Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 289 of 410
Found at i:88986931 original size:30 final size:34
Alignment explanation
Indices: 88986865--88986932 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 34
88986855 CTAAATTTTG
88986865 GAATGCGTTGATGATTTTGAAAGTTTCGATTGAT
1 GAATGCGTTGATGATTTTGAAAGTTTCGATTGAT
* *
88986899 GAATGC-TTGA-GCTTTTGAATGTTT-GA-TGAT
1 GAATGCGTTGATGATTTTGAAAGTTTCGATTGAT
88986929 GAAT
1 GAAT
88986933 AATGAAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 8 0.25
31 2 0.06
32 12 0.38
33 4 0.12
34 6 0.19
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.41
Consensus pattern (34 bp):
GAATGCGTTGATGATTTTGAAAGTTTCGATTGAT
Found at i:88990959 original size:79 final size:80
Alignment explanation
Indices: 88990816--88991023 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
88990806 ACCTTCGGAG
* * ** * * * *
88990816 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
88990880 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
88990895 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
88990957 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
88990974 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
88991024 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:88990968 original size:40 final size:40
Alignment explanation
Indices: 88990916--88991023 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
88990906 TATCACGATT
** *
88990916 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
88990956 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
88990996 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
88991024 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:88995965 original size:15 final size:17
Alignment explanation
Indices: 88995947--88995978 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
88995937 TAGCATAATT
88995947 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
88995962 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
88995979 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:88997715 original size:5 final size:5
Alignment explanation
Indices: 88997707--88997751 Score: 63
Period size: 5 Copynumber: 8.6 Consensus size: 5
88997697 TAAATCTTAT
*
88997707 TATTA TATTA TATTA TATTA TATTA TATTA CTAATA TATATA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA -TATTA TAT-TA TAT
88997752 ATGAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 27 0.75
6 9 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:88997787 original size:13 final size:13
Alignment explanation
Indices: 88997752--88997797 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
88997742 ATATATATAT
*
88997752 ATGAAATAAAGAA
1 ATGAAACAAAGAA
*
88997765 A-GAAAAAAAGAA
1 ATGAAACAAAGAA
88997777 ATGAAACAAAGAA
1 ATGAAACAAAGAA
*
88997790 AAGAAACA
1 ATGAAACA
88997798 GAATAGGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.07
Consensus pattern (13 bp):
ATGAAACAAAGAA
Found at i:88999853 original size:41 final size:37
Alignment explanation
Indices: 88999807--88999913 Score: 97
Period size: 41 Copynumber: 2.8 Consensus size: 37
88999797 TCGACCTTGA
88999807 GTCGATGAGACACTGGGTGTCACTATATTTCTTTGGATAG
1 GTCGATGAGACACTGGGTGTCACTATATTTC---GGATAG
* ** * ** *
88999847 ATTCGATGAGGTACTAGGTACCACTTTATTTCGGATAG
1 -GTCGATGAGACACTGGGTGTCACTATATTTCGGATAG
* *
88999885 GCCGATGAGACACTGGGTGTCATTATATT
1 GTCGATGAGACACTGGGTGTCACTATATT
88999914 GCTTCGAACT
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
37 20 0.40
38 6 0.12
41 24 0.48
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (37 bp):
GTCGATGAGACACTGGGTGTCACTATATTTCGGATAG
Found at i:89013189 original size:26 final size:26
Alignment explanation
Indices: 89013160--89013209 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
89013150 TTTCATCCTA
*
89013160 ATTTTACCATTAGTAAAATTTTGACG
1 ATTTTACCATTAGTAAAAGTTTGACG
* * *
89013186 ATTTTGCCCTTGGTAAAAGTTTGA
1 ATTTTACCATTAGTAAAAGTTTGA
89013210 GAAAATATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (26 bp):
ATTTTACCATTAGTAAAAGTTTGACG
Found at i:89013371 original size:6 final size:6
Alignment explanation
Indices: 89013355--89013389 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
89013345 GCAAATGGAT
* *
89013355 CATTTC AATTTT CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
89013390 TTGGAAATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:89023876 original size:29 final size:29
Alignment explanation
Indices: 89023837--89023892 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
89023827 GATGGAGAAA
89023837 GGTGAATATTGATAG-TGTTGTGTTTCAAG
1 GGTGAATATTGA-AGTTGTTGTGTTTCAAG
*
89023866 GGTGAATATTGACGTTGTTGTGTTTCA
1 GGTGAATATTGAAGTTGTTGTGTTTCA
89023893 GCTTTCAGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.21, C:0.05, G:0.30, T:0.43
Consensus pattern (29 bp):
GGTGAATATTGAAGTTGTTGTGTTTCAAG
Found at i:89024341 original size:22 final size:23
Alignment explanation
Indices: 89024316--89024361 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
89024306 CAACCAAATC
89024316 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
89024338 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
89024361 A
1 A
89024362 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:89024367 original size:23 final size:23
Alignment explanation
Indices: 89024323--89024367 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
89024313 ATCAATTCAA
*
89024323 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
89024346 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
89024368 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:89027565 original size:22 final size:23
Alignment explanation
Indices: 89027540--89027585 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
89027530 CAACCAAATC
89027540 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
89027562 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
89027585 A
1 A
89027586 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:89027591 original size:23 final size:23
Alignment explanation
Indices: 89027547--89027591 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
89027537 ATCAATTCAA
*
89027547 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
89027570 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
89027592 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:89034649 original size:22 final size:23
Alignment explanation
Indices: 89034624--89034669 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
89034614 CAACCAAATC
89034624 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
89034646 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
89034669 A
1 A
89034670 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:89034675 original size:23 final size:23
Alignment explanation
Indices: 89034631--89034675 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
89034621 ATCAATTCAA
*
89034631 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
89034654 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
89034676 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:89039187 original size:26 final size:27
Alignment explanation
Indices: 89039149--89039218 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 27
89039139 CATTCCGACC
**
89039149 CATAGCTTATGTGAGCAAG-CCCATTT
1 CATAGCTCGTGTGAGCAAGACCCATTT
*
89039175 CATAGCTCGTGTGAGC-AGACTCATTT
1 CATAGCTCGTGTGAGCAAGACCCATTT
* *
89039201 CACAGCTCGTATGAGCAA
1 CATAGCTCGTGTGAGCAA
89039219 CGATGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.05
26 34 0.92
27 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (27 bp):
CATAGCTCGTGTGAGCAAGACCCATTT
Found at i:89041721 original size:40 final size:40
Alignment explanation
Indices: 89041666--89041915 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
89041656 AACATTGGAA
89041666 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
89041706 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
89041746 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
89041786 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
89041826 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
89041865 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
89041906 CTATATCCGG
1 ATATATCCGG
89041916 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:89049897 original size:40 final size:40
Alignment explanation
Indices: 89049842--89050091 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
89049832 AACATTGGAA
89049842 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
89049882 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
