Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_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: 2886609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 16
Found at i:2363847 original size:18 final size:17
Alignment explanation
Indices: 2363828--2363864 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
2363818 TATGTGATTA
2363828 TATAATGTATATATA-T
1 TATAATGTATATATATT
2363844 TATAATGTATATATATGT
1 TATAATGTATATATAT-T
2363862 TAT
1 TAT
2363865 TTACACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.79
18 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (17 bp):
TATAATGTATATATATT
Found at i:2363849 original size:16 final size:16
Alignment explanation
Indices: 2363828--2363859 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2363818 TATGTGATTA
2363828 TATAATGTATATATAT
1 TATAATGTATATATAT
2363844 TATAATGTATATATAT
1 TATAATGTATATATAT
2363860 GTTATTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TATAATGTATATATAT
Found at i:2368302 original size:35 final size:35
Alignment explanation
Indices: 2368261--2368335 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
2368251 TTCATGTTCA
2368261 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
* * * *
2368296 AAATTCCAAAATATTTTAATTACATTCTAAACCCT
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
2368331 AAATT
1 AAATT
2368336 GAAGTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACCCC
Found at i:2369248 original size:21 final size:21
Alignment explanation
Indices: 2369201--2369251 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2369191 CGAATGGGGT
*
2369201 GCTGAAGAAGCCCATGTTGGC
1 GCTGAAGAAGCCCATGTTAGC
*
2369222 GCTGAAGAAGCCCATGTTAGT
1 GCTGAAGAAGCCCATGTTAGC
*
2369243 GTTGAAGAA
1 GCTGAAGAA
2369252 AACCAAGTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (21 bp):
GCTGAAGAAGCCCATGTTAGC
Found at i:2377702 original size:29 final size:30
Alignment explanation
Indices: 2377667--2377732 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
2377657 TATAGTTAAA
* *
2377667 AATTAATTTGATTACCGAATT-TTTAATTG
1 AATTAATTAGATCACCGAATTATTTAATTG
* *
2377696 AATTAATTAGATCATCTAATTATTTAATTG
1 AATTAATTAGATCACCGAATTATTTAATTG
*
2377726 ATTTAAT
1 AATTAAT
2377733 CAAATTATCG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (30 bp):
AATTAATTAGATCACCGAATTATTTAATTG
Found at i:2381636 original size:91 final size:91
Alignment explanation
Indices: 2381481--2381651 Score: 252
Period size: 91 Copynumber: 1.9 Consensus size: 91
2381471 AATAATAAAG
* * * * *
2381481 ATAAAATTATATATATAACTTAAAATTATTAAAAAAATTCGGACTCTGTTGAGATTTAATTCTGA
1 ATAAAATTATATATATAAATTAAAACTATTAAAAAAACTCAGACTCTGTTAAGATTTAATTCTGA
*
2381546 CTATGTCTCTACAATATATATTTTTA
66 CTATATCTCTACAATATATATTTTTA
* * *
2381572 ATAAAATTATATATATAAATTAAAACTGTTAACAAAACTCAGACTCTGTTAATATTTAATTCTGA
1 ATAAAATTATATATATAAATTAAAACTATTAAAAAAACTCAGACTCTGTTAAGATTTAATTCTGA
*
2381637 CTATATCTCTCCAAT
66 CTATATCTCTACAAT
2381652 GTATGTTACA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 70 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (91 bp):
ATAAAATTATATATATAAATTAAAACTATTAAAAAAACTCAGACTCTGTTAAGATTTAATTCTGA
CTATATCTCTACAATATATATTTTTA
Found at i:2390270 original size:31 final size:31
Alignment explanation
Indices: 2390234--2390296 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
2390224 TTCGAGATTG
2390234 GTCACTAAGTTTTAAAAACTTTCATTTTGGT
1 GTCACTAAGTTTTAAAAACTTTCATTTTGGT
*
2390265 GTCACTAAGTTTTAAAAACTTTTATTTTGGT
1 GTCACTAAGTTTTAAAAACTTTCATTTTGGT
2390296 G
1 G
2390297 ACTAATCTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (31 bp):
GTCACTAAGTTTTAAAAACTTTCATTTTGGT
Found at i:2390351 original size:2 final size:2
Alignment explanation
Indices: 2390344--2390381 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2390334 AATATTGAAC
2390344 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
2390382 TATTTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2391444 original size:22 final size:21
Alignment explanation
Indices: 2391416--2391456 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
2391406 TAGTCCCTTC
2391416 TTAATTTAATTTTTGTTTTAAT
1 TTAATTTAATTTTT-TTTTAAT
2391438 TTAATTTAATTTTTTTTTA
1 TTAATTTAATTTTTTTTTA
2391457 TTTTCATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTAATTTAATTTTTTTTTAAT
Found at i:2391529 original size:20 final size:20
Alignment explanation
Indices: 2391491--2391530 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2391481 TTTTTTCAAT
*
2391491 TTTATTTTGTTTTGATTTTA
1 TTTATTTTGTTTTCATTTTA
* *
2391511 TTTATTTTTTTTTCTTTTTA
1 TTTATTTTGTTTTCATTTTA
2391531 AATTGTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTATTTTGTTTTCATTTTA
Found at i:2391587 original size:7 final size:7
Alignment explanation
Indices: 2391567--2391617 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 7
2391557 TTTATGTAGC
2391567 TATTTTT
1 TATTTTT
2391574 TAGATTTTT
1 T--ATTTTT
2391583 TATTTGTT
1 TATTT-TT
2391591 TCATTTTTT
1 T-A-TTTTT
2391600 TATTTTT
1 TATTTTT
2391607 TA-TTTT
1 TATTTTT
2391613 TATTT
1 TATTT
2391618 AGCCATCCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 6 0.16
7 14 0.37
8 4 0.11
9 11 0.29
10 3 0.08
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (7 bp):
TATTTTT
Found at i:2391618 original size:17 final size:15
Alignment explanation
Indices: 2391567--2391613 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
2391557 TTTATGTAGC
*
2391567 TATTTTTTAGATTTTT
1 TATTTTTTA-TTTTTT
2391583 TATTTGTTTCATTTTTT
1 TATTT-TTT-ATTTTTT
2391600 TATTTTTTATTTTT
1 TATTTTTTATTTTT
2391614 ATTTAGCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
17 13 0.46
18 1 0.04
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (15 bp):
TATTTTTTATTTTTT
Found at i:2391753 original size:19 final size:19
Alignment explanation
Indices: 2391712--2391753 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2391702 TTTATTATTT
* *
2391712 TTTATTATTCTTTTCTTAT
1 TTTATTATTCTTTTCTAAA
2391731 TTTATTATT-TTCTTCTAAA
1 TTTATTATTCTT-TTCTAAA
2391750 TTTA
1 TTTA
2391754 GTTTTTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTATTCTTTTCTAAA
Found at i:2402804 original size:15 final size:15
Alignment explanation
Indices: 2402786--2402817 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2402776 AATTATTATT
2402786 ATATTAGTAGTAGTA
1 ATATTAGTAGTAGTA
*
2402801 ATATTAGTAGTATTA
1 ATATTAGTAGTAGTA
2402816 AT
1 AT
2402818 TACTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (15 bp):
ATATTAGTAGTAGTA
Found at i:2402844 original size:30 final size:30
Alignment explanation
Indices: 2402808--2402971 Score: 145
Period size: 30 Copynumber: 5.4 Consensus size: 30
2402798 GTAATATTAG
2402808 TAGTATTAATTACTATTTAATTAGATTTAT
1 TAGTATTAATTACTATTTAATTAGATTTAT
* ** * ** *
2402838 TAGTATTAATTACCATCAAATTTGCCTAAT
1 TAGTATTAATTACTATTTAATTAGATTTAT
* * *
2402868 TTGTGTTAATTACTATTTAATTAGTTTTAT
1 TAGTATTAATTACTATTTAATTAGATTTAT
* *
2402898 TAGTATTAATTACCATCTAATTAG-TCTTAT
1 TAGTATTAATTACTATTTAATTAGAT-TTAT
* *
2402928 TAGTGA-TAGTTACTATTTAAGTA-ATTATTAT
1 TAGT-ATTAATTACTATTTAATTAGA-T-TTAT
2402959 TAGTATTAATTAC
1 TAGTATTAATTAC
2402972 CTTTTTATTA
Statistics
Matches: 103, Mismatches: 26, Indels: 9
0.75 0.19 0.07
Matches are distributed among these distances:
29 1 0.01
30 86 0.83
31 16 0.16
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (30 bp):
TAGTATTAATTACTATTTAATTAGATTTAT
Found at i:2402880 original size:60 final size:60
Alignment explanation
Indices: 2402808--2402972 Score: 215
Period size: 60 Copynumber: 2.7 Consensus size: 60
2402798 GTAATATTAG
* *
2402808 TAGTATTAATTACTATTTAATTAGATTTATTAGTATTAATTACCATCAAATTTGCCTAAT
1 TAGTGTTAATTACTATTTAATTAGATTTATTAGTATTAATTACCATCAAATTAGCCTAAT
* * * * *
2402868 TTGTGTTAATTACTATTTAATTAGTTTTATTAGTATTAATTACCATCTAATTAGTCTTAT
1 TAGTGTTAATTACTATTTAATTAGATTTATTAGTATTAATTACCATCAAATTAGCCTAAT
* * *
2402928 TAGTGATAGTTACTATTTAAGTA-ATTATTATTAGTATTAATTACC
1 TAGTGTTAATTACTATTTAATTAGA-T-TTATTAGTATTAATTACC
2402973 TTTTTATTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
60 73 0.80
61 18 0.20
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (60 bp):
TAGTGTTAATTACTATTTAATTAGATTTATTAGTATTAATTACCATCAAATTAGCCTAAT
Found at i:2404084 original size:173 final size:177
Alignment explanation
Indices: 2403778--2404370 Score: 698
Period size: 173 Copynumber: 3.3 Consensus size: 177
2403768 CAGTTTCATT
* * * * * *
2403778 ATGACAAAACCGGTAAAGCGCTACCTA-ATATGTTTAAAGTATCGATTCCAGTGAA-ATAAGTAA
1 ATGACAAAACCGGTAAAACGCTACC-AGATATGTTGAAAGTGTCGA-TAC-TTTAATATAAG-AA
* * * * *
2403841 -CGACACTCTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTCTAAA
62 TAGACACT-TTGGAATTTAAAAGAAAAACAATAATA-CG---ATAAAGTGTCGATACTTTATAAA
* *
2403905 AATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGATCTCTAA
122 AATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGATCTCAAA
* ** * *
2403961 ATGACAAAACCGATAAAATACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGAATTGA
1 ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGAATAGA
* *
2404026 CAC-TTGGAATTTAAAAGAAAAACAGTAATA-G-T-GAGTGTCGATACTTTATAAAAATGTATCG
66 CACTTTGGAATTTAAAAGAAAAACAATAATACGATAAAGTGTCGATACTTTATAAAAATGTATCG
* * * * *
2404087 ATCCATAACAATATAATAGGTAAAGATATGACAAAACCGGTCTCGAA
131 ATCCATAACAATATAACAAGTAAAAATATGACAAAACCGATCTCAAA
*
2404134 ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGA
1 ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGAATAGA
* * *
2404199 CACTTTTGGAATTTAAAAGAGAAGCAATAATAGCGTTAATAAATTGTCGATACTTTATAAAAATG
66 CAC-TTTGGAATTTAAAAGAAAAACAATAATA-CG---ATAAAGTGTCGATACTTTATAAAAATG
*
2404264 TATCAATCCATAACAATATAACAAGTAAAAATATGACAAAACC-AGTCTCAAA
126 TATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGA-TCTCAAA
* * *
2404316 ATGACAAAACCGGTAAAGCGCTACCAAATATGTTGAAAGTGTCCATACTTTAATA
1 ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATA
2404371 AGTACGCGTA
Statistics
Matches: 357, Mismatches: 40, Indels: 27
0.84 0.09 0.06
Matches are distributed among these distances:
173 131 0.37
174 1 0.00
175 24 0.07
177 1 0.00
178 1 0.00
180 25 0.07
181 6 0.02
182 131 0.37
183 37 0.10
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (177 bp):
ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGAATAGA
CACTTTGGAATTTAAAAGAAAAACAATAATACGATAAAGTGTCGATACTTTATAAAAATGTATCG
ATCCATAACAATATAACAAGTAAAAATATGACAAAACCGATCTCAAA
Found at i:2404306 original size:182 final size:179
Alignment explanation
Indices: 2403778--2404370 Score: 763
Period size: 182 Copynumber: 3.3 Consensus size: 179
2403768 CAGTTTCATT
* * * * * *
2403778 ATGACAAAACCGGTAAAGCGCTACCTA-ATATGTTTAAAGTATCGATTCCAGTGAA-ATAAGTA-
1 ATGACAAAACCGGTAAAACGCTACC-AGATATGTTGAAAGTGTCGA-TAC-TTTAATATAAGTAT
*
2403840 ACGACACTCTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTCTAAA
63 A-GACACT-TTGGAATTTAAAAGAGAAGCAGTAATAGCG--TATAAAGTGTCGATACTTTATAAA
* * *
2403905 AATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGATCTCTAA
124 AATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCAAA
* ** * * *
2403961 ATGACAAAACCGATAAAATACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGAATTGA
1 ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGA
* * *
2404026 CAC-TTGGAATTTAAAAGAAAAACAGTAATA--G--T-GAGTGTCGATACTTTATAAAAATGTAT
66 CACTTTGGAATTTAAAAGAGAAGCAGTAATAGCGTATAAAGTGTCGATACTTTATAAAAATGTAT
* * * *
2404085 CGATCCATAACAATATAATAGGTAAAGATATGACAAAACCGGTCTCGAA
131 CGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCAAA
2404134 ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGA
1 ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGA
* *
2404199 CACTTTTGGAATTTAAAAGAGAAGCAATAATAGCGTTAATAAATTGTCGATACTTTATAAAAATG
66 CAC-TTTGGAATTTAAAAGAGAAGCAGTAATAGCG-T-ATAAAGTGTCGATACTTTATAAAAATG
* *
2404264 TATCAATCCATAACAATATAACAAGTAAAAATATGACAAAACCAGTCTCAAA
128 TATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCAAA
* * *
2404316 ATGACAAAACCGGTAAAGCGCTACCAAATATGTTGAAAGTGTCCATACTTTAATA
1 ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATA
2404371 AGTACGCGTA
Statistics
Matches: 357, Mismatches: 41, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
173 131 0.37
174 1 0.00
175 24 0.07
177 1 0.00
178 1 0.00
180 25 0.07
181 4 0.01
182 133 0.37
183 37 0.10
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (179 bp):
ATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATAGA
CACTTTGGAATTTAAAAGAGAAGCAGTAATAGCGTATAAAGTGTCGATACTTTATAAAAATGTAT
CGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCAAA
Found at i:2406602 original size:18 final size:18
Alignment explanation
Indices: 2406579--2406625 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2406569 GTTTTTGACA
* *
2406579 AGGAGGTAGAGGTGGCAG
1 AGGAGGAAGAGGAGGCAG
*
2406597 AGGAGGAAGTGGAGGCAG
1 AGGAGGAAGAGGAGGCAG
*
2406615 TGGAGGAAGAG
1 AGGAGGAAGAG
2406626 AAGAAGGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.55, T:0.09
Consensus pattern (18 bp):
AGGAGGAAGAGGAGGCAG
Found at i:2406682 original size:15 final size:15
Alignment explanation
Indices: 2406649--2406682 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2406639 AGATGGTAGT
*
2406649 AGAGGGATGACGGTG
1 AGAGGGATGACGGTA
*
2406664 AGAGGGATGATGGTA
1 AGAGGGATGACGGTA
2406679 AGAG
1 AGAG
2406683 AAAACAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.50, T:0.15
Consensus pattern (15 bp):
AGAGGGATGACGGTA
Found at i:2407059 original size:18 final size:18
Alignment explanation
Indices: 2407036--2407075 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
2407026 TGAAAAATAT
2407036 GAAGAAGAAAAGATGGAA
1 GAAGAAGAAAAGATGGAA
*
2407054 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAA
2407072 GAAG
1 GAAG
2407076 TGAGGAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAA
Found at i:2408474 original size:3 final size:3
Alignment explanation
Indices: 2408466--2408545 Score: 108
Period size: 3 Copynumber: 26.7 Consensus size: 3
2408456 TAATTTTTCC
* * *
2408466 TAT TAT TAT TTT TAT TAT TA- TAT TAT TAT TAT AAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2408513 TAT TAT TAT TAT TAT TAT ATAA TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA
2408546 AATAAAAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.03
3 63 0.94
4 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2412020 original size:11 final size:10
Alignment explanation
Indices: 2412004--2412043 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 10
2411994 TTATTTGCAA
2412004 TATTATTTTAT
1 TATTATTTT-T
2412015 TATTATTTTT
1 TATTATTTTT
2412025 TATATATTTTT
1 TAT-TATTTTT
2412036 TAATTATT
1 T-ATTATT
2412044 ATGTTCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.15
11 21 0.78
12 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTATTTTT
Found at i:2412075 original size:2 final size:2
Alignment explanation
Indices: 2412068--2412117 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2412058 TATCTTAGTC
2412068 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
2412110 AT AT AT AT
1 AT AT AT AT
2412118 GTTTCAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2421363 original size:54 final size:54
Alignment explanation
Indices: 2421272--2421375 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
2421262 GAAGAAAATG
* * *
2421272 TGGCAGAAGCCACAGGAAAAGATGAATGCGTTATCAAATGTTTTATGAACATCT
1 TGGCAGAAACCACAGGAAAAGATGAATGCGTTATCAAATATTTTACGAACATCT
* * * * *
2421326 TGGCATAAACCACATGAGAAGATGAATGTGTTGTCAAATATTTTACGAAC
1 TGGCAGAAACCACAGGAAAAGATGAATGCGTTATCAAATATTTTACGAAC
2421376 CAGTTATTCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (54 bp):
TGGCAGAAACCACAGGAAAAGATGAATGCGTTATCAAATATTTTACGAACATCT
Found at i:2422587 original size:73 final size:73
Alignment explanation
Indices: 2422438--2423096 Score: 1005
Period size: 73 Copynumber: 9.0 Consensus size: 73
2422428 CTATTTCCAA
* * * * *
2422438 CATCTGTAAGCCCTACAGTGCATGATGTTTTAAAAAAAAACCTTCAGGAGCTTTTTAATCTTAAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTT--CAAAAAGCCTTCGGGAGCTTTTTGATCTTAAA
*
2422503 GCCTCAAGGT
64 GCCTCAGGGT
* * * *
2422513 CATGTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGAGAGTTTTTTGATCTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
2422578 CTCAGGGT
66 CTCAGGGT
* * * * * *
2422586 CATCTGTAAGACCTACAGTGCATGATGTTTTTAAAATGCATCCGGGAGCTTTTTAATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
2422651 CTCAGGGT
66 CTCAGGGT
* *
2422659 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAATCC-TCTGGGAGCTTTTTGATCTTAAAT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC-GGGAGCTTTTTGATCTTAAAG
2422723 CCTCAGGGT
65 CCTCAGGGT
*
2422732 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAAGTTTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTG-A--TCTTAA
2422797 AGCCTCAGGGT
63 AGCCTCAGGGT
*
2422808 CATCTGTAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
2422873 CTCAGGGT
66 CTCAGGGT
*
2422881 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATCTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
2422946 CTCAGGGT
66 CTCAGGGT
* *
2422954 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTATGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
*
2423019 CTCAGGAT
66 CTCAGGGT
* * * *
2423027 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGTCTTCGGGAGATTTTTGATTTTAAAGT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
2423092 CTCAG
66 CTCAG
2423097 TGCATGATAT
Statistics
Matches: 538, Mismatches: 41, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
72 1 0.00
73 435 0.81
74 3 0.01
75 30 0.06
76 69 0.13
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (73 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
CTCAGGGT
Found at i:2423032 original size:295 final size:293
Alignment explanation
Indices: 2422438--2423095 Score: 1007
Period size: 295 Copynumber: 2.2 Consensus size: 293
2422428 CTATTTCCAA
* * * *
2422438 CATCTGTAAGCCCTACAGTGCATGATGTTTTAAAAAAAAACCTTCAGGAGCTTTTT-AATCTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTT--CAAAAAGCCTTCGGGAGCTTTTTGAATCTTAA
* *
2422502 AGCCTCAAGGTCATGTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGAGAGTTTTTT
64 AGCCTCAAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGAGAGCTTTTT
* * *
2422567 GATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTTAAAATGCATCCGGG
129 GATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCATCCGAG
* *
2422632 AGCTTTTTAATTTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAT
194 AGCTTTTTAATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAG
* * *
2422697 CCTCTGGGAGCTTTTTGATCTTAAATCCTCAGGGT
259 CCTCTGGGAGCTTTATGATCTTAAAGCCTCAGGAT
*
2422732 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAAGTTTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAA--TCTTAA
* * * *
2422797 AGCCTCAGGGTCATCTGTAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
64 AGCCTCAAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGAGAGCTTTTT
* *
2422862 GATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGAG
129 GATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCATCCGAG
*
2422927 AGCTTTTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAG
194 AGCTTTTTAATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAG
*
2422992 CCT-TCGGGAGCTTTATGATTTTAAAGCCTCAGGAT
259 CCTCT-GGGAGCTTTATGATCTTAAAGCCTCAGGAT
* * *
2423027 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGTCTTCGGGAGATTTTTG-ATTTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAATCTTAAAG
*
2423091 TCTCA
66 CCTCA
2423096 GTGCATGATA
Statistics
Matches: 334, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
292 32 0.10
293 2 0.01
294 32 0.10
295 268 0.80
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (293 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAATCTTAAAG
CCTCAAGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGAGAGCTTTTTGA
TCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCATCCGAGAG
CTTTTTAATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCC
TCTGGGAGCTTTATGATCTTAAAGCCTCAGGAT
Found at i:2423240 original size:3 final size:3
Alignment explanation
Indices: 2423232--2423280 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
2423222 AATTTTTTCC
* * * *
2423232 TAT TAT TAT TTT TAT TAT TA- TGT TAT TAT TAT AAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2423279 TA
1 TA
2423281 AATAAAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 1 0.03
3 36 0.97
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2428326 original size:128 final size:128
Alignment explanation
Indices: 2428060--2428331 Score: 343
Period size: 128 Copynumber: 2.1 Consensus size: 128
2428050 TTAAATGACA
* * * * *
2428060 AAAAT-AGTAAACATAATGTATCGAT--ATTTTTTAAAATTGTATCGATCCCAAACACATAGAAA
1 AAAATAAGTCAACATAAAGTGTCGATACATTTATTAAAA--GTATCGATCCCAAAAACATAGAAA
* * *
2428122 CCAATAATTATAATGTAATAGGTAAATTTACAATGTAATCGGTAGAAATATACCGATTTAATTAG
64 CCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATATACCGATTTAATGAG
* *
2428187 AAAATAAGTCAACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCTAAAAACATCGAAACC
1 AAAATAAGTCAACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATAGAAACC
* * ** * *
2428252 GATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATATTGGTTTTATGAG
66 AATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATATACCGATTTAATGAG
* *
2428315 AGAATAGGTCAACATAA
1 AAAATAAGTCAACATAA
2428332 TGTATCAACA
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
127 5 0.04
128 109 0.88
130 10 0.08
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (128 bp):
AAAATAAGTCAACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATAGAAACC
AATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATATACCGATTTAATGAG
Found at i:2428545 original size:200 final size:198
Alignment explanation
Indices: 2428199--2429163 Score: 1301
Period size: 199 Copynumber: 4.8 Consensus size: 198
