Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 24 of 82
Found at i:8186753 original size:43 final size:43
Alignment explanation
Indices: 8186683--8186797 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
8186673 CATAATCACT
* * **
8186683 AGCTCATGAGCACTCCCTACTCGCACATGGCTGGGTCATCATC
1 AGCTTATGCGCACTCCCTACTCGCACATAACTGGGTCATCATC
* * * * *
8186726 GGGTTATGCGCACTCCCTACTCACACATAATTGGGTCATCCTC
1 AGCTTATGCGCACTCCCTACTCGCACATAACTGGGTCATCATC
8186769 AGCTTATGCGCACTCCCTACTCGCACATA
1 AGCTTATGCGCACTCCCTACTCGCACATA
8186798 GCCGAGTCAA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (43 bp):
AGCTTATGCGCACTCCCTACTCGCACATAACTGGGTCATCATC
Found at i:8191249 original size:22 final size:22
Alignment explanation
Indices: 8191223--8191266 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8191213 TTATAGTGGT
*
8191223 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTGGGTTTAAAG
8191245 ATCAGAGCTTTTGGGTTTAAAG
1 ATCAGAGCTTTTGGGTTTAAAG
8191267 TTGTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (22 bp):
ATCAGAGCTTTTGGGTTTAAAG
Found at i:8194773 original size:19 final size:19
Alignment explanation
Indices: 8194749--8194786 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8194739 CCATCTGACT
8194749 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
8194768 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
8194787 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:8196036 original size:13 final size:13
Alignment explanation
Indices: 8196018--8196043 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8196008 AGGAGAAATT
8196018 ATGATTTTATAAA
1 ATGATTTTATAAA
8196031 ATGATTTTATAAA
1 ATGATTTTATAAA
8196044 TTTTATGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:8197354 original size:11 final size:11
Alignment explanation
Indices: 8197340--8197369 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8197330 AATAATATTT
8197340 TATTAATAAAA
1 TATTAATAAAA
*
8197351 TATTATTAAAA
1 TATTAATAAAA
8197362 TATTAATA
1 TATTAATA
8197370 TTTAGCCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:8197803 original size:20 final size:20
Alignment explanation
Indices: 8197758--8197795 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8197748 TTTTGGCCCC
*
8197758 ATTTGACTTATTGGAGTATA
1 ATTTGACTCATTGGAGTATA
8197778 ATTTGACTCATTGGAGTA
1 ATTTGACTCATTGGAGTA
8197796 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTGACTCATTGGAGTATA
Found at i:8203028 original size:28 final size:29
Alignment explanation
Indices: 8202987--8203046 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
8202977 GTCTATGGGC
*
8202987 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
8203015 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
8203045 AA
1 AA
8203047 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:8206958 original size:4 final size:5
Alignment explanation
Indices: 8206921--8206957 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
8206911 TATCTTGTTA
*
8206921 TTTTC TTTTC CTTTC TTTTC TTTTC TTTTC -TTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
8206958 CCCACCGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:8207143 original size:35 final size:34
Alignment explanation
Indices: 8207083--8207169 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 34
8207073 CTTTTAATTT
* * *
8207083 TTCAGCAACTAAGGCTGCTTATTTTTGGCTCCAAAA
1 TTCAGCAGCTAA-GCTGCTTATTTTT-CCTCAAAAA
* *
8207119 -TCAGCAGCTATGCTGCTCTGTTTTTCCTCAAAAA
1 TTCAGCAGCTAAGCTGCT-TATTTTTCCTCAAAAA
*
8207153 TTCAGTAGCTAAGCTGC
1 TTCAGCAGCTAAGCTGC
8207170 ACTTTAACCT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
34 13 0.31
35 29 0.69
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (34 bp):
TTCAGCAGCTAAGCTGCTTATTTTTCCTCAAAAA
Found at i:8207310 original size:34 final size:33
Alignment explanation
Indices: 8207272--8207350 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
8207262 CACTTTTTGG
* *
8207272 CCTCCAAAACTAGCAAAAAAATGGCACTTTCCAA
1 CCTCCAAAACCAG-AAAAAAATGACACTTTCCAA
* * * *
8207306 CCTCCAAAACCAGTAGAAAATGACACTTTTCAG
1 CCTCCAAAACCAGAAAAAAATGACACTTTCCAA
8207339 CCTCCAAAACCA
1 CCTCCAAAACCA
8207351 ATCCCTAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 27 0.69
34 12 0.31
ACGTcount: A:0.42, C:0.32, G:0.09, T:0.18
Consensus pattern (33 bp):
CCTCCAAAACCAGAAAAAAATGACACTTTCCAA
Found at i:8208978 original size:13 final size:14
Alignment explanation
Indices: 8208950--8208978 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8208940 ACACAAAATG
8208950 TGATTTTATGAAAA
1 TGATTTTATGAAAA
8208964 TGATTTTAT-AAAA
1 TGATTTTATGAAAA
8208977 TG
1 TG
8208979 GTTCTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (14 bp):
TGATTTTATGAAAA
Found at i:8213835 original size:13 final size:13
Alignment explanation
Indices: 8213817--8213841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8213807 TTAAATGATC
8213817 TTTGAAGTTGTTG
1 TTTGAAGTTGTTG
8213830 TTTGAAGTTGTT
1 TTTGAAGTTGTT
8213842 TGTAAAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (13 bp):
TTTGAAGTTGTTG
Found at i:8214918 original size:28 final size:28
Alignment explanation
Indices: 8214818--8214911 Score: 138
Period size: 28 Copynumber: 3.4 Consensus size: 28
8214808 TTAGAGGTTG
8214818 TGCTTGAACCTTGAAAAGGCAATAGTTA
1 TGCTTGAACCTTGAAAAGGCAATAGTTA
* * *
8214846 TGCTTGATCTTTG-AAAGGCAATGGTTA
1 TGCTTGAACCTTGAAAAGGCAATAGTTA
8214873 TGCTT-AATCCTTGAAAAGGCAATAGTTA
1 TGCTTGAA-CCTTGAAAAGGCAATAGTTA
8214901 TGCTTGAACCT
1 TGCTTGAACCT
8214912 ATAAAAGTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 22 0.39
28 32 0.56
29 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCTTGAACCTTGAAAAGGCAATAGTTA
Found at i:8219492 original size:66 final size:66
Alignment explanation
Indices: 8219403--8219596 Score: 187
Period size: 66 Copynumber: 2.9 Consensus size: 66
8219393 TTACAATGGC
* * * *
8219403 TTTTCGCAA-GCTCAGCCACAACCTTTAGCAATGGTTTTTCACAAGATCAACCAAAATCCAAAGT
1 TTTTC-CAAGGCTCAACCACAACCTTTA-CAATAGTTTTTCACAGGATCAACCAAAACCCAAAGT
8219467 GGT
64 GGT
* * * * * * *
8219470 TTTT-CAAGGCTCAACCATAACCTTTTACACTAGTTTTTCACGGGCTAAACTAAAACCCAAGGTG
1 TTTTCCAAGGCTCAACCACAACC-TTTACAATAGTTTTTCACAGGATCAACCAAAACCCAAAGTG
8219534 GT
65 GT
* ** *
8219536 TTTTCCAAGGCTCAATCACAACCTACAACAATTGTTTTT-ACTAGGATCAACCAAAACCCAA
1 TTTTCCAAGGCTCAACCACAACCT-TTACAATAGTTTTTCAC-AGGATCAACCAAAACCCAA
8219597 CAACCAATTT
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
65 3 0.03
66 49 0.49
67 49 0.49
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (66 bp):
TTTTCCAAGGCTCAACCACAACCTTTACAATAGTTTTTCACAGGATCAACCAAAACCCAAAGTGG
T
Found at i:8225649 original size:46 final size:44
Alignment explanation
Indices: 8225477--8225647 Score: 195
Period size: 43 Copynumber: 3.9 Consensus size: 44
8225467 TGTTTTATGA
** * **
8225477 TGATGATGACCTTGCTATGTACGAGTAGGGAGTGTGCATAAGC-
1 TGATGATGACCGGGCTATGTGCGAGTAGGGAGTGCACATAAGCT
* *
8225520 TGATGATGACTTGGG-TATGTGCGAGTAGGGAGTGCGCATAAG-T
1 TGATGATGAC-CGGGCTATGTGCGAGTAGGGAGTGCACATAAGCT
** *
8225563 TGATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCT
1 TGATGATGACCGGGCTATGTGCGAGTAGGGAGTGCACATAAGCT
*
8225607 GATGATGATGACCGGGCTATGTGTGAGTAGGGAGTGCACAT
1 --TGATGATGACCGGGCTATGTGCGAGTAGGGAGTGCACAT
8225648 GACGATGAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 70 0.64
44 2 0.02
46 36 0.33
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (44 bp):
TGATGATGACCGGGCTATGTGCGAGTAGGGAGTGCACATAAGCT
Found at i:8231143 original size:30 final size:30
Alignment explanation
Indices: 8231109--8231228 Score: 72
Period size: 30 Copynumber: 4.0 Consensus size: 30
8231099 CTAAAGGAGG
8231109 GGAGCATCGATCTAGTGCTCCCAAGGGAAT
1 GGAGCATCGATCTAGTGCTCCCAAGGGAAT
8231139 GGAGCA-CGAAGATCT-GTGC-CCCTAAGGGAA-
1 GGAGCATC---GATCTAGTGCTCCC-AAGGGAAT
* * * * *
8231169 GAAAGGATCAATTTTGTGCTCCCAAGGG-AT
1 G-GAGCATCGATCTAGTGCTCCCAAGGGAAT
* *
8231199 GGGAGCACTAGATC-AGTGCTCCTAAGGGAA
1 -GGAGCA-TCGATCTAGTGCTCCCAAGGGAA
8231229 AAGAGCTCCT
Statistics
Matches: 67, Mismatches: 11, Indels: 23
0.66 0.11 0.23
Matches are distributed among these distances:
29 5 0.07
30 34 0.51
31 22 0.33
32 6 0.09
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (30 bp):
GGAGCATCGATCTAGTGCTCCCAAGGGAAT
Found at i:8232975 original size:34 final size:35
Alignment explanation
Indices: 8232937--8233093 Score: 108
Period size: 34 Copynumber: 4.6 Consensus size: 35
8232927 CTTAACCTTA
8232937 AAAAGCTATT-TTAAGGGTTGTGCTTACTCTAGTG
1 AAAAGCTATTGTTAAGGGTTGTGCTTACTCTAGTG
* * * *
8232971 AAAAG-GAATGTTGAGGGTTGTGCTTGCTCTCA-TG
1 AAAAGCTATTGTTAAGGGTTGTGCTTACTCT-AGTG
* ** * * *
8233005 AAAAAC-ATTGTTGTGGGTTGTGCCTACTCTCGTT
1 AAAAGCTATTGTTAAGGGTTGTGCTTACTCTAGTG
* * * * * *
8233039 AAAAGGTATTGTTAAAGGTTCTGCTTGCTCTTGTTA
1 AAAAGCTATTGTTAAGGGTTGTGCTTACTCTAG-TG
*
8233075 AAAAGC-ATTGTTGAGGGTT
1 AAAAGCTATTGTTAAGGGTT
8233094 TTGCCTGCTC
Statistics
Matches: 93, Mismatches: 24, Indels: 11
0.73 0.19 0.09
Matches are distributed among these distances:
33 2 0.02
34 54 0.58
35 31 0.33
36 6 0.06
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (35 bp):
AAAAGCTATTGTTAAGGGTTGTGCTTACTCTAGTG
Found at i:8233103 original size:35 final size:35
Alignment explanation
Indices: 8232934--8233128 Score: 137
Period size: 35 Copynumber: 5.7 Consensus size: 35
8232924 TAGCTTAACC
* * * *
8232934 TTAAAAAGCTATT-TTAAGGGTTGTGCTTACTCTAG
1 TTAAAAAGC-ATTGTTGAGGGTTGTGCCTGCTCTCG
* * * * *
8232969 -TGAAAAGGAATGTTGAGGGTTGTGCTTGCTCTCA
1 TTAAAAAGCATTGTTGAGGGTTGTGCCTGCTCTCG
* * *
8233003 TGAAAAA-CATTGTTGTGGGTTGTGCCTACTCTCG
1 TTAAAAAGCATTGTTGAGGGTTGTGCCTGCTCTCG
* * * * * * *
8233037 TTAAAAGGTATTGTTAAAGGTTCTGCTTGCTCTTG
1 TTAAAAAGCATTGTTGAGGGTTGTGCCTGCTCTCG
* * *
8233072 TTAAAAAGCATTGTTGAGGGTTTTGCCTGCTCCCA