89049922 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
89049962 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
89050002 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
89050041 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
89050082 CTATATCCGG
1 ATATATCCGG
89050092 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:89054490 original size:50 final size:49
Alignment explanation
Indices: 89054385--89054511 Score: 173
Period size: 50 Copynumber: 2.6 Consensus size: 49
89054375 GTACGCATAA
* * * ** *
89054385 TAGCCTGCTCTTAGTACTACACATGCGACCAATTATCCGGTACACGTAC
1 TAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACGTAC
* *
89054434 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACGTAC
89054484 TAGCCTGCACTTAGTACTACACACGTGA
1 TAGCCTGCACTTAGTACTACACACGTGA
89054512 TCGAAGTTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
49 27 0.39
50 42 0.61
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACGTAC
Found at i:89060021 original size:51 final size:49
Alignment explanation
Indices: 89059849--89060076 Score: 303
Period size: 49 Copynumber: 4.6 Consensus size: 49
89059839 GTTCGCATAA
* *
89059849 TAGCTTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAG
* * *
89059898 TAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACATGTGACC-AATTATCTGGTACACGTAG
* * * *
89059948 TAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCATAG
1 TAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCTGGTACACGTAG
* * **
89059999 TAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAG
1 TAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAG
*
89060048 TAGCCTGCACTTAGTACTACACACGTGAC
1 TAGCCTGCACTTAGTACTACACATGTGAC
89060077 TCACAATAGA
Statistics
Matches: 155, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 66 0.43
50 49 0.32
51 40 0.26
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAG
Found at i:89060241 original size:12 final size:12
Alignment explanation
Indices: 89060219--89060248 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
89060209 GCCACATTTC
89060219 ATATGATAACAAA
1 ATAT-ATAACAAA
89060232 ATATATAACAAA
1 ATATATAACAAA
89060244 ATATA
1 ATATA
89060249 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (12 bp):
ATATATAACAAA
Found at i:89063114 original size:16 final size:16
Alignment explanation
Indices: 89063093--89063133 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
89063083 AATAACCTAT
89063093 ATTTAAAAGA-ATATA
1 ATTTAAAAGACATATA
89063108 CATTTAAAA-ACATATA
1 -ATTTAAAAGACATATA
*
89063124 ATTGAAAAGA
1 ATTTAAAAGA
89063134 TCTGAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (16 bp):
ATTTAAAAGACATATA
Found at i:89065745 original size:16 final size:16
Alignment explanation
Indices: 89065724--89065756 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
89065714 AAGTTCTAAA
89065724 AAAAGCCAAAAAATTT
1 AAAAGCCAAAAAATTT
*
89065740 AAAAGCCAGAAAATTT
1 AAAAGCCAAAAAATTT
89065756 A
1 A
89065757 CACTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.12, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAGCCAAAAAATTT
Found at i:89066671 original size:12 final size:12
Alignment explanation
Indices: 89066656--89066680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89066646 AAATTACTAT
89066656 TTAAATAAATAA
1 TTAAATAAATAA
89066668 TTAAATAAATAA
1 TTAAATAAATAA
89066680 T
1 T
89066681 AAAAGGTTTA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAAATAAATAA
Found at i:89068549 original size:18 final size:19
Alignment explanation
Indices: 89068526--89068561 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
89068516 TTGGATTGTG
89068526 AATGAA-GTGTAAAAAATA
1 AATGAATGTGTAAAAAATA
*
89068544 AATGAATGTGTGAAAAAT
1 AATGAATGTGTAAAAAAT
89068562 CAAAGTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (19 bp):
AATGAATGTGTAAAAAATA
Found at i:89077244 original size:42 final size:42
Alignment explanation
Indices: 89077156--89077249 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
89077146 CCTAATTGGG
**
89077156 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATGAGGA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATGAAAA
* * *
89077198 AAAATAGTTCTCTTATTCTAATAAACTACTAAAAGAT-AAAA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATGAAAA
89077239 TAAAAT-ATTCC
1 -AAAATAATTCC
89077250 TAGAATATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.11
42 39 0.89
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATGAAAA
Found at i:89081093 original size:42 final size:41
Alignment explanation
Indices: 89081002--89081097 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
89080992 ATCCTAATTG
* * *
89081002 AGAAAATAATTTCCTTATTCTAATAAACTACTAAAACATGAG
1 AGAAAAT-ATTCCCTTATTCTAATAAACTACTAAAACATAAA
* *
89081044 GGAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAA
1 AGAAAATA-TTCCCTTATTCTAATAAACTACTAAAACATAAA
**
89081086 ATTAAATATTCC
1 AGAAAATATTCC
89081098 TAAAATATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
41 5 0.11
42 40 0.89
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (41 bp):
AGAAAATATTCCCTTATTCTAATAAACTACTAAAACATAAA
Found at i:89081137 original size:19 final size:18
Alignment explanation
Indices: 89081115--89081154 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
89081105 TGAATAAAAC
*
89081115 TTATCTACCTAAATAAGAT
1 TTATCTAACTAAATAA-AT
89081134 TTATCTAACTAAATAAAT
1 TTATCTAACTAAATAAAT
89081152 TTA
1 TTA
89081155 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTAACTAAATAAAT
Found at i:89105452 original size:3 final size:3
Alignment explanation
Indices: 89105444--89105476 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
89105434 TTTTGGGTGG
89105444 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
89105477 GTAAAAGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:89106420 original size:9 final size:9
Alignment explanation
Indices: 89106406--89106448 Score: 59
Period size: 9 Copynumber: 4.4 Consensus size: 9
89106396 ATATTTAATT
89106406 TTTTAAAAA
1 TTTTAAAAA
89106415 TTTTAATATATA
1 TTTTAA-A-A-A
89106427 TTTTAAAAA
1 TTTTAAAAA
89106436 TTTTAAAAA
1 TTTTAAAAA
89106445 TTTT
1 TTTT
89106449 TTATTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 20 0.65
10 2 0.06
11 2 0.06
12 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:89106637 original size:16 final size:16
Alignment explanation
Indices: 89106616--89106651 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
89106606 AAATATAAAT
89106616 TAAAAAATTTAAA-AAA
1 TAAAAAA-TTAAAGAAA
89106632 TAAAAAATTAAAGAAA
1 TAAAAAATTAAAGAAA
89106648 TAAA
1 TAAA
89106652 TAAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
TAAAAAATTAAAGAAA
Found at i:89108273 original size:2 final size:2
Alignment explanation
Indices: 89108268--89108293 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
89108258 TTTTTTTTAA
89108268 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
89108294 TAATACTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89111614 original size:46 final size:46
Alignment explanation
Indices: 89111547--89111867 Score: 189
Period size: 46 Copynumber: 6.8 Consensus size: 46
89111537 ACATTGGGTG
* * *
89111547 ATATGTGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCC-AC
1 ATATGAGAGCCAGTGTAAGACATGTTTGGGACATGCATTGGCCTAC
* * *
89111592 ATTATGAGAGCCAGTGTGAGACATGTTTGGGACATGCATCGGCCTTGAG
1 A-TATGAGAGCCAGTGTAAGACATGTTTGGGACATGCATTGGCC-T-AC
* * **
89111641 ATAT-ACCAGCCAGTGTAAGACATGTTTGGGACATGCATTGGCATTG
1 ATATGA-GAGCCAGTGTAAGACATGTTTGGGACATGCATTGGCCTAC
* * * * * *
89111687 AGACGAGAGCTAGTGTAAGACATGTTTGGGACATACATCGGCCTCGAG
1 ATATGAGAGCCAGTGTAAGACATGTTTGGGACATGCATTGGCCT--AC
* * * * * * * *
89111735 ATAT-ACAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGAT
1 ATATGA-GAGCCAGTGTAAGACATGTTTGGGACAT-GCATTG--GCCTAC
* * * * * *
89111784 AGATGAGAGCCAGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGAT
1 ATATGAGAGCCAGTGTAAGACATGTTTGGGACA-TGCATTGGCCT--AC
* * * * *
89111833 ATATGAAAGTCAGTGTAAGACCTGTCTAGGACATG
1 ATATGAGAGCCAGTGTAAGACATGTTTGGGACATG
89111868 GTATCGACTT
Statistics
Matches: 221, Mismatches: 39, Indels: 29
0.76 0.13 0.10
Matches are distributed among these distances:
45 1 0.00
46 73 0.33
47 6 0.03
48 65 0.29
49 73 0.33
50 1 0.00
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
ATATGAGAGCCAGTGTAAGACATGTTTGGGACATGCATTGGCCTAC
Found at i:89111663 original size:48 final size:47
Alignment explanation
Indices: 89111553--89111867 Score: 235
Period size: 49 Copynumber: 6.6 Consensus size: 47
89111543 GGTGATATGT
* * * *
