCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (39 bp):
ATTTCACCTAATTTTGACTTTTCAAAAATTTTGTCTCCC
Found at i:71937456 original size:17 final size:17
Alignment explanation
Indices: 71937395--71937457 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
71937385 AATTTCACTT
*
71937395 AATTTTGACTTTTCAAA
1 AATTTTGACTTTTCAAC
* *
71937412 AATTTTGTCTCCCATTTCACC
1 AATTTTGACT----TTTCAAC
71937433 TAATTTTGACTTTTCAAC
1 -AATTTTGACTTTTCAAC
71937451 AATTTTG
1 AATTTTG
71937458 TCTCCCATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
17 16 0.44
18 6 0.17
21 5 0.14
22 9 0.25
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (17 bp):
AATTTTGACTTTTCAAC
Found at i:71937525 original size:24 final size:21
Alignment explanation
Indices: 71937493--71937562 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 21
71937483 TCAATAGCCT
71937493 AATTTCACTTTAAATACCCCC
1 AATTTCACTTTAAATACCCCC
** *
71937514 AATTCTCACACTTTAAAT-GGCCT
1 AATT-T--CACTTTAAATACCCCC
71937537 AATTTCACTTTAAATACCCCC
1 AATTTCACTTTAAATACCCCC
71937558 AATTT
1 AATTT
71937563 AAGATACAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 10 0.26
21 11 0.28
22 2 0.05
23 6 0.15
24 10 0.26
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.36
Consensus pattern (21 bp):
AATTTCACTTTAAATACCCCC
Found at i:71937537 original size:44 final size:44
Alignment explanation
Indices: 71937475--71937561 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
71937465 TGGCCAGCCA
*
71937475 TCACACATTCAATAGCCTAATTTCACTTTAAATACCCCCAATTC
1 TCACACATTAAATAGCCTAATTTCACTTTAAATACCCCCAATTC
* *
71937519 TCACACTTTAAATGGCCTAATTTCACTTTAAATACCCCCAATT
1 TCACACATTAAATAGCCTAATTTCACTTTAAATACCCCCAATT
71937562 TAAGATACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (44 bp):
TCACACATTAAATAGCCTAATTTCACTTTAAATACCCCCAATTC
Found at i:71937547 original size:20 final size:21
Alignment explanation
Indices: 71937485--71937562 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 21
71937475 TCACACATTC
71937485 AATA-GCCTAATTTCACTTTA
1 AATACGCCTAATTTCACTTTA
* *
71937505 AATACCCCCAATTCTCACACTTTA
1 AATACGCCTAATT-T--CACTTTA
*
71937529 AAT-GGCCTAATTTCACTTTA
1 AATACGCCTAATTTCACTTTA
* *
71937549 AATACCCCCAATTT
1 AATACGCCTAATTT
71937563 AAGATACAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
20 14 0.31
21 13 0.29
22 2 0.04
23 6 0.13
24 10 0.22
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (21 bp):
AATACGCCTAATTTCACTTTA
Found at i:71940957 original size:6 final size:6
Alignment explanation
Indices: 71940927--71940965 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
71940917 TCCAACAACC
* *
71940927 AAAATA GAAAATA AAAGTC AAAATA AAAATA AAAATA AA
1 AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AA
71940966 TAGTTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:71952389 original size:61 final size:62
Alignment explanation
Indices: 71952250--71952392 Score: 207
Period size: 62 Copynumber: 2.3 Consensus size: 62
71952240 TTAAATCACA
* * * *
71952250 AACAGTGAGTCATATGACCTGGACACACGCCCGTGTCTCTGGCCCATGTGGTCTTTAATAGT
1 AACAGTGAGTCACACGACCTGGACACACGCCCGTGTCTCTGGCCCATGTGGTCTCTAATAGC
** * *
71952312 AGTAGTGAGTCACACGACCTGGACACACGCCTGTGTCTCTGG-CCGTGTGGTCTCTAATAGC
1 AACAGTGAGTCACACGACCTGGACACACGCCCGTGTCTCTGGCCCATGTGGTCTCTAATAGC
71952373 AACAGTGAGTCACACGACCT
1 AACAGTGAGTCACACGACCT
71952393 ACCACATGGC
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
61 34 0.48
62 37 0.52
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.24
Consensus pattern (62 bp):
AACAGTGAGTCACACGACCTGGACACACGCCCGTGTCTCTGGCCCATGTGGTCTCTAATAGC
Found at i:71952963 original size:13 final size:13
Alignment explanation
Indices: 71952945--71952974 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
71952935 AATTAAGAAC
*
71952945 GAAGAAAAATAAG
1 GAAGAAAAAAAAG
71952958 GAAGAAAAAAAAG
1 GAAGAAAAAAAAG
71952971 GAAG
1 GAAG
71952975 GAGAATGGAA
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:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (13 bp):
GAAGAAAAAAAAG
Found at i:71952974 original size:26 final size:25
Alignment explanation
Indices: 71952920--71952974 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
71952910 CGTAATCAAA
*
71952920 AAGAAAAATAAAAGAAATTAAGAACG
1 AAGAAAAATAAAAGAAA-TAAAAACG
*
71952946 AAGAAAAATAAGGAAGAAA-AAAAAGG
1 AAGAAAAATAA--AAGAAATAAAAACG
71952972 AAG
1 AAG
71952975 GAGAATGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 19 0.76
28 6 0.24
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (25 bp):
AAGAAAAATAAAAGAAATAAAAACG
Found at i:71962129 original size:29 final size:31
Alignment explanation
Indices: 71962053--71962111 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
71962043 ACTCAAGTGT
71962053 GAGTGTCAAATGTGATTATGTGCCCAACCAA
1 GAGTGTCAAATGTGATTATGTGCCCAACCAA
71962084 GAGTGTCAAATGTGATTATGTGCCCAAC
1 GAGTGTCAAATGTGATTATGTGCCCAAC
71962112 TAAATGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
GAGTGTCAAATGTGATTATGTGCCCAACCAA
Found at i:71972320 original size:33 final size:33
Alignment explanation
Indices: 71972278--71972368 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 33