2428189 AATAAGTCAA
* * * *
2428199 CATAAAGTGTCGATACATTTATTAAAAGTATCGATCCTAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTA--AAATGTATCGATCCCAAAAACATCGAAACCCATAATTACAAT
* ** * *
2428264 GTAATAGGTAAATTTACAATGTAACCGATATAAATATATTGGTTTTATGAGAGAATAGGTCAACA
64 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
*
2428329 TAATGTATCAACACTTTCTAAATTTGTGTCGATAGATTTTGTCCAGAATGAATGCCAAACTAGGT
129 TAATGTATCAACACTTTCTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACTAGGT
2428394 GCACG
194 GCACG
* * * * *
2428399 CATAAAGTGTCGATACATTTATTAAAAGTATTGATCCTAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTA--AAATGTATCGATCCCAAAAACATCGAAACCCATAATTACAAT
* * * *
2428464 GTACTAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTTATGAGAGAATAGGTCAACA
64 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
* * * *
2428529 TAAAGTATCGACACTTTCTAAATTTGTGTCGATACATTTTTTCTAGAATGAATGCCAAACTAGGT
129 TAATGTATCAACACTTTCTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACTAGGT
2428594 GCACG
194 GCACG
* ** * * * *
2428599 CTTAAAGTACCGATTCATTTAAATTTTATCGATCCCAAAAACATTGAAACCCATAATTACAATGT
1 CATAAAGTGTCGATACATTTAAAATGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGT
* * * *
2428664 AATAGGTAAATTTACAATGTACCCGATAGAAATATACAGGTTTTATGAGAAAATAGGTCTACATA
66 AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATA
* ** ** *
2428729 AAGTATCAACACAAAGT-TAAA-AAGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGT
131 ATGTATCAACAC--TTTCTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACTAGGT
2428792 GCACG
194 GCACG
* * *
2428797 CATAAAGTGTCGATATATTTAAAATTGTATCTATCCCAAAAACATCGAAACTCATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAA-TGTATCGATCCCAAAAACATCGAAACCCATAATTACAATG
*
2428862 TAATAGGTAAATTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
65 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
** ** * * * *
2428927 AATGTATCGACACAAATT-TAAA-AAGTGTTGATACTTTTTGTCTAGAATGAATGTCAAACTAGG
130 AATGTATC-A-ACACTTTCTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACTAGG
2428990 TGCACG
193 TGCACG
2428996 CATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAA-TGTATCGATCCCAAAAACATCGAAACCCATAATTACAATG
* * **
2429061 TAATAGGTAAATTTACAATGTAATCGGTATAAATATATCAATTTTATGAGAAAATAGGTCTACAT
65 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
2429126 AATGTATCAACACTTTCTAAATTTGTGTCGATAC-TTTT
130 AATGTATCAACACTTTCTAAATTTGTGTCGATACATTTT
2429164 CTAAATTACG
Statistics
Matches: 686, Mismatches: 72, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
197 5 0.01
198 174 0.25
199 296 0.43
200 208 0.30
201 3 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTAAAATGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGT
AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATA
ATGTATCAACACTTTCTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACTAGGTGC
ACG
Found at i:2429482 original size:15 final size:15
Alignment explanation
Indices: 2429462--2429507 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
2429452 TGTTCAAACT
*
2429462 TCTTCTCAACCAAGC
1 TCTTCTCAACCAACC
2429477 TCTTCTCAACGACAACC
1 TCTTCTCAAC--CAACC
2429494 TCATTCTCAACCAA
1 TC-TTCTCAACCAA
2429508 TCGCTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 10 0.37
16 3 0.11
17 6 0.22
18 8 0.30
ACGTcount: A:0.30, C:0.39, G:0.04, T:0.26
Consensus pattern (15 bp):
TCTTCTCAACCAACC
Found at i:2429518 original size:18 final size:16
Alignment explanation
Indices: 2429462--2429518 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 16
2429452 TGTTCAAACT
2429462 TCTTCTCAACCAA-GC
1 TCTTCTCAACCAACGC
2429477 TCTTCTCAACGACAAC-C
1 TCTTCTCAAC--CAACGC
2429494 TCATTCTCAACCAATCGC
1 TC-TTCTCAACCAA-CGC
2429512 TTCTTCT
1 -TCTTCT
2429519 AAGTAAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
15 10 0.29
16 3 0.09
17 7 0.20
18 13 0.37
19 2 0.06
ACGTcount: A:0.25, C:0.39, G:0.05, T:0.32
Consensus pattern (16 bp):
TCTTCTCAACCAACGC
Found at i:2432960 original size:199 final size:199
Alignment explanation
Indices: 2432446--2433385 Score: 1273
Period size: 199 Copynumber: 4.7 Consensus size: 199
2432436 TATGATAATT
* *
2432446 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTATA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
* *
2432511 ATGTAACCGGTAGAAATATATC-GATTTTATGAGAAAATAGGTATACATAATGTATCGACACTTT
66 ATGTAACCGGTAGAAATATACCAG-TTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTT
* * * * * *
2432575 ATAAATTTGTGTCGATACTTTTTGTCCATAATGAATGCCCAACGAGGTGCATGCGTAAAGTGGCG
130 ATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAACGAGATGCACGCATAAAGTGTCG
2432640 ATACA
195 ATACA
*
2432645 TTTAAAATTGTATTGATCCCAAAAA-ATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
** **
2432709 ATGTAAATGGTAGAAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
66 ATGTAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
*
2432774 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAACAAGATGCACGCATAAAGTGTCGA
131 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAACGAGATGCACGCATAAAGTGTCGA
2432839 TACA
196 TACA
* *
2432843 TTTAAAATTATATCGATCTCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
* * *
2432908 ATGTAACCGGTAAAAATATACCAGTTTTATGAGAAAACAGGTCTATATAATGTATCGACACTTTA
66 ATGTAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
* * *
2432973 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAAT-TCCTAACGAGGTGCACACATAAAGTATCG
131 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCC-AACGAGATGCACGCATAAAGTGTCG
2433037 ATACA
195 ATACA
* * *
2433042 TTTAAAATTGTATCGATCCCAAAAACATC-AAACCCGATAATTATAATGTAATATGTAACTTTAC
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAA-CCTATAATTATAATGTAATAGGTAAATTTAC
* * * * * * * *
2433106 GATGTAACCGATAGAAATATACCAG-TTAATTAGAAAATAGGTCAACATAGTGTATTGATACTTT
65 AATGTAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTT
* * ** *
2433170 TTAAA-TTGTGTCGATACTTTTTGTTCAGAATGAATGTTAAACGAGATGCACGCTTAAAGTGTCG
130 ATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAACGAGATGCACGCATAAAGTGTCG
*
2433234 ATTCA
195 ATACA
* ** * *
2433239 TTTATTAAA-AGTATCGATCCCAAACTCATTGAAACCTATAATTATAATGTGATAGGTAAATTTA
1 TTTA--AAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTA
* * ** * * * * *
2433303 AAATGTAACCGATAGAAATATACTGGTATAATTAGAAAATAGGTCAACATAATGTATCGACATTT
64 CAATGTAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTT
* *
2433368 TTTAAATTTGTATCGATA
129 TATAAATTTGTGTCGATA
2433386 TATTTTTAAA
Statistics
Matches: 659, Mismatches: 72, Indels: 19
0.88 0.10 0.03
Matches are distributed among these distances:
197 58 0.09
198 286 0.43
199 305 0.46
200 10 0.02
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (199 bp):
TTTAAAATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTACA
ATGTAACCGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAACGAGATGCACGCATAAAGTGTCGA
TACA
Found at i:2433256 original size:397 final size:396
Alignment explanation
Indices: 2432446--2433385 Score: 1287
Period size: 397 Copynumber: 2.4 Consensus size: 396
2432436 TATGATAATT
* * *
2432446 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTATA
1 TTTAAAATAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTAAA
* *
2432511 ATGTAACCGGTAGAAATATATCGATTTTATGAGAAAATAGGTATACATAATGTATCGACACTTTA
66 ATGTAACCGGTAGAAATATACCG-TTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTA
* ** * *
2432576 TAAATTTGTGTCGATACTTTTTGTCCATAATGAATGCCCAACGAGGTGCATGCGTAAAGTGGCGA
130 TAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTAGCGA
* *
2432641 TACATTTAAAATTGTATTGATCCCAAAAAATCGAAACCTATAATTATAATGTAATAGGTAAATTT
195 TACATTTAAAATTGTATCGATCCCAAAAAATCGAAACCGATAATTATAATGTAATAGGTAAATTT
* * ** * *
2432706 ACAATGTAAATGGTAGAAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACT
260 ACAATGTAAACGATAGAAATATACCAGTTTAATGAGAAAATAGGTCAACATAATGTATCGACACT
*
2432771 TTATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAACAAGATGCACGCATAAAGTGT
325 TTATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCAAACAAGATGCACGCATAAAGTGT
2432836 CGATACA
390 CGATACA
* *
2432843 TTTAAAATTA-TATCGATCTCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTAC
1 TTTAAAA-TAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTAA
* * *
2432907 AATGTAACCGGTAAAAATATACCAGTTTTATGAGAAAACAGGTCTATATAATGTATCGACACTTT
65 AATGTAACCGGTAGAAATATACC-GTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTT
* * *
2432972 ATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATTCCTAACGAGGTGCACACATAAAGTATCG
129 ATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTAGCG
* *
2433037 ATACATTTAAAATTGTATCGATCCCAAAAACATC-AAACCCGATAATTATAATGTAATATGTAAC
194 ATACATTTAAAATTGTATCGATCCCAAAAA-ATCGAAA-CCGATAATTATAATGTAATAGGTAAA
* * * * * *
2433101 TTTACGATGTAACCGATAGAAATATACCAG-TTAATTAGAAAATAGGTCAACATAGTGTATTGAT
257 TTTACAATGTAAACGATAGAAATATACCAGTTTAATGAGAAAATAGGTCAACATAATGTATCGAC
* * * * *
2433165 ACTTTTTAAA-TTGTGTCGATACTTTTTGTTCAGAATGAATGTTAAACGAGATGCACGCTTAAAG
322 ACTTTATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCAAACAAGATGCACGCATAAAG
*
2433229 TGTCGATTCA
387 TGTCGATACA
** * *
2433239 TTTATTAAA-AGTATCGATCCCAAACTCATTGAAACCTATAATTATAATGTGATAGGTAAATTTA
1 TTTA--AAATAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTA
* * * * * * *
2433303 AAATGTAACCGATAGAAATATACTGGTATAATTAGAAAATAGGTCAACATAATGTATCGACATTT
64 AAATGTAACCGGTAGAAATATAC-CGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTT
* *
2433368 TTTAAATTTGTATCGATA
128 TATAAATTTGTGTCGATA
2433386 TATTTTTAAA
Statistics
Matches: 477, Mismatches: 58, Indels: 16
0.87 0.11 0.03
Matches are distributed among these distances:
396 63 0.13
397 359 0.75
398 55 0.12
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (396 bp):
TTTAAAATAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAAATTTAAA
ATGTAACCGGTAGAAATATACCGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTAT
AAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTAGCGAT
ACATTTAAAATTGTATCGATCCCAAAAAATCGAAACCGATAATTATAATGTAATAGGTAAATTTA
CAATGTAAACGATAGAAATATACCAGTTTAATGAGAAAATAGGTCAACATAATGTATCGACACTT
TATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCAAACAAGATGCACGCATAAAGTGTC
GATACA
Found at i:2433381 original size:21 final size:22
Alignment explanation
Indices: 2433355--2433397 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
2433345 GTCAACATAA
2433355 TGTATCGACAT-TTTTTAAATT
1 TGTATCGACATATTTTTAAATT
*
2433376 TGTATCGATATATTTTTAAATT
1 TGTATCGACATATTTTTAAATT
2433398 ACGCGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.53
Consensus pattern (22 bp):
TGTATCGACATATTTTTAAATT
Found at i:2439512 original size:2 final size:2
Alignment explanation
Indices: 2439505--2439533 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2439495 TTAATCTACA
2439505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2439534 ATTTACGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2439652 original size:85 final size:85