89111553 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCC---ACATTATGA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGA-TAT-A
*
89111599 GAGCCAGTGTGAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
* * * **
89111646 CCAGCCAGTGTAAGACATGTTTGGGACATGCATTGGCATTGAGA-CGA
1 -GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
* * *
89111693 GAGCTAGTGTAAGACATGTTTGGGACATACATCGGCCTCGAGATATA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
* * * * * * * *
89111740 CAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGA
1 -GAGCCAGTGTAAGACATGTTTGGGACAT-GCATCGGC-CTTGAGATAT-A
* * * * *
89111790 GAGCCAGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGA
1 GAGCCAGTGTAAGACATGTTTGGGACA-TGCATCGGCCTTGAGATAT-A
* * * * *
89111839 AAGTCAGTGTAAGACCTGTCTAGGACATG
1 GAGCCAGTGTAAGACATGTTTGGGACATG
89111868 GTATCGACTT
Statistics
Matches: 223, Mismatches: 35, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
46 70 0.31
47 3 0.01
48 69 0.31
49 79 0.35
50 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
Found at i:89111708 original size:94 final size:94
Alignment explanation
Indices: 89111558--89111867 Score: 340
Period size: 94 Copynumber: 3.3 Consensus size: 94
89111548 TATGTGAGCT
*
89111558 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATT---ATGAGAGCCAGTGTGAGACATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATTGG---CATTGAGATGAGAGCCAGTGTAAGACATGTTT
* *
89111620 GGGACATGCATCGGCCTTGAGATATACCAGCC
63 GGGACATGCATCGGCCTCGAGATATACAAGCC
* * *
89111652 AGTGTAAGACATGTTTGGGACATGCATTGGCATTGAGACGAGAGCTAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGATGAGAGCCAGTGTAAGACATGTTTGGG
* *
89111717 ACATACATCGGCCTCGAGATATACAAGCT
66 ACATGCATCGGCCTCGAGATATACAAGCC
* * * ** * *
89111746 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACCTGTCT
1 AGTGTAAGACATGTCTGGGACAT-GCATTGGCATTG--AGATGAGAGCCAGTGTAAGACATGTTT
* * *
89111811 GGGACACGGCATCGGCCTCGATATATGA-AAGTC
63 GGGACA-TGCATCGGCCTCGAGATAT-ACAAGCC
* *
89111844 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
89111868 GTATCGACTT
Statistics
Matches: 184, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
91 4 0.02
94 100 0.54
95 8 0.04
97 30 0.16
98 41 0.22
99 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGATGAGAGCCAGTGTAAGACATGTTTGGG
ACATGCATCGGCCTCGAGATATACAAGCC
Found at i:89111803 original size:49 final size:49
Alignment explanation
Indices: 89111558--89111917 Score: 206
Period size: 49 Copynumber: 7.5 Consensus size: 49
89111548 TATGTGAGCT
* * * * * *
89111558 AGTGTAAGACATGTCTGGGACAT-GCATTGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * * * *
89111604 AGTGTGAGACATGTTTGGGACAT-GCATCGGCCTTGAGATAT-ACCAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGCC
* * * * * * * * *
89111652 AGTGTAAGACATGTTTGGGACAT-GCATTGGCATTG--AGACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * * *
89111698 AGTGTAAGACATGTTTGGGACAT-ACATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGCC
*
89111746 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * *
89111795 AGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * **
89111844 AGTGTAAGACCTGTCTAGGACATGGTATCGACTTTGAT--ATGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
89111891 AGTGTCAGACCATGTCTGGGATATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
89111918 GCCGGCATCT
Statistics
Matches: 255, Mismatches: 47, Indels: 22
0.79 0.15 0.07
Matches are distributed among these distances:
46 65 0.25
47 20 0.08
48 79 0.31
49 89 0.35
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:89113667 original size:39 final size:40
Alignment explanation
Indices: 89113472--89113684 Score: 249
Period size: 40 Copynumber: 5.4 Consensus size: 40
89113462 CAACCAAGTA
** *
89113472 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
*
89113510 CCTTCGGGACTTAGCCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * * *
89113550 CCTTCGAGACATGGCCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TAGCACAAATG
*
89113590 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
89113630 CCTTCGGGACTT-GCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
*
89113669 CCTTTGGGACTTAGCC
1 CCTTCGGGACTTAGCC
89113685 TGGTTATCAT
Statistics
Matches: 152, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
38 14 0.09
39 47 0.31
40 89 0.59
41 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:89114398 original size:2 final size:2
Alignment explanation
Indices: 89114391--89114426 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
89114381 ATGTGCAAAC
*
89114391 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89114427 GTGCAAGAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89119078 original size:16 final size:17
Alignment explanation
Indices: 89119057--89119094 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
89119047 AGCAGGGAAA
*
89119057 GAAATAAGAA-AAAAGG
1 GAAATAAAAAGAAAAGG
89119073 GAAATAAAAAGAAAAGG
1 GAAATAAAAAGAAAAGG
*
89119090 AAAAT
1 GAAAT
89119095 TTAAGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (17 bp):
GAAATAAAAAGAAAAGG
Found at i:89119086 original size:19 final size:20
Alignment explanation
Indices: 89119050--89119087 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89119040 CACAAATAGC
89119050 AGGGAAAGAAATAAGAAAAA
1 AGGGAAAGAAATAAGAAAAA
*
89119070 AGGGAAATAAA-AAGAAAA
1 AGGGAAAGAAATAAGAAAA
89119088 GGAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (20 bp):
AGGGAAAGAAATAAGAAAAA
Found at i:89126368 original size:19 final size:20
Alignment explanation
Indices: 89126332--89126369 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
89126322 CACGAATAGT
89126332 AGGGAAAGAAATAAGAAAAA
1 AGGGAAAGAAATAAGAAAAA
89126352 AGGGAAAGAAA-AAGAAAA
1 AGGGAAAGAAATAAGAAAA
89126370 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (20 bp):
AGGGAAAGAAATAAGAAAAA
Found at i:89128693 original size:28 final size:28
Alignment explanation
Indices: 89128662--89128715 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
89128652 ACCCCAAATT
89128662 GACCATTAAAAACTATTCGGGATTAATC
1 GACCATTAAAAACTATTCGGGATTAATC
*
89128690 GACCATTGAAAACTATTCGGGATTAA
1 GACCATTAAAAACTATTCGGGATTAA
89128716 CCACGGTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (28 bp):
GACCATTAAAAACTATTCGGGATTAATC
Found at i:89130603 original size:18 final size:18
Alignment explanation
Indices: 89130575--89130638 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
89130565 GAACAATTAT
* *
89130575 TTATTTAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
89130593 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
*
89130611 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
89130629 TTATTCAGTA
1 TTATTCAGTA
89130639 TCAATCAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:89130644 original size:18 final size:18
Alignment explanation
Indices: 89130589--89130645 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
89130579 TTAGTAATAG
* *
89130589 TCAGTTATTCGGTAACAA
1 TCAGTTATTCAGTATCAA
* *
89130607 TCAATTATTCAATAAT-AA
1 TCAGTTATTCAGT-ATCAA
89130625 TCAGTTATTCAGTATCAA
1 TCAGTTATTCAGTATCAA
89130643 TCA
1 TCA
89130646 ATTGATCGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.90
19 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (18 bp):
TCAGTTATTCAGTATCAA
Found at i:89130681 original size:18 final size:18
Alignment explanation
Indices: 89130655--89130725 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
89130645 AATTGATCGG
*
89130655 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
89130673 TTATTCAGTAAAAATCAA
1 TTATTCAGTAACAGTCAA
* * *
89130691 TTATACAGTAACAATTAAA
1 TTATTCAGTAAC-AGTCAA
*
89130710 TTATTCACTAACAGTC
1 TTATTCAGTAACAGTC
89130726 GATCTTTCCA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 27 0.66
19 14 0.34
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:89130721 original size:19 final size:19
Alignment explanation
Indices: 89130671--89130722 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
89130661 AGTAACAGTC
*
89130671 AATTATTCAGTAA-AAATC
1 AATTATTCAGTAACAAATA
* *
89130689 AATTATACAGTAACAATTA
1 AATTATTCAGTAACAAATA
*
89130708 AATTATTCACTAACA
1 AATTATTCAGTAACA
89130723 GTCGATCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (19 bp):
AATTATTCAGTAACAAATA
Found at i:89130849 original size:6 final size:6
Alignment explanation
Indices: 89130838--89130868 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
89130828 CTAAAGCCGG
89130838 AACAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
89130869 CGGTACACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:89130931 original size:47 final size:47
Alignment explanation
