Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004593.1 Hibiscus syriacus cultivar Beakdansim tig00010263_pilon, whole genome shotgun sequence
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: 1592963
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:1198314 original size:60 final size:60
Alignment explanation
Indices: 1198166--1198314 Score: 183
Period size: 60 Copynumber: 2.5 Consensus size: 60
1198156 CCCGAAGGAC
* ***
1198166 CTATCCAGAGGTCAAAAAG-ACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACATAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* * *
1198225 CTATCCAGAGGTCATAAAGATCATCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACATAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * * *
1198285 CTGTCCATAGGTCCCGAAGAACCTAGGTAA
1 CTATCCAGAGGTCACAAAGAACATAGGTAA
1198315 ATTGTCCATA
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 18 0.23
60 59 0.77
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (60 bp):
CTATCCAGAGGTCACAAAGAACATAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1198324 original size:31 final size:31
Alignment explanation
Indices: 1198283--1198410 Score: 132
Period size: 31 Copynumber: 4.1 Consensus size: 31
1198273 GATCCTCGGT
* *
1198283 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* * **
1198314 AATTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* * *
1198345 TACTATCCATATGTCTCGAA-AGACATAGGTAA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGT-A
* *
1198377 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
1198408 AAC
1 AAC
1198411 CCTCGACTCT
Statistics
Matches: 76, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
30 1 0.01
31 50 0.66
32 24 0.32
33 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:1198985 original size:19 final size:21
Alignment explanation
Indices: 1198943--1198985 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1198933 TTCATAATCA
1198943 CATATTCATATAGTTTATTAT
1 CATATTCATATAGTTTATTAT
*
1198964 CATA-TCATATGGTTTA-TAT
1 CATATTCATATAGTTTATTAT
1198983 CAT
1 CAT
1198986 CATAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (21 bp):
CATATTCATATAGTTTATTAT
Found at i:1198994 original size:22 final size:20
Alignment explanation
Indices: 1198949--1198995 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1198939 ATCACATATT
*
1198949 CATATAGTTTATTATCATAT
1 CATATAGTTTATTATCATAA
*
1198969 CATATGGTTTATATCATCATAA
1 CATATAGTTTAT-T-ATCATAA
1198991 CATAT
1 CATAT
1198996 CATTTCACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 1 0.04
22 11 0.48
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (20 bp):
CATATAGTTTATTATCATAA
Found at i:1210220 original size:2 final size:2
Alignment explanation
Indices: 1210213--1210248 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1210203 GTCTCGAGTA
1210213 AT 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
1210249 TTTTTCATAT
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):
AT
Found at i:1228751 original size:12 final size:12
Alignment explanation
Indices: 1228734--1228758 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1228724 AAGTAAATTA
1228734 ATAAAAATAAAT
1 ATAAAAATAAAT
1228746 ATAAAAATAAAT
1 ATAAAAATAAAT
1228758 A
1 A
1228759 ACACGATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAAATAAAT
Found at i:1228863 original size:32 final size:32
Alignment explanation
Indices: 1228795--1228863 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
1228785 TTCTACAAAC
1228795 TATATAATATATTTTCAAAAGTATTTAAAATTA
1 TATATAATATATTTTCAAAAG-ATTTAAAATTA
* * *
1228828 TATATTATATATTTTTAAAACG-TTTCAAATTA
1 TATATAATATATTTTCAAAA-GATTTAAAATTA
1228860 TATA
1 TATA
1228864 GTTTTCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 13 0.41
33 18 0.56
34 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (32 bp):
TATATAATATATTTTCAAAAGATTTAAAATTA
Found at i:1228926 original size:34 final size:33
Alignment explanation
Indices: 1228860--1229106 Score: 168
Period size: 34 Copynumber: 7.1 Consensus size: 33
1228850 TTTCAAATTA
* *
1228860 TATAGTTTTCAAAAATGTTTTTTAAAACTATATAT
1 TATAATTTTCAAA-ATG-TTTTAAAAACTATATAT
*
1228895 TATAAGTTTTCAAAATGATTTAAAAACTATATAAT
1 TATAA-TTTTCAAAATGTTTTAAAAACTATAT-AT
1228930 ATATATATGTTTTCAAAATGTTTCTTTTTAAAAA-T-TATAT
1 -TATA-A--TTTTCAAAATG-----TTTTAAAAACTATATAT
* * * *
1228970 T-T-ATTTTAAAAATGTTTTTAAAACCATATAA
1 TATAATTTTCAAAATGTTTTAAAAACTATATAT
*
1229001 TATATATTTTCAAAAACGTTTTAAAAA-T-TATAT
1 TATA-ATTTTC-AAAATGTTTTAAAAACTATATAT
*
1229034 T-T-ATTTTCAAAGTGTTTTAAAAACTATATAAT
1 TATAATTTTCAAAATGTTTTAAAAACTATAT-AT
*
1229066 ATATAATGTTTCAAATATGTTTTCAAAACTATATAT
1 -TATAAT-TTTCAAA-ATGTTTTAAAAACTATATAT
1229102 ATATA
1 -TATA
1229107 CATATGTATA
Statistics
Matches: 171, Mismatches: 17, Indels: 47
0.73 0.07 0.20
Matches are distributed among these distances:
29 21 0.12
30 7 0.04
31 8 0.05
32 4 0.02
33 6 0.04
34 29 0.17
35 24 0.14
36 27 0.16
37 17 0.10
38 13 0.08
39 1 0.01
40 2 0.01
41 3 0.02
42 1 0.01
43 8 0.05
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (33 bp):
TATAATTTTCAAAATGTTTTAAAAACTATATAT
Found at i:1229033 original size:64 final size:66
Alignment explanation
Indices: 1228901--1229099 Score: 213
Period size: 64 Copynumber: 3.0 Consensus size: 66
1228891 ATATTATAAG
* * * * *
1228901 TTTTCAAAATGATTTAAAAACTATATAATATATATATGTTTTCAAAATGTTTCTTTTTAAAAATT
1 TTTTAAAAATGTTTTAAAAACCATATAATATATA-ATG-TTTCAAAA----ACGTTTTAAAAATT
1228966 ATATTTA
60 ATATTTA
*
1228973 TTTTAAAAATGTTTTTAAAACCATATAATATAT-AT-TTTCAAAAACGTTTTAAAAATTATATTT
1 TTTTAAAAATGTTTTAAAAACCATATAATATATAATGTTTCAAAAACGTTTTAAAAATTATATTT
1229036 A
66 A
* * * * * * *
1229037 TTTTCAAAGTGTTTTAAAAACTATATAATATATAATGTTTCAAATATGTTTTCAAAACTATAT
1 TTTTAAAAATGTTTTAAAAACCATATAATATATAATGTTTCAAAAACGTTTTAAAAATTATAT
1229100 ATATATACAT
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
64 48 0.43
65 2 0.02
66 22 0.20
68 8 0.07
70 2 0.02
72 29 0.26
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.46
Consensus pattern (66 bp):
TTTTAAAAATGTTTTAAAAACCATATAATATATAATGTTTCAAAAACGTTTTAAAAATTATATTT
A
Found at i:1229189 original size:13 final size:13
Alignment explanation
Indices: 1229171--1229196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1229161 TTTGTCCTTT
1229171 TTCGTGGAACGAA
1 TTCGTGGAACGAA
1229184 TTCGTGGAACGAA
1 TTCGTGGAACGAA
1229197 AATAGACAAA
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:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
TTCGTGGAACGAA
Found at i:1229851 original size:84 final size:84
Alignment explanation
Indices: 1229744--1230439 Score: 684
Period size: 83 Copynumber: 8.5 Consensus size: 84
1229734 TCGGGGGTCT
* * * *
1229744 TTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
1229809 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* * * * * *
1229828 TTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG--CTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGATCGTAG
* *
1229891 TCGAACTCGAAGGTCTTTGG
65 TCGAACTCAAAGGTCTTTTG
*
1229911 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGA-TCGTA
* ***
1229975 ATCGAACTCGGGGGTC---T-
64 GTCGAACTCAAAGGTCTTTTG
* * * *
1229992 TTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA--TGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
1230055 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* * * * * *
1230074 -TGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGATCGTAG
* *
1230137 TCGAACTCGAAGGTCTTTGG
65 TCGAACTCAAAGGTCTTTTG
*
1230157 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG-TGTGCCCTCGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGA-TCGTA
* **
1230220 ATCGAACTC-GGGGTC---T-
64 GTCGAACTCAAAGGTCTTTTG
* * *
1230236 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
1230301 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* ** * * * * * * *
1230320 GTCACAGATAACCCTTCTAG-CCTGAGTTATGCTGTAAATAATGTACCCTCGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGA-TCGTA
* **
1230383 ATCGAACTCAGGGGTC---T-
64 GTCGAACTCAAAGGTCTTTTG
* * *
1230400 TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1230440 AGTTTGTTTA
Statistics
Matches: 501, Mismatches: 84, Indels: 57
0.78 0.13 0.09
Matches are distributed among these distances:
77 1 0.00
78 22 0.04
79 62 0.12
80 28 0.06
81 90 0.18
82 5 0.01
83 135 0.27
84 133 0.27
85 25 0.05
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (84 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
CGAACTCAAAGGTCTTTTG
Found at i:1229909 original size:163 final size:163
Alignment explanation
Indices: 1229724--1230439 Score: 756
Period size: 163 Copynumber: 4.4 Consensus size: 163
1229714 CTCGAAGAGT
* *
1229724 GTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGT
1 GTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* *
1229789 GCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAA
66 GCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAA
* * *
1229854 GTTGTGCTGCAAATGATATG-CTTGGAGCTGAGC
131 GTTATGCTGCAAATG-TATGCCTCGAAGCTGAGC
* * * *
1229887 GTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
1 GTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
* * * *** * * *
1229952 ATGTGCCCTCGAAGCTGAGT-GTAATCGAACTCGGGGGTC---T-TTGGCATATAGCCCTTCTCG
62 ATGTGCCGTTG-AGCTGA-TCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
* * *
1230012 ACTTAAGCTATGCTGCAAATG-ATGCCGTTG-AGCTGATC
125 ACTTAAGTTATGCTGCAAATGTATGCC-TCGAAGCTGAGC
* * * * * * * * *
1230050 GTAGTCGAACTCAAAGGTCTTTTGTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGA
1 GTAATCGAACTCGAGGGTC--TT-TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
* * * * *
1230115 TATGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC
63 TGTGCCGTT-GAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGAC
* *
1230179 TTAAGTTATGCTGCAAATGTGTGCCCTCGAAGCTGAGT
127 TTAAGTTATGCTGCAAATGTATG-CCTCGAAGCTGAGC
1230217 GTAATCGAACTCG-GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 GTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* ** * *
1230281 GCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAG-CCTGA
66 GCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAA
* * *
1230345 GTTATGCTGTAAATAATGTA-CCCTCGAAGCTGAGT
131 GTTATGCTG--CA-AATGTATGCCTCGAAGCTGAGC
*
1230380 GTAATCGAACTC-AGGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
1 GTAATCGAACTCGA-GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1230440 AGTTTGTTTA
Statistics
Matches: 467, Mismatches: 62, Indels: 47
0.81 0.11 0.08
Matches are distributed among these distances:
161 24 0.05
162 58 0.12
163 157 0.34
164 87 0.19
165 45 0.10
166 8 0.02
167 66 0.14
168 21 0.04
169 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (163 bp):
GTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAA
GTTATGCTGCAAATGTATGCCTCGAAGCTGAGC
Found at i:1229914 original size:83 final size:83
Alignment explanation
Indices: 1229744--1230439 Score: 676
Period size: 84 Copynumber: 8.5 Consensus size: 83
1229734 TCGGGGGTCT
* * * *
1229744 TTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGATCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
*
1229808 TCGAACTCAAAGGTCTTTTG
65 TCGAACTCGAAGGTC-TTTG
* * * * *
1229828 TTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG-CTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1229892 CGAACTCGAAGGTCTTTGG
66 CGAACTCGAAGGTCTTT-G
* * * *
1229911 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
**
1229976 TCGAACTCGGGGGTC--T-
65 TCGAACTCGAAGGTCTTTG
* * * *
1229992 TTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA--TGCCGTT-GAGCTGATCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
*
1230054 TCGAACTCAAAGGTCTTT-
65 TCGAACTCGAAGGTCTTTG
* * * * *
1230072 TGTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
1 T-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1230137 TCGAACTCGAAGGTCTTTGG
65 TCGAACTCGAAGGTCTTT-G
* * * *
1230157 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG-TGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
*
1230221 TCGAACTCG-GGGTC--T-
65 TCGAACTCGAAGGTCTTTG
* * *
1230236 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGATCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
*
1230300 TCGAACTCAAAGGTCTTTTG
65 TCGAACTCGAAGGTC-TTTG
* ** * * * * * * * * * *
1230320 GTCACAGATAACCCTTCTAG-CCTGAGTTATGCTGTAAATAATGTACCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAG
*
1230384 TCGAACTC-AGGGGTC--T-
65 TCGAACTCGA-AGGTCTTTG
* * *
1230400 TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1230440 AGTTTGTTTA
Statistics
Matches: 503, Mismatches: 84, Indels: 53
0.79 0.13 0.08
Matches are distributed among these distances:
78 23 0.05
79 61 0.12
80 27 0.05
81 90 0.18
82 7 0.01
83 132 0.26
84 136 0.27
85 27 0.05
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (83 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTG
Found at i:1230144 original size:246 final size:246
Alignment explanation
Indices: 1229720--1230439 Score: 1125
Period size: 246 Copynumber: 2.9 Consensus size: 246
1229710 TGACCTCGAA
*
1229720 GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATG
1 GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
1229785 ATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGAC
66 A-GTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTG-TGGCAGACAACCCTTGTAGAC
1229850 TTAAGTTGTGCTGCAAATGATATG-CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTG
129 TTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTG
1229914 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCT
194 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG-TGTGCCCTCGAAGCT
*
1229968 GAGTGTAATCGAACTCGGGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
1 GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
1230033 A-TGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTGGCAGACAACCCTTGTAGACTT
66 AGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTGGCAGACAACCCTTGTAGACTT
1230097 AAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGC
131 AAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGC
1230162 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTGTGCCCTCGAAGCT
196 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTGTGCCCTCGAAGCT
1230213 GAGTGTAATCGAACTC-GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
1 GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
** * *
1230277 ATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAG-C
66 A-GTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTT-GTGGCAGACAACCCTTGTAGAC
* * * * * * * * * * * *
1230341 CTGAGTTATGCTGTAAATAATGTACCCTCGAAGCTGAGTGTAATCGAACTC-AGGGGTC--T--T
129 TTAAGTTGTGCTGCAAATGATAT-GCCTTGGAGCTGAGCGTAGTCGAACTCGA-AGGTCTTTGGT
* * *
1230401 TGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
192 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1230440 AGTTTGTTTA
Statistics
Matches: 444, Mismatches: 22, Indels: 17
0.92 0.05 0.04
Matches are distributed among these distances:
243 37 0.08
244 48 0.11
245 77 0.17
246 176 0.40
247 42 0.09
248 64 0.14
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (246 bp):
GAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
AGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTGGCAGACAACCCTTGTAGACTT
AAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGC
AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTGTGCCCTCGAAGCT
Found at i:1233661 original size:22 final size:22
Alignment explanation
Indices: 1233629--1233671 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
1233619 ATGTGAATGC
1233629 AAAGAAAT-AAAATGCAAAAAA
1 AAAGAAATAAAAATGCAAAAAA
1233650 AAAGAAAATAAAAAATGCAAAA
1 AAAG-AAAT-AAAAATGCAAAA
1233672 TGTCTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 4 0.21
24 11 0.58
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAGAAATAAAAATGCAAAAAA
Found at i:1235147 original size:117 final size:114
Alignment explanation
Indices: 1234951--1235183 Score: 423
Period size: 117 Copynumber: 2.0 Consensus size: 114
1234941 CCCGTCCCCA
1234951 GTGGAGTCGCCAAGCTGTAACCGTCTTTCGGTTGGGCCCCAGAATTGGGCTTCGACTTAGGAAAA
1 GTGGAGTCGCCAAGCTGTAACCGTCTTTCGGTTGGGCCCCAGAATTGGGCTTCGACTTAGGAAAA
1235016 ATGATTTGGAGTCTCCACCGATAATTTATTTATTTATTTTAAAAAAATGG
66 ATGATTTGGAGTCTCCACCGATAA-TTATTTATTTATTTTAAAAAAATGG
1235066 GTGGAGTCGCCAAGCTGTCGTAACCGTCTTTCGGTTGGGCCCCAGAA-TGGGCTTCGACTTAGGA
1 GTGGAGTCGCCAAGC--T-GTAACCGTCTTTCGGTTGGGCCCCAGAATTGGGCTTCGACTTAGGA
1235130 AAAATGATTTGGAGTCTCCACCGATAATTATTTATTTATTTTAAAAAAATGG
63 AAAATGATTTGGAGTCTCCACCGATAATTATTTATTTATTTTAAAAAAATGG
1235182 GT
1 GT
1235184 TGATCGGACA
Statistics
Matches: 115, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
115 15 0.13
116 27 0.23
117 45 0.39
118 28 0.24
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (114 bp):
GTGGAGTCGCCAAGCTGTAACCGTCTTTCGGTTGGGCCCCAGAATTGGGCTTCGACTTAGGAAAA
ATGATTTGGAGTCTCCACCGATAATTATTTATTTATTTTAAAAAAATGG
Found at i:1236250 original size:16 final size:15
Alignment explanation
Indices: 1236224--1236253 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1236214 TGTTGTGGCC
1236224 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
1236239 GGTCAGTCCCGGGAT
1 GGTCA-TCCCGGGAT
1236254 TTCGGCCGGC
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:0.13, C:0.27, G:0.40, T:0.20
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:1236670 original size:34 final size:36
Alignment explanation
Indices: 1236601--1236678 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 36
1236591 ACGTTTCAAA
* *
1236601 ATTATATAGTTTCAAAAATGTTTTTTAAAACTATAT
1 ATTATATAGTTTCAAAAATGTATTTCAAAACTATAT
1236637 ATTATA-AGTTTTC-AAAATG-ATTTCAAAACTATAT
1 ATTATATAG-TTTCAAAAATGTATTTCAAAACTATAT
*
1236671 AATATATA
1 ATTATATA
1236679 TTATATGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 18 0.49
35 9 0.24
36 10 0.27
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (36 bp):
ATTATATAGTTTCAAAAATGTATTTCAAAACTATAT
Found at i:1236814 original size:33 final size:33
Alignment explanation
Indices: 1236715--1236841 Score: 126
Period size: 31 Copynumber: 4.1 Consensus size: 33
1236705 AAAAATTATT
* *
1236715 TATTTT-AAAATGTTTTTAAAACCATATA-ATA
1 TATTTTCAAAATGTTTTAAAAACTATATATATA
*
1236746 TATTTTCAAAAACGTTTTAAAAA-T-TATAT-T-
1 TATTTTC-AAAATGTTTTAAAAACTATATATATA
*
1236776 TATTTTCAAAGTGTTTTAAAAACTATATATATA
1 TATTTTCAAAATGTTTTAAAAACTATATATATA
* * *
1236809 AATTTTC-AAATATTTTCAAAACTATAT-TATA
1 TATTTTCAAAATGTTTTAAAAACTATATATATA
1236840 TA
1 TA
1236842 CATATATATG
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
29 13 0.16
30 8 0.10
31 21 0.27
32 18 0.23
33 19 0.24
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (33 bp):
TATTTTCAAAATGTTTTAAAAACTATATATATA
Found at i:1236835 original size:61 final size:60
Alignment explanation
Indices: 1236701--1236836 Score: 161
Period size: 61 Copynumber: 2.3 Consensus size: 60
1236691 AAAAGTTTCT
* *
1236701 TTTTAAAAA-T-TATTTATTTTAAAATGTTTTTAAAACCATATAATATATTTTCAAAAAC
1 TTTTAAAAACTATATTTATTTTAAAATGTTTTAAAAACCATATAATAAATTTTCAAAAAC
* * * *
1236759 GTTTTAAAAATTATATTTATTTTCAAAGTGTTTTAAAAACTATATATATAAATTTTCAAATA-
1 -TTTTAAAAACTATATTTATTTT-AAAATGTTTTAAAAACCATATA-ATAAATTTTCAAAAAC
*
1236821 TTTTCAAAACTATATT
1 TTTTAAAAACTATATT
1236837 ATATACATAT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
59 9 0.14
60 1 0.02
61 24 0.36
62 19 0.29
63 13 0.20
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (60 bp):
TTTTAAAAACTATATTTATTTTAAAATGTTTTAAAAACCATATAATAAATTTTCAAAAAC
