Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 14 of 24
Found at i:2113491 original size:94 final size:94
Alignment explanation
Indices: 2113369--2113564 Score: 302
Period size: 94 Copynumber: 2.1 Consensus size: 94
2113359 AGCTGCTGAA
** * * *
2113369 GCTGCTGGCTTCAGGCGTTATCGCTGCTGGAAGCTGTTGGAGCTGCTGTCGGTGTTCGTGGAAAC
1 GCTGCTGGCTTCAGGCACTATCGCTGCTGGAAGCTGCTGGAGCCGCTATCGGTGTTCGTGGAAAC
*
2113434 TGCTAGAGCTGCTGGTTTCGGATGCTGTT
66 TGCTAGAGCTGCTGGTTTCGGATGCTGTC
* * *
2113463 GCTGTTGGTTTCAGGCACTATCGTTGCTGGAAGCTGCTGGAGCCGCTATCGGTGTTCGTGGAAAC
1 GCTGCTGGCTTCAGGCACTATCGCTGCTGGAAGCTGCTGGAGCCGCTATCGGTGTTCGTGGAAAC
*
2113528 TGCTAGAGCTGCTGGTTTTGGATGCTGTC
66 TGCTAGAGCTGCTGGTTTCGGATGCTGTC
2113557 GCTGCTGG
1 GCTGCTGG
2113565 AGCTGCTGTC
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.12, C:0.20, G:0.36, T:0.32
Consensus pattern (94 bp):
GCTGCTGGCTTCAGGCACTATCGCTGCTGGAAGCTGCTGGAGCCGCTATCGGTGTTCGTGGAAAC
TGCTAGAGCTGCTGGTTTCGGATGCTGTC
Found at i:2113592 original size:31 final size:30
Alignment explanation
Indices: 2113490--2113599 Score: 89
Period size: 31 Copynumber: 3.6 Consensus size: 30
2113480 CTATCGTTGC
* *
2113490 TGGAAGCTGCTGGAGCCGCTATCGGTGTTCG
1 TGGAAGCTGCTGGAGCTGCT-TCGGTGTTCA
* * * *
2113521 TGGAAACTGCTAGAGCTGC-T-GGTTTTGGA
1 TGGAAGCTGCTGGAGCTGCTTCGGTGTT-CA
**
2113550 TGCTGTCGCTGCTGGAGCTGCTGTCGGTGTTCA
1 TG--GAAGCTGCTGGAGCTGCT-TCGGTGTTCA
2113583 TGGAAGCTGCTGGAGCT
1 TGGAAGCTGCTGGAGCT
2113600 ACTGGTTTCA
Statistics
Matches: 59, Mismatches: 14, Indels: 12
0.69 0.16 0.14
Matches are distributed among these distances:
28 5 0.08
29 3 0.05
31 42 0.71
33 4 0.07
34 5 0.08
ACGTcount: A:0.14, C:0.20, G:0.37, T:0.29
Consensus pattern (30 bp):
TGGAAGCTGCTGGAGCTGCTTCGGTGTTCA
Found at i:2114304 original size:23 final size:22
Alignment explanation
Indices: 2114262--2114398 Score: 75
Period size: 23 Copynumber: 6.0 Consensus size: 22
2114252 ATTTCTTTTT
*
2114262 TATTTTATTACTTTTAATGATTTC
1 TATTTT-TTA-TTTTTATGATTTC
2114286 TATTTTTTATTTTTGATGATTT-
1 TATTTTTTATTTTT-ATGATTTC
*
2114308 TATTTTTTTTATTTTTTTGATTTC
1 TA--TTTTTTATTTTTATGATTTC
*
2114332 TTTAATTTTTTATTTTGTTTGATTT-
1 --T-ATTTTTTATTTT-TATGATTTC
** * * *
2114357 T-TTGATT-TTTTTGTTATTTT
1 TATTTTTTATTTTTATGATTTC
*
2114377 TATTTTTTGATTTTTTTGATTT
1 TATTTTTT-ATTTTTATGATTT
2114399 TTTAATTAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
19 6 0.07
20 5 0.05
21 8 0.09
22 6 0.07
23 27 0.30
24 18 0.20
25 11 0.12
26 9 0.10
27 1 0.01
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.74
Consensus pattern (22 bp):
TATTTTTTATTTTTATGATTTC
Found at i:2114316 original size:8 final size:8
Alignment explanation
Indices: 2114305--2114492 Score: 106
Period size: 8 Copynumber: 21.1 Consensus size: 8
2114295 TTTTTGATGA
2114305 TTTTATTTT
1 TTTTA-TTT
2114314 TTTTATTT
1 TTTTATTT
2114322 TTTTGATTT
1 TTTT-ATTT
* *
2114331 CTTTAATT
1 TTTTATTT
2114339 TTTTATTT
1 TTTTATTT
2114347 TGTTTGATTT
1 T-TTT-ATTT
*
2114357 TTTGATTT
1 TTTTATTT
*
2114365 TTTTGTTAT
1 TTTTATT-T
2114374 TTTTATTT
1 TTTTATTT
*
2114382 TTTGATTT
1 TTTTATTT
2114390 TTTTGATTTT
1 TTTT-A-TTT
*
2114400 TTAATTAATT
1 TT--TTATTT
2114410 TTTTATTT
1 TTTTATTT
*
2114418 TTTAATTGAT
1 TTTTATT--T
2114428 TTATTGATTT
1 TT-TT-ATTT
*
2114438 TTTTGTGATT
1 TTTTAT--TT
*
2114448 TTTAATTT
1 TTTTATTT
*
2114456 TTTAATTT
1 TTTTATTT
2114464 TATTACTATATT
1 T-TT--TAT-TT
*
2114476 ATTTATTT
1 TTTTATTT
2114484 TTTTATTT
1 TTTTATTT
2114492 T
1 T
2114493 ATATCGAATA
Statistics
Matches: 141, Mismatches: 20, Indels: 37
0.71 0.10 0.19
Matches are distributed among these distances:
8 70 0.50
9 32 0.23
10 26 0.18
11 6 0.04
12 7 0.05
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (8 bp):
TTTTATTT
Found at i:2114316 original size:25 final size:25
Alignment explanation
Indices: 2114288--2114393 Score: 110
Period size: 25 Copynumber: 4.2 Consensus size: 25
2114278 ATGATTTCTA
*
2114288 TTTTTTATTTTTGATGATTTT-ATTT
1 TTTTTTATTTTTGAT-TTTTTGATTT
* *
2114313 TTTTTATTTTTTTGATTTCTTTAATTT
1 TTTTT-TATTTTTGATTT-TTTGATTT
*
2114340 TTTATTT-TGTTTGATTTTTTGATTT
1 TTT-TTTATTTTTGATTTTTTGATTT
2114365 TTTTGTTATTTTT-ATTTTTTGATTT
1 TTTT-TTATTTTTGATTTTTTGATTT
2114390 TTTT
1 TTTT
2114394 GATTTTTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.01
25 34 0.49
26 25 0.36
27 8 0.11
28 2 0.03
ACGTcount: A:0.13, C:0.01, G:0.08, T:0.78
Consensus pattern (25 bp):
TTTTTTATTTTTGATTTTTTGATTT
Found at i:2114317 original size:9 final size:9
Alignment explanation
Indices: 2114305--2114420 Score: 73
Period size: 9 Copynumber: 13.2 Consensus size: 9
2114295 TTTTTGATGA
2114305 TTTTATTTT
1 TTTTATTTT
2114314 TTTTATTTT
1 TTTTATTTT
*
2114323 TTTGA-TTT
1 TTTTATTTT
* *
2114331 CTTTA-ATT
1 TTTTATTTT
2114339 TTTTATTTT
1 TTTTATTTT
*
2114348 GTTTGA-TTT
1 -TTTTATTTT
*
2114357 TTTGA-TTT
1 TTTTATTTT
* *
2114365 TTTTGTTAT
1 TTTTATTTT
2114374 TTTTA-TTT
1 TTTTATTTT
*
2114382 TTTGATTTT
1 TTTTATTTT
*
2114391 TTTGATTTT
1 TTTTATTTT
*
2114400 TTAATTA-ATT
1 TT--TTATTTT
2114410 TTTTATTTT
1 TTTTATTTT
2114419 TT
1 TT
2114421 AATTGATTTA
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
8 32 0.38
9 42 0.50
10 8 0.10
11 2 0.02
ACGTcount: A:0.15, C:0.01, G:0.06, T:0.78
Consensus pattern (9 bp):
TTTTATTTT
Found at i:2114320 original size:24 final size:23
Alignment explanation
Indices: 2114259--2114323 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
2114249 GCCATTTCTT
* *
2114259 TTTTATTTTATTACTTTTAATGA
1 TTTTATTTTTTTATTTTTAATGA
*
2114282 TTTCTA-TTTTTTATTTTTGATGA
1 TTT-TATTTTTTTATTTTTAATGA
2114305 TTTTATTTTTTTTATTTTT
1 TTTTA-TTTTTTTATTTTT
2114324 TTGATTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 2 0.06
23 20 0.56
24 14 0.39
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTTATTTTTTTATTTTTAATGA
Found at i:2114358 original size:34 final size:33
Alignment explanation
Indices: 2114305--2114405 Score: 125
Period size: 34 Copynumber: 3.0 Consensus size: 33
2114295 TTTTTGATGA
*
2114305 TTTTATTTTTTTTATTTTTTTGATTTCTTTAATT
1 TTTTATTTTTTTGATTTTTTTGATTT-TTTAATT
**
2114339 TTTTATTTTGTTTGA-TTTTTTGATTTTTTTGTT
1 TTTTATTTT-TTTGATTTTTTTGATTTTTTAATT
2114372 ATTTT-TATTTTTTGATTTTTTTGATTTTTTAATT
1 -TTTTAT-TTTTTTGATTTTTTTGATTTTTTAATT
2114406 AATTTTTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
33 11 0.19
34 43 0.74
35 4 0.07
ACGTcount: A:0.14, C:0.01, G:0.07, T:0.78
Consensus pattern (33 bp):
TTTTATTTTTTTGATTTTTTTGATTTTTTAATT
Found at i:2114358 original size:42 final size:42
Alignment explanation
Indices: 2114287--2114458 Score: 142
Period size: 42 Copynumber: 4.0 Consensus size: 42
2114277 AATGATTTCT
*
2114287 ATTTTTT-ATTTTTGATGATTTTATT--TTTTTT-ATTTTTTTG
1 ATTTTTTAATTTTT--TGATTTTTTTGATTTTTTAATTTTTTTG
*
2114327 ATTTCTTTAATTTTTT-ATTTTGTTTGATTTTTTGATTTTTTTG
1 ATTT-TTTAATTTTTTGATTTT-TTTGATTTTTTAATTTTTTTG
* *
2114370 -TTATTTTTATTTTTTGATTTTTTTGATTTTTTAATTAATTTTTT
1 ATT-TTTTAATTTTTTGATTTTTTTGATTTTTTAATT--TTTTTG
2114414 ATTTTTTAATTGATTTATTGATTTTTTTG-TGATTTTTAATTTTTT
1 ATTTTTTAA-T--TTT-TTGATTTTTTTGAT--TTTTTAATTTTTT
2114459 AATTTTATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 27
0.77 0.04 0.19
Matches are distributed among these distances:
39 5 0.05
40 7 0.06
41 3 0.03
42 38 0.35
43 15 0.14
44 10 0.09
45 3 0.03
47 8 0.07
48 12 0.11
49 9 0.08
ACGTcount: A:0.17, C:0.01, G:0.08, T:0.75
Consensus pattern (42 bp):
ATTTTTTAATTTTTTGATTTTTTTGATTTTTTAATTTTTTTG
Found at i:2114393 original size:17 final size:17
Alignment explanation
Indices: 2114288--2114420 Score: 89
Period size: 17 Copynumber: 7.8 Consensus size: 17
2114278 ATGATTTCTA
2114288 TTTTTTA-TTTTTGATGAT
1 TTTTTTATTTTTTGAT--T
*
2114306 TTTATT-TTTTTT-ATT
1 TTTTTTATTTTTTGATT
* *
2114321 TTTTTGATTTCTTTAATT
1 TTTTTTATTT-TTTGATT
*
2114339 TTTTATT-TTGTTTGA-T
1 TTTT-TTATTTTTTGATT
*
2114355 TTTTTGATTTTTTTG-TT
1 TTTTTTA-TTTTTTGATT
*
2114372 ATTTTTATTTTTTGATT
1 TTTTTTATTTTTTGATT
* *
2114389 TTTTTGATTTTTTAATT
1 TTTTTTATTTTTTGATT
2114406 AATTTTTTATTTTTT
1 --TTTTTTATTTTTT
2114421 AATTGATTTA
Statistics
Matches: 90, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
15 6 0.07
16 15 0.17
17 37 0.41
18 19 0.21
19 13 0.14
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.77
Consensus pattern (17 bp):
TTTTTTATTTTTTGATT
Found at i:2114484 original size:73 final size:71
Alignment explanation
Indices: 2114333--2114492 Score: 196
Period size: 74 Copynumber: 2.2 Consensus size: 71
2114323 TTTGATTTCT
* * * * *
2114333 TTAATTTTTTATTTTGTTTGATTTTTTGATTTTTTTGTTATTTTTATTTTTTGATTTTTTTGATT
1 TTAATTTTTTATTTTGTTTGATTTATTGATTTTTTTGTGATTTTTATTTTTTAATTTTATTGATA
*
2114398 TTTTAA
66 TATTAA
*
2114404 TTAATTTTTTATTTTTTAATTGATTTATTGATTTTTTTGTGATTTTTAATTTTTTAATTTTATT-
1 TTAATTTTTTATTTTGT--TTGATTTATTGATTTTTTTGTGATTTTT-ATTTTTTAATTTTATTG
*
2114468 ACTATATTAT
63 A-TATATTAA
*
2114478 TTATTTTTTTATTTT
1 TTAATTTTTTATTTT
2114493 ATATCGAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
71 16 0.21
73 27 0.36
74 33 0.43
ACGTcount: A:0.19, C:0.01, G:0.06, T:0.74
Consensus pattern (71 bp):
TTAATTTTTTATTTTGTTTGATTTATTGATTTTTTTGTGATTTTTATTTTTTAATTTTATTGATA
TATTAA
Found at i:2114992 original size:42 final size:42
Alignment explanation
Indices: 2114930--2115579 Score: 414
Period size: 42 Copynumber: 15.5 Consensus size: 42
2114920 ATTCTTTTGA
* ** * * * *
2114930 GTCAAAGCCAACAGGTAGACTTTAGATAAGGCAATCTCTAGG
1 GTCAAAGCCGACAGACAGACTTTAGATAGGGTAGTCTCCAGG
*
2114972 GTCAAAGCCGATAGACAGACTTTAGATAGGGTAGTCTCCAGG
1 GTCAAAGCCGACAGACAGACTTTAGATAGGGTAGTCTCCAGG
* *
2115014 GTCAAAGCTGACAGACAGACTTTAGATAGGGTAGTCTCCAAG
1 GTCAAAGCCGACAGACAGACTTTAGATAGGGTAGTCTCCAGG
* *
2115056 ATCAAAGCCGACA-AGCAGACTTTAGATAGGGTAGTCTCTAGG
1 GTCAAAGCCGACAGA-CAGACTTTAGATAGGGTAGTCTCCAGG
* * * *
2115098 GTCAAAGCTGACA-AGTAGACTTTAGAT-GAGGCAGTCTCCAAG
1 GTCAAAGCCGACAGA-CAGACTTTAGATAG-GGTAGTCTCCAGG
* * * *
2115140 ATCAAAGCCGACAGGCAGACTTTAGATAGGGTAGTCTCTAGA
1 GTCAAAGCCGACAGACAGACTTTAGATAGGGTAGTCTCCAGG
* *
2115182 GTCAAAGCCGACAGGCAGACTTTAGAT-GAGGTAGTTTCCAGG
1 GTCAAAGCCGACAGACAGACTTTAGATAG-GGTAGTCTCCAGG
* * * * ** * *
2115224 ATCAAAGCCTACAGGCAGAC-TGAG-GGGGGAAAAAGTCTCCAAG
1 GTCAAAGCCGACAGACAGACTTTAGATAGGG---TAGTCTCCAGG
** *
2115267 GTCAAAGCCGACAGGTAGACTTTAGAT-GAGGTAGTCTCCAAG
1 GTCAAAGCCGACAGACAGACTTTAGATAG-GGTAGTCTCCAGG
* * * * * ** *
2115309 GTCAAAGCTGATAGACAGAC-TGAGGGTAAGAAAGTCTCTAGG
1 GTCAAAGCCGACAGACAGACTTTA-GATAGGGTAGTCTCCAGG
* ** * * * *
2115351 GTCAAAGCCGATAGGTAGAC-TGAGA-GGGGAAAAGTCTCTAGG
1 GTCAAAGCCGACAGACAGACTTTAGATAGGG--TAGTCTCCAGG
* * *
2115393 GTCAAAACCGACA-AGCAGACTTTAGAT-GAGGCAGTCTCCAAG
1 GTCAAAGCCGACAGA-CAGACTTTAGATAG-GGTAGTCTCCAGG
* * * *
2115435 GTCAAAGTCGACAGGCAGAC-TTAGATAGGGCAGTCTCCAAG
1 GTCAAAGCCGACAGACAGACTTTAGATAGGGTAGTCTCCAGG
* * * * * * *
2115476 GTCAATGCCAACAGGCAGAC-TGAGGGTA-TGTAAGTCTCTAGG
1 GTCAAAGCCGACAGACAGACTTTA-GATAGGGT-AGTCTCCAGG
* ** * * * *
2115518 GTCAAAGCCAACAGGTAGAC-TGAGATAGGGTAATGTCCAAG
1 GTCAAAGCCGACAGACAGACTTTAGATAGGGTAGTCTCCAGG
* *
2115559 GTCAAAGCCGATAGGCAGACT
1 GTCAAAGCCGACAGACAGACT
2115580 GAGGGATAGG
Statistics
Matches: 487, Mismatches: 95, Indels: 52
0.77 0.15 0.08
Matches are distributed among these distances:
40 3 0.01
41 75 0.15
42 370 0.76
43 31 0.06
44 6 0.01
45 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.19
Consensus pattern (42 bp):
GTCAAAGCCGACAGACAGACTTTAGATAGGGTAGTCTCCAGG
Found at i:2115075 original size:84 final size:84
Alignment explanation
Indices: 2114930--2115579 Score: 513
Period size: 84 Copynumber: 7.8 Consensus size: 84
2114920 ATTCTTTTGA
* * * * * * *
2114930 GTCAAAGCCAACAGGTAGACTTTAGATAAGGCAATCTCTAGGGTCAAAGCCGA-TAGACAGACTT
1 GTCAAAGCCGACAGGTAGACTTTAGATAGGGTAGTCTCCAAGGTCAAAGCCGACAAG-CAGACTT
*
2114994 TAGATAGGGTAGTCTCCAGG
65 TAGATAGGGTAGTCTCTAGG
* ** *
2115014 GTCAAAGCTGACAGACAGACTTTAGATAGGGTAGTCTCCAAGATCAAAGCCGACAAGCAGACTTT
1 GTCAAAGCCGACAGGTAGACTTTAGATAGGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTT
2115079 AGATAGGGTAGTCTCTAGG
66 AGATAGGGTAGTCTCTAGG
* * * * *
2115098 GTCAAAGCTGACAAGTAGACTTTAGAT-GAGGCAGTCTCCAAGATCAAAGCCGACAGGCAGACTT
1 GTCAAAGCCGACAGGTAGACTTTAGATAG-GGTAGTCTCCAAGGTCAAAGCCGACAAGCAGACTT
*
2115162 TAGATAGGGTAGTCTCTAGA
65 TAGATAGGGTAGTCTCTAGG
* * * *
2115182 GTCAAAGCCGACAGGCAGACTTTAGAT-GAGGTAGTTTCC-AGGATCAAAGCCTACAGGCAGAC-
1 GTCAAAGCCGACAGGTAGACTTTAGATAG-GGTAGTCTCCAAGG-TCAAAGCCGACAAGCAGACT
* ** * * *
2115244 TGAG-GGGGGAAAAAGTCTCCAAG
64 TTAGATAGGG---TAGTCTCTAGG
* *
2115267 GTCAAAGCCGACAGGTAGACTTTAGAT-GAGGTAGTCTCCAAGGTCAAAGCTGA-TAGACAGAC-
1 GTCAAAGCCGACAGGTAGACTTTAGATAG-GGTAGTCTCCAAGGTCAAAGCCGACAAG-CAGACT
* * * **
2115329 TGAGGGTAAGAAAGTCTCTAGG
64 TTA-GATAGGGTAGTCTCTAGG
* * * * * * *
2115351 GTCAAAGCCGATAGGTAGAC-TGAGA-GGGGAAAAGTCTCTAGGGTCAAAACCGACAAGCAGACT
1 GTCAAAGCCGACAGGTAGACTTTAGATAGGG--TAGTCTCCAAGGTCAAAGCCGACAAGCAGACT
* * *
2115414 TTAGAT-GAGGCAGTCTCCAAG
64 TTAGATAG-GGTAGTCTCTAGG
* * * * * * *
2115435 GTCAAAGTCGACAGGCAGAC-TTAGATAGGGCAGTCTCCAAGGTCAATGCCAACAGGCAGAC-TG
1 GTCAAAGCCGACAGGTAGACTTTAGATAGGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTT
* *
2115498 AGGGTA-TGTAAGTCTCTAGG
66 A-GATAGGGT-AGTCTCTAGG
* * * * * *
2115518 GTCAAAGCCAACAGGTAGAC-TGAGATAGGGTAATGTCCAAGGTCAAAGCCGATAGGCAGACT
1 GTCAAAGCCGACAGGTAGACTTTAGATAGGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGACT
2115580 GAGGGATAGG
Statistics
Matches: 458, Mismatches: 87, Indels: 42
0.78 0.15 0.07
Matches are distributed among these distances:
82 8 0.02
83 96 0.21
84 280 0.61
85 69 0.15
86 4 0.01
87 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.19
