Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_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: 4148933
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 13
Found at i:2208232 original size:19 final size:19
Alignment explanation
Indices: 2208208--2208282 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 19
2208198 ATCTAATTTT
2208208 GGTATCGATACTAGTATGG
1 GGTATCGATACTAGTATGG
*
2208227 GGTATCGATACCATAGTAAGG
1 GGTATCGATA-C-TAGTATGG
* * *
2208248 TAGTATCGATACCA-TGATAAG
1 -GGTATCGATACTAGT-AT-GG
2208269 GGTATCGATACTAG
1 GGTATCGATACTAG
2208283 GCAACATCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
19 11 0.26
20 14 0.33
21 9 0.21
22 9 0.21
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (19 bp):
GGTATCGATACTAGTATGG
Found at i:2208275 original size:20 final size:20
Alignment explanation
Indices: 2208208--2208279 Score: 78
Period size: 22 Copynumber: 3.5 Consensus size: 20
2208198 ATCTAATTTT
*
2208208 GGTATCGATA-C-TAGTATGG
1 GGTATCGATACCATAGTA-AG
2208227 GGTATCGATACCATAGTAAG
1 GGTATCGATACCATAGTAAG
2208247 GTAGTATCGATACCAT-GATAAG
1 G--GTATCGATACCATAG-TAAG
2208269 GGTATCGATAC
1 GGTATCGATAC
2208280 TAGGCAACAT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
19 10 0.21
20 13 0.28
21 6 0.13
22 18 0.38
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCATAGTAAG
Found at i:2208324 original size:95 final size:95
Alignment explanation
Indices: 2208136--2208358 Score: 233
Period size: 95 Copynumber: 2.4 Consensus size: 95
2208126 ATTCAATCAA
* *
2208136 TATCGATACC-TA-TGATGTAGTATCATACCATGATAAGGGATATAAATACCCAGCAACATCGAA
1 TATCGATACCATAGTAAGGTAGTATCATACCATGATAAGGGATATAAATACCCAGCAACATCGAA
* * * *
2208199 TCTAATTTTGGTATCGATACTAGTATGGGG
66 CCTAATTTTGGTATCGATACCAGAAGGGGG
** *
2208229 TATCGATACCATAGTAAGGTAGTATCGATACCATGATAAGGG-TATCGATA-CTAGGCAACATCG
1 TATCGATACCATAGTAAGGTAGTATC-ATACCATGATAAGGGATATAAATACCCA-GCAACATCG
* *
2208292 AACCTATTTTTGGTATTGATAACCA-AAGGGGG
64 AACCTAATTTTGGTATCGAT-ACCAGAAGGGGG
* * *
2208324 TATCGGTACTATAGTATA-GAAGTATCAGTACCATG
1 TATCGATACCATAGTA-AGGTAGTATCA-TACCATG
2208359 GAAGTAGTAT
Statistics
Matches: 109, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
93 10 0.09
94 5 0.05
95 75 0.69
96 19 0.17
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (95 bp):
TATCGATACCATAGTAAGGTAGTATCATACCATGATAAGGGATATAAATACCCAGCAACATCGAA
CCTAATTTTGGTATCGATACCAGAAGGGGG
Found at i:2208791 original size:59 final size:58
Alignment explanation
Indices: 2208689--2208855 Score: 183
Period size: 59 Copynumber: 2.9 Consensus size: 58
2208679 ATTACCAAAT
* * * * * *
2208689 GGCACTTTGTGTGCAAAATGTTAAGAACTTTATACTAAGTGTATGAATTTCAATACAG
1 GGCACCTTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTCAATACAG
* * * * ** **
2208747 GGCA-CTTCGTGTGCTAACGTGATAAGAATTTCATATTGAGTGTATGAATTTCTGTATTG
1 GGCACCTT-GTGTGCTAAAG-GATAAGAAATTCATACTAAGTGTATGAATTTCAATACAG
2208806 GGCACCTTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTT
1 GGCACCTTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTT
2208856 TAGTATGGAA
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
57 2 0.02
58 40 0.45
59 44 0.49
60 3 0.03
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (58 bp):
GGCACCTTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTCAATACAG
Found at i:2209294 original size:68 final size:68
Alignment explanation
Indices: 2209182--2209575 Score: 608
Period size: 68 Copynumber: 5.8 Consensus size: 68
2209172 AAAAGATCAA
*
2209182 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTATC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
2209247 TTT
66 TTT
* *
2209250 GAAGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAACGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
2209315 TTT
66 TTT
* * * *
2209318 GAGGCCTAATTGTGCATATGACATAAAGGTGTCATTTATGCCAATTAGATGAAATACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
2209383 TTT
66 TTT
* ** * *
2209386 GAGGCATAACTGTGCATATGACAGAAAAATGTGATTTATACCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
2209451 TTT
66 TTT
* * * *
2209454 GAGGCCAAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATTAAAAACCTAATTGT
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGA-CTAAGTGT
2209519 CTTT
65 CTTT
* * *
2209523 GAGGCCTAACTGTGCATATGACAGAAATGTGTCAATCATGCCAGTTAGATGAA
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
2209576 TGGTTAAGTT
Statistics
Matches: 293, Mismatches: 32, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
68 234 0.80
69 59 0.20
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:2209382 original size:32 final size:32
Alignment explanation
Indices: 2209278--2209382 Score: 81
Period size: 32 Copynumber: 3.2 Consensus size: 32
2209268 TGACAGAAAG
* **
2209278 GTGTCATTTATGCCAGTTAGATGAACGACTAA
1 GTGTCATTTATGCCAATTAGATGAAATACTAA
* *
2209310 GTGTC-TTTGAGGCCTAATT-G-TGCATATGACATAAA
1 GTGTCATTT-ATGCC-AATTAGATG-AAAT-AC-T-AA
2209345 GGTGTCATTTATGCCAATTAGATGAAATACTAA
1 -GTGTCATTTATGCCAATTAGATGAAATACTAA
2209378 GTGTC
1 GTGTC
2209383 TTTGAGGCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 20
0.67 0.08 0.24
Matches are distributed among these distances:
31 5 0.09
32 16 0.29
33 7 0.12
34 2 0.04
35 8 0.14
36 13 0.23
37 5 0.09
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (32 bp):
GTGTCATTTATGCCAATTAGATGAAATACTAA
Found at i:2209663 original size:81 final size:80
Alignment explanation
Indices: 2209525--2209979 Score: 525
Period size: 81 Copynumber: 5.7 Consensus size: 80
2209515 TTGTCTTTGA
* * * *
2209525 GGCCTAACTGTGC-ATATGACAGAAATGTGTCAATCATGCCAGTTAGATGAATGGTTAAGTTCCG
1 GGCCTAGCTGTGCAAT-TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAA-CGTTAAGTACCG
2209589 TTGAGTAAAAGAAAAAT
64 TTGAGTAAAAGAAAAAT
* *
2209606 AGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAACAGTTAAGTACCGT
1 GGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAC-GTTAAGTACCGT
*
2209671 TGAGTAAAATAAAAAAT
65 TGAGTAAAA-GAAAAAT
* * * *
2209688 GGCCTAGTTGTGTAATTGAC-GAAAGTTGTCAA-CATGCCAGTTAGATGAACGATTAAGTACCAT
1 GGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACG-TTAAGTACCGT
2209751 TGAGT--AA-AAAAAT
65 TGAGTAAAAGAAAAAT
* *
2209764 GGCCTCGCTGTGCAATTGACAGAAAGGTGTCAATCGTGCCCA-TTAGATGAACAGTTAAGTACCG
1 GGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATG-CCAGTTAGATGAAC-GTTAAGTACCG
2209828 TTGAGTAAAAGAAAAAT
64 TTGAGTAAAAGAAAAAT
* * * * *
2209845 AGCCTAGTTGTGTAATTGACAGAAAGGTGTCAATCATGCCAGTTAAATGAGCGGTTAAGTACCGT
1 GGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAC-GTTAAGTACCGT
* *
2209910 TAAGTAAGAG-AAAAT
65 TGAGTAAAAGAAAAAT
* ** * * * *
2209925 GGACTAATTGTGC-TTTGGCAGAAAGGTGTCAATTATG-CAGTTAGACGAACGTTAA
1 GGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGTTAA
2209980 ACAATGTTGA
Statistics
Matches: 323, Mismatches: 39, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
76 23 0.07
77 16 0.05
78 40 0.12
79 26 0.08
80 51 0.16
81 142 0.44
82 25 0.08
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (80 bp):
GGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGTTAAGTACCGTT
GAGTAAAAGAAAAAT
Found at i:2209989 original size:158 final size:160
Alignment explanation
Indices: 2209541--2209979 Score: 586
Period size: 158 Copynumber: 2.8 Consensus size: 160
2209531 ACTGTGCATA
* * *
2209541 TGACAGAAATGTGTCAATCATGCCAGTTAGATGAATGGTTAAGTTCCGTTGAGTAAAAGAAAAAT
1 TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGT-AAAG-AAAAT
* *
2209606 AGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAACAGTTAAGTACCGT
64 GGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACAGTTAAGTACCGT
* *
2209671 TGAGTAAAATAAAAAATGGCCTAGTTGTGTAAT
129 TGAGTAAAA-GAAAAATAGCCTAGTTGTGTAAT
* * *
2209704 TGAC-GAAAGTTGTCAA-CATGCCAGTTAGATGAACGATTAAGTACCATTGAGTAAA-AAAATGG
1 TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAGAAAATGG
* *
2209766 CCTCGCTGTGCAATTGACAGAAAGGTGTCAATCGTGCCCA-TTAGATGAACAGTTAAGTACCGTT
66 CCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATG-CCAGTTAGATGAACAGTTAAGTACCGTT
2209830 GAGTAAAAGAAAAATAGCCTAGTTGTGTAAT
130 GAGTAAAAGAAAAATAGCCTAGTTGTGTAAT
* * *
2209861 TGACAGAAAGGTGTCAATCATGCCAGTTAAATGAGCGGTTAAGTACCGTTAAGTAAGAGAAAATG
1 TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAA-AGAAAATG
* ** * * * *
2209926 GACTAATTGTGC-TTTGGCAGAAAGGTGTCAATTATG-CAGTTAGACGAAC-GTTAA
65 GCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACAGTTAA
2209980 ACAATGTTGA
Statistics
Matches: 243, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
157 25 0.10
158 90 0.37
159 44 0.18
160 24 0.10
161 46 0.19
162 10 0.04
163 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (160 bp):
TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAGAAAATGG
CCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACAGTTAAGTACCGTTG
AGTAAAAGAAAAATAGCCTAGTTGTGTAAT
Found at i:2212481 original size:12 final size:12
Alignment explanation
Indices: 2212438--2212483 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
2212428 TTGAATTTTG
2212438 TTTTAAA-CTTTC
1 TTTTAAATC-TTC
2212450 TTTTAAAT-TTC
1 TTTTAAATCTTC
*
2212461 TTTTTAATCTTC
1 TTTTAAATCTTC
*
2212473 TTTGAAATCTT
1 TTTTAAATCTT
2212484 TTTATTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.61
Consensus pattern (12 bp):
TTTTAAATCTTC
Found at i:2216009 original size:19 final size:20
Alignment explanation
Indices: 2215967--2216010 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
2215957 CTTCTTTGAA
2215967 ATCT-TTTTATTTTTCTTTC
1 ATCTATTTTATTTTTCTTTC
*
2215986 TTCTATTTTATTTTTC-TTC
1 ATCTATTTTATTTTTCTTTC
2216005 ATCTAT
1 ATCTAT
2216011 AAATCCCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (20 bp):
ATCTATTTTATTTTTCTTTC
Found at i:2217150 original size:23 final size:23
Alignment explanation
Indices: 2217124--2217172 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
2217114 CACTACTTAT
*
2217124 TGGATCTTCTAGAAGTTGCTGAC
1 TGGACCTTCTAGAAGTTGCTGAC
*
2217147 TGGACCTTCTAGAAGTTGTTGAC
1 TGGACCTTCTAGAAGTTGCTGAC
2217170 TGG
1 TGG
2217173 GTATCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (23 bp):
TGGACCTTCTAGAAGTTGCTGAC
Found at i:2218861 original size:54 final size:53
Alignment explanation
Indices: 2218803--2218959 Score: 185
Period size: 54 Copynumber: 2.9 Consensus size: 53
2218793 ATCATTCATA
* *
2218803 AACATATTATGAATTTCGTGTGTTGCACA-TATAGTGCCTAAATGGTTGTTTATC
1 AACATATGATGAATTTCGTG-GTTGCACACT-TAGTGCCTAAACGGTTGTTTATC
* * *
2218857 AACATATGATGAATTAT-GTGGGTTACACACTTAGTTCCTAAACGGTTGTTCATC
1 AACATATGATGAATT-TCGT-GGTTGCACACTTAGTGCCTAAACGGTTGTTTATC
* * *
2218911 AACATACGATGAATTCCG-GGTTGCACACTTAGTGCCTAAACAGTTGTTT
1 AACATATGATGAATTTCGTGGTTGCACACTTAGTGCCTAAACGGTTGTTT
2218960 TTTTCTCTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
52 27 0.31
54 58 0.66
55 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (53 bp):
AACATATGATGAATTTCGTGGTTGCACACTTAGTGCCTAAACGGTTGTTTATC
Found at i:2223635 original size:18 final size:18
Alignment explanation
Indices: 2223612--2223646 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2223602 TTCCATCCGG
*
2223612 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2223630 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2223647 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2224938 original size:10 final size:8
Alignment explanation
Indices: 2224915--2224961 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
2224905 TCAAAGTTTT
2224915 GGTCAACAG
1 GGTCAAC-G
2224924 TGGTCAACG
1 -GGTCAACG
2224933 ACGGTCAACG
1 --GGTCAACG
2224943 GGTCAAC-
1 GGTCAACG
2224950 GGTCAACG
1 GGTCAACG
2224958 GGTC
1 GGTC
2224962 GGGTCGAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 11 0.32
9 1 0.03
10 15 0.44
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:2224953 original size:15 final size:15
Alignment explanation
Indices: 2224933--2224961 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2224923 GTGGTCAACG
2224933 ACGGTCAACGGGTCA
1 ACGGTCAACGGGTCA
2224948 ACGGTCAACGGGTC
1 ACGGTCAACGGGTC
2224962 GGGTCGAGTA
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:0.28, G:0.34, T:0.14
Consensus pattern (15 bp):
ACGGTCAACGGGTCA
Found at i:2224977 original size:18 final size:18
Alignment explanation
Indices: 2224954--2225006 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
2224944 GTCAACGGTC
2224954 AACGGGTCGGGTCGAGTA
1 AACGGGTCGGGTCGAGTA
* *
2224972 AACGGGTCGGGTCGGGTC
1 AACGGGTCGGGTCGAGTA
2224990 AACGGGTCGGGTCGAGT
1 AACGGGTCGGGTCGAGT
2225007 TGTGACCGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.17, C:0.19, G:0.47, T:0.17
Consensus pattern (18 bp):
AACGGGTCGGGTCGAGTA
Found at i:2228782 original size:18 final size:18
Alignment explanation
Indices: 2228759--2228793 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2228749 TTCCATCCTG
*
2228759 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2228777 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2228794 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2230083 original size:10 final size:8
Alignment explanation
Indices: 2230060--2230106 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
2230050 TCAAAGTTTT
2230060 GGTCAACAG
1 GGTCAAC-G
2230069 TGGTCAACG
1 -GGTCAACG
2230078 ACGGTCAACG
1 --GGTCAACG
2230088 GGTCAAC-
1 GGTCAACG
2230095 GGTCAACG
1 GGTCAACG
2230103 GGTC
1 GGTC
2230107 GGGTCGAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 11 0.32
