Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_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: 3902382
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 18
Found at i:2640002 original size:153 final size:153
Alignment explanation
Indices: 2638872--2640362 Score: 2249
Period size: 152 Copynumber: 9.8 Consensus size: 153
2638862 TTCATTGCCA
* * *
2638872 TTTTTTAAAGAGTTTTTAATCCAAACCCAATACATGAAACTTAAACGTATCTATAGTTTTTTTAT
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTAT
* * *
2638937 ATCTTTTTTTCCTAATAATGGAATGTGTTTGTCTTGTTCCCAATACACTGAAAACTTGTACAATG
66 ATCTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAATG
*
2639002 TAATCTTTTCCCTAATAGT-AAT
131 TAATCTTTTCCCTAACAGTGAAT
* * *
2639024 TTTTTTAAAGAGTTTCCAATCCAAACCCAATACATGAAACTTAAAAGTCTCTATAGTTTTTTTTA
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAG-TTTTTTTA
* * *
2639089 TAT-ATTTTTTCTTATTAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAAT
65 TATCTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAAT
*
2639153 GTAATCTTTTCCCTAACACTGAATT
130 GTAATCTTTTCCCTAACAGTGAA-T
* * *
2639178 TTTTTTAAAGAGTTTTCAATCGAAACCCAGTACATGAAACTTAAAAGTGTCTATAGTTTTTTTTT
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAG---TTTTTT
*
2639243 TATAT-TTTTTTTCCTAATAATGGAGTGTGTTTGTCTTGTTCCCAATACAGTGAAAACTTGTACA
63 TATATCTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACA
*
2639307 ATGTAATCTTTTCCCTAATAGTGAAT
128 ATGTAATCTTTTCCCTAACAGTGAAT
*
2639333 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTTAT
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTAT
*
2639398 ATC-TTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAATGAAAACTTGTACAATG
66 ATCTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAATG
*
2639462 TAAACTTTTCCCTAACAGTGAA-
131 TAATCTTTTCCCTAACAGTGAAT
*
2639484 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTT
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAG-TTTTTTTA
* * *
2639549 TATC-TTTTTTCCTAATAATGGAGTGTGTTTGTCTCCTTCCCAATACAATGAAAACTTGTATAAT
65 TATCTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAAT
*
2639613 GTAATCTTTTCCCTAACAGTGGA-
130 GTAATCTTTTCCCTAACAGTGAAT
* *
2639636 TTTTTTAAAGAGTTTTCAATCAAAACCCAATACAT-AAACTTAAAAGTGTCTATAG-TTTTTTAT
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTAT
2639699 ATCTTTTTTTCCTAATAATGGAGTGTGTTTGTCTTC-TTCCCAATACAGTGAAAACTTGTACAAT
66 ATCTTTTTTTCCTAATAATGGAGTGTGTTTGTC-TCGTTCCCAATACAGTGAAAACTTGTACAAT
2639763 GTAATCTTTTCCCTAACAGTGAAT
130 GTAATCTTTTCCCTAACAGTGAAT
* * *
2639787 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAATCTTAAATGAGTCTATAGTATTTTTAT
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTAT
** * * *
2639852 ATCTTTTTCCCCCCTAATAATGGAGTGTGTTTGTCTTGTTACCAATAAAG-GAAAACTTGTACAA
66 ATCTTTTT--TTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAA
2639916 TGTAATCTTTTCCCTAACAGTGAAT
129 TGTAATCTTTTCCCTAACAGTGAAT
* * *
2639941 TGTTTT-AAGAATTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTTTATAGATTTTTTAT
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAG-TTTTTT-T
* *
2640005 ATATGTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTGAAAACTTGTACAA
64 ATATCTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAA
2640070 TGTAATCTTTTCCCTAACAGTGAAT
129 TGTAATCTTTTCCCTAACAGTGAAT
* * * * *
2640095 TGTTTT-AAGAATTTTCAATCCAAACCCAATACATGAAACTTAAATTTGTTTATAGATTTTTTAT
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTAT
* * * **
2640159 ATATGTTTTTTCCTAATAATGGAGTGTGTTTGTCTCATTTCCAATACAGTGAAAAAATGTACAAT
66 ATCT-TTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAAT
2640224 GTAATCTTTTCCCTAACAGTG-AT
130 GTAATCTTTTCCCTAACAGTGAAT
*
2640247 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTGCT-GTTTTTTTA
1 TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCT-ATAGTTTTTTTA
** *
2640311 TATC-TTTTTTCCTAATAATGTTGTGTGTTTGTCTCGTTCCAAATACAGTGAA
65 TATCTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAA
2640363 TGTCATACCC
Statistics
Matches: 1237, Mismatches: 81, Indels: 43
0.91 0.06 0.03
Matches are distributed among these distances:
149 10 0.01
150 77 0.06
151 153 0.12
152 369 0.30
153 244 0.20
154 197 0.16
155 97 0.08
156 90 0.07
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.42
Consensus pattern (153 bp):
TTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTAT
ATCTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAATG
TAATCTTTTCCCTAACAGTGAAT
Found at i:2645723 original size:53 final size:53
Alignment explanation
Indices: 2645610--2645858 Score: 229
Period size: 53 Copynumber: 4.8 Consensus size: 53
2645600 TCTTCAAATG
* * * * * ****
2645610 ACGGGTTTGATCCCTCTTG-TTCAGGGATTAAGGAACTCGAACAATCTTCTAAAA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAAAAATCTTATGCCT
* * * * *
2645664 ACGGGTTCGCTCCCTATTACTTCAGGGAGTTGAACTCGAATAATCTTATGCTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAAAAATCTTATGCCT
* *
2645717 ATGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAAAAATCTTCTGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAAAAATCTTATGCCT
* * * * *
2645770 ACGGGTTCACTCCCTCTTGCATCAGGGTGTAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAAAAATCTTATGCCT
* * *
2645823 AC-AGTT--CTCCCTCTT-CTTCAAGGAGTAAAACTCGAA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAA
2645859 CAACATTCTG
Statistics
Matches: 165, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
49 17 0.10
50 9 0.05
52 3 0.02
53 112 0.68
54 15 0.09
55 9 0.05
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (53 bp):
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAAAAATCTTATGCCT
Found at i:2646418 original size:80 final size:80
Alignment explanation
Indices: 2646275--2646491 Score: 328
Period size: 80 Copynumber: 2.7 Consensus size: 80
2646265 ATCTCGCTCA
* * * *
2646275 GAAGACTTACAAATGACCCGAAGGATTTCATCATAATGCTCGAAAGACTTACTGATGAATTTGCT
1 GAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCT
*
2646340 TCACTACTCTTCGGT
66 TCACTACTCTTCCGT
* * *
2646355 GAAGGCTTACAAATTCCCCGAATGATTTAATCATCATGCTCGAAAGACTTACTGAT-AGGTTTGC
1 GAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGA-ATTTGC
*
2646419 TTCACTACTTTTCCGT
65 TTCACTACTCTTCCGT
*
2646435 GAAGGCTTACAAATTACCCTAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
1 GAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
2646492 GCCCGAAGGA
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 1 0.01
80 122 0.99
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (80 bp):
GAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCT
TCACTACTCTTCCGT
Found at i:2646503 original size:20 final size:20
Alignment explanation
Indices: 2646475--2646549 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
2646465 TCATCATGCT
2646475 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
* * *
2646495 CGAAGGACTTCATCATCAT-GCT
1 CGAAAGACTT-A-C-TGATGGCC
* *
2646517 CAAAAGACTTATTGATGGCC
1 CGAAAGACTTACTGATGGCC
*
2646537 CGAAGGACTTACT
1 CGAAAGACTTACT
2646550 AAGTGCGGAA
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
19 3 0.08
20 21 0.52
21 2 0.05
22 11 0.28
23 3 0.08
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:2646510 original size:42 final size:42
Alignment explanation
Indices: 2646455--2646547 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
2646445 AAATTACCCT
* *
2646455 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCG
1 AAGGACTTAATCATCATGCTCAAAAGACTTACTGATGGCCCG
* *
2646497 AAGGACTTCATCATCATGCTCAAAAGACTTATTGATGGCCCG
1 AAGGACTTAATCATCATGCTCAAAAGACTTACTGATGGCCCG
2646539 AAGGACTTA
1 AAGGACTTA
2646548 CTAAGTGCGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
AAGGACTTAATCATCATGCTCAAAAGACTTACTGATGGCCCG
Found at i:2646745 original size:42 final size:41
Alignment explanation
Indices: 2646664--2646764 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
2646654 AGGTCTTATG
* ** *
2646664 GATGACCCGAAGGACTTATCATCTTGCTTTAAAGGCTTACA
1 GATGACCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
* * *
2646705 GATGACTCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGACTT-ATCATCATGCTCGAAAGACTTACA
* *
2646747 GATGGCCCGAGGGACTTA
1 GATGACCCGAAGGACTTA
2646765 AATTGTTTAC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 16 0.33
42 32 0.67
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (41 bp):
GATGACCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:2657004 original size:24 final size:24
Alignment explanation
Indices: 2656977--2657056 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
2656967 ATTTTCGATT
* *
2656977 TGAATTCTGTTCTGATACCTGACC
1 TGAATTCTGTTCTGATATCTGATC
* *
2657001 TGAATTATGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
* * *
2657025 TGGATTCTGTTATGATATTTGATC
1 TGAATTCTGTTCTGATATCTGATC
2657049 TGAATTCT
1 TGAATTCT
2657057 TTTTGGATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.46
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:2657071 original size:24 final size:23
Alignment explanation
Indices: 2656965--2657056 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 23
2656955 ATGTTTTATC
* *
2656965 TGATTTTCGATTTGAATTCTGTTC
1 TGATTTT-GATCTGAATTCTGTTA
** * * *
2656989 TGATACCTGACCTGAATTATGTTC
1 TGAT-TTTGATCTGAATTCTGTTA
*
2657013 TGATTTCTGATCTGGATTCTGTTA
1 TGATTT-TGATCTGAATTCTGTTA
2657037 TGATATTTGATCTGAATTCT
1 TGAT-TTTGATCTGAATTCT
2657057 TTTTGGATTT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
24 50 0.94
25 3 0.06
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (23 bp):
TGATTTTGATCTGAATTCTGTTA
Found at i:2658323 original size:155 final size:154
Alignment explanation
Indices: 2657859--2658621 Score: 1246
Period size: 163 Copynumber: 4.9 Consensus size: 154
2657849 GGTTATAGTA
* *
2657859 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAATTTTCACTCCAAAC
1 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAA-TTTTTTTAAAGAGTTTTCAATCCAAAC
*
2657924 CCAATACATGAAACTTAAATGTGTCTATAG-TTTTTTTTATATCTTTTTTTCCTAATAATGGAGT
65 CCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTTATAT-ATTTTTTCCTAATAATGGAGT
*
2657988 GTGTTTGTCTTGTTCCCAATACAATG
129 GTGTTTGTCTCGTTCCCAATACAATG
* *
2658014 AAAACTTGTACAATGAAATCTTTTCCCTAACAGTGAATTTGTTTAAAGAGTTTTCAATCCAAACC
1 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTAAAGAGTTTTCAATCCAAACC
* *
2658079 CAATATATGAAACTTAAATGTGTCTATAG--TTTTTTTATATCTTTTTTCCTAATAATGGAGTGT
66 CAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTTATATATTTTTTCCTAATAATGGAGTGT
* *
2658142 GTTTGTCTCGTTTCCAATACAGTG
131 GTTTGTCTCGTTCCCAATACAATG
*
2658166 AAAACTTGTACAATGTAATCTTTTCCCTGACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAAC
1 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAA-TTTTTTTAAAGAGTTTTCAATCCAAAC
*
2658231 CCAATACATGAAACTTAAACGTGTCTATAGTTTTTTTTTATATATTTTTTCCTAATAATGGAGTG
65 CCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTTATATATTTTTTCCTAATAATGGAGTG
2658296 TGTTTGTCTCGTTCCCAATACAATG
130 TGTTTGTCTCGTTCCCAATACAATG
2658321 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTAAAGAGTTTTCAATCCAAACC
1 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTAAAGAGTTTTCAATCCAAACC
*
2658386 CAATTCATGAAACTTAAATGTGTCTATAGTTTCTCTTTATATATATATATATATTTTTCCTAATA
66 CAATACATGAAACTTAAATGTGTCTATAG--T-T-TTT-T-T-T-TATATAT-TTTTTCCTAATA
*
2658451 ATGGAGTGTGTGTGTCTCGTTCCCAATACAATG
122 ATGGAGTGTGTTTGTCTCGTTCCCAATACAATG
2658484 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTAAAGAGTTTTCAATCCAAACC
1 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTAAAGAGTTTTCAATCCAAACC
* *
2658549 CAATACATGAAACTTAAATGTGTCTATAGTTTTTTTATATCT-TTTTTTCCTAATAATGGAGTGT
66 CAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTTATATATTTTTTCCTAATAATGGAGTGT
2658613 GTTTGTCTC
131 GTTTGTCTC
2658622 ATTCTCATTT
Statistics
Matches: 571, Mismatches: 25, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
152 78 0.14
153 94 0.16
154 109 0.19
155 131 0.23
156 1 0.00
157 2 0.00
158 4 0.01
159 4 0.01
160 2 0.00
161 2 0.00
162 7 0.01
163 137 0.24
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.42
Consensus pattern (154 bp):
AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTAAAGAGTTTTCAATCCAAACC
CAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTTATATATTTTTTCCTAATAATGGAGTGT
GTTTGTCTCGTTCCCAATACAATG
Found at i:2658413 original size:307 final size:312
Alignment explanation
Indices: 2657859--2658621 Score: 1272
