Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold129
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: 3652842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 48564 characters in sequence are not A, C, G, or T
File 13 of 23
Found at i:1926341 original size:24 final size:24
Alignment explanation
Indices: 1926305--1926390 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1926295 CCTCCTCTCT
* *
1926305 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
1926329 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
1926350 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
1926371 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
1926391 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:1926365 original size:18 final size:18
Alignment explanation
Indices: 1926296--1926366 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1926286 CCTGTCATCC
* *
1926296 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1926314 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
1926336 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1926356 CTCCTGTCTCT
1 CTCCTGTCTCT
1926367 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1936262 original size:12 final size:12
Alignment explanation
Indices: 1936247--1936310 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
1936237 TCTATTATCT
1936247 CTCCTATCTCTC
1 CTCCTATCTCTC
1936259 CTCCTATCATC-C
1 CTCCTATC-TCTC
1936271 CTCC--TCTCTC
1 CTCCTATCTCTC
1936281 CT--T-TCTCTC
1 CTCCTATCTCTC
1936290 CTCCTATCATC-C
1 CTCCTATC-TCTC
1936302 CTCCTATCT
1 CTCCTATCT
1936311 TTTCTTCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
9 10 0.22
10 5 0.11
11 2 0.04
12 24 0.53
13 4 0.09
ACGTcount: A:0.09, C:0.50, G:0.00, T:0.41
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:1936262 original size:42 final size:43
Alignment explanation
Indices: 1936210--1936309 Score: 143
Period size: 42 Copynumber: 2.3 Consensus size: 43
1936200 CATCTTCTTC
1936210 TCTCTTCCTCCTATCATCCCTCCTCTCT-CTATTATCT-CTCCTA
1 TCTC-TCCTCCTATCATCCCTCCTCTCTCCT-TTATCTCCTCCTA
*
1936253 TCTCTCCTCCTATCATCCCTCCTCTCTCCTTTCTCTCCTCCTA
1 TCTCTCCTCCTATCATCCCTCCTCTCTCCTTTATCTCCTCCTA
1936296 TCATC-CCTCCTATC
1 TC-TCTCCTCCTATC
1936310 TTTTCTTCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
42 28 0.53
43 23 0.43
44 2 0.04
ACGTcount: A:0.10, C:0.48, G:0.00, T:0.42
Consensus pattern (43 bp):
TCTCTCCTCCTATCATCCCTCCTCTCTCCTTTATCTCCTCCTA
Found at i:1936282 original size:31 final size:31
Alignment explanation
Indices: 1936244--1936306 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
1936234 CTCTCTATTA
1936244 TCTCTCCTATCTCTCCTCCTATCATCCCTCC
1 TCTCTCCTATCTCTCCTCCTATCATCCCTCC
*
1936275 TCTCTCCTTTCTCTCCTCCTATCATCCCTCC
1 TCTCTCCTATCTCTCCTCCTATCATCCCTCC
1936306 T
1 T
1936307 ATCTTTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.08, C:0.51, G:0.00, T:0.41
Consensus pattern (31 bp):
TCTCTCCTATCTCTCCTCCTATCATCCCTCC
Found at i:1937078 original size:44 final size:44
Alignment explanation
Indices: 1937028--1937133 Score: 178
Period size: 44 Copynumber: 2.4 Consensus size: 44
1937018 AATGACCTGA
*
1937028 TAATGATCAGAATCAAATC-ATATAAAGATTCACTCTTGACATAT
1 TAATGATCAGAATCAAATCTA-ATAAAGATTCACTCTTGACACAT
*
1937072 TAATGATGAGAATCAAATCTAATAAAGATTCACTCTTGACACAT
1 TAATGATCAGAATCAAATCTAATAAAGATTCACTCTTGACACAT