Consensus pattern (84 bp):
GTCAAAGCCGACAGGTAGACTTTAGATAGGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTT
AGATAGGGTAGTCTCTAGG
Found at i:2115119 original size:126 final size:126
Alignment explanation
Indices: 2114931--2115499 Score: 478
Period size: 126 Copynumber: 4.5 Consensus size: 126
2114921 TTCTTTTGAG
* * * * * *
2114931 TCAAAGCCAACAGGTAGACTTTAGATAAGGCAATCTCTAGGGTCAAAGCCGA-TAGACAGACTTT
1 TCAAAGCCGACAGGCAGACTTTAGATAGGGCAGTCTCTAGGGTCAAAGCCGACAAG-CAGAC-TG
* * * *
2114995 AGATAGGG-TAGTCTCCAGGGTCAAAGCTGACAGACAGACTTTAGAT-AGGGTAGTCTCCAAGA
64 AGATGGGGAAAGTCTCCAAGGTCAAAGCCGACAGACAGACTTTAGATGA-GGTAGTCTCCAAGA
* * * * *
2115057 TCAAAGCCGACAAGCAGACTTTAGATAGGGTAGTCTCTAGGGTCAAAGCTGACAAGTAGACTTTA
1 TCAAAGCCGACAGGCAGACTTTAGATAGGGCAGTCTCTAGGGTCAAAGCCGACAAGCAGAC-TGA
* * * * *
2115122 GATGAGG-CAGTCTCCAAGATCAAAGCCGACAGGCAGACTTTAGAT-AGGGTAGTCT-CTAGA
65 GATGGGGAAAGTCTCCAAGGTCAAAGCCGACAGACAGACTTTAGATGA-GGTAGTCTCCAAGA
* * * * * *
2115182 GTCAAAGCCGACAGGCAGACTTTAGAT-GAGGTAGTTTCCAGGATCAAAGCCTACAGGCAGACTG
1 -TCAAAGCCGACAGGCAGACTTTAGATAG-GGCAGTCTCTAGGGTCAAAGCCGACAAGCAGACTG
* ** *
2115246 AG-GGGGGAAAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTTAGATGAGGTAGTCTCCAAGG
64 AGATGGGG--AAAGTCTCCAAGGTCAAAGCCGACAGACAGACTTTAGATGAGGTAGTCTCCAAGA
* * * * * * ** * * *
2115310 TCAAAGCTGATAGACAGAC-TGAGGGTAAGAAAGTCTCTAGGGTCAAAGCCGATAGGTAGACTGA
1 TCAAAGCCGACAGGCAGACTTTA-GATAGGGCAGTCTCTAGGGTCAAAGCCGACAAGCAGACTGA
* * * * *
2115374 GA-GGGGAAAAGTCTCTAGGGTCAAAACCGACA-AGCAGACTTTAGATGAGGCAGTCTCCAAGG
65 GATGGGG-AAAGTCTCCAAGGTCAAAGCCGACAGA-CAGACTTTAGATGAGGTAGTCTCCAAGA
* * * * * *
2115436 TCAAAGTCGACAGGCAGAC-TTAGATAGGGCAGTCTCCAAGGTCAATGCCAACAGGCAGACTGAG
1 TCAAAGCCGACAGGCAGACTTTAGATAGGGCAGTCTCTAGGGTCAAAGCCGACAAGCAGACTGAG
2115500 GGTATGTAAG
Statistics
Matches: 363, Mismatches: 68, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
124 3 0.01
125 40 0.11
126 220 0.61
127 96 0.26
128 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.19
Consensus pattern (126 bp):
TCAAAGCCGACAGGCAGACTTTAGATAGGGCAGTCTCTAGGGTCAAAGCCGACAAGCAGACTGAG
ATGGGGAAAGTCTCCAAGGTCAAAGCCGACAGACAGACTTTAGATGAGGTAGTCTCCAAGA
Found at i:2124285 original size:32 final size:32
Alignment explanation
Indices: 2124234--2124717 Score: 129
Period size: 32 Copynumber: 15.5 Consensus size: 32
2124224 GTCAAACTTG
* * *
2124234 TATCTTTCTAAACAAGTCAAAATTTGAACCTA
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* * **
2124266 TATTTTTCTGAATAGGTCAAAAGTT-AGATTTA
1 TATCTTTCTAAATAGGTCAAAAGTTGA-ACCTA
* *
2124298 TATCTTTCTAAATAAGTTAAAAGTTGAACCTA
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* * ** ** *
2124330 TATCTTTCTAAATAGGTTAGAAGTCAAATTTG
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* * * * * **
2124362 TATCTTTCCAAACAAGTC-AAATTTTAAAGT-
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* * ** *
2124392 TA--TTT-TAGATTGGTCAAAAGTCAAACTTA
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
** * * * *
2124421 TAGATTTTTGAACAAGTCAAAAGTTGAACCTA
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* * * * * ** *
2124453 TATTTTTTTGAATAGGTTAAGAGTCAAACTTA
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* * * *
2124485 TTTCTTTCCAAAT-GAATCAAAATTTGAACCTA
1 TATCTTTCTAAATAG-GTCAAAAGTTGAACCTA
* * * ** *
2124517 TATCTTTTTGAATTGGTCAAAAGTCAAACTTA
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* * **
2124549 TAT-TTT-T-AATCAAGTCAAAGGCCGAACCTA
1 TATCTTTCTAAAT-AGGTCAAAAGTTGAACCTA
* * * *
2124579 TATCTTTCTAAATAGGTTAAGAGTT-AGACTTG
1 TATCTTTCTAAATAGGTCAAAAGTTGA-ACCTA
* * *
2124611 TATCTTTTTGAAT--G----AATTTGAACCTA
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* ** * ** * *
2124637 TATCTTTCTAAGTATATTAAAAGTCAAACTTG
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* *
2124669 TATCTTTCTAAATAAGTCAAAAGTTGAACCTC
1 TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
* * *
2124701 TTTCTTTTTGAATAGGT
1 TATCTTTCTAAATAGGT
2124718 TATGAGTCAA
Statistics
Matches: 312, Mismatches: 119, Indels: 42
0.66 0.25 0.09
Matches are distributed among these distances:
26 16 0.05
27 6 0.02
28 10 0.03
29 5 0.02
30 20 0.06
31 18 0.06
32 232 0.74
33 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (32 bp):
TATCTTTCTAAATAGGTCAAAAGTTGAACCTA
Found at i:2124307 original size:64 final size:64
Alignment explanation
Indices: 2124206--2124753 Score: 358
Period size: 64 Copynumber: 8.8 Consensus size: 64
2124196 AATCTACACC
* * * * *
2124206 TTTCTGAGTACGTTAAAAGTCAAACTTGTATCTTTCTAAACAAGTCAAAATTTGAACCTATATT
1 TTTCTGAATAGGTCAAAAGTCAAACTTATATCTTTCTAAACAAGTCAAAAGTTGAACCTATATT
* * * * * *
2124270 TTTCTGAATAGGTCAAAAGTTAGATTTATATCTTTCTAAATAAGTTAAAAGTTGAACCTATATC
1 TTTCTGAATAGGTCAAAAGTCAAACTTATATCTTTCTAAACAAGTCAAAAGTTGAACCTATATT
* * * * * * * * **
2124334 TTTCTAAATAGGTTAGAAGTCAAATTTGTATCTTTCCAAACAAGTC-AAATTTTAAAGT-TA-T
1 TTTCTGAATAGGTCAAAAGTCAAACTTATATCTTTCTAAACAAGTCAAAAGTTGAACCTATATT
* * ** * *
2124395 TTT-AG-ATTGGTCAAAAGTCAAACTTATAGATTTTTGAACAAGTCAAAAGTTGAACCTATATT
1 TTTCTGAATAGGTCAAAAGTCAAACTTATATCTTTCTAAACAAGTCAAAAGTTGAACCTATATT
* * * * * * *
2124457 TTTTTGAATAGGTTAAGAGTCAAACTTATTTCTTTCCAAATGAA-TCAAAATTTGAACCTATATC
1 TTTCTGAATAGGTCAAAAGTCAAACTTATATCTTTCTAAA-CAAGTCAAAAGTTGAACCTATAT-
2124521 T
64 T
* * * ** *
2124522 TTT-TGAATTGGTCAAAAGTCAAACTTATAT-TTT-TAATCAAGTCAAAGGCCGAACCTATATC
1 TTTCTGAATAGGTCAAAAGTCAAACTTATATCTTTCTAAACAAGTCAAAAGTTGAACCTATATT
* * * * * * ** * * *
2124583 TTTCTAAATAGGTTAAGAGTTAGACTTGTATCTTT-T--TGAA-T--GAATTTGAACCTATATC
1 TTTCTGAATAGGTCAAAAGTCAAACTTATATCTTTCTAAACAAGTCAAAAGTTGAACCTATATT
** * * * *
2124641 TTTCT-AAGTATATTAAAAGTCAAACTTGTATCTTTCTAAATAAGTCAAAAGTTGAACCTCT-TT
1 TTTCTGAA-TAGGTCAAAAGTCAAACTTATATCTTTCTAAACAAGTCAAAAGTTGAACCTATATT
* * ** * *
2124704 CTTTTTGAATAGGTTATGAGTCAAACTTTTATTCTTT-TGAACAAGTCAAA
1 -TTTCTGAATAGGTCAAAAGTCAAACTTATA-TCTTTCTAAACAAGTCAAA
2124754 TTATATCTTT
Statistics
Matches: 367, Mismatches: 97, Indels: 40
0.73 0.19 0.08
Matches are distributed among these distances:
57 2 0.01
58 39 0.11
59 30 0.08
60 9 0.02
61 15 0.04
62 44 0.12
63 17 0.05
64 198 0.54
65 13 0.04
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (64 bp):
TTTCTGAATAGGTCAAAAGTCAAACTTATATCTTTCTAAACAAGTCAAAAGTTGAACCTATATT
Found at i:2124467 original size:123 final size:125
Alignment explanation
Indices: 2124217--2124617 Score: 388
Period size: 123 Copynumber: 3.2 Consensus size: 125
2124207 TTCTGAGTAC
* * * * * * *
2124217 GTTAAAAGTCAAACTTGTATCTTTCTAAA-CAAGTCAAAATTTGAACCTATATTTTTCTGAATAG
1 GTTAAGAGTCAAACTTATATCTTTCCAAATCAA-TCAAAATTTGAAACTATACTTTT-AGAATTG
* * * *
2124281 GTCAAAAGTTAGATTTATATCTTTCTAAAT-AAGTTAAAAGTTGAACCTATATCTTTCTAAATAG
64 GTCAAAAGTCAAACTTATAT-TTT-T-AATCAAGTCAAAAGTTGAACCTATATCTTTCTAAATAG
* * * *
2124345 GTT-AGAAGTCAAATTTGTATCTTTCCAAA-CAAGTC-AAATTTTAAAGT-TA-TTTTAG-ATTG
1 GTTAAG-AGTCAAACTTATATCTTTCCAAATCAA-TCAAAATTTGAAACTATACTTTTAGAATTG
* * *
2124404 GTCAAAAGTCAAACTTATAGATTTTTGAA-CAAGTCAAAAGTTGAACCTATATTTTTTTGAATAG
64 GTCAAAAGTCAAACTTAT--ATTTTT-AATCAAGTCAAAAGTTGAACCTATATCTTTCTAAATAG
* * * *
2124468 GTTAAGAGTCAAACTTATTTCTTTCCAAATGAATCAAAATTTGAACCTATATCTTTTTGAATTGG
1 GTTAAGAGTCAAACTTATATCTTTCCAAATCAATCAAAATTTGAAACTATA-CTTTTAGAATTGG
* **
2124533 TCAAAAGTCAAACTTATATTTTTAATCAAGTCAAAGGCCGAACCTATATCTTTCTAAATAG
65 TCAAAAGTCAAACTTATATTTTTAATCAAGTCAAAAGTTGAACCTATATCTTTCTAAATAG
* * *
2124594 GTTAAGAGTTAGACTTGTATCTTT
1 GTTAAGAGTCAAACTTATATCTTT
2124618 TTGAATGAAT
Statistics
Matches: 227, Mismatches: 34, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
123 76 0.33
124 17 0.07
125 10 0.04
126 57 0.25
127 15 0.07
128 52 0.23
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (125 bp):
GTTAAGAGTCAAACTTATATCTTTCCAAATCAATCAAAATTTGAAACTATACTTTTAGAATTGGT
CAAAAGTCAAACTTATATTTTTAATCAAGTCAAAAGTTGAACCTATATCTTTCTAAATAG
Found at i:2124759 original size:120 final size:120
Alignment explanation
Indices: 2124535--2124859 Score: 311
Period size: 120 Copynumber: 2.7 Consensus size: 120
2124525 TGAATTGGTC
* * * *
2124535 AAAAGTC-AAACT-TATATTTT-TAATCAAGTCAAAGGCCGAACCTATATCTTTCTAAATAGGTT
1 AAAAGTCAAAACTGTATCTTTTAGAAT-AAGTCAAAAGCCAAACCTATATCTTTCTAAATAGGTT
* * * * * * ** *
2124597 AAGAGTTAGACTTGTA-TCTTTTTGAATGAATTTGAACCTATATCTTTCTAAGTATATT
65 AAGAGTCAAACTTATATTC-TTTTGAA-CAA-GTCAAATTATATCTTTCTAAGTAGATT
*** * * * *
2124655 AAAAGTC-AAACTTGTATCTTTCTA-AATAAGTCAAAAGTTGAACCTCTTTCTTTTTGAATAGGT
1 AAAAGTCAAAAC-TGTATCTTT-TAGAATAAGTCAAAAGCCAAACCTATATCTTTCTAAATAGGT
* * * *
2124718 TATGAGTCAAACTTTTATTCTTTTGAACAAGTCAAATTATATCTTTCTGAGTAGGTT
64 TAAGAGTCAAACTTATATTCTTTTGAACAAGTCAAATTATATCTTTCTAAGTAGATT
* * *
2124775 AAAAGTCAAAACTGTATCTTTTAGAATAGGTTAGAAGCCAAACCTATATCTTTCTAAATAGGTTA
1 AAAAGTCAAAACTGTATCTTTTAGAATAAGTCAAAAGCCAAACCTATATCTTTCTAAATAGGTTA
2124840 AGAGTCAAACTTATATTCTT
66 AGAGTCAAACTTATATTCTT
2124860 CCAAGCATAT
Statistics
Matches: 166, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
119 2 0.01
120 96 0.58
121 7 0.04
122 55 0.33
123 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (120 bp):
AAAAGTCAAAACTGTATCTTTTAGAATAAGTCAAAAGCCAAACCTATATCTTTCTAAATAGGTTA
AGAGTCAAACTTATATTCTTTTGAACAAGTCAAATTATATCTTTCTAAGTAGATT
Found at i:2124781 original size:31 final size:32
Alignment explanation
Indices: 2124746--2124855 Score: 116
Period size: 32 Copynumber: 3.5 Consensus size: 32
2124736 TCTTTTGAAC
* *
2124746 AAGTCAAA-TTATATCTTTCTGAGTAGGTTAA
1 AAGTCAAACCTATATCTTTCTGAATAGGTTAA
* * *
2124777 AAGTCAAAACTGTATCTTT-TAGAATAGGTTAG
1 AAGTCAAACCTATATCTTTCT-GAATAGGTTAA
* *
2124809 AAGCCAAACCTATATCTTTCTAAATAGGTTAA
1 AAGTCAAACCTATATCTTTCTGAATAGGTTAA
* *
2124841 GAGTCAAACTTATAT
1 AAGTCAAACCTATAT
2124856 TCTTCCAAGC
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
31 9 0.14
32 54 0.84
33 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (32 bp):
AAGTCAAACCTATATCTTTCTGAATAGGTTAA
Found at i:2129564 original size:12 final size:12
Alignment explanation
Indices: 2129547--2129589 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
2129537 AAATAGAAAA
2129547 AAAACAAGAGAG
1 AAAACAAGAGAG
*
2129559 AAAAC-AGAAAG
1 AAAACAAGAGAG
2129570 AAAA-AAGAGAG
1 AAAACAAGAGAG
*
2129581 AAAAAAAGA
1 AAAACAAGA
2129590 AAATTCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAACAAGAGAG
Found at i:2129580 original size:22 final size:23
Alignment explanation
Indices: 2129541--2129584 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
2129531 TTGGGCAAAT
2129541 AGAAAAAAAACAAGAGAGAAAAC
1 AGAAAAAAAACAAGAGAGAAAAC
*
2129564 AGAAAGAAAA-AAGAGAGAAAA
1 AGAAAAAAAACAAGAGAGAAAA
2129585 AAAGAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAACAAGAGAGAAAAC
Found at i:2133443 original size:38 final size:39
Alignment explanation
Indices: 2133381--2133463 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 39
2133371 AAATGGCCCG
* *
2133381 AAATGTTTAATTTTTACCCGGATGTATCGATACATTGAA
1 AAATGTTTAATTTTTAACCAGATGTATCGATACATTGAA
*
2133420 AAATGTTTAA-TTTTAACTAGATGTATCGATACATTGAA
1 AAATGTTTAATTTTTAACCAGATGTATCGATACATTGAA
2133458 AAATGT
1 AAATGT
2133464 GTCGATACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 31 0.76
39 10 0.24
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (39 bp):
AAATGTTTAATTTTTAACCAGATGTATCGATACATTGAA
Found at i:2133513 original size:20 final size:20
Alignment explanation
Indices: 2133488--2133525 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2133478 GTAAAAACAC
2133488 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
2133508 AGAATGTATCGATACATT
1 AGAATGTATCGATACATT
2133526 TGGGTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2134168 original size:29 final size:29
Alignment explanation
Indices: 2134080--2134940 Score: 1029
Period size: 28 Copynumber: 29.9 Consensus size: 29
2134070 TAAAAAAATG
*
2134080 GTGCCACTAACTTGTGTGGGCTTTGAAAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
*
2134111 GTTGCCACCGACTCGTGTGGGCTTTGAAAAGA
1 G-TGCCACTGACT--TGTGGGCTTTGAAAAGA
* *
2134143 GTGCCACTGACTTGTGGGTTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
2134171 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2134199 GTGCCACTGACTTGTGAGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2134227 GTGCTACTGACTTGCGTGGGCTTT-AAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGA
* * * *
2134257 GTGCCACTAACTTATGGACTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
2134286 -TGCCACTAACTTGTGAGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2134313 GTGCCACTGACCTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
2134341 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
2134370 ATGCCACTGATTTGTGGGCTTTGAAATG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
2134398 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2134427 -TGCCACTGACTTATGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
2134454 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
2134483 GTGCCAATGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
2134512 GAGCCACTAACTTGTGGGCTTTGGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
2134541 GTTGCCACCGACTCGTATGGGCTTTGAAAAAA
1 G-TGCCACTGACT--TGTGGGCTTTGAAAAGA
* ** *
2134573 GTGCGACAAACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
2134602 -TACCAC-AACTTGTGGGCTTTAAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
2134629 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
2134658 -TGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2134685 GTGCCACTAACTT-TGGGCTTTGAAAATA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2134713 ATGCCATTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