Period size: 307 Copynumber: 2.4 Consensus size: 312
2657849 GGTTATAGTA
* *
2657859 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAATTTTCACTCCAAAC
1 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAAC
*
2657924 CCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTATATCTTTTTTTCCTAATAATGGAGTG
66 CCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTT-TATATTTTTTTCCTAATAATGGAGTG
*
2657989 TGTTTGTCTTGTTCCCAATACAATGAAAACTTGTACAATGAAATCTTTTCCCTAACAGTGAATTT
130 TGTTTGTCTCGTTCCCAATACAATGAAAACTTGTACAATGAAATCTTTTCCCTAACAGTGAATTT
2658054 GTTTAAAGAGTTTTCAATCCAAACCCAATATATGAAACTTAAATGTGTCTATAG-TTT-T-T-T-
195 GTTTAAAGAGTTTTCAATCCAAACCCAATATATGAAACTTAAATGTGTCTATAGTTTTATATATA
* * * *
2658114 TATATCT-TTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTG
260 TATATATATTTTTCCTAATAATGGAGTGTGTGTGTCTCGTTCCCAATACAATG
*
2658166 AAAACTTGTACAATGTAATCTTTTCCCTGACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAAC
1 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAAC
*
2658231 CCAATACATGAAACTTAAACGTGTCTATAGTTTTTTTTTATATATTTTTTCCTAATAATGGAGTG
66 CCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTTATAT-TTTTTTCCTAATAATGGAGTG
*
2658296 TGTTTGTCTCGTTCCCAATACAATGAAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTT
130 TGTTTGTCTCGTTCCCAATACAATGAAAACTTGTACAATGAAATCTTTTCCCTAACAGTGAATTT
*
2658361 TTTTAAAGAGTTTTCAATCCAAACCCAAT-TCATGAAACTTAAATGTGTCTATAGTTTCTCTTTA
195 GTTTAAAGAGTTTTCAATCCAAACCCAATAT-ATGAAACTTAAATGTGTCTATAG----T-TTTA
2658425 TATATATATATATATTTTTCCTAATAATGGAGTGTGTGTGTCTCGTTCCCAATACAATG
254 TATATATATATATATTTTTCCTAATAATGGAGTGTGTGTGTCTCGTTCCCAATACAATG
2658484 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAA-TTTTTTTAAAGAGTTTTCAATCCAAAC
1 AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAAC
* *
2658548 CCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTATATCTTTTTTTCCTAATAATGGAGTGT
66 CCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTTATATTTTTTTCCTAATAATGGAGTGT
2658613 GTTTGTCTC
131 GTTTGTCTC
2658622 ATTCTCATTT
Statistics
Matches: 427, Mismatches: 16, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
306 5 0.01
307 234 0.55
313 3 0.01
314 1 0.00
315 1 0.00
316 32 0.07
317 73 0.17
318 78 0.18
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.42
Consensus pattern (312 bp):
AAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAAC
CCAATACATGAAACTTAAATGTGTCTATAGTTTTTTTTTATATTTTTTTCCTAATAATGGAGTGT
GTTTGTCTCGTTCCCAATACAATGAAAACTTGTACAATGAAATCTTTTCCCTAACAGTGAATTTG
TTTAAAGAGTTTTCAATCCAAACCCAATATATGAAACTTAAATGTGTCTATAGTTTTATATATAT
ATATATATTTTTCCTAATAATGGAGTGTGTGTGTCTCGTTCCCAATACAATG
Found at i:2663372 original size:153 final size:152
Alignment explanation
Indices: 2663094--2664564 Score: 2032
Period size: 153 Copynumber: 9.7 Consensus size: 152
2663084 TTCATTACCA
* * * **
2663094 TTTTTAAAGAGTTTTTAATCCGAACCCAATAGC-GGAAACTTAAGTGTGTCTATAGTTTTTTATA
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATA-CATGAAACTTAAACGTGTCTATAGTTTTTTATA
* * * * *
2663158 TCTTTTTTTTTCCTAATAATGGAATGTGTTTGTCTCATTTCCAATATAGTGAAAATTTGTACAAT
65 TC--TTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTGAAAACTTGTACAAT
2663223 GTAATCTTTTCCCTAACAGTGAATTT
128 GTAATCTTTTCCCTAACAGTGAA-TT
* *
2663249 TTTTTAAAGAATTTTCAATCCAAACCCAATTCATGAAACTTAAACGTGTCTATAG-TTTTTATAT
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTATAT
* *
2663313 CTTTTTTCCCCTAATAATGGAATGTGTTTGTCTCATTTCCAATACAGTGAAAACTTGTACAATGT
66 CTTTTTT-CCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTGAAAACTTGTACAATGT
2663378 AATCTTTTCCCTAACAGTGAAGTT
130 AATCTTTTCCCTAACAGTGAA-TT
* * * * *
2663402 TTTTTAAAGAGTTTTCAATCCAAACCCAGTACCTAAAACTTAAACGTGTTTATAATTTTTTATAT
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTATAT
* * * *
2663467 -ATTTTT-CCTAATAATGGA--GTGTTTGCCTCGTTCCCAATACAGTGAAAACGTGTACAATGTA
66 CTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTGAAAACTTGTACAATGTA
* * *
2663528 ATCTTTTCCATAACAATGATTTT
131 ATCTTTTCCCTAACAGTGA-ATT
**
2663551 TTTTTTTA-A---TTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTTATA
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAG-TTTTTTATA
*
2663612 TCTTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAATG
65 TC-TTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTGAAAACTTGTACAATG
2663677 TAATCTTTTCCCT----GTGAATT
129 TAATCTTTTCCCTAACAGTGAATT
* *
2663697 TTTTTAAAGAGTTTTCAATCCAAACCCAATTCATGAAACTTAAACATGTCTATAGTTTTTTTATA
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAG-TTTTTTATA
* * **
2663762 TCTTGTTTTTTCCTAATAATGGAGTGTGTTTGTCTCG-TTCTCAATACACTGAAAGTTTGTACAA
65 TC-T-TTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTTC-CAATACAGTGAAAACTTGTACAA
* *
2663826 TATAATCTTTTCCATAACAGTGAATTT
127 TGTAATCTTTTCCCTAACAGTGAA-TT
* *
2663853 TTTTTAAAGAGTTTTCAATCCAAACCTAATACATGAAACTTAAACGTGTCTCTAGTTTTTTTATA
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAG-TTTTTTATA
* * * *
2663918 TATTTTTT-CCTAATAATGGAGTATGTTTGTCTC-ATTCTGAATACAGTGAAAACTTGTACAATG
65 TCTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTTC-CAATACAGTGAAAACTTGTACAATG
* * *
2663981 TAATCTTTTTCATAACAGCGAA-T
129 TAATCTTTTCCCTAACAGTGAATT
2664004 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTATAT
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTATAT
* * *
2664069 CTTTTTTTCCTAATAATGGAGTGTGTTTGTCTTGTTCCCAATACAGTGAAAACTTGTACAATGTA
66 CTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTGAAAACTTGTACAATGTA
*
2664134 ATATTTTCCCTAACAGTGAATT
131 ATCTTTTCCCTAACAGTGAATT
* *
2664156 TGTTTTAAAGAGTTTTCAATTCAAACCCAATACATGAAACTTAAACGCGTCTATAGTTTTTTTAT
1 T-TTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAG-TTTTTTAT
* *
2664221 ATCTTTTTT-CCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTAAAAATTTGTACAATG
64 ATCTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTGAAAACTTGTACAATG
*
2664285 TAATCTTTTCCCTAACATTG-ATT
129 TAATCTTTTCCCTAACAGTGAATT
*
2664308 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAATTTAAACGTGTCTATAGTTTTTTCTAT
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAG-TTTTT-TAT
* *
2664373 ATCTTTTTTTCCCCTAATAATGGTGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAA
64 ATC-TTTTTT-CCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTGAAAACTTGTACAA
2664438 TGTAATCTTTTCCCTAACAGTG-A-T
127 TGTAATCTTTTCCCTAACAGTGAATT
* *
2664462 TTTTTAAAGAGTTTTCAATCCAACCCCAATACATGAAACTTAAATGTGTCTATAGTTTTTCTTAT
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAG-TTTT-TTAT
2664527 ATCTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTT
64 ATCTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTT
2664565 CTCATTTTAA
Statistics
Matches: 1189, Mismatches: 95, Indels: 67
0.88 0.07 0.05
Matches are distributed among these distances:
145 37 0.03
146 18 0.02
147 4 0.00
148 6 0.01
149 76 0.06
150 72 0.06
151 303 0.25
152 48 0.04
153 331 0.28
154 106 0.09
155 124 0.10
156 64 0.05
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (152 bp):
TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTATAT
CTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTTCCAATACAGTGAAAACTTGTACAATGTA
ATCTTTTCCCTAACAGTGAATT
Found at i:2663989 original size:304 final size:305
Alignment explanation
Indices: 2663094--2664567 Score: 2080
Period size: 304 Copynumber: 4.8 Consensus size: 305
2663084 TTCATTACCA
* * * **
2663094 TTTTTAAAGAGTTTTTAATCCGAACCCAATAGC-GGAAACTTAAGTGTGTCTATAGTTTTTTATA
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATA-CATGAAACTTAAACGTGTCTATAGTTTTTTATA
* * * * *
2663158 TCTTTTTTTTTCCTAATAATGGAATGTGTTTGTCTCATTTCCAATATAGTGAAAATTTGTACAAT
65 TC-TTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAAT
* *
2663223 GTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAATTTTCAATCCAAACCCAATTCATGAAAC
129 GTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAAC
* *
2663288 TTAAACGTGTCTATAG--TTTTTATATCTTTTTTCCCCTAATAATGGAATGTGTTTGTCTCATT-
194 TTAAACGTGTCTATAGTTTTTTTATATCTTTTTT-CCCTAATAATGGAGTGTGTTTGTCTCGTTC
2663350 TCCAATACAGTGAAAACTTGTACAATGTAATCTTTTCCCTAACAGTGAAGTT
258 TCCAATACAGTGAAAACTTGTACAATGTAATCTTTTCCCT---AGTGAA-TT
* * * * *
2663402 TTTTTAAAGAGTTTTCAATCCAAACCCAGTACCTAAAACTTAAACGTGTTTATAATTTTTTATA-
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTATAT
* * *
2663466 --TATTTTTCCTAATAATGGA--GTGTTTGCCTCGTTCCCAATACAGTGAAAACGTGTACAATGT
66 CTTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAATGT
* * * **
2663527 AATCTTTTCCATAACAATGATTTTTTTTTTTA-A---TTCAATCCAAACCCAATACATGAAACTT
131 AATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTT
2663588 AAACGTGTCTATAGTTTTTTTATATCTTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTC-C
196 AAACGTGTCTATAGTTTTTTTATATC-TTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTCTC
2663652 CAATACAGTGAAAACTTGTACAATGTAATCTTTTCCCT-GTGAATT
260 CAATACAGTGAAAACTTGTACAATGTAATCTTTTCCCTAGTGAATT
* *
2663697 TTTTTAAAGAGTTTTCAATCCAAACCCAATTCATGAAACTTAAACATGTCTATAGTTTTTTTATA
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAG-TTTTTTATA
* * **
2663762 TCTTGTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCTCAATACACTGAAAGTTTGTACAAT
65 TCTT-TTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAAT
* * *
2663827 ATAATCTTTTCCATAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAACCTAATACATGAAAC
129 GTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAAC
* * * *
2663892 TTAAACGTGTCTCTAGTTTTTTTATATATTTTTT-CCTAATAATGGAGTATGTTTGTCTCATTCT
194 TTAAACGTGTCTATAGTTTTTTTATATCTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTCT
* * * *
2663956 -GAATACAGTGAAAACTTGTACAATGTAATCTTTTTCATAACAGCGAA-T
259 CCAATACAGTGAAAACTTGTACAATGTAATCTTTTCCCT---AGTGAATT
2664004 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTATAT
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTATAT
*
2664069 C-TTTTTTTCCTAATAATGGAGTGTGTTTGTCTTGTTCCCAATACAGTGAAAACTTGTACAATGT
66 CTTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAATGT
* * *
2664133 AATATTTTCCCTAACAGTGAATTTGTTTTAAAGAGTTTTCAATTCAAACCCAATACATGAAACTT
131 AATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTT
*
2664198 AAACGCGTCTATAGTTTTTTTATATCTTTTTT-CCTAATAATGGAGTGTGTTTGTCTCGTT-TCC
196 AAACGTGTCTATAGTTTTTTTATATCTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTCTCC
* * *
2664261 AATACAGTAAAAATTTGTACAATGTAATCTTTTCCCTAACATTG-ATT
261 AATACAGTGAAAACTTGTACAATGTAATCTTTTCCCT---AGTGAATT
*
2664308 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAATTTAAACGTGTCTATAGTTTTTTCTAT
1 TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAG-TTTTT-TAT
* *
2664373 ATCTTTTTTTCCCCTAATAATGGTGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAA
64 ATCTTTTTTT-TCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAA
*
2664438 TGTAATCTTTTCCCTAACAGTG-A--TTTTTTAAAGAGTTTTCAATCCAACCCCAATACATGAAA
128 TGTAATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAA
*
2664500 CTTAAATGTGTCTATAGTTTTTCTTATATCTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTT
193 CTTAAACGTGTCTATAGTTTTT-TTATATCTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTT
2664565 CTC
257 CTC
2664568 ATTTTAAAAA
Statistics
Matches: 1049, Mismatches: 87, Indels: 60
0.88 0.07 0.05
Matches are distributed among these distances:
295 50 0.05
296 14 0.01
298 41 0.04
299 1 0.00
300 93 0.09
301 7 0.01
302 126 0.12
303 3 0.00
304 344 0.33
305 68 0.06
306 81 0.08
307 90 0.09
308 131 0.12
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (305 bp):
TTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTTAAACGTGTCTATAGTTTTTTATAT
CTTTTTTTTCCTAATAATGGAGTGTGTTTGTCTCGTTCCCAATACAGTGAAAACTTGTACAATGT
AATCTTTTCCCTAACAGTGAATTTTTTTTAAAGAGTTTTCAATCCAAACCCAATACATGAAACTT
AAACGTGTCTATAGTTTTTTTATATCTTTTTTCCCTAATAATGGAGTGTGTTTGTCTCGTTCTCC
AATACAGTGAAAACTTGTACAATGTAATCTTTTCCCTAGTGAATT
Found at i:2670137 original size:8 final size:8
Alignment explanation
Indices: 2670126--2670193 Score: 64
Period size: 8 Copynumber: 7.8 Consensus size: 8
2670116 GAAAATAAAA
2670126 AAATTAAT
1 AAATTAAT
2670134 AAATTAAT
1 AAATTAAT
2670142 AAATCAATAAT
1 AAAT---TAAT
2670153 AATATTAAT
1 AA-ATTAAT
*
2670162 AATACTAAT
1 AA-ATTAAT
2670171 AAATTAAT
1 AAATTAAT
*
2670179 AAATAAAT
1 AAATTAAT
2670187 AATATTA
1 AA-ATTA
2670194 GATTAGTCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
8 26 0.51
9 17 0.33
11 6 0.12
12 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATTAAT
Found at i:2670144 original size:20 final size:20