71972268 TTTCTTCTTG
*
71972278 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
71972311 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
71972344 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
71972369 TGAAACAGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.30, C:0.43, G:0.10, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:71974361 original size:21 final size:21
Alignment explanation
Indices: 71974335--71974376 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
71974325 AGAGTTAGTT
71974335 TGTTTCCTAGTATAGAGTTTC
1 TGTTTCCTAGTATAGAGTTTC
71974356 TGTTTCCTAGTATAGAGTTTC
1 TGTTTCCTAGTATAGAGTTTC
71974377 CTAAGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (21 bp):
TGTTTCCTAGTATAGAGTTTC
Found at i:71977568 original size:12 final size:12
Alignment explanation
Indices: 71977551--71977607 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
71977541 CACGAACAAG
71977551 CTCGTTTATTGA
1 CTCGTTTATTGA
*
71977563 CTCGTTTA-TAA
1 CTCGTTTATTGA
* *
71977574 GCTTGCTTATTGA
1 -CTCGTTTATTGA
71977587 CTCGTTTA-TGA
1 CTCGTTTATTGA
*
71977598 CTCATTTATT
1 CTCGTTTATT
71977608 TATTAATGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 12 0.34
12 21 0.60
13 2 0.06
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (12 bp):
CTCGTTTATTGA
Found at i:71977696 original size:45 final size:45
Alignment explanation
Indices: 71977632--71977752 Score: 242
Period size: 45 Copynumber: 2.7 Consensus size: 45
71977622 TCTTATAAAA
71977632 TTCCATTAGTATATATTAATAAAATTATCTTAAACTCGTTTATTG
1 TTCCATTAGTATATATTAATAAAATTATCTTAAACTCGTTTATTG
71977677 TTCCATTAGTATATATTAATAAAATTATCTTAAACTCGTTTATTG
1 TTCCATTAGTATATATTAATAAAATTATCTTAAACTCGTTTATTG
71977722 TTCCATTAGTATATATTAATAAAATTATCTT
1 TTCCATTAGTATATATTAATAAAATTATCTT
71977753 GGTTTGTATT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (45 bp):
TTCCATTAGTATATATTAATAAAATTATCTTAAACTCGTTTATTG
Found at i:71977950 original size:23 final size:23
Alignment explanation
Indices: 71977907--71977951 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71977897 ATATGTTCAC
* *
71977907 GAACATGTTCGATTAATTTAAAT
1 GAACATGTTCGATGAAATTAAAT
71977930 GAACATGTTCG-TGAACATTAAA
1 GAACATGTTCGATGAA-ATTAAA
71977952 CAAACAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (23 bp):
GAACATGTTCGATGAAATTAAAT
Found at i:71979023 original size:7 final size:8
Alignment explanation
Indices: 71979009--71979042 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
71978999 CTATCATCCT
71979009 TAAAAAAA
1 TAAAAAAA
71979017 TAAAAAAA
1 TAAAAAAA
71979025 TAAAAAAAA
1 T-AAAAAAA
71979034 TAAAAAAA
1 TAAAAAAA
71979042 T
1 T
71979043 CCCTATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:71979024 original size:9 final size:9
Alignment explanation
Indices: 71979010--71979041 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
71979000 TATCATCCTT
71979010 AAAAAAAT-
1 AAAAAAATA
71979018 AAAAAAATA
1 AAAAAAATA
71979027 AAAAAAATA
1 AAAAAAATA
71979036 AAAAAA
1 AAAAAA
71979042 TCCCTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAATA
Found at i:71979032 original size:17 final size:17
Alignment explanation
Indices: 71979010--71979042 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
71979000 TATCATCCTT
71979010 AAAAAAATAAAAAAATA
1 AAAAAAATAAAAAAATA
71979027 AAAAAAATAAAAAAAT
1 AAAAAAATAAAAAAAT
71979043 CCCTATATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAAATAAAAAAATA
Found at i:71991249 original size:40 final size:41
Alignment explanation
Indices: 71991203--71991322 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 41
71991193 TGTAAAACAT
71991203 AGAGCAATAGCGGCG-TTTTACCAAAAACACCGCTAAAA-AC
1 AGAGCAATAGCGGCGCTTTT-CCAAAAACACCGCTAAAAGAC
* * ***
71991243 TGAGCAATTGCGGCGCTTTTGGTAAAACACCGCTAAAAGAC
1 AGAGCAATAGCGGCGCTTTTCCAAAAACACCGCTAAAAGAC
* *** *
71991284 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAG
1 AGAGCAATAGCGGCGCTTTTCCAAAAACACCGCTAAAAG
71991323 TCATATAACT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 28 0.41
41 41 0.59
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (41 bp):
AGAGCAATAGCGGCGCTTTTCCAAAAACACCGCTAAAAGAC
Found at i:71991301 original size:41 final size:41
Alignment explanation
Indices: 71991226--71991322 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
71991216 CGTTTTACCA
*
71991226 AAAACACCGCTAAAA-ACTGAGCAATTGCGGCGCTTTTGGT
1 AAAACACCGCTAAAAGACAGAGCAATTGCGGCGCTTTTGGT
71991266 AAAACACCGCTAAAAGACAGAGC-ATTAGCGGCGCTTTTGGT
1 AAAACACCGCTAAAAGACAGAGCAATT-GCGGCGCTTTTGGT
*
71991307 AAAACGCCGCTAAAAG
1 AAAACACCGCTAAAAG
71991323 TCATATAACT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
40 18 0.34
41 35 0.66
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACACCGCTAAAAGACAGAGCAATTGCGGCGCTTTTGGT
Found at i:71991966 original size:24 final size:24
Alignment explanation
Indices: 71991939--71991987 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
71991929 CGTATATTTA
*
71991939 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
71991963 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
71991987 T
1 T