2134742 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
2134771 GTTGCCACCGACTCATGTGGGCTTTGAAAAGA
1 G-TGCCACTGACT--TGTGGGCTTTGAAAAGA
*
2134803 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2134831 GTGTCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
2134860 GTGCCACTGACTTGTGGGCTTTG-AAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2134887 GGGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
2134916 GTGCCACTGACTTGTGGGCTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
2134941 GAGATGAACG
Statistics
Matches: 721, Mismatches: 84, Indels: 52
0.84 0.10 0.06
Matches are distributed among these distances:
27 58 0.08
28 297 0.41
29 234 0.32
30 42 0.06
31 30 0.04
32 60 0.08
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:2136182 original size:23 final size:21
Alignment explanation
Indices: 2136156--2136240 Score: 53
Period size: 25 Copynumber: 3.6 Consensus size: 21
2136146 TCTAGACCCC
2136156 TTCTGTTTTTTTTTGCTATTTTT
1 TTCTGTTTTTTTTT--TATTTTT
*
2136179 TTCTTGGTTTTTTTGTTTTTTGTTT
1 TTC-T-GTTTTTTT-TTTATT-TTT
* *
2136204 TTTTGTTTTGTTTTTTTTGTTTTT
1 TTCTG--TT-TTTTTTTTATTTTT
*
2136228 TTTTGTTTTTTTT
1 TTCTGTTTTTTTT
2136241 GGGTGTAAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
21 6 0.12
22 2 0.04
23 4 0.08
24 13 0.25
25 20 0.38
26 7 0.13
ACGTcount: A:0.01, C:0.04, G:0.12, T:0.84
Consensus pattern (21 bp):
TTCTGTTTTTTTTTTATTTTT
Found at i:2136190 original size:1 final size:1
Alignment explanation
Indices: 2136186--2136240 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
2136176 TTTTTCTTGG
* * * * * *
2136186 TTTTTTTGTTTTTTGTTTTTTTGTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2136241 GGGTGTAAAG
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:2136192 original size:15 final size:13
Alignment explanation
Indices: 2136161--2136241 Score: 72
Period size: 14 Copynumber: 5.8 Consensus size: 13
2136151 ACCCCTTCTG
2136161 TTTTTTTTTGCTATT
1 TTTTTTTTTG-T-TT
* *
2136176 TTTTTCTTGGTTTT
1 TTTTTTTTTG-TTT
2136190 TTTGTTTTTTGTTT
1 TTT-TTTTTTGTTT
*
2136204 TTTTGTTTTGTTT
1 TTTTTTTTTGTTT
*
2136217 TTTTTGTTTTTTTT
1 TTTTT-TTTTGTTT
2136231 TGTTTTTTTTG
1 T-TTTTTTTTG
2136242 GGTGTAAAGG
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
13 13 0.24
14 23 0.43
15 18 0.33
ACGTcount: A:0.01, C:0.02, G:0.12, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Found at i:2136198 original size:9 final size:9
Alignment explanation
Indices: 2136175--2136241 Score: 80
Period size: 10 Copynumber: 7.0 Consensus size: 9
2136165 TTTTTGCTAT
2136175 TTTTTTCTTG
1 TTTTTT-TTG
*
2136185 GTTTTTTTG
1 TTTTTTTTG
*
2136194 TTTTTTGTTT
1 TTTTTT-TTG
2136204 TTTTGTTTTG
1 TTTT-TTTTG
2136214 TTTTTTTTG
1 TTTTTTTTG
2136223 TTTTTTTTTG
1 -TTTTTTTTG
2136233 TTTTTTTTG
1 TTTTTTTTG
2136242 GGTGTAAAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 22 0.44
10 26 0.52
11 2 0.04
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:2136199 original size:19 final size:18
Alignment explanation
Indices: 2136175--2136242 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 18
2136165 TTTTTGCTAT
2136175 TTTTTTCTTGGTTTTTTTG
1 TTTTTT-TTGGTTTTTTTG
**
2136194 TTTTTTGTTTTTTTGTTTTG
1 TTTTTT-TTGGTTT-TTTTG
*
2136214 TTTTTTTTGTTTTTTTTTG
1 TTTTTTTTG-GTTTTTTTG
2136233 TTTTTTTTGG
1 TTTTTTTTGG
2136243 GTGTAAAGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 27 0.64
20 15 0.36
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (18 bp):
TTTTTTTTGGTTTTTTTG
Found at i:2141017 original size:113 final size:113
Alignment explanation
Indices: 2140819--2141039 Score: 424
Period size: 113 Copynumber: 2.0 Consensus size: 113
2140809 GATATGAGAC
*
2140819 TGATCGATAGGGAGCTTGTTCAAAGTAGTCATGGGCATGACATTAAGGGCAGACCCATTGTCTAT
1 TGATCGATAGGGAGCTTGTTCAAAGTAGTCATGGGCATAACATTAAGGGCAGACCCATTGTCTAT
2140884 GAGCACTTTAGGTAAAATGCGTCCCTTACAATGGGTAGTGATGGGTAG
66 GAGCACTTTAGGTAAAATGCGTCCCTTACAATGGGTAGTGATGGGTAG
*
2140932 TGATCGATAGGGAGCTTGTTTAAAGTAGTCATGGGCATAACATTAAGGGCAGACCCATTGTCTAT
1 TGATCGATAGGGAGCTTGTTCAAAGTAGTCATGGGCATAACATTAAGGGCAGACCCATTGTCTAT
2140997 GAGCACTTTAGGTAAAATGCGTCCCTTACAATGGGTAGTGATG
66 GAGCACTTTAGGTAAAATGCGTCCCTTACAATGGGTAGTGATG
2141040 TGCAAAGCCT
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 106 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (113 bp):
TGATCGATAGGGAGCTTGTTCAAAGTAGTCATGGGCATAACATTAAGGGCAGACCCATTGTCTAT
GAGCACTTTAGGTAAAATGCGTCCCTTACAATGGGTAGTGATGGGTAG
Found at i:2149286 original size:20 final size:20
Alignment explanation
Indices: 2149261--2149338 Score: 156
Period size: 20 Copynumber: 3.9 Consensus size: 20
2149251 GTAAAAACAC
2149261 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
2149281 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
2149301 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
2149321 AGAATGTATCGATACATT
1 AGAATGTATCGATACATT
2149339 TGGGTACTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2150115 original size:140 final size:142
Alignment explanation
Indices: 2149848--2150120 Score: 385
Period size: 140 Copynumber: 1.9 Consensus size: 142
2149838 TTTCAACACT
* * *
2149848 TTTCGTATTTTTTCGGTTCTCCATTAAGGTATGAAATGAATTTTTTTGAGAAATTAAAAATTAAA
1 TTTCGTATTTTTTCGGTTCTCCATTAAAGTACGAAATGAATTTTTTTGAAAAATTAAAAATTAAA
* **
2149913 TAAAAATTATTATCTTAATCTTTTAAGATTTCTAATATTCCTATGGCTTTTTGTAGAGGTATAAA
66 TAAAAATTATTATCTTAATCTTTTAAGATTTCTAATATACCTATGGCTTTTCATAGAGGTATAAA
2149978 AATCTTTACAAC
131 AATCTTTACAAC
*
2149990 TTTCTGTATTTTTTTGGTTCTCCATTAAAGTACGAAATGAA-TTTTTT-AAAAATTAAAAATTAA
1 TTTC-GTATTTTTTCGGTTCTCCATTAAAGTACGAAATGAATTTTTTTGAAAAATTAAAAATTAA
* * *
2150053 AT-AAAATTTTTATCTTAAT-TTTTCAAGATTTCTAATATACTTATGG-TTTTCCATAGGGGTAT
65 ATAAAAATTATTATCTTAATCTTTT-AAGATTTCTAATATACCTATGGCTTTT-CATAGAGGTAT
*
2150115 AGAAAT
128 AAAAAT
2150121 TTTCAAAATT
Statistics
Matches: 117, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
139 8 0.07
140 49 0.42
141 17 0.15
142 10 0.09
143 33 0.28
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (142 bp):
TTTCGTATTTTTTCGGTTCTCCATTAAAGTACGAAATGAATTTTTTTGAAAAATTAAAAATTAAA
TAAAAATTATTATCTTAATCTTTTAAGATTTCTAATATACCTATGGCTTTTCATAGAGGTATAAA
AATCTTTACAAC
Found at i:2157119 original size:20 final size:20
Alignment explanation
Indices: 2157093--2157227 Score: 144
Period size: 20 Copynumber: 6.8 Consensus size: 20
2157083 AACAAAACAG
*
2157093 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
2157113 CATGTATAGATACATTGAAA
1 AATGTATCGATACATTCAAA
* *
2157133 AATGTACCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
2157153 CATGTATCAATACATTGAAA
1 AATGTATCGATACATTCAAA
* *
2157173 AATGTACCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
2157193 CATGTATCAATACATTGAAA
1 AATGTATCGATACATTCAAA
2157213 AATGTATCGATACAT
1 AATGTATCGATACAT
2157228 CTGGGTAAAA
Statistics
Matches: 89, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 89 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:2157138 original size:40 final size:40
Alignment explanation
Indices: 2157093--2157227 Score: 236
Period size: 40 Copynumber: 3.4 Consensus size: 40
2157083 AACAAAACAG
*
2157093 AATGTATCGATACATTCATACATGTAT-AGATACATTGAAA
1 AATGTACCGATACATTCATACATGTATCA-ATACATTGAAA
2157133 AATGTACCGATACATTCATACATGTATCAATACATTGAAA
1 AATGTACCGATACATTCATACATGTATCAATACATTGAAA
2157173 AATGTACCGATACATTCATACATGTATCAATACATTGAAA
1 AATGTACCGATACATTCATACATGTATCAATACATTGAAA
*
2157213 AATGTATCGATACAT
1 AATGTACCGATACAT
2157228 CTGGGTAAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 91 0.99
41 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (40 bp):
AATGTACCGATACATTCATACATGTATCAATACATTGAAA
Found at i:2158340 original size:28 final size:28
Alignment explanation
Indices: 2158305--2158911 Score: 505
Period size: 28 Copynumber: 21.3 Consensus size: 28
2158295 CCGACTTGTG
* * *
2158305 TGGGCTTTGAAAGGAAGCCATTAACTTC
1 TGGGCTTTGAAAGGATGCCACTGACTTC
* * * * *
2158333 TGAGCTTTGAAAAGAAGCCATTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTC
* *
2158361 TGGGCTCTAAAAGGATGCCACTGAC-TC
1 TGGGCTTTGAAAGGATGCCACTGACTTC
* * *
2158388 GTGGGCTTTGAAAGAATGCCACTAACTTG
1 -TGGGCTTTGAAAGGATGCCACTGACTTC
2158417 TGGGCTTTGAACAGAGATGCCACTGAC-TC
1 TGGGCTTTGAA-AG-GATGCCACTGACTTC
* *
2158446 TTGGGCTTTAAAAGGATGCCACTGACTTA
1 -TGGGCTTTGAAAGGATGCCACTGACTTC
*
2158475 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTC
*
2158503 TGAGCTTTGAAAAGGGATGCCACT-AGC-TC
1 TGGGCTTTG-AAA-GGATGCCACTGA-CTTC
* * * **
2158532 ATGGGCTTCGAAAGGGTGCCACTAACTAA
1 -TGGGCTTTGAAAGGATGCCACTGACTTC
* * * *
2158561 TGGGCTTTTAAAGGGTGCCAATGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTC
* *
2158589 TGGGCTTTTAAAGGATGCCATTGAC-TC
1 TGGGCTTTGAAAGGATGCCACTGACTTC
* * *
2158616 GTGGGCTTTAAAAAGATGCCACTGACTTA
1 -TGGGCTTTGAAAGGATGCCACTGACTTC
* * *
2158645 TGGGCTTTGAAAAGG-TGCCATTAACTTA
1 TGGGCTTTG-AAAGGATGCCACTGACTTC
*
2158673 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTC
* *
2158701 TGGGCTTTGAAAATG-TGCCACTGACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTC
* *
2158729 TGGGCTTTGAAAATG-TGCCACTGACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTC
* *
2158757 AGGGCTTTAAAAGGAAAGGATGCCACTGACTTG
1 TGGGCTTT-----GAAAGGATGCCACTGACTTC
* *
2158790 TGGGCTTTGAAAAGAGATGCCACTAACTTG
1 TGGGCTTTG-AAAG-GATGCCACTGACTTC
* *
2158820 TGGGCTTTTAAAAGG-TGCCACTGACTTA
1 TGGGC-TTTGAAAGGATGCCACTGACTTC
*
2158848 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTC
* * * *
2158876 TGGGTTTTGAGAAAG-TGCCACTAACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTC
2158904 TGGGCTTT
1 TGGGCTTT
2158912 AAAAAGGTAT
Statistics
Matches: 487, Mismatches: 64, Indels: 56
0.80 0.11 0.09
Matches are distributed among these distances:
27 15 0.03
28 350 0.72
29 33 0.07
30 61 0.13
31 3 0.01
32 4 0.01
33 21 0.04
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTC
Found at i:2158662 original size:84 final size:84
Alignment explanation
Indices: 2158303--2158919 Score: 618
Period size: 84 Copynumber: 7.2 Consensus size: 84
2158293 CACCGACTTG
* * * * * * * *
2158303 TGTGGGCTTTG-AAAGGAAGCCATTAACTTCTGAGCTTTGAAAAGAAGCCATTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
* *
2158367 CTAAAAGGATGCCACTGACT
65 TTAAAAAGATGCCACTGACT
* * *
2158387 CGTGGGCTTTG-AAAGAATGCCACTAACTTGTGGGCTTTGAACAGAGATGCCACTGACTCT-TGG
1 TGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAA-AG-GATGCCACTGACT-TGTGG
*
2158450 GCTTTAAAAGGATGCCACTGACT
62 GCTTTAAAAAGATGCCACTGACT
* * **
2158473 TATGGGCTTTG-AAAGGATGCCACTGACTTGTGAGCTTTGAAAAGGGATGCCACT-AGCTCATGG
1 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTG-AAA-GGATGCCACTGA-CTTGTGG
** * * *
2158536 GCTTCGAAAGGGTGCCACTAACT
62 GCTTTAAAAAGATGCCACTGACT
** * * * * * *
2158559 AATGGGCTTTTAAAGGGTGCCAATGACTTGTGGGCTTTTAAAGGATGCCATTGACTCGTGGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
2158624 TAAAAAGATGCCACTGACT
66 TAAAAAGATGCCACTGACT
* * * *
2158643 TATGGGCTTTGAAAAGGTGCCATTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
*
2158708 TGAAAATG-TGCCACTGACT
66 T-AAAAAGATGCCACTGACT
* *
2158727 TGTGGGCTTTGAAAATGTGCCACTGACTTGAGGGCTTTAAAAGGAAAGGATGCCACTGACTTGTG
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTT-----GAAAGGATGCCACTGACTTGTG
*
2158792 GGCTTTGAAAAGAGATGCCACTAACT
61 GGCTTT-AAAA-AGATGCCACTGACT
* * *
2158818 TGTGGGCTTTTAAAAGGTGCCACTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGTTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
* *
2158883 TGAGAAAG-TGCCACTAACT
66 T-AAAAAGATGCCACTGACT
*
2158902 TGTGGGCTTTAAAAAGGT
1 TGTGGGCTTTGAAAAGGT
2158920 ATCATATTGA
Statistics
Matches: 456, Mismatches: 58, Indels: 38
0.83 0.11 0.07
Matches are distributed among these distances:
84 195 0.43
85 13 0.03
86 162 0.36
87 8 0.02
89 33 0.07
90 1 0.00
91 44 0.10
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (84 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
TAAAAAGATGCCACTGACT
Found at i:2160224 original size:8 final size:8
Alignment explanation
Indices: 2160204--2160242 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
2160194 TTTGTATTGT
2160204 TTTTTTTGG
1 TTTTTTT-G
*
2160213 TTTTTGTTT
1 TTTTT-TTG
2160222 TTTTTTTG
1 TTTTTTTG
2160230 TTTTTTTG
1 TTTTTTTG
2160238 TTTTT
1 TTTTT
2160243 CTTTTTAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 15 0.56
9 10 0.37
10 2 0.07
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:2160227 original size:19 final size:19
Alignment explanation
Indices: 2160203--2160248 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
2160193 CTTTGTATTG
2160203 TTTTTTTTG-GTTTTTGTT
1 TTTTTTTTGTGTTTTTGTT
*
2160221 TTTTTTTTGTTTTTTTGTT
1 TTTTTTTTGTGTTTTTGTT
2160240 TTTCTTTTT
1 TTT-TTTTT
2160249 AAGAATGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.36
19 11 0.44
20 5 0.20
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (19 bp):
TTTTTTTTGTGTTTTTGTT
Found at i:2162041 original size:36 final size:36
Alignment explanation
Indices: 2161990--2162062 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
2161980 ATGCACATTA
*
2161990 AATCTTCATCTGGGAAGTCAAAATCCAAAGGCTCAT
1 AATCTTCATCCGGGAAGTCAAAATCCAAAGGCTCAT
*
2162026 AATCTTCATCCGGGAAGTCAAAATCCAATGGCTCAT
1 AATCTTCATCCGGGAAGTCAAAATCCAAAGGCTCAT
2162062 A
1 A
2162063 CTCATTTGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (36 bp):
AATCTTCATCCGGGAAGTCAAAATCCAAAGGCTCAT
Found at i:2166205 original size:15 final size:15
Alignment explanation