9 1 0.03
10 15 0.44
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:2230098 original size:15 final size:15
Alignment explanation
Indices: 2230078--2230106 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2230068 GTGGTCAACG
2230078 ACGGTCAACGGGTCA
1 ACGGTCAACGGGTCA
2230093 ACGGTCAACGGGTC
1 ACGGTCAACGGGTC
2230107 GGGTCGAGTA
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:0.28, G:0.34, T:0.14
Consensus pattern (15 bp):
ACGGTCAACGGGTCA
Found at i:2230122 original size:18 final size:18
Alignment explanation
Indices: 2230099--2230151 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
2230089 GTCAACGGTC
2230099 AACGGGTCGGGTCGAGTA
1 AACGGGTCGGGTCGAGTA
* *
2230117 AACGGGTCGGGTCGGGTC
1 AACGGGTCGGGTCGAGTA
*
2230135 AACGGGTCTGGTCGAGT
1 AACGGGTCGGGTCGAGT
2230152 TGTGACCGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.45, T:0.19
Consensus pattern (18 bp):
AACGGGTCGGGTCGAGTA
Found at i:2233850 original size:18 final size:18
Alignment explanation
Indices: 2233827--2233861 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2233817 TTCCATCCTG
*
2233827 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2233845 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2233862 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2235190 original size:18 final size:18
Alignment explanation
Indices: 2235167--2235219 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
2235157 GTCAACGGTC
*
2235167 AACGGGTTGGGTCGGGTA
1 AACGGGTCGGGTCGGGTA
*
2235185 AACGGGTCGGGTCGGGTC
1 AACGGGTCGGGTCGGGTA
2235203 AACGGGTCGGGTCGGGT
1 AACGGGTCGGGTCGGGT
2235220 TGTGACCGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.13, C:0.17, G:0.51, T:0.19
Consensus pattern (18 bp):
AACGGGTCGGGTCGGGTA
Found at i:2237424 original size:54 final size:54
Alignment explanation
Indices: 2237360--2237891 Score: 631
Period size: 54 Copynumber: 9.9 Consensus size: 54
2237350 GATATGATCA
* * * * * * *
2237360 TTCATAAACATATTATGAATTTTGTGGGTTGTACACATAGTACCTAAATGGTTA
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
* * * * * *
2237414 TTCATCAACATATGATGAATTCCATAGGTTGCACACTTAGTACCTAAATGGTTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
* * * *
2237468 TTCATCAACATATGATGAATTACGTGGGTTGCACACATAATGCCTAAATGCTTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
*
2237522 TTCATCAACATATGATGAA-TTCGATGGGTTGCACACTTAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAATTTCG-TGGGTTGCACACATAGTGCCTAAACGGTTG
* **
2237576 TTCATCAACATGTGATGAATTTCACGGGTTGCACACATAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
* * * * * * **
2237630 TACATCAATATATGATGAATTTCGTGGGATACACACTTAGTACCTAAACTATTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
* *
2237684 TTCATTAACATATGATGAA-TTCTGTGGGTTGCACACATAGTACCTAAACGGTTG
1 TTCATCAACATATGATGAATTTC-GTGGGTTGCACACATAGTGCCTAAACGGTTG
* *
2237738 TTCATCAACATATGATGAA-TTCTGTGGGTTGCAAACTTAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAATTTC-GTGGGTTGCACACATAGTGCCTAAACGGTTG
* * * *
2237792 TTCATCTACATATAATGAATTTCGTAGGTTTCACACATAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
* * * *
2237846 TTCATTAACATATAATGAA-TTCTGTGGGTTGCAAACTTAGTGCCTA
1 TTCATCAACATATGATGAATTTC-GTGGGTTGCACACATAGTGCCTA
2237892 TAGTACACAT
Statistics
Matches: 413, Mismatches: 60, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
53 9 0.02
54 398 0.96
55 6 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (54 bp):
TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
Found at i:2241777 original size:14 final size:13
Alignment explanation
Indices: 2241758--2241787 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
2241748 CAAGGAACAA
2241758 AAAAATTGAAAACT
1 AAAAATTGAAAA-T
2241772 AAAAATTGAAAAT
1 AAAAATTGAAAAT
2241785 AAA
1 AAA
2241788 TTAAAAAGAA
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:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (13 bp):
AAAAATTGAAAAT
Found at i:2255819 original size:22 final size:22
Alignment explanation
Indices: 2255758--2255813 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
2255748 CCGATTGGAT
2255758 CTTCTAGAAGCTCCTGACTGGC
1 CTTCTAGAAGCTCCTGACTGGC
2255780 CTTCTAGAAGCTCCTGACTGGC
1 CTTCTAGAAGCTCCTGACTGGC
2255802 CTTCTAGAAGCT
1 CTTCTAGAAGCT
2255814 GTTGACAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (22 bp):
CTTCTAGAAGCTCCTGACTGGC
Found at i:2257410 original size:23 final size:22
Alignment explanation
Indices: 2257380--2257425 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
2257370 AAAAGAAAAT
2257380 AAATTATT-ATTTAAAATATTTA
1 AAATTATTAATTTAAAAT-TTTA
2257402 AAATATATTAATTTAAAATTTTA
1 AAAT-TATTAATTTAAAATTTTA
2257425 A
1 A
2257426 GAGAGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.18
23 9 0.41
24 9 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATTATTAATTTAAAATTTTA
Found at i:2269361 original size:19 final size:18
Alignment explanation
Indices: 2269320--2269362 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
2269310 TTTCATTTAC
2269320 TATTTTTAATTTAATAAT
1 TATTTTTAATTTAATAAT
* *
2269338 AATTTATTAATTTAATATT
1 TATTT-TTAATTTAATAAT
2269357 TATTTT
1 TATTTT
2269363 ATATTATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTTAATTTAATAAT
Found at i:2269686 original size:23 final size:23
Alignment explanation
Indices: 2269636--2269710 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
2269626 TTCTATATAA
*
2269636 AAAATAACTTATTTTT-CAACTACA
1 AAAATAACTTATTTTTACAA-TA-T
2269660 AAAATAACTTATTTTTACAATAT
1 AAAATAACTTATTTTTACAATAT
* * *
2269683 AAAAGT-ATTTATTTTTATAATTT
1 AAAA-TAACTTATTTTTACAATAT
2269706 AAAAT
1 AAAAT
2269711 TAAAATATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 1 0.02
23 22 0.49
24 19 0.42
25 3 0.07
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (23 bp):
AAAATAACTTATTTTTACAATAT
Found at i:2269686 original size:24 final size:24
Alignment explanation
Indices: 2269630--2269709 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
2269620 TTTAAATTCT
2269630 ATATAAAAAATAACTTATTTTT-CA
1 ATAT-AAAAATAACTTATTTTTACA
*
2269654 ACTACAAAAATAACTTATTTTTACA
1 A-TATAAAAATAACTTATTTTTACA
* * *
2269679 ATATAAAAGT-ATTTATTTTTATA
1 ATATAAAAATAACTTATTTTTACA
*
2269702 ATTTAAAA
1 ATATAAAA
2269710 TTAAAATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
23 18 0.38
24 25 0.52
25 5 0.10
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (24 bp):
ATATAAAAATAACTTATTTTTACA
Found at i:2271680 original size:73 final size:74
Alignment explanation
Indices: 2271553--2271689 Score: 188
Period size: 73 Copynumber: 1.9 Consensus size: 74
2271543 GATTCAATCA
* * * *
2271553 GTATCGATACCATGATAAGGGGTATCGATACCTAGCAACATCAAATCTAATTTTGGTATCGATAT
1 GTATCAATACCATAATAAGGGGCATCGATACCTAGCAACATCAAACCTAATTTTGGTATCGATAT
2271618 TAGTATGGG
66 TAGTATGGG
* * *
2271627 GTATCAATACCATAATAA-GGGCATCGATA-CTAGGCAACATCGAACCTATTTTTGGTATTGATA
1 GTATCAATACCATAATAAGGGGCATCGATACCTA-GCAACATCAAACCTAATTTTGGTATCGATA
2271690 ACCGAAGTGG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
72 3 0.05
73 36 0.65
74 16 0.29
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (74 bp):
GTATCAATACCATAATAAGGGGCATCGATACCTAGCAACATCAAACCTAATTTTGGTATCGATAT
TAGTATGGG
Found at i:2272174 original size:59 final size:57
Alignment explanation
Indices: 2272091--2272243 Score: 155
Period size: 59 Copynumber: 2.6 Consensus size: 57
2272081 TGGAAAATAT
* * *
2272091 TAAGAAATTCATACTAAGTATATGAATTTTAGTATAGGGCA-CTTCGTGTGCTATCATGA
1 TAAGAAATTCATA-TAAGTGTATGAATTTTAGTATAGGGCACCTT-GTGTGCTA-AAGGA
* * * *
2272150 TAAGAAATTTATATTGAGTGTATGAATTTTCTGTATTGGGCACCTTGTGTGCTAAAGGA
1 TAAGAAATTCATA-TAAGTGTATGAATTTT-AGTATAGGGCACCTTGTGTGCTAAAGGA
* * *
2272209 TAAGAAATTCATACCATGTGTATGAATTTCAGTAT
1 TAAGAAATTCATA-TAAGTGTATGAATTTTAGTAT
2272244 GAGAAATATA
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
58 4 0.05
59 53 0.69
60 17 0.22
61 3 0.04
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (57 bp):
TAAGAAATTCATATAAGTGTATGAATTTTAGTATAGGGCACCTTGTGTGCTAAAGGA
Found at i:2272674 original size:68 final size:68
Alignment explanation
Indices: 2272565--2273209 Score: 977
Period size: 68 Copynumber: 9.5 Consensus size: 68
2272555 AAATATCAAA
* * *
2272565 AGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2272630 TTG
66 TTG
* * * *
2272633 AGGCCTAAATGTGTATATGACAGAAATATGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2272698 TTG
66 TTG
* *
2272701 AGGCCTAATTATGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2272766 TTG
66 TTG
* * *
2272769 AGGCCTAACTATACATATGACATAAAGGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2272834 TTG
66 TTG
* * *
2272837 AGGCCTAATTATGCATATGACATAAAGGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2272902 TTG
66 TTG
* * * *
2272905 AGGCCTAAATGTGTATATGACAGAAATGTGTCATTTATGTTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2272970 TTG
66 TTG
* *
2272973 AGACCTAATTATGCATATGACAGAAATGTGTCATTTATGAC-AGTTAGATGAAAGACTAAGTGTC
1 AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATG-CTAGTTAGATGAAAGACTAAGTGTC
2273037 TTTG
65 TTTG
* * * *
2273041 AGGCCTAACTATACATATGATAGAAATGTGTCATTAATGCCAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2273106 TTG
66 TTG
* * * *
2273109 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2273174 TTG
66 TTG
* * * *
2273177 ATGCCTAACTGTGCATAAGACAGAAAGGTGTCA
1 AGGCCTAACTATGCATATGACAGAAATGTGTCA
2273210 ATCATGTCAT
Statistics
Matches: 534, Mismatches: 41, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
67 1 0.00
68 533 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
TTG
Found at i:2273284 original size:81 final size:81
Alignment explanation
Indices: 2273195--2273633 Score: 569
Period size: 81 Copynumber: 5.4 Consensus size: 81
2273185 CTGTGCATAA
*
2273195 GACAGAAAGGTGTCAATCATGTCATTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATG
1 GACAGAAAGGTGTCAATCATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATG
2273260 GCCTAGTTGTGCAATT
66 GCCTAGTTGTGCAATT
* * * *
2273276 GACAGAAAGGTTTCAATCACGCCAGTTAGATGAATGGTTAAGTACCGTTGAGTAAAAGAAAAATG
1 GACAGAAAGGTGTCAATCATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATG
*
2273341 GCCTAGTTGTGTAATT
66 GCCTAGTTGTGCAATT
* * * *
2273357 GACAGAAAGGTTTCAATCATGTTAGTTAGATGAACGGATAAGTACCGTTGAGTAAAAGGAAAATG
1 GACAGAAAGGTGTCAATCATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATG
*
2273422 GCCTAGCTGTGCAATT
66 GCCTAGTTGTGCAATT
* * * *
2273438 GACAGAAAGCTGTCAATCATGCCAGTTACATGAACTGTTAAGTACCGTTGAGTAAAAGAAAAATG
1 GACAGAAAGGTGTCAATCATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATG
*
2273503 GCCTAGTTGTGTAATT
66 GCCTAGTTGTGCAATT
* * * * * * *
2273519 GACAGAAATGTGTAAATCAT-TCCAGTTAAATGAATGATTAAGTACCGTTGAGGAAGAGAAAAAT
1 GACAGAAAGGTGTCAATCATGT-CAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAAT
* ** *
2273583 GGACTAACTGTAC-ATT
65 GGCCTAGTTGTGCAATT
* * *
2273599 GGCAGAAAGGTGTCAATTATG-CTAGTTAGACGAAC
1 GACAGAAAGGTGTCAATCATGTC-AGTTAGATGAAC
2273634 ATTAAACAAT
Statistics
Matches: 309, Mismatches: 46, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
79 1 0.00
80 28 0.09
81 280 0.91
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (81 bp):
GACAGAAAGGTGTCAATCATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATG
GCCTAGTTGTGCAATT
Found at i:2273702 original size:2 final size:2
Alignment explanation
Indices: 2273695--2273727 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2273685 GAAGGGATGC
*
2273695 TA TA TA TA CA 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 T
2273728 GATACAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2276373 original size:23 final size:24
Alignment explanation
Indices: 2276327--2276373 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
2276317 ATATTTTTGT
*
2276327 GTGTTTTAGTGTATTTATAGGGTG
1 GTGTTTTAGTGTATTTATAAGGTG
2276351 GTGTTTT-GTGTATGTTA-AAGGTG
1 GTGTTTTAGTGTAT-TTATAAGGTG
2276374 CATGGTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (24 bp):
GTGTTTTAGTGTATTTATAAGGTG
Found at i:2281498 original size:19 final size:19
Alignment explanation
Indices: 2281474--2281510 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2281464 TAATTATTTG
2281474 ATTATTTGATTTTTCCTTA
1 ATTATTTGATTTTTCCTTA
2281493 ATTATTTGATTTTTCCTT
1 ATTATTTGATTTTTCCTT
2281511 TCGATTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.11, G:0.05, T:0.65
Consensus pattern (19 bp):
ATTATTTGATTTTTCCTTA
Found at i:2282099 original size:19 final size:19
Alignment explanation
Indices: 2282075--2282149 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 19
2282065 ATCTAATTTT
2282075 GGTATCGATACTAGTATGG
1 GGTATCGATACTAGTATGG
*
2282094 GGTATCGATACCATAGTAAGG
1 GGTATCGATA-C-TAGTATGG
* * *
2282115 TAGTATCGATACCA-TGATAAG
1 -GGTATCGATACTAGT-AT-GG
2282136 GGTATCGATACTAG
1 GGTATCGATACTAG
2282150 GCAACATCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
19 11 0.26
20 14 0.33
21 9 0.21
22 9 0.21
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (19 bp):
GGTATCGATACTAGTATGG
Found at i:2282142 original size:20 final size:20
Alignment explanation
Indices: 2282075--2282146 Score: 78
Period size: 22 Copynumber: 3.5 Consensus size: 20
2282065 ATCTAATTTT
*
2282075 GGTATCGATA-C-TAGTATGG
1 GGTATCGATACCATAGTA-AG
2282094 GGTATCGATACCATAGTAAG
1 GGTATCGATACCATAGTAAG
2282114 GTAGTATCGATACCAT-GATAAG