1937116 TAATGATCAGAATCAAAT
1 TAATGATCAGAATCAAAT
1937134 GCTGGTTGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.30
Consensus pattern (44 bp):
TAATGATCAGAATCAAATCTAATAAAGATTCACTCTTGACACAT
Found at i:1937161 original size:9 final size:9
Alignment explanation
Indices: 1937146--1937211 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
1937136 TGGTTGTTTC
1937146 CTTTTTTTT
1 CTTTTTTTT
*
1937155 -GTTTTTTT
1 CTTTTTTTT
1937163 CTTTTTTTT
1 CTTTTTTTT
1937172 -TTGTATTCTTT
1 CTT-T-TT-TTT
*
1937183 CTTCTTTTT
1 CTTTTTTTT
1937192 CTTTTTTCCTT
1 CTTTTTT--TT
1937203 CTTTTTTTT
1 CTTTTTTTT
1937212 TGAAAAACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
8 9 0.20
9 19 0.41
10 4 0.09
11 12 0.26
12 2 0.04
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.82
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:1937172 original size:20 final size:20
Alignment explanation
Indices: 1937147--1937212 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 20
1937137 GGTTGTTTCC
*
1937147 TTTTTTTTGTTTTTTTC-TT
1 TTTTTTTTGTTTCTTTCTTT
1937166 TTTTTTTTGTATTCTTTCTTCT
1 TTTTTTTTGT-TTCTTTCTT-T
* *
1937188 TTTTCTTT-TTTCCTTCTTT
1 TTTTTTTTGTTTCTTTCTTT
1937207 TTTTTT
1 TTTTTT
1937213 GAAAAACTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 16 0.40
20 14 0.35
21 2 0.05
22 8 0.20
ACGTcount: A:0.02, C:0.12, G:0.03, T:0.83
Consensus pattern (20 bp):
TTTTTTTTGTTTCTTTCTTT
Found at i:1942316 original size:12 final size:11
Alignment explanation
Indices: 1942297--1942372 Score: 79
Period size: 12 Copynumber: 6.9 Consensus size: 11
1942287 AGAGAAAGAA
1942297 GAGATAGGAGG
1 GAGATAGGAGG
1942308 GATGATAGGAGG
1 GA-GATAGGAGG
1942320 AGAGATAGGA--
1 -GAGATAGGAGG
*
1942330 GAGATAGTA--
1 GAGATAGGAGG
1942339 GAGATAGGAGG
1 GAGATAGGAGG
1942350 GATGATAGGAGG
1 GA-GATAGGAGG
1942362 AGAGATAGGAG
1 -GAGATAGGAG
1942373 AGATAATAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
9 16 0.28
11 4 0.07
12 33 0.58
13 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1942331 original size:9 final size:9
Alignment explanation
Indices: 1942317--1942377 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
1942307 GGATGATAGG
1942317 AGGAGAGAT
1 AGGAGAGAT
1942326 AGGAGAGAT
1 AGGAGAGAT
*
1942335 AGTAGAGAT
1 AGGAGAGAT
*
1942344 AGGAGGGAT
1 AGGAGAGAT
* *
1942353 --GATAG-G
1 AGGAGAGAT
1942359 AGGAGAGAT
1 AGGAGAGAT
1942368 AGGAGAGAT
1 AGGAGAGAT
1942377 A
1 A
1942378 ATAGAGAGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 34 0.83
ACGTcount: A:0.43, C:0.00, G:0.44, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1942346 original size:42 final size:42
Alignment explanation
Indices: 1942287--1942405 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1942277 TAGCCCTCAA
* *
1942287 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1942329 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* * * *
1942371 AGAGATAATAGAGAGAGGAGGGATGACAAGAGGAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAG
1942406 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.44, C:0.01, G:0.45, T:0.11
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:1942381 original size:12 final size:12
Alignment explanation
Indices: 1942299--1942386 Score: 59
Period size: 12 Copynumber: 7.9 Consensus size: 12
1942289 AGAAAGAAGA
*
