Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 281 of 444
Found at i:81304488 original size:19 final size:20
Alignment explanation
Indices: 81304464--81304501 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
81304454 GGTACCACCA
81304464 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
81304483 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
81304502 ACGACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:81304878 original size:46 final size:46
Alignment explanation
Indices: 81304725--81304895 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
81304715 AACCCGCCCC
* * * *
81304725 TAAGTGAACTCGGACTCAACTCAAC-AGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
81304770 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
81304818 TCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
81304862 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
81304896 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 2 0.02
45 30 0.29
46 50 0.48
47 6 0.06
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:81304887 original size:92 final size:92
Alignment explanation
Indices: 81304730--81304898 Score: 277
Period size: 92 Copynumber: 1.8 Consensus size: 92
81304720 GCCCCTAAGT
* *
81304730 GAACTCGGACTCAACTCAACAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
81304795 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * *
81304822 GAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAC-AGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
81304886 CGAGTTCGGATGC
65 CGAGTTCGGATGC
81304899 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 13 0.18
92 58 0.82
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:81308671 original size:40 final size:40
Alignment explanation
Indices: 81308593--81308816 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
81308583 ACCCAAGTAT
* * *
81308593 CTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
81308632 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
81308672 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
81308712 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
81308755 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
81308795 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
81308817 CATCCGAATA
Statistics
Matches: 165, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.07
40 116 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:81308789 original size:83 final size:80
Alignment explanation
Indices: 81308593--81308816 Score: 308
Period size: 83 Copynumber: 2.8 Consensus size: 80
81308583 ACCCAAGTAT
* * * * *
81308593 CTTCGGGATTTAG-CCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
81308657 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
81308672 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
81308736 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
81308755 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
81308817 CATCCGAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
83 67 0.52
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:81315480 original size:19 final size:20
Alignment explanation
Indices: 81315456--81315493 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
81315446 GGTACCACCA
81315456 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
81315475 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
81315494 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:81315833 original size:93 final size:93
Alignment explanation
Indices: 81315723--81315893 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
81315713 GCCCCTAAGT
* *
81315723 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
81315788 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
81315816 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
81315881 CGAGTTCGGATGC
66 CGAGTTCGGATGC
81315894 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:81315890 original size:46 final size:46
Alignment explanation
Indices: 81315718--81315890 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
81315708 AACCCGCCCC
* * * *
81315718 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
81315764 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
81315812 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
81315857 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
81315891 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:81322931 original size:46 final size:48
Alignment explanation
Indices: 81322880--81323010 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 48
81322870 ATGGTTGAGC
*
81322880 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
* * * *
81322927 -TCCGAACACGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
81322972 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
81323011 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
43 6 0.09
45 4 0.06
46 28 0.41
47 28 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
Found at i:81329396 original size:51 final size:51
Alignment explanation
Indices: 81329315--81329442 Score: 211
Period size: 51 Copynumber: 2.5 Consensus size: 51
81329305 GATGATGAAA
*
81329315 AAAGGAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAG-AAG-AAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
81329368 AAAGAAAAAGAAGAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAGAAGAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
* *
81329419 AAAGAAAAAGAAGGAAAAAGAGCT
1 AAAGAAAAAGAAGAAAAAAAAGCT
81329443 TTGAGGAAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
51 60 0.83
52 3 0.04
53 9 0.12
ACGTcount: A:0.51, C:0.10, G:0.23, T:0.16
Consensus pattern (51 bp):
AAAGAAAAAGAAGAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
Found at i:81330849 original size:40 final size:40
Alignment explanation
Indices: 81330750--81330940 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
81330740 TGGATGATAA
* * * **
81330750 CCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
81330790 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
81330829 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
81330869 CCGGCCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
81330909 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
81330941 AGCTATATCC
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 34 0.25
40 101 0.74
41 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:81337590 original size:53 final size:53
Alignment explanation
Indices: 81337507--81337631 Score: 207
Period size: 53 Copynumber: 2.4 Consensus size: 53
81337497 GATGATGAAA
*
81337507 AAAGGAAAAGAA-AGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAGAAGA-AAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
81337560 AAAGAAAAAGAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCTGAATAGAAG
1 AAAGAAAAAGAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
81337613 AAAGAAAAAGAAGGAAAAA
1 AAAGAAAAAGAAGAAAAAA
81337632 GAGCTTTGAG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
53 67 0.99
54 1 0.01
ACGTcount: A:0.53, C:0.09, G:0.22, T:0.17
Consensus pattern (53 bp):
AAAGAAAAAGAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
Found at i:81339043 original size:40 final size:40
Alignment explanation
Indices: 81338944--81339134 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
81338934 TGGATGATAA
* * * * **
81338944 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
81338984 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
81339023 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
81339063 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
81339103 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
81339135 AGCTATATCC
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 33 0.24
40 101 0.74
41 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:81342975 original size:15 final size:15
Alignment explanation
Indices: 81342944--81343009 Score: 60
Period size: 15 Copynumber: 4.4 Consensus size: 15
81342934 ATAAATTAAA
* *
81342944 TTCATTACTTAAATT
1 TTCAATACTTAATTT
81342959 TTCAATACTTAATTT
1 TTCAATACTTAATTT
* * *
81342974 TTAAACACTTATTTT
1 TTCAATACTTAATTT
* * *
81342989 TTCAACATTTAGTTT
1 TTCAATACTTAATTT
81343004 TTCAAT
1 TTCAAT
81343010 TTATCAAACA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.32, C:0.14, G:0.02, T:0.53
Consensus pattern (15 bp):
TTCAATACTTAATTT
Found at i:81349555 original size:53 final size:53
Alignment explanation
Indices: 81349492--81349600 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
81349482 TATCTGTAAA
81349492 AAGTTAGTTTTACTGTTAGCGGAAGGTTTTGTTTCCTAGGATGGGATGAAGGC
1 AAGTTAGTTTTACTGTTAGCGGAAGGTTTTGTTTCCTAGGATGGGATGAAGGC
81349545 AAGTTAGTTTTACTGTTAGCGGAAGGTTTTGTTTCCTAGGATGGGATGAAGGC
1 AAGTTAGTTTTACTGTTAGCGGAAGGTTTTGTTTCCTAGGATGGGATGAAGGC
81349598 AAG
1 AAG
81349601 ATTTTTTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.24, C:0.09, G:0.32, T:0.35
Consensus pattern (53 bp):
AAGTTAGTTTTACTGTTAGCGGAAGGTTTTGTTTCCTAGGATGGGATGAAGGC
Found at i:81359691 original size:13 final size:14
Alignment explanation
Indices: 81359663--81359700 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
81359653 ACATATAAAC
*
81359663 ATAATGATATTTGAA
1 ATAAT-ATAATTGAA
81359678 ATAAT-TAATTGAA
1 ATAATATAATTGAA