71991988 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:71992325 original size:7 final size:7
Alignment explanation
Indices: 71992266--71992326 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
71992256 GAGTTACTAT
*
71992266 TTTAAGG
1 TTTATGG
71992273 TTTATGG
1 TTTATGG
*
71992280 ATTATGG
1 TTTATGG
*
71992287 ATTATGGG
1 TTTAT-GG
71992295 TTTATGG
1 TTTATGG
*
71992302 ATTATGG
1 TTTATGG
**
71992309 TTTACAG
1 TTTATGG
71992316 TTTATGG
1 TTTATGG
71992323 TTTA
1 TTTA
71992327 AGGGTTGGGG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:71992339 original size:21 final size:21
Alignment explanation
Indices: 71992317--71992397 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
71992307 GGTTTACAGT
71992317 TTATGGTTTAAGGGTT-GGGG
1 TTATGGTTTAAGGGTTAGGGG
* *
71992337 TTTAAGG-TTCAGGTGTTAGGGG
1 -TTATGGTTTAAGG-GTTAGGGG
* * **
71992359 TTATGGGTTAGGGGTTCTGGG
1 TTATGGTTTAAGGGTTAGGGG
71992380 TTATGGATTTAAGGGTTA
1 TTATGG-TTTAAGGGTTA
71992398 TGTTGTATGA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
20 5 0.11
21 25 0.54
22 16 0.35
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.40
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTAGGGG
Found at i:71992370 original size:14 final size:14
Alignment explanation
Indices: 71992351--71992382 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
71992341 AGGTTCAGGT
71992351 GTTAGGGGTTATGG
1 GTTAGGGGTTATGG
*
71992365 GTTAGGGGTTCTGG
1 GTTAGGGGTTATGG
71992379 GTTA
1 GTTA
71992383 TGGATTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.47, T:0.38
Consensus pattern (14 bp):
GTTAGGGGTTATGG
Found at i:71992558 original size:14 final size:14
Alignment explanation
Indices: 71992539--71992605 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
71992529 GTTTGCATGT
*
71992539 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
71992553 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* *
71992567 AAAATAATTTCTTGA
1 AAAATGATTTC-TGG
71992582 AAAATGATTTCTGG
1 AAAATGATTTCTGG
71992596 AAAATGATTT
1 AAAATGATTT
71992606 ACTTTTCTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:71993176 original size:22 final size:22
Alignment explanation
Indices: 71993129--71993203 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 22
71993119 CTAATTATTT
* * *
71993129 TAAATATTACTTAAATTTAA-A
1 TAAAAATTATTTAAAATTAATA
*
71993150 AAAAAATTATTTAAAATTAATA
1 TAAAAATTATTTAAAATTAATA
*
71993172 TAAAAGA-TA-TAAAAATTCAATA
1 TAAAA-ATTATTTAAAATT-AATA
71993194 TAAAAATTAT
1 TAAAAATTAT
71993204 AAAAAAGTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 24 0.56
22 18 0.42
23 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (22 bp):
TAAAAATTATTTAAAATTAATA
Found at i:71993204 original size:22 final size:21
Alignment explanation
Indices: 71993151--71993208 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
71993141 AAATTTAAAA
*
71993151 AAAAATTATTTAAAATTAATAT
1 AAAAATTA-TAAAAATTAATAT
71993173 AAAAGA-TATAAAAATTCAATAT
1 AAAA-ATTATAAAAATT-AATAT
71993195 AAAAATTATAAAAA
1 AAAAATTATAAAAA
71993209 AGTCAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.25
22 23 0.72
23 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATTATAAAAATTAATAT
Found at i:71993250 original size:40 final size:40
Alignment explanation
Indices: 71993206--71993327 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 40
71993196 AAAATTATAA
*
71993206 AAAAGTCAA-AAATTAGCGGCGTTTATGATAAAAACGCCGC
1 AAAAGTCAAGCAA-TAGCGGCGTTTATGATAAAAACGCCGC
* * *
71993246 AAAAGACAAGCAATAGCGGCATTTAT-AT-AAAACGCTGC
1 AAAAGTCAAGCAATAGCGGCGTTTATGATAAAAACGCCGC
*
71993284 AAAAGAT-AATCAATAGCGGCGTTTATGATAAAAACGCCGC
1 AAAAG-TCAAGCAATAGCGGCGTTTATGATAAAAACGCCGC
71993324 AAAA
1 AAAA
71993328 AGTAATTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
38 31 0.44
39 4 0.06
40 33 0.47
41 2 0.03
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (40 bp):
AAAAGTCAAGCAATAGCGGCGTTTATGATAAAAACGCCGC
Found at i:71993287 original size:38 final size:40
Alignment explanation
Indices: 71993219--71993327 Score: 168
Period size: 38 Copynumber: 2.8 Consensus size: 40
71993209 AGTCAAAAAT
71993219 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
* * * *
71993259 TAGCGGCATTTAT-AT-AAAACGCTGCAAAAGATAATCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
71993297 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
71993328 AGTAATTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 32 0.52
39 4 0.07
40 25 0.41
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.19
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
Found at i:71993623 original size:35 final size:34
Alignment explanation
Indices: 71993541--71993624 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
71993531 TGACTAAGCC
* *
71993541 ATTTGCCTAAATCATAGTTCCCCCGAAACCCTCA
1 ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
* *
71993575 TTTTCTCCCAAATCATAGTTCCCCCAAAACCC-CAAA
1 ATTTC-CCTAAATCATAGTTCCCCCAAAACCCTC--A
71993611 ATTTCCCTAAATCA
1 ATTTCCCTAAATCA
71993625 AACCCATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
34 4 0.10
35 32 0.78
36 5 0.12