1942299 GATAGGAGGGAT
1 GATAGGAGAGAT
1942311 GATAGGAGGAGA-
1 GATAGGA-GAGAT
1942323 GATA-G-GAGA-
1 GATAGGAGAGAT
*
1942332 GATA-G-TAGA-
1 GATAGGAGAGAT
*
1942341 GATAGGAGGGAT
1 GATAGGAGAGAT
1942353 GATAGGAGGAGA-
1 GATAGGA-GAGAT
1942365 GATAGGAGAGAT
1 GATAGGAGAGAT
*
1942377 AATA-GAGAGA
1 GATAGGAGAGA
1942387 GGAGGGATGA
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
9 16 0.25
10 1 0.02
11 13 0.20
12 28 0.44
13 6 0.09
ACGTcount: A:0.42, C:0.00, G:0.44, T:0.14
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:1942389 original size:18 final size:19
Alignment explanation
Indices: 1942362--1942411 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
1942352 TGATAGGAGG
*
1942362 AGAGATAGGAGAGAT-A-A
1 AGAGAGAGGAGAGATGACA
*
1942379 TAGAGAGAGGAGGGATGACA
1 -AGAGAGAGGAGAGATGACA
1942399 AGAG-GAGGAGAGA
1 AGAGAGAGGAGAGA
1942412 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 21 0.78
19 5 0.19
20 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.44, T:0.08
Consensus pattern (19 bp):
AGAGAGAGGAGAGATGACA
Found at i:1949480 original size:12 final size:11
Alignment explanation
Indices: 1949458--1949533 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1949448 AGAGAAAGAA
*
1949458 GAGAGAGGAGG
1 GAGATAGGAGG
1949469 GATGATAGGAGG
1 GA-GATAGGAGG
*
1949481 AGAGACAGGA--
1 -GAGATAGGAGG
*
1949491 GAGATAGTA--
1 GAGATAGGAGG
1949500 GAGATAGGAGG
1 GAGATAGGAGG
1949511 GATGATAGGAGG
1 GA-GATAGGAGG
*
1949523 AGAGACAGGAG
1 -GAGATAGGAG
1949534 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1949490 original size:24 final size:24
Alignment explanation
Indices: 1949457--1949542 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1949447 AAGAGAAAGA
*
1949457 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1949481 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1949499 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1949523 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1949543 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1949509 original size:42 final size:42
Alignment explanation
Indices: 1949448--1949566 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1949438 TAGCCCTCAA
* *
1949448 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1949490 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1949532 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1949567 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1960320 original size:18 final size:19
Alignment explanation
Indices: 1960286--1960322 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1960276 TTTAAGCTAC
*
1960286 ATATTTATCTCAATAAATA
1 ATATTAATCTCAATAAATA
1960305 ATATTAATCT-AATAAATA
1 ATATTAATCTCAATAAATA
1960323 CAATTATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATTAATCTCAATAAATA
Found at i:1960328 original size:18 final size:17
Alignment explanation
Indices: 1960290--1960337 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
1960280 AGCTACATAT
1960290 TTATCTCAATAAATAATA
1 TTATCT-AATAAATAATA
1960308 TTAATCTAATAAATACA-A
1 TT-ATCTAATAAATA-ATA
1960326 TTATCTAA-AAAT
1 TTATCTAATAAAT
1960338 TATAAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.14
17 6 0.21
18 13 0.46
19 5 0.18
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (17 bp):
TTATCTAATAAATAATA
Found at i:1970757 original size:21 final size:20