81359691 ATAATATAAT
1 ATAATATAAT
81359701 ATATAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (14 bp):
ATAATATAATTGAA
Found at i:81369129 original size:38 final size:40
Alignment explanation
Indices: 81369075--81369240 Score: 201
Period size: 38 Copynumber: 3.9 Consensus size: 40
81369065 TCTGATATGA
81369075 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
81369115 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
81369153 ATATAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 -----AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
81369198 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
81369241 ATGACAGAAA
Statistics
Matches: 111, Mismatches: 2, Indels: 20
0.83 0.02 0.15
Matches are distributed among these distances:
38 37 0.33
39 1 0.01
40 1 0.01
41 3 0.03
44 3 0.03
45 36 0.32
46 30 0.27
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:81369224 original size:46 final size:46
Alignment explanation
Indices: 81369118--81369289 Score: 231
Period size: 46 Copynumber: 3.8 Consensus size: 46
81369108 CAACCTGAGT
* *
81369118 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
*
81369163 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
** *
81369209 ACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGA
* * * *
81369255 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
81369290 TCAAAGATAA
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
45 39 0.35
46 74 0.65
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
Found at i:81369306 original size:91 final size:90
Alignment explanation
Indices: 81369119--81369307 Score: 229
Period size: 91 Copynumber: 2.1 Consensus size: 90
81369109 AACCTGAGTG
* * * * * *
81369119 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAATGTGTAAGACCATGGTTGAAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAATGAGTAAGACCATAGTTGAAAGAC
* *
81369184 ACCATGGCAACGTGATATGAAATGAA
66 ACCATGGCAACATGATA-GAAATAAA
*
81369210 CAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-AAAATGAGTAAGACCATAGTTGAAAGA
* *
81369275 CACTATGGCATCATG-TCA-AAGATAAA
65 CACCATGGCAACATGAT-AGAA-ATAAA
81369301 TAAGACC
1 TAAGACC
81369308 GTGGATGGGA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
90 2 0.02
91 45 0.54
92 36 0.43
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.21
Consensus pattern (90 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAATGAGTAAGACCATAGTTGAAAGAC
ACCATGGCAACATGATAGAAATAAA
Found at i:81379432 original size:15 final size:16
Alignment explanation
Indices: 81379414--81379443 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
81379404 TAAAGTAATG
81379414 ATATG-TAAAAAATAA
1 ATATGCTAAAAAATAA
81379429 ATATGCTAAAAAATA
1 ATATGCTAAAAAATA
81379444 TACAGTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (16 bp):
ATATGCTAAAAAATAA
Found at i:81382925 original size:15 final size:14
Alignment explanation
Indices: 81382883--81382932 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
81382873 ATAACTTTGA
*
81382883 ATGCAAATGATGTG
1 ATGCAAATGATGAG
81382897 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
81382912 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
81382926 ATGCAAA
1 ATGCAAA
81382933 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:81391386 original size:15 final size:14
Alignment explanation
Indices: 81391344--81391393 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
81391334 ATAACTTTGA
*
81391344 ATGCAAATGATGTG
1 ATGCAAATGATGAG
81391358 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
81391373 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
81391387 ATGCAAA
1 ATGCAAA
81391394 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:81395250 original size:3 final size:3
Alignment explanation
Indices: 81395244--81395484 Score: 72
Period size: 3 Copynumber: 81.3 Consensus size: 3
81395234 AAAATACAAC
* * * *
81395244 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
81395287 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
81395331 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
81395376 AAT AAT AAT -AT GAT GAT GAT -CT ATT AAGT TAT AAT GAA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT
* * * * * *
81395420 GAT AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT
*
81395465 AAT AAT AAAT TAT AAT AAT A
1 AAT AAT -AAT AAT AAT AAT A
81395485 GTGATGAGAA
Statistics
Matches: 176, Mismatches: 43, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
2 20 0.11
3 139 0.79
4 17 0.10
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:81395250 original size:22 final size:22
Alignment explanation
Indices: 81395199--81395259 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
81395189 ATAAGTAAAT
* *
81395199 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
81395220 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
81395242 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
81395260 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:81395503 original size:16 final size:16
Alignment explanation
Indices: 81395484--81395515 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
81395474 TTATAATAAT
81395484 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
81395500 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
81395516 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:81395648 original size:16 final size:15
Alignment explanation
Indices: 81395619--81395661 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
81395609 TATACGTATG
*
81395619 AAAAATAATGATAGT
1 AAAAATAATAATAGT
81395634 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
81395650 AATAATAATAAT
1 AAAAATAATAAT
81395662 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:81395764 original size:3 final size:3
Alignment explanation
Indices: 81395756--81395791 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
81395746 ACACTACCAT
81395756 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
81395792 TAGAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:81395892 original size:3 final size:3
Alignment explanation
Indices: 81395884--81395912 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
81395874 AAATATACAC
81395884 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
81395913 TTAAAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:81396420 original size:24 final size:24
Alignment explanation
Indices: 81396391--81396441 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
81396381 AAAAAAAAAG
81396391 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
* *
81396415 AAAAATCTCTTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
81396439 AAA
1 AAA
81396442 TTTCTTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAATCCCCTCTTGAATCTCAAA
Found at i:81396442 original size:22 final size:23
Alignment explanation
Indices: 81396391--81396449 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
81396381 AAAAAAAAAG
* *
81396391 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCTCTTCTTGAATCTC-AA
81396415 AAAAATCTCTTCTTGAATCTC-A
1 AAAAATCTCTTCTTGAATCTCAA
*
81396437 AAAAATTTCTTCT
1 AAAAATCTCTTCT
81396450 CTCCAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 13 0.41
24 19 0.59
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (23 bp):
AAAAATCTCTTCTTGAATCTCAA
Found at i:81396659 original size:14 final size:14
Alignment explanation
Indices: 81396635--81396672 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
81396625 TGAGATTAGG
81396635 TTTTTTCTTTTTTGA
1 TTTTTT-TTTTTTGA
81396650 -TTTTTTTTTTTGA
1 TTTTTTTTTTTTGA
81396663 TTTTTTTTTT
1 TTTTTTTTTT
81396673 GGGTTGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTTTGA
Found at i:81396673 original size:12 final size:13
Alignment explanation
Indices: 81396636--81396672 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
81396626 GAGATTAGGT
81396636 TTTTTCTTTTTTGA
1 TTTTT-TTTTTTGA
81396650 TTTTTTTTTTTGA
1 TTTTTTTTTTTGA
81396663 TTTTTTTTTT
1 TTTTTTTTTT
81396673 GGGTTGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTGA
Found at i:81397842 original size:12 final size:12
Alignment explanation
Indices: 81397825--81397859 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
81397815 ACCCAACCCA
81397825 AAAAAAAAAATC
1 AAAAAAAAAATC
81397837 AAAAAAAAAATC
1 AAAAAAAAAATC
81397849 AAAAAAGAAAA
1 AAAAAA-AAAA
81397860 AACCTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAATC
Found at i:81398074 original size:22 final size:24
Alignment explanation
Indices: 81398048--81398097 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
81398038 TATTTTGGAG
81398048 AGAAGA-A-ATTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
*
81398070 AGAAGAGATTTTTTTTTGAGATTCA
1 AGAAGAGA-TATTTTTTGAGATTCA
81398095 AGA
1 AGA
81398098 GGGGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
25 17 0.71
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (24 bp):
AGAAGAGATATTTTTTGAGATTCA
Found at i:81398090 original size:25 final size:25
Alignment explanation
Indices: 81398056--81398112 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
81398046 AGAGAAGAAA
81398056 TTTTTTGAGATTCAAGAAGAGATTT
1 TTTTTTGAGATTCAAGAAGAGATTT
* *
81398081 TTTTTTGAGATTCAAGAGGGGATTT
1 TTTTTTGAGATTCAAGAAGAGATTT
81398106 TTCTTTT
1 TT-TTTT