1 G--GTATCGATACCATAG-TAAG
2282136 GGTATCGATAC
1 GGTATCGATAC
2282147 TAGGCAACAT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
19 10 0.21
20 13 0.28
21 6 0.13
22 18 0.38
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCATAGTAAG
Found at i:2282191 original size:95 final size:95
Alignment explanation
Indices: 2282017--2282206 Score: 217
Period size: 95 Copynumber: 2.0 Consensus size: 95
2282007 GATACCTATG
*
2282017 AGGTAGTATCATACCAATATAAGGGATATAAATACCCAGCAACATCGAATCTAATTTTGGTATCG
1 AGGTAGTATCATACCAATATAAGGGATATAAATACCCAGCAACATCGAACCTAATTTTGGTATCG
* *
2282082 ATACTAGTATGGGGTATCGATACCATAGTA
66 ATACTAGAAGGGGGTATCGATACCATAGTA
** * *
2282112 AGGTAGTATCGATACC-ATGATAAGGG-TATCGATA-CTAGGCAACATCGAACCTATTTTTGGTA
1 AGGTAGTATC-ATACCAAT-ATAAGGGATATAAATACCCA-GCAACATCGAACCTAATTTTGGTA
* * * *
2282174 TTGATAAC-CGAAGGGGGTATCGTTACTATAGTA
63 TCGAT-ACTAGAAGGGGGTATCGATACCATAGTA
2282207 TAGAAATATC
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
94 2 0.03
95 64 0.80
96 14 0.17
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (95 bp):
AGGTAGTATCATACCAATATAAGGGATATAAATACCCAGCAACATCGAACCTAATTTTGGTATCG
ATACTAGAAGGGGGTATCGATACCATAGTA
Found at i:2282223 original size:95 final size:95
Alignment explanation
Indices: 2282055--2282243 Score: 206
Period size: 95 Copynumber: 2.0 Consensus size: 95
2282045 TAAATACCCA
* * * * *
2282055 GCAACATCGAATCTAATTTTGGTATCGATACTAGTATGGGGTATCGATACCATAGTAAGGTAGTA
1 GCAACATCGAACCTAATTTTGGTATCGATACTAGAAGGGGGTATCGATACCATAGTAAGGAAATA
* *
2282120 TCGATACCATGATAAG-GGTATCGATACTAG
66 TCGATACCATG-GAAGTAGTATCGATACTAG
* * * * *
2282150 GCAACATCGAACCTATTTTTGGTATTGATAAC-CGAAGGGGGTATCGTTACTATAGTATA-GAAA
1 GCAACATCGAACCTAATTTTGGTATCGAT-ACTAGAAGGGGGTATCGATACCATAGTA-AGGAAA
2282213 TATC-AGTACCATGGAAGTAGTATCGATACTA
64 TATCGA-TACCATGGAAGTAGTATCGATACTA
2282244 TGGAACAAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
94 4 0.05
95 71 0.91
96 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (95 bp):
GCAACATCGAACCTAATTTTGGTATCGATACTAGAAGGGGGTATCGATACCATAGTAAGGAAATA
TCGATACCATGGAAGTAGTATCGATACTAG
Found at i:2283256 original size:44 final size:46
Alignment explanation
Indices: 2283138--2283261 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 46
2283128 TAAAATCTCT
*
2283138 TACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACA
1 TACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACA
* * * *
2283183 TACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATACT
1 TACCATTT-AATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACA
* * *
2283230 TTCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 TACCATTTAATTCCATAAGCTCGTAAGCTTATTT
2283262 GCATGGTTAC
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
44 23 0.33
45 8 0.12
46 2 0.03
47 36 0.52
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.40
Consensus pattern (46 bp):
TACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACA
Found at i:2289532 original size:47 final size:45
Alignment explanation
Indices: 2289462--2289588 Score: 166
Period size: 47 Copynumber: 2.8 Consensus size: 45
2289452 TATAAAATCT
*
2289462 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
2289507 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
2289554 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
2289589 CATGGTTACC
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 24 0.33
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:2291200 original size:59 final size:58
Alignment explanation
Indices: 2291101--2291261 Score: 162
Period size: 59 Copynumber: 2.8 Consensus size: 58
2291091 AAATGGCACT
* * * * * *
2291101 TTGTGTGCAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTCAATACAGGCCA-C
1 TTGTGTGCTAAAGGATAAGAAATTCATAATAAGTGTATGAATTTCAATACAGGCAACC
* * * * ** *
2291158 TTCGTGTGCTAACGTGATAAGAATTTCATAATGAGTGTATGAATTTCTATATTGGGAACC
1 TT-GTGTGCTAAAG-GATAAGAAATTCATAATAAGTGTATGAATTTCAATACAGGCAACC
* *
2291218 TTTTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTT
1 TTGTGTGCTAAAGGATAAGAAATTCATAATAAGTGTATGAATTT
2291262 TAGTATGGGA
Statistics
Matches: 83, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
57 2 0.02
58 36 0.43
59 42 0.51
60 3 0.04
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (58 bp):
TTGTGTGCTAAAGGATAAGAAATTCATAATAAGTGTATGAATTTCAATACAGGCAACC
Found at i:2291673 original size:68 final size:68
Alignment explanation
Indices: 2291589--2291982 Score: 599
Period size: 68 Copynumber: 5.8 Consensus size: 68
2291579 AAACGATTAA
*
2291589 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTATC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
2291654 TTT
66 TTT
* *
2291657 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAACGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
2291722 TTT
66 TTT
* * * * *
2291725 GAAGACTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAATTAGATGAAATACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
*
2291790 TCT
66 TTT
* * * *
2291793 GAGGCATAACTGTGCATATGACAGAAAAGTGTGATTTATACCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
2291858 TTT
66 TTT
* * *
2291861 GAGGCCTAACTGTGCATATGACAGAAACGTGTCATTTATGCCAGTTAGATTAAAAACCTAAGTGT
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGA-CTAAGTGT
2291926 CTTT
65 CTTT
* * * *
2291930 GAGGCCTAACTATGCATATGACAGAAATGTGTCAATCATGCCAGTTAGATGAA
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
2291983 CGGTTATGTA
Statistics
Matches: 293, Mismatches: 32, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
68 233 0.80
69 60 0.20
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:2292083 original size:81 final size:81
Alignment explanation
Indices: 2291948--2292385 Score: 536
Period size: 81 Copynumber: 5.5 Consensus size: 81
2291938 ACTATGCATA
* *
2291948 TGACAGAAATGTGTCAATCATGCCAGTTAGATGAACGGTTATGTACCGTTGAGTAAAAGAAAAAT
1 TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAAT
* *
2292013 AGCTTAGCTGTGCAAT
66 GGCCTAGCTGTGCAAT
* * * *
2292029 TGACATAAAGGTGTCAATCATGTCAGTTAGATGAACAGTTAAGTACCGTTGAGTAAAATAAAAAT
1 TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAAT
* *
2292094 GGCCTAGTTGTGTAAT
66 GGCCTAGCTGTGCAAT
* * *
2292110 TGAC-GAAAGTTGTCAA-AATGCCAGTTAGATGAACGGTTAAGTACCATTGAGT--AA-AAAAAT
1 TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAAT
*
2292170 GGCCTCGCTGTGCAAT
66 GGCCTAGCTGTGCAAT
* **
2292186 TGACAGAAAGGTGTCAATCGTGCACA-TTAGATGAACAATTAAGTACCGTTGAGTAAAAGAAAAA
1 TGACAGAAAGGTGTCAATCATGC-CAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAA
* * *
2292250 TAGCCTAGTTGTGTAAT
65 TGGCCTAGCTGTGCAAT
* * *
2292267 TGACAGAAAGGTGTCAATCATGCCAGTTAAATGAGCGGTTAAGTACCGTTGAGTAAGAG-AAAAT
1 TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAAT
* * *
2292331 GGACTAACTGTGC-TT
66 GGCCTAGCTGTGCAAT
* * *
2292346 TGGCAGAAAGGTGTCAATTATG-CAGTTAGACGAAC-GTTAA
1 TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAA
2292386 ACAATGTTGA
Statistics
Matches: 304, Mismatches: 46, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
76 23 0.08
77 18 0.06
78 38 0.12
79 55 0.18
80 27 0.09
81 143 0.47
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (81 bp):
TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAAT
GGCCTAGCTGTGCAAT
Found at i:2292256 original size:157 final size:160
Alignment explanation
Indices: 2291948--2292380 Score: 572
Period size: 157 Copynumber: 2.7 Consensus size: 160
2291938 ACTATGCATA
* * *
2291948 TGACAGAAATGTGTCAATCATGCCAGTTAGATGAACGGTTATGTACCGTTGAGTAAAAGAAAAAT
1 TGACAGAAAGGTGTCAATAATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGT--AAGAAAAAT
* * * * *
2292013 AGCTTAGCTGTGCAATTGACATAAAGGTGTCAATCATGTCAGTTAGATGAACAGTTAAGTACCGT
64 GGCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGTCAATTAGATGAACAATTAAGTACCGT
* *
2292078 TGAGTAAAATAAAAATGGCCTAGTTGTGTAAT
129 TGAGTAAAAGAAAAATAGCCTAGTTGTGTAAT
* *
2292110 TGAC-GAAAGTTGTCAA-AATGCCAGTTAGATGAACGGTTAAGTACCATTGAGTAA-AAAAATGG
1 TGACAGAAAGGTGTCAATAATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAGAAAAATGG
* *
2292172 CCTCGCTGTGCAATTGACAGAAAGGTGTCAATCGTG-CACATTAGATGAACAATTAAGTACCGTT
66 CCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGTCA-ATTAGATGAACAATTAAGTACCGTT
2292236 GAGTAAAAGAAAAATAGCCTAGTTGTGTAAT
130 GAGTAAAAGAAAAATAGCCTAGTTGTGTAAT
* * *
2292267 TGACAGAAAGGTGTCAATCATGCCAGTTAAATGAGCGGTTAAGTACCGTTGAGTAAGAGAAAATG
1 TGACAGAAAGGTGTCAATAATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAGA-AAAATG
* * * * * * *
2292332 GACTAACTGTGC-TTTGGCAGAAAGGTGTCAATTATG-CAGTTAGACGAAC
65 GCCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGTCAATTAGATGAAC
2292381 GTTAAACAAT
Statistics
Matches: 238, Mismatches: 28, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
156 2 0.01
157 95 0.40
158 13 0.05
159 43 0.18
160 56 0.24
161 25 0.11
162 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (160 bp):
TGACAGAAAGGTGTCAATAATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAGAAAAATGG
CCTAGCTGTGCAATTGACAGAAAGGTGTCAATCATGTCAATTAGATGAACAATTAAGTACCGTTG
AGTAAAAGAAAAATAGCCTAGTTGTGTAAT
Found at i:2293544 original size:20 final size:20
Alignment explanation
Indices: 2293489--2293551 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
2293479 TGCAATTTTG
2293489 GTATCGATACTCATGG--GA
1 GTATCGATACTCATGGTAGA
* * *
2293507 GTATCGATACTGAGGGTAGC
1 GTATCGATACTCATGGTAGA
*
2293527 GTATCGATACTCTTGGTAGGA
1 GTATCGATACTCATGGTA-GA
2293548 GTAT
1 GTAT
2293552 AATTATTGGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
18 14 0.40
20 16 0.46
21 5 0.14
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.30
Consensus pattern (20 bp):
GTATCGATACTCATGGTAGA
Found at i:2294814 original size:11 final size:11
Alignment explanation
Indices: 2294786--2294832 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
2294776 CATATTGAAT
2294786 TTTCTTTTAAA
1 TTTCTTTTAAA
2294797 CTTTCTTTTAAA
1 -TTTCTTTTAAA
*
2294809 TTTCTTTTTAA
1 TTTCTTTTAAA
*
2294820 TCTTCTTTGAAA
1 T-TTCTTTTAAA
2294832 T
1 T
2294833 CTTTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 11 0.35
12 20 0.65
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.62
Consensus pattern (11 bp):
TTTCTTTTAAA
Found at i:2294825 original size:23 final size:23
Alignment explanation
Indices: 2294780--2294848 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
2294770 TTTTACCATA
* *
2294780 TTGAATTTTC-TTTTAAACTTTCT
1 TTGAAATTTCTTTTTAATC-TTCT
*
2294803 TTTAAATTTCTTTTTAATCTTCT
1 TTGAAATTTCTTTTTAATCTTCT
* *
2294826 TTGAAA--TCTTTTTATTTTTCT
1 TTGAAATTTCTTTTTAATCTTCT
2294847 TT
1 TT
2294849 CTTCTATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 15 0.38
23 17 0.44
24 7 0.18
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (23 bp):
TTGAAATTTCTTTTTAATCTTCT
Found at i:2298365 original size:18 final size:20
Alignment explanation
Indices: 2298324--2298366 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
2298314 CTTCTTTGAA
2298324 ATCT-TTTTATTTTTCTTTC
1 ATCTATTTTATTTTTCTTTC
*
2298343 TTCTATTTTA-TTTT-TTTC
1 ATCTATTTTATTTTTCTTTC
2298361 ATCTAT
1 ATCTAT
2298367 AAATCCCCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.43
19 7 0.33
20 5 0.24
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (20 bp):
ATCTATTTTATTTTTCTTTC
Found at i:2299431 original size:24 final size:23
Alignment explanation
Indices: 2299387--2299431 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
2299377 AAAATAATAT
* * *
2299387 TAAAAAAATATAATTCTTAAAGA
1 TAAAAAAAGATAAATCCTAAAGA
2299410 TAAAAATAAGATAAATCCTAAA
1 TAAAAA-AAGATAAATCCTAAA
2299432 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (23 bp):
TAAAAAAAGATAAATCCTAAAGA
Found at i:2299511 original size:23 final size:23
Alignment explanation
Indices: 2299484--2299527 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2299474 CTTATTAGAT
2299484 CTTCTAGAAGTTGCTGACTGGAC
1 CTTCTAGAAGTTGCTGACTGGAC
*
2299507 CTTCTAGAAGTTGTTGACTGG
1 CTTCTAGAAGTTGCTGACTGG
2299528 GTATCACATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.34
Consensus pattern (23 bp):
CTTCTAGAAGTTGCTGACTGGAC
Found at i:2301189 original size:54 final size:54
Alignment explanation
Indices: 2301130--2301685 Score: 639
Period size: 54 Copynumber: 10.3 Consensus size: 54
2301120 TTCATTGACA
* ** * * * *
2301130 TGCACACATAGTGCC-AATACGATCATTCATAAACATATTATGAATTCCGTGAGT
1 TGCACACATAGTGCCTAA-ACGGTTGTTCATCAACATATGATGAATTCCATGGGT
* * * * ***
2301184 TGCACATATAGTGCCTAAATGGTTGTTTATCAATATATGATGAATTATGTGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
* * ***
2301238 TGCACACTTAGTGCCTAAACAGTTGTTCATCAACATATGATGAATTTTGTGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
* * * * * *
2301292 TGCACACATAGTTCCTAAATGCTTGTTCATCAATATATTATGAATTCCGTGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
** *
2301346 TGCACATTTAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCTATGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
* * * * *
2301400 TACACACATAGTTCCTAAATGGTTGTTCATCAAAATATTATGAATTCCATGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
* * * **
2301454 TGCACACTTAGTGCCTAAACGGTTGTTCATCAGCATATGATTAATTCTGTGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
* *
2301508 TGCACACATAATGCCTAAACGGTTGTTCATTAACATATGATG-ATTCCATGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
* * * **
2301561 TGCACACTTATTGTCTAAACAATTGTTCATCAACATATGATGAATTCCATGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