Alignment explanation
Indices: 1970731--1970769 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1970721 TGACGCAAGT
1970731 TCATGAGATGTATTGATACCA
1 TCATGA-ATGTATTGATACCA
*
1970752 TCATGATTGTATTGATAC
1 TCATGAATGTATTGATAC
1970770 AGGCCTTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (20 bp):
TCATGAATGTATTGATACCA
Found at i:1976816 original size:42 final size:42
Alignment explanation
Indices: 1976769--1976876 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
1976759 TTCTTCTTTC
* *
1976769 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
1976811 CTCCTCCTATCATCCCTCCTAC-CTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCT-CTCTCTACTATCTCTCCTGTCT
1976853 CTCCTCCTATCATCCCTCCTCTCT
1 CTCCTCCTATCATCCCTCCTCTCT
1976877 TTTCTTTCTC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.09, C:0.48, G:0.03, T:0.40
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1976829 original size:24 final size:24
Alignment explanation
Indices: 1976793--1976872 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 24
1976783 CCTCCTCTCT
* *
1976793 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
1976817 CTATCATCCCTCCT-AC-CT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
1976838 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
1976859 CTATCATCCCTCCT
1 CTATCATCCCTCCT
1976873 CTCTTTTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.11
19 1 0.02
20 3 0.07
21 14 0.32
22 3 0.07
23 1 0.02
24 17 0.39
ACGTcount: A:0.11, C:0.46, G:0.03, T:0.40
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:1976862 original size:21 final size:21
Alignment explanation
Indices: 1976797--1976863 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
1976787 CTCTCTCTAT
1976797 TATCTCTCCTGTCTCTCCTCC
1 TATCTCTCCTGTCTCTCCTCC
1976818 TATCATC-CC--TC-CTACCTCTAC
1 TATC-TCTCCTGTCTCT-CCTC--C
1976839 TATCTCTCCTGTCTCTCCTCC
1 TATCTCTCCTGTCTCTCCTCC
1976860 TATC
1 TATC
1976864 ATCCCTCCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
18 2 0.05
19 6 0.16
20 2 0.05
21 18 0.47
22 2 0.05
23 6 0.16
24 2 0.05
ACGTcount: A:0.10, C:0.46, G:0.03, T:0.40
Consensus pattern (21 bp):
TATCTCTCCTGTCTCTCCTCC
Found at i:1980041 original size:91 final size:91
Alignment explanation
Indices: 1979881--1980050 Score: 218
Period size: 91 Copynumber: 1.9 Consensus size: 91
1979871 AAATCTTTCA
* * ** * ** * *
1979881 CTTTGGGGAAACTTCAACTGCACTACTCCTAGGGGATCCTTTAACCCTGTTCTTATAAGAAAACA
1 CTTTGGAGAAACTCCAACTGCACTACTCCTAAAGGATACTCGAACCCTGTTCTAATAAAAAAACA
1979946 CAAATTTTCTCTTTGTATAAGCTTTT
66 CAAATTTTCTCTTTGTATAAGCTTTT
1979972 CTTTGGAGAAACTCCAACCT-CACTACTCCTAAAGGATACTCGAACCCT-TTCTCAATAAAAAAA
1 CTTTGGAGAAACTCCAA-CTGCACTACTCCTAAAGGATACTCGAACCCTGTTCT-AATAAAAAAA
*
1980035 CTCAAATTTTCTCTTT
64 CACAAATTTTCTCTTT
1980051 TTTCTAAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
90 4 0.06
91 61 0.91
92 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (91 bp):
CTTTGGAGAAACTCCAACTGCACTACTCCTAAAGGATACTCGAACCCTGTTCTAATAAAAAAACA
CAAATTTTCTCTTTGTATAAGCTTTT
Found at i:1982521 original size:24 final size:24
Alignment explanation
Indices: 1982488--1982573 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1982478 AAGAGAAAGA
*
1982488 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1982512 AGAGACAGGA--GA-GATAGTA-G