81398113 TTTTGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.25, C:0.05, G:0.21, T:0.49
Consensus pattern (25 bp):
TTTTTTGAGATTCAAGAAGAGATTT
Found at i:81398106 original size:22 final size:22
Alignment explanation
Indices: 81398048--81398107 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 22
81398038 TATTTTGGAG
*
81398048 AGAAGAAATTTTTTGAGATTCA
1 AGAAGAGATTTTTTGAGATTCA
81398070 AGAAGAGATTTTTTTTTGAGATTCA
1 AGAAGAGA---TTTTTTGAGATTCA
* *
81398095 AGAGGGGATTTTT
1 AGAAGAGATTTTT
81398108 CTTTTTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 12 0.38
25 20 0.62
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.40
Consensus pattern (22 bp):
AGAAGAGATTTTTTGAGATTCA
Found at i:81398707 original size:3 final size:3
Alignment explanation
Indices: 81398699--81398734 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
81398689 TGTATTTCTA
81398699 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
81398735 ATGGTAGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:81398860 original size:16 final size:15
Alignment explanation
Indices: 81398829--81398871 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
81398819 CCTTCATTCC
*
81398829 ATTATTATTATTACT
1 ATTATTATTTTTACT
81398844 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
81398860 ATCATTATTTTT
1 ATTATTATTTTT
81398872 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:81398996 original size:16 final size:16
Alignment explanation
Indices: 81398975--81399006 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
81398965 CTATTGTTAC
81398975 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
81398991 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
81399007 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:81399014 original size:3 final size:3
Alignment explanation
Indices: 81399006--81399268 Score: 134
Period size: 3 Copynumber: 89.0 Consensus size: 3
81398996 TTCTCATCAC
* * *
81399006 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
81399052 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* *
81399097 CAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
81399145 TAT TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT TGT CA- TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
81399189 TGT TAC TAT TAC TAT TA- TAT TAT TA- TGT TAT TA- TAT CTTT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * *
81399232 TAT TAT TAT TGT T-G TAT TTT TA- TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
81399269 ATTTTCCTTT
Statistics
Matches: 194, Mismatches: 48, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
2 17 0.09
3 162 0.84
4 15 0.08
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:81399048 original size:11 final size:13
Alignment explanation
Indices: 81399018--81399049 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
81399008 TTATTATAAT
81399018 TTATTATTGTTAC
1 TTATTATTGTTAC
81399031 TTATTATT-TTAC
1 TTATTATTGTTAC
81399043 -TATTATT
1 TTATTATT
81399050 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:81404349 original size:10 final size:10
Alignment explanation
Indices: 81404334--81404358 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
81404324 TTATTTTATG
81404334 ATTTTTGAAA
1 ATTTTTGAAA
81404344 ATTTTTGAAA
1 ATTTTTGAAA
81404354 ATTTT
1 ATTTT
81404359 AAAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (10 bp):
ATTTTTGAAA
Found at i:81419083 original size:55 final size:53
Alignment explanation
Indices: 81418989--81419137 Score: 174
Period size: 55 Copynumber: 2.8 Consensus size: 53
81418979 ATGGCATTGG
* * *
81418989 TAAGGC-AAGGATCCCGTGTAAGACAATGTCAAGAAATGGCATTGATGAGTGACTA
1 TAAGGCAAAGG-TCCCATGTAAGACCATGTCAAGACATGGCATTGATGAGT-AC-A
* * * *
81419044 TAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
1 TAAGGCAAAGGTCCCATGTAAGACCATGTCAAGACATGGCATTGATGAGTACA
* * *
81419097 TAAGGCAAAGATACCACGTAAGACCATGTCAAGACATGGCA
1 TAAGGCAAAGGTCCCATGTAAGACCATGTCAAGACATGGCA
81419138 ATGGTAAGTT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 37 0.46
54 1 0.01
55 39 0.48
56 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (53 bp):
TAAGGCAAAGGTCCCATGTAAGACCATGTCAAGACATGGCATTGATGAGTACA
Found at i:81419122 original size:53 final size:53
Alignment explanation
Indices: 81419006--81419149 Score: 171
Period size: 53 Copynumber: 2.7 Consensus size: 53
81418996 AGGATCCCGT
* * * * * * *
81419006 GTAAGACAATGTCAAGAAATGGCATTGATGAGTGACTATAAGGCAAAGGTCCCAT
1 GTAAGACCATGTCAAGACATGGCATTGGTGAGT-TC-ATAAGGCAAAGATACCAC
* *
81419061 GTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAAGATACCAC
1 GTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGCAAAGATACCAC
* *
81419114 GTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 GTAAGACCATGTCAAGACATGGCATTGGTGAGTTCA
81419150 AAAAGGAAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 47 0.62
54 1 0.01
55 28 0.37
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (53 bp):
GTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGCAAAGATACCAC
Found at i:81419270 original size:16 final size:17
Alignment explanation
Indices: 81419251--81419283 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
81419241 CTTATTTAAT
81419251 ATTGAGATTAT-AAGTA
1 ATTGAGATTATCAAGTA
81419267 ATTGAGATTATCAAGTA
1 ATTGAGATTATCAAGTA
81419284 TTAAGTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.36
Consensus pattern (17 bp):
ATTGAGATTATCAAGTA
Found at i:81420114 original size:13 final size:13
Alignment explanation
Indices: 81420096--81420121 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81420086 CCCTGTTCTG
81420096 GATTTATAAACTC
1 GATTTATAAACTC
81420109 GATTTATAAACTC
1 GATTTATAAACTC
81420122 ACTAAAAATT
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:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
GATTTATAAACTC
Found at i:81422338 original size:24 final size:22
Alignment explanation
Indices: 81422317--81422360 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
81422307 TTCAATTTAT
81422317 TTTATTATATATATAAATATTTG
1 TTTATT-TATATATAAATATTTG
* *
81422340 TTTATTTATATTTATATATTT
1 TTTATTTATATATAAATATTT
81422361 TTGTTTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATTTATATATAAATATTTG
Found at i:81422363 original size:24 final size:23
Alignment explanation
Indices: 81422317--81422366 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
81422307 TTCAATTTAT
81422317 TTTATTATATATATAAATATTTG
1 TTTATTATATATATAAATATTTG
* * *
81422340 TTTATTTATATTTATATATTTTTG
1 TTTA-TTATATATATAAATATTTG
81422364 TTT
1 TTT
81422367 GCTAACGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTATTATATATATAAATATTTG
Found at i:81425969 original size:42 final size:43
Alignment explanation
Indices: 81425916--81426013 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 43
81425906 TTTGTTATTA
*
81425916 AATCAGTTAATT-TTAT-TT-TTATTTTCTTTGCTATTATTTTTA-T
1 AATCA-TTAATTATTATATTATTA-TTTCTTT--TATTATTATTACT
81425959 AATCATTAATTATTATATTATTATTTCTTTTATTATTATTACT
1 AATCATTAATTATTATATTATTATTTCTTTTATTATTATTACT
81426002 -ATCATT-ATTATT
1 AATCATTAATTATT
81426014 TTTAGTAGTA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
41 6 0.12
42 22 0.44
43 10 0.20
44 9 0.18
45 3 0.06
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (43 bp):
AATCATTAATTATTATATTATTATTTCTTTTATTATTATTACT
Found at i:81425980 original size:3 final size:3
Alignment explanation
Indices: 81425947--81426232 Score: 140
Period size: 3 Copynumber: 95.3 Consensus size: 3
81425937 TTTTCTTTGC
* * * *
81425947 TAT TAT TTT TAT AAT CAT TAAT TAT TA- TAT TAT TAT T-T CTTT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * * * *
81425992 TAT TAT TAC TAT CAT TAT TAT TTT TAG TAG TAG TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * ** * * *
81426040 TCT TTT TAT TAT TGT CCT TAC TAT TGT TAT TCTT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* * * * ** *
81426086 T-T T-T TTT TAT TAC TAT TAT TGT TAGT T-T TAT TAT TAC TGC CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * *
81426129 TAT TTT TAT TAT TAC TGT TAT AAT TAT TA- TAT T-T CTCT T-T TGA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT
*
81426172 AATT TATT TACT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TA-T TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
81426220 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
81426233 TTTAAAATAC
Statistics
Matches: 216, Mismatches: 52, Indels: 30
0.72 0.17 0.10
Matches are distributed among these distances:
2 15 0.07
3 184 0.85
4 17 0.08
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:81428488 original size:23 final size:23
Alignment explanation
Indices: 81428445--81428488 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
81428435 TTGATAGAGT
*
81428445 AAAAAATATTTGAGATAATTAAA
1 AAAAAATATTTGAAATAATTAAA
*
81428468 AAAATAATATTT-AAATTATTA
1 AAAA-AATATTTGAAATAATTA
81428489 TTTGAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
AAAAAATATTTGAAATAATTAAA
Found at i:81432885 original size:20 final size:21
Alignment explanation
Indices: 81432846--81432885 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
81432836 TTGTTGTTAA
*
81432846 ATGATAGATTCTAGAAGTTTG
1 ATGATAGATTCTACAAGTTTG
*
81432867 ATGATAG-TTTTACAAGTTT
1 ATGATAGATTCTACAAGTTT
81432886 TATAAAGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (21 bp):
ATGATAGATTCTACAAGTTTG