Indices: 2166163--2166210 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
2166153 GTAGTGTATT
2166163 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
* * **
2166178 GGTAATTAGGTGGTG
1 GATGATTTTGTGGTG
2166193 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
2166208 GAT
1 GAT
2166211 TTGACGGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
GATGATTTTGTGGTG
Found at i:2167170 original size:16 final size:17
Alignment explanation
Indices: 2167149--2167197 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
2167139 CTGCCAGTTT
2167149 CATGTATCGATACATG-
1 CATGTATCGATACATGA
2167165 CATGTATCGATACAATGAA
1 CATGTATCGATAC-ATG-A
*
2167184 CATGTATTGATACA
1 CATGTATCGATACA
2167198 AAGCATAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.45
17 3 0.10
18 1 0.03
19 12 0.41
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (17 bp):
CATGTATCGATACATGA
Found at i:2167189 original size:19 final size:17
Alignment explanation
Indices: 2167149--2167217 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 17
2167139 CTGCCAGTTT
2167149 CATGTATCGATAC-ATG
1 CATGTATCGATACAATG
2167165 CATGTATCGATACAATG
1 CATGTATCGATACAATG
* *
2167182 AACATGTATTGATACAAAG
1 --CATGTATCGATACAATG
2167201 CATAACGTATCGATACA
1 CAT---GTATCGATACA
2167218 TCTGGATATG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
16 13 0.30
17 6 0.14
19 15 0.34
20 10 0.23
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (17 bp):
CATGTATCGATACAATG
Found at i:2169724 original size:13 final size:13
Alignment explanation
Indices: 2169706--2169731 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2169696 TAGTAATCCA
2169706 TGTATCGATACAT
1 TGTATCGATACAT
2169719 TGTATCGATACAT
1 TGTATCGATACAT
2169732 CTGGGTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2174229 original size:15 final size:15
Alignment explanation
Indices: 2174211--2174245 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2174201 CGAGTCAACT
2174211 TCATCATTATCATCA
1 TCATCATTATCATCA
* *
2174226 TCATTATTATCTTCA
1 TCATCATTATCATCA
2174241 TCATC
1 TCATC
2174246 CTTGATGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.46
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:2177300 original size:13 final size:13
Alignment explanation
Indices: 2177282--2177306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2177272 ATAATGCACA
2177282 GTATCGATACATT
1 GTATCGATACATT
2177295 GTATCGATACAT
1 GTATCGATACAT
2177307 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2177303 original size:33 final size:32
Alignment explanation
Indices: 2177261--2177323 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
2177251 CACCTTCAGA
*
2177261 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
2177294 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
2177324 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:2183529 original size:13 final size:13
Alignment explanation
Indices: 2183511--2183535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2183501 AAAACTCAGA
2183511 TGTATCGATACAG
1 TGTATCGATACAG
2183524 TGTATCGATACA
1 TGTATCGATACA
2183536 AAGGGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2185978 original size:13 final size:13
Alignment explanation
Indices: 2185960--2185984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2185950 ATAATGCACA
2185960 GTATCGATACATT
1 GTATCGATACATT
2185973 GTATCGATACAT
1 GTATCGATACAT
2185985 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2185981 original size:33 final size:32
Alignment explanation
Indices: 2185939--2186001 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
2185929 CACCTTCAGA
*
2185939 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
2185972 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
2186002 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:2186078 original size:19 final size:20
Alignment explanation
Indices: 2186054--2186105 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2186044 CTTAACTGTT
2186054 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
2186073 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
2186093 TGTATCGATACAT
1 TGTATCGATACAT
2186106 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 15 0.48
21 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:2194014 original size:20 final size:20
Alignment explanation
Indices: 2193998--2194064 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
2193988 GAATGTATTG
2193998 ATACATTGAAAAATGTATCA
1 ATACATTGAAAAATGTATCA
* * *
2194018 ATACATTCATACATGTATCA
1 ATACATTGAAAAATGTATCA
*
2194038 ATACATTGAAAAATGTATCG
1 ATACATTGAAAAATGTATCA
2194058 ATACATT
1 ATACATT
2194065 TGGGGAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (20 bp):
ATACATTGAAAAATGTATCA
Found at i:2195154 original size:32 final size:32
Alignment explanation
Indices: 2195118--2195196 Score: 158
Period size: 32 Copynumber: 2.5 Consensus size: 32
2195108 GTTGCCACCA
2195118 ACTTGTGTGGGCTTTAGTGAAAGTTACCACTG
1 ACTTGTGTGGGCTTTAGTGAAAGTTACCACTG
2195150 ACTTGTGTGGGCTTTAGTGAAAGTTACCACTG
1 ACTTGTGTGGGCTTTAGTGAAAGTTACCACTG
2195182 ACTTGTGTGGGCTTT
1 ACTTGTGTGGGCTTT
2195197 GAAAGGATGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.37
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTAGTGAAAGTTACCACTG
Found at i:2195236 original size:28 final size:28
Alignment explanation
Indices: 2195144--2195820 Score: 600
Period size: 28 Copynumber: 23.9 Consensus size: 28
2195134 GTGAAAGTTA
* * *
2195144 CCACTGACTTGTGTGGGCTTTAGTGAAAGTTA
1 CCACTGAC-T-TGTGGGCTTT-G-AAAAGATG
*
2195176 CCACTGACTTGTGTGGGCTTTGAAAGGATG
1 CCACTGAC-T-TGTGGGCTTTGAAAAGATG
* *
2195206 CCACTGACTTGTAGGCTTTGAAAAGAAG
1 CCACTGACTTGTGGGCTTTGAAAAGATG
* *
2195234 CCACTCACTTGTGGGCTCTG-AAAGAATG
1 CCACTGACTTGTGGGCTTTGAAAAG-ATG
** *
2195262 CCACTGACTCATGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAAGATG
*
2195290 CCACTGACTTATGGGCTTT-----GA-G
1 CCACTGACTTGTGGGCTTTGAAAAGATG
*
2195312 CCATTGACTTGTGGGCTTTGAAAAGGGATG
1 CCACTGACTTGTGGGCTTTGAAAA--GATG
** * * *
2195342 CTGCTGACTCGTGGGCTTTGAAAGGATA
1 CCACTGACTTGTGGGCTTTGAAAAGATG
* * *
2195370 CCACTGAATTGTGGGCTTTGAAAGGATA
1 CCACTGACTTGTGGGCTTTGAAAAGATG
2195398 CCACTGACTTGTGGGCTTTGAAAAGATG
1 CCACTGACTTGTGGGCTTTGAAAAGATG
* *
2195426 CCACTAACTTGTGGTCTTTGAAAAGGGATG
1 CCACTGACTTGTGGGCTTTGAAAA--GATG
* *
2195456 CCACTGACTCGTGGGCTTT-AAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAA-GATG
* ** *
2195484 CCACTGACTAGAAGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAAGATG
2195512 CCACTGACTTGTGGGCTTTGAAAAGGGATG
1 CCACTGACTTGTGGGCTTTGAAAA--GATG
* ** *
2195542 CCAGTGACTCATGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAAGATG
* *
2195570 CCACTGACTTGTTGGCTTTGAAAAGGTG
1 CCACTGACTTGTGGGCTTTGAAAAGATG
* *
2195598 CCACTAACTTGTGGGCTTT-AAACGGATG
1 CCACTGACTTGTGGGCTTTGAAA-AGATG
* * * *
2195626 CCATTAACTTGTTGGCTTTGAAAAGGTG
1 CCACTGACTTGTGGGCTTTGAAAAGATG
*
2195654 CCACTGACTTGTGAGCTTTG-AAAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAAGA-TG
* *
2195682 CCACTAACTTATGGGCTTTGAAAAGGGATG
1 CCACTGACTTGTGGGCTTTGAAAA--GATG
** * * *
2195712 CCACTGACTCATGAGCTTTGAAAAGGTA
1 CCACTGACTTGTGGGCTTTGAAAAGATG
* * *
2195740 CCACGGACTTGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAAGATG
* * * *
2195768 CCATTGACTTGTGGGCTTTGAGAAGGTT
1 CCACTGACTTGTGGGCTTTGAAAAGATG
* *
2195796 CCACTGACTTATGGGCTTTGGAAAG
1 CCACTGACTTGTGGGCTTTGAAAAG
2195821 GTGTTGTATT
Statistics
Matches: 531, Mismatches: 93, Indels: 46
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.03
23 2 0.00
27 11 0.02
28 358 0.67
29 19 0.04
30 99 0.19
31 3 0.01
32 21 0.04
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (28 bp):
CCACTGACTTGTGGGCTTTGAAAAGATG
Found at i:2195319 original size:22 final size:22
Alignment explanation
Indices: 2195289--2195332 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2195279 TTGAAAGGAT
2195289 GCCACTGACTTATGGGCTTTGA
1 GCCACTGACTTATGGGCTTTGA
* *
2195311 GCCATTGACTTGTGGGCTTTGA
1 GCCACTGACTTATGGGCTTTGA
2195333 AAAGGGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.34
Consensus pattern (22 bp):
GCCACTGACTTATGGGCTTTGA
Found at i:2195815 original size:114 final size:114
Alignment explanation
Indices: 2195174--2195821 Score: 650
Period size: 114 Copynumber: 5.7 Consensus size: 114
2195164 TAGTGAAAGT
* * *
2195174 TACCACTGACTTGTGTGGGCTTTGAAAGGATGCCACTGACTTGTAGGCTTTGAAAA-GAAGCCAC
1 TACCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCAC
* * *
2195238 TCACTTGTGGGCTCTG-AAAGAATGCCACTGACTCATGGGCTTTGAAAGGA
64 TGACTTGTGGGCTTTGAAAAGGATGCCACTGACTCATGGGCTTTGAAAGGA
* * * **
2195288 TGCCACTGACTTATGGGCTTTG--A----GCCATTGACTTGTGGGCTTTGAAAAGGGATGCTGCT
1 TACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGATGCCACT
* * * **
2195347 GACTCGTGGGCTTTG-AAAGGATACCACTGAATTGTGGGCTTTGAAAGGA
65 GACTTGTGGGCTTTGAAAAGGATGCCACTGACTCATGGGCTTTGAAAGGA
* * * *
2195396 TACCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGTCTTTGAAAAGGGATGCCACT
1 TACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGATGCCACT
* *
2195461 GACTCGTGGGCTTT-AAAAGGGTGCCACTGACT-A-GAAGGCTTTGAAAGGA
65 GACTTGTGGGCTTTGAAAAGGATGCCACTGACTCATG--GGCTTTGAAAGGA
* * **
2195510 TGCCACTGACTTGTGGGCTTTGAAAAGGGATGCCAGTGACTCATGGGCTTTG-AAAGGATGCCAC
1 TACCACTGACTTGTGGGCTTTG-AAAGGG-TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCAC
* * **
2195574 TGACTTGTTGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTT-AAACGGA
64 TGACTTGTGGGCTTTGAAAAGGATGCCACTGACTCATGGGCTTTGAAA-GGA
* * * * * *
2195624 TGCCATTAACTTGTTGGCTTTGAAAAGGTGCCACTGACTTGTGAGCTTTG-AAA-GAGTGCCACT
1 TACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGA-TGCCACT
* * *
2195687 AACTTATGGGCTTTGAAAAGGGATGCCACTGACTCATGAGCTTTGAAAAGG-
65 GACTTGTGGGCTTTGAAAA-GGATGCCACTGACTCATGGGCTTTG-AAAGGA
* * * *
2195738 TACCACGGACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAGAAGG-TTCCACTG
1 TACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG
* *
2195802 ACTTATGGGCTTTGGAAAGG
66 ACTTGTGGGCTTTGAAAAGG
2195822 TGTTGTATTG
Statistics
Matches: 445, Mismatches: 65, Indels: 49
0.80 0.12 0.09
Matches are distributed among these distances:
106 23 0.05
108 67 0.15
110 2 0.00
111 2 0.00
112 55 0.12
113 13 0.03
114 244 0.55
115 17 0.04
116 22 0.05
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (114 bp):
TACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG
ACTTGTGGGCTTTGAAAAGGATGCCACTGACTCATGGGCTTTGAAAGGA
Found at i:2195884 original size:26 final size:26
Alignment explanation
Indices: 2195838--2195902 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
2195828 ATTGACAAAA
* *
2195838 ATTTCTTGACAAAGTTTTTAACGAA-C
1 ATTTCTTGACAAAGCTCTTAAC-AATC
2195864 A-TTCTTGACGAAAGCTCTTAACAATC
1 ATTTCTTGAC-AAAGCTCTTAACAATC
2195890 ATTTCTTGACAAA
1 ATTTCTTGACAAA
2195903 TGGCAAATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 10 0.29
26 16 0.47
27 8 0.24
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (26 bp):
ATTTCTTGACAAAGCTCTTAACAATC
Found at i:2197831 original size:91 final size:89
Alignment explanation
Indices: 2197718--2197946 Score: 289
Period size: 91 Copynumber: 2.5 Consensus size: 89
2197708 AGAGGGGCCA
* **
2197718 CCAACCACATTTCCTAATCATATCATTTCTCTTCAACCACTAGATGGTATTGATATGTCATATAA
1 CCAACCATATTTCCTAATCATATC-TTT-TCTTCAACCACTAGATGGTATTGATACATCATATAA
2197783 TCCAAGATATCTAGGGCAAGGATATC
64 TCCAAGATATCTAGGGCAAGGATATC
* * * *
2197809 CCAACCATATTTCCCAATCATATCCTTTTTTCTCAACAACTAGATGGTATTGATGCATCATATAA
1 CCAACCATATTTCCTAATCATAT-CTTTTCT-TCAACCACTAGATGGTATTGATACATCATATAA
*
2197874 TCCAAGATTTCTAGGGCAAGGATATC
64 TCCAAGATATCTAGGGCAAGGATATC
* *
2197900 CTAACAACATATTT-CTAATCATATCTCTTTCATTCAGCCACTAGATG
1 CCAAC--CATATTTCCTAATCATATCT-TTTC-TTCAACCACTAGATG
2197947 ACATTGGTGC
Statistics
Matches: 119, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 84 0.71
92 25 0.21
93 8 0.07
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (89 bp):
CCAACCATATTTCCTAATCATATCTTTTCTTCAACCACTAGATGGTATTGATACATCATATAATC
CAAGATATCTAGGGCAAGGATATC
Found at i:2198577 original size:45 final size:46
Alignment explanation
Indices: 2198492--2198602 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 46
2198482 CTTTACTAAA
* *
2198492 CAAACCCTATTCATTCTTGTTTAACTGCATCGGTTGCCACCTTAGT
1 CAAACCCTTTTCATTCTTGTTTAACTGCATCGGTTACCACCTTAGT
* * * * * *
2198538 CAGA-CCTTTTCATTTTTGTTTGACTGTATTGGTTACCACCTTGGT
1 CAAACCCTTTTCATTCTTGTTTAACTGCATCGGTTACCACCTTAGT
*
2198583 CAAACCCTTTTCATCCTTGT
1 CAAACCCTTTTCATTCTTGT
2198603 CGCAACGTGG
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 37 0.70
46 16 0.30
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (46 bp):
CAAACCCTTTTCATTCTTGTTTAACTGCATCGGTTACCACCTTAGT
Found at i:2199690 original size:28 final size:27
Alignment explanation
Indices: 2199656--2199723 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 27
2199646 AAAACTAGGC
**
2199656 TTGGAGTATCCCTTTAGAAATAACGGGG
1 TTGGAGTATCCCTCGA-AAATAACGGGG
*
2199684 TTGGAGTATTCCCTCGAAAATAATGGGG
1 TTGGAGTA-TCCCTCGAAAATAACGGGG
2199712 TTGGAGTATCCC
1 TTGGAGTATCCC
2199724 CAATTGTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.11
28 26 0.72
29 6 0.17
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
TTGGAGTATCCCTCGAAAATAACGGGG
Found at i:2199797 original size:28 final size:27
Alignment explanation
Indices: 2199765--2199827 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
2199755 AACCGAGTTG
2199765 GAGTATCGCCTCGAAAATAACGAGGTT
1 GAGTATCGCCTCGAAAATAACGAGGTT
* *
2199792 GCAGTATCTCCTCGGAAATAACGAGGTT