1 AGAGACAGGAGGGATGATAGGAGG
*
1982532 AG-G-TAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1982554 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1982574 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
19 1 0.02
20 5 0.10
21 12 0.24
22 5 0.10
23 1 0.02
24 21 0.43
ACGTcount: A:0.41, C:0.02, G:0.47, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1982540 original size:42 final size:42
Alignment explanation
Indices: 1982488--1982597 Score: 177
Period size: 42 Copynumber: 2.6 Consensus size: 42
1982478 AAGAGAAAGA
*
1982488 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
1982530 AGAG-GTAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
1 AGAGAG-AGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
* *
1982572 AGAGAGAGGAGGGATGACACGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
1982598 GAAAGAAGAA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.47, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:1982569 original size:21 final size:21
Alignment explanation
Indices: 1982503--1982569 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
1982493 GAGGAGGGAT
1982503 GATAGGAGGAGAGACAGGAGA
1 GATAGGAGGAGAGACAGGAGA
1982524 GATAGTAGAGGTAG-G--AGG-GA
1 GATAG--GAGG-AGAGACAGGAGA
1982544 TGATAGGAGGAGAGACAGGAGA
1 -GATAGGAGGAGAGACAGGAGA
1982566 GATA
1 GATA
1982570 ATAGAGAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
18 2 0.05
19 5 0.13
20 2 0.05
21 20 0.53
22 2 0.05
23 5 0.13
24 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.46, T:0.10
Consensus pattern (21 bp):
GATAGGAGGAGAGACAGGAGA
Found at i:1989320 original size:12 final size:12
Alignment explanation
Indices: 1989290--1989362 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
1989280 AAGAGAAAGA
*
1989290 AGAGATAGTAGG
1 AGAGATAGGAGG
1989302 -GATGATAGGAGG
1 AGA-GATAGGAGG
1989314 AGAGAT---AGG
1 AGAGATAGGAGG
*
1989323 AGAGAT---AGT
1 AGAGATAGGAGG
1989332 AGAGATAGGAGG
1 AGAGATAGGAGG
1989344 -GATGATAGGAGG
1 AGA-GATAGGAGG
1989356 AGAGATA
1 AGAGATA
1989363 ATAGAGAGAG
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
9 17 0.33
11 4 0.08
12 26 0.51
13 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:1989323 original size:9 final size:9
Alignment explanation
Indices: 1989311--1989342 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
1989301 GGATGATAGG
1989311 AGGAGAGAT
1 AGGAGAGAT
1989320 AGGAGAGAT
1 AGGAGAGAT
*
1989329 AGTAGAGAT
1 AGGAGAGAT
1989338 AGGAG
1 AGGAG
1989343 GGATGATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1989337 original size:18 final size:18
Alignment explanation
Indices: 1989314--1989375 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
1989304 TGATAGGAGG
1989314 AGAGATAGGAGAGATAGT
1 AGAGATAGGAGAGATAGT
*
1989332 AGAGATAGGAGGGAT-GAT
1 AGAGATAGGAGAGATAG-T
*
1989350 AG-G--AGGAGAGATAAT
1 AGAGATAGGAGAGATAGT
*
1989365 AGAGAGAGGAG
1 AGAGATAGGAG
1989376 GGATGACAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
15 11 0.31
16 1 0.03
17 2 0.06
18 22 0.61
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.13
Consensus pattern (18 bp):
AGAGATAGGAGAGATAGT
Found at i:1989345 original size:42 final size:42
Alignment explanation
Indices: 1989281--1989362 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
1989271 TAGCCCTCAA
*
1989281 AGAGAAAGAAGAGATAGTAGGGATGATAGGAGGAGAGATAGG