Found at i:81441876 original size:40 final size:40
Alignment explanation
Indices: 81441815--81441905 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
81441805 CGGTACTTTA
* *
81441815 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATATT
1 TGGTGTGTAGGGTAGGATGGGTCGATTTTATCCCCATATT
* *
81441855 TGGTGTTTAGGGATAGG-TGGGTCGATTTTAT-CCC-TATA
1 TGGTGTGTAGGG-TAGGATGGGTCGATTTTATCCCCATATT
*
81441893 TGGTGTGTTGGGT
1 TGGTGTGTAGGGT
81441906 TAGACGAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 1 0.02
38 13 0.30
39 3 0.07
40 24 0.55
41 3 0.07
ACGTcount: A:0.14, C:0.09, G:0.35, T:0.42
Consensus pattern (40 bp):
TGGTGTGTAGGGTAGGATGGGTCGATTTTATCCCCATATT
Found at i:81450519 original size:44 final size:44
Alignment explanation
Indices: 81450416--81450854 Score: 276
Period size: 44 Copynumber: 9.7 Consensus size: 44
81450406 TTGAATATAG
* * * * * *
81450416 CAAATCTTGTCTCCTTGAAGATGCAATGGAGTGAGA-TGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAGCTA
* ** * * * *
81450460 CATATCCCATATCCCTGAAGTTGCAGTAGATCAGATTAAATCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
81450504 CAAATCTTATCTCCCTAAAGTTGCAATTGAGCATATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
*
81450548 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * * **
81450592 CAAACCCTATCTCCTTAAAGTTGCAGTAGAGCAGATTGAAGAGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * ** * * * *
81450636 CAAATCCTATAC-CTCTGAAATTTTATTGG-GTCAAATCAAATCTA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTAAAGCTA
* *
81450680 CCATAACGAGTCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 -C--AA--A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---C----TA
* * *
81450737 CAAATCTTATCTCTCTGAAGTTGTAGTGGAACAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* *
81450781 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA
* * *
81450825 CAATTCCTATAC-CCCTAAAGTTGCAGTGGA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGA
81450855 TTAGAATAAG
Statistics
Matches: 303, Mismatches: 72, Indels: 40
0.73 0.17 0.10
Matches are distributed among these distances:
43 4 0.01
44 224 0.74
45 6 0.02
47 2 0.01
48 1 0.00
49 1 0.00
50 24 0.08
51 34 0.11
52 1 0.00
53 1 0.00
54 2 0.01
56 1 0.00
57 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:81454223 original size:30 final size:31
Alignment explanation
Indices: 81454187--81454257 Score: 117
Period size: 30 Copynumber: 2.3 Consensus size: 31
81454177 TTAGATTCAG
81454187 TGCTAATCTTCTATTCAAATTAATGGA-TTT
1 TGCTAATCTTCTATTCAAATTAATGGACTTT
81454217 TGCTAATCTTCTATTCAAATTAATGGACTTT
1 TGCTAATCTTCTATTCAAATTAATGGACTTT
* *
81454248 TACGAATCTT
1 TGCTAATCTT
81454258 GCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 27 0.71
31 11 0.29
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (31 bp):
TGCTAATCTTCTATTCAAATTAATGGACTTT
Found at i:81455058 original size:21 final size:19
Alignment explanation
Indices: 81455020--81455058 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
81455010 TTTCCTATTA
*
81455020 TTCTTTTTTTTTTCTTTTT
1 TTCTTTTGTTTTTCTTTTT
*
81455039 TTCTCTTTGTTTTTCATTTT
1 TTCT-TTTGTTTTTCTTTTT
81455059 GTTGATTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (19 bp):
TTCTTTTGTTTTTCTTTTT
Found at i:81456945 original size:37 final size:37
Alignment explanation
Indices: 81456904--81456974 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
81456894 GATTTGCTAA
81456904 ACCATATGTGTTACACGTAATCTGTTATCTGTTCATT
1 ACCATATGTGTTACACGTAATCTGTTATCTGTTCATT
*
81456941 ACCATATGTGTTATACGTAATCTGTTATCTGTTC
1 ACCATATGTGTTACACGTAATCTGTTATCTGTTC
81456975 TTATAAGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (37 bp):
ACCATATGTGTTACACGTAATCTGTTATCTGTTCATT
Found at i:81465465 original size:25 final size:24
Alignment explanation
Indices: 81465410--81465467 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
81465400 ATATATATGT
*
81465410 ATATAATACTAAGTAATAATAATA
1 ATATAATACCAAGTAATAATAATA
*
81465434 ATAATAATACCATGCTAATAAATAA-A
1 AT-ATAATACCAAG-TAAT-AATAATA
81465460 ATATAATA
1 ATATAATA
81465468 ATGATAGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 2 0.07
25 15 0.52
26 7 0.24
27 5 0.17
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (24 bp):
ATATAATACCAAGTAATAATAATA
Found at i:81465544 original size:18 final size:18
Alignment explanation
Indices: 81465513--81465553 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
81465503 TATTAAGACT
*
81465513 AAAA-TAAAATAATGAGA-
1 AAAAGTAAAAAAATG-GAC
81465530 AAAAGTAAAAAAATGGAC
1 AAAAGTAAAAAAATGGAC
81465548 AAAAGT
1 AAAAGT
81465554 GAATTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAAGTAAAAAAATGGAC
Found at i:81466919 original size:42 final size:42
Alignment explanation
Indices: 81466870--81466962 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
81466860 ACTTTAATCT
*
81466870 ACTCCACTGAAACTTCAAGGAGATCTTCTGAGGCTTCGATCA
1 ACTCCACTGAAACTTCAAGGAGATCTGCTGAGGCTTCGATCA
*
81466912 ACTCCACTGAAACTTCAAGGAGATCTGCTGCGGCTTCGATCA
1 ACTCCACTGAAACTTCAAGGAGATCTGCTGAGGCTTCGATCA
81466954 ACTCCACTG
1 ACTCCACTG
81466963 CTGTTTCAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (42 bp):
ACTCCACTGAAACTTCAAGGAGATCTGCTGAGGCTTCGATCA
Found at i:81467140 original size:86 final size:86
Alignment explanation
Indices: 81466995--81467280 Score: 317
Period size: 86 Copynumber: 3.3 Consensus size: 86
81466985 AATTTTTAGT
* * * * * * *
81466995 CTGTTACCCTACTGCTTAAGGGATTACGGCTT-GTCATCTTTGATCTGTTTCC-CTACTGCTTAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGG-TTCTTCGTCTTCGATCTG-CTCCACTACTGCTTAG
** * *
81467058 GG-TTTTAGATCTGTATACTCAAC
64 GGAGATAAGATCTGCA-ACTCAAC
81467081 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
* *
81467146 AGATAAGATCTGCAATTTAAC
66 AGATAAGATCTGCAACTCAAC
* * *
81467167 CTGTTACCCCACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTACACCACTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
* * ****
81467232 GGATAAGATCTGCAATTTGGT
66 AGATAAGATCTGCAACTCAAC
*
81467253 CTGTTTCCCTACTGCTTAGGGGTTTAAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAG
81467281 ACCTTATGAC
Statistics
Matches: 175, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
85 5 0.03
86 161 0.92
87 9 0.05
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTGCAACTCAAC
Found at i:81467143 original size:44 final size:44
Alignment explanation
Indices: 81467089--81467232 Score: 136
Period size: 44 Copynumber: 3.3 Consensus size: 44
81467079 ACCTGTTACC
81467089 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
* * * * * * *
81467133 CTACTGCTTAGGGAG-ATAA-GATCTGCAAT-TT-AACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCTTC-GTCTTCGATCTGCT-CCA
* * *
81467175 CCACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTACACCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
81467219 CTACTGCTTAGGGG
1 CTACTGCTTAGGGG
81467233 GATAAGATCT
Statistics
Matches: 74, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
41 1 0.01
42 21 0.28
43 18 0.24
44 33 0.45
45 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (44 bp):
CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
Found at i:81467620 original size:44 final size:45
Alignment explanation
Indices: 81467427--81467622 Score: 138
Period size: 44 Copynumber: 4.5 Consensus size: 45
81467417 GATTTTCAGC
* * * *
81467427 CTGTTACCCTACTGCTTCGGGGGTTGAGGCTCATCT-TCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCTATCTTCGAT
* * * * * * * *
81467471 CTGTTTCCCTACTGCTTAGGGTGAT-AAGATC-TGCAATTTTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCTCAT-CTATCTTCGAT
* * * * * *
81467515 CTATTACCCTACTTCTTAGGGGGTT-AAGGTC-TGTAAAT-TTGGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCT--ATCTTCGAT
81467559 C-GTTACCCTACTGCTTAGGGGGTTAAAGCTCAT-TATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCTATCTTCGAT
*
81467602 CTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGG
81467623 TGATAAGATC
Statistics
Matches: 115, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
42 3 0.03
43 31 0.27
44 78 0.68
45 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (45 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCTATCTTCGAT
Found at i:81472380 original size:1 final size:1
Alignment explanation
Indices: 81472374--81472398 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
81472364 GCCTCTCTCC
81472374 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
81472399 GGCGAAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:81484143 original size:25 final size:24
Alignment explanation
Indices: 81484088--81484145 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
81484078 ATATATATGT
*
81484088 ATATAATACTAAGTAATAATAATA
1 ATATAATACCAAGTAATAATAATA
*
81484112 ATAATAATACCATGCTAATAAATAA-A
1 AT-ATAATACCAAG-TAAT-AATAATA
81484138 ATATAATA
1 ATATAATA
81484146 ATGATAGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 2 0.07
25 15 0.52
26 7 0.24
27 5 0.17
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (24 bp):
ATATAATACCAAGTAATAATAATA
Found at i:81484222 original size:18 final size:18
Alignment explanation
Indices: 81484191--81484231 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
81484181 TATTAAGACT
*
81484191 AAAA-TAAAATAATGAGA-
1 AAAAGTAAAAAAATG-GAC
81484208 AAAAGTAAAAAAATGGAC
1 AAAAGTAAAAAAATGGAC
81484226 AAAAGT
1 AAAAGT