Alignment explanation
Indices: 2670119--2670190 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
2670109 GAGAAAAGAA
2670119 AATAAAAAAATTAATAA-ATT
1 AATAAAAAAA-TAATAATATT
**
2670139 AATAAATCAATAATAATATT
1 AATAAAAAAATAATAATATT
* *
2670159 AAT--AATACTAATAA-ATT
1 AATAAAAAAATAATAATATT
*
2670176 AATAAATAAATAATA
1 AATAAAAAAATAATA
2670191 TTAGATTAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
17 6 0.15
18 8 0.20
19 13 0.32
20 14 0.34
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAAAAAAATAATAATATT
Found at i:2671258 original size:2 final size:2
Alignment explanation
Indices: 2671253--2671295 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
2671243 AAAAATTTAT
2671253 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2671293 TA T
1 TA T
2671296 TCTAAATCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2671277 original size:19 final size:19
Alignment explanation
Indices: 2671253--2671295 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
2671243 AAAAATTTAT
2671253 TATATATATAATATATATA
1 TATATATATAATATATATA
2671272 TATATATATAATATATATA
1 TATATATATAATATATATA
2671291 TATAT
1 TATAT
2671296 TCTAAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATATATAATATATATA
Found at i:2672219 original size:27 final size:25
Alignment explanation
Indices: 2672168--2672221 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
2672158 CATTTGGATT
2672168 AATTTTATTTTTTATTTTTATTTTA
1 AATTTTATTTTTTATTTTTATTTTA
2672193 AATTTTAACTTTTTGTA-TTTTATTTTA
1 AATTTT-A-TTTTT-TATTTTTATTTTA
2672220 AA
1 AA
2672222 AATATTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 6 0.23
26 1 0.04
27 17 0.65
28 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
AATTTTATTTTTTATTTTTATTTTA
Found at i:2672658 original size:17 final size:17
Alignment explanation
Indices: 2672636--2672668 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2672626 CATATTCGCA
2672636 TTGCGATAGTCCAAGTG
1 TTGCGATAGTCCAAGTG
*
2672653 TTGCGATAGTCGAAGT
1 TTGCGATAGTCCAAGT
2672669 TCGCGTTGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (17 bp):
TTGCGATAGTCCAAGTG
Found at i:2672678 original size:21 final size:21
Alignment explanation
Indices: 2672652--2672762 Score: 113
Period size: 21 Copynumber: 5.4 Consensus size: 21
2672642 TAGTCCAAGT
2672652 GTTGCGATAGTCGAAGTTCGC
1 GTTGCGATAGTCGAAGTTCGC
* * *
2672673 GTTGCGATTTATTCCAAATT--C
1 GTTGCGA--TAGTCGAAGTTCGC
2672694 GTTGCGATAGTCGAAGTTCGC
1 GTTGCGATAGTCGAAGTTCGC
** * *
2672715 GTTGCGATTTTCCAAATT--C
1 GTTGCGATAGTCGAAGTTCGC
2672734 GTTGCGATAGTCGAAGTTCGC
1 GTTGCGATAGTCGAAGTTCGC
2672755 GTTGCGAT
1 GTTGCGAT
2672763 TTACATATTC
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
19 23 0.33
21 39 0.56
23 8 0.11
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (21 bp):
GTTGCGATAGTCGAAGTTCGC
Found at i:2672728 original size:40 final size:40
Alignment explanation
Indices: 2672652--2672764 Score: 208
Period size: 40 Copynumber: 2.8 Consensus size: 40
2672642 TAGTCCAAGT
2672652 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTC
2672694 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
2672734 GTTGCGATAGTCGAAGTTCGCGTTGCGATTT
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTT
2672765 ACATATTCGC
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
40 41 0.58
41 2 0.03
42 28 0.39
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (40 bp):
GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
Found at i:2672789 original size:20 final size:20
Alignment explanation
Indices: 2672766--2672846 Score: 135
Period size: 20 Copynumber: 4.0 Consensus size: 20
2672756 TTGCGATTTA
* * *
2672766 CATATTCGCGTTGCGAAAGT
1 CATACTCGCATTGCGATAGT
2672786 CATACTCGCATTGCGATAGT
1 CATACTCGCATTGCGATAGT
2672806 CATACTCGCATTGCGATAGT
1 CATACTCGCATTGCGATAGT
2672826 CATACTCGCATTGCGATAGT
1 CATACTCGCATTGCGATAGT
2672846 C
1 C
2672847 GGAAAATCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (20 bp):
CATACTCGCATTGCGATAGT
Found at i:2683197 original size:28 final size:28
Alignment explanation
Indices: 2683160--2683217 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
2683150 CATGCAGCAA
2683160 CAACCAACTGGCAACAATAGGCAGCAGG
1 CAACCAACTGGCAACAATAGGCAGCAGG
2683188 CAACCAACTGGCAACAATAGGCAGCAGG
1 CAACCAACTGGCAACAATAGGCAGCAGG
2683216 CA
1 CA
2683218 CCATTTCTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.29, G:0.24, T:0.07
Consensus pattern (28 bp):
CAACCAACTGGCAACAATAGGCAGCAGG
Found at i:2683517 original size:22 final size:22
Alignment explanation
Indices: 2683477--2683536 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
2683467 TTAAATAAAC
*
2683477 ATAATAGATATAA-A-A-ATTA
1 ATAATATATATAATATATATTA
2683496 ATGAATATATAT-ATATATATTA
1 AT-AATATATATAATATATATTA
2683518 ATAATATATATAATATATA
1 ATAATATATATAATATATA
2683537 GTTCATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 3 0.09
20 9 0.26
21 10 0.29
22 13 0.37
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (22 bp):
ATAATATATATAATATATATTA
Found at i:2683526 original size:13 final size:11
Alignment explanation
Indices: 2683500--2683536 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2683490 AAATTAATGA
2683500 ATATATAT-AT
1 ATATATATAAT
2683510 ATATAT-TAAT
1 ATATATATAAT
2683520 AATATATATAAT
1 -ATATATATAAT
2683532 ATATA
1 ATATA
2683537 GTTCATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 1 0.04
10 8 0.33
11 11 0.46
12 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATATAAT
Found at i:2683546 original size:13 final size:13
Alignment explanation
Indices: 2683505--2683695 Score: 103
Period size: 13 Copynumber: 14.6 Consensus size: 13
2683495 AATGAATATA
2683505 TATATATATA-TT
1 TATATATATAGTT
* *
2683517 AATA-ATATA-TA
1 TATATATATAGTT
2683528 TA-ATATATAGTT
1 TATATATATAGTT
*
2683540 CATATATAT--TT
1 TATATATATAGTT
2683551 GT-TCATATA--GTT
1 -TAT-ATATATAGTT
*
2683563 TATACATATAGTT
1 TATATATATAGTT
2683576 TATAGTTTATATAGTT
1 TATA---TATATAGTT
*
2683592 TATATATATAATT
1 TATATATATAGTT
* *
2683605 TATACATATAATT
1 TATATATATAGTT
* * *
2683618 TATCTATTTAGAT
1 TATATATATAGTT
2683631 TATATATATAGTT
1 TATATATATAGTT
*
2683644 TATATAAATAGTT
1 TATATATATAGTT
* *
2683657 TACATAATTTATAGTAA
1 T--AT-ATATATAGT-T
*
2683674 TAAACTATATAGTT
1 TATA-TATATAGTT
2683688 TATATATA
1 TATATATA
2683696 GTTCATATAT
Statistics
Matches: 136, Mismatches: 26, Indels: 33
0.70 0.13 0.17
Matches are distributed among these distances:
10 1 0.01
11 20 0.15
12 13 0.10
13 68 0.50
14 4 0.03
15 10 0.07
16 19 0.14
17 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (13 bp):
TATATATATAGTT
Found at i:2683693 original size:9 final size:10
Alignment explanation
Indices: 2683679--2683729 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
2683669 AGTAATAAAC
2683679 TATATAGTTTA
1 TATATAG-TTA
2683690 TATATAGTTCA
1 TATATAGTT-A
*
2683701 TATATACTT-
1 TATATAGTTA
*
2683710 TATATTGTTTA
1 TATATAG-TTA
2683721 TATATAGTT
1 TATATAGTT
2683730 CATTAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
9 5 0.15
10 6 0.18
11 22 0.67
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (10 bp):
TATATAGTTA
Found at i:2683706 original size:13 final size:13
Alignment explanation
Indices: 2683555--2683695 Score: 111
Period size: 13 Copynumber: 10.2 Consensus size: 13
2683545 ATATTTGTTC
*
2683555 ATATAGTTTATAC
1 ATATAGTTTATAT
2683568 ATATAGTTTATAGTTT
1 ATATAGTTTATA---T
2683584 ATATAGTTTATAT
1 ATATAGTTTATAT
* *
2683597 ATATAATTTATAC
1 ATATAGTTTATAT
* *
2683610 ATATAATTTATCT
1 ATATAGTTTATAT
* *
2683623 ATTTAGATTATAT
1 ATATAGTTTATAT
2683636 ATATAGTTTATAT
1 ATATAGTTTATAT
*
2683649 AAATAGTTTACATAAT
1 ATATAGTTT--AT-AT
* * *
2683665 TTATAGTAATAAACT
1 ATATAGT-TTATA-T
2683680 ATATAGTTTATAT
1 ATATAGTTTATAT
2683693 ATA
1 ATA
2683696 GTTCATATAT
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
13 67 0.66
14 4 0.04
15 10 0.10
16 19 0.19
17 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (13 bp):
ATATAGTTTATAT
Found at i:2683714 original size:31 final size:31
Alignment explanation
Indices: 2683671--2683754 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
2683661 TAATTTATAG
*
2683671 TAATAAACTATATAGTTTATATATAGTTCA-
1 TAATAAATTATATAGTTTATATATAGTTCAT
** *
2683701 TATATACTTTATATTGTTTATATATAGTTCAT
1 TA-ATAAATTATATAGTTTATATATAGTTCAT
*
2683733 TAATAAATTATATAGTGTATAT
1 TAATAAATTATATAGTTTATAT
2683755 GGTTTATATA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 2 0.05
31 40 0.91
32 2 0.05
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (31 bp):
TAATAAATTATATAGTTTATATATAGTTCAT
Found at i:2683878 original size:22 final size:23
Alignment explanation
Indices: 2683821--2683887 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
2683811 GTATGTAAAT
2683821 ATAAACTATATAGTTTATATATA
1 ATAAACTATATAGTTTATATATA
* **
2683844 GTTCA-TATATAGTTTATAT-TA
1 ATAAACTATATAGTTTATATATA
*
2683865 ATAAACTATGTAGTTTATATATA
1 ATAAACTATATAGTTTATATATA
2683888 TTATAATTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 4 0.11
22 27 0.77
23 4 0.11
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (23 bp):
ATAAACTATATAGTTTATATATA
Found at i:2684111 original size:30 final size:30
Alignment explanation
Indices: 2684072--2684132 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
2684062 TTGGCCCATT
*
2684072 CTTATTTCTTATTTATATTTTTATAATTGG
1 CTTACTTCTTATTTATATTTTTATAATTGG
*
2684102 CTTACTTCTTATTTATATTTTTATATTTGG
1 CTTACTTCTTATTTATATTTTTATAATTGG
2684132 C
1 C
2684133 CCATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (30 bp):
CTTACTTCTTATTTATATTTTTATAATTGG
Found at i:2701916 original size:2 final size:2
Alignment explanation
Indices: 2701909--2701952 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2701899 AAGACTATTA
*
2701909 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2701951 AT
1 AT
2701953 CTTCCAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2708945 original size:19 final size:20
Alignment explanation
Indices: 2708909--2708946 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2708899 GATTCCCTTA
2708909 CAGTATCGATACCCTCACTT
1 CAGTATCGATACCCTCACTT
2708929 CAGTATCGATA-CCTCACT
1 CAGTATCGATACCCTCACT
2708947 CAAGGTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (20 bp):
CAGTATCGATACCCTCACTT
Found at i:2710680 original size:189 final size:189
Alignment explanation
Indices: 2710339--2710695 Score: 538
Period size: 189 Copynumber: 1.9 Consensus size: 189
2710329 ACTAAATCTT
* *
2710339 TTCTTTACTAACTCACTTAATCAAGTTGACTTACAGCACAACCTGATAACCTCTTCTATCCAATG
1 TTCTTTACTAACTCACTTAATCAAGTTGACTTACAGCACAACCTGATAAACTCTTCTATCCAATA
* * *
2710404 GGCAAAGAAAACTCTGAGACCTTATGGCACTTACCAAATCTTTCTCTATAATTGACCTCTATGTT
66 GGCAAAGAAAACTCTGAGACCTTATGACACTTACCAAATCTTCCACTATAATTGACCTCTATGTT
* ** * *
2710469 TCTATTGTGCAACTCTATTTAATACTTCTCTGCGCTAACCGATTTCTTTCTTAACCCTG
131 TCTACTGCACAACTATATTTAATACTTCTCTGCACTAACCGATTTCTTTCTTAACCCTG
* * *
2710528 TTCTTTACTAATTCACTTAATCAAGTTGACTTATAGCACAACCTGATAAACTCTTCTATCCACTA
1 TTCTTTACTAACTCACTTAATCAAGTTGACTTACAGCACAACCTGATAAACTCTTCTATCCAATA
* *
2710593 GGCAAAGACAACTC-GAGACCTTATGACACTTACCAAATCTTCCACTATAGTCT-ACCTCTATGT
66 GGCAAAGAAAACTCTGAGACCTTATGACACTTACCAAATCTTCCACTATAAT-TGACCTCTATGT
*
2710656 TTCTACTGCATAACTATAATTTAATACTTCTCTGCACTAA
130 TTCTACTGCACAACTAT-ATTTAATACTTCTCTGCACTAA
2710696 TTGACTACTT
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
188 55 0.37
189 95 0.63
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.35
Consensus pattern (189 bp):
TTCTTTACTAACTCACTTAATCAAGTTGACTTACAGCACAACCTGATAAACTCTTCTATCCAATA
GGCAAAGAAAACTCTGAGACCTTATGACACTTACCAAATCTTCCACTATAATTGACCTCTATGTT
TCTACTGCACAACTATATTTAATACTTCTCTGCACTAACCGATTTCTTTCTTAACCCTG
Found at i:2714215 original size:136 final size:135
Alignment explanation
Indices: 2713946--2714229 Score: 295
Period size: 136 Copynumber: 2.1 Consensus size: 135
2713936 TACTCTACAT
** * ** **
2713946 GTCAGAGCACTCGACGTAAAATCAGGTCATCTTACCTACTCCCCTCTAGAAGTGCTCGTCATGAA
1 GTCAGAGCGTTCGGCGTAAAATCAGGTCATCCCACCTACTCCCCTCTAGAAGCACTCGTCATGAA
* * *
2714011 CTCTGTCTCATCTGCCTACTCCCAACGTTAAAACGCTCGTCGTAAAATAGAATACCTTACCTAAT
66 CTCTGTCTCACCTGCCTACTCCCAACGTTAAAAC-CTCGGCGTAAAATAGAACACCTTACCTAAT
2714076 CCACAC
130 CCACAC
* * **
2714082 GTTAGAGCGTTCGGCGTAAGATCAGGTCATCCCACCTACTCCCCTCTCTAAGCACTCGGT-ATGA
1 GTCAGAGCGTTCGGCGTAAAATCAGGTCATCCCACCTACTCCCCTCTAGAAGCACTC-GTCATGA
* * ** * * *