1 TTAAAAAGCATTGTTGAGGGTTGTGCCTGCTCTCG
* *
8233107 TGAAAAAGCATTG-TAAGGGTTG
1 TTAAAAAGCATTGTTGAGGGTTG
8233129 ATCATGTAAA
Statistics
Matches: 120, Mismatches: 37, Indels: 7
0.73 0.23 0.04
Matches are distributed among these distances:
33 2 0.02
34 57 0.47
35 61 0.51
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (35 bp):
TTAAAAAGCATTGTTGAGGGTTGTGCCTGCTCTCG
Found at i:8233120 original size:70 final size:69
Alignment explanation
Indices: 8232986--8233120 Score: 153
Period size: 70 Copynumber: 1.9 Consensus size: 69
8232976 GAATGTTGAG
* * * * * * *
8232986 GGTTGTGCTTGCTCTCATGAAAAACATTGTTGTGGGTTGTGCCTACTCTCGTTAAAAGGTATTGT
1 GGTTCTGCTTGCTCTCATGAAAAACATTGTTGAGGGTTGTGCCTACTCCCATGAAAAAGCATTGT
8233051 TAAA
66 TAAA
** * * *
8233055 GGTTCTGCTTGCTCTTGTTAAAAAGCATTGTTGAGGGTTTTGCCTGCTCCCATGAAAAAGCATTG
1 GGTTCTGCTTGCTCTCATGAAAAA-CATTGTTGAGGGTTGTGCCTACTCCCATGAAAAAGCATTG
8233120 T
65 T
8233121 AAGGGTTGAT
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
69 20 0.38
70 33 0.62
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.37
Consensus pattern (69 bp):
GGTTCTGCTTGCTCTCATGAAAAACATTGTTGAGGGTTGTGCCTACTCCCATGAAAAAGCATTGT
TAAA
Found at i:8239482 original size:43 final size:43
Alignment explanation
Indices: 8239419--8239529 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
8239409 TATTGACTCT
* * *
8239419 GCTATGTGCGAGTAGGGAGTGTGCATAAGTCGAG-GATGACCCG
1 GCTATGTGCGAGTAGGGAGTGCGCATAACTCG-GTGATGACCCA
*
8239462 GTTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCA
*
8239505 GCCATGTGCGAGTAGGGAGTGCGCA
1 GCTATGTGCGAGTAGGGAGTGCGCA
8239530 GCTGGTGATG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.23, C:0.18, G:0.39, T:0.21
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCA
Found at i:8239542 original size:43 final size:42
Alignment explanation
Indices: 8239422--8239543 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 42
8239412 TGACTCTGCT
* * * **
8239422 ATGTGCGAGTAGGGAGTGTGCA-TAAGTCGAGGATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCACT-AGT-GATGATGACCCAGCC
* *
8239465 ATGTGCGAGTAGGGAGTGCGCA-TAACTCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCACT-AGT-GATGATGACCCAGCC
*
8239508 ATGTGCGAGTAGGGAGTGCGCAGCTGGTGATGATGA
1 ATGTGCGAGTAGGGAGTGCGCA-CTAGTGATGATGA
8239544 TGATGGGATG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 65 0.97
44 1 0.01
45 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.39, T:0.21
Consensus pattern (42 bp):
ATGTGCGAGTAGGGAGTGCGCACTAGTGATGATGACCCAGCC
Found at i:8247253 original size:43 final size:43
Alignment explanation
Indices: 8247192--8247295 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
8247182 GACTCGGCTG
* **
8247192 TGTGCGAGTAGAGAGTGCGCATAAACAAGGGATGACCC-GATTA
1 TGTGCGAGTAGGGAGTGCGCATAAACAAGGGATGACCCAG-CCA
* ** *
8247235 TGTGCGAGTAGGGAGTGCGCATAACCCTGTGATGACCCAGCCA
1 TGTGCGAGTAGGGAGTGCGCATAAACAAGGGATGACCCAGCCA
8247278 TGTGCGAGTAGGGAGTGC
1 TGTGCGAGTAGGGAGTGC
8247296 ACATGAGCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.36, T:0.19
Consensus pattern (43 bp):
TGTGCGAGTAGGGAGTGCGCATAAACAAGGGATGACCCAGCCA
Found at i:8247355 original size:23 final size:23
Alignment explanation
Indices: 8247309--8247356 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8247299 TGAGCTAGTG
* *
8247309 ATGATGATGATGGGATGGTGTGT
1 ATGATGATGATGGGATGATATGT
8247332 ATGATGATGATGGGTAT-ATATGT
1 ATGATGATGATGGG-ATGATATGT
8247355 AT
1 AT
8247357 ACATATATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (23 bp):
ATGATGATGATGGGATGATATGT
Found at i:8247723 original size:39 final size:39
Alignment explanation
Indices: 8247669--8247760 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 39
8247659 CTGTAGCTTC
* * *
8247669 TCGCTGCAGCGAGAAACATTTTGTTTTTGGTTTACAATT
1 TCGCTGCAGCGAGAAACATTATGTTTTTGGGTCACAATT
* *
8247708 TCGCTACAGCGAGAAACATTATGTTTTTGGGTCATAATT
1 TCGCTGCAGCGAGAAACATTATGTTTTTGGGTCACAATT
*
8247747 TTGCTGCAGCGAGA
1 TCGCTGCAGCGAGA
8247761 TTCAATCTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (39 bp):
TCGCTGCAGCGAGAAACATTATGTTTTTGGGTCACAATT
Found at i:8254295 original size:39 final size:39
Alignment explanation
Indices: 8254219--8254312 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
8254209 AGACCAAAAT
* *
8254219 AGAAGGTTTTTCGCTGCAGCGAAATTGTAACCCTGAAAC
1 AGAAGGTTTTTCGCTGCAGCGAAATTGCAACCATGAAAC
* * *
8254258 AGAAGGTTTCTCGCTGCAGCGAAATT-CAGCTGATGAAAC
1 AGAAGGTTTTTCGCTGCAGCGAAATTGCAAC-CATGAAAC
8254297 AG-AGAGTTTTTCGCTG
1 AGAAG-GTTTTTCGCTG
8254313 TAGCAAGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 4 0.09
39 43 0.91
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (39 bp):
AGAAGGTTTTTCGCTGCAGCGAAATTGCAACCATGAAAC
Found at i:8255650 original size:19 final size:20
Alignment explanation
Indices: 8255621--8255663 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
8255611 AGGGAAGAAG
8255621 AAGACAGCTGCTGGAATTTC
1 AAGACAGCTGCTGGAATTTC
8255641 AAGA-AGCTGCTGGAATTTC
1 AAGACAGCTGCTGGAATTTC
8255660 AAGA
1 AAGA
8255664 TATTTATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (20 bp):
AAGACAGCTGCTGGAATTTC
Found at i:8259741 original size:19 final size:20
Alignment explanation
Indices: 8259717--8259756 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8259707 GATGAAGAAC
8259717 AAGAAGTTGCTGGA-AAATG
1 AAGAAGTTGCTGGAGAAATG
*
8259736 AAGAAGTTGTTGGAGAAATG
1 AAGAAGTTGCTGGAGAAATG
8259756 A
1 A
8259757 GATATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.23
Consensus pattern (20 bp):
AAGAAGTTGCTGGAGAAATG
Found at i:8260837 original size:35 final size:35
Alignment explanation
Indices: 8260750--8260853 Score: 117
Period size: 35 Copynumber: 3.0 Consensus size: 35
8260740 CCAAAATAAT
* * *
8260750 TAAACCTACTAGTAATACAATTAATCAT-CTTACA
1 TAAACTTACTAGGAATATAATTAATCATCCTTACA
* *
8260784 TAAACTTA-TCGGCGATATAATTAATCATCCTT-CA
1 TAAACTTACTAGG-AATATAATTAATCATCCTTACA
8260818 TAAAACTTACTAGGAATATAATTAATCATCC-TACA
1 T-AAACTTACTAGGAATATAATTAATCATCCTTACA
8260853 T
1 T
8260854 TACGGTTCCT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
33 2 0.03
34 24 0.41
35 29 0.50
36 3 0.05
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (35 bp):
TAAACTTACTAGGAATATAATTAATCATCCTTACA
Found at i:8265542 original size:43 final size:43
Alignment explanation
Indices: 8265424--8265545 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
8265414 TGACTTAGCT
* * * * **
8265424 ATGTGCGAGTAAGGAGTGCTCATAGGTCGATGATGAACCAGTT
1 ATGTGCGAGTAGGGAGTGCACATAGCTCGGTGATGAACCAGCC
* * * *
8265467 ATGTGCGAGAAGGAAGTGCACATAACTCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCACATAGCTCGGTGATGAACCAGCC
8265510 ATGTGCGAGTAGGGAGTGCACATGAGCT-GGTGATGA
1 ATGTGCGAGTAGGGAGTGCACAT-AGCTCGGTGATGA
8265546 TGAGACGAAG
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 62 0.95
44 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.34, T:0.21
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCACATAGCTCGGTGATGAACCAGCC
Found at i:8265570 original size:23 final size:23
Alignment explanation
Indices: 8265540--8265595 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
8265530 CATGAGCTGG
8265540 TGATGATGAGACGAAGTGCATGA
1 TGATGATGAGACGAAGTGCATGA
* * **
8265563 TGATGATGGGATGGTGTGCATGA
1 TGATGATGAGACGAAGTGCATGA
8265586 TGATGATGAG
1 TGATGATGAG
8265596 TATATGTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.39, T:0.27
Consensus pattern (23 bp):
TGATGATGAGACGAAGTGCATGA
Found at i:8271272 original size:76 final size:75
Alignment explanation
Indices: 8271142--8271292 Score: 293
Period size: 76 Copynumber: 2.0 Consensus size: 75
8271132 CATCTCATCT
8271142 CACCCAGCTCATGTGCATCCCACCACATTGTGCACATAGTCGAACGTCCCATCTGACCCAACTCA
1 CACCCAGCTCATGTGCATCCCACCACATTGTGCACATAGTCGAACGTCCCATCTGACCCAACTCA
8271207 TGTGAATCCC
66 TGTGAATCCC
8271217 CACCNCAGCTCATGTGCATCCCACCACATTGTGCACATAGTCGAACGTCCCATCTGACCCAACTC
1 CACC-CAGCTCATGTGCATCCCACCACATTGTGCACATAGTCGAACGTCCCATCTGACCCAACTC
8271282 ATGTGAATCCC
65 ATGTGAATCCC
8271293 ACCACATCGT
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 4 0.05
76 71 0.95
ACGTcount: A:0.25, C:0.38, G:0.15, T:0.21
Consensus pattern (75 bp):
CACCCAGCTCATGTGCATCCCACCACATTGTGCACATAGTCGAACGTCCCATCTGACCCAACTCA
TGTGAATCCC
Found at i:8271292 original size:54 final size:54
Alignment explanation
Indices: 8271217--8271401 Score: 282
Period size: 54 Copynumber: 3.4 Consensus size: 54
8271207 TGTGAATCCC
* *
8271217 CACCNCAGCTCATGTGCATCCCACCACATTGTGCACATAGTCGAACGTCCCATCT
1 CACC-CAGCTCATGTGCATCCCACCACATCGTGCACATAGTCGAACATCCCATCT
* * *
8271272 GACCCAACTCATGTGAATCCCACCACATCGTGCACATAGTCGAACATCCCATCT
1 CACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCGAACATCCCATCT
*
8271326 CACCCAGCTCATGTGCATCCCACCACATCGTGCACATAG-CCAGACATCCCATCT
1 CACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCGA-ACATCCCATCT
*
8271380 CACTCAGCTCATGTGCATCCCA
1 CACCCAGCTCATGTGCATCCCA
8271402 TCTCACCCAA
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
53 2 0.02
54 114 0.96
55 3 0.03
ACGTcount: A:0.26, C:0.39, G:0.14, T:0.21
Consensus pattern (54 bp):
CACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCGAACATCCCATCT
Found at i:8271344 original size:25 final size:25
Alignment explanation
Indices: 8271316--8271480 Score: 96
Period size: 25 Copynumber: 6.3 Consensus size: 25
8271306 CATAGTCGAA
8271316 CATCCCATCTCACCCAGCTCATGTG
1 CATCCCATCTCACCCAGCTCATGTG
* * * ** * *
8271341 CATCCCACCACATCGTGCACATAGCCAG
1 CATCCCATCTCACCCAGCTCAT-G--TG
*
8271369 ACATCCCATCTCACTCAGCTCATGTG
1 -CATCCCATCTCACCCAGCTCATGTG
*
8271395 CATCCCATCTCACCCAACTCATGTG
1 CATCCCATCTCACCCAGCTCATGTG
* * * * ** * *
8271420 TATCCCACCACATCGTGCACATAGCAGG
1 CATCCCATCTCACCCAGCTCAT-G--TG
*
8271448 ATATCCCATCTCACCCAGCTCATGTG
1 -CATCCCATCTCACCCAGCTCATGTG