Found at i:1236852 original size:166 final size:165
Alignment explanation
Indices: 1236549--1236852 Score: 395
Period size: 166 Copynumber: 1.8 Consensus size: 165
1236539 CTATAATATA
* ** * *
1236549 TATTTTCAAAGTATTTTAAAATTATATATATATTTTTCTAAAACGTTTCAAAATTATATAGTTTC
1 TATTTTAAAAGTATTTTAAAACCATATATATATTTTTCAAAAACGTTTAAAAATTATATAGTTTC
* * *
1236614 AAAAATGTTTTTTAAAACTATATATTATAAGTTTTCAAAATGATTTCAAAACTATATAATATATA
66 AAAAATGTTTTTAAAAACTATATATTATAAATTTTCAAAAT-ATTTCAAAACTATATAATATACA
1236679 TTATATGTTTTCAAAAGTTTCTTTTTAAAAATTATT
130 TTATATGTTTTCAAAAGTTTCTTTTTAAAAATTATT
1236715 TATTTTAAAATGT-TTTTAAAACCATATA-ATATATTTTCAAAAACGTTTTAAAAATTATATTTA
1 TATTTTAAAA-GTATTTTAAAACCATATATATAT-TTTTCAAAAACG-TTTAAAAATTATA--TA
* * *
1236778 TTTTC-AAAGTG-TTTTAAAAACTATATA-TATAAATTTTC-AAATATTTTCAAAACTATATTAT
61 GTTTCAAAAATGTTTTTAAAAACTATATATTATAAATTTTCAAAATA-TTTCAAAACTATATAAT
1236839 ATACATATATATGT
125 ATACAT-TATATGT
1236853 ATATATAAAA
Statistics
Matches: 120, Mismatches: 11, Indels: 14
0.83 0.08 0.10
Matches are distributed among these distances:
164 1 0.01
165 29 0.24
166 50 0.42
167 29 0.24
168 5 0.04
169 6 0.05
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (165 bp):
TATTTTAAAAGTATTTTAAAACCATATATATATTTTTCAAAAACGTTTAAAAATTATATAGTTTC
AAAAATGTTTTTAAAAACTATATATTATAAATTTTCAAAATATTTCAAAACTATATAATATACAT
TATATGTTTTCAAAAGTTTCTTTTTAAAAATTATT
Found at i:1237365 original size:20 final size:20
Alignment explanation
Indices: 1237332--1237381 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1237322 ATCCTATTCC
1237332 CTGGTAAT-TTTTATTCACA
1 CTGGTAATCTTTTATTCACA
*
1237351 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCACA
1237371 CTGGTAATCTT
1 CTGGTAATCTT
1237382 ACATTCCGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCACA
Found at i:1237387 original size:20 final size:20
Alignment explanation
Indices: 1237344--1237388 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1237334 GGTAATTTTT
* **
1237344 ATTCACACTGGTAATCTTTT
1 ATTCCCACTGGTAATCTTAC
1237364 ATTCCCACTGGTAATCTTAC
1 ATTCCCACTGGTAATCTTAC
1237384 ATTCC
1 ATTCC
1237389 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.09, T:0.40
Consensus pattern (20 bp):
ATTCCCACTGGTAATCTTAC
Found at i:1238362 original size:18 final size:18
Alignment explanation
Indices: 1238339--1238375 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1238329 CAAAGCAATG
1238339 CTTATTGCTTATACTTTT
1 CTTATTGCTTATACTTTT
1238357 CTTATTGCTTATACTTTT
1 CTTATTGCTTATACTTTT
1238375 C
1 C
1238376 ATAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.19, G:0.05, T:0.59
Consensus pattern (18 bp):
CTTATTGCTTATACTTTT
Found at i:1238387 original size:2 final size:2
Alignment explanation
Indices: 1238380--1238428 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
1238370 CTTTTCATAA
*
1238380 AT AT AT AT AT AT AG AT AT AT AT AT AT -T 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 AT
1238421 AT AT AT AT
1 AT AT AT AT
1238429 TGCAAACTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1248503 original size:17 final size:16
Alignment explanation
Indices: 1248477--1248520 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
1248467 CTTTCCGTCA
* *
1248477 ATAAGATTTTTATTTT
1 ATAAGGTTTTTATCTT
1248493 CATAAGGTTTTTATCTT
1 -ATAAGGTTTTTATCTT
1248510 AGTAAGGTTTT
1 A-TAAGGTTTT
1248521 AACGAGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.55
Consensus pattern (16 bp):
ATAAGGTTTTTATCTT
Found at i:1249041 original size:18 final size:19
Alignment explanation
Indices: 1248997--1249041 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
1248987 AATTATCAAA
1248997 ATATTT-TTTAAAATCTTT
1 ATATTTATTTAAAATCTTT
**
1249015 ATA-AAATTTAAAAT-TTT
1 ATATTTATTTAAAATCTTT
1249032 ATATTTATTT
1 ATATTTATTT
1249042 TATCTAAACC
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTTATTTAAAATCTTT
Found at i:1249606 original size:12 final size:12
Alignment explanation
Indices: 1249589--1249614 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1249579 ATTTTAAGTA
1249589 TAAATAATATTT
1 TAAATAATATTT
1249601 TAAATAATATTT
1 TAAATAATATTT
1249613 TA
1 TA
1249615 CCGATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAATAATATTT
Found at i:1249873 original size:2 final size:2
Alignment explanation
Indices: 1249866--1249940 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
1249856 TCTTTCGAGG
1249866 AT AT AT AT 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 AT
1249908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1249941 ACCAAGTGTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1253662 original size:19 final size:19
Alignment explanation
Indices: 1253607--1253664 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
1253597 GCTATAATTA
*
1253607 TAATGATTTCAATTATTTTT
1 TAATTATTT-AATTATTTTT
**
1253627 TAATTATTTAAGCATTTTT
1 TAATTATTTAATTATTTTT
1253646 TATATT-TTTAATTATTTTT
1 TA-ATTATTTAATTATTTTT
1253665 AAGGAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
TAATTATTTAATTATTTTT
Found at i:1253821 original size:21 final size:21
Alignment explanation
Indices: 1253797--1253836 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1253787 ATTCGAATAT
*
1253797 TTGATTTTGTTTAAGGAATCC
1 TTGATTTTGCTTAAGGAATCC
1253818 TTGATTTTGCTTAAGGAAT
1 TTGATTTTGCTTAAGGAAT
1253837 ATAGTGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (21 bp):
TTGATTTTGCTTAAGGAATCC
Found at i:1254329 original size:16 final size:16
Alignment explanation
Indices: 1254305--1254352 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1254295 GTTAGTTAAA
*
1254305 AATTTAAATATAATTT
1 AATTAAAATATAATTT
1254321 AATTAAAATATAATATT
1 AATTAAAATATAAT-TT
* *
1254338 TATAAAAAT-TAATTT
1 AATTAAAATATAATTT
1254353 TTGAGTAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 2 0.07
16 17 0.61
17 9 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAAAATATAATTT
Found at i:1255429 original size:21 final size:22
Alignment explanation
Indices: 1255400--1255440 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1255390 AAGGTCATTT
1255400 ATTACTATTAATTATATTATAA
1 ATTACTATTAATTATATTATAA
* *
1255422 ATTA-TATTGATTATGTTAT
1 ATTACTATTAATTATATTAT
1255441 GTAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (22 bp):
ATTACTATTAATTATATTATAA
Found at i:1255803 original size:48 final size:49
Alignment explanation
Indices: 1255744--1255840 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 49
1255734 ATTAAATGTG
*
1255744 TAATTATACGTTTAGTACTTTATAATTTAATA-TTTATAAATTAATTTA
1 TAATTATACGTTTAATACTTTATAATTTAATATTTTATAAATTAATTTA
*
1255792 TAATTGTACGTTTAATACTTTATAATTTAATATTTTATAAATTAATTTA
1 TAATTATACGTTTAATACTTTATAATTTAATATTTTATAAATTAATTTA
1255841 ATGATACTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 30 0.65
49 16 0.35
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (49 bp):
TAATTATACGTTTAATACTTTATAATTTAATATTTTATAAATTAATTTA
Found at i:1255822 original size:15 final size:15
Alignment explanation
Indices: 1255802--1255837 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1255792 TAATTGTACG
1255802 TTTAATACTTTATAA
1 TTTAATACTTTATAA
*
1255817 TTTAATATTTTATAA
1 TTTAATACTTTATAA
*
1255832 ATTAAT
1 TTTAAT
1255838 TTAATGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAATACTTTATAA
Found at i:1255980 original size:12 final size:11
Alignment explanation
Indices: 1255951--1255976 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1255941 ACTCAATATT
1255951 AAAACATTAAA
1 AAAACATTAAA
1255962 AAAACATTAAA
1 AAAACATTAAA
1255973 AAAA
1 AAAA
1255977 ACATCCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAACATTAAA
Found at i:1256575 original size:4 final size:4
Alignment explanation
Indices: 1256566--1256592 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1256556 CGATAGAGAA
1256566 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1256593 ATAACTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:1257422 original size:19 final size:18
Alignment explanation
Indices: 1257368--1257423 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
1257358 CAAACCGGTA
*
1257368 TGACCCGTTGACTTTGACC
1 TGACCCATTGACTTTGA-C
*
1257387 T-ACCCATTGATCGTTGAC
1 TGACCCATTGA-CTTTGAC
1257405 TAGACCCATTGACTTTGAC
1 T-GACCCATTGACTTTGAC
1257424 ATTTTACTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 10 0.32
19 12 0.39
20 9 0.29
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (18 bp):
TGACCCATTGACTTTGAC
Found at i:1259172 original size:14 final size:14
Alignment explanation
Indices: 1259135--1259173 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1259125 ATCTAGTTTA
* *
1259135 TGATTATTGGTTTC
1 TGATTTTTGATTTC
*
1259149 TGATATTTGATTTC
1 TGATTTTTGATTTC
1259163 TGATTTTTGAT
1 TGATTTTTGAT
1259174 ATTAATGCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.18, C:0.05, G:0.18, T:0.59
Consensus pattern (14 bp):
TGATTTTTGATTTC
Found at i:1259625 original size:32 final size:32
Alignment explanation
Indices: 1259575--1259667 Score: 109
Period size: 31 Copynumber: 2.9 Consensus size: 32
1259565 GTGACCCTTA
*
1259575 GTAGGATCTT-AGGACCCAAGGTAATCCCTTGG
1 GTAGGAT-TTAAGGCCCCAAGGTAATCCCTTGG
*
1259607 GTAGGATTTAAGGCCCCAAGGT-ATTCCTTGG
1 GTAGGATTTAAGGCCCCAAGGTAATCCCTTGG
* * * *
1259638 ATAGGCTCTAAGGCCCCAAGGTATTCCCTT
1 GTAGGATTTAAGGCCCCAAGGTAATCCCTT
1259668 AGGTTGGTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
31 29 0.56
32 23 0.44
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (32 bp):
GTAGGATTTAAGGCCCCAAGGTAATCCCTTGG
Found at i:1266767 original size:2 final size:2
Alignment explanation
Indices: 1266762--1266791 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1266752 TTTATAATTA
1266762 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
1266792 TATTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1266954 original size:2 final size:2