Indices: 89130856--89130945 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
89130846 CAGTAACAGT
*
89130856 AACAGTAACAGTACGGTACACAGGGTACCTCATCGGAACAAATTCGG
1 AACAGTAACAGTACGATACACAGGGTACCTCATCGGAACAAATTCGG
89130903 AACAGTAACAGTACGATACAC-GGAGTACCTCATCGGAACAAAT
1 AACAGTAACAGTACGATACACAGG-GTACCTCATCGGAACAAAT
89130946 CCAAAACAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
46 2 0.05
47 39 0.95
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (47 bp):
AACAGTAACAGTACGATACACAGGGTACCTCATCGGAACAAATTCGG
Found at i:89130963 original size:53 final size:51
Alignment explanation
Indices: 89130850--89130964 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 51
89130840 CAGTAACAGT
* * **
89130850 AACAGTAACAGTAACAGTACGGTACACAGGGTACCTCATCGGAACAAATTCGG
1 AACA-TAA-AGTAACAGTACGATACACAGGGTACCTCATCGGAACAAATCCAA
89130903 AAC----AGTAACAGTACGATACAC-GGAGTACCTCATCGGAACAAATCCAA
1 AACATAAAGTAACAGTACGATACACAGG-GTACCTCATCGGAACAAATCCAA
89130950 AACAATAATAGTAAC
1 AAC-ATAA-AGTAAC
89130965 GGTAACAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
46 2 0.04
47 40 0.78
53 9 0.18
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.17
Consensus pattern (51 bp):
AACATAAAGTAACAGTACGATACACAGGGTACCTCATCGGAACAAATCCAA
Found at i:89132246 original size:17 final size:16
Alignment explanation
Indices: 89132216--89132255 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
89132206 AACCTTGAAT
*
89132216 TTTCCTTTTTTCTTTC
1 TTTCCTTTTTTCTTCC
89132232 TTTCCTTTCTTTCTTCC
1 TTTCCTTT-TTTCTTCC
89132249 TTTCCTT
1 TTTCCTT
89132256 CCCTTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCCTTTTTTCTTCC
Found at i:89134652 original size:49 final size:49
Alignment explanation
Indices: 89134564--89134733 Score: 202
Period size: 49 Copynumber: 3.5 Consensus size: 49
89134554 TGTTGTGTGT
* *
89134564 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-TGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGAC-CTTGATAGATGAAAGC
* * * * * *
89134613 CAGTGTAAGACCTGTCTGAGACACGACATTGGCCTTGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGACATCGACCTTGATAGATGAAAGC
* **
89134662 CAGTGTAAGACCTGTCTGGGACATGACATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGACCTTGATAGATGAAAGC
*
89134709 CAGTGTAAGACCTGTTTGGGACATG
1 CAGTGTAAGACCTGTCTGGGACATG
89134734 GCGTCGGCAT
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 28 0.27
48 1 0.01
49 73 0.72
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGACATCGACCTTGATAGATGAAAGC
Found at i:89136463 original size:15 final size:15
Alignment explanation
Indices: 89136376--89136465 Score: 74
Period size: 15 Copynumber: 6.0 Consensus size: 15
89136366 ATAGGTATCG
* *
89136376 TATCTTGGACTTCTC
1 TATCTTGGATTTCTT
*
89136391 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
* *
89136406 TATTTTGGATCTCTT
1 TATCTTGGATTTCTT
* *
89136421 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTT
* *
89136436 TGTTTTGGATTTCTT
1 TATCTTGGATTTCTT
*
89136451 TATCTTGGTTTTCTT
1 TATCTTGGATTTCTT
89136466 ACCATATCTA
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
14 1 0.02
15 58 0.97
16 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:89136464 original size:30 final size:30
Alignment explanation
Indices: 89136380--89136464 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
89136370 GTATCGTATC
* * * *
89136380 TTGGACTTCTCTATCTTGGATCTCTTTATT
1 TTGGATTTCTTTATCTTGGATTTCTCTATT
* * *
89136410 TTGGATCTCTTTAT-TCTGGGTTTCTCTGTT
1 TTGGATTTCTTTATCT-TGGATTTCTCTATT
*
89136440 TTGGATTTCTTTATCTTGGTTTTCT
1 TTGGATTTCTTTATCTTGGATTTCT
89136465 TACCATATCT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 1 0.02
30 42 0.95
31 1 0.02
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.58
Consensus pattern (30 bp):
TTGGATTTCTTTATCTTGGATTTCTCTATT
Found at i:89138664 original size:49 final size:49
Alignment explanation
Indices: 89138589--89138716 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 49
89138579 TGTGTGTCAG
*
89138589 TGTAAGACCTGTCTGGGACATGGCATCGACAC-TGATAGATGAGAGC-CAA
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CTTGATAGATGA-AACTCAA
* ** * *
89138638 TGTAAGACCTGGCTGGGACACAGCATCGGCCTTGATATATGAAACTCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTTGATAGATGAAACTCAA
89138687 TGTAAGACCTGTCTGGGACATGGCATCGAC
1 TGTAAGACCTGTCTGGGACATGGCATCGAC
89138717 TTTGGTGTGC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 3 0.04
49 64 0.96
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTTGATAGATGAAACTCAA
Found at i:89144344 original size:18 final size:18
Alignment explanation
Indices: 89144323--89144364 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
89144313 GCTATGTAGG
* *
89144323 CCACACGGGCTTGTGGGT
1 CCACACGAGCGTGTGGGT
89144341 CCACACGAGCGTGTGGGT
1 CCACACGAGCGTGTGGGT
*
89144359 CTACAC
1 CCACAC
89144365 AGGCCGGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (18 bp):
CCACACGAGCGTGTGGGT
Found at i:89145691 original size:25 final size:25
Alignment explanation
Indices: 89145648--89145695 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89145638 AAACTGAAAT
* *
89145648 TGAAACTGTTTTTGATAGTATATCC
1 TGAAACTGTTATAGATAGTATATCC
*
89145673 TGAAACTGTTATAGGTAGTATAT
1 TGAAACTGTTATAGATAGTATAT
89145696 ACTAAGACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (25 bp):
TGAAACTGTTATAGATAGTATATCC
Found at i:89160259 original size:13 final size:13
Alignment explanation
Indices: 89160241--89160267 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89160231 AACGAAGTAA
89160241 GACACGACCGTGT
1 GACACGACCGTGT
89160254 GACACGACCGTGT
1 GACACGACCGTGT
89160267 G
1 G
89160268 CACCCACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGACCGTGT
Found at i:89165805 original size:48 final size:48
Alignment explanation
Indices: 89165747--89166083 Score: 568
Period size: 48 Copynumber: 7.0 Consensus size: 48
89165737 ATATACACAC
* * *
89165747 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
89165795 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
89165843 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
89165891 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
89165939 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
89165987 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATACACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
89166035 ATCTC-TACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
89166082 AT
1 AT
89166084 ATTTGTCTTG
Statistics
Matches: 274, Mismatches: 15, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
47 41 0.15
48 233 0.85
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:89170104 original size:40 final size:40
Alignment explanation
Indices: 89170072--89170263 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
89170062 CCAGCATGAT
* *
89170072 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * *
89170112 TGCTCTTCAGGACTTAACCCTGG-TATAACTCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCC-GGATATAACACTAGCACGAA
* * *
89170152 TGCTCTTCGAGACTTAGCCCGGGTATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
89170192 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
89170232 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATAACACT
89170264 CTCAATTCTC
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 134 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
Found at i:89171804 original size:48 final size:48
Alignment explanation
Indices: 89171746--89171987 Score: 376
Period size: 48 Copynumber: 5.0 Consensus size: 48
89171736 ATATACACAC
* *
89171746 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
89171794 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
89171842 ATCTCATATATATTTCACATTAGCCATTCAGCCTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
89171890 ATCTCATACATATTTTATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
89171938 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
89171986 AT
1 AT
89171988 ATTTGTCTTG
Statistics
Matches: 175, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 175 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:89174615 original size:31 final size:31
Alignment explanation
Indices: 89174572--89174635 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
89174562 CCTTTTCATA
89174572 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* ** *
89174603 TTTCATATTTCATATTATTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
89174634 TT
1 TT
89174636 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:89174905 original size:23 final size:24
Alignment explanation
Indices: 89174829--89174948 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