* * *
2301615 TGCACACATAGTGCCTAAATGGTTGTTCATCAACATATTATGAATTTCATGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
* *
2301669 TGCAAACTTAGTGCCTA
1 TGCACACATAGTGCCTA
2301686 TAGTACACAT
Statistics
Matches: 422, Mismatches: 78, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
53 45 0.11
54 375 0.89
55 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGGGT
Found at i:2301324 original size:108 final size:108
Alignment explanation
Indices: 2301155--2301685 Score: 731
Period size: 108 Copynumber: 4.9 Consensus size: 108
2301145 AATACGATCA
* * * * * * *
2301155 TTCATAAACATATTATGAATTCCGTGAGTTGCACATATAGTGCCTAAATGGTTGTTTATCAATAT
1 TTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCCTAAATGGTTGTTCATCAACAT
* ***
2301220 ATGATGAATTATGTGGGTTGCACACTTAGTGCCTAAACAGTTG
66 ATTATGAATTCCATGGGTTGCACACTTAGTGCCTAAACAGTTG
* * * *
2301263 TTCATCAACATATGATGAATTTTGTGGGTTGCACACATAGTTCCTAAATGCTTGTTCATCAATAT
1 TTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCCTAAATGGTTGTTCATCAACAT
* * *
2301328 ATTATGAATTCCGTGGGTTGCACATTTAGTGCCTAAACGGTTG
66 ATTATGAATTCCATGGGTTGCACACTTAGTGCCTAAACAGTTG
* * * *
2301371 TTCATCAACATATGATGAATTCTATGGGTTACACACATAGTTCCTAAATGGTTGTTCATCAAAAT
1 TTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCCTAAATGGTTGTTCATCAACAT
*
2301436 ATTATGAATTCCATGGGTTGCACACTTAGTGCCTAAACGGTTG
66 ATTATGAATTCCATGGGTTGCACACTTAGTGCCTAAACAGTTG
* * * * *
2301479 TTCATCAGCATATGATTAATTCTGTGGGTTGCACACATAATGCCTAAACGGTTGTTCATTAACAT
1 TTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCCTAAATGGTTGTTCATCAACAT
* * * *
2301544 ATGATG-ATTCCATGGGTTGCACACTTATTGTCTAAACAATTG
66 ATTATGAATTCCATGGGTTGCACACTTAGTGCCTAAACAGTTG
**
2301586 TTCATCAACATATGATGAATTCCATGGGTTGCACACATAGTGCCTAAATGGTTGTTCATCAACAT
1 TTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCCTAAATGGTTGTTCATCAACAT
* *
2301651 ATTATGAATTTCATGGGTTGCAAACTTAGTGCCTA
66 ATTATGAATTCCATGGGTTGCACACTTAGTGCCTA
2301686 TAGTACACAT
Statistics
Matches: 375, Mismatches: 47, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
107 95 0.25
108 280 0.75
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (108 bp):
TTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCCTAAATGGTTGTTCATCAACAT
ATTATGAATTCCATGGGTTGCACACTTAGTGCCTAAACAGTTG
Found at i:2307208 original size:54 final size:54
Alignment explanation
Indices: 2307150--2307681 Score: 737
Period size: 54 Copynumber: 9.9 Consensus size: 54
2307140 AATATGATCA
* * * * * *
2307150 TTCATAAACATATTATGAATTTCGTGGGTTGTACACATAGTACCTAAATGGCTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
* * * *
2307204 TTCATCAACATATGATGAATTCCATGGGTTGCACACTTAGTACCTAAACGGTTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
* * * *
2307258 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAATGCCTAAATGCTTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
*
2307312 TTCATCAACATATGATGAA-TTCGGTGGGTTGCACACTTAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAATTTC-GTGGGTTGCACACATAGTGCCTAAACGGTTG
*
2307366 TTCATCAACATGTGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
* * * *
2307420 TACATCAATATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTAAACTGTTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
*
2307474 TTCATTAACATATGATGAA-TTCTGTGGGTTGCACACATAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAATTTC-GTGGGTTGCACACATAGTGCCTAAACGGTTG
* * *
2307528 TTCATCAACATATGATGAA-TTCTATGGGTTGCAAACTTAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAATTTC-GTGGGTTGCACACATAGTGCCTAAACGGTTG
* *
2307582 TTCATCTACATATAATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
* * * * *
2307636 TTCATCAACATATAATGAATTCCATGGGTTGCAAACTTAGTGCCTA
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTA
2307682 TAGTACACAT
Statistics
Matches: 429, Mismatches: 45, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.01
54 418 0.97
55 6 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (54 bp):
TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTG
Found at i:2307314 original size:108 final size:108
Alignment explanation
Indices: 2307150--2307681 Score: 814
Period size: 108 Copynumber: 4.9 Consensus size: 108
2307140 AATATGATCA
* * * * * *
2307150 TTCATAAACATATTATGAATTTCGTGGGTTGTACACATAGTACCTAAATGGCTGTTCATCAACAT
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACAT
*
2307215 ATGATGAATTCCATGGGTTGCACACTTAGTACCTAAACGGTTG
66 ATGATGAATTCCATGGGTTGCACACTTAGTGCCTAAACGGTTG
* * * *
2307258 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAATGCCTAAATGCTTGTTCATCAACAT
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACAT
**
2307323 ATGATGAATTCGGTGGGTTGCACACTTAGTGCCTAAACGGTTG
66 ATGATGAATTCCATGGGTTGCACACTTAGTGCCTAAACGGTTG
* * *
2307366 TTCATCAACATGTGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTACATCAATAT
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACAT
* * *
2307431 ATGATGAATTTCGTGGGTTGCACACTTAGTGCCTAAACTGTTG
66 ATGATGAATTCCATGGGTTGCACACTTAGTGCCTAAACGGTTG
*
2307474 TTCATTAACATATGATGAA-TTCTGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACA
1 TTCATCAACATATGATGAATTTC-GTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACA
* *
2307538 TATGATGAATTCTATGGGTTGCAAACTTAGTGCCTAAACGGTTG
65 TATGATGAATTCCATGGGTTGCACACTTAGTGCCTAAACGGTTG
* *
2307582 TTCATCTACATATAATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACAT
1 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACAT
* *
2307647 ATAATGAATTCCATGGGTTGCAAACTTAGTGCCTA
66 ATGATGAATTCCATGGGTTGCACACTTAGTGCCTA
2307682 TAGTACACAT
Statistics
Matches: 387, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
107 3 0.01
108 381 0.98
109 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (108 bp):
TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACAT
ATGATGAATTCCATGGGTTGCACACTTAGTGCCTAAACGGTTG
Found at i:2312131 original size:14 final size:13
Alignment explanation
Indices: 2312112--2312141 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
2312102 AAGGAACAAA
2312112 AAAAATTGAAAACT
1 AAAAATTGAAAA-T
2312126 AAAAATTGAAAAT
1 AAAAATTGAAAAT
2312139 AAA
1 AAA
2312142 TTAAAAAGAA
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:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (13 bp):
AAAAATTGAAAAT
Found at i:2349685 original size:17 final size:17
Alignment explanation
Indices: 2349648--2349686 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2349638 ATTATATATT
*
2349648 TTTTTTCTTTTCTTTTC
1 TTTTTTCTTTTCTTTTA
2349665 TTTTTTCTTTT-TTCTTA
1 TTTTTTCTTTTCTT-TTA
2349682 TTTTT
1 TTTTT
2349687 GTTATATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTCTTTTCTTTTA
Found at i:2365951 original size:102 final size:100
Alignment explanation
Indices: 2365822--2366008 Score: 275
Period size: 102 Copynumber: 1.9 Consensus size: 100
2365812 ATAAAATTAA
* * * *
2365822 ATAAAATAAAAAATAGTAGCCAAATCAGAAATAAAAAGTGACCAAAATGCATACAATAGAAGAAC
1 ATAAAATAAAAAACACTAGCCAAATCAGAAATAAAAAGTAACCAAAATGCATAAAATA-AAGAAC
2365887 AATACCCAAATCAGAAATAAACATTGACTAAAATGC
65 AATACCCAAATCAGAAATAAACATTGACTAAAATGC
* * *
2365923 ATAAAATAAAAGAACACTAGCTAAATCAGAAATAAACAGTAACTAAAATGCATAAAATAAAGAAC
1 ATAAAATAAAA-AACACTAGCCAAATCAGAAATAAAAAGTAACCAAAATGCATAAAATAAAGAAC
* *
2365988 AATAGCTAAATCAGAAATAAA
65 AATACCCAAATCAGAAATAAA
2366009 AAATGAATAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
101 36 0.47
102 40 0.53
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.17
Consensus pattern (100 bp):
ATAAAATAAAAAACACTAGCCAAATCAGAAATAAAAAGTAACCAAAATGCATAAAATAAAGAACA
ATACCCAAATCAGAAATAAACATTGACTAAAATGC
Found at i:2365960 original size:22 final size:22
Alignment explanation
Indices: 2365935--2366008 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
2365925 AAAATAAAAG
*
2365935 AACACTAGCTAAATCAGAAATA
1 AACAATAGCTAAATCAGAAATA
* * *
2365957 AACAGTAACTAAAATGCATAAAATAAA
1 AACAATAGCT-AAAT-CA-GAAAT--A
2365984 GAACAATAGCTAAATCAGAAATA
1 -AACAATAGCTAAATCAGAAATA
2366007 AA
1 AA
2366009 AAATGAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
22 10 0.25
23 5 0.12
24 2 0.05
25 8 0.20
26 2 0.05
27 5 0.12
28 8 0.20
ACGTcount: A:0.59, C:0.14, G:0.09, T:0.18
Consensus pattern (22 bp):
AACAATAGCTAAATCAGAAATA
Found at i:2365996 original size:28 final size:28
Alignment explanation
Indices: 2365914--2365997 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 28
2365904 TAAACATTGA
*
2365914 CTAAAATGCATAAAATAAAAGAACACTAG
1 CTAAAATGCATAAAAT-AAAGAACAATAG
* * *
2365943 CT-AAAT-CA-GAAAT--A-AACAGTAA
1 CTAAAATGCATAAAATAAAGAACAATAG
2365965 CTAAAATGCATAAAATAAAGAACAATAG
1 CTAAAATGCATAAAATAAAGAACAATAG
2365993 CTAAA
1 CTAAA
2365998 TCAGAAATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
22 8 0.19
23 5 0.12
24 2 0.05
25 4 0.09
26 4 0.09
27 3 0.07
28 15 0.35
29 2 0.05
ACGTcount: A:0.60, C:0.13, G:0.10, T:0.18
Consensus pattern (28 bp):
CTAAAATGCATAAAATAAAGAACAATAG
Found at i:2366005 original size:25 final size:25
Alignment explanation
Indices: 2365926--2366008 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
2365916 AAAATGCATA
*
2365926 AAATAAAAGAACACTAGCTAAATCAG
1 AAAT-AAAGAACAATAGCTAAATCAG
* * *
2365952 AAAT--A-AACAGTAACTAAAATGCATA
1 AAATAAAGAACAATAGCT-AAAT-CA-G
2365977 AAATAAAGAACAATAGCTAAATCAG
1 AAATAAAGAACAATAGCTAAATCAG
2366002 AAATAAA
1 AAATAAA
2366009 AAATGAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
22 8 0.18
23 5 0.11
24 2 0.04
25 11 0.24
26 6 0.13
27 5 0.11
28 8 0.18
ACGTcount: A:0.61, C:0.12, G:0.10, T:0.17
Consensus pattern (25 bp):
AAATAAAGAACAATAGCTAAATCAG
Found at i:2366006 original size:50 final size:50
Alignment explanation
Indices: 2365822--2366008 Score: 248
Period size: 51 Copynumber: 3.7 Consensus size: 50
2365812 ATAAAATTAA
* * * * *
2365822 ATAAAATAAAAAATAGTAGCCAAATCAGAAATAAAAAGTGACCAAAATGC
1 ATAAAATAAAGAACAATAGCCAAATCAGAAATAAACAGTGACTAAAATGC
* * *
2365872 ATACAATAGAAGAACAATACCCAAATCAGAAATAAACATTGACTAAAATGC
1 ATAAAATA-AAGAACAATAGCCAAATCAGAAATAAACAGTGACTAAAATGC
* * *
2365923 ATAAAATAAAAGAACACTAGCTAAATCAGAAATAAACAGTAACTAAAATGC
1 ATAAAAT-AAAGAACAATAGCCAAATCAGAAATAAACAGTGACTAAAATGC
*
2365974 ATAAAATAAAGAACAATAGCTAAATCAGAAATAAA
1 ATAAAATAAAGAACAATAGCCAAATCAGAAATAAA
2366009 AAATGAATAA
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
50 34 0.28
51 85 0.71
52 1 0.01
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.17
Consensus pattern (50 bp):
ATAAAATAAAGAACAATAGCCAAATCAGAAATAAACAGTGACTAAAATGC
Found at i:2366486 original size:16 final size:16
Alignment explanation
Indices: 2366462--2366495 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2366452 ACATATACCC
*
2366462 CTTTCTTTTCTTTTTT
1 CTTTCTTTTCATTTTT
*
2366478 CTTTTTTTTCATTTTT
1 CTTTCTTTTCATTTTT
2366494 CT
1 CT
2366496 CTTCACTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
CTTTCTTTTCATTTTT
Found at i:2367128 original size:26 final size:26
Alignment explanation
Indices: 2367074--2367129 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
2367064 CTATTACAAC
* *
2367074 CATTTTTTTCCTTTTTCTTCAAATTA
1 CATTTTTTTCCTTCTTCTTCAAATGA
2367100 CATTTTTTTCCTCTCTT-TT-AAAGTGA
1 CATTTTTTTCCT-TCTTCTTCAAA-TGA
2367126 CATT
1 CATT
2367130 GCTCTGGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 3 0.12
26 20 0.77
27 3 0.12
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.57
Consensus pattern (26 bp):
CATTTTTTTCCTTCTTCTTCAAATGA
Found at i:2370323 original size:226 final size:223
Alignment explanation
Indices: 2370091--2370797 Score: 815
Period size: 226 Copynumber: 3.0 Consensus size: 223
2370081 ACCTTACACA
2370091 AAAGTATCAACACTTCGGTGAGGGTAATGGTATCGATTAAATATAAATAACATAACAGGTTGAAA
1 AAAGTATCAACACTTCGGTGAGGGTAATGGTATCGATTAAATATAAATAACATAACAGGTTGAAA
* * * *
2370156 ATTGACAAAACTGATTTCAATAATAATGCCTATAGAGTATCGATACCTCAGACACATGTATCAAT
66 ATTGACAAAACTGGTTTCAATAATAA-GCCTATAAAGTATTGATACCTCAGACACATGTATCGAT
* *
2370221 ACATGATAATATAACAGGTTGAAAATTGAGAAAACTAGTTTCAATATGACAAAACCGGTAAAGAG
130 ACATGATAATATAACAGGTTGAAAATTGAAAAAAC-AGTTTCAATATGACAAAATCGGTAAAGAG
*
2370286 CTATCAGTTTACACAAAAATGAAATGTCTCG
194 CTA-CAGTTTACACAAAAATGAAACGTCTCG
*
2370317 AAAGTATCAACACTTCGGTAAGGGTAATGGTATCGATTAAATATAAATAACATAACAGGTTGAAA
1 AAAGTATCAACACTTCGGTGAGGGTAATGGTATCGATTAAATATAAATAACATAACAGGTTGAAA
* * *
2370382 ATTGGCAAAACCGGTTTCAATAATAGAGCCTATAAAGTATTGATACATCAGACACATGTATCGAT
66 ATTGACAAAACTGGTTTCAATAATA-AGCCTATAAAGTATTGATACCTCAGACACATGTATCGAT
* * * *
2370447 ACATGATAATATAACAAGTTAAAAATTGACAAAAACAATTTCAATATGACAAAATAGGTAAAGAG
130 ACATGATAATATAACAGGTTGAAAATTGA-AAAAACAGTTTCAATATGACAAAATCGGTAAAGAG
* * *
2370512 CTACCGATTTAGACAAAAATGAAACATCTCG
194 CTACAG-TTTACACAAAAATGAAACGTCTCG
** *
2370543 AAAGTATCGATATCTTACACAAAAGTATCAACACTTCGATATGGGTAATGGTATCTATTAAATAT
1 AAAGTATC---A----ACAC-----T-T---C-GGT-G--A-GGGTAATGGTATCGATTAAATAT
* *
2370608 AAATAACATAACAAGTTGAAAATTGACAGAA-TCGGTTTCAATAAT-AGCACCTATAAAGTATTG
45 AAATAACATAACAGGTTGAAAATTGACAAAACT-GGTTTCAATAATAAG--CCTATAAAGTATTG
* * * * * *
2370671 ATAGCTCAGACACATGTATCGATACATAACAATATAACAGGTTGAAAATTGACAAAACCGGTTTA
107 ATACCTCAGACACATGTATCGATACATGATAATATAACAGGTTGAAAATTGA-AAAAACAGTTTC
* * * *
2370736 AATATGACAAAATCGATAAAGCGCTACTAGTTTACACAAAAACGAAACGTCTCA
171 AATATGACAAAATCGGTAAAGAGCTAC-AGTTTACACAAAAATGAAACGTCTCG
2370790 AAAGTATC
1 AAAGTATC
2370798 GATACCTTAC
Statistics
Matches: 409, Mismatches: 44, Indels: 35
0.84 0.09 0.07