8271474 CATCCCA
1 CATCCCA
8271481 CCACATTGTG
Statistics
Matches: 98, Mismatches: 34, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
25 59 0.60
26 4 0.04
28 4 0.04
29 31 0.32
ACGTcount: A:0.25, C:0.41, G:0.12, T:0.22
Consensus pattern (25 bp):
CATCCCATCTCACCCAGCTCATGTG
Found at i:8271404 original size:79 final size:79
Alignment explanation
Indices: 8271316--8271480 Score: 278
Period size: 79 Copynumber: 2.1 Consensus size: 79
8271306 CATAGTCGAA
*
8271316 CATCCCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCA-GACATCCCATCT
1 CATCCCATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAG-CAGGACATCCCATCT
*
8271380 CACTCAGCTCATGTG
65 CACCCAGCTCATGTG
* *
8271395 CATCCCATCTCACCCAACTCATGTGTATCCCACCACATCGTGCACATAGCAGGATATCCCATCTC
1 CATCCCATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCAGGACATCCCATCTC
8271460 ACCCAGCTCATGTG
66 ACCCAGCTCATGTG
8271474 CATCCCA
1 CATCCCA
8271481 CCACATTGTG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
78 2 0.02
79 79 0.98
ACGTcount: A:0.25, C:0.41, G:0.12, T:0.22
Consensus pattern (79 bp):
CATCCCATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCAGGACATCCCATCTC
ACCCAGCTCATGTG
Found at i:8271440 original size:133 final size:132
Alignment explanation
Indices: 8271131--8271497 Score: 408
Period size: 133 Copynumber: 2.8 Consensus size: 132
8271121 TTTCCAACAA
* * * * *
8271131 ACATCTCATCTCACCCAGCTCATGTGCATCCCACCACATTGTGCACATAGTCGAACGTCCCATCT
1 ACATCCCATCTCACCCAACTCATGTGAATCCCACCACATCGTGCACATAGTCGAACATCCCATCT
* * * * * * * **
8271196 GACCCAACTCATGTGAATCCCCACCNCA---GCTCAT-GTGCATCCCACCACATTGTGCACATAG
66 CACCCAGCTCATGTGCAT-CCCACCACATGTGCACATAGAGCATCCCACCACACTCAGCACATAG
8271257 TCG
130 TCG
* *
8271260 AACGTCCCATCTGACCCAACTCATGTGAATCCCACCACATCGTGCACATAGTCGAACATCCCATC
1 -ACATCCCATCTCACCCAACTCATGTGAATCCCACCACATCGTGCACATAGTCGAACATCCCATC
* * *
8271325 TCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCCCATCTCACTCAGCTC
65 TCACCCAGCTCATGTGCATCCCACCACAT-GTGCACATAG--AG-CATCCCACCACACTCAGCAC
8271390 AT-GT-G
126 ATAGTCG
* * *
8271395 -CATCCCATCTCACCCAACTCATGTGTATCCCACCACATCGTGCACATAG-CAGGATATCCCATC
1 ACATCCCATCTCACCCAACTCATGTGAATCCCACCACATCGTGCACATAGTC-GAACATCCCATC
8271458 TCACCCAGCTCATGTGCATCCCACCACATTGTGCACATAG
65 TCACCCAGCTCATGTGCATCCCACCACA-TGTGCACATAG
8271498 TAGGATAGTA
Statistics
Matches: 203, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
129 8 0.04
130 73 0.36
132 1 0.00
133 99 0.49
134 2 0.01
135 1 0.00
136 3 0.01
137 16 0.08
ACGTcount: A:0.26, C:0.39, G:0.13, T:0.22
Consensus pattern (132 bp):
ACATCCCATCTCACCCAACTCATGTGAATCCCACCACATCGTGCACATAGTCGAACATCCCATCT
CACCCAGCTCATGTGCATCCCACCACATGTGCACATAGAGCATCCCACCACACTCAGCACATAGT
CG
Found at i:8271454 original size:54 final size:54
Alignment explanation
Indices: 8271396--8271504 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
8271386 GCTCATGTGC
*
8271396 ATCCCATCTCACCCAACTCATGTGTATCCCACCACATCGTGCACATAGCAGGAT
1 ATCCCATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCAGGAT
* * *
8271450 ATCCCATCTCACCCAGCTCATGTGCATCCCACCACATTGTGCACATAGTAGGAT
1 ATCCCATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCAGGAT
8271504 A
1 A
8271505 GTATCACCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.28, C:0.36, G:0.14, T:0.23
Consensus pattern (54 bp):
ATCCCATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCAGGAT
Found at i:8278784 original size:108 final size:107
Alignment explanation
Indices: 8278603--8278805 Score: 329
Period size: 108 Copynumber: 1.9 Consensus size: 107
8278593 AACATCCTGC
* *
8278603 CTCACCCAGCTCATGTGCATCCCACCACATAGTGCACATAGTCGAACGTCCCATCTCACCCAGCT
1 CTCACCCAACTCATGTGCATCCCACCACATAGTGCACATAGCCGAAC-TCCCATCTCACCCAGCT
8278668 CATGTGCATCCCACCACATCGTGCACATAGTCGGGCATCCCAT
65 CATGTGCATCCCACCACATCGTGCACATAGTCGGGCATCCCAT
*
8278711 CTCACCCAACTCATGTGCATCCCACCACATCA-TGCACATAGCCAGATA-TCCCATCTCACCTAG
1 CTCACCCAACTCATGTGCATCCCACCACAT-AGTGCACATAGCC-GA-ACTCCCATCTCACCCAG
8278774 CTCATGTGCATCCCACCACATCGTGCACATAG
63 CTCATGTGCATCCCACCACATCGTGCACATAG
8278806 CTGGACAGTA
Statistics
Matches: 89, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
108 85 0.96
109 3 0.03
110 1 0.01
ACGTcount: A:0.26, C:0.40, G:0.14, T:0.21
Consensus pattern (107 bp):
CTCACCCAACTCATGTGCATCCCACCACATAGTGCACATAGCCGAACTCCCATCTCACCCAGCTC
ATGTGCATCCCACCACATCGTGCACATAGTCGGGCATCCCAT
Found at i:8278806 original size:54 final size:52
Alignment explanation
Indices: 8278603--8278806 Score: 291
Period size: 54 Copynumber: 3.8 Consensus size: 52
8278593 AACATCCTGC
* *
8278603 CTCACCCAGCTCATGTGCATCCCACCACATAGTGCACATAGTCGAACGTCCCAT
1 CTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAA--TCCCAT
* *
8278657 CTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCGGGCATCCCAT
1 CTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAG-C-CGAATCCCAT
* *
8278711 CTCACCCAACTCATGTGCATCCCACCACATCATGCACATAGCCAGATATCCCAT
1 CTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCC-GA-ATCCCAT
*
8278765 CTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGC
1 CTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGC
8278807 TGGACAGTAT
Statistics
Matches: 135, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
53 2 0.01
54 131 0.97
56 2 0.01
ACGTcount: A:0.25, C:0.40, G:0.14, T:0.21
Consensus pattern (52 bp):
CTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAATCCCAT
Found at i:8283508 original size:36 final size:36
Alignment explanation
Indices: 8283425--8283518 Score: 156
Period size: 35 Copynumber: 2.6 Consensus size: 36
8283415 GTAACCGTGC
8283425 ATGTGCGGTGTGGGAGTGCACATGATGATATTACCT
1 ATGTGCGGTGTGGGAGTGCACATGATGATATTACCT
*
8283461 -TGTGCGGTGTGGGAGTGCACATGATGAT-TCTAGCT
1 ATGTGCGGTGTGGGAGTGCACATGATGATAT-TACCT
8283496 ATGTGCGGTGTGGGAGTGCACAT
1 ATGTGCGGTGTGGGAGTGCACAT
8283519 AAGTTGGTGA
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
34 1 0.02
35 32 0.58
36 22 0.40
ACGTcount: A:0.19, C:0.14, G:0.37, T:0.30
Consensus pattern (36 bp):
ATGTGCGGTGTGGGAGTGCACATGATGATATTACCT
Found at i:8283907 original size:73 final size:74
Alignment explanation
Indices: 8283755--8283925 Score: 195
Period size: 73 Copynumber: 2.3 Consensus size: 74
8283745 CAGATTTTAG
* * *
8283755 CTGCAACGAAAATGCATTCTCACTGCAGCTAGAAACTCTCAGGTAGTTGGGTAAAACGCTTGCTC
1 CTGCAGCGAAAATTCATTCTCACTGCAGCGAGAAACTCTCAGGTAGTTGGGTAAAACGCTTGCTC
*
8283820 GAGTTTTCA
66 GAATTTTCA
* * * **
8283829 CTGCAGCG-AAATTCATTCTCACTGCAGCGAGAAACTCTCGGGTGGTTGGTTCAAAA-TTTTGCC
1 CTGCAGCGAAAATTCATTCTCACTGCAGCGAGAAACTCTCAGGTAGTTGGGT-AAAACGCTTG-C
* *
8283892 TTGAATTTT-G
64 TCGAATTTTCA
*
8283902 TTGCAGCGAAAATTCATTCTCACT
1 CTGCAGCGAAAATTCATTCTCACT
8283926 ATAGGGAGTT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
73 48 0.59
74 34 0.41
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (74 bp):
CTGCAGCGAAAATTCATTCTCACTGCAGCGAGAAACTCTCAGGTAGTTGGGTAAAACGCTTGCTC
GAATTTTCA
Found at i:8289162 original size:38 final size:38
Alignment explanation
Indices: 8289109--8289212 Score: 113
Period size: 38 Copynumber: 2.7 Consensus size: 38
8289099 AATAGTGCCC
*
8289109 ATGTGCACGATGTGGGGGGATGTACACGAT-AGC-ACT
1 ATGTGCATGATGTGGGGGGATGTACACGATGAGCGACT
* * * *
8289145 AATCGTGCATGATGTGGGGGGATGCACATGATGGTGCTGGCT
1 -AT-GTGCATGATGTGGGGGGATGTACACGAT-GAGC-GACT
8289187 ATGTGCATGATGTGGGGGGATGTACA
1 ATGTGCATGATGTGGGGGGATGTACA
8289213 TGAGCCGGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
37 2 0.04
38 25 0.45
40 25 0.45
41 2 0.04
42 2 0.04
ACGTcount: A:0.22, C:0.13, G:0.39, T:0.25
Consensus pattern (38 bp):
ATGTGCATGATGTGGGGGGATGTACACGATGAGCGACT
Found at i:8289176 original size:19 final size:19
Alignment explanation
Indices: 8289152--8289215 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
8289142 ACTAATCGTG
*
8289152 CATGATGTGGGGGGATGCA
1 CATGATGTGGGGGGATGTA
* ** *
8289171 CATGATGGTGCTGGCTATGTG
1 CATGAT-GTG-GGGGGATGTA
8289192 CATGATGTGGGGGGATGTA
1 CATGATGTGGGGGGATGTA
8289211 CATGA
1 CATGA
8289216 GCCGGGAGTG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 17 0.50
20 6 0.18
21 11 0.32
ACGTcount: A:0.20, C:0.11, G:0.42, T:0.27
Consensus pattern (19 bp):
CATGATGTGGGGGGATGTA
Found at i:8315840 original size:35 final size:35
Alignment explanation
Indices: 8315791--8315869 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
8315781 AGTGTGGATA
* *
8315791 ATGATATTAAAGTGTATGAGTAAGG-AGTGCACAAG
1 ATGATATTGAAGTGTACGAGT-AGGCAGTGCACAAG
* * *
8315826 ATGATATTGGAGTGTGCGAGTAGGCAGTGCACATG
1 ATGATATTGAAGTGTACGAGTAGGCAGTGCACAAG
8315861 ATGATATTG
1 ATGATATTG
8315870 CCTGTGCATG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 3 0.08
35 35 0.92
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.28
Consensus pattern (35 bp):
ATGATATTGAAGTGTACGAGTAGGCAGTGCACAAG
Found at i:8317885 original size:24 final size:24
Alignment explanation
Indices: 8317858--8317904 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
8317848 AACAGTTAAG
8317858 GTCCTTTTGTTAAAAACTCTATAA
1 GTCCTTTTGTTAAAAACTCTATAA
8317882 GTCCTTTTGTTAAAAACTCTATA
1 GTCCTTTTGTTAAAAACTCTATA
8317905 GGCCTTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.43
Consensus pattern (24 bp):
GTCCTTTTGTTAAAAACTCTATAA
Found at i:8317910 original size:23 final size:24
Alignment explanation
Indices: 8317854--8317911 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
8317844 CTTTAACAGT
8317854 TAAGGTCCTTTTGTTAAAAACTCTA
1 TAAGG-CCTTTTGTTAAAAACTCTA
*
8317879 TAAGTCCTTTTGTTAAAAACTCTA
1 TAAGGCCTTTTGTTAAAAACTCTA
8317903 T-AGGCCTTT
1 TAAGGCCTTT
8317912 GAGTTTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 7 0.23
24 20 0.65
25 4 0.13
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (24 bp):
TAAGGCCTTTTGTTAAAAACTCTA
Found at i:8330636 original size:31 final size:31