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.27
Consensus pattern (34 bp):
ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
Found at i:71997094 original size:69 final size:67
Alignment explanation
Indices: 71997015--71997146 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 67
71997005 TTCGAATAAG
** * *
71997015 AAAAGGCAAAACTACATTGTTTTGATAAATGTTTAC-CTTTCTAAAGTTAAAAGTCAAAACCATT
1 AAAAGGCAAAACTACATCATTTTGATAAATGTTTACTC-AT-TAAA-TTAAAAGGCAAAACCATT
71997079 AAGTT
63 AAGTT
* *
71997084 AAAAGGCAAAATTACGTCATTTTGATAAATGTTTACTCATTAAATTAAAAGGCAAAACCATTA
1 AAAAGGCAAAACTACATCATTTTGATAAATGTTTACTCATTAAATTAAAAGGCAAAACCATTA
71997147 TATTGTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 18 0.32
68 4 0.07
69 33 0.59
70 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (67 bp):
AAAAGGCAAAACTACATCATTTTGATAAATGTTTACTCATTAAATTAAAAGGCAAAACCATTAAG
TT
Found at i:72005408 original size:23 final size:23
Alignment explanation
Indices: 72005369--72005435 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
72005359 CTTTTTCTTT
*
72005369 TGTTTTATTTTA-T-TTATTTTA
1 TGTTTTATATTATTATTATTTTA
*
72005390 TGTTTTATATTATTATTATATTA
1 TGTTTTATATTATTATTATTTTA
* *
72005413 TATTTTAGTAATAATTATTATTT
1 TGTTTTA-T-ATTATTATTATTT
72005436 ACTTAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 11 0.30
22 1 0.03
23 13 0.35
24 1 0.03
25 11 0.30
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
TGTTTTATATTATTATTATTTTA
Found at i:72011383 original size:37 final size:36
Alignment explanation
Indices: 72011363--72011435 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 36
72011353 AAATATTTAA
72011363 CATAGAACCACCAGACAGTGTACTTTAGTATCATTCT
1 CATAGAACCACCAGACAGTGTAC-TTAGTATCATTCT
* *
72011400 CATAGAACCGCCAGACAGTGTACTTTGCTATCATTC
1 CATAGAACCACCAGACAGTGTACTTAG-TATCATTC
72011436 AAAATCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (36 bp):
CATAGAACCACCAGACAGTGTACTTAGTATCATTCT
Found at i:72013452 original size:40 final size:40
Alignment explanation
Indices: 72013391--72013469 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
72013381 CAATACTTTA
* * *
72013391 TGGTGTGTAGGGTTAGATGGGTCGATTTTATCCCCATATT
1 TGGTGTGCAGGGATAGATGGGTCAATTTTATCCCCATATT
*
72013431 TGGTGTGCAGGGATAGGTGGGTCAATTTTATCCCCATAT
1 TGGTGTGCAGGGATAGATGGGTCAATTTTATCCCCATAT
72013470 GGTGTGTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (40 bp):
TGGTGTGCAGGGATAGATGGGTCAATTTTATCCCCATATT
Found at i:72015302 original size:15 final size:15
Alignment explanation
Indices: 72015282--72015313 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
72015272 CCGATTTTTC
72015282 ATTTCTTGATCTTTA
1 ATTTCTTGATCTTTA
72015297 ATTTCTTGATCTTTA
1 ATTTCTTGATCTTTA
72015312 AT
1 AT
72015314 CGAACTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTTCTTGATCTTTA
Found at i:72018342 original size:10 final size:10
Alignment explanation
Indices: 72018315--72018353 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
72018305 TTAAATTCTA
72018315 AAAGATAAAT
1 AAAGATAAAT
72018325 ACAA-ATAAAT
1 A-AAGATAAAT
*
72018335 AAGGATAAAT
1 AAAGATAAAT
72018345 AAAGATAAA
1 AAAGATAAA
72018354 AGCTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 1 0.04
10 22 0.88
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:72020315 original size:4 final size:4
Alignment explanation
Indices: 72020299--72020359 Score: 51
Period size: 4 Copynumber: 15.8 Consensus size: 4
72020289 TATCCAAACA
72020299 AAAT AAAGT -AAT AAAT -AAT AAAAT AAAAT AAAT -AAT AAAT AAAT -AAT
1 AAAT AAA-T AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
*
72020346 AAAT TAA- AAAT AAA
1 AAAT AAAT AAAT AAA
72020360 GAAAAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
3 12 0.25
4 27 0.56
5 9 0.19
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:72020339 original size:28 final size:28
Alignment explanation
Indices: 72020308--72020369 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
72020298 AAAATAAAGT
*
72020308 AATAAATAATAAAAT-AAAATAAATAATA
1 AATAAATAATAAAATAAAAATAAAGAA-A
*
72020336 AATAAATAATAAATTAAAAATAAAGAAA
1 AATAAATAATAAAATAAAAATAAAGAAA
72020364 AATAAA
1 AATAAA
72020370 AATTGGGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (28 bp):
AATAAATAATAAAATAAAAATAAAGAAA
Found at i:72020340 original size:11 final size:11
Alignment explanation
Indices: 72020299--72020369 Score: 74
Period size: 11 Copynumber: 6.3 Consensus size: 11
72020289 TATCCAAACA
72020299 AAATAAAGTAAT
1 AAATAAA-TAAT
*
72020311 AAATAATAAAAT
1 AAATAA-ATAAT
72020323 AAAATAAATAAT
1 -AAATAAATAAT
72020335 AAATAAATAAT
1 AAATAAATAAT
72020346 AAATTAAA-AAT
1 AAA-TAAATAAT
*
72020357 AAAGAAA-AAT
1 AAATAAATAAT
72020367 AAA
1 AAA
72020370 AATTGGGTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
10 9 0.17
11 20 0.38
12 17 0.32
13 7 0.13
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:72025482 original size:46 final size:46
Alignment explanation
Indices: 72025430--72025657 Score: 359
Period size: 46 Copynumber: 5.0 Consensus size: 46
72025420 AGTGTGCTCT
72025430 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