81484232 GAATTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAAGTAAAAAAATGGAC
Found at i:81486968 original size:24 final size:24
Alignment explanation
Indices: 81486915--81486969 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
81486905 CCAGCTTGTC
* * *
81486915 TATATTAAATTTTTTATATTATTT
1 TATATAAAATTTTTAATATTATTA
*
81486939 TTTATAAAATTTTTAATA-TATATA
1 TATATAAAATTTTTAATATTAT-TA
81486963 TATATAA
1 TATATAA
81486970 TACATCAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATAAAATTTTTAATATTATTA
Found at i:81491647 original size:26 final size:26
Alignment explanation
Indices: 81491618--81491670 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
81491608 TCAAACATGC
81491618 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
81491644 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
81491670 A
1 A
81491671 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:81493190 original size:26 final size:26
Alignment explanation
Indices: 81493154--81493237 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
81493144 CATGAAATTC
81493154 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
81493180 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
81493206 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
81493232 TTATCA
1 TTATCA
81493238 ATTTGTATCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:81497085 original size:27 final size:27
Alignment explanation
Indices: 81497047--81497107 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
81497037 GCTTTGGATT
81497047 CAACTTCTTTTCCTTTACTTGTTCCTA
1 CAACTTCTTTTCCTTTACTTGTTCCTA
81497074 CAACTTCTTTTCCTTTACTTGTTCCTA
1 CAACTTCTTTTCCTTTACTTGTTCCTA
81497101 CAACTTC
1 CAACTTC
81497108 AACAGCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.31, G:0.03, T:0.49
Consensus pattern (27 bp):
CAACTTCTTTTCCTTTACTTGTTCCTA
Found at i:81497116 original size:27 final size:27
Alignment explanation
Indices: 81497058--81497116 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
81497048 AACTTCTTTT
****
81497058 CCTTTACTTGTTCCTACAACTTCTTTT
1 CCTTTACTTGTTCCTACAACTTCAACA
81497085 CCTTTACTTGTTCCTACAACTTCAACA
1 CCTTTACTTGTTCCTACAACTTCAACA
*
81497112 GCTTT
1 CCTTT
81497117 TTTAACATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.31, G:0.05, T:0.46
Consensus pattern (27 bp):
CCTTTACTTGTTCCTACAACTTCAACA
Found at i:81497664 original size:41 final size:41
Alignment explanation
Indices: 81497608--81497852 Score: 325
Period size: 41 Copynumber: 6.0 Consensus size: 41
81497598 AAAATCGAAT
* *
81497608 AGATC-GAGCATTAGCGACGTTTTTAACAAAGCGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
*
81497648 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAACGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
* * * * *
81497689 AGATCTAAGAATTAGCGGTGTTTTTAGGAAAGCGCAGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
* *
81497730 AGATCTGGGCATTAGCGGCGTTTTTAGGAAAGCGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
* * *
81497771 AGATCTGGGCATTAGTGGCATTTTTAAGAAAGCGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
* *
81497812 AGATC-GAGCATTAGCGGCGCTTTTT-TGAAAACGCCGCTAA
1 AGATCTGAGCATTAGCGGCG-TTTTTAAGAAAGCGCCGCTAA
81497852 A
1 A
81497853 AGATTAAGCA
Statistics
Matches: 181, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 30 0.17
41 151 0.83
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (41 bp):
AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
Found at i:81497878 original size:82 final size:82
Alignment explanation
Indices: 81497628--81497878 Score: 250
Period size: 82 Copynumber: 3.1 Consensus size: 82
81497618 TTAGCGACGT
*
81497628 TTTTAACAAAGCGCCGCTAAAGATCTGAGCATTAGCGGCGTTTTTAAGAAAACGCCGCTAAAGAT
1 TTTTAAGAAAGCGCCGCTAAAGATCTGAGCATTAGCGGCGTTTTTAAGAAAACGCCGCTAAAGAT
*
81497693 CTA--AGAATTAGCGGT-G
66 CTAGCAGAACTA-C-GTCG
* * * * *
81497709 TTTTTAGGAAAGCGCAGCTAAAGATCTGGGCATTAGCGGCGTTTTTAGGAAAGCGCCGCTAAAGA
1 -TTTTAAGAAAGCGCCGCTAAAGATCTGAGCATTAGCGGCGTTTTTAAGAAAACGCCGCTAAAGA
* * * *
81497774 TCT-G-GGCATTA-GTGGCAT
65 TCTAGCAGAACTACGT--C-G
*
81497792 TTTTAAGAAAGCGCCGCTAAAGATC-GAGCATTAGCGGCGCTTTTT-TGAAAACGCCGCTAAAAG
1 TTTTAAGAAAGCGCCGCTAAAGATCTGAGCATTAGCGGCG-TTTTTAAGAAAACGCCGCT-AAAG
81497855 AT-TAAGCAGAACTACGTCG
64 ATCT-AGCAGAACTACGTCG
81497874 TTTTA
1 TTTTA
81497879 CTTCAGTGGC
Statistics
Matches: 140, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
79 2 0.01
81 25 0.18
82 105 0.75
83 2 0.01
84 4 0.03
85 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (82 bp):
TTTTAAGAAAGCGCCGCTAAAGATCTGAGCATTAGCGGCGTTTTTAAGAAAACGCCGCTAAAGAT
CTAGCAGAACTACGTCG
Found at i:81498420 original size:7 final size:7
Alignment explanation
Indices: 81498410--81498538 Score: 52
Period size: 7 Copynumber: 18.1 Consensus size: 7
81498400 CTATTTAAAA
81498410 GTTTAGG
1 GTTTAGG
81498417 GTTTATGG
1 GTTTA-GG
81498425 GTTTAGG
1 GTTTAGG
* *
81498432 GATTA-T
1 GTTTAGG
*
81498438 GTTTACG
1 GTTTAGG
* *
81498445 GCTTATG
1 GTTTAGG
81498452 GTTTAAGG
1 GTTT-AGG
*
81498460 G-TTGGG
1 GTTTAGG
81498466 GTTTAAGG
1 GTTT-AGG
81498474 G-TTATGG
1 GTTTA-GG
*
81498481 G-CTAGTG
1 GTTTAG-G
*
81498488 GTTAAGG
1 GTTTAGG
81498495 GTTTATGG
1 GTTTA-GG
81498503 G-TTATGG
1 GTTTA-GG
* *
81498510 GTTAATG
1 GTTTAGG
*
81498517 GTTTAAG
1 GTTTAGG
81498524 GTTTAGG
1 GTTTAGG
*
81498531 GCTTAGG
1 GTTTAGG
81498538 G
1 G
81498539 GTTTTTATTT
Statistics
Matches: 92, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
6 9 0.10
7 63 0.68
8 20 0.22
ACGTcount: A:0.18, C:0.03, G:0.39, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:81498504 original size:29 final size:30
Alignment explanation
Indices: 81498464--81498528 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
81498454 TTAAGGGTTG
*
81498464 GGGTTTAAGGGTTATGGGCTAGTGG-TTAA
1 GGGTTTAAGGGTTATGGGCTAATGGTTTAA
* *
81498493 GGGTTTATGGGTTATGGGTTAATGGTTTAA
1 GGGTTTAAGGGTTATGGGCTAATGGTTTAA
81498523 -GGTTTA
1 GGGTTTA
81498529 GGGCTTAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.20, C:0.02, G:0.38, T:0.40
Consensus pattern (30 bp):
GGGTTTAAGGGTTATGGGCTAATGGTTTAA
Found at i:81498812 original size:28 final size:27
Alignment explanation
Indices: 81498775--81498879 Score: 78
Period size: 28 Copynumber: 3.9 Consensus size: 27
81498765 TAGGGGATAT
*
81498775 ATATACTTTAGAGTTTAATGTTATAGGG
1 ATATAGTTTAG-GTTTAATGTTATAGGG
*
81498803 ATATAGTTTAGG----GT-TTAT-GGG
1 ATATAGTTTAGGTTTAATGTTATAGGG
* *
81498824 ATATATTTTAGGGTTTAAGGTTATAGGG
1 ATATAGTTTA-GGTTTAATGTTATAGGG
*
81498852 ATATAGTTTAATGGTTTAAGGTTTATAG
1 ATATAGTTT-A-GGTTTAATG-TTATAG
81498880 TTTTGATTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
21 12 0.20
22 6 0.10
23 1 0.02
27 5 0.08
28 21 0.34
29 10 0.16
30 6 0.10
ACGTcount: A:0.30, C:0.01, G:0.26, T:0.44
Consensus pattern (27 bp):
ATATAGTTTAGGTTTAATGTTATAGGG
Found at i:81498824 original size:21 final size:22
Alignment explanation
Indices: 81498795--81498840 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
81498785 GAGTTTAATG
81498795 TTATAGGGATATAGTTTAGGGT
1 TTATAGGGATATAGTTTAGGGT
*
81498817 TTAT-GGGATATATTTTAGGGT
1 TTATAGGGATATAGTTTAGGGT
81498838 TTA
1 TTA
81498841 AGGTTATAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (22 bp):
TTATAGGGATATAGTTTAGGGT
Found at i:81499002 original size:28 final size:28
Alignment explanation
Indices: 81498956--81499014 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
81498946 AATTCATACA
* *
81498956 TTTTGTGGTTAAGGCTTAGGGGTTATTG
1 TTTTGTGGTTAAGGCTTAGGGGATATAG
*
81498984 TTTTGTGGTTTATGG-TTAGGGGATATAG
1 TTTTGTGG-TTAAGGCTTAGGGGATATAG
81499012 TTT
1 TTT
81499015 AAGTTTTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.15, C:0.02, G:0.34, T:0.49
Consensus pattern (28 bp):
TTTTGTGGTTAAGGCTTAGGGGATATAG
Found at i:81499043 original size:21 final size:21
Alignment explanation
Indices: 81498999--81499051 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
81498989 TGGTTTATGG
* * *
81498999 TTAGGGGATATAGTTTAAGTT
1 TTAGAGGATATACTTTAAGGT
*
81499020 TTAGAGGATATACTTTAGGGT
1 TTAGAGGATATACTTTAAGGT
*
81499041 TTA-AGGTTATA
1 TTAGAGGATATA
81499052 GGGATATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (21 bp):
TTAGAGGATATACTTTAAGGT
Found at i:81499077 original size:29 final size:29
Alignment explanation
Indices: 81499011--81499082 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
81499001 AGGGGATATA
*
81499011 GTTTAA-GTTTTAGAGGATATACTTTAGG
1 GTTTAAGGTTATAGAGGATATACTTTAGG
* *
81499039 GTTTAAGGTTATAG-GGATATAGTTTAATG
1 GTTTAAGGTTATAGAGGATATACTTT-AGG
81499068 GTTTAAGGTT-TAGAG
1 GTTTAAGGTTATAGAG
81499083 TTTTGATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 19 0.50
29 19 0.50
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.42
Consensus pattern (29 bp):
GTTTAAGGTTATAGAGGATATACTTTAGG
Found at i:81500528 original size:44 final size:46
Alignment explanation
Indices: 81500433--81500547 Score: 144
Period size: 44 Copynumber: 2.5 Consensus size: 46
81500423 ACAGGACAGA
* *
81500433 ACAGAAATGAGCCATGTAAGTCCATAGTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATAGTAGAAATATGGCATTGGAG
* * *
81500479 ACAGGATTGAGCCATGTAAGTCCATA-T-TATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATAGTAGAAATATGGCATTGGAG
* **
81500523 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
81500548 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 35 0.58
45 1 0.02