Alignment explanation
Indices: 8330601--8330659 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8330591 TTGTTATTTG
*
8330601 TTTTGAACTTTGGATTTGGTATTTGTTTAGA
1 TTTTGAACTTTGGATTTGATATTTGTTTAGA
**
8330632 TTTTGGTCTTTGGATTTGATATTTGTTT
1 TTTTGAACTTTGGATTTGATATTTGTTT
8330660 TGACCTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.15, C:0.03, G:0.22, T:0.59
Consensus pattern (31 bp):
TTTTGAACTTTGGATTTGATATTTGTTTAGA
Found at i:8330669 original size:31 final size:31
Alignment explanation
Indices: 8330608--8330674 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
8330598 TTGTTTTGAA
* **
8330608 CTTTGGATTTGGTATTTGTTTAGATTTTGGT
1 CTTTGGATTTGATATTTGTTTAGACCTTGGT
*
8330639 CTTTGGATTTGATATTTGTTTTGACCTTGGT
1 CTTTGGATTTGATATTTGTTTAGACCTTGGT
*
8330670 GTTTG
1 CTTTG
8330675 AGTTTTGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.12, C:0.06, G:0.25, T:0.57
Consensus pattern (31 bp):
CTTTGGATTTGATATTTGTTTAGACCTTGGT
Found at i:8339254 original size:16 final size:16
Alignment explanation
Indices: 8339233--8339267 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8339223 ATAAAATATT
*
8339233 ATGTTTTCTAATTAAA
1 ATGTTTTCTAATAAAA
*
8339249 ATGTTTTTTAATAAAA
1 ATGTTTTCTAATAAAA
8339265 ATG
1 ATG
8339268 AGATTTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATGTTTTCTAATAAAA
Found at i:8354815 original size:61 final size:60
Alignment explanation
Indices: 8354720--8354840 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 60
8354710 CCATGAGATT
*
8354720 AATATGCCTTGCAAGGGAACTGTAATGGGTTGTAGTTATTAGATCCTTATGCATCAAAGC
1 AATATGCCTTGCAAGGGAACTGTAATGGGTTGTAGTTATGAGATCCTTATGCATCAAAGC
8354780 NAATATGCCTTGCAAGGGAACTGTAATGGGTTGTAGTTATGAGATCCTTATGCATCAAAGC
1 -AATATGCCTTGCAAGGGAACTGTAATGGGTTGTAGTTATGAGATCCTTATGCATCAAAGC
8354841 GTAACCTCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (60 bp):
AATATGCCTTGCAAGGGAACTGTAATGGGTTGTAGTTATGAGATCCTTATGCATCAAAGC
Found at i:8355488 original size:15 final size:15
Alignment explanation
Indices: 8355468--8355496 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8355458 GAATGAATTA
8355468 CACTGAAAGGTTGAT
1 CACTGAAAGGTTGAT
8355483 CACTGAAAGGTTGA
1 CACTGAAAGGTTGA
8355497 GTCAAACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (15 bp):
CACTGAAAGGTTGAT
Found at i:8355950 original size:106 final size:106
Alignment explanation
Indices: 8355806--8356032 Score: 246
Period size: 106 Copynumber: 2.2 Consensus size: 106
8355796 TTAAGTTGTG
* * * ** *
8355806 CCTAATTAACTAAA-TTATTTAATTGAATCATTGGGCCTAATTAATT-AAATTGTTTAATTAAGT
1 CCTAATTGATTAAATTTGTTTAATTGAATCATTCAGCCTAATTAATTAAAATTGTTTAATTAAAT
8355869 CATTGGGCCT-AATTAATTAAATTAAAAAATTAAGTCATTGGA
66 CATT-GG-CTGAATTAATTAAATTAAAAAATTAAGTCATTGGA
* * * *
8355911 CCTAATTTATTGAATTTGTTTAATT-AAGTCATTCAGCCTAGTTGATTAAAATTGTTTAATTAAA
1 CCTAATTGATTAAATTTGTTTAATTGAA-TCATTCAGCCTAATTAATTAAAATTGTTTAATTAAA
** *** * *
8355975 TTGTTGGCTGAATTAATTAAATTATTTAATTAAGTTATTGGG
65 TCATTGGCTGAATTAATTAAATTAAAAAATTAAGTCATTGGA
8356017 CCTAATTGATTAAATT
1 CCTAATTGATTAAATT
8356033 AAACAATTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
105 15 0.15
106 67 0.67
107 18 0.18
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (106 bp):
CCTAATTGATTAAATTTGTTTAATTGAATCATTCAGCCTAATTAATTAAAATTGTTTAATTAAAT
CATTGGCTGAATTAATTAAATTAAAAAATTAAGTCATTGGA
Found at i:8356003 original size:34 final size:35
Alignment explanation
Indices: 8355805--8356093 Score: 195
Period size: 35 Copynumber: 8.0 Consensus size: 35
8355795 ATTAAGTTGT
* * *
8355805 GCCTAATTAACTAAATTATTTAATTGAATCATTGG
1 GCCTAATTAATTAAATTATTTAATTAAATTATTGG
* * *
8355840 GCCTAATTAATTAAATTGTTTAATTAAGTCATTGG
1 GCCTAATTAATTAAATTATTTAATTAAATTATTGG
*** * *
8355875 GCCTAATTAATTAAATTAAAAAATTAAGTCATTGG
1 GCCTAATTAATTAAATTATTTAATTAAATTATTGG
* * * * * * **
8355910 ACCTAATTTATTGAATTTGTTTAATTAAGTCATTCA
1 GCCTAATTAATT-AAATTATTTAATTAAATTATTGG
* * * *
8355946 GCCTAGTTGATTAAAATTGTTTAATTAAATTGTT-G
1 GCCTAATTAATT-AAATTATTTAATTAAATTATTGG
*
8355981 G-CTGAATTAATTAAATTATTTAATTAAGTTATTGG
1 GCCT-AATTAATTAAATTATTTAATTAAATTATTGG
* *** *
8356016 GCCTAATTGATTAAATTAAACAATTAAGTTAATTGG
1 GCCTAATTAATTAAATTATTTAATTAAATT-ATTGG
*
8356052 GCTTCTTAAGGACTTAATTAAATTATTTAATCAAATTATTGG
1 GC--C-T-A--A-TTAATTAAATTATTTAATTAAATTATTGG
8356094 ATTAATTAAA
Statistics
Matches: 201, Mismatches: 41, Indels: 17
0.78 0.16 0.07
Matches are distributed among these distances:
34 20 0.10
35 103 0.51
36 51 0.25
38 1 0.00
39 1 0.00
40 1 0.00
42 6 0.03
43 18 0.09
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (35 bp):
GCCTAATTAATTAAATTATTTAATTAAATTATTGG
Found at i:8356046 original size:35 final size:35
Alignment explanation
Indices: 8355785--8356033 Score: 231
Period size: 35 Copynumber: 7.2 Consensus size: 35
8355775 CACTAGATTA
* * *
8355785 AAATTGTTTAATTAAG---TTGTGCCTAATTAACT
1 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
8355817 AAATTATTTAATTGAA-TCATTGGGCCTAATTAATT
1 AAATTATTTAATT-AAGTCATTGGGCCTAATTAATT
*
8355852 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
*** * *
8355887 AAATTAAAAAATTAAGTCATTGGACCTAATTTATT
1 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
* * ** * *
8355922 GAATTTGTTTAATTAAGTCATTCAGCCTAGTTGATT
1 -AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
* * **
8355958 AAAATTGTTTAATTAAATTGTT-GG-CTGAATTAATT
1 -AAATTATTTAATTAAGTCATTGGGCCT-AATTAATT
* *
8355993 AAATTATTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
8356028 AAATTA
1 AAATTA
8356034 AACAATTAAG
Statistics
Matches: 176, Mismatches: 32, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
32 12 0.07
33 2 0.01
34 22 0.12
35 96 0.55
36 44 0.25
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.43
Consensus pattern (35 bp):
AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:8372504 original size:64 final size:63
Alignment explanation
Indices: 8372403--8372529 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 63
8372393 CACTTTCTCT
8372403 CACTAGTTGAAAGTTTTAGAAAGAGAAAGAGAGACTTGCCATAATAGCTTGCAAGCTTTTGAA
1 CACTAGTTGAAAGTTTTAGAAAGAGAAAGAGAGACTTGCCATAATAGCTTGCAAGCTTTTGAA
* * *
8372466 NCACTAGTTGAAAGTTTTAGAGAGAGAAAGAGAGACTTGCCATAGTAGCTTGGAAGCTTTTGAA
1 -CACTAGTTGAAAGTTTTAGAAAGAGAAAGAGAGACTTGCCATAATAGCTTGCAAGCTTTTGAA
8372530 AAGGAATTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (63 bp):
CACTAGTTGAAAGTTTTAGAAAGAGAAAGAGAGACTTGCCATAATAGCTTGCAAGCTTTTGAA
Found at i:8373809 original size:43 final size:43
Alignment explanation
Indices: 8373762--8373927 Score: 197
Period size: 43 Copynumber: 3.9 Consensus size: 43
8373752 CATCATCCCA
* * * ** *
8373762 TCATCATCAGCTCATGTGCACTCCCTACTTGCACATGGCTAGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCGCACATAACCAGG
* * *
8373805 TCATCACCGGTTTATGTGCACTCCCTACTCGCACATAACCGGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCGCACATAACCAGG
* * *
8373848 TCATCATCGGCTTTTGTGCACTCCTTACTCGCACATAACCGGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCGCACATAACCAGG
** *
8373891 TCATCATCGGCTTATGCACACTCTCTACTCGCACATA
1 TCATCATCGGCTTATGTGCACTCCCTACTCGCACATA
8373928 GCTGAGTCAA
Statistics
Matches: 105, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.21, C:0.34, G:0.17, T:0.28
Consensus pattern (43 bp):
TCATCATCGGCTTATGTGCACTCCCTACTCGCACATAACCAGG
Found at i:8376703 original size:57 final size:57
Alignment explanation
Indices: 8376620--8376730 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 57
8376610 TGTTGCCACC
* *
8376620 GCTGAAGGAGGAAAGGGCTGCTTGTAGTGAAG-GTTGTCCCCTATGAGTGGAGCCGCT
1 GCTGAAGGAGGAAAAGGCTGCTTGTAGTG-AGTGTCGTCCCCTATGAGTGGAGCCGCT
* * *
8376677 GCTGAATGAGGAAAAGGTTGGTTGTAGTGAGTGTCGTCCCCTATGAGTGGAGCC
1 GCTGAAGGAGGAAAAGGCTGCTTGTAGTGAGTGTCGTCCCCTATGAGTGGAGCC
8376731 CAACTGTGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 2 0.04
57 46 0.96
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (57 bp):
GCTGAAGGAGGAAAAGGCTGCTTGTAGTGAGTGTCGTCCCCTATGAGTGGAGCCGCT
Found at i:8381673 original size:2 final size:2
Alignment explanation
Indices: 8381668--8381694 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8381658 AAATATTATT
8381668 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8381695 AACTCCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8383492 original size:80 final size:80
Alignment explanation
Indices: 8383358--8383518 Score: 252
Period size: 80 Copynumber: 2.0 Consensus size: 80
8383348 AGAGGTCAAT
* *
8383358 CATCTAATACTTAATGAGGGGATGCAGATAAATCAAATGTAATAGTGCAAATAAATAAATACATA
1 CATCTAATACTCAATAAGGGGATGCAGATAAATCAAATGTAATAGTGCAAATAAATAAATACATA
8383423 TAAGCATTCATAATG
66 TAAGCATTCATAATG
* * *
8383438 CATCTGATACTCAATAAGGGGATGCA-AGTAAATCAAATGTAATAGTGTAGATAAATAAATACAT
1 CATCTAATACTCAATAAGGGGATGCAGA-TAAATCAAATGTAATAGTGCAAATAAATAAATACAT
*
8383502 ATAAGCATTCATGATG
65 ATAAGCATTCATAATG
8383518 C
1 C
8383519 TTTCACACAT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 1 0.01
80 73 0.99
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (80 bp):
CATCTAATACTCAATAAGGGGATGCAGATAAATCAAATGTAATAGTGCAAATAAATAAATACATA
TAAGCATTCATAATG
Found at i:8385613 original size:20 final size:19
Alignment explanation
Indices: 8385591--8385627 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8385581 AAGTGGAAAT
8385591 TTTTTGAATAAAATAATAA
1 TTTTTGAATAAAATAATAA
*
8385610 TTTTTGGATAAAATAATA
1 TTTTTGAATAAAATAATA
8385628 TTAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (19 bp):
TTTTTGAATAAAATAATAA
Found at i:8388724 original size:73 final size:73
Alignment explanation
Indices: 8388647--8388815 Score: 214
Period size: 73 Copynumber: 2.3 Consensus size: 73
8388637 TCAGAAATAG
* * * * * *
8388647 AGACGACTTAATCGACTAAGAAGTATTGTGAGTTGACTAAGAGCTTACTGTCAGAAA-CTGAGTT