72025476 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
72025522 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
72025568 ATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
72025614 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
72025658 TCATGTCAAA
Statistics
Matches: 173, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 1 0.01
46 172 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:72032319 original size:4 final size:4
Alignment explanation
Indices: 72032310--72032359 Score: 100
Period size: 4 Copynumber: 12.5 Consensus size: 4
72032300 ATACTAGTGT
72032310 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
72032358 TA
1 TA
72032360 CCCATTCTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:72038279 original size:18 final size:17
Alignment explanation
Indices: 72038246--72038280 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
72038236 ATTATTAAGA
*
72038246 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
72038263 ATTTTAGTTAAAATATAT
1 ATTTTA-TTAAAATATAT
72038281 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:72038491 original size:44 final size:45
Alignment explanation
Indices: 72038442--72038536 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
72038432 TTACACCTCT
* *
72038442 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
72038486 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
72038531 ATTACA
1 ATTACA
72038537 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:72038564 original size:16 final size:16
Alignment explanation
Indices: 72038517--72038566 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
72038507 GATTTGCTAT
* *
72038517 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
72038533 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
72038549 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
72038565 TA
1 TA
72038567 TAGCGAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:72040877 original size:20 final size:19
Alignment explanation
Indices: 72040849--72040934 Score: 66
Period size: 20 Copynumber: 4.4 Consensus size: 19
72040839 TTTTAAGAGA
*
72040849 TAATAATAATTTTAACATAT
1 TAATGATAATTTTAA-ATAT
*
72040869 TTATGATAATTTTAAATAT
1 TAATGATAATTTTAAATAT
* *
72040888 TAAATTATAATTTTAAGAGA-
1 T-AATGATAATTTTAA-ATAT
* *
72040908 TAATAATAAATTTAATATAT
1 TAATGATAATTTTAA-ATAT
*
72040928 TTATGAT
1 TAATGAT
72040935 TTTAATAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
19 19 0.37
20 31 0.60
21 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (19 bp):
TAATGATAATTTTAAATAT
Found at i:72042889 original size:12 final size:12
Alignment explanation
Indices: 72042872--72042896 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72042862 CTCCAGCATT
72042872 CAACAATGGTAA
1 CAACAATGGTAA
72042884 CAACAATGGTAA
1 CAACAATGGTAA
72042896 C
1 C
72042897 TTTATGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (12 bp):
CAACAATGGTAA
Found at i:72043583 original size:18 final size:20
Alignment explanation
Indices: 72043543--72043583 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
72043533 TTTATGTGTT
*
72043543 GTGAGTGTTGAAAAAAATTA
1 GTGAGTGTTGAAAAAAATAA
72043563 GTGAGT-TTGAAAAAAA-AA
1 GTGAGTGTTGAAAAAAATAA
72043581 GTG
1 GTG
72043584 TTGTGAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (20 bp):
GTGAGTGTTGAAAAAAATAA
Found at i:72048152 original size:35 final size:35
Alignment explanation
Indices: 72048113--72048182 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
72048103 ATATACTTAA
72048113 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
1 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
72048148 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
1 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
72048183 TATATATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (35 bp):
GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
Found at i:72050591 original size:19 final size:19
Alignment explanation
Indices: 72050550--72050598 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
72050540 TAAGACAAAA
72050550 AAAT-TTAAATATCAAATC
1 AAATATTAAATATCAAATC
*
72050568 GAATATTAAA-ATCAAACTC
1 AAATATTAAATATCAAA-TC
*
72050587 AAATACTAAATA
1 AAATATTAAATA
72050599 GTATATTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 9 0.36
19 15 0.60
20 1 0.04
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATATTAAATATCAAATC
Found at i:72054263 original size:23 final size:23
Alignment explanation
Indices: 72054237--72054282 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
72054227 AAATTTAAAT
*
72054237 TTTGAGTTAATCGAATCAAGTTA
1 TTTGAATTAATCGAATCAAGTTA
* * *
72054260 TTTGAATTATTCGATTCGAGTTA
1 TTTGAATTAATCGAATCAAGTTA
72054283 AATTTTACGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (23 bp):
TTTGAATTAATCGAATCAAGTTA
Found at i:72062395 original size:23 final size:23
Alignment explanation
Indices: 72062362--72062409 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
72062352 AGATAGCCAT
* *
72062362 ATATCGAAAAGTTCAAGCGAGCC
1 ATATCGAAAAGCTCAAGAGAGCC
* *
72062385 ATATCGGAAAGCTCCAGAGAGCC
1 ATATCGAAAAGCTCAAGAGAGCC