46 24 0.40
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (46 bp):
ACAGGAATGAGCCATGTAAGTCCATAGTAGAAATATGGCATTGGAG
Found at i:81502157 original size:6 final size:6
Alignment explanation
Indices: 81502146--81502181 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
81502136 TGACTTTCTC
81502146 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT
81502182 TTTTGTCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CCCTCT
Found at i:81503958 original size:14 final size:13
Alignment explanation
Indices: 81503935--81503964 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
81503925 ATTACTATAA
81503935 TAATTATATGAAG
1 TAATTATATGAAG
81503948 TAATATATATGAAG
1 TAAT-TATATGAAG
81503962 TAA
1 TAA
81503965 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:81504349 original size:183 final size:183
Alignment explanation
Indices: 81504035--81504403 Score: 666
Period size: 183 Copynumber: 2.0 Consensus size: 183
81504025 GATATAGTTC
* * *
81504035 CATGTGTCTGTACTAGTGAATTAATGTTGTATGTATTTCAGTTGCTGCTTCCTTCTCCTTCTGCA
1 CATGTGTCTGTACTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
* *
81504100 ACTATTGTTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATATATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
81504165 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
* *
81504218 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTATTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTGTACTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
*
81504283 ACTATTGGTTCAACTGAAGTTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
81504348 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
81504401 CAT
1 CAT
81504404 CTGTTCTAGG
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 178 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (183 bp):
CATGTGTCTGTACTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
Found at i:81504620 original size:15 final size:15
Alignment explanation
Indices: 81504600--81504628 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
81504590 GGAGTAGACC
81504600 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
81504615 AGGTACGTTTTATT
1 AGGTACGTTTTATT
81504629 TCAAAATTCT
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:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:81505804 original size:419 final size:419
Alignment explanation
Indices: 81504821--81506085 Score: 2379
Period size: 419 Copynumber: 3.0 Consensus size: 419
81504811 AGTATGAATT
81504821 AATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGCTGACCTTCTCTC
1 AATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGCTGACCTTCTCTC
81504886 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCT-GAAACCTGACGGGTTGCCTTA
*
81504951 TATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACTTATGATGAATCTTAA
130 TATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
81505016 AAAATTCAAAAAATCTCGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTT
195 AAAATTCAAAAAATCTCGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTT
81505081 CCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTT
260 CCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTT
81505146 TTTTATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTATTTGTATAAAAAAAAAG
325 TTTTATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTATTTGTAT--AAAAAAAG
81505211 ATTTCAAAAAAAGTTCTATGGAGCTTATAAAC
388 ATTTCAAAAAAAGTTCTATGGAGCTTATAAAC
*
81505243 AATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGCTGACCCTCTCTC
1 AATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGCTGACCTTCTCTC
81505308 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTG-AAACCTGACGGGTTGCCTTA
* * *
81505373 TATCGAGCTGCAATATATAATGGATCCTCCCTAGGTGTAACAATGCTACGTATGATGAATCTTAA
130 TATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
81505438 AAAATTCAAAAAATCTCGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTT
195 AAAATTCAAAAAATCTCGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTT
81505503 CCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT-ATATTATTATATTCAAATTACTATTT
260 CCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTT
81505567 TTTTATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTATTTGTATAAAAAAAGAT
325 TTTTATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTATTTGTATAAAAAAAGAT
81505632 TTCAAAAAAAGTTCTATGGAGCTTATAAAC
390 TTCAAAAAAAGTTCTATGGAGCTTATAAAC
81505662 AATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGCTGACCTTCTCTC
1 AATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGCTGACCTTCTCTC
*
81505727 CAACCTTATTTTAAATATTTTAAAGATTCATAGTATATAGGCTGAAAGCCTGACGGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAA-CCTGACGGGTTGCCTTA
**
81505792 TATCGAGCTGCAAGATATAATATATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
130 TATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
*
81505857 AAAATTCAAAAAATCTTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTT
195 AAAATTCAAAAAATCTCGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTT
81505922 CCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTT
260 CCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTT
*
81505987 TTTTATATTAATAATGTTTGATTTTGATATTTAATATTTTTAAATGTATTTGTATAAAAAAAGAT
325 TTTTATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTATTTGTATAAAAAAAGAT
*
81506052 TTCAAAAAAAGTTCTATGGAGCTTATAAAT
390 TTCAAAAAAAGTTCTATGGAGCTTATAAAC
81506082 AATT
1 AATT
81506086 CTATCGACCT
Statistics
Matches: 825, Mismatches: 15, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
418 3 0.00
419 326 0.40
420 123 0.15
421 82 0.10
422 291 0.35
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (419 bp):
AATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGCTGACCTTCTCTC
CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAACCTGACGGGTTGCCTTAT
ATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAA
AAATTCAAAAAATCTCGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTC
CAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTT
TTTATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTATTTGTATAAAAAAAGATT
TCAAAAAAAGTTCTATGGAGCTTATAAAC
Found at i:81506223 original size:53 final size:49
Alignment explanation
Indices: 81506134--81506238 Score: 129
Period size: 53 Copynumber: 2.1 Consensus size: 49
81506124 GAAGGGCCAC
** *
81506134 TTATAAATAATTTTATCAATATAATAATATTGATCATTGTTTAAATATA
1 TTATAAATAATTTTATCAATATAATAATATTGATCATTACTTAAATAAA
* *
81506183 TTATAACTAATTTTTATCAAAATAGTATTAATATTGATCATTACTTAAATAAA
1 TTATAAATAA-TTTTATC--AATA-TAATAATATTGATCATTACTTAAATAAA
81506236 TTA
1 TTA
81506239 CATAACTCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 9 0.19
50 7 0.15
52 4 0.09
53 27 0.57
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (49 bp):
TTATAAATAATTTTATCAATATAATAATATTGATCATTACTTAAATAAA
Found at i:81511844 original size:21 final size:21
Alignment explanation
Indices: 81511818--81511865 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
81511808 TCAACTTAGA
81511818 GCGGAGGCAGCAGC-ACGGGAG
1 GCGGAGGCAGCAGCGA-GGGAG
81511839 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
81511860 GCGGAG
1 GCGGAG
81511866 CAGAACAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.56, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:81512275 original size:42 final size:41
Alignment explanation
Indices: 81512176--81512333 Score: 183
Period size: 40 Copynumber: 3.8 Consensus size: 41
81512166 CGTTTTTTAA
* **** **
81512176 AAAAAGCGCCGCTAAAAGTACTGCAAATTAGCGACGTTTTT
1 AAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGATTTTTTT
*
81512217 -AAAAGCGCCGCTAAAAGTGCTGGTCTTTAGCGATTTTTTT
1 AAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGATTTTTTT
* *
81512257 AAAAAAGCGCTGCTAAAAGTCCTGGTCTTTATCGGCATTTTTTT
1 -AAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGC-G-ATTTTTTT
*
81512301 AAAAAGCGCCGCTAAAAATCCTGGTCTTTAGCG
1 AAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCG
81512334 GCGCTTTTAG
Statistics
Matches: 100, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
40 33 0.33
42 29 0.29
43 30 0.30
44 8 0.08
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (41 bp):
AAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGATTTTTTT
Found at i:81512315 original size:43 final size:43
Alignment explanation
Indices: 81512159--81512358 Score: 187
Period size: 43 Copynumber: 4.7 Consensus size: 43
81512149 ACTGGGAAAA
* * * ****
81512159 TTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAAGTACTGCAAA
1 TTAGCGGCATTTTTT-TAAAAAGCGCCGCTAAAAGTCCTGGTCT
** *
81512203 TTAGC-G-ACGTTTTT-AAAAGCGCCGCTAAAAGTGCTGGTCT
1 TTAGCGGCATTTTTTTAAAAAGCGCCGCTAAAAGTCCTGGTCT
*
81512243 TTAGC-G-ATTTTTTTAAAAAAGCGCTGCTAAAAGTCCTGGTCT
1 TTAGCGGCATTTTTTT-AAAAAGCGCCGCTAAAAGTCCTGGTCT
* *
81512285 TTATCGGCATTTTTTTAAAAAGCGCCGCTAAAAATCCTGGTCT
1 TTAGCGGCATTTTTTTAAAAAGCGCCGCTAAAAGTCCTGGTCT
** **
81512328 TTAGCGGCGCTTTTAGAAAAA-CGCCGCTAAA
1 TTAGCGGCATTTTTTTAAAAAGCGCCGCTAAA
81512359 GGCAAAAAAA
Statistics
Matches: 131, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
40 33 0.25
42 42 0.32
43 43 0.33
44 13 0.10
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (43 bp):
TTAGCGGCATTTTTTTAAAAAGCGCCGCTAAAAGTCCTGGTCT
Found at i:81512808 original size:17 final size:17
Alignment explanation