2714146 ACTCTGTCTCCCCTGTCTACTCTTAACGTTGAAGAA-CTTGGCGTAAAATAGGAACACC-TGCGT
65 ACTCTGTCTCACCTGCCTACTCCCAACGTT-AA-AACCTCGGCGTAAAATA-GAACACCTTACCT
*
2714209 ACTCCACAC
127 AATCCACAC
*
2714218 GTCATAGCGTTC
1 GTCAGAGCGTTC
2714230 AGTATAAGAT
Statistics
Matches: 120, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
136 108 0.90
137 10 0.08
138 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (135 bp):
GTCAGAGCGTTCGGCGTAAAATCAGGTCATCCCACCTACTCCCCTCTAGAAGCACTCGTCATGAA
CTCTGTCTCACCTGCCTACTCCCAACGTTAAAACCTCGGCGTAAAATAGAACACCTTACCTAATC
CACAC
Found at i:2719853 original size:12 final size:12
Alignment explanation
Indices: 2719836--2719860 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2719826 GTGACACATA
2719836 TCACTACCTTAT
1 TCACTACCTTAT
2719848 TCACTACCTTAT
1 TCACTACCTTAT
2719860 T
1 T
2719861 GGAAATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (12 bp):
TCACTACCTTAT
Found at i:2719884 original size:14 final size:14
Alignment explanation
Indices: 2719865--2719891 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2719855 CTTATTGGAA
2719865 ATTAAATAAATTAG
1 ATTAAATAAATTAG
2719879 ATTAAATAAATTA
1 ATTAAATAAATTA
2719892 AAATTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
ATTAAATAAATTAG
Found at i:2720380 original size:26 final size:27
Alignment explanation
Indices: 2720331--2720390 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
2720321 TATTATGCTC
2720331 TATATTTTTTATTAAAAAACTATAATAA
1 TATATTTTTTATTAAAAAACTATAA-AA
** *
2720359 -ATATTTTTTATT-CTAAATTATAAAA
1 TATATTTTTTATTAAAAAACTATAAAA
2720384 TATATTT
1 TATATTT
2720391 AAAATTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.07
26 14 0.50
27 12 0.43
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATATTTTTTATTAAAAAACTATAAAA
Found at i:2724319 original size:17 final size:18
Alignment explanation
Indices: 2724283--2724320 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
2724273 AAATTCTCCT
2724283 AAATTAAAGGACTAAGATG
1 AAATTAAA-GACTAAGATG
*
2724302 AAATTAAA-ACTGAGATG
1 AAATTAAAGACTAAGATG
2724319 AA
1 AA
2724321 TGCTCTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.21
Consensus pattern (18 bp):
AAATTAAAGACTAAGATG
Found at i:2725174 original size:14 final size:14
Alignment explanation
Indices: 2725148--2725194 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
2725138 TGAAAAAATA
2725148 TAAAGGCAT-AAAAG
1 TAAAGGC-TGAAAAG
*
2725162 TAAAGGCTGAAAAT
1 TAAAGGCTGAAAAG
*
2725176 TAAAGTACTGAAAAG
1 TAAAG-GCTGAAAAG
2725191 TAAA
1 TAAA
2725195 TGAATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 1 0.04
14 16 0.57
15 11 0.39
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (14 bp):
TAAAGGCTGAAAAG
Found at i:2727589 original size:15 final size:16
Alignment explanation
Indices: 2727557--2727595 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
2727547 TATGTGTTCT
2727557 ATGTGAATGAATGATA
1 ATGTGAATGAATGATA
* *
2727573 ATTTGAA-GAATGCTA
1 ATGTGAATGAATGATA
2727588 ATGTGAAT
1 ATGTGAAT
2727596 ACTTATATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (16 bp):
ATGTGAATGAATGATA
Found at i:2733087 original size:2 final size:2
Alignment explanation
Indices: 2733080--2733121 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2733070 GATCTAGCCC
2733080 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
2733122 TATCGATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2733092 original size:228 final size:225
Alignment explanation
Indices: 2732630--2733090 Score: 531
Period size: 228 Copynumber: 2.0 Consensus size: 225
2732620 CTTCATTGTG
* *
2732630 ATATATATAGGTTAGGATCGACTTAAATTGTGTAAAACTATTTAGTTTTACACCATTTTAGGACC
1 ATATATATAGGTTAGGATCCACTTAAATAGTGTAAAACTATTTAGTTTTACACCATTTTAGGACC
* * * *
2732695 ATTGAATTGAGTGAAATCAAAGGCTGAGATTAACTCATTTTTTCAGTGAATATCGTATCATTTTC
66 ATTGAATTAAGGGAAATCAAAGGCTGAGATTAACTCATTTTTTCACTAAATATCGTATCATTTTC
** * * * *
2732760 TACTACTAATCTAAGCCTTTAATTTCTCTTATCCAATGGTCCTAAAAATGTATAAAACTAAAAGA
131 TACTACTAATCTAAAACTTTAATTTCTCTCATCCAACGATCATAAAAATGTATAAAAC-AAAAGA
*
2732825 GTTTTACACAGTGTAATTGGATCATGCCCTT
195 ATTTTACACAGTGTAATTGGATCATGCCCTT
* * *
2732856 ATATATATAGGGTTATGATCCACTTACATATAGTGTAAAACT-TTTAGTTTTATACCCTTTTAGG
1 ATATATATA-GGTTAGGATCCACTTA-A-ATAGTGTAAAACTATTTAGTTTTACACCATTTTAGG
* * * * ** *
2732920 ATCATTGGA-TAAGGGGAATCAAAGGTTGAGATTAACTCATTTTTTCTACTAAATATTTTCTCAT
63 ACCATTGAATTAAGGGAAATCAAAGGCTGAGATTAACTCATTTTTTC-ACTAAATATCGTATCAT
** *
2732984 TTTCTACTGGTAATCTCAAAAC-TTAATTTTCTCTCATCCAACGATCATAAAAA-GTGTAAAA-A
127 TTTCTACTACTAATCT-AAAACTTTAA-TTTCTCTCATCCAACGATCATAAAAATGTATAAAACA
** *
2733046 AATTAATTTTACACTA-TGTAATTGGATC-TAGCCCAT
190 AAAGAATTTTACAC-AGTGTAATTGGATCAT-GCCCTT
2733082 ATATATATA
1 ATATATATA
2733091 TATATATATA
Statistics
Matches: 198, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
225 1 0.01
226 47 0.24
227 48 0.24
228 65 0.33
229 37 0.19
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (225 bp):
ATATATATAGGTTAGGATCCACTTAAATAGTGTAAAACTATTTAGTTTTACACCATTTTAGGACC
ATTGAATTAAGGGAAATCAAAGGCTGAGATTAACTCATTTTTTCACTAAATATCGTATCATTTTC
TACTACTAATCTAAAACTTTAATTTCTCTCATCCAACGATCATAAAAATGTATAAAACAAAAGAA
TTTTACACAGTGTAATTGGATCATGCCCTT
Found at i:2733723 original size:2 final size:2
Alignment explanation
Indices: 2733684--2733711 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2733674 TACCACTCAA
2733684 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
2733712 TATTTCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2734941 original size:17 final size:17
Alignment explanation
Indices: 2734921--2734959 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
2734911 TCAGGTGCGA
2734921 CGTACCCTTTGGTGCCT
1 CGTACCCTTTGGTGCCT
2734938 CGTACCCTTTGGTGCCT
1 CGTACCCTTTGGTGCCT
2734955 CGTAC
1 CGTAC
2734960 GCCAGTCAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.08, C:0.36, G:0.23, T:0.33
Consensus pattern (17 bp):
CGTACCCTTTGGTGCCT
Found at i:2737860 original size:116 final size:115
Alignment explanation
Indices: 2737704--2737969 Score: 338
Period size: 116 Copynumber: 2.3 Consensus size: 115
2737694 TGGATAAGTT
* * * *
2737704 CTTCTCATTACGGACCTTATTCTGAAATGTTGATTCATCTCCTTGTGTGACGGATGTGCCGAGTT
1 CTTCTCATTACGAACCTTCTTCTGAAATGTTGATTCATCTCCTTGTGTGACGGACGTGCCAAGTT
* * * *
2737769 CCAAATAAGTTCTTCTCATTATGACCTTCTTCTTCCTCGTTAG-ACGAGTC
66 CCAAACAAGTTATTCTCATTATGAACTTATTCTTCCTCGTT-GTACGAGTC
* * *
2737819 CTTCTCATTACGAACCCTTCTTCTGAAATATTGATAT-ATCTCCTTGTGTGATGGACGTGTCAAG
1 CTTCTCATTACGAA-CCTTCTTCTGAAATGTTGAT-TCATCTCCTTGTGTGACGGACGTGCCAAG
*** * *
2737883 TTTTGAACAAGTTATTCTCATTATGAACTTATTCTTCCTCGTTGTATGAGTT
64 TTCCAAACAAGTTATTCTCATTATGAACTTATTCTTCCTCGTTGTACGAGTC
2737935 CTTCTCATTACGAACCTCTCTTCTGAAATGTTGAT
1 CTTCTCATTACGAACCT-TCTTCTGAAATGTTGAT
2737970 CCATTTAAAA
Statistics
Matches: 130, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
115 17 0.13
116 112 0.86
117 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (115 bp):
CTTCTCATTACGAACCTTCTTCTGAAATGTTGATTCATCTCCTTGTGTGACGGACGTGCCAAGTT
CCAAACAAGTTATTCTCATTATGAACTTATTCTTCCTCGTTGTACGAGTC
Found at i:2738713 original size:2 final size:2
Alignment explanation
Indices: 2738708--2738736 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2738698 ATGATAAAAA
2738708 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
2738737 GGGGGAGATA
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:2739337 original size:20 final size:20
Alignment explanation
Indices: 2739312--2739362 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2739302 TTTGAAGGTA
2739312 CATCGATGCATTAAAGGGTG
1 CATCGATGCATTAAAGGGTG
2739332 CATCGATGCATTAAAGGGTG
1 CATCGATGCATTAAAGGGTG
2739352 CATCGATGCAT
1 CATCGATGCAT
2739363 GGGAATTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (20 bp):
CATCGATGCATTAAAGGGTG
Found at i:2740300 original size:31 final size:31
Alignment explanation
Indices: 2740115--2740286 Score: 272
Period size: 31 Copynumber: 5.5 Consensus size: 31
2740105 AGGGTTGAGG
*
2740115 GTTTACCTATGTTCTTCGGGAAATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2740146 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2740177 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
2740208 GTTTACCTATGTTCTTTGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
2740239 GTTTACCTATGTTCTTTGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
2740270 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
2740287 AGAATCTATG
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 131 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2742315 original size:28 final size:28
Alignment explanation
Indices: 2742270--2742331 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
2742260 TTTAAGGCTT
*
2742270 AGGTTGACTTGTAGAGGTAGA-GTGTTTC
1 AGGTTGACTTGGAGAGGTA-ATGTGTTTC
* * *
2742298 AGGTTGATTTGGATAGGTAATGTGTTTT
1 AGGTTGACTTGGAGAGGTAATGTGTTTC
2742326 AGGTTG
1 AGGTTG
2742332 GTTTCTTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.21, C:0.03, G:0.35, T:0.40
Consensus pattern (28 bp):
AGGTTGACTTGGAGAGGTAATGTGTTTC
Found at i:2743120 original size:21 final size:21
Alignment explanation
Indices: 2743096--2743141 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
2743086 TTTTTTTTCA
2743096 TTTTT-CTTTCTTTTATCTCT
1 TTTTTGCTTTCTTTTATCTCT
*
2743116 TTTTTGCTTTCTTTTCTCTCT
1 TTTTTGCTTTCTTTTATCTCT
2743137 TTTTT
1 TTTTT
2743142 ATGTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTGCTTTCTTTTATCTCT
Found at i:2745796 original size:45 final size:44
Alignment explanation
Indices: 2745723--2745843 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 44
2745713 TTTATATTTA
*
2745723 GCGGCGTTTCTAGTATAAAAACGCCGCTAAATGAATGGTATATT
1 GCGGCGTTTCTAGTATACAAACGCCGCTAAATGAATGGTATATT
* * **
2745767 GCGGCGTTTTATAGTATACAAACGTCGCTAAATGTTTGGTATATT
1 GCGGCG-TTTCTAGTATACAAACGCCGCTAAATGAATGGTATATT
* * *
2745812 GCAGCGTTTCTAGTTTACAAATGCCGCTAAAT
1 GCGGCGTTTCTAGTATACAAACGCCGCTAAAT
2745844 AACACAGGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 28 0.42
45 38 0.58
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (44 bp):
GCGGCGTTTCTAGTATACAAACGCCGCTAAATGAATGGTATATT
Found at i:2746223 original size:21 final size:21
Alignment explanation
Indices: 2746165--2746233 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
2746155 GCTGATATAT
* *
2746165 TGCTTCTCTCTGTGCTACCGC
1 TGCTTCTCTCTCTGCTTCCGC
*
2746186 TGCTTCTTTCTCTGCTTCCGC
1 TGCTTCTCTCTCTGCTTCCGC
*
2746207 TGCTACTCTCTCTGCTTCC-C
1 TGCTTCTCTCTCTGCTTCCGC
2746227 TTGCTTC
1 -TGCTTC
2746234 ATTTTCCGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 1 0.02
21 40 0.98
ACGTcount: A:0.03, C:0.39, G:0.14, T:0.43
Consensus pattern (21 bp):
TGCTTCTCTCTCTGCTTCCGC
Found at i:2755910 original size:23 final size:21
Alignment explanation
Indices: 2755858--2755919 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
2755848 TTTTAGTGCA
*
2755858 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
2755878 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
2755899 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
2755920 ACAGGAGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:2766472 original size:52 final size:52
Alignment explanation
Indices: 2766405--2766615 Score: 404
Period size: 52 Copynumber: 4.1 Consensus size: 52
2766395 TAACAACAAA
*
2766405 ATACATTATAATTTAGAAACATTAAAGTACTTATTCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
2766457 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
*
2766509 ATACATTATAATTTAGAAACATTAAAGTATTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
2766561 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
2766613 ATA
1 ATA
2766616 TTGTTCAGTA
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 156 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.34
Consensus pattern (52 bp):
ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
Found at i:2767751 original size:42 final size:41
Alignment explanation
Indices: 2767700--2767818 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 41
2767690 GCAAATTTAC
* * *
2767700 CACTCTATTACGGCGTTTTTGGTATAAACACCGCTAAAT-T
1 CACTATATTACGGCGTTTTTGCTATAAACGCCGCTAAATGT
* *
2767740 AACACTATATTACGGCGTTTTAGCTA-AAACGCCGCTACATGT
1 --CACTATATTACGGCGTTTTTGCTATAAACGCCGCTAAATGT
* *
2767782 CTACTATATTGCGGCGTTTTTACTATAAACGCCGCTA
1 C-ACTATATTACGGCGTTTTTGCTATAAACGCCGCTA
2767819 TTGTTTAACC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.02