72062408 AT
1 AT
72062410 TAATTAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (23 bp):
ATATCGAAAAGCTCAAGAGAGCC
Found at i:72067198 original size:25 final size:24
Alignment explanation
Indices: 72067152--72067199 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
72067142 AAATGATTAA
* * *
72067152 AAATAGATTTCAAAAGAGAACATC
1 AAATAGAGTTCAAAACAAAACATC
72067176 AAATAGCAGTTCAAAACAAAACAT
1 AAATAG-AGTTCAAAACAAAACAT
72067200 ACTTACAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.19
Consensus pattern (24 bp):
AAATAGAGTTCAAAACAAAACATC
Found at i:72070984 original size:27 final size:28
Alignment explanation
Indices: 72070949--72071004 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
72070939 TGGCTGCTAG
72070949 AACAGATA-TTGTGACAGAGCCACCAGA
1 AACAGATATTTGTGACAGAGCCACCAGA
*
72070976 AACAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATATTTGTGACAGAGCCACCAGA
72071004 A
1 A
72071005 TGCTTCCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (28 bp):
AACAGATATTTGTGACAGAGCCACCAGA
Found at i:72086664 original size:45 final size:45
Alignment explanation
Indices: 72086614--72086703 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
72086604 TAATTTGTTG
*
72086614 TAAATGAGCAAGGTCAAAGGGTT-AAATTTTTTGAAAGAATTTTGT
1 TAAATGAGCAAGGTCAAAGAGTTAAAATTTTTT-AAAGAATTTTGT
* *
72086659 TAAATGAGCAAGGTGACAGAGTTAAAATTTTTTAAAGAATTTTGT
1 TAAATGAGCAAGGTCAAAGAGTTAAAATTTTTTAAAGAATTTTGT
72086704 ATGATCAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 32 0.78
46 9 0.22
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (45 bp):
TAAATGAGCAAGGTCAAAGAGTTAAAATTTTTTAAAGAATTTTGT
Found at i:72086881 original size:20 final size:20
Alignment explanation
Indices: 72086843--72086881 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
72086833 TTATTTATTT
72086843 AATTAAATAATAATCTAAAGA
1 AATTAAATAAT-ATCTAAAGA
72086864 AATTAAATTAAT-TCTAAA
1 AATTAAA-TAATATCTAAA
72086882 TTATCTCGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AATTAAATAATATCTAAAGA
Found at i:72089840 original size:223 final size:224
Alignment explanation
Indices: 72089447--72089860 Score: 584
Period size: 223 Copynumber: 1.9 Consensus size: 224
72089437 AGAAAAAAAA
* * ***
72089447 GGCTTTTTTACTAAATTGACTCAAAAAAATTTTATATTTATAAAAATGATTTAGGTTCAAAAACA
1 GGCTATTTTACTAAATTGACTCAAAAAAATTTTATATTTACAAAAATGACCCAGGTTCAAAAACA
* * * * * *
72089512 ATCACTAAAATTACCTGAAATAAATAGTAGAATAGGGTTTTAGCTTGTCAATGACCGGCACCAAT
66 ATCACCAAAATGACCTGAAATAAACAGTAGAATAGGGTTTTAGCCTGTCAATGACCAGCACCAAC
* * *
72089577 TCGTATTTTGGACCTCTGATTGTCTGATAATTGTGTCAGGCTTT-AAAAATTGTTTTTTTTTTGC
131 TCGTATTTTGGACCTCTGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTTTTGC
72089641 TGTCAATGGCCGACATCAGGGTATTTTTT
196 TGTCAATGGCCGACATCAGGGTATTTTTT
* *
72089670 GGCTATTTTACTAAATTGAC-CCAAAAAATTTTGATATTTACAAAAATTACCCAGGTTCAAAAAC
1 GGCTATTTTACTAAATTGACTCAAAAAAATTTT-ATATTTACAAAAATGACCCAGGTTCAAAAAC
* * * * *
72089734 AATCACCAGAATGACCTGAAATGAACAGTAGAATGGGGTTTTGGCCTGT-AAGTGGCCAGCACCA
65 AATCACCAAAATGACCTGAAATAAACAGTAGAATAGGGTTTTAGCCTGTCAA-TGACCAGCACCA
72089798 ACTCGTATTTTGGACC-CATGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTT
129 ACTCGTATTTTGGACCTC-TGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTT
72089861 GGTTCTGGCC
Statistics
Matches: 166, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
222 14 0.08
223 137 0.83
224 15 0.09
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (224 bp):
GGCTATTTTACTAAATTGACTCAAAAAAATTTTATATTTACAAAAATGACCCAGGTTCAAAAACA
ATCACCAAAATGACCTGAAATAAACAGTAGAATAGGGTTTTAGCCTGTCAATGACCAGCACCAAC
TCGTATTTTGGACCTCTGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTTTTGC
TGTCAATGGCCGACATCAGGGTATTTTTT
Found at i:72090019 original size:54 final size:54
Alignment explanation
Indices: 72089943--72090138 Score: 249
Period size: 54 Copynumber: 3.7 Consensus size: 54
72089933 ACCAGTATTT
* * *
72089943 AAAAAAAATTGGTTCTGCCCTGTCAATGGCCGGCACCAGAATACGTGTTTTTAA
1 AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAGAATACGAGTTTTTAA
* * *
72089997 AAAAAAAATTGGTACTGGCCTGTCAATGGCCGGCACCA-AAGTACAAG-TTTT--
1 AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAGAA-TACGAGTTTTTAA
* * * *
72090048 AAAAAAAATTGGTTCTGGCCTATCAATTGCTGGAACCAGAGTACGAGTTTTTAA
1 AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAGAATACGAGTTTTTAA
*
72090102 AAAAAAAATT-GTGCTGGCCTATCAATGGCCGGCACCA
1 AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCA
72090139 AGTAAAAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
51 38 0.31
52 5 0.04
53 29 0.24
54 50 0.41
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAGAATACGAGTTTTTAA
Found at i:72090055 original size:105 final size:104
Alignment explanation
Indices: 72089940--72090139 Score: 310
Period size: 105 Copynumber: 1.9 Consensus size: 104
72089930 AATACCAGTA
* * *
72089940 TTTAAAAAAAATTGGTTCTGCCCTGTCAATGGCCGGCACCAGAATACGTGTTTTTAAAAAAAAAA
1 TTTAAAAAAAATTGGTTCTGCCCTATCAATGGCCGGAACCAGAATACGAGTTTTTAAAAAAAAAA
*
72090005 TTGGTACTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
66 TT-GTACTGGCCTATCAATGGCCGGCACCAAAGTACAAGT