Alignment explanation
Indices: 1266949--1266979 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1266939 TATTTTTTCC
1266949 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1266980 TTTATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1274534 original size:23 final size:23
Alignment explanation
Indices: 1274491--1274554 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
1274481 AAATATTGTA
* *
1274491 TTTTAATT-ATATTACATTTATAT
1 TTTTAATTAAT-TTATAATTATAT
1274514 TTTTAATTAATTTATAATTATAT
1 TTTTAATTAATTTATAATTATAT
* * *
1274537 ATTT-AGTACTTTATAATT
1 TTTTAATTAATTTATAATT
1274555 TAAGTTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 12 0.34
23 21 0.60
24 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTAATTAATTTATAATTATAT
Found at i:1275288 original size:4 final size:4
Alignment explanation
Indices: 1275279--1275304 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1275269 CTATAGAGAA
1275279 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
1275305 TAAGATGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1278265 original size:31 final size:31
Alignment explanation
Indices: 1278173--1278269 Score: 131
Period size: 32 Copynumber: 3.1 Consensus size: 31
1278163 TTCAGGTGAC
* * *
1278173 CCTTGGGTAGGCTCTTAGTCCCCAAGGTACT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATT
*
1278204 CCTTTGGGTAGGCTTTAAGGCCCCCAAGGTATT
1 CC-TTGGGTAGGCTCTAAGG-CCCCAAGGTATT
*
1278237 CCTTGGGTAGGCTCTAAGGCTCCAAGGTATT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATT
1278268 CC
1 CC
1278270 CTTAGGTTGG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
31 15 0.26
32 30 0.52
33 13 0.22
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.29
Consensus pattern (31 bp):
CCTTGGGTAGGCTCTAAGGCCCCAAGGTATT
Found at i:1281784 original size:34 final size:36
Alignment explanation
Indices: 1281740--1281841 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
1281730 TTTCGTCCTA
1281740 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
1281775 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
1281810 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
1281842 GTTATACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:1282258 original size:17 final size:18
Alignment explanation
Indices: 1282232--1282271 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1282222 ATTATATGGA
1282232 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
1282248 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
1282266 TATTAT
1 TATTAT
1282272 ATGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:1282335 original size:2 final size:2
Alignment explanation
Indices: 1282328--1282352 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1282318 ATTTTACTAT
1282328 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1282353 TTCTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1285205 original size:26 final size:25
Alignment explanation
Indices: 1285176--1285232 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
1285166 GCAAAAAGAA
*
1285176 AAAAAGAAGAAGCAAAAA-ACAAAAG
1 AAAAAGAAGAA-CAAAAAGAAAAAAG
*
1285201 CAAAAAAAAGAACAAAAAGAAAAAAG
1 -AAAAAGAAGAACAAAAAGAAAAAAG
1285227 AAAAAG
1 AAAAAG
1285233 GGACAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (25 bp):
AAAAAGAAGAACAAAAAGAAAAAAG
Found at i:1285232 original size:13 final size:12
Alignment explanation
Indices: 1285168--1285231 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 12
1285158 TAAAAATGGC
1285168 AAAAAGAAAAAA
1 AAAAAGAAAAAA
1285180 AGAAGAAGCAAAAAA
1 A-AA-AAG-AAAAAA
*
1285195 CAAAAGCAAAAAA
1 AAAAAG-AAAAAA
* *
1285208 AAGAACAAAAAGA
1 AAAAAGAAAAA-A
1285221 AAAAAGAAAAA
1 AAAAAGAAAAA
1285232 GGGACAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 6 0.14
13 25 0.60
14 5 0.12
15 6 0.14
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:1285858 original size:22 final size:22
Alignment explanation
Indices: 1285830--1285873 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1285820 AGCTACCCCA
1285830 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
1285852 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
1285874 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:1286866 original size:36 final size:36
Alignment explanation
Indices: 1286823--1287104 Score: 321
Period size: 36 Copynumber: 8.0 Consensus size: 36
1286813 ACTAGAAGAG
1286823 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
1286859 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
1286895 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1286931 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
1286967 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
* * ** * *
1286996 TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
1287033 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
1287068 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1287105 ATCTTTGAAT
Statistics
Matches: 206, Mismatches: 28, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.09
30 2 0.01
35 6 0.03
36 142 0.69
37 35 0.17
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:1286866 original size:71 final size:73
Alignment explanation
Indices: 1286781--1287104 Score: 248
Period size: 72 Copynumber: 4.6 Consensus size: 73
1286771 GTTTTTCTTA
* * * * * *
1286781 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
1286843 TTTCCCTTG
65 TTTCCCTTG
* *
1286852 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
1286916 TTCCCTTG
66 TTCCCTTG
* * * * *
1286924 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA-G
* *
1286980 TTTTCTTTG
65 TTTCCCTTG
* * ** * * * * *
1286989 AAACAAATTTCGTCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAAC-AAATTTCGTCTATCTTGAGACAG
*
1287053 TTTCTCTTG
65 TTTCCCTTG
* * *
1287062 AAAC-AATTTTCGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTT-GTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
1287105 ATCTTTGAAT
Statistics
Matches: 205, Mismatches: 34, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
64 2 0.01
65 46 0.22
66 5 0.02
70 8 0.04
71 25 0.12
72 78 0.38
73 39 0.19
74 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:1287064 original size:102 final size:102
Alignment explanation
Indices: 1286879--1287067 Score: 299
Period size: 102 Copynumber: 1.9 Consensus size: 102
1286869 CTTGAGACAG
*
1286879 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTTCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1286944 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
* ** * *
1286981 TTTCT-TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
*
1287045 TGAGACAGTTTCTCTTGAAACAA
65 TGAGACAGTTTCCCTTGAAACAA
1287068 TTTTCGTCTA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 34 0.43
102 45 0.57
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATTTCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
Found at i:1287096 original size:138 final size:137
Alignment explanation
Indices: 1286843--1287169 Score: 458
Period size: 138 Copynumber: 2.4 Consensus size: 137
1286833 CTTGAGACAG
*
1286843 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
*
1286908 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTT
66 GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTT
*
1286973 GAATATG
131 GAATATA
* * * * * * * *
1286980 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* * *
1287045 TGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCT
65 TGAGACAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAATAT
*
1287109 TTGAATTTA
129 TTGAATATA
* * * *
1287118 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACAAA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAA
1287170 AAATCTTCAA
Statistics
Matches: 163, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
137 51 0.31
138 112 0.69
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTT
GAATATA
Found at i:1287166 original size:65 final size:66
Alignment explanation
Indices: 1287062--1287219 Score: 194
Period size: 65 Copynumber: 2.4 Consensus size: 66
1287052 GTTTCTCTTG
** * * **
1287062 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAAC-AAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTT-GTCTCCCTTGAGACAATTACCCTTGAAACAAAAATCTTCAAATTTATTTCCCC
1287125 TA
65 TA
* *
1287127 AAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACAAAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAAC-AAAAATCTTCAAATTTATTTCCCC
1287192 TA
65 TA
*
1287194 AAACATAATTTTGTTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
1287220 CGTTTCTCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 28 0.35
66 6 0.08
67 27 0.34
68 19 0.24
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (66 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACAAAAATCTTCAAATTTATTTCCCCT
A
Found at i:1287236 original size:68 final size:67
Alignment explanation
Indices: 1287062--1287236 Score: 212
Period size: 68 Copynumber: 2.6 Consensus size: 67
1287052 GTTTCTCTTG
** * **
1287062 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAAC--AAAATCTTTGAATTTATTTCCC
1 AAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAAATCTTCAAATTTATTTCCC
1287124 CTA
65 CTA
* * *
1287127 AAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACAAAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAAATCTTCAAATTTATTTCCCC
1287192 TA
66 TA
* * *
1287194 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
1287237 CAGATATCTT
Statistics
Matches: 93, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
65 28 0.30
66 6 0.06
67 27 0.29
68 32 0.34
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAAATCTTCAAATTTATTTCCCC
TA
Found at i:1288066 original size:105 final size:105
Alignment explanation