Alignment explanation
Indices: 2439553--2439770 Score: 332
Period size: 85 Copynumber: 2.6 Consensus size: 85
2439543 ATACAATCAC
* * * *
2439553 GACACAAAAATGTGTGTCATCTT-TTTTAATGACATCTGCTTCAATGACACGCAATGTAAGTCAT
1 GACACACAAATGTGTGTCATCTTCATTT-ATGACAGCGGCTTCAATGACACGCAATGTAAGTCAT
*
2439617 ACATGCGTGTCATAAATTTAT
65 ACATGCGTGCCATAAATTTAT
* *
2439638 GACACACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
1 GACACACAAATGTGTGTCATCTTCATTTATGACAGCGGCTTCAATGACACGCAATGTAAGTCATA
2439703 CATGCGTGCCATAAATTTAT
66 CATGCGTGCCATAAATTTAT
*
2439723 GACACACAAATGTGTGTCATCTTCATTTATGAC-GGGAGCTTCAATGAC
1 GACACACAAATGTGTGTCATCTTCATTTATGACAGCG-GCTTCAATGAC
2439771 GCACAATACG
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
84 3 0.02
85 118 0.95
86 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATCTTCATTTATGACAGCGGCTTCAATGACACGCAATGTAAGTCATA
CATGCGTGCCATAAATTTAT
Found at i:2439803 original size:85 final size:85
Alignment explanation
Indices: 2439553--2439795 Score: 263
Period size: 85 Copynumber: 2.9 Consensus size: 85
2439543 ATACAATCAC
* * **** * **
2439553 GACACAAAAATGTGTGTCATCTT-TTTTAATGACATCTGCTTCAATGACACGCAATGTAAGTCAT
1 GACACACAAATGTGTGTCATCTTCATTT-ATGACGGGAGCTTCAATGACACACAATACAAGTCAT
* * * *
2439617 ACATGCGTGTCATAAATTTAT
65 AAATGAGCGCCATAAATTTAT
* * **
2439638 GACACACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
1 GACACACAAATGTGTGTCATCTTCATTTATGACGGGAGCTTCAATGACACACAATACAAGTCATA
* * *
2439703 CATGCGTGCCATAAATTTAT
66 AATGAGCGCCATAAATTTAT
* **
2439723 GACACACAAATGTGTGTCATCTTCATTTATGACGGGAGCTTCAATGACGCACAATACGCGTCATA
1 GACACACAAATGTGTGTCATCTTCATTTATGACGGGAGCTTCAATGACACACAATACAAGTCATA
2439788 AATGAGCG
66 AATGAGCG
2439796 TCGTAAATGT
Statistics
Matches: 140, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
85 137 0.98
86 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATCTTCATTTATGACGGGAGCTTCAATGACACACAATACAAGTCATA
AATGAGCGCCATAAATTTAT
Found at i:2440713 original size:2 final size:2
Alignment explanation
Indices: 2440708--2440742 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2440698 ACACACACAT
2440708 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2440743 TCCATACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2441236 original size:23 final size:23
Alignment explanation
Indices: 2441191--2441237 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
2441181 TATTTTATTT
*
2441191 TATAAGCGCTACCTATTACGTTA
1 TATAAGCGCTACCTAATACGTTA
*
2441214 TATAAGCGCTACCTAATATGTTA
1 TATAAGCGCTACCTAATACGTTA
2441237 T
1 T
2441238 TGTGCTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (23 bp):
TATAAGCGCTACCTAATACGTTA
Found at i:2441255 original size:158 final size:158
Alignment explanation
Indices: 2441043--2441424 Score: 649
Period size: 158 Copynumber: 2.4 Consensus size: 158
2441033 ATAATGTGCA
** * *
2441043 ACCTATTACGTTACT-TAAGTTCTACCTAATATGTTATTATGTTTGATAATGTTTCCAGTAATTA
1 ACCTATTACGTTA-TATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTA
2441107 ACCGGTTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
65 ACCGGTTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
* *
2441172 TAATTAACCTATTTTATTTTATAAGCGCT
130 AAATTAACCTATTTTATTATATAAGCGCT
* *
2441201 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAAATAA
1 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
*
2441266 CCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGA
66 CCGGTTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGA
2441331 AATTAACCTATTTTATTATATAAGCGCT
131 AATTAACCTATTTTATTATATAAGCGCT
* *
2441359 ACCTATTACTTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAATAATTAA
1 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
2441424 C
66 C
2441425 TTATTACATT
Statistics
Matches: 210, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
157 1 0.00
158 209 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (158 bp):
ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
CCGGTTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGA
AATTAACCTATTTTATTATATAAGCGCT
Found at i:2441395 original size:23 final size:23
Alignment explanation
Indices: 2441346--2441389 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2441336 ACCTATTTTA
*
2441346 TTATATAAGCGCTACCTATTACT
1 TTATATAAGCGCTACCTAATACT
2441369 TTATATAAGCGCTACCTAATA
1 TTATATAAGCGCTACCTAATA
2441390 TGTTATTGTG
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:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACT
Found at i:2441452 original size:23 final size:23
Alignment explanation
Indices: 2441426--2441470 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2441416 ATAATTAACT
*
2441426 TATTACATTATATAAGCGCTACA
1 TATTACATTATATAAGCACTACA
*
2441449 TATTATATTATATAAGCACTAC
1 TATTACATTATATAAGCACTAC
2441471 CTAATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (23 bp):
TATTACATTATATAAGCACTACA
Found at i:2441477 original size:87 final size:87
Alignment explanation
Indices: 2441331--2441501 Score: 254
Period size: 87 Copynumber: 2.0 Consensus size: 87
2441321 CAAATTAAGA
** * * *
2441331 AATTAACCTATTTTATTATATAAGCGCTACCTATTACTTTATATAAGCGCTACCTAATATGTTAT
1 AATTAACCTATTACATTATATAAGCGCTACATATTACTTTATATAAGCACTACCTAATATATTAT
* *
2441396 TGTGCTTGATAATGTTTCCAAT
66 TGTACTTGATAATATTTCCAAT
*
2441418 AATTAACTTATTACATTATATAAGCGCTACATATTA-TATTATATAAGCACTACCTAATATATTA
1 AATTAACCTATTACATTATATAAGCGCTACATATTACT-TTATATAAGCACTACCTAATATATTA
2441482 TTGTACTTGATAATATTTCC
65 TTGTACTTGATAATATTTCC
2441502 GGTTAAATGA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
86 1 0.01
87 74 0.99
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (87 bp):
AATTAACCTATTACATTATATAAGCGCTACATATTACTTTATATAAGCACTACCTAATATATTAT
TGTACTTGATAATATTTCCAAT
Found at i:2441478 original size:23 final size:23
Alignment explanation
Indices: 2441432--2441482 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
2441422 AACTTATTAC
* *
2441432 ATTATATAAGCGCTACATATTAT
1 ATTATATAAGCACTACATAATAT
*
2441455 ATTATATAAGCACTACCTAATAT
1 ATTATATAAGCACTACATAATAT
2441478 ATTAT
1 ATTAT
2441483 TGTACTTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (23 bp):
ATTATATAAGCACTACATAATAT
Found at i:2443181 original size:20 final size:21
Alignment explanation
Indices: 2443137--2443227 Score: 116
Period size: 21 Copynumber: 4.4 Consensus size: 21
2443127 GATTCTGACT
*
2443137 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGTAAA
2443158 ATCGCAACGCGTATCCGT-AA
1 ATCGCAACGCGTATCCGTAAA
* *
2443178 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGTAAA
*
2443199 ATTGCAACGCGTATCCGT-AA
1 ATCGCAACGCGTATCCGTAAA
2443219 ATCGCAACG
1 ATCGCAACG
2443228 AGATTCTGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
20 27 0.45
21 33 0.55
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGTATCCGTAAA
Found at i:2443182 original size:41 final size:41
Alignment explanation
Indices: 2443137--2443230 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
2443127 GATTCTGACT
* *
2443137 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
2443178 ATCGCAACGACAATACGTAAAATTGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
2443219 ATCGCAACGAGA
1 ATCGCAACGAGA
2443231 TTCTGACTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:2444114 original size:24 final size:24
Alignment explanation
Indices: 2444087--2444140 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2444077 GTATTCGAAA
2444087 TTTGATATTGGTCAATACTCGGAC
1 TTTGATATTGGTCAATACTCGGAC
* *
2444111 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACTCGGAC
2444135 TTTGAT
1 TTTGAT
2444141 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATATTGGTCAATACTCGGAC
Found at i:2446714 original size:19 final size:19
Alignment explanation
Indices: 2446690--2446828 Score: 127
Period size: 19 Copynumber: 7.7 Consensus size: 19
2446680 GCAACGAGAG
2446690 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2446709 AATCGCAA--CG---TGAA
1 AATCGCAATGCGAAATGAA
*
2446723 AATCGCAAAGCGAATATGAA
1 AATCGCAATGCGAA-ATGAA
* * *
2446743 TATCGCAACGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
*
2446763 TATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2446782 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
2446796 AATCGCAAAGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2446815 AATCGCAATGCGAA
1 AATCGCAATGCGAA
2446829 TTTAGTTTTG
Statistics
Matches: 99, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
14 22 0.22
15 1 0.01
16 4 0.04
17 4 0.04
18 1 0.01
19 37 0.37
20 27 0.27
21 3 0.03
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2446714 original size:33 final size:33
Alignment explanation
Indices: 2446677--2446822 Score: 175
Period size: 33 Copynumber: 4.2 Consensus size: 33
2446667 AGAAATTACT
*
2446677 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAAAGCGAAATGAAA
* * *
2446710 ATCGCAACGTGAAAATCGCAAAGCGAATATGAAT
1 ATCGCAACGAGAGAATCGCAAAGCGAA-ATGAAA
* *
2446744 ATCGCAACGCGGAAATGACTATCGCAATGCGAAATGAAA
1 ATCGCAA--C-GAGA-GA--ATCGCAAAGCGAAATGAAA
2446783 ATCGCAACGAGAGAATCGCAAAGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAAAGCGAAATGAAA
2446816 ATCGCAA
1 ATCGCAA
2446823 TGCGAATTTA
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
33 49 0.52
34 12 0.13
35 2 0.02
36 4 0.04
37 3 0.03
38 1 0.01
39 12 0.13
40 12 0.13
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAAAGCGAAATGAAA
Found at i:2446867 original size:19 final size:19
Alignment explanation
Indices: 2446823--2446900 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 19
2446813 AAAATCGCAA
* *
2446823 TGCGAATTTAGTTTTGCGT
1 TGCGATTTTAGTTTCGCGT
2446842 TGCGATTTTAGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
2446861 TGTGATTTT-G--T--CGT
1 TGCGATTTTAGTTTCGCGT
*
2446875 TGCGATTTTTA-TTTCGCAT
1 TGCGA-TTTTAGTTTCGCGT
2446894 TGCGATT
1 TGCGATT
2446901 CTCTCGTTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
14 7 0.15
15 4 0.08
16 1 0.02
17 1 0.02
18 3 0.06
19 32 0.67
ACGTcount: A:0.13, C:0.13, G:0.24, T:0.50
Consensus pattern (19 bp):
TGCGATTTTAGTTTCGCGT
Found at i:2446876 original size:33 final size:32
Alignment explanation
Indices: 2446834--2446932 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 32
2446824 GCGAATTTAG
* *
2446834 TTTTG-CGTTGCGATTTTAGTTTCGCGTTGTGA
1 TTTTGTCGTTGCGATTTTA-TTTCGCATTGCGA
2446866 TTTTGTCGTTGCGATTTTTATTTCGCATTGCGA
1 TTTTGTCGTTGCGA-TTTTATTTCGCATTGCGA
* *
2446899 TTCTCTCGTTGCGATTTTCATTTCGCATTGCGA
1 TTTTGTCGTTGCGATTTT-ATTTCGCATTGCGA
2446932 T
1 T
2446933 AGTCATTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
32 9 0.15
33 46 0.77
34 5 0.08
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.49
Consensus pattern (32 bp):
TTTTGTCGTTGCGATTTTATTTCGCATTGCGA
Found at i:2446931 original size:19 final size:19
Alignment explanation
Indices: 2446874--2446932 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
2446864 GATTTTGTCG
*