* * * *
72090045 TTTAAAAAAAATTGGTTCTGGCCTATCAATTGCTGGAACCAGAGTACGAGTTTTTAAAAAAAAAA
1 TTTAAAAAAAATTGGTTCTGCCCTATCAATGGCCGGAACCAGAATACGAGTTTTTAAAAAAAAAA
*
72090110 TTGTGCTGGCCTATCAATGGCCGGCACCAA
66 TTGTACTGGCCTATCAATGGCCGGCACCAA
72090140 GTAAAAAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
104 26 0.30
105 60 0.70
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (104 bp):
TTTAAAAAAAATTGGTTCTGCCCTATCAATGGCCGGAACCAGAATACGAGTTTTTAAAAAAAAAA
TTGTACTGGCCTATCAATGGCCGGCACCAAAGTACAAGT
Found at i:72090348 original size:11 final size:11
Alignment explanation
Indices: 72090325--72090423 Score: 89
Period size: 11 Copynumber: 9.3 Consensus size: 11
72090315 AATTTTCTTT
72090325 TTTCATTTT--
1 TTTCATTTTCA
72090334 TTTCATTTTCA
1 TTTCATTTTCA
*
72090345 TTTCATTTTAA
1 TTTCATTTTCA
*
72090356 TTTTA-TTTCA
1 TTTCATTTTCA
* *
72090366 TTCCAATTTCA
1 TTTCATTTTCA
*
72090377 TTTCATTTTAA
1 TTTCATTTTCA
*
72090388 TTTCATTTCCA
1 TTTCATTTTCA
* *
72090399 TTCCTATTTCCA
1 TTTC-ATTTTCA
72090411 TTTCA-TTTCA
1 TTTCATTTTCA
72090421 TTT
1 TTT
72090424 AAATTATACT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
9 9 0.12
10 14 0.19
11 40 0.55
12 10 0.14
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTCATTTTCA
Found at i:72090350 original size:5 final size:5
Alignment explanation
Indices: 72090325--72090423 Score: 74
Period size: 5 Copynumber: 18.6 Consensus size: 5
72090315 AATTTTCTTT
* * * *
72090325 TTTCA TTT-T TTTCA TTTTCA TTTCA TTTTAA TTTTA TTTCA TTCCAA
1 TTTCA TTTCA TTTCA -TTTCA TTTCA -TTTCA TTTCA TTTCA TTTC-A
* *
72090372 TTTCA TTTCA TTTTAA TTTCA TTTCCA TTCCTA TTTCCA TTTCA TTTCA
1 TTTCA TTTCA -TTTCA TTTCA TTT-CA TTTC-A TTT-CA TTTCA TTTCA
72090421 TTT
1 TTT
72090424 AAATTATACT
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
4 3 0.04
5 43 0.57
6 28 0.37
7 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:72090365 original size:16 final size:16
Alignment explanation
Indices: 72090340--72090418 Score: 88
Period size: 16 Copynumber: 4.8 Consensus size: 16
72090330 TTTTTTTCAT
72090340 TTTCATTTCATTTTAA
1 TTTCATTTCATTTTAA
* **
72090356 TTTTATTTCATTCCAA
1 TTTCATTTCATTTTAA
72090372 TTTCATTTCATTTTAA
1 TTTCATTTCATTTTAA
*
72090388 TTTCATTTCCATTCCT-A
1 TTTCATTT-CATT-TTAA
72090405 TTTCCATTTCATTT
1 TTT-CATTTCATTT
72090419 CATTTAAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
16 34 0.65
17 12 0.23
18 6 0.12
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTCATTTCATTTTAA
Found at i:72090457 original size:21 final size:20
Alignment explanation
Indices: 72090416--72090458 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
72090406 TTCCATTTCA
*
72090416 TTTCATTTAAATTATACTTT
1 TTTCAATTAAATTATACTTT
*
72090436 TTTCAATTAAATT-TATTTT
1 TTTCAATTAAATTATACTTT
72090455 TTTC
1 TTTC
72090459 TCAATTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCAATTAAATTATACTTT
Found at i:72090488 original size:6 final size:6
Alignment explanation
Indices: 72090477--72090504 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
72090467 TTTATATTAT
72090477 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
72090505 TTTCCTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:72090552 original size:49 final size:47
Alignment explanation
Indices: 72090413--72090556 Score: 143
Period size: 49 Copynumber: 3.0 Consensus size: 47
72090403 TATTTCCATT
*
72090413 TCATTTCATTTAAATTATACT-TTTTTCAATTAAATTT-ATTTTTTTC
1 TCATTTCATTTAAATT-TTCTATTTTTCAATTAAATTTAATTTTTTTC
* * *
72090459 TCAATTCATTTATATTATTTT-TAATTTT-AATTTTAATTTTAATTTTTTTCC
1 TCATTTCATTTA-A--ATTTTCTATTTTTCAA--TTAAATTTAATTTTTTT-C
*
72090510 TCATTTCATTTAAATTTTCTATTTTTCAATGCAAATTTAATTTTTTT
1 TCATTTCATTTAAATTTTCTATTTTTCAAT-TAAATTTAATTTTTTT
72090557 TAAATACTGA
Statistics
Matches: 79, Mismatches: 8, Indels: 19
0.75 0.08 0.18
Matches are distributed among these distances:
46 11 0.14
47 4 0.05
48 11 0.14
49 30 0.38
50 11 0.14
51 12 0.15
ACGTcount: A:0.28, C:0.10, G:0.01, T:0.62
Consensus pattern (47 bp):
TCATTTCATTTAAATTTTCTATTTTTCAATTAAATTTAATTTTTTTC
Found at i:72090755 original size:53 final size:54
Alignment explanation
Indices: 72090620--72090745 Score: 184
Period size: 53 Copynumber: 2.3 Consensus size: 54
72090610 CATACTCTTT
* *
72090620 TGCCGGCCATTGACAGGCCAATACC-AAAAAATTTGATTTTTTTTTTTGCACTTGG
1 TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGA--TTTTTTTTCGCACTTGG
*
72090675 TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGA-TTTTTTTCGTACTTGG
1 TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGATTTTTTTTCGCACTTGG
*
72090728 TGCCGGCCATTAACAGGC
1 TGCCGGCCATTGACAGGC
72090746 GAGAACCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
53 31 0.47
55 24 0.36
56 11 0.17
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (54 bp):
TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGATTTTTTTTCGCACTTGG
Found at i:72093753 original size:17 final size:17
Alignment explanation
Indices: 72093729--72093764 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
72093719 CAAGGTTTCT
*
72093729 TTTTTTTTTTCA-TTTA
1 TTTTCTTTTTCATTTTA
72093745 TTTTCTTTTTCATTTTA
1 TTTTCTTTTTCATTTTA