41 32 0.48
42 33 0.50
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (41 bp):
CACTATATTACGGCGTTTTTGCTATAAACGCCGCTAAATGT
Found at i:2769438 original size:28 final size:29
Alignment explanation
Indices: 2769405--2769467 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
2769395 ATGTGATACC
* *
2769405 TCTAAAGTCTAAGTACTAAAGTGTAAAAA
1 TCTAAAGTCTAAGGACTAAAGTATAAAAA
* * *
2769434 -CTAAATTCTAGGGACTAAATTATAAAAA
1 TCTAAAGTCTAAGGACTAAAGTATAAAAA
2769462 TCTAAA
1 TCTAAA
2769468 CCTAAGGTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (29 bp):
TCTAAAGTCTAAGGACTAAAGTATAAAAA
Found at i:2782089 original size:19 final size:19
Alignment explanation
Indices: 2782065--2782110 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
2782055 CTTTCCAGTT
2782065 CGTCATGGGTTCGGATGTA
1 CGTCATGGGTTCGGATGTA
2782084 CGTCATGGGTTCGGATGTA
1 CGTCATGGGTTCGGATGTA
2782103 CGTCATGG
1 CGTCATGG
2782111 TGCTCAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.15, C:0.17, G:0.37, T:0.30
Consensus pattern (19 bp):
CGTCATGGGTTCGGATGTA
Found at i:2782650 original size:4 final size:4
Alignment explanation
Indices: 2782641--2782690 Score: 73
Period size: 4 Copynumber: 12.5 Consensus size: 4
2782631 TATATCATTA
* * *
2782641 ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT GCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
2782689 AC
1 AC
2782691 CTGAGTTATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:2785432 original size:2 final size:2
Alignment explanation
Indices: 2785425--2785453 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2785415 TTACATACGT
2785425 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2785454 AGATGAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2791799 original size:30 final size:30
Alignment explanation
Indices: 2791763--2791823 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
2791753 ACACACTTTA
2791763 ATCTAGCTTTGATACCAATTGTTGCGGAAG
1 ATCTAGCTTTGATACCAATTGTTGCGGAAG
2791793 ATCTAGCTTTGATACCAATTGTTGCGGAAG
1 ATCTAGCTTTGATACCAATTGTTGCGGAAG
2791823 A
1 A
2791824 CGTATATCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (30 bp):
ATCTAGCTTTGATACCAATTGTTGCGGAAG
Found at i:2792781 original size:60 final size:61
Alignment explanation
Indices: 2792703--2792823 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 61
2792693 ACTACTTAGA
2792703 AAACAGCGAAGAAAACTAATGCAAACATGATAGGAATGCACAAAATATGTCAAAATATACC
1 AAACAGCGAAGAAAACTAATGCAAACATGATAGGAATGCACAAAATATGTCAAAATATACC
2792764 AAAC-GCGAAGAAAACTAATGCAAACATGATAGGAATGCACAAAATATGTCAAAATATACC
1 AAACAGCGAAGAAAACTAATGCAAACATGATAGGAATGCACAAAATATGTCAAAATATACC
2792824 TAAAACAAAC
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 56 0.93
61 4 0.07
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17
Consensus pattern (61 bp):
AAACAGCGAAGAAAACTAATGCAAACATGATAGGAATGCACAAAATATGTCAAAATATACC
Found at i:2798429 original size:409 final size:408
Alignment explanation
Indices: 2797622--2798436 Score: 1346
Period size: 409 Copynumber: 2.0 Consensus size: 408
2797612 TGCTAAAAAC
2797622 ACCAAAACATGAAATCTACCATGGATGCTCAATCATGCTTTATAACTCAACTCTCTAGCTAGAAA
1 ACCAAAACATGAAATCTACCATGGATGCTCAATCATGCTTTATAACTCAACTCTCTAGCTAGAAA
*
2797687 GCATTCTAATGACTCACAAATGGTATGAAGAAGTTATGAATGTGTTACTTAGTCTCTTAGCTGCT
66 GCATTCTAATGACTCACAAATGGTACGAAGAAGTTATGAATGTGTTACTTAGTCTCTTAGCTGCT
* *
2797752 AGAAACATCCTCCAATCACCTAAGGGTCAATTTCCCCTTCCCTCTAGCCTTGGAGCTCTATCTCA
131 AGAAACATCCTCCAATCACCCAAGGGTAAATTTCCCCTTCCCTCTAGCCTTGGAGCTCTATCTCA
* * *
2797817 CTTCTTTCACTAATTAAATATAAGAAAAATGGTTACTAACTCATATAGGAGATTGGATTGAAGTT
196 ATTCTTTCACTAATCAAATATAAGAAAAAGGGTTACTAACTCATATAGGAGATTGGATTGAAGTT
* * * *
2797882 AGGAACACTTCTTAGAACTTAAATCCATAAAAAAACGAGCTGGAATCAATTGTTTCTTAAACCTC
261 AAGAACACTTCTTAGAACTTAAATCCACAAAAAAACAAGCTAGAATCAATTGTTTCTTAAACCTC
* * * * *
2797947 ACTAAAATTCATTTTTGGTTTCTATGGTAAAATCTTGATTATTGGGGCTTAAATGAAAGCTTGAA
326 ACTAAAACTCACTATTGGTTTCTATGGCAAAATCTTGATTATAGGGGCTTAAATGAAAGCTTGAA
2798012 AGATGGGGATGAAATTTT
391 AGATGGGGATGAAATTTT
* *
2798030 ACCAAAACATGGAATCTACCATGGATGCTCAATCATGCTTTATAACTCAACTCTCTAGCTAGAAT
1 ACCAAAACATGAAATCTACCATGGATGCTCAATCATGCTTTATAACTCAACTCTCTAGCTAGAAA
* *
2798095 GCATTCTAATGACTCACAAATGGTACGGAGAAGTTATGAATGTGTTACATTAGTCTCTTAGTTGC
66 GCATTCTAATGACTCACAAATGGTACGAAGAAGTTATGAATGTGTTAC-TTAGTCTCTTAGCTGC
* * * * * *
2798160 TAGAAATATCCTTCAATCACCCAAGGGTAAATTTCTCTTTCCCTCTAGCCTTTGAGCTTTATCTC
130 TAGAAACATCCTCCAATCACCCAAGGGTAAATTTCCCCTTCCCTCTAGCCTTGGAGCTCTATCTC
*
2798225 AATTCTTTCACTAATCAAATATAAGAAAAAGGGTTACTAACTCATATAGGAGCTTGGATTGAAGT
195 AATTCTTTCACTAATCAAATATAAGAAAAAGGGTTACTAACTCATATAGGAGATTGGATTGAAGT
*
2798290 TAAGAACACTTCTTATAACTTAAATCCACAAAAAAA-AAGCTAGAATCAATTGATTTCTTAAACC
260 TAAGAACACTTCTTAGAACTTAAATCCACAAAAAAACAAGCTAGAATCAATTG-TTTCTTAAA-C
2798354 CTCACTAAAACTCACTATTGGTTTCTATGGCAAAATCTTGATTATAGGGGCTTAAATGAAAGCTT
323 CTCACTAAAACTCACTATTGGTTTCTATGGCAAAATCTTGATTATAGGGGCTTAAATGAAAGCTT
2798419 GAAA-ATGGGGATGAAATT
388 GAAAGATGGGGATGAAATT
2798437 CTTGAGAAGA
Statistics
Matches: 377, Mismatches: 27, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
408 123 0.33
409 189 0.50
410 65 0.17
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (408 bp):
ACCAAAACATGAAATCTACCATGGATGCTCAATCATGCTTTATAACTCAACTCTCTAGCTAGAAA
GCATTCTAATGACTCACAAATGGTACGAAGAAGTTATGAATGTGTTACTTAGTCTCTTAGCTGCT
AGAAACATCCTCCAATCACCCAAGGGTAAATTTCCCCTTCCCTCTAGCCTTGGAGCTCTATCTCA
ATTCTTTCACTAATCAAATATAAGAAAAAGGGTTACTAACTCATATAGGAGATTGGATTGAAGTT
AAGAACACTTCTTAGAACTTAAATCCACAAAAAAACAAGCTAGAATCAATTGTTTCTTAAACCTC
ACTAAAACTCACTATTGGTTTCTATGGCAAAATCTTGATTATAGGGGCTTAAATGAAAGCTTGAA
AGATGGGGATGAAATTTT
Found at i:2801980 original size:273 final size:277
Alignment explanation
Indices: 2801483--2802040 Score: 1016
Period size: 273 Copynumber: 2.0 Consensus size: 277
2801473 ATATTTTTCA
2801483 ATAAAAAATAAACAATTGTTATAATTTTGTTAGGCGTGATTGAATTATTTAAAAATATCATTTTA
1 ATAAAAAATAAACAATTGTTATAATTTTGTTAGGCGTGATTGAATTATTTAAAAATATCATTTTA
2801548 ATAAAATATTTTAAAATTTACTAAAACGATAAATTTAGCCGCCAAATTAAATATTAAATTCAAAA
66 ATAAAATATTTTAAAATTTACTAAAACG---AA-TT---CGCCAAATTAAATATTAAATTCAAAA
2801613 GTACAATTAAATGTGAGGAATGATTAATATCTTCCGACTCCAATTAATAAAAATAGAATTATCTA
124 GTACAATTAAATGTGAGGAATGATTAATATCTTCCGACTCCAATTAATAAAAATAGAATTATCTA
2801678 ATTGTTTGTTATCCTTAATTTAATTTCAGGGTTCGTGCT-CCCTCCTAACAATATCTTTCCGAAT
189 ATTGTTTGTTATCCTTAATTTAATTTCAGGGTTCGTGCTCCCCTCCTAACAATATCTTTCCGAAT
2801742 TTTTGATTAATTCGACTCAAATCC
254 TTTTGATTAATTCGACTCAAATCC
2801766 ATAAAAAATAAACAATTGTTATAATTTTGTTAGGCGTGATTGAATTATTTAAAAATATCATTTTA
1 ATAAAAAATAAACAATTGTTATAATTTTGTTAGGCGTGATTGAATTATTTAAAAATATCATTTTA
2801831 ATAAAATATTTTAAAATTTACTAAAACG-A-T-GCCAAATTAAATATTAAATTCAAAAGTACAAT
66 ATAAAATATTTTAAAATTTACTAAAACGAATTCGCCAAATTAAATATTAAATTCAAAAGTACAAT
*
2801893 TAAATGTGAGGAATGATTAATATCTTCCGATTCCAATTAATAAAAATAGAATTATCTAATTGTTT
131 TAAATGTGAGGAATGATTAATATCTTCCGACTCCAATTAATAAAAATAGAATTATCTAATTGTTT
2801958 GTTATCCTTAATTTAATTTCAGGGTTCGTGCTCCCCTCCTAACAATATCTTTCCGAATTTTTGAT
196 GTTATCCTTAATTTAATTTCAGGGTTCGTGCTCCCCTCCTAACAATATCTTTCCGAATTTTTGAT
2802023 TAATTCGACTCAAATCC
261 TAATTCGACTCAAATCC
2802040 A
1 A
2802041 GAATTATATT
Statistics
Matches: 273, Mismatches: 1, Indels: 11
0.96 0.00 0.04
Matches are distributed among these distances:
273 128 0.47
274 50 0.18
277 1 0.00
279 1 0.00
283 93 0.34
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (277 bp):
ATAAAAAATAAACAATTGTTATAATTTTGTTAGGCGTGATTGAATTATTTAAAAATATCATTTTA
ATAAAATATTTTAAAATTTACTAAAACGAATTCGCCAAATTAAATATTAAATTCAAAAGTACAAT
TAAATGTGAGGAATGATTAATATCTTCCGACTCCAATTAATAAAAATAGAATTATCTAATTGTTT
GTTATCCTTAATTTAATTTCAGGGTTCGTGCTCCCCTCCTAACAATATCTTTCCGAATTTTTGAT
TAATTCGACTCAAATCC
Found at i:2804720 original size:35 final size:35
Alignment explanation
Indices: 2804681--2804755 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
2804671 AAAACACTTT
* *
2804681 AATTTAGGGTTTATAATATAATTAAAGTATTTTGG
1 AATTTAGGGTTTAGAATATAACTAAAGTATTTTGG
* * * *
2804716 AATTTGGGGTTTAGAATATAACTGAATTGTTTTGG
1 AATTTAGGGTTTAGAATATAACTAAAGTATTTTGG
2804751 AATTT
1 AATTT
2804756 TGAACATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.45
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATATAACTAAAGTATTTTGG
Found at i:2815449 original size:22 final size:21
Alignment explanation
Indices: 2815417--2815491 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
2815407 GTGTCATCAG
*
2815417 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
* *
2815438 TGAAGTCCTTCGGGCCATCA-G-
1 T-AAGTCCTTCGAG-CATGATGA
*
2815459 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
*
2815480 TTAAATCCTTCG
1 -TAAGTCCTTCG
2815492 GGAAATTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
19 4 0.10
20 11 0.27
21 2 0.05
22 20 0.49
23 4 0.10
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (21 bp):
TAAGTCCTTCGAGCATGATGA
Found at i:2815469 original size:20 final size:19
Alignment explanation
Indices: 2815411--2815474 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
2815401 CAGTAAGTGT
2815411 CATCAGTAAGTCTTTCGAG
1 CATCAGTAAGTCTTTCGAG
* * *
2815430 CATGATGATGAAGTCCTTCGGG
1 CATCA-G-T-AAGTCTTTCGAG
2815452 CCATCAGTAAGTCTTTCGAG
1 -CATCAGTAAGTCTTTCGAG
2815472 CAT
1 CAT
2815475 GATGATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 7 0.20
20 11 0.31
21 2 0.06
22 11 0.31
23 4 0.11
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (19 bp):
CATCAGTAAGTCTTTCGAG
Found at i:2815470 original size:42 final size:42
Alignment explanation
Indices: 2815411--2815813 Score: 375
Period size: 42 Copynumber: 9.4 Consensus size: 42
2815401 CAGTAAGTGT
*
2815411 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
* *
2815453 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGA
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
* * * * *
2815495 AATTTA-TAAGCCTTCATCGAAG-A-GTAGTGAAGCAAATCCATCAGTAAGTGC
1 CA-TCAGTAAGTCTT--TCG-AGCATG-A-TGATG-AAATCCTTC-G---G-GC
* * *
2815546 TATCAGTAAGTCTTTCGAGCATTATGATTAAATCCTTCGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
* *
2815588 CATTAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
* *
2815630 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGAC
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
* *
2815672 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
* * * * *
2815714 CATCAATAAGTCTTTCGAGCATGATGATTAAATCATTCAGGT
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
*** * * * * *
2815756 CATTTTTGAGTCTTTCGAGCAAGATAAT-AAATCATTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
*
2815797 CATCCA-TAAGTCCTTCG
1 CAT-CAGTAAGTCTTTCG
2815814 GGTAGAATCT
Statistics
Matches: 303, Mismatches: 42, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
41 24 0.08
42 225 0.74
43 4 0.01
44 5 0.02
45 5 0.02
46 9 0.03
47 9 0.03
48 5 0.02
49 5 0.02
50 3 0.01
51 9 0.03
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (42 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
Found at i:2815518 original size:135 final size:134
Alignment explanation
Indices: 2815276--2815747 Score: 538
Period size: 135 Copynumber: 3.6 Consensus size: 134
2815266 TTCTTCGGGC
* * *
2815276 CATCAATAAGTCTTTAGAGCATGAT-ACTTAAATCCTTAGGGCCATCAGTAA-TGCTTTCGAGCA
1 CATCAGTAAGTCTTTCGAGCATGATGA-TTAAATCCTTCGGGCCATCAGTAAGT-CTTTCGAGCA
* * ** * * * *
2815339 TGATGATTAAGTCTTTAAGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAACCCATCAG
64 TGATGATTAAATCCTTCGGGAAATTTATAAGCCTTCATCGAAGAGTAGTGAAGCAAATCCATCAG
2815404 TAAGTG
129 TAAGTG
* *
2815410 TCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
1 -CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
2815475 GATGATTAAATCCTTCGGGAAATTTATAAGCCTTCATCGAAGAGTAGTGAAGCAAATCCATCAGT
65 GATGATTAAATCCTTCGGGAAATTTATAAGCCTTCATCGAAGAGTAGTGAAGCAAATCCATCAGT
2815540 AAGTG
130 AAGTG
* *
2815545 CTATCAGTAAGTCTTTCGAGCATTATGATTAAATCCTTCGGGCCATTAGTAAGTCTTTCGAGCAT
1 C-ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * ** * * * * *
2815610 GATGATGAAGTCCTTCGGGCCA-TCAGTAAGTCTT--TCG-AGCA-T-GATGATG-AAGTCCTTC
65 GATGATTAAATCCTTCGGGAAATTTA-TAAGCCTTCATCGAAG-AGTAG-TGAAGCAAATCCATC
**
2815668 -G---GAC
127 AGTAAGTG
* *
2815672 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGCCATCAATAAGTCTTTCGAGCATG
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
2815737 ATGATTAAATC
66 ATGATTAAATC
2815748 ATTCAGGTCA
Statistics