1 AGACGACTTAATTGACTAAGAAGTATTATGAGTCGACTAAGAGATCACTGCCAGAAATCTG-GTT
*
8388711 CAGAGACAA
65 CAAAGACAA
* * *
8388720 AGACGACTTAATTGACTAAGAAGTATTATTAGTCGACTAAGAGATCATTGCCAGAAATTTGGTTC
1 AGACGACTTAATTGACTAAGAAGTATTATGAGTCGACTAAGAGATCACTGCCAGAAATCTGGTTC
8388785 AAAGACAA
66 AAAGACAA
* *
8388793 AGATGACTTAATTGACTCAGAAG
1 AGACGACTTAATTGACTAAGAAG
8388816 CATAGTTAGT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
73 81 0.98
74 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (73 bp):
AGACGACTTAATTGACTAAGAAGTATTATGAGTCGACTAAGAGATCACTGCCAGAAATCTGGTTC
AAAGACAA
Found at i:8394049 original size:10 final size:10
Alignment explanation
Indices: 8394031--8394085 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
8394021 GAAAAAACTG
8394031 AGAAA-AAAA
1 AGAAAGAAAA
8394040 AGAAAGAAAAA
1 AGAAAG-AAAA
8394051 AGAACA-AAAA
1 AGAA-AGAAAA
* *
8394061 ACAGAGAAAA
1 AGAAAGAAAA
8394071 AGAAAGAAAA
1 AGAAAGAAAA
8394081 AGAAA
1 AGAAA
8394086 AACCCATCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 6 0.16
10 23 0.61
11 8 0.21
12 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:8394054 original size:20 final size:21
Alignment explanation
Indices: 8394031--8394085 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
8394021 GAAAAAACTG
8394031 AGAAAAAAAAGAAAGA-AAAA
1 AGAAAAAAAAGAAAGAGAAAA
* *
8394051 AGAACAAAAA-ACAGAGAAAA
1 AGAAAAAAAAGAAAGAGAAAA
8394071 AGAAAGAAAAAGAAA
1 AGAAA-AAAAAGAAA
8394086 AACCCATCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 17 0.61
21 5 0.18
22 2 0.07
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAGAAAGAGAAAA
Found at i:8399754 original size:73 final size:73
Alignment explanation
Indices: 8399625--8399814 Score: 274
Period size: 73 Copynumber: 2.6 Consensus size: 73
8399615 TCAGAAACAG
* * *
8399625 AGACGACTTAATCGACGAAAAAGCATTGTTAGTCGACTAAGAGCTTACTGCTAGAAACTGGGTTT
1 AGACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTCACTGCTAGAAACTGGGTTT
8399690 AGAGACAA
66 AGAGACAA
* * *
8399698 AGACGACTTAATCGACTAAGAAGTATTGTTAGACGACTAAGAGGTCACTG-TCAGAAACTGGGTT
1 AGACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTCACTGCT-AGAAACTGGGTT
**
8399762 TAGAGACGG
65 TAGAGACAA
* *
8399771 AGACGACTTAATTGACTAAGAAGCATAGTTAGTCGACTAAGAGC
1 AGACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGC
8399815 ATTCTGTCTG
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
72 1 0.01
73 102 0.99
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (73 bp):
AGACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCTCACTGCTAGAAACTGGGTTT
AGAGACAA
Found at i:8402623 original size:17 final size:17
Alignment explanation
Indices: 8402593--8402625 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8402583 TTCTTGATAA
8402593 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
8402610 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
8402626 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:8402831 original size:28 final size:28
Alignment explanation
Indices: 8402800--8402941 Score: 185
Period size: 29 Copynumber: 4.9 Consensus size: 28
8402790 AAATATTTTA
* *
8402800 TCTTGTCTAAATTGAGACAAATATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* * *
8402828 TCTTGACTAAATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAACAT-GTTT
* *
8402858 TCTTGTCTTAAATTAAGGCAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
8402887 TCTTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
8402916 TCTTGTCTAAATTAAGACAAACATGT
1 TCTTGTCTAAATTAAGACAAACATGT
8402942 CAAAGCTGTC
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
28 34 0.34
29 42 0.42
30 14 0.14
31 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:8402870 original size:59 final size:58
Alignment explanation
Indices: 8402777--8402941 Score: 215
Period size: 59 Copynumber: 2.8 Consensus size: 58
8402767 TATTGTCTGC
* * *
8402777 AATTAAGATAAAAAAATATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTGACTA
1 AATTAAGA-CAAAAAATATTTT-TCTTGTCTAAATTAAGACAAACATGTTTTCTTGACTA
* * *
8402837 AATTAAGACAAAAAATATTTTTCTTGTCTTAAATTAAGGCAAACATATTTTCTTGTCTA
1 AATTAAGACAAAAAATATTTTTCTTGTC-TAAATTAAGACAAACATGTTTTCTTGACTA
* * *
8402896 AATTAAGACCAAACAT-GTTTTCTTGTCTAAATTAAGACAAACATGT
1 AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGT
8402942 CAAAGCTGTC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
57 17 0.18
58 17 0.18
59 51 0.55
60 8 0.09
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.38
Consensus pattern (58 bp):
AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTGACTA
Found at i:8417772 original size:58 final size:57
Alignment explanation
Indices: 8417683--8417802 Score: 186
Period size: 58 Copynumber: 2.1 Consensus size: 57
8417673 AGGGTCTCAT
* * *
8417683 CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCATACTG
1 CTTTGCATGCATAGCATTTATTAAATCGCATAAAACAAATCTATCACATGCAAACTA
* *
8417740 CTTTGCATTGCATAGCATTTATTAAATTGCATAAAACAACTCTATCACATGCAAACTA
1 CTTTGCA-TGCATAGCATTTATTAAATCGCATAAAACAAATCTATCACATGCAAACTA
8417798 CTTTG
1 CTTTG
8417803 GATGATTATG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 7 0.12
58 50 0.88
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (57 bp):
CTTTGCATGCATAGCATTTATTAAATCGCATAAAACAAATCTATCACATGCAAACTA
Found at i:8418462 original size:51 final size:51
Alignment explanation
Indices: 8418388--8418494 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
8418378 AGAATTAAAT
* *
8418388 TTTTA-TTATAAATTACAAATTAAAACATTTTTAATTTGTGCTTCTAAACA
1 TTTTACTTACAAATTACAAATTAAAACATTTTTAATTTGTGCTCCTAAACA
* *
8418438 TTTTACTTACAAATTACAAATTAAAACGTTTTTAATTTGTGCTCCTAAATA
1 TTTTACTTACAAATTACAAATTAAAACATTTTTAATTTGTGCTCCTAAACA
8418489 TTTTAC
1 TTTTAC
8418495 ACAACCTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 5 0.10
51 47 0.90
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (51 bp):
TTTTACTTACAAATTACAAATTAAAACATTTTTAATTTGTGCTCCTAAACA
Found at i:8420558 original size:107 final size:106
Alignment explanation
Indices: 8420374--8420602 Score: 280
Period size: 107 Copynumber: 2.2 Consensus size: 106
8420364 ATTAAGTTAT
* * * * *
8420374 GCCTAATTAACTAAA-TTGTTTAATTAAATCATTGGGCCTAATTAATTAAATTGTTTAATTAAGT
1 GCCTAATTGATTAAATTTGTTTAATTAAATCATTAGGACTAATTAATTAAATTGTTTAATTAAAT
8420438 CATTGGGCCTAATTAATTAAATTAAACAATTAAATTATTGG
66 CATTGGGCCTAATTAATTAAATTAAACAATTAAATTATTGG
* * * * *
8420479 GCTTAATTGATTGAATTTGTTTAATTAAGTCATTAGGACTAGTTGATTAAAATTGTTTAATTAAA
1 GCCTAATTGATTAAATTTGTTTAATTAAATCATTAGGACTAATTAATT-AAATTGTTTAATTAAA
** * * *** *
8420544 TTGTTGTGCTTAATTAATTAAATTATTTAATTAAGTTATTGG
65 TCATTGGGCCTAATTAATTAAATTAAACAATTAAATTATTGG
8420586 GCCTAATTGATTAAATT
1 GCCTAATTGATTAAATT
8420603 AAACAATTAA
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
105 11 0.11
106 27 0.26
107 64 0.63
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (106 bp):
GCCTAATTGATTAAATTTGTTTAATTAAATCATTAGGACTAATTAATTAAATTGTTTAATTAAAT
CATTGGGCCTAATTAATTAAATTAAACAATTAAATTATTGG
Found at i:8420603 original size:35 final size:35
Alignment explanation
Indices: 8420354--8420602 Score: 252
Period size: 35 Copynumber: 7.1 Consensus size: 35
8420344 CACTTGATTA
*
8420354 AAATTGTTTAATTAAGTTA-T--GCCTAATTAACT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
8420386 AAATTGTTTAATTAAATCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
*
8420421 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
**** * * *
8420456 AAATTAAACAATTAAATTATTGGGCTTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * * * * *
8420491 GAATTTGTTTAATTAAGTCATTAGGACTAGTTGATT
1 -AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * * *
8420527 AAAATTGTTTAATTAAATTGTTGTGCTTAATTAATT
1 -AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
8420563 AAATTATTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
8420598 AAATT
1 AAATT
8420603 AAACAATTAA
Statistics
Matches: 173, Mismatches: 40, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
32 17 0.10
33 1 0.01
35 106 0.61
36 49 0.28
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
Found at i:8422155 original size:17 final size:17
Alignment explanation
Indices: 8422133--8422166 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8422123 GTTCTTGATA
8422133 AAATAA-AACTTCTTATT
1 AAATAATAAC-TCTTATT
8422150 AAATAATAACTCTTATT
1 AAATAATAACTCTTATT
8422167 TTATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAATAACTCTTATT
Found at i:8431434 original size:21 final size:22
Alignment explanation
Indices: 8431408--8431448 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8431398 CCTAGGTGAA
*
8431408 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
8431429 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
8431449 AAAAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:8431449 original size:20 final size:21
Alignment explanation
Indices: 8431408--8431452 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
8431398 CCTAGGTGAA
*
8431408 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
8431429 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
8431449 AAAA
1 AAAA
8431453 AAAGGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:8431453 original size:21 final size:21
Alignment explanation
Indices: 8431407--8431454 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
8431397 CCCTAGGTGA
*
8431407 AAAAATTCAAGGGAAAAGTGT
1 AAAAATTCAAGGAAAAAGTGT
* *
8431428 GAAAATTCAAGGAAACAAGTGA
1 AAAAATTCAAGGAAA-AAGTGT
8431450 AAAAA
1 AAAAA
8431455 AGGTAAGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.58, C:0.06, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAGGAAAAAGTGT
Found at i:8434249 original size:20 final size:20
Alignment explanation
Indices: 8434226--8434266 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8434216 AATCCAAGGC