1 G-AGTATCGCCTCGAAAATAACGAGGTT
2199820 AGAGTATC
1 -GAGTATC
2199828 CCCGATTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 1 0.03
28 30 0.94
29 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (27 bp):
GAGTATCGCCTCGAAAATAACGAGGTT
Found at i:2199859 original size:106 final size:106
Alignment explanation
Indices: 2199587--2199881 Score: 312
Period size: 106 Copynumber: 2.8 Consensus size: 106
2199577 TCGGAGTACC
* * * * *
2199587 CCCTCAAAAATAATGGGGTTGGAGTATCCCCCATGGTGGAAAATTGATGTTTTGGAAATAAAACT
1 CCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATT-ATGTTTTGGAAATAAAACG
** * *
2199652 AGGCTTGGAGTATCCCTTTAGAAATAACGGGGTTGGAGTATT
65 AGGCTTGGAGTATCCCTCGAGAAATAACGAGGTTGCAGTATT
* **
2199694 CCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAAAAATAAAACC
1 CCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATT-ATGTTTTGGAAATAAAA-C
2199759 GA-G-TTGGAGTATCGCCTCGA-AAATAACGAGGTTGCAGTA-T
64 GAGGCTTGGAGTATC-CCTCGAGAAATAACGAGGTTGCAGTATT
* * * * * *
2199799 CTCCTCGGAAATAACGAGGTTAGAGTATCCCCGATTGTGAAAAATTATTTTTTTGGAAATAAAA-
1 C-CCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATTA-TGTTTTGGAAATAAAAC
* *
2199863 TAGGGGTTGGAGTATCCCT
64 GA-GGCTTGGAGTATCCCT
2199882 TCAAAAATAA
Statistics
Matches: 159, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
104 1 0.01
105 2 0.01
106 83 0.52
107 71 0.45
108 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (106 bp):
CCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATTATGTTTTGGAAATAAAACGA
GGCTTGGAGTATCCCTCGAGAAATAACGAGGTTGCAGTATT
Found at i:2200042 original size:79 final size:78
Alignment explanation
Indices: 2199788--2200049 Score: 249
Period size: 79 Copynumber: 3.3 Consensus size: 78
2199778 AAAATAACGA
* * * * * * *
2199788 GGTTGCAGTATCTCCTCGGAAATAACGAGGTTAGAGTATCCCCGATTGTGAAAAATTATTTTTTT
1 GGTTGGAGTATCCCCTTGGAAATAACGGGGTTAGAGCAT-CCCGATTGTGAAAAATTAGTATTTT
*
2199853 GGAAATAAAA-TAGG
65 GGAAATAAAACCA-G
** ** * * * * *
2199867 GGTTGGAGTAT-CCCTTCAAAAATAATAGGGTTGGAGCATCCCTGATTGGGGAAAATCAGTGTTT
1 GGTTGGAGTATCCCCTT-GGAAATAACGGGGTTAGAGCATCCC-GATTGTGAAAAATTAGTATTT
2199931 TGGAAATAAAACCAG
64 TGGAAATAAAACCAG
* * * *
2199946 GGTTGGAGCATCTCCTTGGAAATAACGGGGTTAGAGCATCTCCGATTATGAAAAATTGGTATTTT
1 GGTTGGAGTATCCCCTTGGAAATAACGGGGTTAGAGCATC-CCGATTGTGAAAAATTAGTATTTT
* *
2200011 AGAAATAAAACCTG
65 GGAAATAAAACCAG
*
2200025 GGTTGAAGTATCCCCTTGGAAATAA
1 GGTTGGAGTATCCCCTTGGAAATAA
2200050 AAACATGAAT
Statistics
Matches: 144, Mismatches: 34, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
78 6 0.04
79 131 0.91
80 7 0.05
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (78 bp):
GGTTGGAGTATCCCCTTGGAAATAACGGGGTTAGAGCATCCCGATTGTGAAAAATTAGTATTTTG
GAAATAAAACCAG
Found at i:2202470 original size:20 final size:20
Alignment explanation
Indices: 2202445--2202499 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
2202435 TTTTACCCAG
2202445 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
**
2202465 AATGTATTAATACAATGAAC
1 AATGTATCGATACAATGAAC
2202485 AATGTATCGATACAA
1 AATGTATCGATACAA
2202500 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:2203165 original size:85 final size:85
Alignment explanation
Indices: 2202961--2203279 Score: 302
Period size: 85 Copynumber: 3.8 Consensus size: 85
2202951 TCAATCCCGT
* * * * * *
2202961 TCAACCTTTTTATCCTTTGTTTACTTGTTAGCTTAGTCCCGGATAACTCCTTATATCCTTTATTG
1 TCAACCTTTTTATCCTTTGTTTACTTGTCAACTTAGTCCCGGGTAAATCCTTTTATCCTTTGTTG
* * * *
2203026 ACTTCTCAGTTCAATCTCAG
66 AATTGTCGGTTAAATCTCAG
* * * * * *
2203046 TTAACCTTTTTATCCTTTGTTTACCTATCGACTTACTCCCGGGTAAATCCTTTTATCTTTTGTTG
1 TCAACCTTTTTATCCTTTGTTTACTTGTCAACTTAGTCCCGGGTAAATCCTTTTATCCTTTGTTG
*
2203111 ATTTGTCGGTTAAATCTCAG
66 AATTGTCGGTTAAATCTCAG
* * ** * * *
2203131 TCAA-CTTTTTCATCCCTTGTTTACTTGCCAACTTAGTCTTGAGAAAATCTTTTTATCCTTTGTT
1 TCAACCTTTTT-ATCCTTTGTTTACTTGTCAACTTAGTCCCGGGTAAATCCTTTTATCCTTTGTT
* *
2203195 AAATTGTCGGTTTAATCTC-G
65 GAATTGTCGGTTAAATCTCAG
* *** * * *
2203215 ATCAACCTTTTTATCCTTTGTTTACCTGTTGGCTTGGTCCCGAGTAAATCC-TTTATCATTTGTT
1 -TCAACCTTTTTATCCTTTGTTTACTTGTCAACTTAGTCCCGGGTAAATCCTTTTATCCTTTGTT
2203279 G
65 G
2203280 CTTGTCGAAT
Statistics
Matches: 186, Mismatches: 45, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
84 19 0.10
85 161 0.87
86 6 0.03
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (85 bp):
TCAACCTTTTTATCCTTTGTTTACTTGTCAACTTAGTCCCGGGTAAATCCTTTTATCCTTTGTTG
AATTGTCGGTTAAATCTCAG
Found at i:2203901 original size:11 final size:11
Alignment explanation
Indices: 2203873--2203902 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2203863 AAAATTTCTA
*
2203873 TTTTTTAAGAT
1 TTTTTTGAGAT
2203884 TTTTTTGAGAT
1 TTTTTTGAGAT
2203895 TTTTTTGA
1 TTTTTTGA
2203903 AAAATATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (11 bp):
TTTTTTGAGAT
Found at i:2206283 original size:129 final size:129
Alignment explanation
Indices: 2206125--2206367 Score: 364
Period size: 129 Copynumber: 1.9 Consensus size: 129
2206115 ATCCGTGGGG
* * *
2206125 GTATGAAAATTTTCAAAACTTTTCATATCTTTTCAATTCTCCATTAAGATATGAAATAATTTTTT
1 GTATAAAAATTTTCAAAACTTTTCATATCTTTTCAATTCTCCATTAAGATACGAAATAA-ATTTT
*
2206190 TTGGAAATTAAAAATTAAATAAAAATTATTATCTTA-TTTTCAAGATTTATGGCTTTCCGTATGA
65 TTAGAAATTAAAAATTAAATAAAAATTATTATCTTAGTTTTCAAGATTTATGGCTTTCCGTATGA
* *** *
2206254 GTATAAAAATCTTT-AAAACTTTTCGTATCTTTTTGGTTCTCCATTAAGGTACGAAATAAATTTT
1 GTATAAAAAT-TTTCAAAACTTTTCATATCTTTTCAATTCTCCATTAAGATACGAAATAAATTTT
2206318 TTAGAAATTAAAAATTAAATAAAAATTATTATCTTAGTTTTTCAAGATTT
65 TTAGAAATTAAAAATTAAATAAAAATTATTATCTTAG-TTTTCAAGATTT
2206368 CTAATATTCC
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
128 39 0.38
129 48 0.47
130 15 0.15
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (129 bp):
GTATAAAAATTTTCAAAACTTTTCATATCTTTTCAATTCTCCATTAAGATACGAAATAAATTTTT
TAGAAATTAAAAATTAAATAAAAATTATTATCTTAGTTTTCAAGATTTATGGCTTTCCGTATGA
Found at i:2208980 original size:20 final size:19
Alignment explanation
Indices: 2208939--2209000 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
2208929 AGTGGAACAT
*
2208939 AAAAAGAATTTATTTTGC-
1 AAAAAAAATTTATTTTGCA
2208957 AAAAAAAATTTATTCTTGCA
1 AAAAAAAATTTATT-TTGCA
2208977 AAAAAAAATTTATTTTTGCA
1 AAAAAAAATTTA-TTTTGCA
2208997 AAAA
1 AAAA
2209001 GGATGATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
18 13 0.32
19 4 0.10
20 21 0.52
21 2 0.05
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (19 bp):
AAAAAAAATTTATTTTGCA
Found at i:2211363 original size:98 final size:98
Alignment explanation
Indices: 2211187--2211363 Score: 214
Period size: 98 Copynumber: 1.8 Consensus size: 98
2211177 GCCCCTAGAA
* * * * *
2211187 GATACCTTCGACGAGAAAGTATCCGGGGACCCTTAAAGGATTTAAAAAGGACTATAAAAGGTGTG
1 GATACCTTCAACGAGAAAGTATCCGGGGACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGTATG
*
2211252 AAACTATCCTAAATTACGAAAATTCCCCCAGGG
66 AAACAATCCTAAATTACGAAAATTCCCCCAGGG
** * *
2211285 GATACCTTCAAC-ATGAAAGTATCTTGGTACCCCTAAAGGACTTAAAAA-GACTAGAAATGGTAA
1 GATACCTTCAACGA-GAAAGTATCCGGGGACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGT-A
* *
2211348 TGAACCAATCTTAAAT
64 TGAAACAATCCTAAAT
2211364 ACCCACATTC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
97 12 0.18
98 53 0.82
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (98 bp):
GATACCTTCAACGAGAAAGTATCCGGGGACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGTATG
AAACAATCCTAAATTACGAAAATTCCCCCAGGG
Found at i:2211590 original size:157 final size:156
Alignment explanation
Indices: 2211262--2215695 Score: 4088
Period size: 157 Copynumber: 28.3 Consensus size: 156
2211252 AAACTATCCT
* * * * * *
2211262 AAATTACGAAAATTCCCCCAGGGGATACCTTCAACATGAAAGTATCTTGGTACCCCTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
* * * * * * **
2211327 TAAAAAGACTAGAAATGGTAATGAACCAATCTTAAATACCCACATTCGGCATAAAAATGGACCTG
65 TAAAAAGGCTAGAAATGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* * * *
2211392 ATCACAACCTAGGACTCAGTTTTAGGAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* * * ** *
2211420 AAATTATGAAAATGCCCCTAGGGGATACCTTCAACGTGAAAATACCCCCGTACTCCTAAAGGTCT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTAC-CCTAAAGGACT
* * * * *
2211485 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTTGACAAAAAAGTGGACCCGG
65 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTGG
* *
2211550 TGACAAACTAGGACTCGGTTCAAGGAA
130 TGACAACCTAGGACTCGGTTCTAGGAA
* * * * *
2211577 AAATTATTAAAATGCCTCTGGGGGATACCTTCGATGTGAAAGTATCCTGATACCCTTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACCC-TAAAGGACT
* * **
2211642 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGTCCACCTTCAGCATAAAAGCGGACCCAG
65 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTGG
* * * * *
2211707 TGATAGCCTAGGCCTTGGTTTTAGGAA
130 TGACAACCTAGGACTCGGTTCTAGGAA
* ** * * *
2211734 AAATTATGAAAGTGCCTTTAGAGGATACCTTCGATGTGAAAGTATCCCGGTACCCCTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
* ** * *
2211799 TAATAAGGCTA-AAACTGGGATGAACCTATCCTAAATGCTTACCTTTGGGATAAAAGCGGATCC-
65 TAAAAAGGCTAGAAA-TGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGA-CCT
*
2211862 GGTGACATCCTAGGACTCGGTTCTAGGAA
128 GGTGACAACCTAGGACTCGGTTCTAGGAA
** * * * *
2211891 AAATTACAAAAATGCCCCTAGGAGATACCTTTGAAGTGAAAGTATCCTAGTACCCTTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACCC-TAAAGGACT
* * * * * * ** *
2211956 T-AAAAGAACAATAAAAGGGGTGAACCCATCCTAAATAACCACCTTCGGCATAAAAGCGGACCTC
65 TAAAAAG-GCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* * * * *
2212020 GTGATAGCCTAAGATTCAGTTCTA--AA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
** * * ** * * * * *
2212046 AAATTACAAAAATGCCCTTAAGGGATATTTTCGACATGAAATTATCTTGGTACCCCTAAAAGATT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
* * * * *
2212111 TAAAAAGACTAGAAATGGTGATGAACCTATCCTAAAGGCCCACCTTCGGCATAAAAACGAACTTG
65 TAAAAAGGCTAGAAATGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* * *** * *
2212176 GTGACAAACTAAGACTTAATTTTAGAAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
** * * * * * * * *
2212204 AAATTACAAAAATACCCTTAGAGGATACTTTTGACGTGAAAGTAT-TTCGGCACCCTTAAAGGGC
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCT-GGTACCC-TAAAGGAC
* * * **
2212268 TTAAAAAGGCTTGAAATGGGACGAACCTATCCTAAATGCCCACCTTCGACATAAAAATGGATCC-
64 TTAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGA-CCT
* * *
2212332 GGTGACAACTTAGGACTCAGTTC-A-AAA
128 GGTGACAACCTAGGACTCGGTTCTAGGAA
*** * * * *
2212359 AAATTATGAAAATGCCCCTAGAAAATACCTTCAATGTGAAAGTATCCTGATACCCCTAAAGGATT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
* * *
2212424 TAAAAAGGCTAAAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGC--AGCTCG
65 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCT-G
* * *
2212487 GTGACAACCTAAGACTTGGTTCTAAGAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* * * *
2212515 AAATTACGATAATGCCCGC-AGGGGATACCTTCGACGTGAAAGTATCCTAGT-CCCTTAAAAGAC
1 AAATTATGAAAATGCCC-CTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACCC-TAAAGGAC
* * * * *
2212578 TTAAAAAGGATTATAAAAAGGG-TAAACCTATCCTAAATACCCACCTTCGAG-AT-AAAGCGGAC
64 TTAAAAAGG-CTA-GAAATGGGATGAACCTATCCTAAATGCCCACCTTCG-GCATAAAAGCGGAC
* * * * * *
2212640 CAGGTGATAACTTAGGACTCGATTTTAGAAA
126 CTGGTGACAACCTAGGACTCGGTTCTAGGAA
* * * ** * * * *
2212671 AAATTGTAAAAATGCCCTTAGAAGATACTTTCGAAGTGAAAGAATCCTGATACCCTTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACCC-TAAAGGACT
* * * * * * *
2212736 TAAAAAGGACAATAAAAGGGGTGAACCTATCTTAAATACCCACCTTTGGCATAAAAGCGGACCTG
65 TAAAAAGG-CTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* * *
2212801 GTGATAACCTAGGACTCGATTTTA--AA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* * * * * * *
2212827 AAGTTATGAAAATACCCTTAAGGGATGCCTTCAACGTGAAAGTATCATGGTACCCCTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
* * * * *
2212892 TACAAAGGCTAGAAATGGGATCAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCAGACCCGG
65 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTGG
* ** * *
2212957 TGACAACTTAGGAC-CTAATTTTAAGAA
130 TGACAACCTAGGACTC-GGTTCTAGGAA
* * *
2212984 AAATTATGACAATGCCCCTAGGGGATACCTTCGACGTTAAAGTATCCTTGTACCCTTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACCC-TAAAGGACT
* * * * * * * * *
2213049 TAAAAAGGACAATAAAAGGGGTGAACCTATTCTAAATACCTACCTTCGACATAAAAGC-AATCCT
65 TAAAAAGG-CTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGA-CCT
* * * *
2213113 AGTGATAACCTAGGACTCGGTTTTACGAA
128 GGTGACAACCTAGGACTCGGTTCTAGGAA
* * * * * * * * *
2213142 AAAGTATGAAAATG-CTCTAAAGGAATACTTTCAACGTCAAAGTATCTTGGTACCATTAAAGGAC
1 AAATTATGAAAATGCCCCT-AGGGGATACCTTCGACGTGAAAGTATCCTGGTACC-CTAAAGGAC
* * * * * ** * *
2213206 TTAAAAAGGACTATAAAAGGGGTGGACCTATCCTAAATGCCCACATTTAGCATAAAAGCGAAGCT
64 TTAAAAAGG-CTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCT
* * * *
2213271 AGTGATAACCTAGGATTCGATTCTA--AA
128 GGTGACAACCTAGGACTCGGTTCTAGGAA
* ** * * * * *
2213298 AAATTACGAAAATGCCCCTACAGGATACCTTAGATGTGAAAGTGTCTTAGTACCCCTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
* * *** **
2213363 TAAAAAGACTAGAAATGGTGATGGAA-CTATCCTAAATGCCCACTTTCTATATAAAAATGGACCT
65 TAAAAAGGCTAGAAATGG-GAT-GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCT
* * *
2213427 -GCGACAACCTAGGACTCAGTTTTAGGAA
128 GGTGACAACCTAGGACTCGGTTCTAGGAA
* * * **
2213455 AAATTATAAAAATACCCCTAAGGGATACCTTCGACGTGAAAGTAT-CTCAATACCCTTAAAGGAC
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCT-GGTACCC-TAAAGGAC
* * * ** *
2213519 TTAAAAAAGCTACAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGTAGACCCG
64 TTAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* *
2213584 GTGACAACTTAGGACTCAGTTCTAGGAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* ** * * * * *
2213612 AAATTATTAAAATGCCCCTAAAGGATACTTTCGATGTGAATGTATCCTAGTACCCCTACAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
*
2213677 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCTGG
65 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTGG
* *
2213742 TGATAACGTAGGACTCGGTTCTAGGAA
130 TGACAACCTAGGACTCGGTTCTAGGAA
* * * * *
2213769 AAATTATGAAAATGCCCCTAAGGGATACCATCGACATGAACGTATCCCGGTACCCCTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
* * * * * *
2213834 TAAAAATGCTAGAAATGAGATGAAGCTATCCTAAATGCCCACCTTCGGCGTAAAAGCAGACCCGG
65 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTGG
* *
2213899 TGACAACCTAAGACTTGGTTCTAGGAA
130 TGACAACCTAGGACTCGGTTCTAGGAA
* * ** * *
2213926 AAATTA-GTAAATG-CCCT-TGGGATACCTTCGACAAGAAAGTATCCTGGTACCAATAAAGGATT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACC-CTAAAGGACT
* * * *
2213988 TAAAAAGACTAGAAATGGTAAGGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCTG
65 TAAAAAGGCTAGAAATGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* *
2214053 GTGATAACCTAGAACTCGGTTCTAGGAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* * * *
2214081 AAATTATGAAAATGCCCCTAGGGGATACCTTCAACATGAACGTAT-CTCGATACCGCTAAAGGAC
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCT-GGTACC-CTAAAGGAC
* * * * *
2214145 TTAAAAATGCTAGAAATGAGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCAGACCCG
64 TTAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* *
2214210 GTGACAACCTAGGACTCAGTTTTAGGAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* * ** * *
2214238 AAATTATGTAAATGCCCCT--GGGATACCTTTGACAAGAAAGTATCCTGGTACCAATAAAGGATT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACC-CTAAAGGACT
* ** * * * *** *
2214301 TAAAAAGACTAGAAATGTTAAGGAACCTACCCTAAATGCCCACCTTTGGCATAAAAATAGACCCG
65 TAAAAAGGCTAGAAATG-GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* * *
2214366 GTAACAACCTAGGCCTCGGTTTTAGGAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* * * * * *
2214394 AAATTATGAAAATACCCCTAGAGGATACTTTCGATGTGAAAGTAT-CTCGATACCCCTAAAAGAC
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCT-GGTA-CCCTAAAGGAC
* * * * * *
2214458 TTAAAAAAAGCTAGAAATGGGTTGAACCTATCCTAAATGCCCACATTCGACATAAAACCGAACCT
64 TT-AAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCT
** * **
2214523 ACTGACAACTTAATACTCGGTTCTAGGAA
128 GGTGACAACCTAGGACTCGGTTCTAGGAA
* * *
2214552 AAATTATGAAAATGCCCCTAGGGGATACTTTCGATGTGAAAGTATCCTGGTACGCTTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTAC-CCTAAAGGACT
* * * * * * ***
2214617 TAAAAAGAACTATAAAAGGGGTGAACCTATCCCAAATACCCACCTTCGGCATAAAAAAAAGACCT
65 TAAAAAG-GCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCAT-AAAAGCGGACCT
* * * *
2214682 GGTAATAACTTAGGGCTCGGTTCTA--AA
128 GGTGACAACCTAGGACTCGGTTCTAGGAA
* * * *
2214709 AAATTATGAAAATACCCTTAGAGGATACCTTCGACGTGAAAGTATCTTGGTACCCCTAAAGGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
* * * * ** *
2214774 TAAAAAGACTACAAATAGTGATGAACCTATCCTAAATGCCCACATTCGGCATAAAAATGGACTTG
65 TAAAAAGGCTAGAAAT-GGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* * * * *
2214839 GTTACAAACTAGAACTCGATTTTAGGAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* * * *
2214867 AAATTATGAAAATGCCCCTAGGGAATACCTTCAACGTGAAA-TAATCC-AGTACCCTTAAAAGAC
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGT-ATCCTGGTACCC-TAAAGGAC
* * ** * * *
2214930 TTGAAAAGGCTAGAAATGGGATGAACCTATCATAAATGCCCACCTTTAGCATAAAAGAGGGCCTA
64 TTAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* * * *
2214995 GTGACAACTTAGGACTCGATTTTAGAAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* ** * *
2215023 AAATTAGGAAAATGCCCCTAAAGGATACCTTCGACGTAAAAGTAT-TTCGGTACCCCTAAAGGAC
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCT-GGTA-CCCTAAAGGAC
* * * * *
2215087 TTAAAAATGATAGAACTGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCTA
64 TTAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* **
2215152 GTGACAACCTAGGCCTCGGTTCTAATAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* * * **
2215180 AAATTATGAAAGTACCCCTAGGGGATACCTTCGACGGGAAAGTAT-CTCAATACCCCTAAAGGAC
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCT-GGTA-CCCTAAAGGAC
* ** * **
2215244 TTAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCTAAATTCGGCATAAAAGCGAACCCA
64 TTAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTG
* * *
2215309 GTGACAACCTAGGCCTTGGTTCTAAGAA
129 GTGACAACCTAGGACTCGGTTCTAGGAA
* * * ** ** *
2215337 AAACTATGAAAATGCCCTTAGGGGATACCTTCAATATGAAAGTATCCCAGTACCCCTAAAGGATT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTA-CCCTAAAGGACT
*
2215402 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCTGG
65 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTGG
* *
2215467 TGGCAACCTAGGCCTCGGTTCTAGGAA
130 TGACAACCTAGGACTCGGTTCTAGGAA
* * * * * * *
2215494 AAATTAAGAACATGCCCTTAGTGAATACCTTCGACATGAAAGTATCCTGGTACCCTTAAAAGACT
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACCC-TAAAGGACT
* * * *** *
2215559 TAAAAAGGCTAGAAATGGGATGAATCTATCCTAAATGCCCATCTTCGGTATAAAAGTAAACCTGA
65 TAAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTGG
* *
2215624 TGACAACCTAGGACTCGATTCTA-AAA
130 TGACAACCTAGGACTCGGTTCTAGGAA
* * * * *
2215650 AAATTATGAAAATACCCATACGGGATACCTTCAACGTGCAAGTATC
1 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATC
2215696 TCGATACTGC
Statistics
Matches: 3512, Mismatches: 677, Indels: 176
0.80 0.16 0.04
Matches are distributed among these distances:
152 1 0.00
153 3 0.00
154 73 0.02
155 393 0.11
156 668 0.19
157 1688 0.48
158 639 0.18
159 47 0.01
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (156 bp):
AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACCCTAAAGGACTT
AAAAAGGCTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCTGGT
GACAACCTAGGACTCGGTTCTAGGAA
Found at i:2217504 original size:13 final size:14
Alignment explanation
Indices: 2217486--2217514 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2217476 TGTTGTTCGA
2217486 TTGTCTTTAG-TTG
1 TTGTCTTTAGCTTG
2217499 TTGTCTTTAGCTTG
1 TTGTCTTTAGCTTG
2217513 TT
1 TT
2217515 TTGTTGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.07, C:0.10, G:0.21, T:0.62
Consensus pattern (14 bp):
TTGTCTTTAGCTTG
Found at i:2218750 original size:19 final size:18
Alignment explanation
Indices: 2218725--2218789 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
2218715 TTTCAAACAA
2218725 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2218743 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2218759 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2218775 TTGTGTATCGATACA
1 TT-TGTATCGATACA
2218790 ATGCATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2218764 original size:13 final size:13
Alignment explanation
Indices: 2218746--2218770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2218736 ACATAAGTGT
2218746 TGTATCGATACAA
1 TGTATCGATACAA
2218759 TGTATCGATACA
1 TGTATCGATACA
2218771 TAAGTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2218764 original size:32 final size:32
Alignment explanation
Indices: 2218727--2218797 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
2218717 TCAAACAATT
2218727 TGTATCGATACATAAG-TGTTGTATCGATACAA
1 TGTATCGATACATAAGTTG-TGTATCGATACAA
2218759 TGTATCGATACATAAGTTGTGTATCGATACAA
1 TGTATCGATACATAAGTTGTGTATCGATACAA
*
2218791 TGCATCG
1 TGTATCG
2218798 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
32 35 0.95
33 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTTGTGTATCGATACAA
Found at i:2218839 original size:13 final size:13
Alignment explanation
Indices: 2218821--2218846 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2218811 GCCAAGGAAA
2218821 TGTATCGATACAT
1 TGTATCGATACAT
2218834 TGTATCGATACAT
1 TGTATCGATACAT
2218847 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2221348 original size:31 final size:28
Alignment explanation
Indices: 2221320--2221396 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
2221310 ATTTTTCACA
*
2221320 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
2221348 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
2221376 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
2221397 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:2221540 original size:52 final size:51
Alignment explanation
Indices: 2221203--2221548 Score: 200
Period size: 52 Copynumber: 6.6 Consensus size: 51
2221193 GTTAAGTTTC
* * *
2221203 CCAATTGTTCATAATCGGGGATACACCAACCCCGATTTTATTTTC-AAAACA
1 CCAATTTTTCATAATCGGGGATACTCCAA-CCCGATTTTATTTCCAAAAACA
* * *
2221254 CTAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACA
1 CCAATTTTTC-ATAATCGGGGATACTCCAAC-CCGATTTTATTTCCAAAAACA
* * ** * *
2221307 CCAATTTTTCACAATCGAGGATACTCCAACCTCG---TTATTTCATCGGGGATACT
1 CCAATTTTTCATAATCGGGGATACTCCAACC-CGATTTTATTTC--C--AAAAACA
** * * **** ** * *
2221360 CCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATA
1 CCAA---TTTTTCATAATCGGGGATACTCCAA-CCCGATTTTATTTCCAAAAACA
*** * * *
2221414 TTGATTTCTCATAATCGGGGATACTCCAACCCTGGTTTTATTT-CTAAAACA
1 CCAATTTTTCATAATCGGGGATACTCCAACCC-GATTTTATTTCCAAAAACA
* *
2221465 CCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACA
1 CCAATTTTTC-ATAATCGGGGATACTCCAAC-CCGATTTTATTTCCAAAAACA
* * *
2221518 CCAATTTTTCATAGTCGAGGATACCCCAACC
1 CCAATTTTTCATAATCGGGGATACTCCAACC
2221549 TCGTTATTTC
Statistics
Matches: 217, Mismatches: 58, Indels: 40
0.69 0.18 0.13
Matches are distributed among these distances:
49 7 0.03
50 3 0.01
51 44 0.20
52 95 0.44
53 39 0.18
54 3 0.01
56 18 0.08
57 2 0.01
58 3 0.01
59 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
CCAATTTTTCATAATCGGGGATACTCCAACCCGATTTTATTTCCAAAAACA
Found at i:2221575 original size:211 final size:210
Alignment explanation
Indices: 2221210--2221656 Score: 790
Period size: 211 Copynumber: 2.1 Consensus size: 210
2221200 TTCCCAATTG
* *
2221210 TTCATAATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATCGGGG
1 TTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
*
2221275 ATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTC
66 ATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACCCCAACCTC
2221340 GTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATT
131 GTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATT
2221405 CCCAAAATATTGATT
196 CCCAAAATATTGATT
* *
2221420 TCTCATAATCGGGGATACTCCAACCCTGGTTTTA-TTTCTAAAACACCAATTTTCCTTTAATCGG
1 T-TCATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTTTAATCGG
* *
2221484 GGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCATAGTCGAGGATACCCCAACC
64 GGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACCCCAACC
2221549 TCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTA
129 TCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTA
2221614 TTCCCAAAATATTGATT
194 TTCCCAAAATATTGATT
2221631 TTCATAAAT-GGGGATACTCCAACCCC
1 TTCAT-AATCGGGGATACTCCAACCCC
2221657 ATTATTTTTG
Statistics
Matches: 226, Mismatches: 8, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
210 25 0.11
211 201 0.89
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (210 bp):
TTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
ATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACCCCAACCTC
GTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATT
CCCAAAATATTGATT
Found at i:2221680 original size:28 final size:29
Alignment explanation
Indices: 2221640--2221694 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
2221630 TTTCATAAAT
2221640 GGGGATACTCCAA-CCCCATTATTTTTGA
1 GGGGATACTCCAATCCCCATTATTTTTGA
* *
2221668 GGGGATACTCCAATCCCGATTTTTTTT
1 GGGGATACTCCAATCCCCATTATTTTT
2221695 CCTAATCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (29 bp):
GGGGATACTCCAATCCCCATTATTTTTGA
Found at i:2221709 original size:78 final size:79
Alignment explanation
Indices: 2221561--2221764 Score: 232
Period size: 78 Copynumber: 2.6 Consensus size: 79
2221551 GTTATTTCAT
** * *
2221561 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* *
2221626 TGATTT-TCATAAA
66 CGATTTCTCACAAA
* * * * * * * *
2221639 TGGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAATCCCGATTTTTTTTCC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
*
2221703 TCGATTTCTCACAAC
65 TCGATTTCTCACAAA
* *
2221718 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATAGTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
2221765 TTATTATCTC
Statistics
Matches: 103, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
77 3 0.03
78 54 0.52
79 46 0.45
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAA
Found at i:2234156 original size:1 final size:1
Alignment explanation
Indices: 2234152--2234203 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
2234142 TTCTTTTTTC
* * * * *
2234152 AAAAAAAAAAAAACAAAAAAACAAGAAAAAACAAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2234204 TCTGCTTAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:2235441 original size:55 final size:55
Alignment explanation
Indices: 2235271--2235693 Score: 531
Period size: 55 Copynumber: 7.4 Consensus size: 55
2235261 TTCACCCACT
* * *
2235271 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
2235326 AGTCCTCAAAGAGCAGGACGCCTTTCCATTTAAAGCCCACACAAGTTGGTGGCACTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTT-C----AAAGCCCACACAAGTTGGTGGCACTTTCC
* * *