Matches: 297, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
126 69 0.23
127 2 0.01
130 1 0.00
131 8 0.03
132 7 0.02
133 4 0.01
134 3 0.01
135 201 0.68
136 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (134 bp):
CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
ATGATTAAATCCTTCGGGAAATTTATAAGCCTTCATCGAAGAGTAGTGAAGCAAATCCATCAGTA
AGTG
Found at i:2815646 original size:20 final size:20
Alignment explanation
Indices: 2815581--2815730 Score: 81
Period size: 20 Copynumber: 7.2 Consensus size: 20
2815571 GATTAAATCC
*
2815581 TTCGGGCCATTAGTAAGTCT
1 TTCGGGCCATCAGTAAGTCT
* * *
2815601 TTCGAG-CATGATGATGAAGTCC
1 TTCGGGCCATCA-G-T-AAGTCT
2815623 TTCGGGCCATCAGTAAGTCT
1 TTCGGGCCATCAGTAAGTCT
* * *
2815643 TTCGAG-CATGATGATGAAGTCC
1 TTCGGGCCATCA-G-T-AAGTCT
*
2815665 TTCGGACCATCAGTAAGTCT
1 TTCGGGCCATCAGTAAGTCT
* * * *
2815685 TTCGAG-CATGATGATTAAATCA
1 TTCGGGCCATCA-G--TAAGTCT
*
2815707 TTCGGGCCATCAATAAGTCT
1 TTCGGGCCATCAGTAAGTCT
2815727 TTCG
1 TTCG
2815731 AGCATGATGA
Statistics
Matches: 95, Mismatches: 23, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
19 12 0.13
20 36 0.38
21 4 0.04
22 31 0.33
23 12 0.13
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (20 bp):
TTCGGGCCATCAGTAAGTCT
Found at i:2816359 original size:53 final size:53
Alignment explanation
Indices: 2816233--2816488 Score: 272
Period size: 53 Copynumber: 4.9 Consensus size: 53
2816223 AGAATCACAC
* * * * * *
2816233 CAGAAAATTGTTCGAGTTTTACTCCCTAAATCAAGAGGGAG-G-A-TCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
* *
2816283 CAGAAGATTGTTCAAGTTATACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
* * * * * *
2816336 CAGAAGATTGTTTGATTTCTACTCCCTGAAGCATGAGGGAACGAATCCATAGGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTA-GA
* * * *
2816390 -AGGAGATTGTTTGAGTTCTGCTCCCTGAAGCAAGA--GAGCGAACCCGTAAA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
* * *
2816440 CAAAAGATTCTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG
2816489 CTGGTCAAAT
Statistics
Matches: 170, Mismatches: 29, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
50 37 0.22
51 40 0.24
52 1 0.01
53 90 0.53
54 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
Found at i:2818828 original size:15 final size:15
Alignment explanation
Indices: 2818808--2818843 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2818798 AAAGAAAATT
*
2818808 AAGTTCTAATTTGTA
1 AAGTTCGAATTTGTA
2818823 AAGTTCGAATTTGTA
1 AAGTTCGAATTTGTA
2818838 AAGTTC
1 AAGTTC
2818844 ATTGCAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (15 bp):
AAGTTCGAATTTGTA
Found at i:2820898 original size:45 final size:46
Alignment explanation
Indices: 2820801--2820907 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 46
2820791 CGGTGCACTA
* *
2820801 AGAGTGCATCGATGCATGAAGTGCATTTGATGTTTGAAAAATAACC
1 AGAGTGCATCGATGCATCAAATGCATTTGATGTTTGAAAAATAACC
* * ** *
2820847 TG-GTGCATCGATGCATCAAATGCATTTGATGTTTTAATTA-AATC
1 AGAGTGCATCGATGCATCAAATGCATTTGATGTTTGAAAAATAACC
2820891 AGAGTGCATCGATGCAT
1 AGAGTGCATCGATGCAT
2820908 GTAGAGTGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
44 4 0.08
45 47 0.90
46 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (46 bp):
AGAGTGCATCGATGCATCAAATGCATTTGATGTTTGAAAAATAACC
Found at i:2820915 original size:19 final size:19
Alignment explanation
Indices: 2820891--2820927 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2820881 TAATTAAATC
2820891 AGAGTGCATCGATGCATGT
1 AGAGTGCATCGATGCATGT
*
2820910 AGAGTGCATCGGTGCATG
1 AGAGTGCATCGATGCATG
2820928 GAATGAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGT
Found at i:2820981 original size:21 final size:21
Alignment explanation
Indices: 2820955--2820994 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2820945 CAATTTATTC
2820955 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
2820976 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
2820995 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:2823608 original size:24 final size:23
Alignment explanation
Indices: 2823540--2823618 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
2823530 CATGGTCTTG
*
2823540 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
*
2823563 TGCATCG-TGCATCATGC-A--GA
1 TGCATCGATGCA-CATTCAAGGGA
2823583 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
2823607 TGCATCGATGCA
1 TGCATCGATGCA
2823619 TTGTTAAGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
20 12 0.26
21 4 0.09
22 6 0.13
23 11 0.23
24 14 0.30
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:2829458 original size:64 final size:62
Alignment explanation
Indices: 2829386--2829548 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 62
2829376 CGGTGCACTA
* *
2829386 AGAGTGCATCGATGCATGAAGTGCATTCGATGTTTAA-AAAAT-AGCCTGGTGCATCGATGCATG
1 AGAGTGCATCGATGCATGAA-TGCATTCGATGTTTAATAAAATCAG---AGTGCATCAATGCATG
2829449 G
62 G
** * *
2829450 ATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCAATGCATGG
1 AGAGTGCATCGATGCAT-GAATGCATTCGATG-TTTAATAAAATCAGAGTGCATCAATGCATGG
* *
2829514 AGAGTGCATTGGTGCATGGAATGCATTCGATGTTT
1 AGAGTGCATCGATGCAT-GAATGCATTCGATGTTT
2829549 CAATTTATTC
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
63 3 0.04
64 67 0.81
65 7 0.08
66 4 0.05
67 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (62 bp):
AGAGTGCATCGATGCATGAATGCATTCGATGTTTAATAAAATCAGAGTGCATCAATGCATGG
Found at i:2829605 original size:21 final size:21
Alignment explanation
Indices: 2829559--2829598 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2829549 CAATTTATTC
2829559 ATTGATGCATCGATGCATGAT
1 ATTGATGCATCGATGCATGAT
*
2829580 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
2829599 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGAT
Found at i:2832052 original size:265 final size:256
Alignment explanation
Indices: 2831500--2832054 Score: 800
Period size: 265 Copynumber: 2.1 Consensus size: 256
2831490 CTTATTCATA
* *
2831500 TATTGAATAAAAATATTTTTTTATTATTTCGGGT---TGGGTCGGGTCGGATTTCTAATTCATAT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGTGGGTCGGGCCGGATTTCTAACTCATAT
* * *
2831562 ATTCGGGTCGGGTGAAACTTTATTTTAGTCGGGTCGATTTTTTTAAGTGTGATATTCGGGTAGGG
66 ATTCGGGTCGGGTGAAACTTTATTTTAGTCGGGTCGATTTTTTTAAGTGTGAAATTCAGGTAGGC
2831627 TCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCAAAAAATATATATAATTTTACCTTATATAT
131 TCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCAAAAAATATATATAATTTTACCTTATATAT
* * *
2831692 TTAGGAATAATTACAATAATACATCTCTATATATAATTTTTTTAAATTAAGTCACTGTTTT
196 TTAGGAATAATTACAATAATACACCTCTATATATAATTATATTAAATTAAGTCACTGTTTT
2831753 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGTCGGGTCGGGCCGGATTTCTAACTCATA
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGT-GGGTCGGGCCGGATTTCTAACTCATA
* * *
2831818 TATTCGGGTCGGGTCGGTGAAACTTTATTTTGGTTGGGTCGGTCGGTTTTTTTAAGTGTGAAATT
65 TATTCGGGTC--G--GGTGAAACTTTATTTTAG-T-CG--GGTCGATTTTTTTAAGTGTGAAATT
* *
2831883 CAGGTTGGCTCGGGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCAAAAA-ATATATAATT
122 CAGGTAGGCTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCC-A---AAAAATATATATAATT
* *
2831947 TTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATAT-A-TATATTCAATTAAGT
183 TTACCTTATATATTTAGGAATAATTACAATAATACACCTCTATATATAATTATATTAAATTAAGT
2832010 CACTGTTTT
248 CACTGTTTT
*
2832019 TATTGAATAAAAATATTTTTTT-TAATTTCGGGTCGG
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGG
2832055 GTTTCTAATT
Statistics
Matches: 270, Mismatches: 16, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
253 34 0.13
256 1 0.00
257 34 0.13
259 1 0.00
261 17 0.06
262 1 0.00
263 1 0.00
265 76 0.28
266 44 0.16
267 1 0.00
268 55 0.20
269 5 0.02
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (256 bp):
TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGTGGGTCGGGCCGGATTTCTAACTCATAT
ATTCGGGTCGGGTGAAACTTTATTTTAGTCGGGTCGATTTTTTTAAGTGTGAAATTCAGGTAGGC
TCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCAAAAAATATATATAATTTTACCTTATATAT
TTAGGAATAATTACAATAATACACCTCTATATATAATTATATTAAATTAAGTCACTGTTTT
Found at i:2834436 original size:28 final size:28
Alignment explanation
Indices: 2834395--2834464 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
2834385 TAAATTTTGT
* *
2834395 TCTTTCATATCTCTCGTTACTGCGCCGA
1 TCTTTCAAACCTCTCGTTACTGCGCCGA
* *
2834423 TCTTTCAAACCTCTTGTTTCTGCGCCGA
1 TCTTTCAAACCTCTCGTTACTGCGCCGA
*
2834451 TCTTTTAAACCTCT
1 TCTTTCAAACCTCT
2834465 GGTCTCCACT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.16, C:0.31, G:0.11, T:0.41
Consensus pattern (28 bp):
TCTTTCAAACCTCTCGTTACTGCGCCGA
Found at i:2840489 original size:83 final size:83
Alignment explanation
Indices: 2840350--2840517 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 83
2840340 TATAATTCAA
2840350 ATTAATCATTTATTTTGCTATTTTTTAAAATAATTAAAAAAATTATAGTAAAATGTTTATAAAAG
1 ATTAATCATTTATTTTGCTATTTTTTAAAATAATTAAAAAAATTATAGTAAAATGTTTATAAAAG
2840415 AAAAGTATAAATACATAC
66 AAAAGTATAAATACATAC
2840433 ATTAATCATTTATTTTGCTATTTTTTAAAATAATTAAAAAAATTATAGTAAAATGTTTATAAAAG
1 ATTAATCATTTATTTTGCTATTTTTTAAAATAATTAAAAAAATTATAGTAAAATGTTTATAAAAG
*
2840498 AAAAGTATAAATATATAC
66 AAAAGTATAAATACATAC
2840516 AT
1 AT
2840518 GAAAATCTAA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (83 bp):
ATTAATCATTTATTTTGCTATTTTTTAAAATAATTAAAAAAATTATAGTAAAATGTTTATAAAAG
AAAAGTATAAATACATAC
Found at i:2843020 original size:2 final size:2
Alignment explanation
Indices: 2843013--2843055 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2843003 TAACCGATTT
2843013 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2843055 A
1 A
2843056 TGAAATGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2843836 original size:29 final size:28
Alignment explanation
Indices: 2843773--2843837 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
2843763 CAGTCCAATG
2843773 GTATAATTGTAATGAAAATAAAATTTAGT
1 GTATAATTG-AATGAAAATAAAATTTAGT
2843802 GTTATAATTG-AT-AAAATTAAAAGTTTAGT
1 G-TATAATTGAATGAAAA-TAAAA-TTTAGT
2843831 AGTATAA
1 -GTATAA
2843838 ACGACACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
27 4 0.12
28 7 0.22
29 12 0.38
30 9 0.28
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (28 bp):
GTATAATTGAATGAAAATAAAATTTAGT
Found at i:2847409 original size:29 final size:29
Alignment explanation
Indices: 2847348--2847440 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 29
2847338 GAACATGGAT
*** * * *
2847348 TAAATCCCATACAAAAATTGGACAGTGAT
1 TAAATCCCATACAAAAACAAGACGGGGAA
2847377 TAAATCCCATACAAAAACAAGACGGGGAA
1 TAAATCCCATACAAAAACAAGACGGGGAA
** * * *
2847406 TAAATCCCATGTAGAATCAAGAGGGGGAA
1 TAAATCCCATACAAAAACAAGACGGGGAA
2847435 TAAATC
1 TAAATC
2847441 TCATTAGAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (29 bp):
TAAATCCCATACAAAAACAAGACGGGGAA
Found at i:2847449 original size:28 final size:29
Alignment explanation
Indices: 2847394--2847451 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
2847384 CATACAAAAA
2847394 CAAGACGGGGAATAAATCCCATGTAGAAT
1 CAAGACGGGGAATAAATCCCATGTAGAAT
* *
2847423 CAAGAGGGGGAATAAATCTCAT-TAGAAT
1 CAAGACGGGGAATAAATCCCATGTAGAAT
2847451 C
1 C
2847452 TTTGAGTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (29 bp):
CAAGACGGGGAATAAATCCCATGTAGAAT
Found at i:2848431 original size:2 final size:2
Alignment explanation
Indices: 2848424--2848463 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2848414 AATGCCTAAA
2848424 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
2848464 TAAAGTACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2849256 original size:2 final size:2
Alignment explanation
Indices: 2849249--2849297 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
2849239 TAAGAGTCAC
*
2849249 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GT GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2849291 GA GA GA G
1 GA GA GA G
2849298 TAATCTATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.51, T:0.02
Consensus pattern (2 bp):
GA
Found at i:2849746 original size:21 final size:20
Alignment explanation
Indices: 2849720--2849760 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2849710 GAATGAAGTG
*
2849720 AGAAAAGAAGCAAAAAGAAAA
1 AGAAAA-AAACAAAAAGAAAA
*
2849741 AGAAAAAAACGAAAAGAAAA
1 AGAAAAAAACAAAAAGAAAA
2849761 CATAACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (20 bp):
AGAAAAAAACAAAAAGAAAA
Found at i:2854556 original size:10 final size:10