* *
8434226 TAAAATTAATTTTCCAAAAA
1 TAAAAATAATTTTACAAAAA
8434246 TAAAAATAATTTTACAAAAA
1 TAAAAATAATTTTACAAAAA
8434266 T
1 T
8434267 TTTTAAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAATAATTTTACAAAAA
Found at i:8448712 original size:20 final size:20
Alignment explanation
Indices: 8448666--8448713 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
8448656 ATGGGAAGAA
8448666 GAAGAA-GAAGAAGTTGCTG
1 GAAGAATGAAGAAGTTGCTG
* *
8448685 AAAAAATGAAGAAGTTGCTG
1 GAAGAATGAAGAAGTTGCTG
8448705 GAAGAATGA
1 GAAGAATGA
8448714 GATTTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.48, C:0.04, G:0.31, T:0.17
Consensus pattern (20 bp):
GAAGAATGAAGAAGTTGCTG
Found at i:8454792 original size:54 final size:54
Alignment explanation
Indices: 8454638--8454796 Score: 284
Period size: 53 Copynumber: 3.0 Consensus size: 54
8454628 AATAATCATT
8454638 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATC
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATC
* *
8454692 CCATCTCACCCAGCT-ATATGCATTCCACCACATCGTGCACATAGCCGGACATC
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATC
*
8454745 CCATCTCACACAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACA
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACA
8454797 ATATCACCAT
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 50 0.51
54 49 0.49
ACGTcount: A:0.26, C:0.41, G:0.14, T:0.19
Consensus pattern (54 bp):
CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATC
Found at i:8455730 original size:20 final size:19
Alignment explanation
Indices: 8455685--8455731 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
8455675 TGGGAAGAAG
* *
8455685 GAGAA-GAAGAAGTTGCTT
1 GAGAATGAAGAAGCTGCTA
8455703 GAGAAATGAAGAAGCTGCTA
1 GAG-AATGAAGAAGCTGCTA
8455723 GAAGAATGA
1 G-AGAATGA
8455732 GATTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 17 0.71
21 2 0.08
ACGTcount: A:0.45, C:0.06, G:0.32, T:0.17
Consensus pattern (19 bp):
GAGAATGAAGAAGCTGCTA
Found at i:8464745 original size:72 final size:72
Alignment explanation
Indices: 8464628--8464811 Score: 307
Period size: 72 Copynumber: 2.6 Consensus size: 72
8464618 TGAGAAACAG
* *
8464628 AACCAACTTAGTCAACCAAGATAAGGGTTAGTCGACTAAGAAGCTATTGTCAAAATTTGGACTTC
1 AACCAACTTAGTCGACCAAGATAAGGGTTAGTCGACTAAGAAGCTACTGTCAAAATTTGGACTTC
8464693 AAGACAA
66 AAGACAA
*
8464700 AACCAACTTAGTTGACCAAGATAAGGGTTAGTCGACTAAGAAGCTACTGTCAAAATTTGGACTTC
1 AACCAACTTAGTCGACCAAGATAAGGGTTAGTCGACTAAGAAGCTACTGTCAAAATTTGGACTTC
*
8464765 AAGACAG
66 AAGACAA
*
8464772 AACCAACTTAGTCGACCAAGA-AATGGATTAGTCGACTAAG
1 AACCAACTTAGTCGACCAAGATAA-GGGTTAGTCGACTAAG
8464812 TGCAAACTGC
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
71 2 0.02
72 103 0.98
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (72 bp):
AACCAACTTAGTCGACCAAGATAAGGGTTAGTCGACTAAGAAGCTACTGTCAAAATTTGGACTTC
AAGACAA
Found at i:8465372 original size:35 final size:34
Alignment explanation
Indices: 8465333--8465444 Score: 106
Period size: 35 Copynumber: 3.3 Consensus size: 34
8465323 GTTGATCTAG
8465333 TGAAAAACCATTGTTATAGGTTATGGTTGAGCATT
1 TGAAAAACCATTGTTATAGGTTATGGTTGAGC-TT
* * * *
8465368 TGAAAAGCCA--CTT-TGGGTTTTGGTTGAGCTT
1 TGAAAAACCATTGTTATAGGTTATGGTTGAGCTT
* *
8465399 GTGAAAAACCATTGTGA-AGGGTTGTGGTTGAGCCTT
1 -TGAAAAACCATTGTTATA-GGTTATGGTTGAG-CTT
8465435 TGAAAAACCA
1 TGAAAAACCA
8465445 CTTTGTGTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
31 2 0.03
32 23 0.37
33 2 0.03
34 1 0.02
35 31 0.50
36 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (34 bp):
TGAAAAACCATTGTTATAGGTTATGGTTGAGCTT
Found at i:8465386 original size:67 final size:67
Alignment explanation
Indices: 8465313--8465454 Score: 205
Period size: 67 Copynumber: 2.1 Consensus size: 67
8465303 AAGTTAGTTG
* * *
8465313 TTGGGTTTTGGTTGATCTAGTGAAAAACCATTGTTATA-GGTTATGGTTGAGCATTTGAAAAGCC
1 TTGGGTTTTGGTTGAGCTAGTGAAAAACCATTGTGA-AGGGTTATGGTTGAGCATTTGAAAAACC
8465377 ACT
65 ACT
* * *
8465380 TTGGGTTTTGGTTGAGCTTGTGAAAAACCATTGTGAAGGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGAGCTAGTGAAAAACCATTGTGAAGGGTTATGGTTGAGCATTTGAAAAACCA
8465445 CT
66 CT
*
8465447 TTGTGTTT
1 TTGGGTTT
8465455 GTCACAACCC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 1 0.01
67 66 0.99
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (67 bp):
TTGGGTTTTGGTTGAGCTAGTGAAAAACCATTGTGAAGGGTTATGGTTGAGCATTTGAAAAACCA
CT
Found at i:8465963 original size:13 final size:13
Alignment explanation
Indices: 8465945--8465969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8465935 GTTCTTAGTA
8465945 AAACCCCTCATGT
1 AAACCCCTCATGT
8465958 AAACCCCTCATG
1 AAACCCCTCATG
8465970 AGTAAATCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.40, G:0.08, T:0.20
Consensus pattern (13 bp):
AAACCCCTCATGT
Found at i:8466305 original size:2 final size:2
Alignment explanation
Indices: 8466293--8466332 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
8466283 ATCATATACC
*
8466293 AT AT GT AT AT AT AT 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 AT AT AT AT AT AT AT
8466333 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8468183 original size:35 final size:34
Alignment explanation
Indices: 8468127--8468198 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
8468117 AAGGTCTCAC
*
8468127 AAGGTTTTGGCTGATCATGGTAACAA-CCATTGTGA
1 AAGGTTTTGGCTGAGCATGGTAA-AATCCATTGT-A
*
8468162 AAGGTTTTGGC-GAAGCTTGGTAAAATCCATTGTA
1 AAGGTTTTGGCTG-AGCATGGTAAAATCCATTGTA
8468196 AAG
1 AAG
8468199 CTTAGTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
34 7 0.21
35 26 0.79
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (34 bp):
AAGGTTTTGGCTGAGCATGGTAAAATCCATTGTA
Found at i:8473693 original size:31 final size:31
Alignment explanation
Indices: 8473658--8473723 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
8473648 TGCGACACTA
* *
8473658 GACAATCAGTGCTGCAGTGTCGCGACTGCTG
1 GACAATCAATGCTGCAGCGTCGCGACTGCTG
* *
8473689 GACAATCAATGCTGCAGCGTTGCGGCTGCTG
1 GACAATCAATGCTGCAGCGTCGCGACTGCTG
8473720 GACA
1 GACA
8473724 TGGGATAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (31 bp):
GACAATCAATGCTGCAGCGTCGCGACTGCTG
Found at i:8476140 original size:22 final size:22
Alignment explanation
Indices: 8476112--8476166 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
8476102 CGACGGGTCG
8476112 TCGCTGCAGCGGAAAGGCATTC
1 TCGCTGCAGCGGAAAGGCATTC
8476134 TCGCTGCAGCGGAAAGGCATTC
1 TCGCTGCAGCGGAAAGGCATTC
8476156 TCGCTGCAGCG
1 TCGCTGCAGCG
8476167 AGATTTCGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (22 bp):
TCGCTGCAGCGGAAAGGCATTC
Found at i:8476531 original size:42 final size:42
Alignment explanation
Indices: 8476474--8476626 Score: 139
Period size: 42 Copynumber: 3.6 Consensus size: 42
8476464 AGCTCATATG
* *
8476474 CACTCCCACTAGCACATGGCTGGGTCAGCATTGGCTTATGCA
1 CACTCCCACTCGCACATAGCTGGGTCAGCATTGGCTTATGCA
* * * * * *
8476516 CACTCCTACTCGCACATAG-TCAGGTTAGCATCGACTTATGCG
1 CACTCCCACTCGCACATAGCT-GGGTCAGCATTGGCTTATGCA
* *
8476558 TACTCCCCCTCGCACATAGCCT-GGTCAGCATTGGCTTATGCA
1 CACTCCCACTCGCACATAG-CTGGGTCAGCATTGGCTTATGCA
*** * *
8476600 CACTTTTACTCGTACATAGCCGGGTCA
1 CACTCCCACTCGCACATAGCTGGGTCA
8476627 ATATCATTAC
Statistics
Matches: 85, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
41 2 0.02
42 82 0.96
44 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (42 bp):
CACTCCCACTCGCACATAGCTGGGTCAGCATTGGCTTATGCA
Found at i:8481612 original size:31 final size:31
Alignment explanation
Indices: 8481577--8481638 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
8481567 TTCTAGGAAG
8481577 TATGCTAGTATCTTGGTCAAGTAAGAAACAA
1 TATGCTAGTATCTTGGTCAAGTAAGAAACAA
*
8481608 TATGCTAGTATCTTTGTCAAGTAAGAAACAA
1 TATGCTAGTATCTTGGTCAAGTAAGAAACAA
8481639 AACTCTGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (31 bp):
TATGCTAGTATCTTGGTCAAGTAAGAAACAA
Found at i:8489566 original size:67 final size:67
Alignment explanation
Indices: 8489488--8489660 Score: 228
Period size: 67 Copynumber: 2.6 Consensus size: 67
8489478 TTAGTTGTTA
* * *
8489488 GGTTTTGGTTGATCCCATGAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 GGTTTTGGTTGATCCCAT-AAAAACTATTGTTGAAAGGTTATGGTTGAGCCTTTGAAAAACCACT
8489552 TTG
65 TTG
* *
8489555 GGTTTTGGTTGAGCCTC-TAAAAAACTATTG-TGAAAGGTTATGGTTGAGCTTTTGAAAAACCAC
1 GGTTTTGGTTGATCC-CAT-AAAAACTATTGTTGAAAGGTTATGGTTGAGCCTTTGAAAAACCAC
8489618 TTTG
64 TTTG
*
8489622 GGTTTTGATTGATCCCGATAAAAACTATTG-TGAAAGGTT
1 GGTTTTGGTTGATCCC-ATAAAAACTATTGTTGAAAGGTT
8489661 TTGGCTAAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
66 3 0.03
67 89 0.95
68 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (67 bp):
GGTTTTGGTTGATCCCATAAAAACTATTGTTGAAAGGTTATGGTTGAGCCTTTGAAAAACCACTT
TG
Found at i:8489569 original size:32 final size:33
Alignment explanation
Indices: 8489487--8489633 Score: 129
Period size: 35 Copynumber: 4.4 Consensus size: 33
8489477 GTTAGTTGTT
* ** *
8489487 AGGTTTTGGTTGATCCCATGAAAAACCATTGTTG
1 AGGTTTTGGTTGAGCCTTTGAAAAACCACT-TTG
*
8489521 TAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
1 -AGGTTTTGGTTGAGCCTTTGAAAAACCACTTTG
* * *
8489555 -GGTTTTGGTTGAGCCTCTAAAAAACTA-TTGTG
1 AGGTTTTGGTTGAGCCTTTGAAAAACCACTT-TG
* *
8489587 AAAGGTTATGGTTGAGCTTTTGAAAAACCACTTTG
1 --AGGTTTTGGTTGAGCCTTTGAAAAACCACTTTG
*
8489622 -GGTTTTGATTGA
1 AGGTTTTGGTTGA
8489634 TCCCGATAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
31 2 0.02
32 35 0.38
34 3 0.03
35 49 0.54
36 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (33 bp):
AGGTTTTGGTTGAGCCTTTGAAAAACCACTTTG
Found at i:8501301 original size:21 final size:21
Alignment explanation
Indices: 8501275--8501315 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8501265 TCTGGGTTTA
8501275 ATGTATCAATACATGTTCATT
1 ATGTATCAATACATGTTCATT