1 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* *
1989323 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATA
1 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATA
1989363 ATAGAGAGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (42 bp):
AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:1989357 original size:33 final size:33
Alignment explanation
Indices: 1989320--1989387 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
1989310 GAGGAGAGAT
* * *
1989320 AGGAGAGATAGTAGAGATAGGAGGGATGATAGG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
1989353 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
1989386 AG
1 AG
1989388 AAGGAGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.01, G:0.46, T:0.12
Consensus pattern (33 bp):
AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
Found at i:2003071 original size:24 final size:23
Alignment explanation
Indices: 2003038--2003130 Score: 72
Period size: 24 Copynumber: 4.2 Consensus size: 23
2003028 AAGAGAAAGA
* *
2003038 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGAGATGATA-GAGG
*
2003062 AGAGACA-G-GAGA-GAT--AGT
1 AGAGACAGGAGAGATGATAGAGG
* *
2003080 AGAGATAGGAAAGATGATAGGAGG
1 AGAGACAGGAGAGATGATA-GAGG
*
2003104 AGAGACAGGAGAGATAATAGA-G
1 AGAGACAGGAGAGATGATAGAGG
2003126 AGAGA
1 AGAGA
2003131 AGGGAGGATA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
18 8 0.15
19 1 0.02
20 3 0.06
21 6 0.11
22 9 0.17
23 3 0.06
24 24 0.44
ACGTcount: A:0.45, C:0.02, G:0.43, T:0.10
Consensus pattern (23 bp):
AGAGACAGGAGAGATGATAGAGG
Found at i:2003141 original size:42 final size:42
Alignment explanation
Indices: 2003038--2003147 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 42
2003028 AAGAGAAAGA
* *
2003038 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGAAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
* *
2003080 AGAGATAGGAA-AGATGATAGGAGGAGAGACAGGAGAGATAAT
1 AGAGAGA-GAAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
2003122 AGAGAGAGAAGGGAGGATAGGAGGAG
1 AGAGAGAGAAGGGATGATAGGAGGAG
2003148 GAGAGAAGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.05
42 54 0.92
43 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.45, T:0.09
Consensus pattern (42 bp):
AGAGAGAGAAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:2008290 original size:202 final size:202
Alignment explanation
Indices: 2007894--2008293 Score: 561
Period size: 202 Copynumber: 2.0 Consensus size: 202
2007884 TTATCTAGAG
* ** ***
2007894 GCCAAGACTCTTGTGGTGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGCGCCATCCTTC
1 GCCAAGACTCTTATGGCAATCATTCCTTCCAGCTTATCAATCTTGTGATTGTGGCGCCATCCTTC
* * * *
2007959 ATCTCTAATCTATTCCATTTTGTTATTTTTTTCTGCTTCTTTCAAATTCTGTTCTTGCATCAATA
66 ATCTCTAATATATTCCATTTCGTTATTTTTTTCTACTTCTTTCAAATTCTGTTCTTGCATAAATA
* * * * * *
2008024 ATTCTGTTTATTGTTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTC
131 ATCCTGTTTATTGTTAGAAATCCATCTCAAGATCATTAATTAGACAACCATGGATCACGGTTGTC
2008089 ATCAATT
196 ATCAATT
*
2008096 GCCAAGACTCTTATGGCAATCATTCCTTCCAGCTTATCAATCTTGTGATTGTGGTGCCATCCTTC
1 GCCAAGACTCTTATGGCAATCATTCCTTCCAGCTTATCAATCTTGTGATTGTGGCGCCATCCTTC
* * *
2008161 ATCTCTATTATATTTCACTTTCGTTATTTTTTTCTACTTCTTTCAATTTCTGTTCTTGCA-AAAT
66 ATCTCTAATATATTCCA-TTTCGTTATTTTTTTCTACTTCTTTCAAATTCTGTTCTTGCATAAAT