72093762 TTT
1 TTT
72093765 CATTCTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTTCATTTTA
Found at i:72093791 original size:6 final size:5
Alignment explanation
Indices: 72093752--72093813 Score: 70
Period size: 5 Copynumber: 11.6 Consensus size: 5
72093742 TTATTTTCTT
* *
72093752 TTTCA TTTTA TTTCA TTCTAA TTTCA TTTCCA TTCTCA TTTCCA TTTCA
1 TTTCA TTTCA TTTCA TT-TCA TTTCA TTT-CA TT-TCA TTT-CA TTTCA
72093801 TTTCA TTTCA TTT
1 TTTCA TTTCA TTT
72093814 AAATTATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 31 0.63
6 17 0.35
7 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:72093792 original size:12 final size:11
Alignment explanation
Indices: 72093772--72093813 Score: 68
Period size: 12 Copynumber: 3.8 Consensus size: 11
72093762 TTTCATTCTA
72093772 ATTTCATTTCC
1 ATTTCATTTCC
72093783 ATTCTCATTTCC
1 ATT-TCATTTCC
72093795 ATTTCATTT-C
1 ATTTCATTTCC
72093805 ATTTCATTT
1 ATTTCATTT
72093814 AAATTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.33
11 9 0.30
12 11 0.37
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTCATTTCC
Found at i:72093798 original size:23 final size:21
Alignment explanation
Indices: 72093752--72093813 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
72093742 TTATTTTCTT
* *
72093752 TTTCATTTTATTTCA-TTCTAA
1 TTTCATTTCATTTCATTTC-CA
72093773 TTTCATTTCCATTCTCATTTCCA
1 TTTCATTT-CATT-TCATTTCCA
72093796 TTTCATTTCATTTCATTT
1 TTTCATTTCATTTCATTT
72093814 AAATTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 14 0.39
22 7 0.19
23 12 0.33
24 3 0.08
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTCATTTCATTTCATTTCCA
Found at i:72093842 original size:19 final size:19
Alignment explanation
Indices: 72093806--72093846 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
72093796 TTTCATTTCA
72093806 TTTCATTTAAATTATATTT
1 TTTCATTTAAATTATATTT
72093825 TTTCAATTTAAATT-TATTT
1 TTTC-ATTTAAATTATATTT
72093844 TTT
1 TTT
72093847 TCTCAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCATTTAAATTATATTT
Found at i:72093847 original size:20 final size:20
Alignment explanation
Indices: 72093806--72093888 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 20
72093796 TTTCATTTCA
72093806 TTTC-ATTTAAA-TTATATTT
1 TTTCAATTTAAATTTAT-TTT
72093825 TTTCAATTTAAATTTATTTTT
1 TTTCAATTTAAATTTA-TTTT
* *
72093846 TTCTCAA-TTCATTTATATTATT
1 TT-TCAATTTAAATT-TATT-TT
*
72093868 TTTAAATTTAAATTTAATTTT
1 TTTCAATTTAAATTT-ATTTT
72093889 GTCCTCATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
19 4 0.08
20 7 0.14
21 21 0.41
22 19 0.37
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCAATTTAAATTTATTTT
Found at i:72094593 original size:52 final size:51
Alignment explanation
Indices: 72094410--72094655 Score: 280
Period size: 51 Copynumber: 4.8 Consensus size: 51
72094400 AATATCAGTA
* * * *
72094410 TTTAAAAAAAATTGGT-TCTGACCTGTCAATGGCTGGCACCAGAGTACGAGT
1 TTTAAAAAAAATTGGTGT-TGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
** * * * *
72094461 TTTAAAAAAAAAAGGTGTTGGCTTGTTAATGGCTGGCACCAAAGTACATGT
1 TTTAAAAAAAATTGGTGTTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
* **
72094512 TTTAAAAAAAAATGGTACTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
1 TTTAAAAAAAATTGGTGTTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
* * * * * *
72094563 TTTAAAAAAATTTTGGTGTTGGCCTATCAATTGTCGGCACCAGAGTACGAGT
1 TTTAAAAAAA-ATTGGTGTTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
*
72094615 TTTAAAAAAAATT-GTGCTGGCCTGTCAATGGCCGGCACCAA
1 TTTAAAAAAAATTGGTGTTGGCCTGTCAATGGCCGGCACCAA
72094656 GTAAAAAAAA
Statistics
Matches: 163, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
50 23 0.14
51 97 0.60
52 43 0.26
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (51 bp):
TTTAAAAAAAATTGGTGTTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
Found at i:72094850 original size:11 final size:11
Alignment explanation
Indices: 72094836--72094920 Score: 66
Period size: 11 Copynumber: 7.8 Consensus size: 11
72094826 CAAGATTTTT
72094836 TTTTCATTTCA
1 TTTTCATTTCA
* *
72094847 TTTTAATTTTA
1 TTTTCATTTCA
*
72094858 -TTTCATTCCA
1 TTTTCATTTCA
*
72094868 ATTTCATTTCA
1 TTTTCATTTCA
* *
72094879 TTCTAATTTCA
1 TTTTCATTTCA
* *
72094890 TTTCCATTCTTA
1 TTTTCATT-TCA
*
72094902 TTTCCATTTCA
1 TTTTCATTTCA
72094913 -TTTCATTT
1 TTTTCATTT
72094921 AAATTATATT
Statistics
Matches: 57, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
10 14 0.25
11 33 0.58
12 10 0.18
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCATTTCA
Found at i:72094860 original size:16 final size:16
Alignment explanation
Indices: 72094837--72094915 Score: 88
Period size: 16 Copynumber: 4.8 Consensus size: 16
72094827 AAGATTTTTT
72094837 TTTCATTTCATTTTAA
1 TTTCATTTCATTTTAA
* **
72094853 TTTTATTTCATTCCAA
1 TTTCATTTCATTTTAA
*
72094869 TTTCATTTCATTCTAA
1 TTTCATTTCATTTTAA
72094885 TTTCATTTCCATTCTT-A
1 TTTCATTT-CATT-TTAA
72094902 TTTCCATTTCATTT
1 TTT-CATTTCATTT
72094916 CATTTAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
16 36 0.67
17 12 0.22
18 6 0.11
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTCATTTCATTTTAA
Done.