Matches are distributed among these distances:
225 2 0.00
226 205 0.50
227 6 0.01
229 1 0.00
233 4 0.01
238 1 0.00
239 1 0.00
242 1 0.00
243 1 0.00
245 2 0.00
246 1 0.00
247 183 0.45
248 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (223 bp):
AAAGTATCAACACTTCGGTGAGGGTAATGGTATCGATTAAATATAAATAACATAACAGGTTGAAA
ATTGACAAAACTGGTTTCAATAATAAGCCTATAAAGTATTGATACCTCAGACACATGTATCGATA
CATGATAATATAACAGGTTGAAAATTGAAAAAACAGTTTCAATATGACAAAATCGGTAAAGAGCT
ACAGTTTACACAAAAATGAAACGTCTCG
Found at i:2370628 original size:247 final size:247
Alignment explanation
Indices: 2370317--2370819 Score: 742
Period size: 247 Copynumber: 2.0 Consensus size: 247
2370307 AAATGTCTCG
* *
2370317 AAAGTATCAACACTTCGGTAAGGGTAATGGTATCGATTAAATATAAATAACATAACAGGTTGAAA
1 AAAGTATCAACACTTCGATAAGGGTAATGGTATCGATTAAATATAAATAACATAACAAGTTGAAA
*
2370382 ATTGGCAAAACCGGTTTCAATAATAG-AGCCTATAAAGTATTGATA-CATCAGACACATGTATCG
66 ATTGACAAAACCGGTTTCAATAATAGCA-CCTATAAAGTATTGATAGC-TCAGACACATGTATCG
* * * *
2370445 ATACATGATAATATAACAAGTTAAAAATTGACAAAAACAATTTCAATATGACAAAATAGGTAAAG
129 ATACATAACAATATAACAAGTTAAAAATTGACAAAAACAATTTAAATATGACAAAATAGATAAAG
* * * *
2370510 AGCTACCGA-TTTAGACAAAAATGAAACATCTCGAAAGTATCGATATCTTACACA
194 AGCTA-CGAGTTTACACAAAAACGAAACATCTCAAAAGTATCGATACCTTACACA
* *
2370564 AAAGTATCAACACTTCGATATGGGTAATGGTATCTATTAAATATAAATAACATAACAAGTTGAAA
1 AAAGTATCAACACTTCGATAAGGGTAATGGTATCGATTAAATATAAATAACATAACAAGTTGAAA
* *
2370629 ATTGACAGAATCGGTTTCAATAATAGCACCTATAAAGTATTGATAGCTCAGACACATGTATCGAT
66 ATTGACAAAACCGGTTTCAATAATAGCACCTATAAAGTATTGATAGCTCAGACACATGTATCGAT
* * * ** * *
2370694 ACATAACAATATAACAGGTTGAAAATTGACAAAACCGGTTTAAATATGACAAAATCGATAAAGCG
131 ACATAACAATATAACAAGTTAAAAATTGACAAAAACAATTTAAATATGACAAAATAGATAAAGAG
* *
2370759 CTACTAGTTTACACAAAAACGAAACGTCTCAAAAGTATCGATACCTTACACA
196 CTACGAGTTTACACAAAAACGAAACATCTCAAAAGTATCGATACCTTACACA
2370811 AAAGTATCA
1 AAAGTATCA
2370820 GCGTTTTGGT
Statistics
Matches: 229, Mismatches: 24, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
246 2 0.01
247 225 0.98
248 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (247 bp):
AAAGTATCAACACTTCGATAAGGGTAATGGTATCGATTAAATATAAATAACATAACAAGTTGAAA
ATTGACAAAACCGGTTTCAATAATAGCACCTATAAAGTATTGATAGCTCAGACACATGTATCGAT
ACATAACAATATAACAAGTTAAAAATTGACAAAAACAATTTAAATATGACAAAATAGATAAAGAG
CTACGAGTTTACACAAAAACGAAACATCTCAAAAGTATCGATACCTTACACA
Found at i:2372700 original size:2 final size:2
Alignment explanation
Indices: 2372695--2372727 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2372685 ACACAAAATG
2372695 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 T
2372728 TCCAAACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2373154 original size:278 final size:273
Alignment explanation
Indices: 2372655--2373183 Score: 740
Period size: 278 Copynumber: 1.9 Consensus size: 273
2372645 CTCGATACTT
* * * *
2372655 TAATTCAACATAAAGGCTCAAACGATCTACACACAAAATGTATATATATATATATATATATATAT
1 TAATTCAACATAAAGGCTCAAACAATCTACACACAAAATGTATATATACATACATACATATATAT
** *
2372720 ATATATATTCCAAACTTATAATTTGGAAACTATTACTTTAAAGTAATAAGTTAATTTCCAATGAA
66 ATATATATTCCAAACTTATAATTTCAAAACTATTACTTTAAAGTAATAAGTTAATTTCCAATAAA
* * * * *
2372785 AATGGTTAAAGTCAATCGATATCATGATAATATGCTTAAAATATGTACATGGTAATATGTTGATA
131 AATGATTAAAGTCAATAGATATCATGATAATATGCTTAAAATATATACACGATAATATGTTGATA
* * * *
2372850 AAGCTTTATAACAAATCAAGTAATTAACCGGTGATTTTATCGTCAGATTTCTAAGGTTTCATAAG
196 AAGCTTCATAACAAATCAAGTAATTAACCGGTGATGTTATCATCAAATTTCTAAGGTTTCATAAG
2372915 CTTGAACTTTGGA
261 CTTGAACTTTGGA
* *
2372928 TAATTCCACATAAAGGCTCAAACAATCTACACACAAGATGTATCAATACATACATACATACATAT
1 TAATTCAACATAAAGGCTCAAACAATCTACACACAAAATGTAT--AT--ATACATACATACATAT
* *
2372993 ATATATATATATTCCATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTTAATTTCCA
62 ATATATATATATTCCAAACTTATAATTTCAAAA-CTATTACTTTAAAGTAATAAGTTAATTTCCA
*
2373058 ATAAAAATTATTAAAGTCAATTAG-TATCATGATAATATG-TGTAAACA-ATATACACGATAATA
126 ATAAAAATGATTAAAGTCAA-TAGATATCATGATAATATGCT-TAAA-ATATATACACGATAATA
* * * *
2373120 TTTTGGTAAAGCTTCATAACAAATCAAGTAATTAATCGGTTATGTTATCATCAAATTTCTAAGG
188 TGTTGATAAAGCTTCATAACAAATCAAGTAATTAACCGGTGATGTTATCATCAAATTTCTAAGG
2373184 CTCCAACAGC
Statistics
Matches: 223, Mismatches: 25, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
273 40 0.18
275 2 0.01
277 44 0.20
278 134 0.60
279 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (273 bp):
TAATTCAACATAAAGGCTCAAACAATCTACACACAAAATGTATATATACATACATACATATATAT
ATATATATTCCAAACTTATAATTTCAAAACTATTACTTTAAAGTAATAAGTTAATTTCCAATAAA
AATGATTAAAGTCAATAGATATCATGATAATATGCTTAAAATATATACACGATAATATGTTGATA
AAGCTTCATAACAAATCAAGTAATTAACCGGTGATGTTATCATCAAATTTCTAAGGTTTCATAAG
CTTGAACTTTGGA
Found at i:2373562 original size:226 final size:226
Alignment explanation
Indices: 2373130--2374772 Score: 2257
Period size: 226 Copynumber: 7.3 Consensus size: 226
2373120 TTTTGGTAAA
* * * * *
2373130 GCTTCATAACAAATCAAGTAATTAATCGGTTATGTTATCATCAAATTTCTAAGGCTCCAACAGCT
1 GCTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
*** * *
2373195 TAAACTTTGGTAACATTTTAAATGTTACCTGATATGTTGATAATACTGATAACAAATTAAATAAA
66 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGT-AA
* * * * * * *
2373260 TT-ACCTATTTTGTTATCGTCTGACTTCTAAGGCCCCATCAGATTTAAGAAGATACTACCAATTA
130 TTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGGTGCTACCTATTA
2373324 CGTTACATAAGCGCTACCTAATATGTTATTAT
195 CGTTACATAAGCGCTACCTAATATGTTATTAT
* * * *
2373356 GCTTGATAACAAATCAAGTAATTAAGCGGTTATGTTCTCGTCGGATATCTAAGGCTCCATCAGCT
1 GCTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
* * *
2373421 TAAACTTAGGTAGCATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAATAAT
66 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
* * *
2373486 TAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGCTTCAAAAAGGCGCTACCTATTAC
131 TAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGGTGCTACCTATTAC
* * *
2373551 ATTAAATAAGCGCTAGCTAATATGTTATTAT
196 GTTACATAAGCGCTACCTAATATGTTATTAT
* * *
2373582 GCTTGATAACAAATCAAGTAATTAACCAGTTATGTTATCGTCGGATTTCTAAGGCTTCATCAGCT
1 GCTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
* * *
2373647 TAAACTTTGGTAATATTTTAGGCGTTACCTAATATATTGATAATACTGATTACAAATTAAGTAAT
66 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
* ** * **
2373712 TAACCTGTTTTGTTATCGTCAGATTTCTAAAACCCCATCAGCTTGAAAAATATGCTACCTATTAC
131 TAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGGTGCTACCTATTAC
* * *
2373777 GTTACTTAAGTGCTACCTAATATGCTATTAT
196 GTTACATAAGCGCTACCTAATATGTTATTAT
**** * * * *
2373808 GCTTGATAATGTTTCCAGTATTTAACCAGTTATGTTCTCGTCAGATTTCTAAGGCTCCATCAGCT
1 GCTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
* *
2373873 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTAATAATACTTATAACAAATTAAGTAAT
66 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
* * *
2373938 TAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATAAGCTTTAAAAAGGCGCTACATATTAC
131 TAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGGTGCTACCTATTAC
*
2374003 GTTACATAAACGCTACCTAATATGTTATTAT
196 GTTACATAAGCGCTACCTAATATGTTATTAT
* **** * * * * * *
2374034 TCTTGATAATGTTTCCAGTAATTAACCAGTTATGTTATCATCAGATTTCTAAGGGTCCATAAACT
1 GCTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
* *
2374099 TAAAC-TTGGTAACATTTTAGGCGTTACCTGATATGTTGATAATATTGATAACAAATTAAGTAAT
66 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
* * * * *
2374163 TAACCTATTTTGTTATCGTCGGATTTGTAAGGCCCCGTCAGCTTTAAAAAGATGCTACCTACTAC
131 TAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGGTGCTACCTATTAC
*
2374228 GTTACATAAGCGCTACCTAATATGTTAATAT
196 GTTACATAAGCGCTACCTAATATGTTATTAT
** * * *
2374259 GCTTGATAACAAATCAA-TAAATTAAGTGGTTATGTTCTCATCGGATTTCTAAGGCTCCATCAGC
1 GCTTGATAACAAATCAAGT-AATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGC
* * * *
2374323 TTAAACTTTGGTACCATTTTAAGCGTTACCTTATATGTTGATAATACTGATTACAAATTAAGTAA
65 TTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAA
* * *
2374388 TTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCTTCAGCTTTAAAAAGGTGGTACATATTA
130 TTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGGTGCTACCTATTA
* *
2374453 CGTTACTTAAGCGTTACCTAATATGTTATTAT
195 CGTTACATAAGCGCTACCTAATATGTTATTAT
* * *
2374485 GCTTGATAACAAATCAAGTAATTAATCGGTTATGTTATCGTCAGATTTTTAAGGCTCCATCAGTT
1 GCTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
2374550 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
66 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
* * * *
2374615 TAACCTATTTTGTTATCGTCGGATTTCTAAGGCCACATCAACTTTAAAAATGTGCTACCTATTAC
131 TAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGGTGCTACCTATTAC
*
2374680 GTTACATAAGTGCTACCTAATATGTTATTAT
196 GTTACATAAGCGCTACCTAATATGTTATTAT
**** * * * * * *
2374711 GCTTGATAATGTTTCTAGTATTTAACCGGTTTTGTTATTGTCGGATTTCTAAGGCCCCATCA
1 GCTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCA
2374773 ACTTTAAAAA
Statistics
Matches: 1252, Mismatches: 161, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
224 1 0.00
225 199 0.16
226 1051 0.84
227 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (226 bp):
GCTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
TAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAAAAGGTGCTACCTATTAC
GTTACATAAGCGCTACCTAATATGTTATTAT
Found at i:2374790 original size:118 final size:118
Alignment explanation
Indices: 2374609--2374888 Score: 391
Period size: 118 Copynumber: 2.4 Consensus size: 118
2374599 TAACAAATTA
* * * * *
2374609 AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCACATCAACTTTAAAAATGTGCTACC
1 AGTAATTAACCAATTTTGTTATTGTCGGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACC
*** *
2374674 TATTACGTTACATAAGTGCTACCTAATATGTTATTATGCTTGATAATGTTTCT
66 TATTACGTTACATAAACACTACCTAATATGTTACTATGCTTGATAATGTTTCT
* **
2374727 AGTATTTAACCGGTTTTGTTATTGTCGGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACC
1 AGTAATTAACCAATTTTGTTATTGTCGGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACC
* *
2374792 TATTACGTTATATAAACACTACCTAATATGTTACTATGCTTGATAATGTTTTT
66 TATTACGTTACATAAACACTACCTAATATGTTACTATGCTTGATAATGTTTCT
* * *
2374845 AGTAATTAATCAATTATT-TTATTTTCGGATTTCTAAGGCTCCAT
1 AGTAATTAACCAATT-TTGTTATTGTCGGATTTCTAAGGCCCCAT
2374889 TAGCTTAAAC
Statistics
Matches: 142, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
118 140 0.99
119 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (118 bp):
AGTAATTAACCAATTTTGTTATTGTCGGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACC
TATTACGTTACATAAACACTACCTAATATGTTACTATGCTTGATAATGTTTCT
Found at i:2374959 original size:903 final size:898
Alignment explanation
Indices: 2373135--2374991 Score: 2419
Period size: 903 Copynumber: 2.1 Consensus size: 898
2373125 GTAAAGCTTC
* * * *
2373135 ATAACAAATCAAGTAATTAATCGGTTATGTTATCATCAAATTTCTAAGGCTCCAACAGCTTAAAC
1 ATAACAAATTAAGTAATTAACCAGTTATGTTATCATCAAATTTCTAAGGCTCCAACAACTTAAAC
*
2373200 TTTGGTAACATTTTAAATGTTACCTGATATGTTGATAATACTGATAACAAATTAAATAAATTACC
66 TTTGGTAACATTTTAAACGTTACCTGATATGTTGATAATACTGATAACAAATTAAATAAATTACC
* * *
2373265 TATTTTGTTATCGTCTGACTTCTAAGGCCCCATCAGATTTAAGAAGATACTACCAATTACGTTAC
131 TATTTTGTTATCGTCGGACTTCTAAGGCCCCATCAGATTTAAAAAGATACTACCAACTACGTTAC
*
2373330 ATAAGCGCTACCTAATATGTTATTATGCTTGATAACAAATCAAGTAATTAAGCGGTTATGTTCTC
196 ATAAGCGCTACCTAATATGTTAATATGCTTGATAACAAATCAAGTAATTAAGCGGTTATGTTCTC
* * *
2373395 GTCGGATATCTAAGGCTCCATCAGCTTAAACTTAGGTAGCATTTTAGGCGTTACCTAATATGTTG
261 ATCGGATATCTAAGGCTCCATCAGCTTAAACTTAGGTACCATTTTAAGCGTTACCTAATATGTTG
*
2373460 ATAATACTGATAACAAATTAAATAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATC
326 ATAATACTGATAACAAATTAAATAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATC
* *
2373525 AGCTTCAAAAAGGCGCTACCTATTACATTAAATAAGCGCTAGCTAATATGTTATTATGCTTGATA
391 AGCTTCAAAAAGGCGCTACATATTACATTAAATAAGCGCTACCTAATATGTTATTATGCTTGATA
* *
2373590 ACAAATCAAGTAATTAACCAGTTATGTTATCGTCGGATTTCTAAGGCTTCATCAGCTTAAACTTT
456 ACAAATCAAGTAATTAACCAGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTT
* * *
2373655 GGTAATATTTTAGGCGTTACCTAATATATTGATAATACTGATTACAAATTAAGTAATTAACCTGT
521 GGTAACATTTTAGGCGTTACCTAATATATTGATAATACTGATAACAAATTAAGTAATTAACCTAT
* * *
2373720 TTTGTTATCGTCAGATTTCTAAAACCCCATCAGCTTGAAAAATATGCTACCTATTACGTTACTTA
586 TTTGTTATCGTCAGATTTCTAAAACCACATCAACTTGAAAAATATGCTACCTATTACGTTACATA
*
2373785 AGTGCTACCTAATATGCTATTATGCTTGATAATGTTTCCAGTATTTAACCAGTTATGTTCTCGTC
651 AGTGCTACCTAATATGCTATTATGCTTGATAATGTTTCCAGTATTTAACCAGTTATGTTATCGTC
* * * *** ** **
2373850 AGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTAATA
716 AGATTTCTAAGGCCCCATCAACTTAAACCTACCTAACATTTTAAACACTACCTAATATGTTAATA
*
2373915 ATACTTATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATAAGC
781 ATACTTATAACAAATTAAGTAATTAACCAATTTTGTTATCGTCAGATTTCTAAGGCCCCATAAGC
* * *
2373980 TTTAAAAAGGCGCTACATATTACGTTACATAAACGCTACCTAATATGTTATTATTCTTG
846 TTTAAAAAGGCGATACATATTACG-TACAT--A---TACCTAATATGTTATAATACTTG
*** * * *
2374039 ATAA-TGTTTCCAGTAATTAACCAGTTATGTTATCATCAGATTTCTAAGGGTCCATA-AACTTAA
1 ATAACAAATT-AAGTAATTAACCAGTTATGTTATCATCAAATTTCTAAGGCTCCA-ACAACTTAA
** * *
2374102 AC-TTGGTAACATTTTAGGCGTTACCTGATATGTTGATAATATTGATAACAAATTAAGT-AATTA
64 ACTTTGGTAACATTTTAAACGTTACCTGATATGTTGATAATACTGATAACAAATTAAATAAATT-
* * * * * *
2374165 ACCTATTTTGTTATCGTCGGATTTGTAAGGCCCCGTCAGCTTTAAAAAGATGCTACCTACTACGT
128 ACCTATTTTGTTATCGTCGGACTTCTAAGGCCCCATCAGATTTAAAAAGATACTACCAACTACGT
*