89174819 GCTTTATCAT
*
89174829 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
89174854 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
89174879 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
89174902 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
89174926 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89174949 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
23 24 0.27
24 33 0.38
25 25 0.28
26 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:89174937 original size:47 final size:47
Alignment explanation
Indices: 89174850--89174947 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
89174840 CCTAGCCTCT
*
89174850 TTTAATAACTGGGGCAAAGCCCTTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCC-TTTTTAATAACTAGGGCATAAGCCC
89174898 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTAGGGCATAAGCCC
89174945 TTT
1 TTT
89174948 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 26 0.54
48 16 0.33
49 6 0.12
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTAGGGCATAAGCCC
Found at i:89175020 original size:9 final size:9
Alignment explanation
Indices: 89175006--89175062 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
89174996 ATCTCGTGTG
89175006 CATATCATA
1 CATATCATA
*
89175015 CATATCATGTG
1 CATATCA--TA
89175026 CATATCATA
1 CATATCATA
* *
89175035 CATGTCATGTG
1 CATATCA--TA
89175046 CATATCATA
1 CATATCATA
89175055 CATATCAT
1 CATATCAT
89175063 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:89175025 original size:20 final size:20
Alignment explanation
Indices: 89175002--89175064 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
89174992 GAACATCTCG
89175002 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
89175022 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
89175042 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
89175062 TGT
1 TGT
89175065 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:89179292 original size:27 final size:28
Alignment explanation
Indices: 89179235--89179304 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
89179225 AAATTTGTAC
**
89179235 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
89179263 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
89179290 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
89179305 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:89179313 original size:27 final size:27
Alignment explanation
Indices: 89179235--89179316 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
89179225 AAATTTGTAC
* *
89179235 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
89179263 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
89179290 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
89179317 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:89187211 original size:27 final size:28
Alignment explanation
Indices: 89187154--89187223 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
89187144 AAATTTGTAC
**
89187154 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
89187182 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
89187209 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
89187224 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:89187232 original size:27 final size:27
Alignment explanation
Indices: 89187154--89187235 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
89187144 AAATTTGTAC
* *
89187154 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
89187182 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
89187209 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
89187236 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:89193741 original size:31 final size:31
Alignment explanation
Indices: 89193698--89193761 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
89193688 CCTTTTCATA
89193698 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
89193729 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
89193760 TT
1 TT
89193762 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:89194005 original size:24 final size:24
Alignment explanation
Indices: 89193954--89194072 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
89193944 GCTTTATCAT
*
89193954 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
89193979 ATAACT-GGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
89194003 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
89194026 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
89194050 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89194073 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 1, Indels: 13
0.86 0.01 0.13
Matches are distributed among these distances:
22 1 0.01
23 30 0.34
24 39 0.45
25 11 0.13
26 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:89194029 original size:47 final size:47
Alignment explanation
Indices: 89193975--89194071 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
89193965 CCTAGCCTCT
89193975 TTTAATAACT-GGGCA-AAGCCCTTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC--TTTTAATAACTGGGGCATAAGCCC
89194022 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
89194069 TTT
1 TTT
89194072 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
47 37 0.77
48 5 0.10
49 6 0.12
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:89194144 original size:9 final size:9
Alignment explanation
Indices: 89194130--89194186 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
89194120 ATCTCGTGTG
89194130 CATATCATA
1 CATATCATA
*
89194139 CATATCATGTG
1 CATATCA--TA
89194150 CATATCATA
1 CATATCATA
* *
89194159 CATGTCATGTG
1 CATATCA--TA
89194170 CATATCATA
1 CATATCATA
89194179 CATATCAT
1 CATATCAT
89194187 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:89194149 original size:20 final size:20
Alignment explanation
Indices: 89194126--89194188 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
89194116 GAACATCTCG
89194126 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
89194146 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
89194166 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
89194186 TGT
1 TGT
89194189 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:89194253 original size:25 final size:25
Alignment explanation
Indices: 89194225--89194272 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89194215 ATATATAAAC
* * *
89194225 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
89194250 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
89194273 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:89194703 original size:8 final size:8
Alignment explanation
Indices: 89194690--89194717 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
89194680 AAATGCCAGA
89194690 ATTTCGGC
1 ATTTCGGC
89194698 ATTTCGGC
1 ATTTCGGC
89194706 ATTTCGGC
1 ATTTCGGC
89194714 ATTT
1 ATTT
89194718 ATCGCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (8 bp):
ATTTCGGC
Found at i:89198212 original size:2 final size:2
Alignment explanation
Indices: 89198207--89198237 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89198197 TCACACACAC
89198207 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89198238 GATTAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89199383 original size:30 final size:30
Alignment explanation
Indices: 89199348--89199407 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
89199338 TATTTTATTA
*
89199348 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
*
89199378 TTAATTTTATTATTATTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
89199408 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:89200877 original size:16 final size:16
Alignment explanation
Indices: 89200852--89200903 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
89200842 TGGTTCCCTA
*
89200852 TAATAGAATAGGGTTG
1 TAATGGAATAGGGTTG
** * *
89200868 TAATTTAATAGAGCTG
1 TAATGGAATAGGGTTG
89200884 TAATGGAATAGGGTTG
1 TAATGGAATAGGGTTG
89200900 TAAT
1 TAAT
89200904 AATATACAGC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.35
Consensus pattern (16 bp):
TAATGGAATAGGGTTG
Found at i:89201108 original size:26 final size:25
Alignment explanation
Indices: 89201059--89201109 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
89201049 ATGATTATTG
*
89201059 TTATTGTTATTAAATTTTAATAAAA
1 TTATTGTTAATAAATTTTAATAAAA
* *
89201084 TTATTGTTAAATATATTTTATTAAAA
1 TTATTGTT-AATAAATTTTAATAAAA
89201110 AAATAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
TTATTGTTAATAAATTTTAATAAAA
Found at i:89201169 original size:60 final size:56
Alignment explanation