Indices: 1287840--1288605 Score: 1060
Period size: 105 Copynumber: 7.3 Consensus size: 105
1287830 GCCATCTGCG
* * * * * *
1287840 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
1287905 GGGA-CGACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* *
1287949 ATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
1288014 ACCGCTGCCTGTCAAAAACAACTTCTCAATTTCAAAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
1288054 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
1288119 ACTGCTGCTTGTCAACAACAACTTCTTAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
1288159 ATTTCAACTTCACAACAAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
1288224 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
1288264 ATTTCAACTTCACAACGAAGGATATTGGACTCCATACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
1288329 ACTGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
1288369 ATTTCAATTTCACAACGAAGGATATTGGATTCTAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
1288434 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
1288469 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * ** *
1288534 A-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* * *
1288575 ATTTCAACTTCACGACGGAGGATATTAGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
1288606 TGGAACAATG
Statistics
Matches: 595, Mismatches: 54, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
99 2 0.00
100 79 0.13
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 397 0.67
106 78 0.13
107 5 0.01
109 21 0.04
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:1289184 original size:34 final size:36
Alignment explanation
Indices: 1289140--1289241 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
1289130 TTTCGTCCTA
1289140 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
1289175 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
1289210 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
1289242 GTTATACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:1289672 original size:18 final size:17
Alignment explanation
Indices: 1289633--1289675 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1289623 ATTATATGGA
1289633 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
1289649 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
1289667 TATTATTAT
1 TATTATTAT
1289676 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:1289686 original size:2 final size:2
Alignment explanation
Indices: 1289673--1289794 Score: 112
Period size: 2 Copynumber: 62.5 Consensus size: 2
1289663 TTATTATTAT
*
1289673 TA TA TG 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 TA TA TA
* * * * * *
1289715 TA T- TA AA T- TA T- TT TCA TT TA T- TT TT TA CTA TA T- TT TA CTA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA -TA TA TA TA TA -TA
1289755 T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1289795 CTTTAATATT
Statistics
Matches: 102, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
1 6 0.06
2 91 0.89
3 5 0.05
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:1301590 original size:27 final size:27
Alignment explanation
Indices: 1301552--1301603 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
1301542 GCAACAAGGT
1301552 CAAGGATAGTACCACTGTCCACATTTA
1 CAAGGATAGTACCACTGTCCACATTTA
1301579 CAAGGATAGTACCACTGTCCACATT
1 CAAGGATAGTACCACTGTCCACATT
1301604 GGTCCGACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (27 bp):
CAAGGATAGTACCACTGTCCACATTTA
Found at i:1306138 original size:124 final size:123
Alignment explanation
Indices: 1305914--1306147 Score: 294
Period size: 124 Copynumber: 1.9 Consensus size: 123
1305904 ATAATTTTCG
*
1305914 CTATAGCCTCGTCTTTTGTGACAATTTTTAAACAAACACTGCAAAAGGTCAGTGTATTAGTGGCA
1 CTATAGCCTCGTCTTTTGTGACAATTTTTAAACAAACACTGCAAAAGGTCAGTGCATTAGTGGCA
* *
1305979 TTTTTAAATACAAAAGCCACAAAATAGAAATATTAGCGGTATTTTTCTAGAAATGCCA
66 TTTTTAAATACAAAAGCCACAAAATAGAAACATTAGCGGCATTTTTCTAGAAATGCCA
* ** * *
1306037 CTATAGCCTCGTCTTTTGTGGCTTTTTTTAAAACAAATA-TCGCAATAGGTCAGTGCATT-GTTG
1 CTATAGCCTCGTCTTTTGTGACAATTTTT-AAACAAACACT-GCAAAAGGTCAGTGCATTAG-TG
* * * * *
1306100 GCGTTTTTAAATACAAACA-CCATAAAATGGTAACATTAGTGGCATTTT
63 GCATTTTTAAATACAAA-AGCCACAAAATAGAAACATTAGCGGCATTTT
1306148 CCCAATAACA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
123 28 0.30
124 65 0.69
125 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (123 bp):
CTATAGCCTCGTCTTTTGTGACAATTTTTAAACAAACACTGCAAAAGGTCAGTGCATTAGTGGCA
TTTTTAAATACAAAAGCCACAAAATAGAAACATTAGCGGCATTTTTCTAGAAATGCCA
Found at i:1313977 original size:495 final size:486
Alignment explanation
Indices: 1313428--1314411 Score: 1703
Period size: 490 Copynumber: 2.0 Consensus size: 486
1313418 GTGCTCATCA
1313428 TTAACGGTACTCATATGTACTCGTTGAGCGTGACATCATCATCCTTTATATATATATATATATAT
1 TTAACGGTACTCATATGTACTCGTTGAGCGTGACATCATCATCC--T-T-TATATATATATATAT
1313493 ATATTAAATAATCTCGATGATTACAATGTAACATCTGTTCATAA-TTTTTAACTCTTGATAAT-A
62 ATATTAAATAATCTCGATGATTACAATGTAACATCTGTTCATAATTTTTTAACTCTTGATAATAA
*
1313556 A-ATA-TATTAAGACCACTCTATAGATTA-TTATCTATATATT-TATATGCAGATGATTGAGTTT
127 ATATACTATTAAGACCACTCAATAGATTACTTATCTATAT-TTAT-TATGCAGATGATTGA----
1313617 GTATTATAAGGTTTAATCAGAAAAAAAATAAAATCTTTTGAATG-AAAAATGATATTATAAACTT
186 GTATTATAAGGTTTAATCAGAAAAAAAA-AAAATCTTTTGAATGAAAAAATG--ATTATAAACTT
1313681 ATACTTTTTATATTTTATGAAATTTTTAAATAATTTAATTAAAAATCAAAATTAGTAAATTTTTT
248 ATACTTTTTATATTTTATGAAATTTTTAAATAATTTAATTAAAAATCAAAATTAGTAAATTTTTT
* **
1313746 AGGATCAAACTCGAAATTAATAAAAGATTATATAAGTTTTTATCGATTGATTTATAATTATTTGT
313 AGGATCAAACTCGAAATTAATAAAAGATT-TATAAATTTTTATCGATTGATCGATAATTATTTGT
1313811 TAAATAAAATTTTATAATAATTTACTAATATTAAATATTTTCTTTTATCTATATTATAAATGTGA
377 TAAATAAAATTTTATAATAATTTACTAATATTAAATATTTTCTTTTATCTATA-TATAAATGTGA
1313876 CTCGGTTTAATTAGTTTTAGTGTGATAGAAGTAAAGCGATAATTTTT
441 CTCGGTTTAATTAGTTTTAGTGTGATAGAAGTAAAGCGAT-ATTTTT
1313923 TTAACGGTACTCATATGTACTCGTTGAGCGTGACATCATCATCCTTTATATATATATATATATAT
1 TTAACGGTACTCATATGTACTCGTTGAGCGTGACATCATCATCCTTTATATATATATATATATAT
*
1313988 TAAATAATCTGGATGATTACAATGTAACATCTGTTCATAATTTTTTAACTCTTGATAATAAATAT
66 TAAATAATCTCGATGATTACAATGTAACATCTGTTCATAATTTTTTAACTCTTGATAATAAATAT
1314053 ACTATTAAGACCACTCAATAGATTATCTTATCTATATTTATTATGCAGATGATTGAGTATTATAA
131 ACTATTAAGACCACTCAATAGATTA-CTTATCTATATTTATTATGCAGATGATTGAGTATTATAA
1314118 GGTTTAATCAGAAAAAAAAAAAATCTTTTGAATGAAAAAATGATTATAAACTTATACTTTTTATA
195 GGTTTAATCAGAAAAAAAAAAAATCTTTTGAATGAAAAAATGATTATAAACTTATACTTTTTATA
1314183 TTTTATGAAATTTTTAAATAATTTAATTAAAAATCAAAATTAGTAAATTTTTTAGGATCAAACTC
260 TTTTATGAAATTTTTAAATAATTTAATTAAAAATCAAAATTAGTAAATTTTTTAGGATCAAACTC
1314248 GAAATTAATAAAAGATTTATAAATTTTTATCGATTGATCGATAATTATTTGTTAAATAAAATTTT
325 GAAATTAATAAAAGATTTATAAATTTTTATCGATTGATCGATAATTATTTGTTAAATAAAATTTT
*
1314313 ATGATAATTTACTAATATTAAATATTTTCTTTTATCTATATATAAATGTGACTCGGTTTAATTAG
390 ATAATAATTTACTAATATTAAATATTTTCTTTTATCTATATATAAATGTGACTCGGTTTAATTAG
*
1314378 TTTTAGTGTGATAGAAGTAAAGCGATGTTTTT
455 TTTTAGTGTGATAGAAGTAAAGCGATATTTTT
1314410 TT
1 TT
1314412 CACATGCAAA
Statistics
Matches: 474, Mismatches: 7, Indels: 24
0.94 0.01 0.05
Matches are distributed among these distances:
487 7 0.01
488 51 0.11
489 84 0.18
490 105 0.22
491 73 0.15
492 54 0.11
493 3 0.01
494 3 0.01
495 66 0.14
496 17 0.04
497 11 0.02
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (486 bp):
TTAACGGTACTCATATGTACTCGTTGAGCGTGACATCATCATCCTTTATATATATATATATATAT
TAAATAATCTCGATGATTACAATGTAACATCTGTTCATAATTTTTTAACTCTTGATAATAAATAT
ACTATTAAGACCACTCAATAGATTACTTATCTATATTTATTATGCAGATGATTGAGTATTATAAG
GTTTAATCAGAAAAAAAAAAAATCTTTTGAATGAAAAAATGATTATAAACTTATACTTTTTATAT
TTTATGAAATTTTTAAATAATTTAATTAAAAATCAAAATTAGTAAATTTTTTAGGATCAAACTCG
AAATTAATAAAAGATTTATAAATTTTTATCGATTGATCGATAATTATTTGTTAAATAAAATTTTA
TAATAATTTACTAATATTAAATATTTTCTTTTATCTATATATAAATGTGACTCGGTTTAATTAGT
TTTAGTGTGATAGAAGTAAAGCGATATTTTT
Found at i:1314616 original size:20 final size:20
Alignment explanation
Indices: 1314585--1314649 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
1314575 TTCCAAATTT
*
1314585 GCAACACGAATATGTAAATC
1 GCAACGCGAATATGTAAATC
* *
1314605 GTAACGCGAATATGTAAATT
1 GCAACGCGAATATGTAAATC
*
1314625 GCAACGCGAATTTGTAAATC
1 GCAACGCGAATATGTAAATC
1314645 GCAAC
1 GCAAC
1314650 ACATAAGTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (20 bp):
GCAACGCGAATATGTAAATC
Found at i:1314666 original size:20 final size:20
Alignment explanation
Indices: 1314643--1314685 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
1314633 AATTTGTAAA
1314643 TCGCAACACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
1314663 TCGCAACACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
1314683 TCG
1 TCG
1314686 TAAGCACGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.21
Consensus pattern (20 bp):
TCGCAACACATAAGTCAAAT
Found at i:1314669 original size:40 final size:40
Alignment explanation
Indices: 1314578--1314671 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 40
1314568 ACACAGTTTC
* * *
1314578 CAAATTTGCAACACGAATATGTAAATCGTAACGCGAATATGT
1 CAAA-TTGCAACACGAATATGTAAATCGCAACAC-AATAAGT
* *
1314620 -AAATTGCAACGCGAATTTGTAAATCGCAACAC-ATAAGT
1 CAAATTGCAACACGAATATGTAAATCGCAACACAATAAGT
1314658 CAAATTCGCAACAC
1 CAAATT-GCAACAC
1314672 ATAAGTCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
38 5 0.11
39 5 0.11
40 31 0.70
41 3 0.07
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.23
Consensus pattern (40 bp):
CAAATTGCAACACGAATATGTAAATCGCAACACAATAAGT
Found at i:1315264 original size:20 final size:20
Alignment explanation
Indices: 1315198--1315260 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
1315188 ACACGAAAAC
1315198 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
1315218 GCGATTTTCATTTTCACGTT
1 GCGATTTTCATTTTCGCGTT
*