2374230 TACATAAGCGCTACCTAATATGTTAATATGCTTGATAACAAATCAA-TAAATTAAGTGGTTATGT
193 TACATAAGCGCTACCTAATATGTTAATATGCTTGATAACAAATCAAGT-AATTAAGCGGTTATGT
* * *
2374294 TCTCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTACCATTTTAAGCGTTACCTTATAT
257 TCTCATCGGATATCTAAGGCTCCATCAGCTTAAACTTAGGTACCATTTTAAGCGTTACCTAATAT
* *
2374359 GTTGATAATACTGATTACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCC
322 GTTGATAATACTGATAACAAATTAAATAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCC
* * * * * ** *
2374424 CTTCAGCTTTAAAAAGGTGGTACATATTACGTTACTTAAGCGTTACCTAATATGTTATTATGCTT
387 CATCAGCTTCAAAAAGGCGCTACATATTACATTAAATAAGCGCTACCTAATATGTTATTATGCTT
* * * *
2374489 GATAACAAATCAAGTAATTAATCGGTTATGTTATCGTCAGATTTTTAAGGCTCCATCAGTTTAAA
452 GATAACAAATCAAGTAATTAACCAGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAA
*
2374554 CTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAAC
517 CTTTGGTAACATTTTAGGCGTTACCTAATATATTGATAATACTGATAACAAATTAAGTAATTAAC
* ** * *
2374619 CTATTTTGTTATCGTCGGATTTCTAAGGCCACATCAACTTTAAAAATGTGCTACCTATTACGTTA
582 CTATTTTGTTATCGTCAGATTTCTAAAACCACATCAACTTGAAAAATATGCTACCTATTACGTTA
* * * *
2374684 CATAAGTGCTACCTAATATGTTATTATGCTTGATAATGTTTCTAGTATTTAACCGGTTTTGTTAT
647 CATAAGTGCTACCTAATATGCTATTATGCTTGATAATGTTTCCAGTATTTAACCAGTTATGTTAT
* * *
2374749 TGTCGGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACCTATTACGTTATATAAACACTAC
712 CGTCAGATTTCTAAGGCCCCATCAAC-TT--AAA--C-CTACCTA--ACATT-T-TAAACACTAC
* * **** * * ** *
2374814 CTAATATGTTACT-ATGCTTGATAATGTTTTTAGTAATTAATCAATTATT-TTATTTTCGGATTT
767 CTAATATGTTAATAATACTT-ATAACAAATTAAGTAATTAACCAATT-TTGTTATCGTCAGATTT
* * **** * *
2374877 CTAAGGCTCCATTAGC-TT-AAACTTTGATAACATTTTA-G-GCAT-TACCTAATATGTTAATAA
830 CTAAGGCCCCATAAGCTTTAAAAAGGCGAT-ACATATTACGTACATATACCTAATATGTT-ATAA
2374937 TAC-TG
893 TACTTG
* * * *
2374942 ATAACAAATTAAGTAATTATCCTA-TTTTGTTATCGTCAAATTTTTAAGGC
1 ATAACAAATTAAGTAATTAACC-AGTTATGTTATCATCAAATTTCTAAGGC
2374992 CCCATAAGCT
Statistics
Matches: 819, Mismatches: 114, Indels: 41
0.84 0.12 0.04
Matches are distributed among these distances:
902 5 0.01
903 653 0.80
904 61 0.07
905 1 0.00
906 3 0.00
908 1 0.00
909 6 0.01
911 10 0.01
912 15 0.02
913 62 0.08
914 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (898 bp):
ATAACAAATTAAGTAATTAACCAGTTATGTTATCATCAAATTTCTAAGGCTCCAACAACTTAAAC
TTTGGTAACATTTTAAACGTTACCTGATATGTTGATAATACTGATAACAAATTAAATAAATTACC
TATTTTGTTATCGTCGGACTTCTAAGGCCCCATCAGATTTAAAAAGATACTACCAACTACGTTAC
ATAAGCGCTACCTAATATGTTAATATGCTTGATAACAAATCAAGTAATTAAGCGGTTATGTTCTC
ATCGGATATCTAAGGCTCCATCAGCTTAAACTTAGGTACCATTTTAAGCGTTACCTAATATGTTG
ATAATACTGATAACAAATTAAATAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATC
AGCTTCAAAAAGGCGCTACATATTACATTAAATAAGCGCTACCTAATATGTTATTATGCTTGATA
ACAAATCAAGTAATTAACCAGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTT
GGTAACATTTTAGGCGTTACCTAATATATTGATAATACTGATAACAAATTAAGTAATTAACCTAT
TTTGTTATCGTCAGATTTCTAAAACCACATCAACTTGAAAAATATGCTACCTATTACGTTACATA
AGTGCTACCTAATATGCTATTATGCTTGATAATGTTTCCAGTATTTAACCAGTTATGTTATCGTC
AGATTTCTAAGGCCCCATCAACTTAAACCTACCTAACATTTTAAACACTACCTAATATGTTAATA
ATACTTATAACAAATTAAGTAATTAACCAATTTTGTTATCGTCAGATTTCTAAGGCCCCATAAGC
TTTAAAAAGGCGATACATATTACGTACATATACCTAATATGTTATAATACTTG
Found at i:2374975 original size:452 final size:445
Alignment explanation
Indices: 2373130--2375002 Score: 1935
Period size: 452 Copynumber: 4.1 Consensus size: 445
2373120 TTTTGGTAAA
* ** * * *
2373130 GCTTCATAACAAATCAAGTAATTAATCGGTTATGTTATCATCAAATTTCTAAGGCTCCAACAGCT
1 GCTTGATAACAAATCAAGTAATT-ATCCATTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
*** * *
2373195 TAAACTTTGGTAACATTTTAAATGTTACCTGATATGTTGATAATACTGATAACAAATTAAATAAA
65 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGT-AA
* * * * *
2373260 TT-ACCTATTTTGTTATCGTCTGACTTCTAAGGCCCCATCAGA-TTTAAGAAGATACTACCAATT
129 TTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCA-ACTTTAAAAAGATGCTACCTATT
*
2373323 ACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAACAAATCAAGTAATTAAGCGGTTA
193 ACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAACAAATC-AGTAATTAACCGGTTA
* ** * *
2373388 TGTTCTCGTCGGATATCTAAGGCTCCATCAGCTTAAACTTAGGTAGCATTTTAGGCGTTACCTAA
257 TGTTCTCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTACCTAACATTTTAAGCGTTACCTAA
* *
2373453 TATGTTGATAATACTGATAACAAATTAAATAATTAACCTATTTTGTTATCGTCGGATTTCTAAGG
322 TATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGG
* * * * ** *
2373518 CCCCATCAGCTTCAAAAAGGC-GCTACCT-ATTACATTAAATAAGCGCTAGCTAATATGTTATTA
387 CCCCATTAGCTT-TAAAA-GCTG-T---TGATAACATT-ATTAAGCATTACCTAATATGTTATTA
2373581 T
445 T
* * *
2373582 GCTTGATAACAAATCAAGTAATTAACCAGTTATGTTATCGTCGGATTTCTAAGGCTTCATCAGCT
1 GCTTGATAACAAATCAAGTAATTATCCA-TTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
* * *
2373647 TAAACTTTGGTAATATTTTAGGCGTTACCTAATATATTGATAATACTGATTACAAATTAAGTAAT
65 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
* * ** * * *
2373712 TAACCTGTTTTGTTATCGTCAGATTTCTAAAACCCCATCAGCTTGAAAAATATGCTACCTATTAC
130 TAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAACTTTAAAAAGATGCTACCTATTAC
* * * **** * *
2373777 GTTACTTAAGTGCTACCTAATATGCTATTATGCTTGATAATGTTTCCAGTATTTAACCAGTTATG
195 GTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAACAAAT-CAGTAATTAACCGGTTATG
* *** *
2373842 TTCTCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATA
259 TTCTCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTACCTAACATTTTAAGCGTTACCTAATA
* *
2373907 TGTTAATAATACTTATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCC
324 TGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCC
* ** * * * **
2373972 CCATAAGCTTTAAAAAGGC-GCTACATATTACGTTACATAAACGCTACCTAATATGTTATTAT
389 CCATTAGCTTT-AAAA-GCTG-TTGATA--ACATTA-TTAAGCATTACCTAATATGTTATTAT
* **** * * * * * *
2374034 TCTTGATAATGTTTCCAGTAATTAACCAGTTATGTTATCATCAGATTTCTAAGGGTCCATAAACT
1 GCTTGATAACAAATCAAGTAATTATCCA-TTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
* *
2374099 TAAAC-TTGGTAACATTTTAGGCGTTACCTGATATGTTGATAATATTGATAACAAATTAAGTAAT
65 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
* * * *
2374163 TAACCTATTTTGTTATCGTCGGATTTGTAAGGCCCCGTCAGCTTTAAAAAGATGCTACCTACTAC
130 TAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAACTTTAAAAAGATGCTACCTATTAC
* * **
2374228 GTTACATAAGCGCTACCTAATATGTTAATATGCTTGATAACAAATCAATAAATTAAGTGGTTATG
195 GTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAACAAATCAGT-AATTAACCGGTTATG
* *** * *
2374293 TTCTCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTACCATTTTAAGCGTTACCTTATA
259 TTCTCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTACCTAACATTTTAAGCGTTACCTAATA
*
2374358 TGTTGATAATACTGATTACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCC
324 TGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCC
* ** * *
2374423 CC-TTCAGCTTTAAAAAGGTGGTACATATTACGTTACTTAAGCGTTACCTAATATGTTATTAT
389 CCATT-AGCTTT-AAAAGCT-GTTGATA--ACATTA-TTAAGCATTACCTAATATGTTATTAT
** * *
2374485 GCTTGATAACAAATCAAGTAATTAATCGGTTATGTTATCGTCAGATTTTTAAGGCTCCATCAGTT
1 GCTTGATAACAAATCAAGTAATT-ATCCATTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
2374550 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
65 TAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAAT
*
2374615 TAACCTATTTTGTTATCGTCGGATTTCTAAGGCCACATCAACTTTAAAAATG-TGCTACCTATTA
130 TAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAACTTTAAAAA-GATGCTACCTATTA
* **** * *
2374679 CGTTACATAAGTGCTACCTAATATGTTATTATGCTTGATAATGTTTCTAGTATTTAACCGGTTTT
194 CGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAACAAATC-AGTAATTAACCGGTTAT
* * * * * * *
2374744 GTTATTGTCGGATTTCTAAGGCCCCATCAACTTTAAAAAGGCGCTACCTATTACGTTATATAAAC
258 GTTCTCGTCGGATTTCTAAGGCTCCATCAGC-TT--AAA--C-TTACCTA--ACATT-T-TAAGC
** * **** * * * **
2374809 ACTACCTAATATGTT-ACT-ATGCTTGATAATGTTTTTAGTAATTAATCAATTATT-TTATTTTC
313 GTTACCTAATATGTTGA-TAATAC-TGATAACAAATTAAGTAATTAACCTATT-TTGTTATCGTC
* * *
2374871 GGATTTCTAAGGCTCCATTAGC-TT-AAA-CT-TTGATAACATT-TTAGGCATTACCTAATATGT
375 AGATTTCTAAGGCCCCATTAGCTTTAAAAGCTGTTGATAACATTATTAAGCATTACCTAATATGT
*
2374931 TAATAAT
440 T-ATTAT
* * * * * * *
2374938 AC-TGATAACAAATTAAGTAATTATCCTATTTTGTTATCGTCAAATTTTTAAGGCCCCATAAGCT
1 GCTTGATAACAAATCAAGTAATTATCC-ATTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCT
2375002 T
65 T
2375003 TAAAAAGGCG
Statistics
Matches: 1206, Mismatches: 182, Indels: 66
0.83 0.13 0.05
Matches are distributed among these distances:
450 7 0.01
451 393 0.33
452 702 0.58
453 11 0.01
454 4 0.00
455 3 0.00
456 4 0.00
457 1 0.00
458 4 0.00
459 3 0.00
460 3 0.00
461 7 0.01
462 60 0.05
463 4 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (445 bp):
GCTTGATAACAAATCAAGTAATTATCCATTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTT
AAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATT
AACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAACTTTAAAAAGATGCTACCTATTACG
TTACATAAGCGCTACCTAATATGTTATTATGCTTGATAACAAATCAGTAATTAACCGGTTATGTT
CTCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTACCTAACATTTTAAGCGTTACCTAATATG
TTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCC
ATTAGCTTTAAAAGCTGTTGATAACATTATTAAGCATTACCTAATATGTTATTAT
Found at i:2375907 original size:30 final size:31
Alignment explanation
Indices: 2375860--2375917 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
2375850 TGACTTTTGT
*
2375860 AAGAGGATAAGGGTTAGGTGTCTTGGTTCGG
1 AAGAGGATAAGGGTTAGGTGTATTGGTTCGG
*
2375891 AAGATGATAA-GGTTAGGTGTATTGGTT
1 AAGAGGATAAGGGTTAGGTGTATTGGTT
2375918 TAATGGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.26, C:0.03, G:0.38, T:0.33
Consensus pattern (31 bp):
AAGAGGATAAGGGTTAGGTGTATTGGTTCGG
Found at i:2379492 original size:16 final size:16
Alignment explanation
Indices: 2379471--2379504 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2379461 TAAATTCAAA
**
2379471 TTGCTTTCGGTTCGGG
1 TTGCTTTCAATTCGGG
2379487 TTGCTTTCAATTCGGG
1 TTGCTTTCAATTCGGG
2379503 TT
1 TT
2379505 ATTTTCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.18, G:0.29, T:0.47
Consensus pattern (16 bp):
TTGCTTTCAATTCGGG
Found at i:2381108 original size:2 final size:2
Alignment explanation
Indices: 2381103--2381162 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
2381093 TATAACCATA
2381103 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
2381145 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2381163 TATTTCATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2381678 original size:19 final size:19
Alignment explanation
Indices: 2381651--2381714 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
2381641 AGTGACGACT
*
2381651 TGAAGAAATAAGAAGATTA
1 TGAAAAAATAAGAAGATTA
** * *
2381670 TGAAAAAATTGTGACGAAT-
1 TGAAAAAA-TAAGAAGATTA
*
2381689 TGAAAAAATAAGGAGATTA
1 TGAAAAAATAAGAAGATTA
2381708 TGAAAAA
1 TGAAAAA
2381715 TTGAAGGAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
18 5 0.15
19 22 0.67
20 6 0.18
ACGTcount: A:0.56, C:0.02, G:0.20, T:0.22
Consensus pattern (19 bp):
TGAAAAAATAAGAAGATTA
Found at i:2381684 original size:38 final size:38
Alignment explanation
Indices: 2381642--2381714 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
2381632 CTTAAAATAA
* *
2381642 GTGACGACTTGAAGAAATAAGAAGATTATGAAAAAATT
1 GTGACGAATTGAAAAAATAAGAAGATTATGAAAAAATT
*
2381680 GTGACGAATTGAAAAAATAAGGAGATTATGAAAAA
1 GTGACGAATTGAAAAAATAAGAAGATTATGAAAAA
2381715 TTGAAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.22
Consensus pattern (38 bp):
GTGACGAATTGAAAAAATAAGAAGATTATGAAAAAATT
Found at i:2382938 original size:22 final size:22
Alignment explanation
Indices: 2382890--2382938 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
2382880 CACTAACCAT
2382890 AAAAAGAAAAGGGGAAATAAAG
1 AAAAAGAAAAGGGGAAATAAAG
* * *
2382912 CAAAAA-AAAGGGGGACATAACG
1 -AAAAAGAAAAGGGGAAATAAAG
2382934 AAAAA
1 AAAAA
2382939 CCATTCTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.22
22 13 0.57
23 5 0.22
ACGTcount: A:0.65, C:0.06, G:0.24, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAAGGGGAAATAAAG
Found at i:2385958 original size:47 final size:47
Alignment explanation
Indices: 2385898--2386023 Score: 150
Period size: 45 Copynumber: 2.7 Consensus size: 47
2385888 TGAATAAACC
* *
2385898 TGAGAACTAGATATCATGCGGTTAGGTTTATTTGTTTTAAGTAAGTA
1 TGAGAATTAGATATCACGCGGTTAGGTTTATTTGTTTTAAGTAAGTA
* * ** *
2385945 TGAGAATTTGATATCACACTATTAGGTTTA-TTG-TTTGAGTAAGTA
1 TGAGAATTAGATATCACGCGGTTAGGTTTATTTGTTTTAAGTAAGTA
* *
2385990 TGAGAATTAGATATCACGTGGTTAGGATT-TTTGT
1 TGAGAATTAGATATCACGCGGTTAGGTTTATTTGT
2386024 GAATAATAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
45 37 0.58
46 3 0.05
47 24 0.38
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.41
Consensus pattern (47 bp):
TGAGAATTAGATATCACGCGGTTAGGTTTATTTGTTTTAAGTAAGTA
Found at i:2388421 original size:26 final size:26
Alignment explanation
Indices: 2388346--2388457 Score: 124
Period size: 25 Copynumber: 4.5 Consensus size: 26
2388336 AGTAAGGGGC
**
2388346 AACATTTTTCAAAAC-GATTTCATCA
1 AACATTTTTCAAAACTTCTTTCATCA
*
2388371 AACACTTTTCAAAA-TTCTTTCATCA
1 AACATTTTTCAAAACTTCTTTCATCA
* *
2388396 AACTTTTTTCAAAACTTCTTTTATCA
1 AACATTTTTCAAAACTTCTTTCATCA
* *
2388422 AGCATTTTTCAAAACTTC-TTCATTA
1 AACATTTTTCAAAACTTCTTTCATCA
*
2388447 ATC-TTTTTCAA
1 AACATTTTTCAA
2388458 TTTTTGAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