2446874 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2446893 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2446907 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2446926 TTGCGAT
1 TTGCGAT
2446933 AGTCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 6 0.19
16 7 0.22
17 6 0.19
19 13 0.41
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2447058 original size:14 final size:14
Alignment explanation
Indices: 2447039--2447075 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2447029 CATCAATTAA
2447039 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2447053 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2447067 ACAAATCAA
1 ACAAATCAA
2447076 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2448959 original size:14 final size:14
Alignment explanation
Indices: 2448940--2448991 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
2448930 GCGAAACAAA
2448940 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2448954 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2448973 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2448987 AATCG
1 AATCG
2448992 TAATGCGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.48
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.32
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2448961 original size:33 final size:33
Alignment explanation
Indices: 2448920--2449015 Score: 156
Period size: 33 Copynumber: 2.9 Consensus size: 33
2448910 AACGCAAAAT
**
2448920 GAATCGCAACGCGAAACAAAAATCGCAACGAGA
1 GAATCGCAACGCGAAATGAAAATCGCAACGAGA
2448953 GAATCGCAACGCGAAATGAAAATCGCAACGAGA
1 GAATCGCAACGCGAAATGAAAATCGCAACGAGA
* *
2448986 GAATCGTAATGCGAAATGAAAATCGCAACG
1 GAATCGCAACGCGAAATGAAAATCGCAACG
2449016 CGATTATAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAATCGCAACGCGAAATGAAAATCGCAACGAGA
Found at i:2449018 original size:19 final size:19
Alignment explanation
Indices: 2448881--2449018 Score: 84
Period size: 19 Copynumber: 7.8 Consensus size: 19
2448871 TCTGGAACTT
*
2448881 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
** *
2448902 ACTATCGCAACGCAAAATG
1 AAAATCGCAACGCGAAATG
**
2448921 --AATCGCAACGCGAAACA
1 AAAATCGCAACGCGAAATG
2448938 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
2448952 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
2448971 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* * *
2448985 AGAATCGTAATGCGAAATG
1 AAAATCGCAACGCGAAATG
2449004 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2449019 TTATAGTTTC
Statistics
Matches: 89, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.04
17 17 0.19
18 2 0.02
19 36 0.40
21 10 0.11
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:2449074 original size:19 final size:19
Alignment explanation
Indices: 2449025--2449077 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
2449015 GCGATTATAG
* **
2449025 TTTCGCGTTGCAATTTTGG
1 TTTCGCGTTGCGATTTTCA
2449044 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
2449063 TTTCGCGTTGCGATT
1 TTTCGCGTTGCGATT
2449078 CTCTCGTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:2449341 original size:94 final size:94
Alignment explanation
Indices: 2449195--2449574 Score: 640
Period size: 94 Copynumber: 4.1 Consensus size: 94
2449185 ATGGATTGCA
* *
2449195 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
2449259 TTAGCATAATTGGCAGCAACCGAACAAAT
66 TTAGCATAATTGGCAGCAACCGAACAAAT
*
2449288 TTACTTTTAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
2449353 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCATAATTGGCAGCAACCGAACAAAT
*
2449382 TTACTTTCAACCAAAAGACAAAACAAAGATAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
2449447 TTAGCATAATTGGCAGCAACCGAATAAAT
66 TTAGCATAATTGGCAGCAACCGAACAAAT
* *
2449476 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTTACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
*
2449540 TTTAGCAGT-ATTGGCAGCAACCGAATAAAT
65 TTTAGCA-TAATTGGCAGCAACCGAACAAAT
2449570 TTACT
1 TTACT
2449575 AAGCAATCTA
Statistics
Matches: 272, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
93 23 0.08
94 248 0.91
95 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCATAATTGGCAGCAACCGAACAAAT
Found at i:2450403 original size:21 final size:22
Alignment explanation
Indices: 2450361--2450403 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2450351 AATAACAAAC
*
2450361 ATTAGTAATTGTTAAATAATTA
1 ATTAGTAATTGTTAAAAAATTA
2450383 ATTA-TAATT-TTAAAAACATTA
1 ATTAGTAATTGTTAAAAA-ATTA
2450404 TATAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTAGTAATTGTTAAAAAATTA
Found at i:2451284 original size:20 final size:20
Alignment explanation
Indices: 2451261--2451316 Score: 96
Period size: 20 Copynumber: 2.8 Consensus size: 20
2451251 TGAAATGAAA
2451261 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
2451281 ATCGCAACGCAGA-AATGACT
1 ATCGCAACG-AGAGAATGACT
2451301 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
2451317 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:2451338 original size:19 final size:19
Alignment explanation
Indices: 2451252--2451364 Score: 101
Period size: 19 Copynumber: 6.1 Consensus size: 19
2451242 TCTTTTGGTT
*
2451252 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
**
2451271 GAGAATGACTATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2451291 AGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2451309 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2451325 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2451344 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2451363 GA
1 GA
2451365 TTTTGGTTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 2 0.03
17 1 0.01
18 2 0.03
19 33 0.42
20 28 0.36
21 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2451423 original size:20 final size:20
Alignment explanation
Indices: 2451371--2451448 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
2451361 GCGATTTTGG
*
2451371 TTTCGCGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
**
2451391 TTCTC-TCGTTGCGATAGTCAT
1 TT-TCGT-GTTGCGATTTTCAT
2451412 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
**
2451432 TTTTATGTTGCGATTTT
1 TTTCGTGTTGCGATTTT
2451449 AAGTTTAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 31 0.65
21 17 0.35
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.53
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:2451772 original size:17 final size:17
Alignment explanation
Indices: 2451750--2451783 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2451740 CATTTCTGAA
2451750 TGATTGTGAGGGATTTC
1 TGATTGTGAGGGATTTC
2451767 TGATTGTGAGGGATTTC
1 TGATTGTGAGGGATTTC
2451784 GCCGGAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.35, T:0.41
Consensus pattern (17 bp):
TGATTGTGAGGGATTTC
Found at i:2452034 original size:20 final size:20
Alignment explanation
Indices: 2452000--2452191 Score: 142
Period size: 20 Copynumber: 9.4 Consensus size: 20
2451990 TTAAAAATCG
2452000 CGTTGCGATTTTACGTATTGT
1 CGTTGCGA-TTTACGTATTGT
* * *
2452021 CGTTGTGATTTACGGATACG-
1 CGTTGCGATTTACGTAT-TGT
* *
2452041 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGTATTGT
* *
2452061 TGTTGCGATTTACAG-ATACG-
1 CGTTGCGATTTAC-GTAT-TGT
*
2452081 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGTATTGT
* *
2452101 CGTTGCGATTTACGGATACG-
1 CGTTGCGATTTACGTAT-TGT
2452121 CGTTGCGATTTTACGTATTGT
1 CGTTGCGA-TTTACGTATTGT
* *
2452142 CGTTGCGATTTACGGATACG-
1 CGTTGCGATTTACGTAT-TGT
* **
2452162 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGTATTGT
2452183 CGTTGCGAT
1 CGTTGCGAT
2452192 AGTCAGAATC
Statistics
Matches: 135, Mismatches: 24, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
19 1 0.01
20 91 0.67
21 43 0.32
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTACGTATTGT
Found at i:2452058 original size:40 final size:40
Alignment explanation
Indices: 2451998--2452252 Score: 289
Period size: 40 Copynumber: 6.3 Consensus size: 40
2451988 CTTTAAAAAT
* *
2451998 CGCGTTGCGATTTTACGTATTGTCGTTGTGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATA
* * *
2452039 CGCATTGCGATTTACGTATTCTTGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
2452079 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
*
2452119 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATA
* * * *
2452160 CGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-A
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGAT-TTACGGATA
** * * * ** *
2452200 TCGCGTTGCGATTTATATGTTCGCGTTGCGATTTTCATATT
1 -CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
2452241 CGCGTTGCGATT
1 CGCGTTGCGATT
2452253 CTGGAAAATC
Statistics
Matches: 186, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 104 0.56
41 80 0.43
42 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (40 bp):
CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
Found at i:2452213 original size:41 final size:41
Alignment explanation
Indices: 2451998--2452191 Score: 302
Period size: 40 Copynumber: 4.8 Consensus size: 41
2451988 CTTTAAAAAT
* *
2451998 CGCGTTGCGATTTTACGTATTGTCGTTGTGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* * *
2452039 CGCATTGCGA-TTTACGTATTCTTGTTGCGATTTACAGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
2452079 CGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
*
2452119 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* *
2452160 CGCGTTGCGATTTTACGGATACTCGTTGCGAT
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGAT
2452192 AGTCAGAATC
Statistics
Matches: 140, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 73 0.52
41 67 0.48
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (41 bp):
CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
Found at i:2452223 original size:20 final size:20
Alignment explanation
Indices: 2452200--2452252 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2452190 ATAGTCAGAA
*
2452200 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
2452220 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
2452240 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2452253 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:2452225 original size:61 final size:60
Alignment explanation
Indices: 2452079--2452251 Score: 154
Period size: 61 Copynumber: 2.9 Consensus size: 60
2452069 TTTACAGATA
* * * * * *
2452079 CGCGTTGCGATTTACGTATTCTCGTTGCGA-TTTACGGATACGCGTTGCGATTTTACGTAT
1 CGCGTTGCGATTTA-ATGTTCGCGTTGCGATTTTACGGATACGCGTTGCGATGTCACGAAT
* ** * *
2452139 TGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAAT
1 CG-CGTTGCGATTTAATG-TTCGCGTTGCGATTTTACGGATACGCGTTGCGAT-GTCACGAAT
** *
2452201 CGCGTTGCGATTTATATGTTCGCGTTGCGATTTT-CATATTCGCGTTGCGAT
1 CGCGTTGCGATTTA-ATGTTCGCGTTGCGATTTTACGGATACGCGTTGCGAT
2452252 TCTGGAAAAT
Statistics
Matches: 90, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
60 14 0.16
61 49 0.54
62 25 0.28
63 2 0.02
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (60 bp):