Alignment explanation
Indices: 2854541--2854569 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
2854531 ATAGACTGCT
2854541 AAGAGAGAGA
1 AAGAGAGAGA
2854551 AAGAGAGAGA
1 AAGAGAGAGA
2854561 AAGAGAGAG
1 AAGAGAGAG
2854570 TCAATTTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (10 bp):
AAGAGAGAGA
Found at i:2856813 original size:22 final size:19
Alignment explanation
Indices: 2856786--2856835 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
2856776 AAGATTTTTT
2856786 AAAATAAATTAATTTTTAATTA
1 AAAATAAA--AATTTTT-ATTA
*
2856808 AAAAT-AACATTTTTATTA
1 AAAATAAAAATTTTTATTA
2856826 AAAATAAAAA
1 AAAATAAAAA
2856836 ATAGACGGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
21 2 0.08
22 5 0.20
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATAAAAATTTTTATTA
Found at i:2856819 original size:19 final size:18
Alignment explanation
Indices: 2856797--2856832 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
2856787 AAATAAATTA
2856797 ATTTTTAATTAAAAATAAC
1 ATTTTT-ATTAAAAATAAC
2856816 ATTTTTATTAAAAATAA
1 ATTTTTATTAAAAATAA
2856833 AAAATAGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTTTATTAAAAATAAC
Found at i:2862880 original size:19 final size:19
Alignment explanation
Indices: 2862856--2862898 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
2862846 CGATTATGGA
2862856 GAGAAGAGAAACCAAAAAG
1 GAGAAGAGAAACCAAAAAG
*
2862875 GAGAAGAGAAACCAGAAAG
1 GAGAAGAGAAACCAAAAAG
2862894 GAGAA
1 GAGAA
2862899 ATGAAGGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.09, G:0.30, T:0.00
Consensus pattern (19 bp):
GAGAAGAGAAACCAAAAAG
Found at i:2871030 original size:22 final size:23
Alignment explanation
Indices: 2870991--2871034 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2870981 CCGAATTGTG
*
2870991 CCCCCTTTTGTTGAAAAATCACT
1 CCCCCCTTTGTTGAAAAATCACT
2871014 CCCCCCTTTGTTG-AAAATCAC
1 CCCCCCTTTGTTGAAAAATCAC
2871035 CCGGCGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.25, C:0.34, G:0.09, T:0.32
Consensus pattern (23 bp):
CCCCCCTTTGTTGAAAAATCACT
Found at i:2874365 original size:15 final size:15
Alignment explanation
Indices: 2874345--2874376 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2874335 AAAATCTTTC
*
2874345 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
2874360 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
2874375 TT
1 TT
2874377 GGATCTGCCA
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:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:2875132 original size:16 final size:16
Alignment explanation
Indices: 2875108--2875139 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2875098 TATCGCCGAC
*
2875108 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
2875124 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
2875140 TGTGAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:2875622 original size:22 final size:23
Alignment explanation
Indices: 2875584--2875626 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2875574 CCGAATTGTG
2875584 CCCCCCTTTGTTGAAAAATCATT
1 CCCCCCTTTGTTGAAAAATCATT
2875607 CCCCCCTTTGTT-AAAAATCA
1 CCCCCCTTTGTTGAAAAATCA
2875627 CCCGCCGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (23 bp):
CCCCCCTTTGTTGAAAAATCATT
Found at i:2887835 original size:20 final size:20
Alignment explanation
Indices: 2887810--2887866 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
2887800 TTTGTCCGGG
2887810 TTATAAATATTATATTAAAA
1 TTATAAATATTATATTAAAA
* **
2887830 TTAT-AATTTTATTATTATTA
1 TTATAAATATTA-TATTAAAA
*
2887850 TTATAACTATTATATTA
1 TTATAAATATTATATTA
2887867 TAATACATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.20
20 19 0.63
21 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAAATATTATATTAAAA
Found at i:2887846 original size:3 final size:3
Alignment explanation
Indices: 2887829--2887903 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
2887819 TTATATTAAA
* * * * *
2887829 ATT ATA ATT -TT ATT ATT ATT ATT ATA ACT ATT A-T ATT ATA ATAC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
2887873 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2887904 ATGTTACATA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
2 4 0.07
3 52 0.90
4 2 0.03
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:2889281 original size:16 final size:16
Alignment explanation
Indices: 2889260--2889299 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
2889250 ATAGGTTATA
2889260 ATGTAATTATAAAAAT
1 ATGTAATTATAAAAAT
2889276 ATGTAATTATAAAAAT
1 ATGTAATTATAAAAAT
2889292 ATGTAATT
1 ATGTAATT
2889300 GCAATTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (16 bp):
ATGTAATTATAAAAAT
Found at i:2891277 original size:55 final size:54
Alignment explanation
Indices: 2891193--2891334 Score: 212
Period size: 55 Copynumber: 2.6 Consensus size: 54
2891183 ACATTCAAGT
* *
2891193 GATTCATGAAGAATGACGTCCGATGAATGAAGAAATTTGAACCTGATTGAAGAAC
1 GATTCATGAAG-ATGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
*
2891248 GATTCATGAAGATGGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGACC
1 GATTCATGAAGAT-GACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
* *
2891303 GATCCATGAAGAAAGACATCCGATGAATGAAG
1 GATTCATGAAG-ATGACATCCGATGAATGAAG
2891335 TTTGAAGTTG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 2 0.03
55 77 0.96
56 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (54 bp):
GATTCATGAAGATGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
Found at i:2900305 original size:22 final size:21
Alignment explanation
Indices: 2900253--2900306 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
2900243 CCAAAATAAT
* *
2900253 AAAAAAATATTATTTTTATTC
1 AAAAAAATATGATTTTAATTC
*
2900274 AATAAAAATATGATTTTAATTG
1 AA-AAAAATATGATTTTAATTC
2900296 AAAAATAATAT
1 AAAAA-AATAT
2900307 ATAGAGGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
AAAAAAATATGATTTTAATTC
Found at i:2901001 original size:12 final size:12
Alignment explanation
Indices: 2900960--2901002 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
2900950 TAAAGTGATG
2900960 TAAAATTTATTT
1 TAAAATTTATTT
* *
2900972 TTAAATTCTTTTT
1 TAAAATT-TATTT
2900985 ATAAAATTTATTT
1 -TAAAATTTATTT
2900998 TAAAA
1 TAAAA
2901003 AAAAATCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 11 0.44
13 8 0.32
14 6 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
TAAAATTTATTT
Found at i:2901607 original size:19 final size:19
Alignment explanation
Indices: 2901583--2901622 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2901573 CAAGCCCCTG
2901583 CCAGCCCCGTTGTCCTGGT
1 CCAGCCCCGTTGTCCTGGT
2901602 CCAGCCCCGTTGTCCTGGT
1 CCAGCCCCGTTGTCCTGGT
2901621 CC
1 CC
2901623 TTGTTTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.05, C:0.45, G:0.25, T:0.25
Consensus pattern (19 bp):
CCAGCCCCGTTGTCCTGGT
Found at i:2901756 original size:186 final size:186
Alignment explanation
Indices: 2901442--2901789 Score: 660
Period size: 186 Copynumber: 1.9 Consensus size: 186
2901432 AAATACTTCA
2901442 TAGATACATACCAATTTCATAAACAAACACATCAAACCCTAACATTTATATTTGATCATCCTATC
1 TAGATACATACCAATTTCATAAACAAACACATCAAACCCTAACATTTATATTTGATCATCCTATC
*
2901507 TCCGACTAAAAGACTTGAATCTTATTATTTGTATTTGATAGGGACTAGAGAAATGAATTTCCCAT
66 TCCGACTAAAAGACTTGAATCTTATTATTTGTATTTGATAGGGACTAGAGAAATAAATTTCCCAT
*
2901572 TCAAGCCCCTGCCAGCCCCGTTGTCCTGGTCCAGCCCCGTTGTCCTGGTCCTTGTT
131 TAAAGCCCCTGCCAGCCCCGTTGTCCTGGTCCAGCCCCGTTGTCCTGGTCCTTGTT
*
2901628 TAGATACATACCAATTTCATATACAAACACATCAAACCCTAACATTTATATTTGATCATCCTATC
1 TAGATACATACCAATTTCATAAACAAACACATCAAACCCTAACATTTATATTTGATCATCCTATC
2901693 TCCGACTAAAAGACTTGAATCTTATTATTTGTATTTGATAGGGACTAGAGAAATAAATTTCCCAT
66 TCCGACTAAAAGACTTGAATCTTATTATTTGTATTTGATAGGGACTAGAGAAATAAATTTCCCAT
*
2901758 TAAAGCCCCTGTCAGCCCCGTTGTCCTGGTCC
131 TAAAGCCCCTGCCAGCCCCGTTGTCCTGGTCC
2901790 TTGTTAGACC
Statistics
Matches: 158, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 158 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (186 bp):
TAGATACATACCAATTTCATAAACAAACACATCAAACCCTAACATTTATATTTGATCATCCTATC
TCCGACTAAAAGACTTGAATCTTATTATTTGTATTTGATAGGGACTAGAGAAATAAATTTCCCAT
TAAAGCCCCTGCCAGCCCCGTTGTCCTGGTCCAGCCCCGTTGTCCTGGTCCTTGTT
Found at i:2911593 original size:211 final size:212
Alignment explanation
Indices: 2911323--2911752 Score: 645
Period size: 211 Copynumber: 2.0 Consensus size: 212
2911313 CGATAACGGG
*
2911323 GAAAATCAGCATTAATTCGACAAATGAGACAAAATAAGATGTGCAATATAATCTCCAAAACCAAC
1 GAAAATCAGCATGAATTCGACAAATGAGACAAAATAAGATGTGCAATATAATCTCCAAAACCAAC
* *
2911388 ATGTCTCAGCAGAAAGAACGTGAATCATAATCTCAAAGAAACTTT-A-GACTCTTCAAGAGCC-A
66 ATGTCTCAGCAGAAAGAACATGAATCATAATCTCAAAGAAACTTTAAGGACTCCTCAAGAGCCAA
* * *
2911450 ATGATTCTTTTGCATTATTGCATATCTCGACAT-TTCAATCGATTGCTCAATCACAACATAGACT
131 ATGATTCTTTTGCATTATTACATATCTCGACATCTTAAATCGACTGCTCAATCACAACATAGACT
2911514 AGTAACTTCAGGCTGGC
196 AGTAACTTCAGGCTGGC
* *
2911531 GAAAATCAGCATGAATTCGACAAATGAGTCAACTCAATAAGATGTGCAATATTATCTCCAAAACC
1 GAAAATCAGCATGAATTCGACAAATGAGACAA---AATAAGATGTGCAATATAATCTCCAAAACC
* *
2911596 AACATGTCTCAGCAGAAAGAATATGAATCATAATCTCAAAGAAACTTTACAGAGGACTCCTCCAG
63 AACATGTCTCAGCAGAAAGAACATGAATCATAATCTCAAAGAAACTTT--A-AGGACTCCTCAAG
* *
2911661 AGCCAAATGATTCTTTTGCATTATTACATATCTCGACATCTTAAATCGACTGCTCGATCATAACA
125 AGCCAAATGATTCTTTTGCATTATTACATATCTCGACATCTTAAATCGACTGCTCAATCACAACA
* *
2911726 TAGACTCGTAGCTTCAGGCTGGC
190 TAGACTAGTAACTTCAGGCTGGC
2911749 -AAAA
1 GAAAA
2911753 GTATACTAAT
Statistics
Matches: 198, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
208 30 0.15
211 75 0.38
215 1 0.01
216 13 0.07
217 37 0.19
218 42 0.21
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (212 bp):
GAAAATCAGCATGAATTCGACAAATGAGACAAAATAAGATGTGCAATATAATCTCCAAAACCAAC
ATGTCTCAGCAGAAAGAACATGAATCATAATCTCAAAGAAACTTTAAGGACTCCTCAAGAGCCAA
ATGATTCTTTTGCATTATTACATATCTCGACATCTTAAATCGACTGCTCAATCACAACATAGACT
AGTAACTTCAGGCTGGC
Found at i:2915420 original size:2 final size:2
Alignment explanation
Indices: 2915413--2915445 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2915403 TTTCAACGTG
2915413 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2915446 GTACGTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2918464 original size:15 final size:15
Alignment explanation
Indices: 2918444--2918479 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
2918434 ATATGAATTG
2918444 ATTTATTTTTAAATA
1 ATTTATTTTTAAATA
2918459 ATTTA-TTTTAAATA
1 ATTTATTTTTAAATA
2918473 ATTTATT
1 ATTTATT
2918480 AGTATGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATTTTTAAATA
Found at i:2918498 original size:22 final size:23
Alignment explanation
Indices: 2918473--2918546 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 23
2918463 ATTTTAAATA
2918473 ATTTAT-TAGTATGGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* *
2918495 ATTT-TAAAATATGGA-TGATTT
1 ATTTATATAGTATGGATTGATTT
* *
2918516 ATTATTGTAGTTGTATGGATTGATTT
1 A-T-TTATA-TAGTATGGATTGATTT
2918542 ATTTA
1 ATTTA
2918547 AATAATTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
21 8 0.20
22 12 0.30
23 2 0.05
24 4 0.10
25 7 0.17
26 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.53
Consensus pattern (23 bp):
ATTTATATAGTATGGATTGATTT
Found at i:2918585 original size:22 final size:22
Alignment explanation
Indices: 2918560--2918655 Score: 84
Period size: 22 Copynumber: 4.0 Consensus size: 22
2918550 AATTTATTAG
2918560 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
2918582 TATGGATTGATTTATTTAAATAA
1 TATGGATTGATTTATTTTAA-AA
* *
2918605 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGA----TTTATTTTAAAA
2918635 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2918656 TAATTTATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
22 30 0.51
23 2 0.03
25 2 0.03
26 6 0.10
27 6 0.10
28 2 0.03
30 2 0.03
31 9 0.15
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2918590 original size:53 final size:53
Alignment explanation
Indices: 2918529--2919061 Score: 465
Period size: 53 Copynumber: 10.0 Consensus size: 53
2918519 ATTGTAGTTG
2918529 TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
2918582 TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2918635 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAA
1 TATGGATTGATTTA-TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * ** * * * * *
2918688 TA---ATTTATTTGTATGGACTGATTTATTTTAAAATATTGATTTATTTATTTTAAAA