1315238 GCGATTTTCATTTT-GTGTT
1 GCGATTTTCATTTTCGCGTT
1315257 GCGA
1 GCGA
1315261 ATTTAAGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 7 0.17
20 33 0.82
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:1317362 original size:21 final size:21
Alignment explanation
Indices: 1317311--1317392 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
1317301 AGAATCGATT
*
1317311 CACCTGTCATCGTTCAAGA-G
1 CACCTCTCATCGTTCAAGAGG
1317331 -ACCTC-CTATCGTTCAAGAGG
1 CACCTCTC-ATCGTTCAAGAGG
*
1317351 CTCCTCTCATCGTTCAAGAGG
1 CACCTCTCATCGTTCAAGAGG
* * *
1317372 CCCCTCCCACCGTTTCAAGAG
1 CACCTCTCATCG-TTCAAGAG
1317393 CCCGATTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.02
19 15 0.29
20 1 0.02
21 26 0.50
22 9 0.17
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.24
Consensus pattern (21 bp):
CACCTCTCATCGTTCAAGAGG
Found at i:1318268 original size:21 final size:21
Alignment explanation
Indices: 1318242--1318284 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1318232 ACATAAGCCA
1318242 AATAAGTTAAAAGTTACAATG
1 AATAAGTTAAAAGTTACAATG
1318263 AATAAGTTAAAAGTTACAATG
1 AATAAGTTAAAAGTTACAATG
1318284 A
1 A
1318285 TGAGACAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (21 bp):
AATAAGTTAAAAGTTACAATG
Found at i:1318807 original size:15 final size:14
Alignment explanation
Indices: 1318783--1318812 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1318773 ATAAGGATTG
1318783 TTTTTTGTTTAATT
1 TTTTTTGTTTAATT
1318797 TTTTGTTGTTTAATT
1 TTTT-TTGTTTAATT
1318812 T
1 T
1318813 CAATCTGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTTTTGTTTAATT
Found at i:1318888 original size:20 final size:20
Alignment explanation
Indices: 1318863--1318901 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1318853 GCACACTTTC
1318863 GCAACGCGAAAATCAAATTT
1 GCAACGCGAAAATCAAATTT
*
1318883 GCAACGCGAAAGTCAAATT
1 GCAACGCGAAAATCAAATT
1318902 CGCGTTGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
GCAACGCGAAAATCAAATTT
Found at i:1318987 original size:49 final size:49
Alignment explanation
Indices: 1318891--1318987 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
1318881 TTGCAACGCG
* * *
1318891 AAAGTCAAATTCGCGTTGCGATTATTGCGAAAGTCAAATTCGAGTTGCA
1 AAAGTCAAATTCACGTTGCGATTATTACGAAAGTCAAATTCCAGTTGCA
*
1318940 AAAGTCAAATTCACGTTGCGATTGTTACGAAAGTCAAA-TCCACGTTGC
1 AAAGTCAAATTCACGTTGCGATTATTACGAAAGTCAAATTCCA-GTTGC
1318988 GATTGTTGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 3 0.07
49 40 0.93
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (49 bp):
AAAGTCAAATTCACGTTGCGATTATTACGAAAGTCAAATTCCAGTTGCA
Found at i:1321485 original size:24 final size:23
Alignment explanation
Indices: 1321447--1321500 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
1321437 CTGAAACATC
1321447 ATCAAATCCGAGTATTAACCAAG
1 ATCAAATCCGAGTATTAACCAAG
* *
1321470 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAA-TCCGAGTATTAACCAAG
1321494 ATCAAAT
1 ATCAAAT
1321501 TTCGAATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (23 bp):
ATCAAATCCGAGTATTAACCAAG
Found at i:1321645 original size:12 final size:12
Alignment explanation
Indices: 1321624--1321657 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1321614 GGTTGTGGGT
*
1321624 TTTGAGATTGTG
1 TTTGATATTGTG
1321636 TTTGATATTGTG
1 TTTGATATTGTG
*
1321648 TTTGGTATTG
1 TTTGATATTG
1321658 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1322434 original size:20 final size:20
Alignment explanation
Indices: 1322409--1322476 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
1322399 TTAAATTCGT
1322409 GTTGCGAATTCGAAAATCCA
1 GTTGCGAATTCGAAAATCCA
** *
1322429 GTTGCGAAAAC-AAAATTCGA
1 GTTGCGAATTCGAAAA-TCCA
* * **
1322449 GTTGCGATTTAGAAAATCTT
1 GTTGCGAATTCGAAAATCCA
1322469 GTTGCGAA
1 GTTGCGAA
1322477 AAGGAAATTT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 4 0.11
20 28 0.78
21 4 0.11
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCCA
Found at i:1322485 original size:40 final size:40
Alignment explanation
Indices: 1322401--1322478 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
1322391 GTTGCAAATT
* *
1322401 AAATTCGTGTTGCGAATTCGAAAATCCAGTTGCGAAAACA
1 AAATTCGAGTTGCGAATTAGAAAATCCAGTTGCGAAAACA
* **
1322441 AAATTCGAGTTGCGATTTAGAAAATCTTGTTGCGAAAA
1 AAATTCGAGTTGCGAATTAGAAAATCCAGTTGCGAAAA
1322479 GGAAATTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (40 bp):
AAATTCGAGTTGCGAATTAGAAAATCCAGTTGCGAAAACA
Found at i:1322513 original size:20 final size:20
Alignment explanation
Indices: 1322429--1322569 Score: 95
Period size: 20 Copynumber: 7.0 Consensus size: 20
1322419 CGAAAATCCA
*
1322429 GTTGCGAAAACA-AAATTCGA
1 GTTGCGAAAA-AGAAATTCGC
*** * **
1322449 GTTGCGATTTAGAAAATCTT
1 GTTGCGAAAAAGAAATTCGC
* * *
1322469 GTTGCGAAAAGGAAATTTGT
1 GTTGCGAAAAAGAAATTCGC
* *
1322489 TTTGCAAAAAAGAAATTCGC
1 GTTGCGAAAAAGAAATTCGC
*** *
1322509 GTTGCGAATTTGAAATTCCGT
1 GTTGCGAAAAAGAAATT-CGC
1322530 GTTGCGAAAAAGAAATTCGC
1 GTTGCGAAAAAGAAATTCGC
* *
1322550 ATTGCGAGAAAGAAATTCGC
1 GTTGCGAAAAAGAAATTCGC
1322570 AATGCGATTG
Statistics
Matches: 89, Mismatches: 30, Indels: 4
0.72 0.24 0.03
Matches are distributed among these distances:
19 1 0.01
20 72 0.81
21 16 0.18
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (20 bp):
GTTGCGAAAAAGAAATTCGC
Found at i:1322545 original size:61 final size:60
Alignment explanation
Indices: 1322441--1322578 Score: 152
Period size: 61 Copynumber: 2.3 Consensus size: 60
1322431 TGCGAAAACA
* * * * **
1322441 AAATTCGAGTTGCGATTTAGAAAATCTTGTTGCGAAAAGGAAATTTGTTTTGCAAAAAAG
1 AAATTCGCGTTGCGATTTAGAAAATCGTGTTGCGAAAAAGAAATTCGCATTGCAAAAAAG
* * *
1322501 AAATTCGCGTTGCGAATTT-GAAATTCCGTGTTGCGAAAAAGAAATTCGCATTGCGAGAAAG
1 AAATTCGCGTTGCG-ATTTAGAAAAT-CGTGTTGCGAAAAAGAAATTCGCATTGCAAAAAAG
**
1322562 AAATTCGCAATGCGATT
1 AAATTCGCGTTGCGATT
1322579 GCAAAAACTG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 21 0.32
61 44 0.68
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (60 bp):
AAATTCGCGTTGCGATTTAGAAAATCGTGTTGCGAAAAAGAAATTCGCATTGCAAAAAAG
Found at i:1322565 original size:41 final size:41
Alignment explanation
Indices: 1322490--1322567 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
1322480 GAAATTTGTT
* **
1322490 TTGCAAAAAAGAAATTCGCGTTGCGAATTTGAAATTCCGTG
1 TTGCAAAAAAGAAATTCGCATTGCGAATAAGAAATTCCGTG
*
1322531 TTGCGAAAAAGAAATTCGCATTGCGAGA-AAGAAATTC
1 TTGCAAAAAAGAAATTCGCATTGCGA-ATAAGAAATTC
1322568 GCAATGCGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 31 0.97
42 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (41 bp):
TTGCAAAAAAGAAATTCGCATTGCGAATAAGAAATTCCGTG
Found at i:1322634 original size:20 final size:20
Alignment explanation
Indices: 1322611--1322652 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1322601 GGAAACTGTA
1322611 TTGCGAAATTGTAGTTCGCG
1 TTGCGAAATTGTAGTTCGCG
1322631 TTGCGAAATTGTAGTTCGCG
1 TTGCGAAATTGTAGTTCGCG
1322651 TT
1 TT
1322653 ATGATTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.38
Consensus pattern (20 bp):
TTGCGAAATTGTAGTTCGCG
Found at i:1323383 original size:15 final size:15
Alignment explanation
Indices: 1323365--1323400 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1323355 GTATCATTAA
*
1323365 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
*
1323380 ATTAAATTATAAAGT
1 ATTAAATTATAAAAT
1323395 ATTAAA
1 ATTAAA
1323401 CGTATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:1325128 original size:21 final size:23
Alignment explanation
Indices: 1325084--1325133 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
1325074 TAAATATATG
* *
1325084 TTTTTAATTAAATTATATTTATA
1 TTTTTAACTAAATTATAATTATA
1325107 TTTTTAACT-AATT-TAATTATA
1 TTTTTAACTAAATTATAATTATA
*
1325128 TGTTTA
1 TTTTTA
1325134 GTACTTTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.50
22 4 0.17
23 8 0.33
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTTAACTAAATTATAATTATA
Found at i:1328989 original size:155 final size:157
Alignment explanation
Indices: 1328793--1329103 Score: 592
Period size: 155 Copynumber: 2.0 Consensus size: 157
1328783 GTCTTATTTA
1328793 TTTTCATTATTTGTAATTTTAGCACTTTATATTGTAAATGTTTGTTTTAGTCACTTGTATATTTT
1 TTTTCATTATTTGTAATTTTAGCACTTTATATTGTAAATGTTTGTTTTAGTCACTTGTATATTTT
1328858 ATTTTATTTTGATTTTGGCATGATGGTTTGATAATTTGTGTTTTAGTCCTACTTTTATATTATTT
66 ATTTTATTTTGATTTTGGCATG-TGGTTTGATAATTTGTGTTTTAGTCCTACTTTTATATTATTT
1328923 CAATTTTTGCATG-TG-TTGCATATTAT
130 CAATTTTTGCATGTTGTTTGCATATTAT
1328949 TTTTCATTATTTGTAATTTTAGCAC-TTATATTGTAAATGTTTGTTTTAGTCACTTGTATATTTT
1 TTTTCATTATTTGTAATTTTAGCACTTTATATTGTAAATGTTTGTTTTAGTCACTTGTATATTTT
1329013 ATTTTATTTTGATTTTGGCATGTGGTTTGATAATTTGTGTTTTAGTCCTACTTTTATATTATTTC
66 ATTTTATTTTGATTTTGGCATGTGGTTTGATAATTTGTGTTTTAGTCCTACTTTTATATTATTTC
1329078 AATTTTTGCATGTTGTTTGCATATTA
131 AATTTTTGCATGTTGTTTGCATATTA
1329104 GTTCATTTTA
Statistics
Matches: 153, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
154 55 0.36
155 63 0.41
156 35 0.23
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.57
Consensus pattern (157 bp):
TTTTCATTATTTGTAATTTTAGCACTTTATATTGTAAATGTTTGTTTTAGTCACTTGTATATTTT
ATTTTATTTTGATTTTGGCATGTGGTTTGATAATTTGTGTTTTAGTCCTACTTTTATATTATTTC
AATTTTTGCATGTTGTTTGCATATTAT
Found at i:1332165 original size:18 final size:20
Alignment explanation
Indices: 1332125--1332166 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1332115 AAAAATTACC
*
1332125 TAAAATATTATTATTTTTATT
1 TAAAATATTA-TATATTTATT
1332146 TAAAATATTA-ATATTT-TT
1 TAAAATATTATATATTTATT
1332164 TAA
1 TAA
1332167 TATTTTCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
21 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAAAATATTATATATTTATT
Found at i:1334914 original size:84 final size:84
Alignment explanation
Indices: 1334816--1334989 Score: 339
Period size: 84 Copynumber: 2.1 Consensus size: 84