CGCGTTGCGATTTAATGTTCGCGTTGCGATTTTACGGATACGCGTTGCGATGTCACGAAT
Found at i:2453724 original size:38 final size:39
Alignment explanation
Indices: 2453681--2453757 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 39
2453671 TTACTTTTTA
2453681 AAATTTAGTTTTTATATTAATTAT-AATT-TATATATTAT
1 AAATTTAGTTTTTATATTAATT-TCAATTCTATATATTAT
* *
2453719 AAATTTGGTTTTTATATTAATTTCAATTCTTTATATTAT
1 AAATTTAGTTTTTATATTAATTTCAATTCTATATATTAT
2453758 TTATATTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
37 1 0.03
38 25 0.71
39 9 0.26
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (39 bp):
AAATTTAGTTTTTATATTAATTTCAATTCTATATATTAT
Found at i:2457050 original size:18 final size:18
Alignment explanation
Indices: 2457027--2457062 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2457017 AAGCAAAAGG
*
2457027 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
2457045 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
2457063 CAACTGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:2457445 original size:20 final size:20
Alignment explanation
Indices: 2457420--2457457 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2457410 AATAAGAGTA
*
2457420 GCGAATTTGACTTTCGCATT
1 GCGAATTTGACTATCGCATT
2457440 GCGAATTTGACTATCGCA
1 GCGAATTTGACTATCGCA
2457458 ACGCTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
GCGAATTTGACTATCGCATT
Found at i:2457598 original size:25 final size:25
Alignment explanation
Indices: 2457564--2457615 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
2457554 AACAAATCAA
*
2457564 TTAAACATTGTTGTGGGTACATTAT
1 TTAAACATTGTTATGGGTACATTAT
2457589 TTAAACATTGTTATGGGTACATTAT
1 TTAAACATTGTTATGGGTACATTAT
2457614 TT
1 TT
2457616 GGAAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (25 bp):
TTAAACATTGTTATGGGTACATTAT
Found at i:2458024 original size:18 final size:18
Alignment explanation
Indices: 2458003--2458039 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2457993 GTAATTGGAG
2458003 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
*
2458021 TTTGAATTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2458039 T
1 T
2458040 ATAAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2458046 original size:18 final size:18
Alignment explanation
Indices: 2458007--2458047 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2457997 TTGGAGTTTG
* *
2458007 AATTTAAATTTCAATTTG
1 AATTTAAATTTCAATATA
*
2458025 AATTTGAATTTCAATATA
1 AATTTAAATTTCAATATA
2458043 AATTT
1 AATTT
2458048 TGACTCCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (18 bp):
AATTTAAATTTCAATATA
Found at i:2458385 original size:39 final size:39
Alignment explanation
Indices: 2458342--2458428 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
2458332 TCTGATGCTC
* *
2458342 ATCAAAATCCAAAGCTCATATGGTACCAAGTAAAAGGAA
1 ATCAAAATCCAAAGATCATATGGTACCAAGCAAAAGGAA
* *
2458381 ATCAAAATCCAAATATCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGATCATATGGTACCAAGCAAAAGGAA
2458420 ATCAAAATC
1 ATCAAAATC
2458429 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGATCATATGGTACCAAGCAAAAGGAA
Found at i:2458631 original size:20 final size:20
Alignment explanation
Indices: 2458608--2458645 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2458598 CAATCAACGT
2458608 GAAAGTCAAATTTGCAACCC
1 GAAAGTCAAATTTGCAACCC
2458628 GAAAGTCAAATTTGCAAC
1 GAAAGTCAAATTTGCAAC
2458646 GCAAAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (20 bp):
GAAAGTCAAATTTGCAACCC
Found at i:2460277 original size:21 final size:21
Alignment explanation
Indices: 2460253--2460325 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
2460243 GGCGGGACCA
2460253 CTTGAACGATGACAGGGGCCT
1 CTTGAACGATGACAGGGGCCT
* ** *
2460274 CTTGAACGGTGGGAGGGGCTT
1 CTTGAACGATGACAGGGGCCT
* *
2460295 CTTCG-ATGATGATAGGGGCCT
1 CTT-GAACGATGACAGGGGCCT
2460316 CTTGAACGAT
1 CTTGAACGAT
2460326 AGGAGGCACC
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTTGAACGATGACAGGGGCCT
Found at i:2460328 original size:18 final size:20
Alignment explanation
Indices: 2460305--2460342 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2460295 CTTCGATGAT
2460305 GATAGG-GG-CCTCTTGAAC
1 GATAGGAGGACCTCTTGAAC
2460323 GATAGGAGGCACCTCTTGAA
1 GATAGGAGG-ACCTCTTGAA
2460343 TGATGATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
21 9 0.53
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (20 bp):
GATAGGAGGACCTCTTGAAC
Found at i:2460346 original size:42 final size:42
Alignment explanation
Indices: 2460253--2460352 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
2460243 GGCGGGACCA
* * * * ** *
2460253 CTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGGCTT
1 CTTGAATGATGATAGGGGCCTCTTGAACGATAGGAGGCACCT
2460295 CTTCG-ATGATGATAGGGGCCTCTTGAACGATAGGAGGCACCT
1 CTT-GAATGATGATAGGGGCCTCTTGAACGATAGGAGGCACCT
2460337 CTTGAATGATGATAGG
1 CTTGAATGATGATAGG
2460353 TGTATCAGGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 47 0.96
43 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (42 bp):
CTTGAATGATGATAGGGGCCTCTTGAACGATAGGAGGCACCT
Found at i:2460522 original size:4 final size:4
Alignment explanation
Indices: 2460492--2460537 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
2460482 GGGCTGCTGA
* * *
2460492 AAAT AAAT TAAT ATAT AAAT CAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
2460538 TGCCAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:2462612 original size:13 final size:13
Alignment explanation
Indices: 2462594--2462625 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2462584 GGGTTTCTTT
2462594 AACAAAAAGACAA
1 AACAAAAAGACAA
*
2462607 AACAAAAAGATAA
1 AACAAAAAGACAA
2462620 AACAAA
1 AACAAA
2462626 GACAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.78, C:0.12, G:0.06, T:0.03
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:2462870 original size:22 final size:22
Alignment explanation
Indices: 2462842--2462883 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2462832 GAGATAGACG
*
2462842 GATTTCGTCTGAAATGGGGAAT
1 GATTTCGTCGGAAATGGGGAAT
*
2462864 GATTTCGTCGGAGATGGGGA
1 GATTTCGTCGGAAATGGGGA
2462884 CGGATGTCGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.10, G:0.38, T:0.29
Consensus pattern (22 bp):
GATTTCGTCGGAAATGGGGAAT
Found at i:2463041 original size:20 final size:20
Alignment explanation
Indices: 2463016--2463100 Score: 136
Period size: 20 Copynumber: 4.2 Consensus size: 20
2463006 ACGTAAAAAC
2463016 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
2463036 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
2463056 ATTTGAC-TTCTGTGTTGCGA
1 ATTTGACTTTC-GCGTTGCGA
2463076 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
2463096 ATTTG
1 ATTTG
2463101 GAAAATCGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.03
20 54 0.92
21 3 0.05
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:2463116 original size:21 final size:21
Alignment explanation
Indices: 2463092--2463158 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
2463082 CTTTCGCGTT
2463092 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
2463113 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* *
2463134 GCGGATTTGGAAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
2463155 GCGA
1 GCGA
2463159 TTTACATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:2463215 original size:20 final size:20
Alignment explanation
Indices: 2463170--2463219 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2463160 TTACATATTC
*
2463170 GTGTTGCAAAATTGGAAACT
1 GTGTTGCGAAATTGGAAACT
* **
2463190 GGGTTGCGAAATTGGAATTT
1 GTGTTGCGAAATTGGAAACT
2463210 GTGTTGCGAA
1 GTGTTGCGAA
2463220 TTTGTTGTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (20 bp):
GTGTTGCGAAATTGGAAACT
Found at i:2463390 original size:11 final size:11
Alignment explanation
Indices: 2463370--2463423 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
2463360 ATATAGTATT
2463370 ATAGTTTATAC
1 ATAGTTTATAC
*
2463381 ATAG--TATAT
1 ATAGTTTATAC
2463390 ATAGTTTATAC
1 ATAGTTTATAC
*
2463401 ATAG--TATAT
1 ATAGTTTATAC
2463410 ATAGTTTATAC
1 ATAGTTTATAC
2463421 ATA
1 ATA
2463424 AACTATATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.46
11 19 0.54
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (11 bp):
ATAGTTTATAC
Found at i:2463393 original size:9 final size:9
Alignment explanation
Indices: 2463359--2463419 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
2463349 ATATATAAAC
2463359 TATATAGTA
1 TATATAGTA
2463368 T-TATAGTTTA
1 TATATAG--TA
*
2463378 TACATAGTA
1 TATATAGTA
2463387 TATATAGTTTA
1 TATATAG--TA
*
2463398 TACATAGTA
1 TATATAGTA
*
2463407 TATATAGTT
1 TATATAGTA
2463416 TATA
1 TATA
2463420 CATAAACTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
8 5 0.12
9 22 0.52
10 3 0.07
11 12 0.29
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (9 bp):
TATATAGTA
Found at i:2463394 original size:20 final size:19
Alignment explanation
Indices: 2463369--2463481 Score: 127
Period size: 20 Copynumber: 5.6 Consensus size: 19
2463359 TATATAGTAT
2463369 TATAGTTTATACATAGTATA
1 TATAGTTTATACATA-TATA
2463389 TATAGTTTATACATAGTATA
1 TATAGTTTATACATA-TATA
*
2463409 TATAGTTTATACATAAACTA
1 TATAGTTTATACATATA-TA
*
2463429 TATAGTTTATATATATAATACA
1 TATAGTTTATACATAT-AT--A
* *
2463451 TATACTTTATACATAAACTA
1 TATAGTTTATACATATA-TA
2463471 TATAGTTTATA
1 TATAGTTTATA
2463482 TTAATTATAT
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.01
20 63 0.78
21 2 0.02
22 15 0.19
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.44
Consensus pattern (19 bp):
TATAGTTTATACATATATA
Found at i:2463454 original size:42 final size:40
Alignment explanation
Indices: 2463359--2463482 Score: 164
Period size: 40 Copynumber: 3.1 Consensus size: 40
2463349 ATATATAAAC
*
2463359 TATATAGTAT-TATAGTTTATACATAGTA-TATATAGTTTA
1 TATATAGTATATATAGTTTATACATA-AACTATATAGTTTA
*
2463398 TACATAGTATATATAGTTTATACATAAACTATATAGTTTA
1 TATATAGTATATATAGTTTATACATAAACTATATAGTTTA
*
2463438 TATATA-TAATACATATACTTTATACATAAACTATATAGTTTA
1 TATATAGT-AT--ATATAGTTTATACATAAACTATATAGTTTA
2463480 TAT
1 TAT
2463483 TAATTATATA
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
39 11 0.14
40 33 0.43
42 32 0.42
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (40 bp):
TATATAGTATATATAGTTTATACATAAACTATATAGTTTA
Found at i:2463492 original size:20 final size:19
Alignment explanation
Indices: 2463369--2463498 Score: 75
Period size: 20 Copynumber: 6.4 Consensus size: 19
2463359 TATATAGTAT
* *
2463369 TATAGTTTATACATAGTATA
1 TATAGTTTATA-TTAATATA
* *
2463389 TATAGTTTATACATAGTATA
1 TATAGTTTATA-TTAATATA
*
2463409 TATAGTTTATACATAA-ACTA
1 TATAGTTTATA-TTAATA-TA
*
2463429 TATAGTTTATATATATAATACA
1 TATAG-TT-TATAT-TAATATA
* *
2463451 TATACTTTATACATAA-ACTA
1 TATAGTTTATA-TTAATA-TA
2463471 TATAGTTTATATTAATTATA
1 TATAGTTTATATTAA-TATA
2463491 TATTAGTT
1 TA-TAGTT
2463499 ATTTTAATTT
Statistics