Indices: 89201069--89201209 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 56
89201059 TTATTGTTAT
* * * * *
89201069 TAAATTTTAATAAAATTATTGTTAAATATATTTTATTAAAAAAATAATAAATAATTTAA
1 TAAATTTTAATATAATTATTATTAAATACA--AT-TTAATAAAATAATAAATAATTTAA
* * *
89201128 TCAAATTTTAACATAATTATTATTAAATGCAATTTAATAAAATAATATATAATTTAA
1 T-AAATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAA
*
89201185 TAACATTCTTAATATAATAATTATT
1 TAA-ATT-TTAATATAATTATTATT
89201210 GCTATATGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
56 2 0.03
57 26 0.38
58 16 0.23
59 1 0.01
60 24 0.35
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (56 bp):
TAAATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAA
Found at i:89204848 original size:43 final size:43
Alignment explanation
Indices: 89204800--89204965 Score: 201
Period size: 43 Copynumber: 3.9 Consensus size: 43
89204790 GTTATCGAGA
* *
89204800 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
89204843 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGGATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
89204886 TATGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
89204928 ATGTGATAACATGTAAGATCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
89204966 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 8 0.08
43 97 0.92
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:89209318 original size:80 final size:80
Alignment explanation
Indices: 89209185--89209446 Score: 404
Period size: 80 Copynumber: 3.3 Consensus size: 80
89209175 TATTGGATTG
89209185 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
89209250 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
89209265 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
* *
89209330 ATTGTGTGAGTTACT
66 TTTGTGCGAGTTACT
* * * *
89209345 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
*
89209410 TTTGAT-CGAG-AAGCT
66 TTTG-TGCGAGTTA-CT
**
89209425 ATATCC-GGCTAAACCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
89209447 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
79 15 0.09
80 152 0.90
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:89209427 original size:40 final size:40
Alignment explanation
Indices: 89209189--89209413 Score: 387
Period size: 40 Copynumber: 5.6 Consensus size: 40
89209179 GGATTGATAT
89209189 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
89209229 CCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
89209269 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
89209309 CCGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
89209349 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
89209389 CCGGGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
89209414 ATCGAGAAGC
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:89220456 original size:22 final size:24
Alignment explanation
Indices: 89220398--89220456 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
89220388 TAAAAGTCAG
89220398 ATCATACAAACAATTGACTATTAA
1 ATCATACAAACAATTGACTATTAA
* **
89220422 ATTATA-AAA-AATTTCCTA-T-A
1 ATCATACAAACAATTGACTATTAA
89220442 ATCATACAAACAATT
1 ATCATACAAACAATT
89220457 AAGTTTCCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 11 0.38
23 3 0.10
24 5 0.17
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (24 bp):
ATCATACAAACAATTGACTATTAA
Found at i:89224192 original size:126 final size:126
Alignment explanation
Indices: 89224044--89224321 Score: 511
Period size: 126 Copynumber: 2.2 Consensus size: 126
89224034 TGTGGAGGCC
* *
89224044 ACGGCCTAAGCACACGAGCGTGTGACTTGGTTGTGTGACCTCAATTTAGTTGATGACGTCATAAA
1 ACGGCCT-ACCACACGGGCGTGTGACTTGGTTGTGTGACCTCAATTTAGTTGATGACGTCATAAA
89224109 TAGAAAGTTACACTAGCTGAGGGCACGGGTGTGTCCCAAGCCACACAGGCGTGTGGGACCAA
65 TAGAAAGTTACACTAGCTGAGGGCACGGGTGTGTCCCAAGCCACACAGGCGTGTGGGACCAA
89224171 ACGGCCTACCACACGGGCGTGTGACTTGGTTGTGTGACCTCAATTTAGTTGATGACGTCATAAAT
1 ACGGCCTACCACACGGGCGTGTGACTTGGTTGTGTGACCTCAATTTAGTTGATGACGTCATAAAT
*
89224236 AGAAAGTTACACTAGCTGAGGGCACGGGTGTGTCCTAAGCCACACAGGCGTGTGGGACCAA
66 AGAAAGTTACACTAGCTGAGGGCACGGGTGTGTCCCAAGCCACACAGGCGTGTGGGACCAA
*
89224297 ACGGCCTACCACACAGGCGTGTGAC
1 ACGGCCTACCACACGGGCGTGTGAC
89224322 CCTCCAAAAT
Statistics
Matches: 147, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
126 140 0.95
127 7 0.05
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (126 bp):
ACGGCCTACCACACGGGCGTGTGACTTGGTTGTGTGACCTCAATTTAGTTGATGACGTCATAAAT
AGAAAGTTACACTAGCTGAGGGCACGGGTGTGTCCCAAGCCACACAGGCGTGTGGGACCAA
Found at i:89227222 original size:43 final size:43
Alignment explanation
Indices: 89227094--89227253 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 43
89227084 ATATGTGTTA
* *
89227094 TCGTGTAAGACCACGTTTGGGATATTGGCATCGAT-TTGTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGATT
* * *
89227137 TACGTGTCAGACCATGTCTGGGACATTGGCATC-ATATATGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATT
* *
89227180 TTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATT
* *
89227223 ACATGTAAGACCACGTCTGGGACATTGGCAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCAT
89227254 TGTACGAGTT
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
42 26 0.27
43 43 0.44
44 29 0.30
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATT
Found at i:89227222 original size:86 final size:85
Alignment explanation
Indices: 89227096--89227253 Score: 221
Period size: 85 Copynumber: 1.8 Consensus size: 85
89227086 ATGTGTTATC
* * * * * *
89227096 GTGTAAGACCACGTTTGGGATATTGGCATCGATTTGTGATTTACGTGTCAGACCATGTCTGGGAC
1 GTGTAAGACCACGTCTGGGACAGTGGCATCGATTTGTGA-TTACATGTAAGACCACGTCTGGGAC
89227161 ATTGGCATCATATATGATTTT
65 ATTGGCATCATATATGATTTT
89227182 GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATT-TGATTACATGTAAGACCACGTCTGGGA
1 GTGTAAGACCAC-GTCTGGGACAGTGGCATCGAT-TTGTGATTACATGTAAGACCACGTCTGGGA
89227245 CATTGGCAT
64 CATTGGCAT
89227254 TGTACGAGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
85 31 0.48
86 31 0.48
87 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (85 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCGATTTGTGATTACATGTAAGACCACGTCTGGGACA
TTGGCATCATATATGATTTT
Found at i:89229934 original size:47 final size:47
Alignment explanation
Indices: 89229863--89230474 Score: 918
Period size: 47 Copynumber: 12.8 Consensus size: 47
89229853 CCCTTCGGGA
* * * * * *
89229863 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89229910 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89229957 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
89230004 CTTATCACATATATATATTTTCACATTCATCACATTGGACATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89230051 CTTATCACATATATACACTTTCACATTCATAACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89230098 CTTATCACATATATATACTCTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89230147 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89230194 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89230241 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89230288 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89230337 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89230386 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89230435 CTTATCACATATATATATACACTTTCACATTCATCACATC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATC
89230475 AAATCCTAAA
Statistics
Matches: 523, Mismatches: 36, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
47 308 0.59
49 185 0.35
51 30 0.06
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89230184 original size:190 final size:190
Alignment explanation
Indices: 89229863--89230474 Score: 978
Period size: 190 Copynumber: 3.2 Consensus size: 190
89229853 CCCTTCGGGA
* * * * * * *
89229863 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
89229926 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 TCTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
89229991 TCGGCCATTAGGCCTTATCACATATATATATTTTCACATTCATCACATTGGACATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
89230051 CTTATCACATATATACACTTTCACATTCATAACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
89230116 TCTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 TCTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
89230181 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
89230241 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATATA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
89230305 TACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
66 T-CTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATC
* *
89230370 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