2235386 AGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTAGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
* * *
2235441 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACTTTCC
* * * *
2235502 AATCCTCAAAGAGTAGGGCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
* *
2235557 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAAAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
* * *
2235612 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACTTTCC
2235673 AGTCCTCAAAGAGCAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
2235694 TCTCTCCTTT
Statistics
Matches: 322, Mismatches: 29, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
55 169 0.52
56 6 0.02
57 2 0.01
59 2 0.01
60 55 0.17
61 88 0.27
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
Found at i:2235526 original size:116 final size:114
Alignment explanation
Indices: 2235271--2235703 Score: 577
Period size: 116 Copynumber: 3.7 Consensus size: 114
2235261 TTCACCCACT
* *
2235271 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
2235336 GAGCAGGACGCCTTTCCATTTAAAGCCCACACAAGTTGGTGGCACTTTCC
66 GAGCAGGACGCCTTTCC-TTTAAAGCCCACACAAGTTGGTGGCACTTTCC
* * **
2235386 AGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTAGGTGGCATTTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* * *
2235451 GAGCAGGATGCCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTCCC
66 GAGCAGGACGCC-TTTCC-TTTAAAGCCCACACAAGTTGGTGGCACTTTCC
* * * **
2235502 AATCCTCAAAGAGTAGGGCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* *
2235567 GAGCAGGACGCCTTT-C---AAAGCCCACAAAAGTTGGTGGCATTTTCC
66 GAGCAGGACGCCTTTCCTTTAAAGCCCACACAAGTTGGTGGCACTTTCC
* *
2235612 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
1 AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
*
2235677 CTCAAAGAGCAGGACGCTCTCTCCTTT
60 CTCAAAGAGCAGGACGC-CTTTCCTTT
2235704 CACCCTTTAG
Statistics
Matches: 278, Mismatches: 28, Indels: 18
0.86 0.09 0.06
Matches are distributed among these distances:
110 43 0.15
111 3 0.01
112 1 0.00
114 1 0.00
115 73 0.26
116 153 0.55
117 3 0.01
118 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (114 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
GAGCAGGACGCCTTTCCTTTAAAGCCCACACAAGTTGGTGGCACTTTCC
Found at i:2235582 original size:27 final size:27
Alignment explanation
Indices: 2235552--2235636 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
2235542 TTGGTGGCAT
2235552 TTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTCCAGTCCTCAAAGAGCAGGACGCC
* * * ** ** *
2235579 TTTCAAAGCCCACAAA-AGTTGGTGGCAT
1 TTTC-CAGTCCTCAAAGAGCAGGACGC-C
*
2235607 TTTCCAGTCCTCAAAGAGCAGGATGCC
1 TTTCCAGTCCTCAAAGAGCAGGACGCC
2235634 TTT
1 TTT
2235637 TCCTTTTAAA
Statistics
Matches: 39, Mismatches: 16, Indels: 6
0.64 0.26 0.10
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACGCC
Found at i:2235610 original size:28 final size:28
Alignment explanation
Indices: 2235524--2235610 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
2235514 GTAGGGCGCC
*
2235524 TTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAAAGCCCACAAAAGTTGGTGGCAT
* * * ** ** *
2235552 TTTC-CAGTCCTCAAAGAGCAGGACGC-C
1 TTTCAAAGCCCACAAA-AGTTGGTGGCAT
2235579 TTTCAAAGCCCACAAAAGTTGGTGGCAT
1 TTTCAAAGCCCACAAAAGTTGGTGGCAT
2235607 TTTC
1 TTTC
2235611 CAGTCCTCAA
Statistics
Matches: 39, Mismatches: 17, Indels: 6
0.63 0.27 0.10
Matches are distributed among these distances:
27 17 0.44
28 22 0.56
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAAAGTTGGTGGCAT
Found at i:2235637 original size:28 final size:28
Alignment explanation
Indices: 2235551--2235639 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
2235541 GTTGGTGGCA
*
2235551 TTTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTTCCAGTCCTCAAAGAGCAGGATGCC
* * * ** *
2235579 -TTTCAAAGCCCACAAA-AGTTGG-TGGCA
1 TTTTC-CAGTCCTCAAAGAGCAGGAT-GCC
2235606 TTTTCCAGTCCTCAAAGAGCAGGATGCC
1 TTTTCCAGTCCTCAAAGAGCAGGATGCC
2235634 TTTTCC
1 TTTTCC
2235640 TTTTAAAGCC
Statistics
Matches: 43, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
27 18 0.42
28 24 0.56
29 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (28 bp):
TTTTCCAGTCCTCAAAGAGCAGGATGCC
Found at i:2235949 original size:264 final size:265
Alignment explanation
Indices: 2235474--2235954 Score: 783
Period size: 264 Copynumber: 1.8 Consensus size: 265
2235464 TTTCCTTTTA
* *
2235474 AAGCTCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGTAGGGCGCCTTTCAAAGCCCACAC
1 AAGCTCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAC
2235539 AAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAAAAGTTGGTGG
66 AAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAAAAGTTGGTGG
2235604 CATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
131 CATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
2235669 TTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAAAGCAGGATGCC
196 TTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAAAGCAGGATGCC
2235734 TTTCG
261 TTTCG
* * * * *
2235739 AAGC-CACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGATGCCTTTTAAATCCCACA
1 AAGCTCACACAAGTTGGTGGCA-CTTCCCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
* *
2235802 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTG
65 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAAAAGTTGGTG
*
2235867 GCATTTTTCAGTCCTCAAAGAGCAGGATG-C-TTTCTCTGTTTAAAGCCCACACAAGTTGGTGGC
130 GCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTC-CT-TTTAAAGCCCACACAAGTTGGTGGC
* *
2235930 A-CTTTTCAGTCTTCAAAGAGCAGGA
193 ACCTTCT-AGTCCTCAAAGAGCAGGA
2235955 TGCTTTCTTT
Statistics
Matches: 200, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
262 4 0.02
263 7 0.04
264 182 0.91
265 7 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (265 bp):
AAGCTCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAC
AAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAAAAGTTGGTGG
CATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
TTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAAAGCAGGATGCC
TTTCG
Found at i:2236007 original size:122 final size:115
Alignment explanation
Indices: 2235712--2236077 Score: 460
Period size: 122 Copynumber: 3.2 Consensus size: 115
2235702 TTCACCCTTT
* * * *
2235712 AGTCCTCAAAAAGCAGGATGCCTTTCGAAG-CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
*
2235776 GAGCAGGATG----C-CTTTTAAATCCCACACAAGTTGGTGGCA-TTTTCC
66 GAGCAGGATGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-C
**
2235821 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
2235886 GAGCAGGATGCTTTCTCTGTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
66 GAGCAGGATGCTTTCTCT-TTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
2235937 AGTCTTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGTAGGACGC---C--TTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* ** *
2236002 CTCAAAGGGCAGGACACCTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC
60 CTCAAAGAGCAGGA-TGCTTTCTCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTC
2236059 AGTCCTCAAAGAGTAGGAC
1 AGTCCTCAAAGAGTAGGAC
2236078 ACACTTCCTT
Statistics
Matches: 222, Mismatches: 19, Indels: 19
0.85 0.07 0.07
Matches are distributed among these distances:
109 26 0.12
110 42 0.19
114 1 0.00
115 2 0.01
116 44 0.20
117 4 0.02
119 1 0.00
121 6 0.03
122 92 0.41
123 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (115 bp):
AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGATGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:2236079 original size:61 final size:59
Alignment explanation
Indices: 2235734--2236076 Score: 409
Period size: 61 Copynumber: 5.9 Consensus size: 59
2235724 GCAGGATGCC
* * *
2235734 TTTCGAAG-CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGC---CT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAAGCTTTCT
* * *
2235789 TTT-AAATCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGTAGGACGC---C-
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGAAGCTTTCT
* *
2235843 TTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAAGCTTTCT
* * *
2235902 CTGTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGATGCTTTCTT
1 -T-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAAGCTTTC-T
* * *
2235964 TTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGGGCAGGACACCTTTTCT
1 TTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA-AGC-TTTCT
* *
2236026 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGA
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
2236077 CACACTTCCT
Statistics
Matches: 253, Mismatches: 21, Indels: 22
0.85 0.07 0.07
Matches are distributed among these distances:
54 8 0.03
55 84 0.33
56 4 0.02
58 1 0.00
60 3 0.01
61 143 0.57
62 6 0.02
63 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (59 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAAGCTTTCT
Found at i:2236141 original size:45 final size:42
Alignment explanation
Indices: 2236055--2236158 Score: 102
Period size: 45 Copynumber: 2.4 Consensus size: 42
2236045 TGGTGGCACT
* *
2236055 TTTCAGTCCTCAAAGAGTAGGACACACTTCCTTCCCTTCTTTTC
1 TTTC-GTCCTCAAAGAGCAGGACACACTTACTTCCCTTC-TTTC
* * * *
2236099 TCTTGTGTCCTCAAAGAGCAGGACGCACTTTATTTTCC-TCTTTC
1 T-TT-CGTCCTCAAAGAGCAGGACACAC-TTACTTCCCTTCTTTC
2236143 TTTCGTCCTCAAAGAG
1 TTTCGTCCTCAAAGAG
2236159 TAGAACGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
42 12 0.24
43 2 0.04
44 6 0.12
45 24 0.48
46 6 0.12
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (42 bp):
TTTCGTCCTCAAAGAGCAGGACACACTTACTTCCCTTCTTTC
Found at i:2238871 original size:52 final size:53
Alignment explanation
Indices: 2238814--2239148 Score: 190
Period size: 52 Copynumber: 6.4 Consensus size: 53
2238804 CAATTGTTCA
* *
2238814 TAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACTAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
* * * *
2238866 TAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTC-A
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
* * * * ** * * ** *
2238918 CAATCGAGGATATTCCAACCTCG---TTATTTCATCGGGGATACTCCAA--CCCCGT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTC--C--AAAAACACCAATTTTCCTT
* ** * * *** *
2238970 TACCTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGA-TTT-CTCA
1 TA-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCT-T
* * *
2239025 TAATCGGGGATACTCTAACCCCGGTTTTATTT-CTAAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
* * * *
2239077 TACTCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-A
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
* *
2239129 CAATCGAGGATACTCCAACC
1 TAATCGGGGATACTCCAACC
2239149 TCGTTATTTC
Statistics
Matches: 207, Mismatches: 57, Indels: 38
0.69 0.19 0.13
Matches are distributed among these distances:
49 7 0.03
51 31 0.15
52 98 0.47
53 41 0.20
54 6 0.03
55 2 0.01
56 16 0.08
58 3 0.01
59 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (53 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
Found at i:2239159 original size:31 final size:28
Alignment explanation
Indices: 2239131--2239207 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
2239121 ATTTTTCACA
*
2239131 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
2239159 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
2239187 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
2239208 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:2239175 original size:211 final size:211
Alignment explanation
Indices: 2238811--2239258 Score: 808
Period size: 211 Copynumber: 2.1 Consensus size: 211
2238801 TTCCAATTGT
*
2238811 TCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATCGGGGA
1 TCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
* *
2238876 TACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATATTCCAACCTCG
66 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCG
2238941 TTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTC
131 TTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTC
*
2239006 CCAAAATATTGATTTC
196 CCAAAATACTGATTTC
* * *
2239022 TCATAATCGGGGATACTCTAACCCCGGTTTTA-TTTCTAAAACACCAATTTTCCTTTACTCGGGG
1 TCATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTTTAATCGGGG
2239086 ATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTC
65 ATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTC
2239151 GTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATT
130 GTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATT
2239216 CCCAAAATACTGATTTC
195 CCCAAAATACTGATTTC
*
2239233 TCATAATTGGGGATACTCCAACCCCG
1 TCATAATCGGGGATACTCCAACCCCG
2239259 TTATTTCCGA
Statistics
Matches: 227, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
210 4 0.02
211 223 0.98
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (211 bp):
TCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCG
TTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTC
CCAAAATACTGATTTC
Found at i:2239273 original size:107 final size:107
Alignment explanation
Indices: 2238910--2239286 Score: 376
Period size: 107 Copynumber: 3.6 Consensus size: 107
2238900 AAAAACACCA
* * * * * *
2238910 ATTTTTCACAATCGAGGATATTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCT
1 ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCATAGGGGATACTCCAACCCCGTTACCT
*
2238975 CCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTG
66 CCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATACTG
* * * ** *
2239017 ATTTCTCATAATCGGGGATACTCTAACCCCGGTTTTATTTC-TA----AAACACCAATTTTCCTT