Matches: 92, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
19 5 0.05
20 64 0.70
21 10 0.11
22 12 0.13
23 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (19 bp):
TATAGTTTATATTAATATA
Found at i:2463954 original size:216 final size:215
Alignment explanation
Indices: 2463576--2464496 Score: 1531
Period size: 216 Copynumber: 4.3 Consensus size: 215
2463566 TGATCCCTTT
* * *
2463576 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGCTCAATTTAGTCCTCCACA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAA
2463641 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAAATTGGCCCATAAC
66 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAAATTGGCCCATAAC
*
2463706 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAATATCACAATTTAAAATTATTT
131 TTTTTAAATGGGTATAATTTAGTAC-TTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
2463771 TGATTTGATCCCTCATCAATG
195 TGATTTGATCCCTCATCAATG
*
2463792 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* * * *
2463857 TTTTATTTGCATCTAAAATTGACTCATACTTATTACTTATTTCTATTTTTAAATTAGCCCATAAC
66 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAAATTGGCCCATAAC
* *
2463922 TTTTTAAATGGGTATAATTTAGTAAATTTTTGTATTAATTTCAACACCACAATTTAAAATTACTT
131 TTTTTAAATGGGTATAATTTAGT-ACTTTTTGTATTAATTTCAACATCACAATTTAAAATTA---
* *
2463987 TTTTCGATTTGATCCCTCATAAATC
192 TTTT-GATTTGATCCCTCATCAATG
*
2464012 TATGTTGTTTAATTTATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* * *
2464077 TTTTATTTGCATCTGAAATTGACCCATGCTTATTACTTATTTCTATATTTAAATTGGCCCATAAC
66 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAAATTGGCCCATAAC
*
2464142 TTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTC
131 TTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTT
2464207 GATTTGATCCCTCATCAATG
196 GATTTGATCCCTCATCAATG
*
2464227 TGTGTTGTTTAATTTATTTAAAATTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* * *
2464292 TTTTATTTGCATCTGAAATTGATCCATACTTATTACTTAATTATATTTTTTTAATTGGCCCATAA
66 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATA-TTTTTAAATTGGCCCATAA
* * *
2464357 CTTTTTAAATGGATATAATTTAGTACTTTTTTTATTAATTTCAACCTCACAATTTAAAATTATTT
130 CTTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
2464422 TGATTTGATCCCTCATCAATG
195 TGATTTGATCCCTCATCAATG
2464443 TGTGTTGTTTAATTTATTTAAATTTTTATTT-TAATATT-ATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTATAAT-TTCATATTTGTTCAATTTA
2464497 ATTATTAAAT
Statistics
Matches: 662, Mismatches: 36, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
215 142 0.21
216 315 0.48
217 1 0.00
219 40 0.06
220 164 0.25
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (215 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAA
TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAAATTGGCCCATAAC
TTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTT
GATTTGATCCCTCATCAATG
Found at i:2464414 original size:435 final size:431
Alignment explanation
Indices: 2463578--2464496 Score: 1533
Period size: 435 Copynumber: 2.1 Consensus size: 431
2463568 ATCCCTTTTG
* *
2463578 TGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGCTCAATTTAGTCCTCCACATT
1 TGTTGTTTAATTTATTTAAATTTTTATTT-TAATTTCATATTTGTTCAATTTAGTCCTCCAAATT
*
2463643 TTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTT
65 TTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATATTTAAATTGGCCCATAACTT
* *
2463708 TTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAATATCACAATTTAAAATTATTTTG
130 TTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCG
* *
2463773 ATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTG
195 ATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAAATTTTATTTATAATTTCATATTTG
* *
2463838 TTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACTCATACTTATTACTTATTTCTAT
260 TTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACTCATACTTATTACTTAATTATAT
*
2463903 TTTTAAATTAGCCCATAACTTTTTAAATGGGTATAATTTAGTAAATTTTTGTATTAATTTCAACA
325 TTTTAAATTAGCCCATAACTTTTTAAATGGATATAATTTAGTAAATTTTTGTATTAATTTCAACA
2463968 CCACAATTTAAAATTACTTTTTTCGATTTGATCCCTCATAAATCTA
390 CCACAATTTAAAATTA---TTTT-GATTTGATCCCTCATAAATCTA
2464014 TGTTGTTTAATTTATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAATT
1 TGTTGTTTAATTTATTTAAATTTTTATTT-TAATTTCATATTTGTTCAATTTAGTCCTCCAAATT
* *
2464079 TTATTTGCATCTGAAATTGACCCATGCTTATTACTTATTTCTATATTTAAATTGGCCCATAACTT
65 TTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATATTTAAATTGGCCCATAACTT
2464144 TTTAAATGGGTATAATTTAGTAC-TTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCG
130 TTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCG
2464208 ATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAAATTTTATTTATAATTTCATATTTG
195 ATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAAATTTTATTTATAATTTCATATTTG
*
2464273 TTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAATTGA-TCCATACTTATTACTTAATTATA
260 TTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACT-CATACTTATTACTTAATTATA
* * * *
2464337 TTTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGT-ACTTTTTTTATTAATTTCAA
324 -TTTTTAAATTAGCCCATAACTTTTTAAATGGATATAATTTAGTAAATTTTTGTATTAATTTCAA
* * *
2464401 C-CTCACAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTG
388 CAC-CACAATTTAAAATTATTTTGATTTGATCCCTCATAAATCTA
2464445 TGTTGTTTAATTTATTTAAATTTTTATTTTAATATT-ATATTTGTTCAATTTA
1 TGTTGTTTAATTTATTTAAATTTTTATTTTAAT-TTCATATTTGTTCAATTTA
2464497 ATTATTAAAT
Statistics
Matches: 458, Mismatches: 21, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
430 20 0.04
431 50 0.11
432 4 0.01
434 2 0.00
435 195 0.43
436 187 0.41
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (431 bp):
TGTTGTTTAATTTATTTAAATTTTTATTTTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
TATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATATTTAAATTGGCCCATAACTTT
TTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGA
TTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAAATTTTATTTATAATTTCATATTTGT
TCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACTCATACTTATTACTTAATTATATT
TTTAAATTAGCCCATAACTTTTTAAATGGATATAATTTAGTAAATTTTTGTATTAATTTCAACAC
CACAATTTAAAATTATTTTGATTTGATCCCTCATAAATCTA
Found at i:2464729 original size:14 final size:15
Alignment explanation
Indices: 2464710--2464741 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2464700 GACCCGATCA
2464710 GAACGA-ATCCGCCT
1 GAACGAGATCCGCCT
2464724 GAACGAGATCCGCCT
1 GAACGAGATCCGCCT
2464739 GAA
1 GAA
2464742 GTCTATCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.12
Consensus pattern (15 bp):
GAACGAGATCCGCCT
Found at i:2465721 original size:44 final size:44
Alignment explanation
Indices: 2465628--2465916 Score: 189
Period size: 44 Copynumber: 6.6 Consensus size: 44
2465618 ATAATTTTGT
* * *
2465628 AATCTCACTTT-TAACTTTATAATTGAGGCTTTTAAGTTTTTTC
1 AATCTCACTTTCTACCTTTATAATTAAGGCTCTTAAGTTTTTTC
2465671 AATCTCACTTTCTACCTTT-TCAATTAAGGCATCTT-AGTTTTTTC
1 AATCTCACTTTCTACCTTTAT-AATTAAGGC-TCTTAAGTTTTTTC
** * *
2465715 AATCTCAAATTCTACCTTTATAATTGAGG-TCCCTAA-TTTTTT-
1 AATCTCACTTTCTACCTTTATAATTAAGGCT-CTTAAGTTTTTTC
* * * * *
2465757 AATATCACTTTTTTAACTTTATAATTGAGGCTCTTAAGCTTTTT-
1 AATCTCAC-TTTCTACCTTTATAATTAAGGCTCTTAAGTTTTTTC
* * * * * **
2465801 AATCTCACTTTCTAACTTTCTAAATTTGAGGCCCCTAAGAATTTTC
1 AATCTCACTTTCTACCTTTAT-AA-TTAAGGCTCTTAAGTTTTTTC
* * * * * * * **
2465847 GATCTCA-ATTATATCTTTATAATTGAGGCCCATACCTTTTTTC
1 AATCTCACTTTCTACCTTTATAATTAAGGCTCTTAAGTTTTTTC
** *
2465890 AATCTCAAATTATACCTTTATAATTAA
1 AATCTCACTTTCTACCTTTATAATTAA
2465917 TGCCACTATT
Statistics
Matches: 199, Mismatches: 34, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
42 7 0.04
43 75 0.38
44 82 0.41
45 29 0.15
46 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.46
Consensus pattern (44 bp):
AATCTCACTTTCTACCTTTATAATTAAGGCTCTTAAGTTTTTTC
Found at i:2465865 original size:131 final size:128
Alignment explanation
Indices: 2465599--2465876 Score: 335
Period size: 131 Copynumber: 2.1 Consensus size: 128
2465589 ATCCCTTTTT
* * * *
2465599 TACCTTTAAAATTGATGCCATAATTTTGTAATCTCACTTTTAACTTTATAATTGAGGCTTTTAAG
1 TACCTTTATAATTGAGGCCATAATTTTGTAATATCACTTTTAACTTTATAATTGAGGCTCTTAAG
* * * * * ** *
2465664 TTTTTTCAATCTCACTTTCTACCTTTTCAATTAAGGCATCTTAGTTTTTTCAATCTCAAATTC
66 CTTTTTCAATCTCACTTTCTAACTTTTAAATTAAGGCACCTAAGAATTTTCAATCTCAAATTA
* *
2465727 TACCTTTATAATTGAGGTCCCTAATTTTTTAATATCACTTTTTTAACTTTATAATTGAGGCTCTT
1 TACCTTTATAATTGAGG-CCATAATTTTGTAATATCAC--TTTTAACTTTATAATTGAGGCTCTT
* * *
2465792 AAGCTTTTT-AATCTCACTTTCTAACTTTCTAAATTTGAGGCCCCTAAGAATTTTCGATCTC-AA
63 AAGCTTTTTCAATCTCACTTTCTAACTTT-TAAA-TTAAGGCACCTAAGAATTTTCAATCTCAAA
2465855 TTA
126 TTA
*
2465858 TATCTTTATAATTGAGGCC
1 TACCTTTATAATTGAGGCC
2465877 CATACCTTTT
Statistics
Matches: 127, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
128 15 0.12
129 17 0.13
130 20 0.16
131 55 0.43
132 20 0.16
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.46
Consensus pattern (128 bp):
TACCTTTATAATTGAGGCCATAATTTTGTAATATCACTTTTAACTTTATAATTGAGGCTCTTAAG
CTTTTTCAATCTCACTTTCTAACTTTTAAATTAAGGCACCTAAGAATTTTCAATCTCAAATTA
Found at i:2465876 original size:43 final size:44
Alignment explanation
Indices: 2465710--2465914 Score: 116
Period size: 43 Copynumber: 4.7 Consensus size: 44
2465700 CATCTTAGTT
* *
2465710 TTTTCAATCTCAAATTCTACCTTTATAATTGAGGTCCC-T-A-AT
1 TTTTCAATCTCAAATTATACCTTTATAATTGAGG-CCCATAACAA
* * ** * * * *
2465752 TTTTTAATATCACTTTTTTAACTTTATAATTGAGGCTCTTAAGC--
1 TTTTCAATCTCA-AATTATACCTTTATAATTGAGGCCCATAA-CAA
* ** * * * * *
2465796 TTTTTAATCTCACTTTCTAACTTTCTAAATTTGAGGCCCCTAAGAA
1 TTTTCAATCTCAAATTATACCTTTAT-AA-TTGAGGCCCATAACAA
* * * **
2465842 TTTTCGATCTC-AATTATATCTTTATAATTGAGGCCCATACCTT
1 TTTTCAATCTCAAATTATACCTTTATAATTGAGGCCCATAACAA
2465885 TTTTCAATCTCAAATTATACCTTTATAATT
1 TTTTCAATCTCAAATTATACCTTTATAATT
2465915 AATGCCACTA
Statistics
Matches: 125, Mismatches: 28, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
42 12 0.10
43 51 0.41
44 33 0.26
45 20 0.16
46 9 0.07
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.45
Consensus pattern (44 bp):
TTTTCAATCTCAAATTATACCTTTATAATTGAGGCCCATAACAA
Found at i:2466860 original size:24 final size:24
Alignment explanation
Indices: 2466833--2466925 Score: 98
Period size: 24 Copynumber: 3.9 Consensus size: 24
2466823 ATGGAGATAT
* *
2466833 CAGAAATCAAAACAAAATTCAGAA
1 CAGAAATCAGAACAGAATTCAGAA
* * *
2466857 CAGATATCAGAACAGAATCCAGAT
1 CAGAAATCAGAACAGAATTCAGAA
**
2466881 CAGAAATCAGAACAGAATTCAGGT
1 CAGAAATCAGAACAGAATTCAGAA
*
2466905 CATG-TATCAGAACAGAATTCA
1 CA-GAAATCAGAACAGAATTCA
2466926 AGTCGAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 58 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.17
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAA
Found at i:2466866 original size:12 final size:11
Alignment explanation
Indices: 2466837--2466922 Score: 64
Period size: 12 Copynumber: 7.3 Consensus size: 11
2466827 AGATATCAGA
* *
2466837 AATCAAAACAA
1 AATCAGAACAG