Indices: 81512786--81512823 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
81512776 TCATTTTATT
81512786 ATAAAAATAAATTAGTA
1 ATAAAAATAAATTAGTA
* *
81512803 ATAAAATTATATTAGTA
1 ATAAAAATAAATTAGTA
81512820 ATAA
1 ATAA
81512824 TTGAATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
ATAAAAATAAATTAGTA
Found at i:81519272 original size:25 final size:23
Alignment explanation
Indices: 81519254--81519320 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 23
81519244 AAATAGATAT
81519254 TATAACAAGCAATTTAAATGAATAG
1 TATAA-AA-CAATTTAAATGAATAG
*
81519279 TATAAAACAATTTAAAAT-AATTAA
1 TATAAAACAATTT-AAATGAA-TAG
81519303 TATACAAAACAATTTAAA
1 TAT--AAAACAATTTAAA
81519321 ATAAAATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 8 0.22
24 11 0.30
25 8 0.22
26 10 0.27
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.30
Consensus pattern (23 bp):
TATAAAACAATTTAAATGAATAG
Found at i:81519350 original size:46 final size:46
Alignment explanation
Indices: 81519280--81519370 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
81519270 AATGAATAGT
* *
81519280 ATAAAACAATTTAAAATAATTAATATACAAAACAATTTAAAATAAA
1 ATAAAACAACTTAAAATAAATAATATACAAAACAATTTAAAATAAA
* * *
81519326 ATAAAGCAACTTAAAATAAATAATATATATAACAATTTAAAATAA
1 ATAAAACAACTTAAAATAAATAATATACAAAACAATTTAAAATAA
81519371 CATATAGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.29
Consensus pattern (46 bp):
ATAAAACAACTTAAAATAAATAATATACAAAACAATTTAAAATAAA
Found at i:81519370 original size:26 final size:24
Alignment explanation
Indices: 81519169--81519370 Score: 130
Period size: 26 Copynumber: 8.2 Consensus size: 24
81519159 CAAAAGAAAT
* *
81519169 AAATAAATAACATAAAACCATTTA
1 AAATAAATAATATAAAACAATTTA
* * * *
81519193 GAATAAAT-A-ATGAGACAATTTT
1 AAATAAATAATATAAAACAATTTA
*
81519215 AAATAAATAATACATAAAAAATAAGTTTA
1 AAATAAATAAT--AT--AAAACAA-TTTA
* *
81519244 AAATAGATATTATAACAAGCAATTT-
1 AAATAAATAATATAA-AA-CAATTTA
* *
81519269 AAATGAATAGTATAAAACAATTTA
1 AAATAAATAATATAAAACAATTTA
*
81519293 AAATAATTAATATACAAAACAATTTA
1 AAATAAATAATAT--AAAACAATTTA
* *
81519319 AAAT--A-AA-ATAAAGCAACTTA
1 AAATAAATAATATAAAACAATTTA
81519339 AAATAAATAATATATATAACAATTTA
1 AAATAAATAATATA-A-AACAATTTA
81519365 AAATAA
1 AAATAA
81519371 CATATAGAAA
Statistics
Matches: 136, Mismatches: 24, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
20 13 0.10
22 19 0.14
23 12 0.09
24 22 0.16
25 15 0.11
26 35 0.26
27 4 0.03
28 4 0.03
29 12 0.09
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATAAATAATATAAAACAATTTA
Found at i:81519437 original size:24 final size:25
Alignment explanation
Indices: 81519410--81519457 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
81519400 TAACAAGAAA
*
81519410 TTTAAAATAAATAATAAA-AAATAG
1 TTTAAAATAAATAAAAAATAAATAG
* *
81519434 TTTAATATATATAAAAAATAAATA
1 TTTAAAATAAATAAAAAATAAATA
81519458 ATGTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
TTTAAAATAAATAAAAAATAAATAG
Found at i:81519561 original size:25 final size:25
Alignment explanation
Indices: 81519503--81519587 Score: 84
Period size: 25 Copynumber: 3.3 Consensus size: 25
81519493 AAGAAATTAA
* *
81519503 TATATAAAATAATTCAAAAT-AATATG
1 TATA-AAAATAATTTAAAATGAATA-C
*
81519529 TATTAAAATAATTTAAAATGAATAC
1 TATAAAAATAATTTAAAATGAATAC
81519554 TATAAAAA-AATTTTAAAATGAATAAC
1 TATAAAAATAA-TTTAAAATGAAT-AC
81519580 ATATAAAA
1 -TATAAAA
81519588 TAGTTTATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
24 2 0.04
25 33 0.65
26 9 0.18
27 7 0.14
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (25 bp):
TATAAAAATAATTTAAAATGAATAC
Found at i:81519677 original size:7 final size:8
Alignment explanation
Indices: 81519661--81519688 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
81519651 TACCAATTGT
81519661 AAAATAAA
1 AAAATAAA
81519669 AAAATAAA
1 AAAATAAA
81519677 AAAATAAA
1 AAAATAAA
81519685 AAAA
1 AAAA
81519689 GGCCATCAAG
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:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATAAA
Found at i:81521436 original size:44 final size:44
Alignment explanation
Indices: 81521340--81521766 Score: 315
Period size: 44 Copynumber: 9.6 Consensus size: 44
81521330 TTTAATCTAT
* * * * * *
81521340 TCCATTGCACCTTCAGGGAAATAAGATTCGTTAAATTCAATTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGC
* * * *
81521385 TTCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
* * * *
81521429 TCCACTGCAACTTCAGGGAGATTAGGTTCT-TAGCTTTC-ATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATT-TGTAAC-TTCAATCTGC
* * * * *
81521473 TCCATTGCAACTTCAGGGAGATAAGATTTACTATA-TTTAGTCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTT-GTA-ACTTCAATCTGC
* * * *
81521518 TCCACTGCAACTTTAGGGAAATAAGACTTGTAATTTCAA-CATGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATC-TGC
* * * * * *
81521562 TCTACTGTAATTTCAGGGAGCTAAGGTTTGTAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
* ** * * * *
81521606 TCTACTGCAACTTCAGAAAGATAAGATTTGCTATCTTTAGTCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGC
* * * * * *
81521651 TCCACTACAACTTCAGGAAGATAAGACTCGTAACTTAAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
* * ** * *
81521695 CCCACTGCAACTTCAGGG-GTATAGGATTTGTGGCTTTAATATGC
1 TCCACTGCAACTTCAGGGAG-ATAAGATTTGTAACTTCAATCTGC
81521739 TCCACTGCAACTTCAGGGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
81521767 CGCCATAATA
Statistics
Matches: 293, Mismatches: 77, Indels: 25
0.74 0.19 0.06
Matches are distributed among these distances:
43 4 0.01
44 195 0.67
45 94 0.32
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
Found at i:81521577 original size:133 final size:132
Alignment explanation
Indices: 81521323--81521766 Score: 491
Period size: 133 Copynumber: 3.3 Consensus size: 132
81521313 GATTTGTAAC
* * * * * * * * * *
81521323 TTGTAGCTTTAATCTATTCCATTGCACCTTCAGGGAAATAAGATTCGTTAAATTCAATTTGCTT-
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATATTTAGTCTG-TTC
*
81521387 CACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATT
65 CACTGCAACTTTAGGGAAATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAG-TT
81521452 AGGT
129 AGGT
* * *
81521456 TCT-TAGCTTTCATCTACTCCATTGCAACTTCAGGGAGATAAGATTTACTATATTTAGTCTGTTC
1 T-TGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATATTTAGTCTGTTC
* * * * * *
81521520 CACTGCAACTTTAGGGAAATAAGACTTGTAATTTCAACATGCTCTACTGTAATTTCAGGGAGCTA
65 CACTGCAACTTTAGGGAAATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAG-TT
81521585 AGGT
129 AGGT
* * * ** *
81521589 TTGTAGCTTCAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTTGCTATCTTTAGTCTGTTCC
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATATTTAGTCTGTTCC
* * * * *
81521654 ACTACAACTTCA-GGAAGATAAGACTCGTAACTTAAACCTGCCCCACTGCAACTTCAGGG-GTAT
66 ACTGCAACTTTAGGGAA-ATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGT-T
81521717 AGGAT
129 AGG-T
* * *
81521722 TTGTGGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
81521767 CGCCATAATA
Statistics
Matches: 260, Mismatches: 45, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
131 1 0.00
132 11 0.04
133 247 0.95
134 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (132 bp):
TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATATTTAGTCTGTTCC
ACTGCAACTTTAGGGAAATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGTTAG
GT
Found at i:81526790 original size:19 final size:20
Alignment explanation
Indices: 81526774--81526820 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
81526764 TTATGAAACT
*
81526774 TAATGCATATG-ATGAAATG
1 TAATGCAAATGAATGAAATG
81526793 TAATGCAAATGAATGAAATG
1 TAATGCAAATGAATGAAATG
81526813 -AATGCAAA
1 TAATGCAAA
81526821 AAGGGGCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGAATGAAATG
Found at i:81528866 original size:28 final size:28
Alignment explanation
Indices: 81528797--81528897 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
81528787 GACAAGATTG
* * * *
81528797 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
81528827 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
81528855 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
81528884 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
81528898 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:81535993 original size:28 final size:28
Alignment explanation
Indices: 81535924--81536024 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
81535914 GACAAGATTG
* * * *
81535924 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
81535954 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
81535982 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
81536011 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
81536025 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:81540024 original size:26 final size:25
Alignment explanation
Indices: 81539924--81540126 Score: 113
Period size: 26 Copynumber: 8.2 Consensus size: 25
81539914 CAAAAGAATG
* **
81539924 AAATAAATAACATAA-AACCCTTTA
1 AAATAAATAATATAACAACAATTTA
* * *
81539948 AAATAAAT-A-ATGA-GACAATTTT
1 AAATAAATAATATAACAACAATTTA
* *
81539970 AAATAAATAATACATAAAAAATAAGTTTA
1 AAATAAATAAT--AT-AACAACAA-TTTA
* *
81539999 AAATAAATATTATAACGAGCAATTTA
1 AAATAAATAATATAAC-AACAATTTA
* *
81540025 AAATGAATAGTATAA-AACAATTTA
1 AAATAAATAATATAACAACAATTTA
* * *
81540049 AGATAATTAATATACAAAACAATTTA
1 AAATAAATAATATA-ACAACAATTTA
81540075 AAAT-AA-AATA-AAGCAAC---TTA