*
8501296 ATGTATCAATACTTGTTCAT
1 ATGTATCAATACATGTTCAT
8501316 CTAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (21 bp):
ATGTATCAATACATGTTCATT
Found at i:8504051 original size:43 final size:43
Alignment explanation
Indices: 8503986--8504118 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 43
8503976 GTAATGATAT
*
8503986 TGACTCGGCTATGTGCCGAGTAGGGAGTGCACATAAGTAGATGA
1 TGACCCGGCTATGTG-CGAGTAGGGAGTGCACATAAGTAGATGA
* ** **
8504030 TGACCCGGTTATGTGCGAGTAGGGAGTGTGCATAAACCA-ATGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCACAT-AAGTAGATGA
* * *
8504073 TGACCCAGCCATGTGCGAGTAGGGAGTGCACATGAGCT-GATGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCACATAAG-TAGATGA
8504116 TGA
1 TGA
8504119 TGAGATGGTG
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 55 0.76
44 16 0.22
ACGTcount: A:0.27, C:0.17, G:0.34, T:0.22
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCACATAAGTAGATGA
Found at i:8504167 original size:23 final size:23
Alignment explanation
Indices: 8504110--8504168 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
8504100 GCACATGAGC
*
8504110 TGATGATGATGAGATGGTGTGCA
1 TGATGATGATGGGATGGTGTGCA
8504133 TGATGATGATGGGATGGTGTGCA
1 TGATGATGATGGGATGGTGTGCA
8504156 TGATGATGATGGG
1 TGATGATGATGGG
8504169 TATATATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.24, C:0.03, G:0.42, T:0.31
Consensus pattern (23 bp):
TGATGATGATGGGATGGTGTGCA
Found at i:8507820 original size:71 final size:70
Alignment explanation
Indices: 8507653--8507820 Score: 167
Period size: 70 Copynumber: 2.4 Consensus size: 70
8507643 TGCGACTCTT
* * * * * *
8507653 CACATTTGACCTTTATCACATGTGGTATGATGCCCCACATCTAGCTTGAGTGTTGTATGGAATAA
1 CACATTTGACCCTTGTCATATGTGGTATGATGCCCCACATCTAGCTTCAGTGTTATATGGAAAAA
*
8507718 TGCTC
66 TGCCC
* * * * *
8507723 CACATTTTACCCTTGTCATATCTGGTATGATGCCTCACATCTGGC-TCACGTGTTCATGTGGAAA
1 CACATTTGACCCTTGTCATATGTGGTATGATGCCCCACATCTAGCTTCA-GTGTT-ATATGGAAA
8507787 AATGCCC
64 AATGCCC
* ** *
8507794 CACATTTGGCGTTTGTCATGTGTGGTA
1 CACATTTGACCCTTGTCATATGTGGTA
8507821 CGACGCCCAA
Statistics
Matches: 78, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
69 2 0.03
70 43 0.55
71 33 0.42
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (70 bp):
CACATTTGACCCTTGTCATATGTGGTATGATGCCCCACATCTAGCTTCAGTGTTATATGGAAAAA
TGCCC
Found at i:8509504 original size:39 final size:39
Alignment explanation
Indices: 8509450--8509535 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
8509440 CTGTAGCTTC
* * *
8509450 TCGCTGCAGCGAGAAAC-TTTCTGTTTCTGGGTTGCAATT
1 TCGCTGCAACGAGAAACATTT-TGTTTCGGGGTTACAATT
8509489 TCGCTGCAACGAGAAACATTTTGTTTCGGGGTTACAATT
1 TCGCTGCAACGAGAAACATTTTGTTTCGGGGTTACAATT
*
8509528 TTGCTGCA
1 TCGCTGCA
8509536 GTGAGATTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 39 0.93
40 3 0.07
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (39 bp):
TCGCTGCAACGAGAAACATTTTGTTTCGGGGTTACAATT
Found at i:8510669 original size:72 final size:71
Alignment explanation
Indices: 8510529--8510734 Score: 259
Period size: 72 Copynumber: 2.8 Consensus size: 71
8510519 CATAATCATT
* * * *
8510529 AAGTGGTGGAGACTTACTCATCCACTCTCATAATTATATGTTTATAGGCATTTTACCATCCACGT
1 AAGTGGTGGAGACTTACTCATCCACT-TTATAA--ATATGTTTGTGGGCATTTTACCATCCACAT
8510594 TTAACAATC
63 TTAACAATC
*
8510603 AAGTGGTGGAGACTTACTCATCCACTATTATAACTATGTTTGTGGGCATTTTACCATCCACATTT
1 AAGTGGTGGAGACTTACTCATCCACT-TTATAAATATGTTTGTGGGCATTTTACCATCCACATTT
*
8510668 AACAATT
65 AACAATC
* * * * **
8510675 AAATGATGGAGACTTACTCATCCGCTTTCATAATTATGTTTGTGGTTATTTTACCATCCA
1 AAGTGGTGGAGACTTACTCATCCACTTT-ATAAATATGTTTGTGGGCATTTTACCATCCA
8510735 AATTCACCTT
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
71 2 0.02
72 85 0.72
74 31 0.26
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (71 bp):
AAGTGGTGGAGACTTACTCATCCACTTTATAAATATGTTTGTGGGCATTTTACCATCCACATTTA
ACAATC
Found at i:8510697 original size:36 final size:34
Alignment explanation
Indices: 8510581--8510697 Score: 78
Period size: 36 Copynumber: 3.3 Consensus size: 34
8510571 TATAGGCATT
* * *
8510581 TTACCATCCACGTTTAACAATCAAGTGGTGGAGAC
1 TTACCATCCACATTTAACAATTAAAT-GTGGAGAC
* * *
8510616 TTACTCATCCACTATTATAACTATGT--TTGTGG-GCATT
1 TTAC-CATCCAC-ATT-TAACAAT-TAAATGTGGAG-A-C
8510653 TTACCATCCACATTTAACAATTAAATGATGGAGAC
1 TTACCATCCACATTTAACAATTAAATG-TGGAGAC
8510688 TTACTCATCC
1 TTAC-CATCC
8510698 GCTTTCATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
33 1 0.02
34 6 0.10
35 14 0.22
36 28 0.44
37 8 0.13
38 6 0.10
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (34 bp):
TTACCATCCACATTTAACAATTAAATGTGGAGAC
Found at i:8512329 original size:73 final size:73
Alignment explanation
Indices: 8512181--8512377 Score: 197
Period size: 73 Copynumber: 2.7 Consensus size: 73
8512171 GACAAAAAAG
* * **
8512181 ACTTAGTCAACCAAGGAATAAGTTAGTCGACTAAGAAGCTACTGCCAGAAATCTAGACTTCAAGA
1 ACTTAGTCGACCAAGAAATAAGTTAGTCGACTAAGAAGCTACTGCCAGAAATCTAGACAACAAGA
* *
8512246 CAAAACCA
66 AAAAAACA
* *
8512254 ACTTAGTCGACCAAGAAATAAGTTAGTCGACTAA-ATGCTTACTGCTAGAAA-CTAGA-AACAA-
1 ACTTAGTCGACCAAGAAATAAGTTAGTCGACTAAGAAGC-TACTGCCAGAAATCTAGACAACAAG
8512315 AAAACAGAGACA
65 AAAA-A-A-ACA
* * * * *
8512327 ACTTAGTTGACTAAGACATAAGTTAGTCAACTAAG-AGCATTCTGCCAGAAA
1 ACTTAGTCGACCAAGAAATAAGTTAGTCGACTAAGAAGC-TACTGCCAGAAA
8512378 ATTTGAATTG
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
70 3 0.03
71 4 0.04
72 9 0.09
73 87 0.84
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (73 bp):
ACTTAGTCGACCAAGAAATAAGTTAGTCGACTAAGAAGCTACTGCCAGAAATCTAGACAACAAGA
AAAAAACA
Found at i:8520661 original size:21 final size:21
Alignment explanation
Indices: 8520620--8520661 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8520610 AAAAGATAGT
**
8520620 AGGCACTTAGTTGACTAAGAG
1 AGGCACTTAGTCAACTAAGAG
*
8520641 AGGCACTTAGTCAACTTAGAG
1 AGGCACTTAGTCAACTAAGAG
8520662 CATTCTGTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (21 bp):
AGGCACTTAGTCAACTAAGAG
Found at i:8541321 original size:21 final size:22
Alignment explanation
Indices: 8541282--8541322 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8541272 TACCTTTTGT
* *
8541282 CACTTGTTTCCTTGGATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
8541304 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
8541323 TCCACCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.15, C:0.24, G:0.10, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:8544935 original size:29 final size:28
Alignment explanation
Indices: 8544872--8545102 Score: 264
Period size: 29 Copynumber: 8.1 Consensus size: 28
8544862 TTTAATTTGT
* * *
8544872 TTTGTCTTAATTCAGACAAAAAAACATA
1 TTTGTCTTAATTTAGACAAGAAAACATG
8544900 TTTGTCTTAATTTAGACAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAACATG
*
8544928 TTATGTCTTAATTTAGACAAGAAAAAATG
1 TT-TGTCTTAATTTAGACAAGAAAACATG
* * *
8544957 TTATGCCATAATTTAGCCAAGAAAACATG
1 TT-TGTCTTAATTTAGACAAGAAAACATG
*
8544986 TTTGTCTTAACTTAGACAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAACATG
* *
8545014 TTTTGTCTTAACTTAGACAAGAAAAATATG
1 -TTTGTCTTAATTTAGACAAG-AAAACATG
* * *
8545044 TTTTGTCTTAATCTAGAAAAGAAAACATA
1 -TTTGTCTTAATTTAGACAAGAAAACATG
* * * *
8545073 TTTGTCTCAGTTTAAACAAGATAACATG
1 TTTGTCTTAATTTAGACAAGAAAACATG
8545101 TT
1 TT
8545103 ATATTTTAAT
Statistics
Matches: 175, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
28 72 0.41
29 78 0.45
30 25 0.14
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAACATG
Found at i:8544992 original size:57 final size:56
Alignment explanation
Indices: 8544872--8545102 Score: 248
Period size: 57 Copynumber: 4.0 Consensus size: 56
8544862 TTTAATTTGT
* *
8544872 TTTGTCTTAATTCAGACAA-AAAAACATATTTGTCTTAATTTAGACAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAAA-ATGTTTGTCTTAATTTAGACAAGAAAACATG
* * *
8544928 TTATGTCTTAATTTAGACAAGAAAAAATGTTATGCCATAATTTAGCCAAGAAAACATG
1 TT-TGTCTTAATTTAGACAAGAAAAAATGTT-TGTCTTAATTTAGACAAGAAAACATG
* * * *
8544986 TTTGTCTTAACTTAGACAAGAAAACATGTTTTGTCTTAACTTAGACAAGAAAAATATG
1 TTTGTCTTAATTTAGACAAGAAAAAATG-TTTGTCTTAATTTAGACAAG-AAAACATG
* * * * * * * *
8545044 TTTTGTCTTAATCTAGAAAAGAAAACATATTTGTCTCAGTTTAAACAAGATAACATG
1 -TTTGTCTTAATTTAGACAAGAAAAAATGTTTGTCTTAATTTAGACAAGAAAACATG
8545101 TT
1 TT
8545103 ATATTTTAAT
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
56 4 0.03
57 64 0.44
58 55 0.37
59 24 0.16
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (56 bp):
TTTGTCTTAATTTAGACAAGAAAAAATGTTTGTCTTAATTTAGACAAGAAAACATG
Found at i:8545024 original size:86 final size:87
Alignment explanation
Indices: 8544892--8545104 Score: 293
Period size: 86 Copynumber: 2.5 Consensus size: 87
8544882 TTCAGACAAA
*
8544892 AAAACATATTTGTCTTAATTTAGACAAGAAAACATGTTATGTCTTAATTTAGACAAGAAAAA-AT
1 AAAACATATTTGTCTTAATTTAGACAAGAAAACATGTTATGTCTTAACTTAGACAAGAAAAATAT
* **
8544956 GTTATGCCATAATTTAGCCAAG
66 GTTATGCCATAATCTAGAAAAG
* * *
8544978 AAAACATGTTTGTCTTAACTTAGACAAGAAAACATGTTTTGTCTTAACTTAGACAAGAAAAATAT
1 AAAACATATTTGTCTTAATTTAGACAAGAAAACATGTTATGTCTTAACTTAGACAAGAAAAATAT
* * *
8545043 GTTTTGTCTTAATCTAGAAAAG
66 GTTATGCCATAATCTAGAAAAG
* * * *
8545065 AAAACATATTTGTCTCAGTTTAAACAAGATAACATGTTAT
1 AAAACATATTTGTCTTAATTTAGACAAGAAAACATGTTAT
8545105 ATTTTAATTA
Statistics
Matches: 109, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 58 0.53
87 51 0.47
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (87 bp):
AAAACATATTTGTCTTAATTTAGACAAGAAAACATGTTATGTCTTAACTTAGACAAGAAAAATAT
GTTATGCCATAATCTAGAAAAG
Found at i:8557677 original size:43 final size:43
Alignment explanation
Indices: 8557611--8557866 Score: 334
Period size: 43 Copynumber: 6.0 Consensus size: 43
8557601 CAACTTTCCC
* * * *
8557611 TCAGCTTATGTGCACTCCCACACCGTACATAGCTAGGTCATCA
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