2466848 AATTCAGAACAG
1 AA-TCAGAACAG
2466860 ATATCAGAACAG
1 A-ATCAGAACAG
*
2466872 AATCCAGATCAG
1 AAT-CAGAACAG
2466884 AAATCAGAACAG
1 -AATCAGAACAG
**
2466896 AATTCAGGTCATG
1 AA-TCAGAACA-G
*
2466909 TATCAGAACAG
1 AATCAGAACAG
2466920 AAT
1 AAT
2466923 TCAAGTCGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
11 9 0.15
12 44 0.75
13 6 0.10
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (11 bp):
AATCAGAACAG
Found at i:2466902 original size:48 final size:48
Alignment explanation
Indices: 2466831--2466922 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
2466821 AAATGGAGAT
2466831 ATCAGAAATCAAAACAAAATTCAGAACA-GATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAAAATTCAGAACATG-TATCAGAACAGAATCCAG
* * **
2466879 ATCAGAAATCAGAACAGAATTCAGGTCATGTATCAGAACAGAAT
1 ATCAGAAATCAAAACAAAATTCAGAACATGTATCAGAACAGAAT
2466923 TCAAGTCGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATTCAGAACATGTATCAGAACAGAATCCAG
Found at i:2468744 original size:36 final size:36
Alignment explanation
Indices: 2468704--2468772 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
2468694 AATTATAATG
* *
2468704 TACATATCTATGGCTGATTCTTTTATCACTTAAATC
1 TACATATCCATGGATGATTCTTTTATCACTTAAATC
2468740 TACATATCCATGGATGATTCTTTTATCACTTAA
1 TACATATCCATGGATGATTCTTTTATCACTTAA
2468773 TTCCAGAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (36 bp):
TACATATCCATGGATGATTCTTTTATCACTTAAATC
Found at i:2470736 original size:18 final size:18
Alignment explanation
Indices: 2470715--2470760 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
2470705 GAATTGGATA
* *
2470715 TATTATTATTTTATTGAT
1 TATTATTATTTAATTAAT
* *
2470733 TATTTTTAATTAATTAAT
1 TATTATTATTTAATTAAT
2470751 TATTATTATT
1 TATTATTATT
2470761 ATATATGTGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTATTATTTAATTAAT
Found at i:2470910 original size:3 final size:3
Alignment explanation
Indices: 2470902--2470984 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
2470892 AACCCACAAG
2470902 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2470950 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2470985 GATGATGATG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2470989 original size:3 final size:3
Alignment explanation
Indices: 2470983--2471018 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
2470973 AATAATAATA
*
2470983 ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG A-G ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
2471019 ATCATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:2475321 original size:60 final size:59
Alignment explanation
Indices: 2475251--2475372 Score: 181
Period size: 60 Copynumber: 2.1 Consensus size: 59
2475241 AAAATTCAAA
* * * * *
2475251 AGTTTGGGGATGAAATTAGAATGTTTGAAAGTTTAAGAACTAATTTAGAATTAGAATCAT
1 AGTTTAGGGATGAAATTAGAATATTTAAAAGTTTAAGAACTAATTTAAAATAAG-ATCAT
*
2475311 AGTTTAGGGATGAAATTAGAATATTTAAAAGTTTAAGGACTAATTTAAAATAAGATCAT
1 AGTTTAGGGATGAAATTAGAATATTTAAAAGTTTAAGAACTAATTTAAAATAAGATCAT
2475370 AGT
1 AGT
2475373 CTAAGGACAT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
59 8 0.14
60 48 0.86
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (59 bp):
AGTTTAGGGATGAAATTAGAATATTTAAAAGTTTAAGAACTAATTTAAAATAAGATCAT
Found at i:2476683 original size:2 final size:2
Alignment explanation
Indices: 2476676--2476705 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2476666 TCTTTCTCTT
2476676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2476706 CACACTATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2484279 original size:29 final size:29
Alignment explanation
Indices: 2484212--2484272 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
2484202 AATTCATACC
* *
2484212 ACTAAACTTTTAAATACTTCAATTATAGT
1 ACTAAATTTTTAAATACTTCAATTATAAT
* *
2484241 ACTAAATTTTTAAATACTTCGATTGTAAT
1 ACTAAATTTTTAAATACTTCAATTATAAT
2484270 ACT
1 ACT
2484273 GGATTTTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.43
Consensus pattern (29 bp):
ACTAAATTTTTAAATACTTCAATTATAAT
Found at i:2488132 original size:24 final size:24
Alignment explanation
Indices: 2488105--2488204 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
2488095 GATATCAAAA
*
2488105 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * * *
2488129 ATCATAACAGAATCCAGGTTAGGA-
1 ATCAAAACAGAATTCAGATCA-GAT
* *
2488153 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
2488177 GTCAAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
2488201 ATCA
1 ATCA
2488205 GATAAAATAT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 2 0.03
24 54 0.93
25 2 0.03
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:2488204 original size:48 final size:48
Alignment explanation
Indices: 2488098--2488206 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
2488088 AAACGGAGAT
* * * * *
2488098 ATCAAAAATCAAAACATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
2488146 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
2488194 ATCAGAAATCAGA
1 ATCAGAAATCAGA
2488207 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:2490729 original size:13 final size:13
Alignment explanation
Indices: 2490711--2490735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2490701 CGATCAACGG
2490711 GTCAACGGGTCGA
1 GTCAACGGGTCGA
2490724 GTCAACGGGTCG
1 GTCAACGGGTCG
2490736 GGTTGGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:2490748 original size:18 final size:18
Alignment explanation
Indices: 2490727--2490762 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2490717 GGGTCGAGTC
* *
2490727 AACGGGTCGGGTTGGGTT
1 AACGAGTCGGGTAGGGTT
2490745 AACGAGTCGGGTAGGGTT
1 AACGAGTCGGGTAGGGTT
2490763 GTGACCGGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.11, G:0.47, T:0.25
Consensus pattern (18 bp):
AACGAGTCGGGTAGGGTT
Found at i:2490797 original size:11 final size:10
Alignment explanation
Indices: 2490769--2490833 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
2490759 GGTTGTGACC
*
2490769 GGTC-AAACC
1 GGTCAAAACA
2490778 GGTCAAAACA
1 GGTCAAAACA
* *
2490788 GTTCCAAAACC
1 GGT-CAAAACA
2490799 GGTC-AAACA
1 GGTCAAAACA
2490808 GGTCAAAACA
1 GGTCAAAACA
* *
2490818 GTTCCAAAACC
1 GGT-CAAAACA
2490829 GGTCA
1 GGTCA
2490834 CTTTTCCCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
9 12 0.27
10 16 0.36
11 16 0.36
ACGTcount: A:0.40, C:0.28, G:0.18, T:0.14
Consensus pattern (10 bp):
GGTCAAAACA
Found at i:2490802 original size:30 final size:30
Alignment explanation
Indices: 2490766--2490833 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
2490756 TAGGGTTGTG
*
2490766 ACCGGTCAAACCGGTCAAAACAGTTCCAAA
1 ACCGGTCAAACAGGTCAAAACAGTTCCAAA
2490796 ACCGGTCAAACAGGTCAAAACAGTTCCAAA
1 ACCGGTCAAACAGGTCAAAACAGTTCCAAA
2490826 ACCGGTCA
1 ACCGGTCA
2490834 CTTTTCCCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (30 bp):
ACCGGTCAAACAGGTCAAAACAGTTCCAAA
Found at i:2494916 original size:35 final size:35
Alignment explanation
Indices: 2494876--2494996 Score: 134
Period size: 35 Copynumber: 3.4 Consensus size: 35
2494866 ATGATCAACA
2494876 TGGTAATTCCTTATATAGGTTCAACACCAATCAGT
1 TGGTAATTCCTTATATAGGTTCAACACCAATCAGT
* * * *** ** * *
2494911 TGGTAATTCTTTATTGTAAGTTCAGTTCTGATAAAGC
1 TGGTAATTCCTTA-TATAGGTTCAACACCAAT-CAGT
2494948 TGGTAATTCCTTATATAGGTTCAACACCAATCAGT
1 TGGTAATTCCTTATATAGGTTCAACACCAATCAGT
2494983 TGGTAATTCCTTAT
1 TGGTAATTCCTTAT
2494997 GGACCTAAGG
Statistics
Matches: 64, Mismatches: 20, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
35 28 0.44
36 22 0.34
37 14 0.22
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (35 bp):
TGGTAATTCCTTATATAGGTTCAACACCAATCAGT
Found at i:2496785 original size:65 final size:65
Alignment explanation
Indices: 2496672--2496828 Score: 228
Period size: 65 Copynumber: 2.4 Consensus size: 65
2496662 ATAAGACTTA
* * *
2496672 GTGCATCGGTACACT-AATTACATTCGATGTTTCAAAAAATCCATGAGTGCATCGATGCATGG-T
1 GTGCATCGGTACA-TAAAATGCATTCGATGTTTCAAAAAATCCAAGAGTGCATCGATGCATGGCT
2496735 CT
65 -T
* *
2496737 GTGCATCGGTACATAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACATAAAATGCATTCGATGTTTCAAAAAATCCAAGAGTGCATCGATGCATGGCTT
*
2496802 GTGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACATAAAATGCATTCGA
2496829 AATGGGTGTG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
64 1 0.01
65 82 0.98
66 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTACATAAAATGCATTCGATGTTTCAAAAAATCCAAGAGTGCATCGATGCATGGCTT
Found at i:2499534 original size:25 final size:23
Alignment explanation
Indices: 2499517--2499571 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
2499507 ATGAAATTTG
2499517 TCCCGAAGGACCACTATGAAATA
1 TCCCGAAGGACCACTATGAAATA
* *
2499540 TCCCGAAGGATCACTAT---ATG
1 TCCCGAAGGACCACTATGAAATA
2499560 TCCCGAAGGACC
1 TCCCGAAGGACC
2499572 GCGTAGACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.45
23 16 0.55
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (23 bp):
TCCCGAAGGACCACTATGAAATA
Found at i:2500492 original size:21 final size:22
Alignment explanation
Indices: 2500449--2500493 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
2500439 TTCACATAGT
2500449 CTTATATTTCATTATCATATGA
1 CTTATATTTCATTATCATATGA
* *
2500471 CTTATATTT-ATTCTCCTATGA
1 CTTATATTTCATTATCATATGA
2500492 CT
1 CT
2500494 CTTCATAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (22 bp):
CTTATATTTCATTATCATATGA
Found at i:2501883 original size:65 final size:65
Alignment explanation
Indices: 2501805--2501927 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 65
2501795 GTTCAGATTA
* *
2501805 AAAATGGAAACATCGAATGT-AGTTAGTGCATCGATGCATTGGG-AGTGCATCGATGCACCCCCC
1 AAAATGAAAACATCGAAGGTGA-TTAGTGCATCGATGCA-TGGGTAGTGCATCGATGCACCCCCC
2501868 TT
64 TT
* * *
2501870 AAAATGAAAACATCGAAGGTGATTTGTGTATTGATGCATGGGTAGTGCATCGATGCAC
1 AAAATGAAAACATCGAAGGTGATTAGTGCATCGATGCATGGGTAGTGCATCGATGCAC
2501928 ATGTTAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 4 0.08
65 46 0.90
66 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (65 bp):
AAAATGAAAACATCGAAGGTGATTAGTGCATCGATGCATGGGTAGTGCATCGATGCACCCCCCTT
Found at i:2502726 original size:30 final size:30
Alignment explanation
Indices: 2502692--2502756 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
2502682 GGTTCTTCGG
2502692 GACCTATAGACAGTTACCGAGGATCTTTAT
1 GACCTATAGACAGTTACCGAGGATCTTTAT
* * *
2502722 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTATAGACAGTTACCGAGGATCTTTAT
2502752 GACCT
1 GACCT
2502757 CTGGATAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (30 bp):
GACCTATAGACAGTTACCGAGGATCTTTAT
Found at i:2502757 original size:30 final size:30
Alignment explanation
Indices: 2502703--2502764 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
2502693 ACCTATAGAC
2502703 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
2502733 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
2502763 AG
1 AG
2502765 GTCCTTCGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Done.