1334806 ATATAAAAAC
1334816 TTTAAGTATATGTAATTGATTTTTAAGTATTTAGTTTAGATTCAATTAACTTTTTGAAATCCAAA
1 TTTAAGTATATGTAATTGATTTTTAAGTATTTAGTTTAGATTCAATTAACTTTTTGAAATCCAAA
1334881 CCTTTTATTATTATTTTTT
66 CCTTTTATTATTATTTTTT
1334900 TTTAAGTATATGTAATTGATTTTTAAGTATTTAGTTTAGATTCAATTAACTTTTTGAAATCCAAA
1 TTTAAGTATATGTAATTGATTTTTAAGTATTTAGTTTAGATTCAATTAACTTTTTGAAATCCAAA
1334965 CCTTTTATTATTATTTTTT
66 CCTTTTATTATTATTTTTT
1334984 TATTAA
1 T-TTAA
1334990 TGGGAATAAG
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 85 0.96
85 4 0.04
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (84 bp):
TTTAAGTATATGTAATTGATTTTTAAGTATTTAGTTTAGATTCAATTAACTTTTTGAAATCCAAA
CCTTTTATTATTATTTTTT
Found at i:1340204 original size:22 final size:22
Alignment explanation
Indices: 1340179--1340240 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
1340169 AAACTCTGTC
*
1340179 AAAGATCGGTGATGAAGCCATT
1 AAAGAACGGTGATGAAGCCATT
*
1340201 AAAGAACGGTGATGAATCCATT
1 AAAGAACGGTGATGAAGCCATT
* **
1340223 GAAGAACTATGATGAAGC
1 AAAGAACGGTGATGAAGC
1340241 TGTTACTTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (22 bp):
AAAGAACGGTGATGAAGCCATT
Found at i:1344832 original size:29 final size:29
Alignment explanation
Indices: 1344798--1344856 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1344788 CCTAAATTAA
1344798 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1344827 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1344856 T
1 T
1344857 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:1349500 original size:29 final size:29
Alignment explanation
Indices: 1349466--1349524 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1349456 CCTAAATTAA
1349466 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1349495 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1349524 T
1 T
1349525 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:1350452 original size:36 final size:36
Alignment explanation
Indices: 1350405--1350476 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
1350395 TAGAAAAAGG
1350405 GAGGGAATAGATGAAAGATTGGGATTTGGTTAGACT
1 GAGGGAATAGATGAAAGATTGGGATTTGGTTAGACT
1350441 GAGGGAATAGATGAAAGATTGGGATTTGGTTAGACT
1 GAGGGAATAGATGAAAGATTGGGATTTGGTTAGACT
1350477 AACTTTTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.36, T:0.28
Consensus pattern (36 bp):
GAGGGAATAGATGAAAGATTGGGATTTGGTTAGACT
Found at i:1360136 original size:17 final size:17
Alignment explanation
Indices: 1360111--1360160 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
1360101 AAAATATGTA
1360111 AAAAT-ATAATATTAAT
1 AAAATAATAATATTAAT
*
1360127 AAAATAATAATATAAAT
1 AAAATAATAATATTAAT
1360144 ATAAA-AATAATAATTAA
1 A-AAATAATAAT-ATTAA
1360161 AATAGCGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.17
17 17 0.59
18 7 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATAATAATATTAAT
Found at i:1360494 original size:91 final size:92
Alignment explanation
Indices: 1360341--1360547 Score: 256
Period size: 91 Copynumber: 2.3 Consensus size: 92
1360331 GACGACACTA
* * * ** *
1360341 CTCATACGTGATGAAGAGGTCTGGTCGTCTAAGGGTGGATGATAACTCGGTTCCTACGTGATGAG
1 CTCATACGTGATGAAGAGATCTGGCCATCTAAGGAAGGATGATAACACGGTTCCTACGTGATGAG
* * *
1360406 GATGACTGGTT-GGT-GGATGACATGG
66 GACGACTGGTTAGCTAGGATGACACGG
* * *
1360431 CTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGA
1 CTCATACGTGATGAAGAGATCTGGCCATC-TAAGGAAGGATGATAACACGGTTCCTACGTGATGA
* * *
1360496 GGACGGCTGGTTATCTAGGGTGACACGG
65 GGACGACTGGTTAGCTAGGATGACACGG
1360524 CTCATACGTGATGAAGAGATCTGG
1 CTCATACGTGATGAAGAGATCTGG
1360548 TCGGGGAATG
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
90 26 0.26
91 40 0.40
92 1 0.01
93 32 0.32
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (92 bp):
CTCATACGTGATGAAGAGATCTGGCCATCTAAGGAAGGATGATAACACGGTTCCTACGTGATGAG
GACGACTGGTTAGCTAGGATGACACGG
Found at i:1360700 original size:41 final size:41
Alignment explanation
Indices: 1360516--1360758 Score: 269
Period size: 41 Copynumber: 5.8 Consensus size: 41
1360506 TTATCTAGGG
1360516 TGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGGAA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGAA
* *
1360556 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTG-A
1 TGACACGGCTCATACGTGATGAAGAGATCTGG---TCT---GGGGAA
* * * * * ** *
1360602 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGG-T
1 TGACACGGCTCATACGTGATGAAGA-GATCTGG---TCTGGGGAA
1360645 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGAA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGAA
1360686 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGAA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGAA
*
1360727 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCATACGTGATGAAGAGATCTGG
1360759 CCATCTAAAG
Statistics
Matches: 171, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
40 36 0.21
41 72 0.42
42 1 0.01
43 28 0.16
46 30 0.18
47 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (41 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGAA
Found at i:1360863 original size:28 final size:27
Alignment explanation
Indices: 1360823--1360903 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
1360813 AGGAGTTATG
* **
1360823 GTTTCAAGAGAAACCAAATTAAAGATTT
1 GTTTCAAAAGAAA-CAAACCAAAGATTT
*
1360851 GTTTCAAAAGAAACAACCCAAAGATTT
1 GTTTCAAAAGAAACAAACCAAAGATTT
*
1360878 GTTTCAAGAA-AAATAAACTCAAAGAT
1 GTTTCAA-AAGAAACAAAC-CAAAGAT
1360904 GATATTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 24 0.53
28 21 0.47
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (27 bp):
GTTTCAAAAGAAACAAACCAAAGATTT
Found at i:1361892 original size:66 final size:66
Alignment explanation
Indices: 1361822--1361947 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 66
1361812 AAACGGTCTC
* * *
1361822 AAGAGATACAAAATTCAT-TTT-AAGAGAAACAGATTCAAAGATTTTTGTTTCAAAAGAAAGTAT
1 AAGAGAGACAAAATT-ATGTTTCAA-AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAAGTAT
1361885 CTT
64 CTT
*
1361888 AAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
1 AAGAGAGACAAAATTATGTTT-CAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
1361948 CAATCTCAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
65 1 0.02
66 17 0.32
67 33 0.62
68 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.29
Consensus pattern (66 bp):
AAGAGAGACAAAATTATGTTTCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAAGTATCT
T
Found at i:1361935 original size:30 final size:30
Alignment explanation
Indices: 1361901--1361964 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
1361891 AGAGACAAAA
*
1361901 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
1361931 TTTTGTTTCAAAAGAAACAATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
1361961 TTTT
1 TTTT
1361965 TTCACAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:1361973 original size:30 final size:29
Alignment explanation
Indices: 1361896--1361973 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
1361886 TTAAGAGAGA
1361896 CAAA-ATTTTGTTTCC-AAAGAAACAAACT
1 CAAAGATTTT-TTTCCAAAAGAAACAAACT
* *
1361924 CAAAGATTTTTGTTTCAAAAGAAACAATCT
1 CAAAGATTTTT-TTCCAAAAGAAACAAACT
1361954 CAAAGATTTTTTTCACAAAA
1 CAAAGATTTTTTTC-CAAAA
1361974 TTGTCTCAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
28 5 0.12
29 10 0.23
30 28 0.65
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (29 bp):
CAAAGATTTTTTTCCAAAAGAAACAAACT
Found at i:1362027 original size:52 final size:53
Alignment explanation
Indices: 1361952--1362055 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 53
1361942 AAGAAACAAT
*
1361952 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAACACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
*
1362006 CTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1362056 AAATAAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 40 0.83
54 8 0.17
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:1362081 original size:27 final size:27
Alignment explanation
Indices: 1362051--1362142 Score: 96
Period size: 29 Copynumber: 3.3 Consensus size: 27
1362041 CAAAACTTTG
*
1362051 TTTCAAAATAAATAGACTCAAAGAT-TT
1 TTTCAAAATAAACA-ACTCAAAGATATT
1362078 TTTCAAAATAAACAACTCAAAGATATT
1 TTTCAAAATAAACAACTCAAAGATATT
** * *
1362105 TATTCAAAAGGAACTAACTCCAAGATTTT
1 T-TTCAAAATAAAC-AACTCAAAGATATT
1362134 TATTCAAAA
1 T-TTCAAAA
1362143 GGAACAGATT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 10 0.18
27 16 0.28
28 10 0.18
29 21 0.37
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTCAAAATAAACAACTCAAAGATATT
Found at i:1362135 original size:29 final size:28
Alignment explanation
Indices: 1362066--1362161 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 28
1362056 AAATAAATAG
**
1362066 ACTCAAAGA-TTTT-TTCAAAATAAACA
1 ACTCAAAGATTTTTATTCAAAAGGAACA
*
1362092 ACTCAAAGATATTTATTCAAAAGGAACTA
1 ACTCAAAGATTTTTATTCAAAAGGAAC-A
*
1362121 ACTCCAAGATTTTTATTCAAAAGGAACA
1 ACTCAAAGATTTTTATTCAAAAGGAACA
*
1362149 GATTCAAAGATTT
1 -ACTCAAAGATTT
1362162 ATCTCAAGAG
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.15
27 3 0.05
28 11 0.19
29 36 0.61
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (28 bp):
ACTCAAAGATTTTTATTCAAAAGGAACA
Found at i:1362504 original size:36 final size:35
Alignment explanation
Indices: 1362420--1362517 Score: 117
Period size: 36 Copynumber: 2.8 Consensus size: 35
1362410 GAGAAAATGA
* * *
1362420 TGTCTCAAGCGAGACGAAATTTG-CTTTAAGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAAT
* **
1362454 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTA-AGAAAT
*
1362490 TGTCTCAAGCGAGACAAAGTTTGTTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTTT
1362518 GAGGAAACGA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 19 0.37
35 4 0.08
36 29 0.56