24 8 0.11
25 40 0.54
26 26 0.35
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.44
Consensus pattern (26 bp):
AACATTTTTCAAAACTTCTTTCATCA
Found at i:2388444 original size:51 final size:50
Alignment explanation
Indices: 2388350--2388454 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 50
2388340 AGGGGCAACA
2388350 TTTTTCAAAACGATTTCATCAAACACTTTTCAAAATTCTTTCATCAAACT
1 TTTTTCAAAACGATTTCATCAAACACTTTTCAAAATTCTTTCATCAAACT
** * * * * *
2388400 TTTTTCAAAACTTCTTTTATCAAGCATTTTTCAAAACTTC-TTCATTAATCT
1 TTTTTCAAAAC-GATTTCATCAAACACTTTTCAAAA-TTCTTTCATCAAACT
2388451 TTTT
1 TTTT
2388455 CAATTTTTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
50 11 0.24
51 32 0.70
52 3 0.07
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (50 bp):
TTTTTCAAAACGATTTCATCAAACACTTTTCAAAATTCTTTCATCAAACT
Found at i:2402149 original size:45 final size:44
Alignment explanation
Indices: 2402076--2402205 Score: 172
Period size: 45 Copynumber: 3.0 Consensus size: 44
2402066 CCATGAGTGA
*
2402076 CACTTTTCTGCC-AAAATGCAACGTTATGCATTTTCATTTGTGG
1 CACTTTTCTGCCAAAAATGCAACGTTATGCATTTTCATTTATGG
* *
2402119 CACTTTTCTGCCAAAAAATGCATCGTTATGCTTTTTCATTTATGG
1 CACTTTTCTGCC-AAAAATGCAACGTTATGCATTTTCATTTATGG
* * * * *
2402164 CACCTTTATCCCAATAATGCACCGTTATGCATTTTCATTTAT
1 CACTTTTCTGCCAAAAATGCAACGTTATGCATTTTCATTTAT
2402206 TCATTCATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
43 12 0.16
44 27 0.36
45 37 0.49
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (44 bp):
CACTTTTCTGCCAAAAATGCAACGTTATGCATTTTCATTTATGG
Found at i:2403362 original size:47 final size:47
Alignment explanation
Indices: 2403297--2403392 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
2403287 AGGAGAGAAC
*
2403297 TTTCACAGGGAAGAAGAATGGAAAATAGCTTAGTGTATTTTTCAACT
1 TTTCACAGGGAAGAAGAATAGAAAATAGCTTAGTGTATTTTTCAACT
*
2403344 TTTCACAGGGAATAAGAATAGAAAATAGCTTAGTGTATTTTTCAACT
1 TTTCACAGGGAAGAAGAATAGAAAATAGCTTAGTGTATTTTTCAACT
2403391 TT
1 TT
2403393 CCCCTTTCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (47 bp):
TTTCACAGGGAAGAAGAATAGAAAATAGCTTAGTGTATTTTTCAACT
Found at i:2404531 original size:20 final size:21
Alignment explanation
Indices: 2404494--2404533 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2404484 ACATTTTACA
2404494 TATGTTTTATATACCATTTAT
1 TATGTTTTATATACCATTTAT
*
2404515 TATGTTTT-TATATCATTTA
1 TATGTTTTATATACCATTTA
2404534 CATATCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (21 bp):
TATGTTTTATATACCATTTAT
Found at i:2415195 original size:44 final size:44
Alignment explanation
Indices: 2415128--2415232 Score: 167
Period size: 44 Copynumber: 2.4 Consensus size: 44
2415118 GAGTGACACA
* *
2415128 TTTCTGCCAA-AATGCACCATTATGCATTTTCATTTATGGCATC
1 TTTCTGCCAATAATGCATCATTATGCATTTTCATTTATGGCACC
*
2415171 TTTCTGCCAATAATGCATCGTTATGCATTTTCATTTATGGCACC
1 TTTCTGCCAATAATGCATCATTATGCATTTTCATTTATGGCACC
*
2415215 TTTTTGCCAATAATGCAT
1 TTTCTGCCAATAATGCAT
2415233 TGTTCTACAT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 10 0.18
44 47 0.82
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (44 bp):
TTTCTGCCAATAATGCATCATTATGCATTTTCATTTATGGCACC
Found at i:2415244 original size:44 final size:44
Alignment explanation
Indices: 2415128--2415245 Score: 157
Period size: 44 Copynumber: 2.7 Consensus size: 44
2415118 GAGTGACACA
* * * *
2415128 TTTCTGCCAA-AATGCACCATTATGCATTTTCATTTATGGCATC
1 TTTCTGCCAATAATGCATCGTTATACATTTTCATTTATGGCACC
*
2415171 TTTCTGCCAATAATGCATCGTTATGCATTTTCATTTATGGCACC
1 TTTCTGCCAATAATGCATCGTTATACATTTTCATTTATGGCACC
* * *
2415215 TTTTTGCCAATAATGCATTGTTCTACATTTT
1 TTTCTGCCAATAATGCATCGTTATACATTTT
2415246 TTGTAATTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
43 10 0.15
44 57 0.85
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (44 bp):
TTTCTGCCAATAATGCATCGTTATACATTTTCATTTATGGCACC
Found at i:2417178 original size:171 final size:173
Alignment explanation
Indices: 2416891--2417235 Score: 676
Period size: 171 Copynumber: 2.0 Consensus size: 173
2416881 TATGGAATTT
2416891 TTGAAAGAGACCAGATTTACCTATTTTAGGTTAAGAAATATTTTGATTATTTAATATGACACCTA
1 TTGAAAGAGACCAGATTTACCTATTTTAGGTTAAGAAATATTTTGATTATTTAATATGACACCTA
2416956 TGCTCCTGTACTGGGTCATACACGGGAAATGGGTGTTACATATACACTTAGTGAGGCATTATAAA
66 TGCTCCTGTACTGGGTCATACACGGGAAATGGGTGTTACATATACACTTAGTGAGGCATTATAAA
2417021 CAAACAAATGTGATATAAAATATAAAACAACTTAATAATATTA
131 CAAACAAATGTGATATAAAATATAAAACAACTTAATAATATTA
2417064 TTGAAAGAGACCAGATTTACCTATTTTAGGTTAAG-AA-ATTTTGATTATTTAATATGACACCTA
1 TTGAAAGAGACCAGATTTACCTATTTTAGGTTAAGAAATATTTTGATTATTTAATATGACACCTA
2417127 TGCTCCTGTACTGGGTCATACACGGGAAATGGGTGTTACATATACACTTAGTGAGGCATTATAAA
66 TGCTCCTGTACTGGGTCATACACGGGAAATGGGTGTTACATATACACTTAGTGAGGCATTATAAA
2417192 CAAACAAATGTGATATAAAATATAAAACAACTTAATAATATTA
131 CAAACAAATGTGATATAAAATATAAAACAACTTAATAATATTA
2417235 T
1 T
2417236 ACCAATTTTA
Statistics
Matches: 172, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
171 135 0.78
172 2 0.01
173 35 0.20
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (173 bp):
TTGAAAGAGACCAGATTTACCTATTTTAGGTTAAGAAATATTTTGATTATTTAATATGACACCTA
TGCTCCTGTACTGGGTCATACACGGGAAATGGGTGTTACATATACACTTAGTGAGGCATTATAAA
CAAACAAATGTGATATAAAATATAAAACAACTTAATAATATTA
Found at i:2419125 original size:16 final size:16
Alignment explanation
Indices: 2419100--2419131 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2419090 GGTTCGTGCC
*
2419100 ATTTCCATCAACTTAA
1 ATTTCAATCAACTTAA
2419116 ATTTCAATCAACTTAA
1 ATTTCAATCAACTTAA
2419132 TTAAAAATTT
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:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTCAATCAACTTAA
Found at i:2424521 original size:14 final size:14
Alignment explanation
Indices: 2424502--2424531 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2424492 TTTTTAACTT
2424502 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2424516 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2424530 TA
1 TA
2424532 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2428596 original size:14 final size:14
Alignment explanation
Indices: 2428577--2428606 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2428567 TTCTTAACTT
2428577 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2428591 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2428605 TA
1 TA
2428607 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2436055 original size:14 final size:14
Alignment explanation
Indices: 2436036--2436065 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2436026 TTCTTAACCT
2436036 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2436050 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2436064 TA
1 TA
2436066 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2439288 original size:14 final size:14
Alignment explanation
Indices: 2439269--2439298 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2439259 TTCTTAACCT
2439269 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2439283 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2439297 TA
1 TA
2439299 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2446489 original size:14 final size:14
Alignment explanation
Indices: 2446470--2446499 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2446460 TTCTTAACTT
2446470 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2446484 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2446498 TA
1 TA
2446500 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2455080 original size:44 final size:44
Alignment explanation
Indices: 2454959--2455067 Score: 193
Period size: 44 Copynumber: 2.5 Consensus size: 44
2454949 TAAGGAGTGA
* *
2454959 CACCTTTCTGCCAA-AATGCACCATTATGCATTTTCATTTATGG
1 CACCTTTCTGCCAATAATGCATCGTTATGCATTTTCATTTATGG
2455002 CACCTTTCTGCCAATAATGCATCGTTATGCATTTTCATTTATGG
1 CACCTTTCTGCCAATAATGCATCGTTATGCATTTTCATTTATGG
2455046 CACCTTTCTGCCAATAATGCAT
1 CACCTTTCTGCCAATAATGCAT
2455068 TGTTTTACAT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
43 14 0.22
44 49 0.78
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.38
Consensus pattern (44 bp):
CACCTTTCTGCCAATAATGCATCGTTATGCATTTTCATTTATGG
Found at i:2458932 original size:16 final size:16
Alignment explanation
Indices: 2458908--2458938 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2458898 TTCGTGCCAT
*
2458908 TTTCCATCAACTTAAA
1 TTTCAATCAACTTAAA
2458924 TTTCAATCAACTTAA
1 TTTCAATCAACTTAA
2458939 TTAAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTCAATCAACTTAAA
Found at i:2464555 original size:14 final size:14
Alignment explanation
Indices: 2464536--2464565 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2464526 TTCTTAACTT
2464536 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2464550 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2464564 TA
1 TA
2464566 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2471257 original size:14 final size:14
Alignment explanation
Indices: 2471238--2471267 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2471228 TTCTTAACTT
2471238 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2471252 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2471266 TA
1 TA
2471268 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2479237 original size:14 final size:14
Alignment explanation
Indices: 2479218--2479247 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2479208 TTCTTAACTT
2479218 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2479232 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2479246 TA
1 TA
2479248 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2483310 original size:14 final size:14
Alignment explanation
Indices: 2483291--2483320 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2483281 TTCTTAACTT
2483291 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2483305 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2483319 TA
1 TA
2483321 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2487294 original size:14 final size:14
Alignment explanation
Indices: 2487275--2487304 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2487265 TTCTTAACCT
2487275 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2487289 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2487303 TA
1 TA
2487305 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2491977 original size:49 final size:50
Alignment explanation
Indices: 2491924--2492023 Score: 193
Period size: 49 Copynumber: 2.0 Consensus size: 50
2491914 ATAAATGAAT
2491924 TTAAAATTCATCCAATTAGAAATTACCA-TTTAACCTTACTTAAATATTA
1 TTAAAATTCATCCAATTAGAAATTACCATTTTAACCTTACTTAAATATTA
2491973 TTAAAATTCATCCAATTAGAAATTACCATTTTAACCTTACTTAAATATTA
1 TTAAAATTCATCCAATTAGAAATTACCATTTTAACCTTACTTAAATATTA
2492023 T
1 T
2492024 AATTTCCACT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 28 0.56
50 22 0.44
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (50 bp):
TTAAAATTCATCCAATTAGAAATTACCATTTTAACCTTACTTAAATATTA
Found at i:2495145 original size:14 final size:14
Alignment explanation
Indices: 2495126--2495155 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2495116 TTCTTAACTT
2495126 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2495140 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2495154 TA
1 TA
2495156 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2498980 original size:650 final size:651
Alignment explanation
Indices: 2497733--2499033 Score: 2474
Period size: 650 Copynumber: 2.0 Consensus size: 651
2497723 TTTTGAAAGT
2497733 TGCAATTTAGTCATTAAATTATCAAATTTCGGCTAAATATGGAAAATTGATTTCAATTCTACTTA
1 TGCAATTTAGTCATTAAATTATCAAATTTCGGCTAAATATGGAAAATTGATTTCAATTCTACTTA
2497798 TCCACATTAAATTTCAATGTTGTAAAATTTGAAAATTGATTATCCAACTCTATATCAAACTTTAG
66 TCCACATTAAATTTCAATGTTGTAAAATTTGAAAATTGATTATCCAACTCTATATCAAACTTTAG
*
2497863 AGCGTTATAGCTTTTAATAAAATCATGAACTGAAATTCTGATTCACACATAAATGTCATTCTTGG
131 AGCGTTATAGCTTTTAATAAAATCATGAACTGAAATTCTGAGTCACACATAAATGTCATTCTTGG
2497928 GATGATGTATTCATTTATGGAAAAAACTTTCTTTTCAGGAAAATTACTGATTTGCTCCCTAAACT
196 GATGATGTATTCATTTATGGAAAAAACTTTCTTTTCAGGAAAATTACTGATTTGCTCCCTAAACT
2497993 TTTCCCAAACTTTATAATTTAGCCAATAAACCTTCAAAATTTATGTTTTGGTCACTAACCAAAAT
261 TTTCCCAAACTTTATAATTTAGCCAATAAACCTTCAAAATTTATGTTTTGGTCACTAACCAAAAT
2498058 GTGGGGTATTACAAATCACTTAAATGTTAATGAAAATATGGTAATTTGGCTCAAAAGGACATTAT
326 GTGGGGTATTACAAATCACTTAAATGTTAATGAAAATATGGTAATTTGGCTCAAAAGGACATTAT
2498123 AATCATTTCTCACTCATATGAATACTTGTATCTTTTCCTTCTGCGATAATTTTTATTAATTCTAG
391 AATCATTTCTCACTCATATGAATACTTGTATCTTTTCCTTCTGCGATAATTTTTATTAATTCTAG
2498188 AGTAAATACAAGGCAATATTTGTTTAAAGATAACCCTCAATGATTTGGCTTTAAATGCACAACCC
456 AGTAAATACAAGGCAATATTTGTTTAAAGATAACCCTCAATGATTTGGCTTTAAATGCACAACCC
2498253 TTACATTCTTGGTGCTCGAACTCAGGCCTCAAGAATAATAACATTCCTTTACCATCAAGGTCACT
521 TTACATTCTTGGTGCTCGAACTCAGGCCTCAAGAATAATAACATTCCTTTACCATCAAGGTCACT
2498318 TGATTCGTGCAGCTAACACTAACTTTTTA-TTCTATTAATAGATGTCATTTTATTCACTTATGCC
586 TGATTCGTGCAGCTAACACTAACTTTTTATTTCTATTAATAGATGTCATTTTATTCACTTATGCC
2498382 C
651 C
2498383 TGCAATTTAGTCATTAAATTATCAAATTTCGGCTAAATATGGAAAATTGATTTCAATTCTACTTA
1 TGCAATTTAGTCATTAAATTATCAAATTTCGGCTAAATATGGAAAATTGATTTCAATTCTACTTA
2498448 TCCACATTAAATTTCAATGTTGTAAAATTTGAAAATTGATTATCCAACTCTATATCAAACTTTAG
66 TCCACATTAAATTTCAATGTTGTAAAATTTGAAAATTGATTATCCAACTCTATATCAAACTTTAG