1 TATGGATTGATTTAT-TTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAA
*
2918743 TATGGATTGA-TTATTTTAAATAATTTATTAGTATGGATTGATTGATTTTAAAA
1 TATGGATTGATTTA-TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
2918796 TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** *
2918849 TATATATTGATTTA-TT--AT--TATAGTT-GTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
** ** * ** * * *
2918896 TAATTTATTAGAATAGATTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTA
1 T-ATGGATT-G-ATTTATTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A
* * *
2918960 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGAATTAATTTATTTTAAAA
1 -TATGGATTGATTTA-TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
2919015 TATTGATTGATTTA-TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAA
2919062 TAATTTATTA
Statistics
Matches: 395, Mismatches: 49, Indels: 77
0.76 0.09 0.15
Matches are distributed among these distances:
47 4 0.01
48 51 0.13
49 6 0.02
50 22 0.06
51 1 0.00
52 6 0.02
53 153 0.39
54 81 0.21
55 14 0.04
57 11 0.03
58 6 0.02
59 1 0.00
60 3 0.01
62 4 0.01
63 13 0.03
64 18 0.05
65 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (53 bp):
TATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:2918663 original size:14 final size:14
Alignment explanation
Indices: 2918644--2918697 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
2918634 ATATGGATTG
2918644 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
2918658 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
2918676 ATTTATTTTAAATA
1 ATTTATTTTAAATA
2918690 ATTTATTT
1 ATTTATTT
2918698 GTATGGACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:2918677 original size:32 final size:32
Alignment explanation
Indices: 2918639--2919013 Score: 169
Period size: 32 Copynumber: 11.5 Consensus size: 32
2918629 TTAAAATATG
2918639 GATTGATTTATTTTAAATAATTTATTAGTATA
1 GATTGATTTATTTTAAATAATTTATTAGTATA
* *
2918671 GATTGATTTATTTTAAATAATTTATTTGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATA
* * *
2918703 GACTGATTTATTTTAAAATATTGATTTATTTATTTTAA
1 GATTGATTTATTTT-AAATA---ATTTA-TTAGTAT-A
* *
2918741 AATATGGATTGATTATTTTAAATAATTTATTAGTATG
1 GAT-T-GA-T--TTATTTTAAATAATTTATTAGTATA
* * *
2918778 GATTGATTGATTTTAAAATATGGATTGATTTA-TTTA
1 GATTGATTTATTTT-AAATA---ATTTA-TTAGTATA
* * * * * *
2918814 -AATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
1 GATTGATTTATT--T-T-AAATAATTTA--TT--AGTATA
* * *
2918853 TATTGATTTATTATT--AT-A---GTT-GTATG
1 GATTGATTTATT-TTAAATAATTTATTAGTATA
*
2918879 GATTGATTTATTTTAAATAATTTATTAGAATA
1 GATTGATTTATTTTAAATAATTTATTAGTATA
2918911 GATTGATTTATTTT-AA-AA--TA-T-G----
1 GATTGATTTATTTTAAATAATTTATTAGTATA
*
2918933 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATA
*
2918965 GATTGATTTATTTTAAATAATTTATTTGTAT-
1 GATTGATTTATTTTAAATAATTTATTAGTATA
*
2918996 GAATTAATTTATTTTAAA
1 G-ATTGATTTATTTTAAA
2919014 ATATTGATTG
Statistics
Matches: 262, Mismatches: 39, Indels: 84
0.68 0.10 0.22
Matches are distributed among these distances:
22 14 0.05
23 2 0.01
24 2 0.01
25 2 0.01
26 17 0.06
27 4 0.02
28 4 0.02
29 2 0.01
30 2 0.01
31 5 0.02
32 111 0.42
33 10 0.04
34 2 0.01
35 15 0.06
36 15 0.06
37 10 0.04
38 11 0.04
39 10 0.04
40 11 0.04
41 1 0.00
42 5 0.02
43 7 0.03
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
GATTGATTTATTTTAAATAATTTATTAGTATA
Found at i:2918758 original size:21 final size:22
Alignment explanation
Indices: 2918699--2918762 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
2918689 AATTTATTTG
*
2918699 TATGGACTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* *
2918721 TATTGATTTATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2918743 TATGGATTGA-TTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2918763 TAATTTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 10 0.27
22 27 0.73
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2918780 original size:31 final size:31
Alignment explanation
Indices: 2918743--2918843 Score: 114
Period size: 31 Copynumber: 3.5 Consensus size: 31
2918733 TATTTTAAAA
2918743 TATGGATTGA-TTATTTTAAATAATTTATTAG
1 TATGGATTGATTTA-TTTAAATAATTTATTAG
*
2918774 TATGGATTGATTGATTT---TAA---A--A-
1 TATGGATTGATTTATTTAAATAATTTATTAG
2918796 TATGGATTGATTTATTTAAATAATTTATTAG
1 TATGGATTGATTTATTTAAATAATTTATTAG
2918827 TATGGATTGATTTATTT
1 TATGGATTGATTTATTT
2918844 TAAAATATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 20
0.73 0.03 0.25
Matches are distributed among these distances:
22 16 0.28
23 1 0.02
25 4 0.07
28 4 0.07
30 1 0.02
31 30 0.52
32 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (31 bp):
TATGGATTGATTTATTTAAATAATTTATTAG
Found at i:2918793 original size:214 final size:209
Alignment explanation
Indices: 2918459--2919061 Score: 767
Period size: 214 Copynumber: 2.8 Consensus size: 209
2918449 TTTTTAAATA
*
2918459 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATGATTTA-TTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT---TGATTTATTTATTT
*
2918523 TAGTTGTATGGATTGATT-TATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGG
63 TAGTAGTATGGATTGATTAT-TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGG
*
2918587 ATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT-
127 ATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTA
2918651 TTAAATAATTTATTAGTATAGATTG
192 TT--AT-A---ATT-GTATAGATTG
* *
2918676 ATTTATTTTAAATAATTTATTTGTATGGACTGATTTATTTTAAAATATTGATTTATTTATTTTA-
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTTATTTATTTTAG
* * *
2918740 AAATATGGATTGATTATTTTAAATAATTTATTAGTATGGATTGATTGATTTTAAAATATGGATTG
66 TAGTATGGATTGATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2918805 ATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATATATTGATTTATTATTAT
131 ATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTAT
* *
2918870 AGTTGTATGGATTG
196 AATTGTATAGATTG
* *
2918884 ATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA-AT--ATTGATTTA-TTT--
* * * *
2918949 ATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGAATTAATTTATTTTAAA
59 AT--TTTAGTAGTATGGATTGA-TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
* *
2919014 ATATTGATTGATTTA-TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAA
121 ATATGGATTGATTTATTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAA
2919062 TAATTTATTA
Statistics
Matches: 348, Mismatches: 23, Indels: 33
0.86 0.06 0.08
Matches are distributed among these distances:
208 46 0.13
209 5 0.01
210 2 0.01
212 10 0.03
213 5 0.01
214 149 0.43
215 14 0.04
216 2 0.01
217 50 0.14
218 13 0.04
219 52 0.15
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (209 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTTATTTATTTTAG
TAGTATGGATTGATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
ATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTAT
AATTGTATAGATTG
Found at i:2918809 original size:75 final size:76
Alignment explanation
Indices: 2918671--2918812 Score: 232
Period size: 75 Copynumber: 1.9 Consensus size: 76
2918661 TATTAGTATA
* * * *
2918671 GATTGATTTATTTTAAATAATTTATTTGTATGGACTGATTTATTTTAAAATATTGATTTATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTGATTTTAAAATATGGATTGATTTAT
2918736 TTTAAAATATG
66 TTTAAAATATG
*
2918747 GATTGA-TTATTTTAAATAATTTATTAGTATGGATTGATTGATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTGATTTTAAAATATGGATTGATTTAT
2918811 TT
66 TT
2918813 AAATAATTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
75 55 0.90
76 6 0.10
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.53
Consensus pattern (76 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTGATTTTAAAATATGGATTGATTTAT
TTTAAAATATG
Found at i:2918906 original size:80 final size:80
Alignment explanation
Indices: 2918796--2919110 Score: 456
Period size: 80 Copynumber: 3.9 Consensus size: 80
2918786 GATTTTAAAA
* **
2918796 TATGGATTGATTTA-TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATATATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
2918860 TTATTATTATAGTTG
66 TTATTATTATAGTTG
*
2918875 TATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
*
2918940 TTATT-TTAAATAATTTATTAG
66 TTATTATT--AT-A---GTT-G
* * *
2918961 TATGGATTGATTTATTTTAAATAATTTATTTGTAT-GAATTAATTTATTTTAAAATATTGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGA
*
2919025 TTTATTATTGTAGTTG
65 TTTATTATTATAGTTG
2919041 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
2919106 TTATT
66 TTATT
2919111 TTAAATAATT
Statistics
Matches: 211, Mismatches: 14, Indels: 21
0.86 0.06 0.09
Matches are distributed among these distances:
79 16 0.08
80 117 0.55
81 5 0.02
82 1 0.00
84 1 0.00
85 4 0.02
86 65 0.31
87 2 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTATAGTTG
Found at i:2918940 original size:54 final size:54
Alignment explanation
Indices: 2918875--2919125 Score: 285
Period size: 54 Copynumber: 4.6 Consensus size: 54
2918865 ATTATAGTTG
2918875 TATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAA
* *
2918929 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAA
* * * * * * ***
2918982 TA---ATTTATTTGTATGAATTAATTTATTTTAAAATATTGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTA--TTAGAATA--GATTGATTTA-T-TT-TA-AAA
*
2919041 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAA
*
2919095 TATGGATTGATTTATTTTAAATAATTCATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
2919126 TTATAGTTGT
Statistics
Matches: 161, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
50 18 0.11
52 5 0.03
53 5 0.03
54 88 0.55
55 3 0.02
56 4 0.02
57 2 0.01
58 10 0.06
59 2 0.01
60 6 0.04
62 18 0.11
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAA
Found at i:2918957 original size:14 final size:14
Alignment explanation
Indices: 2918938--2919013 Score: 53
Period size: 18 Copynumber: 4.9 Consensus size: 14
2918928 ATATGGATTG
2918938 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* * *
2918952 ATTTATTAGTATGGATTG
1 ATTTATT--T-T-AAATA
2918970 ATTTATTTTAAATA
1 ATTTATTTTAAATA
2918984 ATTTATTTGTATGAATTA
1 ATTTATTT-TA--AA-TA
2919002 ATTTATTTTAAA
1 ATTTATTTTAAA
2919014 ATATTGATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
14 17 0.35
15 5 0.10
16 2 0.04
17 5 0.10
18 19 0.40
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:2919003 original size:18 final size:18
Alignment explanation
Indices: 2918950--2919009 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
2918940 TTATTTTAAA
* *
2918950 TAATTTATTAGTATGGAT
1 TAATTTATTTGTATGAAT
*
2918968 TGATTTATTT-TA--AA-
1 TAATTTATTTGTATGAAT
2918982 TAATTTATTTGTATGAAT
1 TAATTTATTTGTATGAAT
2919000 TAATTTATTT
1 TAATTTATTT
2919010 TAAAATATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 9 0.26
15 3 0.09
17 4 0.12
18 18 0.53
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
TAATTTATTTGTATGAAT
Found at i:2919017 original size:166 final size:165
Alignment explanation
Indices: 2918459--2918790 Score: 266
Period size: 161 Copynumber: 2.0 Consensus size: 165
2918449 TTTTTAAATA
* * * *
2918459 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGA-TGATTTATTATTG
1 ATTTA-TTTAAATAATTTATTAGTATGAATTAATTTATTTTAAAATATTGATTGATTTATTATTA
* *
2918523 TAGTTGTATGGATTGATTTA-TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGG
65 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAATATGG
*
2918587 ATTGATTTA-TTTAAATAATTTATTAGTATGGATTG
130 ATTGATTTATTTTAAATAATTCATTAGTATGGATTG
* * * * * * * *
2918622 ATTTATTTTAAAATATGGATTGATTTA-TTTTAAATAATTTATTAGT-ATAGATTGATTTATTTT
1 ATTTA-TTT-AAATA---ATTTA-TTAGTATGAATTAATTTATT-TTAAAATATTGATTGA-TTT
* * *
2918685 AAATAATT-TATTTGTATGGACTGATTTATTTT-AA-AA--TATT-G-AT---TT-ATTTATTTT
58 --ATTATTATAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTT
*
2918739 AAAATATGGATTGA-TTATTTTAAATAATTTATTAGTATGGATTG
121 AAAATATGGATTGATTTATTTTAAATAATTCATTAGTATGGATTG
*
2918783 ATTGATTT
1 ATTTATTT
2918791 TAAAATATGG
Statistics
Matches: 142, Mismatches: 15, Indels: 27
0.77 0.08 0.15
Matches are distributed among these distances:
160 6 0.04
161 53 0.37
162 2 0.01
163 9 0.06
164 5 0.04
165 2 0.01
166 1 0.01
167 25 0.18
168 6 0.04
169 5 0.04
170 20 0.14
171 8 0.06
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (165 bp):
ATTTATTTAAATAATTTATTAGTATGAATTAATTTATTTTAAAATATTGATTGATTTATTATTAT
AGTTGTATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAATATGGA
TTGATTTATTTTAAATAATTCATTAGTATGGATTG
Done.