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAAT
Found at i:1362532 original size:36 final size:36
Alignment explanation
Indices: 1362421--1362539 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
1362411 AGAAAATGAT
* * * *
1362421 GTCTCAAGCGAGACGAAATTTG-CTTTA-AGATATA
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAATC
** *
1362455 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAATC
*
1362491 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGGAAA-C
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGA-GAAATC
*
1362526 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
1362540 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
34 19 0.27
35 7 0.10
36 44 0.63
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAATC
Found at i:1362678 original size:105 final size:105
Alignment explanation
Indices: 1362491--1362731 Score: 298
Period size: 105 Copynumber: 2.3 Consensus size: 105
1362481 TAGAGAAATT
* * *
1362491 GTCTCAAGCGAGAC-AAAGTTTGTTTT-TGAG-GA-AACGATCTCAA-GTGAGATCAACTTTGTT
1 GTCTCAAGCGAGACGAAA-TTTGTTTTAAGAGAAACAACAATCT-AAGGTGAGATCAACTTTGTT
* *
1362551 TAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
64 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
1362593 GTCTCAAGCGAGACGAAATTTGTTTTGAA-AGAAACAACAATCTAAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT-AAGAGAAACAACAATCTAAGGTGAGATCAACTTTG-TT
* * *
1362657 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
64 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
1362698 GTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAAA
1 GTCTCAAGCGAGACGAAATTTGTTTTAAGAGAAA
1362732 ATTGTCTCAA
Statistics
Matches: 120, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
102 22 0.18
103 5 0.04
104 5 0.04
105 83 0.69
106 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (105 bp):
GTCTCAAGCGAGACGAAATTTGTTTTAAGAGAAACAACAATCTAAGGTGAGATCAACTTTGTTTA
ATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:1362732 original size:37 final size:36
Alignment explanation
Indices: 1362672--1362835 Score: 179
Period size: 37 Copynumber: 4.4 Consensus size: 36
1362662 GAATCAAATT
* *
1362672 CAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGA
1 CAAAATTTGT-T-TTAAA-GAAAATTGTCTCAAGCGAGA
* * *
1362711 CGAAGTTTGTTTTAAGAGAAAATTGTCTCAAGCAAGA
1 CAAAATTTGTTTTAA-AGAAAATTGTCTCAAGCGAGA
* **
1362748 CAAAATTTGTTTT-TAGAAAGCTGTCTCAAGCGAGA
1 CAAAATTTGTTTTAAAGAAAATTGTCTCAAGCGAGA
*
1362783 CAAAATTTGCTTTGAAAG-AAATTGTCTCAAGCGAGA
1 CAAAATTTG-TTTTAAAGAAAATTGTCTCAAGCGAGA
1362819 CAAAAATTTGTTTTAAA
1 C-AAAATTTGTTTTAAA
1362836 ATTCTCAAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
35 27 0.26
36 26 0.25
37 42 0.40
38 2 0.02
39 8 0.08
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (36 bp):
CAAAATTTGTTTTAAAGAAAATTGTCTCAAGCGAGA
Found at i:1362782 original size:72 final size:72
Alignment explanation
Indices: 1362697--1362832 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
1362687 AAAGGAAAAA
* * *
1362697 TGTCTCAAGCGAGACGAAGTTTG-TTTTAAGAGAAAATTGTCTCAAGCAAGAC-AAAATTTGTTT
1 TGTCTCAAGCGAGACAAAATTTGCTTTGAA-AG-AAATTGTCTCAAGCAAGACAAAAATTTGTTT
1362760 TTAGAAAGC
64 TTAGAAAGC
*
1362769 TGTCTCAAGCGAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAGCGAGACAAAAATTTGTTTT
1 TGTCTCAAGCGAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAGCAAGACAAAAATTTGTTTT
1362833 AAAATTCTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
71 18 0.31
72 35 0.60
73 5 0.09
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (72 bp):
TGTCTCAAGCGAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAGCAAGACAAAAATTTGTTTTT
AGAAAGC
Found at i:1369578 original size:20 final size:20
Alignment explanation
Indices: 1369555--1369597 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1369545 TTTTTTTCTG
1369555 TTTCGAATCTCTCTTTTTTT
1 TTTCGAATCTCTCTTTTTTT
* * *
1369575 TTTCTATTCTCTGTTTTTTT
1 TTTCGAATCTCTCTTTTTTT
1369595 TTT
1 TTT
1369598 TAAACCAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.07, C:0.16, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTCGAATCTCTCTTTTTTT
Found at i:1370151 original size:17 final size:17
Alignment explanation
Indices: 1370126--1370175 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
1370116 AAAATATGTA
1370126 AAAAT-ATAATATTAAT
1 AAAATAATAATATTAAT
*
1370142 AAAATAATAATATAAAT
1 AAAATAATAATATTAAT
1370159 ATAAA-AATAATAATTAA
1 A-AAATAATAAT-ATTAA
1370176 AATAGCGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.17
17 17 0.59
18 7 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATAATAATATTAAT
Found at i:1383857 original size:13 final size:13
Alignment explanation
Indices: 1383839--1383863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1383829 ATTGAACAAA
1383839 AATTTATCGATCT
1 AATTTATCGATCT
1383852 AATTTATCGATC
1 AATTTATCGATC
1383864 AATGATTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
AATTTATCGATCT
Found at i:1386424 original size:17 final size:18
Alignment explanation
Indices: 1386391--1386424 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1386381 CCGCTATTAG
1386391 TGAACCGGTCAGAACCGT
1 TGAACCGGTCAGAACCGT
*
1386409 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
1386425 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGT
Found at i:1387426 original size:34 final size:34
Alignment explanation
Indices: 1387353--1387426 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 34
1387343 CTTTCTTGAA
* *
1387353 AATTTTAAATTATTATATATTTATATATTTTTTG
1 AATTTTAAATTATAATATATTTATATATTTTTAG
* * * *
1387387 TATTTT-AATTGATAATTTATTTTTATCTTTTTAG
1 AATTTTAAATT-ATAATATATTTATATATTTTTAG
1387421 AATTTT
1 AATTTT
1387427 GTCCCCTCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
33 4 0.12
34 28 0.88
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (34 bp):
AATTTTAAATTATAATATATTTATATATTTTTAG
Found at i:1387804 original size:4 final size:4
Alignment explanation
Indices: 1387795--1387819 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1387785 GTCCAACAAG
1387795 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
1387820 AGAGAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:1389251 original size:2 final size:2
Alignment explanation
Indices: 1389240--1389276 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
1389230 ATATTATACT
1389240 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1389277 ATGTCTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1397837 original size:23 final size:24
Alignment explanation
Indices: 1397806--1397871 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
1397796 GACTATTTTA
*
1397806 AATAT-TTTTTAAATTTAATATT-
1 AATATATTTTTATATTTAATATTC
*
1397828 AATATATTTTTATTATTT-ATTTTC
1 AATATATTTTTA-TATTTAATATTC
1397852 AAT-TATTTTTATATTTAATA
1 AATATATTTTTATATTTAATA
1397872 ATATTTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 10 0.27
23 20 0.54
24 7 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
AATATATTTTTATATTTAATATTC
Found at i:1398302 original size:22 final size:21
Alignment explanation
Indices: 1398268--1398320 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
1398258 ATAATTATTT
*
1398268 AAAAAATTAAATAAAAATAT-A
1 AAAAAATTTAATAAAAA-ATCA
1398289 AAAAATATTTAATAAAAAATCA
1 AAAAA-ATTTAATAAAAAATCA
1398311 AAAAAATTTA
1 AAAAAATTTA
1398321 TGTTGAACCG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAATTTAATAAAAAATCA
Found at i:1398306 original size:23 final size:22
Alignment explanation
Indices: 1398268--1398317 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
1398258 ATAATTATTT
1398268 AAAAA-ATTAAATAAAAAT-ATA
1 AAAAATATTAAATAAAAATCA-A
*
1398289 AAAAATATTTAATAAAAAATCAA
1 AAAAATATTAAAT-AAAAATCAA
1398312 AAAAAT
1 AAAAAT
1398318 TTATGTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.20
22 6 0.24
23 13 0.52
24 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAAATATTAAATAAAAATCAA
Found at i:1399804 original size:3 final size:3
Alignment explanation
Indices: 1399796--1399835 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
1399786 CCACAATACA
*
1399796 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1399836 TGAGGTGATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1405939 original size:19 final size:20
Alignment explanation
Indices: 1405915--1405959 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
1405905 ATTATTTAAA
*
1405915 TGTATAATTTTTTTA-TATT
1 TGTATAATTTTTATATTATT
1405934 TGTATAATTTTTATATTATT
1 TGTATAATTTTTATATTATT
1405954 T-TATAA
1 TGTATAA
1405960 ATATCTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
TGTATAATTTTTATATTATT
Found at i:1406510 original size:2 final size:2
Alignment explanation
Indices: 1406498--1406543 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1406488 CTTCCTCTTA
*
1406498 AT AT CT AT 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 AT
1406540 AT AT
1 AT AT
1406544 GTATGATTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1415654 original size:34 final size:32
Alignment explanation
Indices: 1415601--1415666 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
1415591 ACCTTACAAC
*
1415601 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
1415633 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
1415667 CCCCCTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 7 0.23
33 5 0.17
34 18 0.60
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:1415910 original size:20 final size:22
Alignment explanation
Indices: 1415885--1415924 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1415875 AGTCGTATAT
1415885 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
1415905 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
1415925 TATGCTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Done.