128 ACATCGGCCATTAGGCCTTATCACATATATAT--ACTTTCACATTCATCACATTGGCCATTCGGC
89230435 CTTATCACATATATATATACACTTTCACATTCATCACATC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATC
89230475 AAATCCTAAA
Statistics
Matches: 394, Mismatches: 19, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
188 47 0.12
189 1 0.00
190 227 0.58
192 55 0.14
194 37 0.09
198 27 0.07
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
TCTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:89235565 original size:21 final size:21
Alignment explanation
Indices: 89235531--89235598 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
89235521 GGTCCAGGCA
* *
89235531 GTGTGAC-AAGGGACACGCCT
1 GTGTGACTGAGGGACACGCCC
*
89235551 GTGTGACTGAGGGACATGCCC
1 GTGTGACTGAGGGACACGCCC
* *
89235572 ATGTGACTGAGGGTCACGCCC
1 GTGTGACTGAGGGACACGCCC
*
89235593 ATGTGA
1 GTGTGA
89235599 ATAGGTTGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 7 0.17
21 34 0.83
ACGTcount: A:0.22, C:0.24, G:0.35, T:0.19
Consensus pattern (21 bp):
GTGTGACTGAGGGACACGCCC
Found at i:89239666 original size:46 final size:46
Alignment explanation
Indices: 89239599--89239773 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
89239589 TGTAACCCGC
* *
89239599 CCATAAGTGAACTCGGGCTCAACTCAATGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
*
89239645 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCACAT
* * * *
89239695 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
* *
89239738 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
89239774 ATGCCCAAAT
Statistics
Matches: 108, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 60 0.56
47 26 0.24
48 1 0.01
49 1 0.01
50 7 0.06
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
Found at i:89239733 original size:93 final size:93
Alignment explanation
Indices: 89239607--89239778 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
89239597 GCCCATAAGT
* * *
89239607 GAACTCGGGCTCAACTCAATGAGCTCGGGCATTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
89239672 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
89239700 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
89239765 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
89239779 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:89243153 original size:4 final size:5
Alignment explanation
Indices: 89243090--89243150 Score: 52
Period size: 5 Copynumber: 11.4 Consensus size: 5
89243080 TATTAAAAGG
**
89243090 AAATA AAATA AAA-A AAATA ATTTCA AAATA TAGAGATAA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAAT-A AAATA -A-A-AT-A AAATA AAATA
89243139 AAATA AAATA AA
1 AAATA AAATA AA
89243151 TAATAGGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
4 4 0.09
5 30 0.65
6 6 0.13
7 2 0.04
8 3 0.07
9 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:89249390 original size:40 final size:40
Alignment explanation
Indices: 89249328--89249584 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
89249318 AAGCCAAGTA
* * * * *
89249328 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
89249367 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
89249407 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
89249447 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
89249487 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
89249526 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
89249566 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
89249585 TTATCATCCA
Statistics
Matches: 201, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 52 0.26
40 149 0.74
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:89249539 original size:119 final size:120
Alignment explanation
Indices: 89249363--89249582 Score: 363
Period size: 119 Copynumber: 1.8 Consensus size: 120
89249353 TACTTGCTCG
*
89249363 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-
*
89249428 A-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACA
65 ACTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACA
*
89249483 AATGCCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
* **
89249547 CTAGTCACTAGTGCAAATGCCTTCGGGACTTAGCCC
66 CTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCC
89249583 GGTTATCATC
Statistics
Matches: 93, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
118 1 0.01
119 72 0.77
120 20 0.22
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
CTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACA
Found at i:89249564 original size:79 final size:79
Alignment explanation
Indices: 89249328--89249583 Score: 354
Period size: 79 Copynumber: 3.2 Consensus size: 79
89249318 AAGCCAAGTA
* * * * * * *
89249328 CCTTCGGGATTTAACCGGATATAGCT-ACTTGCTCGAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
89249392 TAACTCGCACCAATG
65 TAACTCGCACAAATG
*
89249407 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAG
1 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
89249472 TAACTCGCACAAATG
65 TAACTCGCACAAATG
89249487 CCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTAG
1 CCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAG
* * **
89249551 TCACTAGTGCAAATG
65 TAACTCGCACAAATG
89249566 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
89249584 GTTATCATCC
Statistics
Matches: 160, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.01
79 88 0.55
80 71 0.44
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:89253914 original size:29 final size:29
Alignment explanation
Indices: 89253880--89254040 Score: 112
Period size: 29 Copynumber: 5.6 Consensus size: 29
89253870 TACTCGATTT
* * *
89253880 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
89253909 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
89253938 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
89253967 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
89253996 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
89254025 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
89254041 ATCTCGTCAC
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
29 117 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:89253972 original size:58 final size:59
Alignment explanation
Indices: 89253879--89254040 Score: 204
Period size: 58 Copynumber: 2.8 Consensus size: 59
89253869 ATACTCGATT
** * * * * *
89253879 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
* * *
89253937 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
89253996 T-GCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
89254041 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
Found at i:89261867 original size:29 final size:29
Alignment explanation
Indices: 89261833--89261993 Score: 112
Period size: 29 Copynumber: 5.6 Consensus size: 29
89261823 TACTCGATTT
* * *
89261833 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
89261862 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
89261891 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
89261920 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
89261949 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
89261978 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
89261994 ATCTCGTCAC
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
29 117 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:89261925 original size:58 final size:59
Alignment explanation
Indices: 89261832--89261993 Score: 204
Period size: 58 Copynumber: 2.8 Consensus size: 59
89261822 ATACTCGATT
** * * * * *
89261832 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
* * *
89261890 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
89261949 T-GCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
89261994 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
Found at i:89269803 original size:29 final size:29
Alignment explanation
Indices: 89269769--89269929 Score: 112
Period size: 29 Copynumber: 5.6 Consensus size: 29
89269759 TACTCGATTT
* * *
89269769 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
89269798 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
89269827 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
89269856 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
89269885 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
89269914 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
89269930 ATCTCGTCAC
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
29 117 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:89269861 original size:58 final size:59
Alignment explanation
Indices: 89269768--89269929 Score: 204