2498513 AGCGTTATAGCTTTTAATAAAATCATG-ACTGAAATTCTGAGTCACACATAAATGTCATTCTTGG
131 AGCGTTATAGCTTTTAATAAAATCATGAACTGAAATTCTGAGTCACACATAAATGTCATTCTT-G
2498577 GGATGATGTATTCATTTATGGAAAAAACTTTC-TTTCAGGAAAATTACTGATTTG-TCCCTAAAC
195 GGATGATGTATTCATTTATGGAAAAAACTTTCTTTTCAGGAAAATTACTGATTTGCTCCCTAAAC
2498640 TTTTCCCAAAC-TTATAATTTAGCCAATAAACCTTC-AAATTTATGTTTTGGTCACTAACCAAAA
260 TTTTCCCAAACTTTATAATTTAGCCAATAAACCTTCAAAATTTATGTTTTGGTCACTAACCAAAA
2498703 TGTGGGGTATTACAAATCACTTAAATGTTAATG-AAATATGGTAATTTGGCTCAAAAGGACATTA
325 TGTGGGGTATTACAAATCACTTAAATGTTAATGAAAATATGGTAATTTGGCTCAAAAGGACATTA
2498767 TAATCATTTTCTCACTCATATGAATACTTGTATCTTTTCCTTCTGACGATAATTTTTATTAATTC
390 TAATCA-TTTCTCACTCATATGAATACTTGTATCTTTTCCTTCTG-CGATAATTTTTATTAATTC
2498832 TAGAGTAAATACAAGGCAATATTTGTTTAAAGATAACCCTCAATGATTTGGCTTTAAATGCAAAC
453 TAGAGTAAATACAAGGCAATATTTGTTTAAAGATAACCCTCAATGATTTGGCTTTAAATGC--AC
2498897 AACCCTTACATTCTTGGTGCTCGAACTCAGGCCTCAAGAAATAATAACAATTCCTTTACCATCAA
516 AACCCTTACATTCTTGGTGCTCGAACTCAGGCCTCAAG-AATAATAAC-ATTCCTTTACCATCAA
2498962 GGTCACTTGATT-GTGCAGCTAACACTAACTTTTTATTTCTATTAATAGATGTCATTTTATTCAC
579 GGTCACTTGATTCGTGCAGCTAACACTAACTTTTTATTTCTATTAATAGATGTCATTTTATTCAC
2499026 TTATGCCC
644 TTATGCCC
2499034 AAAAGGATAA
Statistics
Matches: 642, Mismatches: 1, Indels: 15
0.98 0.00 0.02
Matches are distributed among these distances:
645 37 0.06
646 99 0.15
647 104 0.16
648 20 0.03
649 96 0.15
650 222 0.35
651 64 0.10
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (651 bp):
TGCAATTTAGTCATTAAATTATCAAATTTCGGCTAAATATGGAAAATTGATTTCAATTCTACTTA
TCCACATTAAATTTCAATGTTGTAAAATTTGAAAATTGATTATCCAACTCTATATCAAACTTTAG
AGCGTTATAGCTTTTAATAAAATCATGAACTGAAATTCTGAGTCACACATAAATGTCATTCTTGG
GATGATGTATTCATTTATGGAAAAAACTTTCTTTTCAGGAAAATTACTGATTTGCTCCCTAAACT
TTTCCCAAACTTTATAATTTAGCCAATAAACCTTCAAAATTTATGTTTTGGTCACTAACCAAAAT
GTGGGGTATTACAAATCACTTAAATGTTAATGAAAATATGGTAATTTGGCTCAAAAGGACATTAT
AATCATTTCTCACTCATATGAATACTTGTATCTTTTCCTTCTGCGATAATTTTTATTAATTCTAG
AGTAAATACAAGGCAATATTTGTTTAAAGATAACCCTCAATGATTTGGCTTTAAATGCACAACCC
TTACATTCTTGGTGCTCGAACTCAGGCCTCAAGAATAATAACATTCCTTTACCATCAAGGTCACT
TGATTCGTGCAGCTAACACTAACTTTTTATTTCTATTAATAGATGTCATTTTATTCACTTATGCC
C
Found at i:2503369 original size:14 final size:14
Alignment explanation
Indices: 2503350--2503379 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2503340 TTCTTAACTT
2503350 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2503364 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2503378 TA
1 TA
2503380 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2512576 original size:14 final size:14
Alignment explanation
Indices: 2512557--2512586 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2512547 TTCTTAACTT
2512557 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2512571 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2512585 TA
1 TA
2512587 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2518728 original size:124 final size:127
Alignment explanation
Indices: 2518569--2518821 Score: 485
Period size: 124 Copynumber: 2.0 Consensus size: 127
2518559 GAGCTTAATA
2518569 TAAACATAAAGTAATAAATTTAATAAAAAATTATCAAAAGAGTGTACGAAGTAATTTTAAAGTCT
1 TAAACATAAAGTAATAAATTTAATAAAAAATTATCAAAAGAGTGTACGAAGTAATTTTAAAGTCT
2518634 AAACTCTAAAATAACAATTCACAAGTTTATT-AAAAAATAAATAGGCTTTCATTTTTGGGTG
66 AAACTCTAAAATAACAATTCACAAGTTTATTAAAAAAATAAATAGGCTTTCATTTTTGGGTG
2518695 TAAA-ATAAAGTAATAAATTTAAT-AAAAATTATCAAAAGAGTGTACGAAGTAATTTTAAAGTCT
1 TAAACATAAAGTAATAAATTTAATAAAAAATTATCAAAAGAGTGTACGAAGTAATTTTAAAGTCT
2518758 AAACTCTAAAATAACAATTCACAAGTTTATTAAAAAAATAAATAGGCTTTCATTTTTGGGTG
66 AAACTCTAAAATAACAATTCACAAGTTTATTAAAAAAATAAATAGGCTTTCATTTTTGGGTG
2518820 TA
1 TA
2518822 GAAAAATATT
Statistics
Matches: 126, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
124 71 0.56
125 51 0.40
126 4 0.03
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.33
Consensus pattern (127 bp):
TAAACATAAAGTAATAAATTTAATAAAAAATTATCAAAAGAGTGTACGAAGTAATTTTAAAGTCT
AAACTCTAAAATAACAATTCACAAGTTTATTAAAAAAATAAATAGGCTTTCATTTTTGGGTG
Found at i:2521293 original size:26 final size:26
Alignment explanation
Indices: 2521264--2521351 Score: 61
Period size: 26 Copynumber: 3.2 Consensus size: 26
2521254 AATAACATAA
2521264 AAATCTTCCATCAAATCATCAAAATT
1 AAATCTTCCATCAAATCATCAAAATT
* ** * *
2521290 AAATATGTTCTTTTTACAACATCAAT-AACATA
1 -AA-ATCTTC--CAT-CAA-ATC-ATCAAAATT
2521322 AAATCTTCCATCAAATCATCAAAATT
1 AAATCTTCCATCAAATCATCAAAATT
2521348 AAAT
1 AAAT
2521352 ATGTTCTTCA
Statistics
Matches: 44, Mismatches: 10, Indels: 15
0.64 0.14 0.22
Matches are distributed among these distances:
25 2 0.05
26 11 0.25
27 5 0.11
28 6 0.14
30 6 0.14
31 5 0.11
32 7 0.16
33 2 0.05
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (26 bp):
AAATCTTCCATCAAATCATCAAAATT
Found at i:2521342 original size:58 final size:59
Alignment explanation
Indices: 2521244--2521359 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 59
2521234 GATTGAGTTG
2521244 TTACAACATCAATAACATAAAAATCTTCCATCAAATCATCAAAATTAAATATGTTCTTT
1 TTACAACATCAATAACATAAAAATCTTCCATCAAATCATCAAAATTAAATATGTTCTTT
2521303 TTACAACATCAATAACAT-AAAATCTTCCATCAAATCATCAAAATTAAATATGTTCTT
1 TTACAACATCAATAACATAAAAATCTTCCATCAAATCATCAAAATTAAATATGTTCTT
2521360 CATATCATCC
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 39 0.68
59 18 0.32
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.34
Consensus pattern (59 bp):
TTACAACATCAATAACATAAAAATCTTCCATCAAATCATCAAAATTAAATATGTTCTTT
Found at i:2521350 original size:27 final size:27
Alignment explanation
Indices: 2521263--2521350 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 27
2521253 CAATAACATA
2521263 AAAATCTTCCATCAAATCATCAAAATT
1 AAAATCTTCCATCAAATCATCAAAATT
* ** * *
2521290 AAATATGTTCTTTTTACAA-CATCAATAACAT
1 AAA-ATCTTC-CATCA-AATCATCAA-AA-TT
2521321 AAAATCTTCCATCAAATCATCAAAATT
1 AAAATCTTCCATCAAATCATCAAAATT
2521348 AAA
1 AAA
2521351 TATGTTCTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
27 7 0.16
28 9 0.20
29 16 0.36
30 9 0.20
31 4 0.09
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (27 bp):
AAAATCTTCCATCAAATCATCAAAATT
Found at i:2521366 original size:27 final size:27
Alignment explanation
Indices: 2521274--2521368 Score: 77
Period size: 29 Copynumber: 3.4 Consensus size: 27
2521264 AAATCTTCCA
2521274 TCAAATCATCAAAATTAAATATGTTCTTT
1 TCAAATCATCAAAATTAAATATGTTC--T
* * * *
2521303 TTACAA-CATCAATAACATAAA-ATCTTCCA
1 TCA-AATCATCAA-AA-TTAAATATGTT-CT
2521332 TCAAATCATCAAAATTAAATATGTTCT
1 TCAAATCATCAAAATTAAATATGTTCT
*
2521359 TCATATCATC
1 TCAAATCATC
2521369 CAAGCATGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
27 14 0.27
28 8 0.16
29 16 0.31
30 8 0.16
31 5 0.10
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (27 bp):
TCAAATCATCAAAATTAAATATGTTCT
Found at i:2524223 original size:519 final size:512
Alignment explanation
Indices: 2523235--2524266 Score: 1910
Period size: 519 Copynumber: 2.0 Consensus size: 512
2523225 TCTATATCAT
2523235 AGTCAAAGTCAAAGATGAACACATAAAATCTAATTTTCACCTTTGTCCTTGAAAATTTTTGAAAT
1 AGTCAAAGTCAAAGATGAACACATAAAATCTAATTTTCACCTTTGTCCTTGAAAATTTTTGAAAT
2523300 TTGCAATTTAGTCATTAAATTTTCAATTTCGGCTAAATATGGAAAATTGACTTCAATTCCACTTA
66 TTGCAATTTAGTCATTAAATTTTCAATTTCGGCTAAATATGGAAAATTGACTTCAATTCCACTTA
2523365 TCCACATTAATTAAATGTTGTAAAATTTGAAAATAATATTTCCAACCTAATTTGTCTTCCTTATA
131 TCCACATTAATTAAATGTTGTAAAATTTGAAAATAATATTTCCAACCTAATTTGTCTTCCTTATA
2523430 TTTTTGAGAATTCAAATTCGATCTGATTATCCAACTCTATACAACTTTAGTGCCTTATAGCTTTT
196 TTTTTGAGAATTCAAATTCGATCTGATTATCCAACTCTATACAACTTTAGTGCCTTATAGCTTTT
2523495 CATACAAATCATGAACCAAAATTCTGATTCACACATAAATGTCATTCTTGGGGGGATCTATTCAT
261 CATACAAATCATGAACCAAAATTCTGATTCACACATAAATGTCATTCTTGGGGGGATCTATTCAT
2523560 TTATGGAAAAAAAAATTTCTTTTCGGGAAATTACTGATTGCTCCCTAAACTTTTCCATACTTTAT
326 TTATGG-AAAAAAAATTTCTTTTCGGGAAATTACTGATTGCTCCCTAAACTTTTCCATACTTTAT
2523625 AATTTAGCCAATAAACCTTCAAAATTTATGTTTGGTCACTAACCAAAATCTGGGTATTACAAATC
390 AATTTAGCCAATAAACCTTCAAAATTTATGTTTGGTCACTAACCAAAATCTGGGTATTACAAATC
2523690 ACTTAAATGCTAATGAAAATATGGTAATTTGGCTCAAAAGGACATTATAATCATTTTC
455 ACTTAAATGCTAATGAAAATATGGTAATTTGGCTCAAAAGGACATTATAATCATTTTC
2523748 AGTCAAAGTCAAAGATGAACACAT-AAATCTAATTTTCACCTTTGTCCTTGAAAATTTTTGAAAT
1 AGTCAAAGTCAAAGATGAACACATAAAATCTAATTTTCACCTTTGTCCTTGAAAATTTTTGAAAT
2523812 TTGCAATTTAGTCATTAAATTTTCAAATTTCGGCT-AATATGGAAAATTGACTTCAATTCCACTT
66 TTGCAATTTAGTCATTAAATTTTC-AATTTCGGCTAAATATGGAAAATTGACTTCAATTCCACTT
2523876 ATCCACATTAAATTTAAATGTTGTAAAATTTGAAAATAATATTTCCAACCTAATTTGTCTTCCTT
130 ATCCACATT-AA-TTAAATGTTGTAAAATTTGAAAATAATATTTCCAACCTAATTTGTCTTCC-T
2523941 TATATTTTTGAGAAATTCAAATTCGATCTGATTATCCAACTCTATATCGAACTTTAGTGCCTTAT
192 TATATTTTTGAG-AATTCAAATTCGATCTGATTATCCAACTCTATA-C-AACTTTAGTGCCTTAT
*
2524006 AGCTTTTCATACAAATCATGAACCAAAATTCTGATTCACACATAAATGTCATTCTTGGGGATGAT
254 AGCTTTTCATACAAATCATGAACCAAAATTCTGATTCACACATAAATGTCATTCTTGGGG-GGAT
*
2524071 CTATTCATTTATGG-AAAAAACTTTCTTTTCGGGAAAATTACTGATTGCTCCCTAAACTTTTCCC
318 CTATTCATTTATGGAAAAAAAATTTCTTTTCGGG-AAATTACTGATTGCTCCCTAAACTTTT-CC
2524135 ATACTTTATAATTTAGCCAATAAACCTTCAAAATTTATGTTTGGTCACTAACCAAAATCTGGGGT
381 ATACTTTATAATTTAGCCAATAAACCTTCAAAATTTATGTTTGGTCACTAACCAAAATCT-GGGT
2524200 ATTACAAATCACTT-AATGCTAATGAAAATATGGTAATTTGGCTCAAAAGGACATTATAATCATT
445 ATTACAAATCACTTAAATGCTAATGAAAATATGGTAATTTGGCTCAAAAGGACATTATAATCATT
2524264 TTC
510 TTC
2524267 TCACTCATAG
Statistics
Matches: 506, Mismatches: 2, Indels: 16
0.97 0.00 0.03
Matches are distributed among these distances:
512 102 0.20
513 36 0.07
514 50 0.10
515 13 0.03
516 33 0.07
517 19 0.04
518 103 0.20
519 132 0.26
520 18 0.04
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (512 bp):
AGTCAAAGTCAAAGATGAACACATAAAATCTAATTTTCACCTTTGTCCTTGAAAATTTTTGAAAT
TTGCAATTTAGTCATTAAATTTTCAATTTCGGCTAAATATGGAAAATTGACTTCAATTCCACTTA
TCCACATTAATTAAATGTTGTAAAATTTGAAAATAATATTTCCAACCTAATTTGTCTTCCTTATA
TTTTTGAGAATTCAAATTCGATCTGATTATCCAACTCTATACAACTTTAGTGCCTTATAGCTTTT
CATACAAATCATGAACCAAAATTCTGATTCACACATAAATGTCATTCTTGGGGGGATCTATTCAT
TTATGGAAAAAAAATTTCTTTTCGGGAAATTACTGATTGCTCCCTAAACTTTTCCATACTTTATA
ATTTAGCCAATAAACCTTCAAAATTTATGTTTGGTCACTAACCAAAATCTGGGTATTACAAATCA
CTTAAATGCTAATGAAAATATGGTAATTTGGCTCAAAAGGACATTATAATCATTTTC
Found at i:2524627 original size:34 final size:35
Alignment explanation
Indices: 2524570--2524638 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
2524560 AATTTTTCAC
2524570 ACTCACAAGTATATCATACATTTTAAAGCTTATGAG
1 ACTCACAAG-ATATCATACATTTTAAAGCTTATGAG
*
2524606 ACTCACAAG-TATCATATATTTTAAAGCTTATGA
1 ACTCACAAGATATCATACATTTTAAAGCTTATGA
2524639 AGAGATTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 23 0.72
36 9 0.28
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (35 bp):
ACTCACAAGATATCATACATTTTAAAGCTTATGAG
Found at i:2526986 original size:14 final size:14
Alignment explanation
Indices: 2526967--2526996 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2526957 TTCTTAACTT
2526967 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2526981 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2526995 TA
1 TA
2526997 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2556073 original size:14 final size:14
Alignment explanation
Indices: 2556054--2556083 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2556044 TTCTTAACTA
2556054 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2556068 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2556082 TA
1 TA
2556084 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2558116 original size:14 final size:14
Alignment explanation
Indices: 2558097--2558126 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2558087 TTCTTAACTA
2558097 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2558111 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2558125 TA
1 TA
2558127 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2560154 original size:14 final size:14
Alignment explanation
Indices: 2560135--2560164 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2560125 TTATTAACTA
2560135 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2560149 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2560163 TA
1 TA
2560165 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2562147 original size:14 final size:14
Alignment explanation
Indices: 2562128--2562157 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2562118 TTCTTAACTG
2562128 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2562142 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2562156 TA
1 TA
2562158 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2568185 original size:14 final size:14
Alignment explanation
Indices: 2568166--2568195 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2568156 TTCTTAACTA
*
2568166 TAGGTAAAACGTAC
1 TAGGTAAAACCTAC
2568180 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2568194 TA
1 TA
2568196 ATACTATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Found at i:2576467 original size:14 final size:14
Alignment explanation
Indices: 2576448--2576477 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2576438 TTCTTAACTA
2576448 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2576462 TAGGTAAAACCTAC
1 TAGGTAAAACCTAC
2576476 TA
1 TA
2576478 ACACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TAGGTAAAACCTAC
Done.