1 AAATAAATAATATAA-CAACAATTTA
*
81540095 AAATAAATAATATATATAACAATTTA
1 AAATAAATAATATA-ACAACAATTTA
81540121 AAATAA
1 AAATAA
81540127 CATGTAGAAA
Statistics
Matches: 137, Mismatches: 24, Indels: 34
0.70 0.12 0.17
Matches are distributed among these distances:
20 7 0.05
21 2 0.01
22 21 0.15
23 10 0.07
24 31 0.23
25 2 0.01
26 42 0.31
27 6 0.04
28 3 0.02
29 13 0.09
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (25 bp):
AAATAAATAATATAACAACAATTTA
Found at i:81540116 original size:46 final size:47
Alignment explanation
Indices: 81539996--81540126 Score: 131
Period size: 46 Copynumber: 2.7 Consensus size: 47
81539986 AAAAATAAGT
* * * *
81539996 TTAAAATAAATATTATAACGAGCAATTTAAAATGAATAGTATAAAACAAT
1 TTAAAATAAATAATATAA-AAACAATTTAAAAT-AATAG-ATAAAACAAC
* * *
81540046 TTAAGATAATTAATATACAAAACAATTTAAAATAA-A-ATAAAGCAAC
1 TTAAAATAAATAATATA-AAAACAATTTAAAATAATAGATAAAACAAC
*
81540092 TTAAAATAAATAATATATATAACAATTTAAAATAA
1 TTAAAATAAATAATATA-AAAACAATTTAAAATAA
81540127 CATGTAGAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
46 39 0.57
48 1 0.01
49 2 0.03
50 26 0.38
51 1 0.01
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.30
Consensus pattern (47 bp):
TTAAAATAAATAATATAAAAACAATTTAAAATAATAGATAAAACAAC
Found at i:81540200 original size:30 final size:30
Alignment explanation
Indices: 81540166--81540222 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
81540156 TAAAAAGAAA
81540166 TTTAAAATAAATAATAAAAATAAAAAACAG
1 TTTAAAATAAATAATAAAAATAAAAAACAG
* * *
81540196 TTTAATATAAATAATATATATAAAAAA
1 TTTAAAATAAATAATAAAAATAAAAAA
81540223 TAAAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
TTTAAAATAAATAATAAAAATAAAAAACAG
Found at i:81541485 original size:27 final size:25
Alignment explanation
Indices: 81541428--81541491 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
81541418 TTTGAAAGCC
81541428 CGCACACATAGTGCTCTTACATATT
1 CGCACACATAGTGCTCTTACATATT
*
81541453 CGCACACATAGTGCTCTTACTTATT
1 CGCACACATAGTGCTCTTACATATT
81541478 CGCACACATAGTGC
1 CGCACACATAGTGC
81541492 AATGTTTTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (25 bp):
CGCACACATAGTGCTCTTACATATT
Found at i:81548510 original size:64 final size:64
Alignment explanation
Indices: 81548437--81548653 Score: 154
Period size: 64 Copynumber: 3.3 Consensus size: 64
81548427 CTAGGCCAGA
* *
81548437 GCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
***** * ** *
81548501 GCCCATTTCAAAATAC-ATGCAACATCAATAACATATGCAAGCCC--ATTTGGGTAACAGTGGTA
1 GCCCATTTCAAAATACAAT--AA-A-CTGGGCCTTA-GC---CCCTTATTCAGATAACA---GTA
* *
81548563 CTGGGCCAGA-
55 -TGGCCCATAG
* * *
81548573 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
81548637 GCCCATTTCAAAATACA
1 GCCCATTTCAAAATACA
81548654 TGCAACATCA
Statistics
Matches: 107, Mismatches: 30, Indels: 32
0.63 0.18 0.19
Matches are distributed among these distances:
63 9 0.08
64 31 0.29
65 5 0.05
66 1 0.01
67 13 0.12
68 4 0.04
69 13 0.12
70 1 0.01
71 5 0.05
72 16 0.15
73 9 0.08
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:81548647 original size:136 final size:136
Alignment explanation
Indices: 81548403--81548687 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
81548393 TATTGGGCCT
** *
81548403 AAGCCCATTCAGGTAACAGTTGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
81548468 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
81548533 ATATGC
131 ATATGC
* *
81548539 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
81548604 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
81548669 ATATGC
131 ATATGC
81548675 AAGCCCATTTGGG
1 AAGCCCATTTGGG
81548688 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:81548723 original size:21 final size:21
Alignment explanation
Indices: 81548694--81548741 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
81548684 TGGGGAGACT
*
81548694 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
81548715 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
81548736 ACTCCA
1 ACTCCA
81548742 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:81550508 original size:26 final size:26
Alignment explanation
Indices: 81550470--81550579 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
81550460 CATGAAATTC
81550470 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
81550496 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
81550522 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
81550548 TTATTATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
81550574 TTATCA
1 TTATCA
81550580 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:81550548 original size:52 final size:52
Alignment explanation
Indices: 81550470--81550579 Score: 211
Period size: 52 Copynumber: 2.1 Consensus size: 52
81550460 CATGAAATTC
81550470 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
*
81550522 TTATCATGAAACATTTACCTAACCCATTATTATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
81550574 TTATCA
1 TTATCA
81550580 ATTTGTATCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:81552574 original size:17 final size:17
Alignment explanation
Indices: 81552542--81552575 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
81552532 TTCTTCTCCC
*
81552542 TTTTTGTTCACTTTTGG
1 TTTTTGTTCACCTTTGG
*
81552559 TTTTTGTTCCCCTTTGG
1 TTTTTGTTCACCTTTGG
81552576 GCGAATCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.18, G:0.18, T:0.62
Consensus pattern (17 bp):
TTTTTGTTCACCTTTGG
Found at i:81552831 original size:21 final size:24
Alignment explanation
Indices: 81552805--81552848 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
81552795 GTTATCGGAT
81552805 TCGTCG-TGG-TAAGTTT-TCGAA
1 TCGTCGTTGGTTAAGTTTCTCGAA
81552826 TCGTCGTTGGTTAAGTTTCTCGA
1 TCGTCGTTGGTTAAGTTTCTCGA
81552849 GTTTTATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 7 0.35
24 4 0.20
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (24 bp):
TCGTCGTTGGTTAAGTTTCTCGAA
Found at i:81554447 original size:13 final size:13
Alignment explanation
Indices: 81554429--81554453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81554419 AGCACTTGCG
81554429 CACGGGCGTGTCA
1 CACGGGCGTGTCA
81554442 CACGGGCGTGTC
1 CACGGGCGTGTC
81554454 CCTGTCGAGC
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:0.12, C:0.32, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGGCGTGTCA
Found at i:81557140 original size:14 final size:15
Alignment explanation
Indices: 81557113--81557141 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
81557103 TACCTGGTAA
81557113 TGAGCATACATATTT
1 TGAGCATACATATTT
81557128 TGAGCAT-CATATTT
1 TGAGCATACATATTT
81557142 GTTAGCACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (15 bp):
TGAGCATACATATTT
Found at i:81561237 original size:40 final size:40
Alignment explanation
Indices: 81561178--81561308 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
81561168 CGGGACTTTA
* * *
81561178 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
81561218 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
81561258 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
81561298 CCCGGATATAA
1 CCCGGATATAA
81561309 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:81561341 original size:39 final size:40
Alignment explanation
Indices: 81561195--81561345 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
81561185 ATCACGATTT
* * * *
81561195 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
81561235 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
81561275 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
81561314 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
81561346 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:81569266 original size:40 final size:40
Alignment explanation
Indices: 81569207--81569375 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
81569197 CGGGACTTTA
* * *
81569207 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
81569247 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
81569287 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
81569327 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
81569367 CCCGGATAT
1 CCCGGATAT
81569376 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:81572328 original size:18 final size:18
Alignment explanation
Indices: 81572304--81572344 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
81572294 CATTTTAATT
*
81572304 ATAAAAAATAAATTAAGTA
1 ATAAAAATTAAATT-AGTA
81572323 ATAAAAATTAAATTAGTA
1 ATAAAAATTAAATTAGTA
81572341 ATAA
1 ATAA
81572345 CTAAATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
ATAAAAATTAAATTAGTA
Found at i:81577644 original size:3 final size:3
Alignment explanation
Indices: 81577626--81577762 Score: 91
Period size: 3 Copynumber: 43.0 Consensus size: 3
81577616 TTATCATTGG
*
81577626 TAT T-T TAT TAT CTAT TAT TAT CAT TAT TAT TAT TATT TAT TCAT CTAAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT T-AT -T-AT
* * * * * *
81577675 TGTT TAT TACC CAT TTT GTACT TA- TAT ATAT TAT TCT GAT T-T CTAT
1 T-AT TAT TA-T TAT TAT -TA-T TAT TAT -TAT TAT TAT TAT TAT -TAT
81577721 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
81577763 ACATTTTATT
Statistics
Matches: 106, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
2 5 0.05
3 78 0.74
4 19 0.18
5 4 0.04
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Done.