Period size: 58 Copynumber: 2.8 Consensus size: 59
89269758 ATACTCGATT
** * * * * *
89269768 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
* * *
89269826 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
89269885 T-GCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
89269930 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
Found at i:89274160 original size:29 final size:29
Alignment explanation
Indices: 89274126--89274230 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
89274116 TACTCGATTT
* * *
89274126 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
89274155 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
89274184 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
89274213 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
89274231 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:89274218 original size:58 final size:59
Alignment explanation
Indices: 89274164--89274286 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 59
89274154 CCGCACACAC
* *
89274164 AGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
* * * *
89274222 AGTGCCATATATTTCCAGCAT-GCACACTCAGTGCCATATTTTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
89274280 AGTGCCA
1 AGTGCCA
89274287 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (59 bp):
AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:89274231 original size:29 final size:29
Alignment explanation
Indices: 89274185--89274286 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
89274175 CTTCGAGCTC
89274185 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
89274214 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
89274243 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
89274272 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
89274287 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:89276681 original size:37 final size:37
Alignment explanation
Indices: 89276631--89276705 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
89276621 AATCAAAGAT
89276631 AAACATTTAAATCTTACAGTCTCAGAGTTTCACACGG
1 AAACATTTAAATCTTACAGTCTCAGAGTTTCACACGG
89276668 AAACATTTAAATCTTACAGTCTCAGAGTTTCACACGG
1 AAACATTTAAATCTTACAGTCTCAGAGTTTCACACGG
89276705 A
1 A
89276706 CCAGCATCGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (37 bp):
AAACATTTAAATCTTACAGTCTCAGAGTTTCACACGG
Found at i:89278980 original size:28 final size:28
Alignment explanation
Indices: 89278934--89279002 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
89278924 TTTAAAACCC
*
89278934 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
89278961 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
89278989 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
89279003 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:89279652 original size:27 final size:27
Alignment explanation
Indices: 89279622--89279683 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
89279612 GGGCAAAATG
89279622 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
89279649 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
89279676 GTAATTTT
1 GTAATTTT
89279684 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:89279697 original size:54 final size:54
Alignment explanation
Indices: 89279639--89279789 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
89279629 TACCCCACAA
** * * *
89279639 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
89279693 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * * *
89279747 GGGTATTTTGGTGATTTTATAAACCAAGAGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
89279790 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 82 0.98
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:89279755 original size:81 final size:81
Alignment explanation
Indices: 89279637--89279789 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
89279627 TTTACCCCAC
** * *
89279637 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGAGTATTT
89279701 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
89279718 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGAGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGAGTATTT
89279782 TGGTAATT
65 TGGTAATT
89279790 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGAGTATTTT
GGTAATTTTATAAACA
Found at i:89279796 original size:27 final size:27
Alignment explanation
Indices: 89279666--89279789 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
89279656 TACCCTACAG
* *
89279666 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
89279693 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
89279720 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
89279747 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
89279774 GAGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
89279790 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:89279805 original size:54 final size:54
Alignment explanation
Indices: 89279668--89279789 Score: 190
Period size: 54 Copynumber: 2.3 Consensus size: 54
89279658 CCCTACAGGG
* * *
89279668 GTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGG
1 GTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGA
* *
89279722 GTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGA
1 GTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGA
*
89279776 GTATTTTGGTAATT
1 GTATTTTAGTAATT
89279790 CTGTAAATTG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (54 bp):
GTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGA
Found at i:89279840 original size:27 final size:28
Alignment explanation
Indices: 89279774--89279843 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 28
89279764 TATAAACCAA
* *
89279774 GAGTATTTTGGTAATTCTGTAAATTGAG
1 GAGTAATTTGGTAATTCTGTAAATCGAG
***
89279802 G-GTAAAACGGTAATTCTGTAAATCG-G
1 GAGTAATTTGGTAATTCTGTAAATCGAG
*
89279828 GAGTACTTTGGTAATT
1 GAGTAATTTGGTAATT
89279844 TTACAAGTCG
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
26 2 0.06
27 29 0.91
28 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (28 bp):
GAGTAATTTGGTAATTCTGTAAATCGAG
Found at i:89286602 original size:36 final size:36
Alignment explanation
Indices: 89286555--89286628 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
89286545 GACAAGTAAG
89286555 AAATCCCGTTTGAACCTTATGAATAAATTAGGATAC
1 AAATCCCGTTTGAACCTTATGAATAAATTAGGATAC
*
89286591 AAATCCCGTTTGAACCTTATGAATAGATTAGGATAC
1 AAATCCCGTTTGAACCTTATGAATAAATTAGGATAC
89286627 AA
1 AA
89286629 GTGACATGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (36 bp):
AAATCCCGTTTGAACCTTATGAATAAATTAGGATAC
Found at i:89293937 original size:2 final size:2
Alignment explanation
Indices: 89293932--89293956 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89293922 TATATATATA
89293932 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
89293957 ATATATATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:89294492 original size:2 final size:2
Alignment explanation
Indices: 89294485--89294530 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
89294475 TTAATATTCC
89294485 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
89294528 AT A
1 AT A
89294531 ACGTACCCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89295658 original size:50 final size:50
Alignment explanation
Indices: 89295600--89295714 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
89295590 CCACTCATTT
* * * *
89295600 GGCCGAATATGCAAGAT-CAAGTATAAGATCACATATGTACATATCTATAA
1 GGCCGAATATGCAAGATCCAA-CATAACATCACATAAGTACATACCTATAA
* * * **
89295650 GGCTGAATATACAAGTTCCAACATAACATCACATAAGTACATACCTATGT
1 GGCCGAATATGCAAGATCCAACATAACATCACATAAGTACATACCTATAA
89295700 GGCCGAATATGCAAG
1 GGCCGAATATGCAAG
89295715 GTCATTTAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 50 0.94
51 3 0.06
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (50 bp):
GGCCGAATATGCAAGATCCAACATAACATCACATAAGTACATACCTATAA
Found at i:89300917 original size:48 final size:48
Alignment explanation
Indices: 89300854--89301037 Score: 269
Period size: 48 Copynumber: 3.8 Consensus size: 48
89300844 CATTAAGGTT
* *
89300854 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGACATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTG
*
89300902 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTG
* * *
89300950 ATATGAGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTG
* ****
89300998 ATATGTGATTTTGTGTAAGACCATGTCTGGGACATGGCAT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
89301038 CGATATGAGA
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 121 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTG
Done.