* *
8557654 TCAGCTCATGTGCACTCTTACACCGCACATGGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
* *
8557697 TCAGTTCATGTGCACT-CTAACACCGCACATAGTTGGGTCATCA
1 TCAGCTCATGTGCACTCCT-ACACCGCACATAGCTGGGTCATCA
* ** *
8557740 TCAGCTCATGTGCATTCCTACACAACACATGGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
* * *
8557783 TCAGCTCATGTGCATTCCTACACCGCACAAAGTTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
* * *
8557826 TTAGCTCATGTGCACTGCTACACCGGACATAGCTGGGTCAT
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCAT
8557867 AATTATCACA
Statistics
Matches: 184, Mismatches: 27, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 181 0.98
44 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
Found at i:8560114 original size:24 final size:24
Alignment explanation
Indices: 8560087--8560132 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
8560077 CATAATGTTT
8560087 TAAACTCATTTCAACT-AAATAAAA
1 TAAACTCATTTC-ACTCAAATAAAA
*
8560111 TAAATTCATTTCACTCAAATAA
1 TAAACTCATTTCACTCAAATAA
8560133 TCAACATGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAACTCATTTCACTCAAATAAAA
Found at i:8562644 original size:36 final size:36
Alignment explanation
Indices: 8562604--8562672 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
8562594 AAGCTTTTTC
*
8562604 TTCCTTTCT-CTCTT-TTTCTTTCTTCTTCTCCTTCCT
1 TTCCTTTCTCCT-TTCTTTCTTTCCT-TTCTCCTTCCT
*
8562640 TTCCTTTTTCCTTTCTTTCTTTCCTTTCTCCTT
1 TTCCTTTCTCCTTTCTTTCTTTCCTTTCTCCTT
8562673 TCTTCCAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 18 0.62
37 11 0.38
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (36 bp):
TTCCTTTCTCCTTTCTTTCTTTCCTTTCTCCTTCCT
Found at i:8562663 original size:20 final size:20
Alignment explanation
Indices: 8562600--8562676 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
8562590 AACCAAGCTT
* *
8562600 TTTCTTCCTTTCTCTCTTTTTC
1 TTTC-TCCTTTCTTTC-TTTCC
* *
8562622 TTTCTTCTTCTCCTTCCTTTCC
1 TTTCTCCTT-T-CTTTCTTTCC
*
8562644 TTTTTCCTTTCTTTCTTTCC
1 TTTCTCCTTTCTTTCTTTCC
8562664 TTTCTCCTTTCTT
1 TTTCTCCTTTCTT
8562677 CCAACCGACC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 21 0.47
21 5 0.11
22 16 0.36
23 3 0.07
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTCTCCTTTCTTTCTTTCC
Found at i:8564199 original size:14 final size:15
Alignment explanation
Indices: 8564180--8564208 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8564170 CCATAGATTA
8564180 CATTTCCTT-GATAT
1 CATTTCCTTGGATAT
8564194 CATTTCCTTGGATAT
1 CATTTCCTTGGATAT
8564209 TTCTCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (15 bp):
CATTTCCTTGGATAT
Found at i:8566823 original size:2 final size:2
Alignment explanation
Indices: 8566816--8566851 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8566806 ATCGATCAAG
8566816 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8566852 CATTATCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8568003 original size:42 final size:42
Alignment explanation
Indices: 8567878--8568003 Score: 175
Period size: 42 Copynumber: 3.0 Consensus size: 42
8567868 CTTCTCATAT
* *
8567878 GCAATGGCTTATGTGCACTCCCACTCGCACATAGCTGGATCA
1 GCAATGACTTATGTGCACTCCCACTCGCACATAGCTGGGTCA
* *
8567920 GCAAT-AGCTTATGTGCACTCCCACTCACACATAG-TCAGGTCA
1 GCAATGA-CTTATGTGCACTCCCACTCGCACATAGCT-GGGTCA
*
8567962 GCAATGACTTATGTGCACTCCTACTCGCACATAGCTGGGTCA
1 GCAATGACTTATGTGCACTCCCACTCGCACATAGCTGGGTCA
8568004 ATATCATTAC
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
41 1 0.01
42 70 0.96
43 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (42 bp):
GCAATGACTTATGTGCACTCCCACTCGCACATAGCTGGGTCA
Found at i:8568780 original size:12 final size:12
Alignment explanation
Indices: 8568760--8568789 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8568750 GAAGCAACGT
*
8568760 GAAAGAGAAGAA
1 GAAAAAGAAGAA
8568772 GAAAAAGAAGAA
1 GAAAAAGAAGAA
8568784 GAAAAA
1 GAAAAA
8568790 AAGCTACTGG
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:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAGAA
Found at i:8570727 original size:43 final size:43
Alignment explanation
Indices: 8570655--8570817 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 43
8570645 CCCTTAACTT
* * *
8570655 ATGTGCACTCCCACACCGCACATAGCTGGGTCATTATCAGCTC
1 ATGTGCACTCCTACACAGCACATAGCTGGGTCATCATCAGCTC
* * *
8570698 ATGTCCACTCCTACACAGCACAT-GACTGGGTTATGATCAGCTC
1 ATGTGCACTCCTACACAGCACATAG-CTGGGTCATCATCAGCTC
* * * *
8570741 ATGTGCACTCTTACACCGTAAATAGCTGGGTCATCATCAGCTC
1 ATGTGCACTCCTACACAGCACATAGCTGGGTCATCATCAGCTC
* *
8570784 ATGTGCACTGCTACACTA-CACATAACTGGGTCAT
1 ATGTGCACTCCTACAC-AGCACATAGCTGGGTCAT
8570818 AATTATCACA
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 97 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGTGCACTCCTACACAGCACATAGCTGGGTCATCATCAGCTC
Found at i:8570806 original size:86 final size:86
Alignment explanation
Indices: 8570655--8570814 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 86
8570645 CCCTTAACTT
* *
8570655 ATGTGCACTCCCACACCGCACATAGCTGGGTCATTATCAGCTCATGTCCACTCCTACACAGCACA
1 ATGTGCACTCCCACACCGCAAATAGCTGGGTCATCATCAGCTCATGTCCACTCCTACACAGCACA
*
8570720 TGACTGGGTTATGATCAGCTC
66 TAACTGGGTTATGATCAGCTC
** * * *
8570741 ATGTGCACTCTTACACCGTAAATAGCTGGGTCATCATCAGCTCATGTGCACTGCTACACTA-CAC
1 ATGTGCACTCCCACACCGCAAATAGCTGGGTCATCATCAGCTCATGTCCACTCCTACAC-AGCAC
8570805 ATAACTGGGT
65 ATAACTGGGT
8570815 CATAATTATC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
86 64 0.98
87 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (86 bp):
ATGTGCACTCCCACACCGCAAATAGCTGGGTCATCATCAGCTCATGTCCACTCCTACACAGCACA
TAACTGGGTTATGATCAGCTC
Found at i:8571802 original size:16 final size:16
Alignment explanation
Indices: 8571766--8571803 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8571756 GCATAGTAAA
8571766 TTTTTTTTCTCTTTTC
1 TTTTTTTTCTCTTTTC
*
8571782 CTTTTTTTCTCTTATT-
1 TTTTTTTTCTCTT-TTC
8571798 TTTTTT
1 TTTTTT
8571804 GTACATAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTTCTCTTTTC
Found at i:8573770 original size:54 final size:54
Alignment explanation
Indices: 8573686--8573895 Score: 348
Period size: 54 Copynumber: 3.9 Consensus size: 54
8573676 AGCAATCATT
* *
8573686 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACAGAGCCAGACATC
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATC
* * *
8573740 CTATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGGCATC
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATC
*
8573794 CCATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATC
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATC
* *
8573848 CCATCTCACCTAGTTCATGTGCATCCCACCACATCGTGCACATAGCCG
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCG
8573896 AACAGTATCA
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 144 1.00
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.20
Consensus pattern (54 bp):
CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATC
Found at i:8575052 original size:34 final size:34
Alignment explanation
Indices: 8574973--8575064 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
8574963 TAGCCCTTGT
* * **
8574973 TTTCTCTCTTAAAATTTGTAGCAAAACTCTTCCTC
1 TTTCCCTCTCAAAATTTACAGC-AAACTCTTCCTC
* *
8575008 TTTCCTTCTCAAAATTTACAGCAAACTCTTTCT-
1 TTTCCCTCTCAAAATTTACAGCAAACTCTTCCTC
8575041 TCTTCCCTCTCAAAATTTACAGCA
1 T-TTCCCTCTCAAAATTTACAGCA
8575065 CAAAGCCTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 1 0.02
34 31 0.63
35 17 0.35
ACGTcount: A:0.27, C:0.28, G:0.04, T:0.40
Consensus pattern (34 bp):
TTTCCCTCTCAAAATTTACAGCAAACTCTTCCTC
Found at i:8582546 original size:20 final size:20
Alignment explanation
Indices: 8582520--8582565 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
8582510 AATCTTACCT
* *
8582520 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
8582541 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
8582562 TTTT
1 TTTT
8582566 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:8582567 original size:22 final size:22
Alignment explanation
Indices: 8582525--8582565 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8582515 TACCTTTTTT
*
8582525 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
8582547 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
8582566 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:8583540 original size:54 final size:54
Alignment explanation
Indices: 8583458--8583610 Score: 272
Period size: 54 Copynumber: 2.8 Consensus size: 54
8583448 AGGAATCATT
*
8583458 CCATCTCACCCAGCTCATGTGCATCCCACCACATCATGCACATAGTC-GGACATC
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCAGG-CATC
*
8583512 CCATCTCACTCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCAGGCATC
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCAGGCATC
8583566 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAG
1 CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAG
8583611 CCGAACAATA
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
54 93 0.98
55 2 0.02
ACGTcount: A:0.25, C:0.41, G:0.14, T:0.21
Consensus pattern (54 bp):
CCATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCAGGCATC
Found at i:8584768 original size:34 final size:35
Alignment explanation
Indices: 8584693--8584774 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 35
8584683 CCTTGTTTTT
*
8584693 TCTCTTAAAATTTACAGCAAAACTCTTCCTCATTC
1 TCTCTCAAAATTTACAGCAAAACTCTTCCTCATTC
*
8584728 -CTTCTCAAAATTTACAGC-AAACTCTTTCTTC-TTC
1 TC-TCTCAAAATTTACAGCAAAACTC-TTCCTCATTC
8584762 TCTCTCAAAATTT
1 TCTCTCAAAATTT
8584775 GCAACACAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
34 21 0.50
35 21 0.50
ACGTcount: A:0.29, C:0.28, G:0.02, T:0.40
Consensus pattern (35 bp):
TCTCTCAAAATTTACAGCAAAACTCTTCCTCATTC
Done.