1 ATTTCTCATAATCGGGGATACTCCAACCCC-G--TTATTTCATAGGGGATACTCCAA--CCCCGT
* ** * * **
2239077 TA-CT-C--GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCA
61 TACCTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATACTG
* * * * *
2239121 ATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCT
1 ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCATAGGGGATACTCCAACCCCGTTACCT
2239186 CCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATACTG
66 CCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATACTG
* ** *
2239228 ATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCG
1 ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCATAGGGGATACTCCAACCCCG
2239287 ATTTTTATTC
Statistics
Matches: 208, Mismatches: 47, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
101 7 0.03
102 1 0.00
103 22 0.11
104 39 0.19
105 10 0.05
106 10 0.05
107 89 0.43
108 22 0.11
109 1 0.00
110 7 0.03
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (107 bp):
ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCATAGGGGATACTCCAACCCCGTTACCT
CCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATACTG
Found at i:2239310 original size:79 final size:79
Alignment explanation
Indices: 2239161--2239342 Score: 233
Period size: 79 Copynumber: 2.3 Consensus size: 79
2239151 GTTATTTCAT
**
2239161 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAC
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAC
* *
2239226 TGATTTCTCATAAT
66 TGATTTCTCAGAAC
* * ** * *
2239240 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTATTCCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG-GCTTTATTCCCAA-AAT
2239305 -C-GATTTCTCAGAAC
64 ACTGATTTCTCAGAAC
*
2239319 CGGGGATATTCCAACCCCGTTATT
1 CGGGGATACTCCAACCCCGTTATT
2239343 ATCTCCAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 76 0.85
80 11 0.12
81 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAC
TGATTTCTCAGAAC
Found at i:2242757 original size:22 final size:21
Alignment explanation
Indices: 2242722--2242771 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2242712 TTTGTTGATG
*
2242722 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
2242742 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
2242763 AATTTGAAG
1 ATTTTGAAG
2242772 AAGATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:2242768 original size:21 final size:22
Alignment explanation
Indices: 2242729--2242771 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2242719 ATGATTTTGA
* *
2242729 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
2242751 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
2242772 AAGATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:2242910 original size:13 final size:13
Alignment explanation
Indices: 2242880--2242918 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2242870 TAGTAACCCT
* *
2242880 TGTATCGATGCAA
1 TGTATCAATACAA
*
2242893 CGTATCAATACAA
1 TGTATCAATACAA
2242906 TGTATCAATACAA
1 TGTATCAATACAA
2242919 AAAATATTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:2246762 original size:32 final size:34
Alignment explanation
Indices: 2246721--2246807 Score: 108
Period size: 36 Copynumber: 2.6 Consensus size: 34
2246711 ACTATCTTTC
2246721 AAGGCTAAGATAGAAACCTC-C-CTATCTTTT-CA
1 AAGGCTAAGATAG-AACCTCTCTCTATCTTTTACA
**
2246753 CGGGCTAAGATAGAACCTTTCTCTCTATCTTTTACA
1 AAGGCTAAGATAGAACC--TCTCTCTATCTTTTACA
2246789 AAGGCTAAGATAGAACCTC
1 AAGGCTAAGATAGAACCTC
2246808 ACAATCACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 4 0.09
32 11 0.24
33 2 0.04
34 3 0.07
35 9 0.20
36 17 0.37
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (34 bp):
AAGGCTAAGATAGAACCTCTCTCTATCTTTTACA
Found at i:2247289 original size:13 final size:13
Alignment explanation
Indices: 2247265--2247306 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
2247255 GATACTATTC
*
2247265 ACAATATATCGAT
1 ACAATGTATCGAT
*
2247278 ACAGTGTATCGAT
1 ACAATGTATCGAT
2247291 ACAATGTATCGAT
1 ACAATGTATCGAT
2247304 ACA
1 ACA
2247307 TGAACAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:2250126 original size:20 final size:21
Alignment explanation
Indices: 2250101--2250156 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
2250091 TGCCAGTTTT
* *
2250101 ATGTATTGATACAATT-ATCC
1 ATGTATCGATACAATTGATAC
2250121 ATGTATCGATACAATTGATAC
1 ATGTATCGATACAATTGATAC
2250142 ATTGTATCGATACAA
1 A-TGTATCGATACAA
2250157 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 15 0.47
21 4 0.12
22 13 0.41
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACAATTGATAC
Found at i:2250543 original size:53 final size:53
Alignment explanation
Indices: 2250440--2250546 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 53
2250430 AATCTTTGTT
* * * * **
2250440 ATATCAAAACCAAGATCCTAATAGCTTCCTTGCTGTTTCCAGAATTAGAAACG
1 ATATCAAAACCAAAATCCTAACAGCATCCTTGCTGTCTCCAGAACCAGAAACG
* **
2250493 ATATCAAAACCAAAATCTTAACAGCATCCTTGCTGTCTGTAGAACCAGAAACG
1 ATATCAAAACCAAAATCCTAACAGCATCCTTGCTGTCTCCAGAACCAGAAACG
2250546 A
1 A
2250547 AATACTGTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (53 bp):
ATATCAAAACCAAAATCCTAACAGCATCCTTGCTGTCTCCAGAACCAGAAACG
Found at i:2252679 original size:22 final size:22
Alignment explanation
Indices: 2252635--2252680 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
2252625 TACGACGGTC
* * * *
2252635 AAAATTTTAAAATATTTTTGAA
1 AAAATCTTAAAAAATTCTCGAA
2252657 AAAATCTTAAAAAATTCTCGAA
1 AAAATCTTAAAAAATTCTCGAA
2252679 AA
1 AA
2252681 TAGAAAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (22 bp):
AAAATCTTAAAAAATTCTCGAA
Found at i:2254319 original size:10 final size:10
Alignment explanation
Indices: 2254304--2254363 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
2254294 TTCATATAGA
2254304 TTTTATTTAT
1 TTTTATTTAT
*
2254314 TTTTA-TTCT
1 TTTTATTTAT
* * *
2254323 TTTAAATTAG
1 TTTTATTTAT
2254333 TTTTATTTAT
1 TTTTATTTAT
2254343 TTTTACTTTTAT
1 TTTTA--TTTAT
2254355 TTTTATTTA
1 TTTTATTTA
2254364 AATTATATAG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
9 7 0.17
10 23 0.57
12 10 0.25
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:2255283 original size:21 final size:21
Alignment explanation
Indices: 2255257--2255297 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2255247 TCCTAAGCTT
2255257 TTATTATTTACTTTATTATTA
1 TTATTATTTACTTTATTATTA
* *
2255278 TTATTATTTAGTTTTTTATT
1 TTATTATTTACTTTATTATT
2255298 TATAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTATTATTTACTTTATTATTA
Found at i:2257078 original size:19 final size:16
Alignment explanation
Indices: 2257044--2257097 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
2257034 TTAGTTTGTT
* *
2257044 TTTTCATATTTTTTTA
1 TTTTCTTATTTATTTA
2257060 TTTTCAGGTTATTTATTTA
1 TTTTC---TTATTTATTTA
2257079 -TTTCTTATTTATTTA
1 TTTTCTTATTTATTTA
2257094 TTTT
1 TTTT
2257098 TGCTATGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 11 0.34
16 8 0.25
18 4 0.12
19 9 0.28
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.72
Consensus pattern (16 bp):
TTTTCTTATTTATTTA
Found at i:2257086 original size:15 final size:15
Alignment explanation
Indices: 2257068--2257096 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2257058 TATTTTCAGG
2257068 TTATTTATTTATTTC
1 TTATTTATTTATTTC
2257083 TTATTTATTTATTT
1 TTATTTATTTATTT
2257097 TTGCTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTATTTATTTC
Found at i:2258080 original size:13 final size:13
Alignment explanation
Indices: 2258062--2258086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2258052 ATTAAATTGA
2258062 AGCATAAATTTAT
1 AGCATAAATTTAT
2258075 AGCATAAATTTA
1 AGCATAAATTTA
2258087 GATTATGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
AGCATAAATTTAT
Found at i:2259373 original size:63 final size:63
Alignment explanation
Indices: 2259274--2259432 Score: 257
Period size: 63 Copynumber: 2.5 Consensus size: 63
2259264 ATCCATACAT
* * *
2259274 TGTATCGATATAATGTGCCATGTATTGATACAAACAGTGGTGGGGTAGCTACTGACAGTTTCA
1 TGTATCGATACAATGTGCCATGTATCGATACAAACAGTGGTAGGGTAGCTACTGACAGTTTCA
**
2259337 TGTATCGATACAATGTGCCATGTATCGATACAAACAGTGGTAGGGTAGCTACTTCCAGTTTCA
1 TGTATCGATACAATGTGCCATGTATCGATACAAACAGTGGTAGGGTAGCTACTGACAGTTTCA
2259400 TGTATCGATACAATTGTG-CATGTATCGATACAA
1 TGTATCGATACAA-TGTGCCATGTATCGATACAA
2259433 TGAATATGTA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
63 86 0.96
64 4 0.04
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (63 bp):
TGTATCGATACAATGTGCCATGTATCGATACAAACAGTGGTAGGGTAGCTACTGACAGTTTCA
Found at i:2259443 original size:19 final size:19
Alignment explanation
Indices: 2259398--2259453 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2259388 CTTCCAGTTT
**
2259398 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
2259418 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
2259437 TATGTATCCATACAATG
1 CATGTATCGATACAATG
2259454 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2267700 original size:33 final size:33
Alignment explanation
Indices: 2267658--2267720 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
2267648 TGGGATAATG
* * *
2267658 TATCGATACAATTTGTCATGTATCGATACAGTC
1 TATCGATACAATGTGCCATATATCGATACAGTC
2267691 TATCGATACAATGTGCCATATATCGATACA
1 TATCGATACAATGTGCCATATATCGATACA
2267721 AACAGTGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (33 bp):
TATCGATACAATGTGCCATATATCGATACAGTC
Found at i:2267805 original size:19 final size:19
Alignment explanation
Indices: 2267750--2267805 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2267740 CTGCCTGTTT
**
2267750 CATGTATCAATACAATTGTG
1 CATGTATCAATACAA-TGAA
* *
2267770 CATGTATCGATATAATGAA
1 CATGTATCAATACAATGAA
2267789 CATGTATCAATACAATG
1 CATGTATCAATACAATG
2267806 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCAATACAATGAA
Found at i:2269662 original size:13 final size:13
Alignment explanation
Indices: 2269644--2269669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2269634 CAATTTTTTG
2269644 TGTATCGATACAT
1 TGTATCGATACAT
2269657 TGTATCGATACAT
1 TGTATCGATACAT
2269670 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2269734 original size:21 final size:21
Alignment explanation
Indices: 2269708--2269783 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2269698 CTGCCAAGAA
2269708 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
2269729 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2269749 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2269770 ATGTATCGATACAT
1 ATGTATCGATACAT
2269784 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2269753 original size:20 final size:20
Alignment explanation
Indices: 2269728--2269801 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2269718 ACATCTTTTT
2269728 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
2269748 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
2269769 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
2269789 CATGTATCGATAC
1 CATGTATCGATAC
2269802 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:2269765 original size:41 final size:41
Alignment explanation
Indices: 2269708--2269801 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2269698 CTGCCAAGAA
2269708 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2269749 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2269790 ATGTATCGATAC
1 ATGTATCGATAC
2269802 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2272272 original size:13 final size:13
Alignment explanation
Indices: 2272254--2272291 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2272244 ATAATCACCC
2272254 TGTATCGATACAG
1 TGTATCGATACAG
*
2272267 TGTATCGATACAT
1 TGTATCGATACAG
2272280 TGTATCGATACA
1 TGTATCGATACA
2272292 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2272305 original size:20 final size:20
Alignment explanation
Indices: 2272280--2272356 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
2272270 ATCGATACAT
2272280 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
2272300 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
*
2272325 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
2272345 TGTATCGATACA
1 TGTATCGATACA
2272357 TTTTGGACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 30 0.64
25 16 0.34
26 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:2274392 original size:15 final size:15
Alignment explanation
Indices: 2274372--2274402 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2274362 ATTTCGTTTG
*
2274372 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2274387 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2274402 G
1 G
2274403 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2276235 original size:21 final size:21
Alignment explanation
Indices: 2276206--2276250 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2276196 AAGTTTTCAT
*
2276206 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2276226 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2276248 TTT
1 TTT
2276251 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2278494 original size:21 final size:21
Alignment explanation
Indices: 2278468--2278543 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2278458 CTGCCAAGAA
2278468 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
2278489 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2278509 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2278530 ATGTATCGATACAT
1 ATGTATCGATACAT
2278544 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Done.