* * *
2008225 AATCCTATTTTGTTGTTAGAAATCCATCTCAAGATCGTTAATTAGACAA-CATGGATCACGGTTG
130 AATCCT-GTTTATTGTTAGAAATCCATCTCAAGATCATTAATTAGACAACCATGGATCACGGTTG
2008289 TCATC
194 TCATC
2008294 GGATCTTAAG
Statistics
Matches: 173, Mismatches: 23, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
202 97 0.56
203 76 0.44
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (202 bp):
GCCAAGACTCTTATGGCAATCATTCCTTCCAGCTTATCAATCTTGTGATTGTGGCGCCATCCTTC
ATCTCTAATATATTCCATTTCGTTATTTTTTTCTACTTCTTTCAAATTCTGTTCTTGCATAAATA
ATCCTGTTTATTGTTAGAAATCCATCTCAAGATCATTAATTAGACAACCATGGATCACGGTTGTC
ATCAATT
Found at i:2009389 original size:29 final size:29
Alignment explanation
Indices: 2009273--2009824 Score: 411
Period size: 29 Copynumber: 19.7 Consensus size: 29
2009263 TTTCCAACCA
* *
2009273 CACCTTTTTTAAAGTCCACAACTCCGTGG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
** **
2009302 CA--CTGTTTCAAAG-CCATGACTCTATGG
1 CACCCT-TTTCAAAGTCCACAACTCCGTGG
* * * *
2009329 CACCCTTTT-AAAGTCCACGATTTCATGG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
* * *
2009357 CACCCTTTTCAAAGTCCACGACTCTGTGA
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
* *
2009386 CACCCTTTT-AATGT-C-C-A---CGCGG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
* ** **
2009408 CACCCTTCTT-AAAGTCTATGACTCTATGG
1 CACCCTT-TTCAAAGTCCACAACTCCGTGG
* ** * *
2009437 CACCCTTCTCAAAGTCCATGACTCCATAG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
* **
2009466 CACCCTTCTCAAAGTCCATGA-TGCCGTGG
1 CACCCTTTTCAAAGTCCACAACT-CCGTGG
2009495 CACCC-TTTCAAAGT-CACAACTCCGTGG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
2009522 CACCC-TTTCAAAGT-CACAACTCCGTGG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
2009549 CACCC-TTTCAAAGTCCACAACTCCGTGG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
* *
2009577 CATCCTTTTTCAAAGTCCACAACTTCGTGG
1 CA-CCCTTTTCAAAGTCCACAACTCCGTGG
** **
2009607 CATCATTTTTCAAAGTCCA-TGCT--GTGG
1 CA-CCCTTTTCAAAGTCCACAACTCCGTGG
*
2009634 CACCC-TTTCAAAGT-CACAACTCCATGG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
2009661 CACCC-TTTCAAAGTCCACAACTCCGTGG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
* *
2009689 CATCCTTTTTCAAAGTCCACAACTCCATGG
1 CA-CCCTTTTCAAAGTCCACAACTCCGTGG
* **
2009719 CATCCTTTTTCAAAGTCCACAACTTTGTGG
1 CA-CCCTTTTCAAAGTCCACAACTCCGTGG
* * * **
2009749 CACCCTTCTCAAAGTCCAAAAGTCAATGG
1 CACCCTTTTCAAAGTCCACAACTCCGTGG
* *
2009778 CAACCC-TTTCAAAGTTCACAACTCCATGG
1 C-ACCCTTTTCAAAGTCCACAACTCCGTGG
*
2009807 CA-CCTTTTTAAAG-CCACA
1 CACCCTTTTCAAAGTCCACA
2009825 CAAGTCAGTG
Statistics
Matches: 433, Mismatches: 64, Indels: 54
0.79 0.12 0.10
Matches are distributed among these distances:
22 9 0.02
23 6 0.01
24 2 0.00
25 12 0.03
26 3 0.01
27 97 0.22
28 81 0.19
29 128 0.30
30 95 0.22
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.28
Consensus pattern (29 bp):
CACCCTTTTCAAAGTCCACAACTCCGTGG
Found at i:2009592 original size:112 final size:112
Alignment explanation
Indices: 2009283--2009824 Score: 480
Period size: 112 Copynumber: 4.8 Consensus size: 112
2009273 CACCTTTTTT
** * ** * * *
2009283 AAAGTCCACAACTCCGTGGCACTGTTTCAAAGCCATGACTCTATGGCACCCTTTTAAAGTCCACG
1 AAAGT-CACAACTCCGTGGCACCCTTTCAAAGTCACAACTCCATGGCACCCTTTCAAAGTCCACA
* * * * * * *
2009348 ATTTCATGGCACCCTTTTCAAAGTCCACGACTCTGTGACA-CCCTTTT
65 ACTCCATGGCACCTTTTTCAAAGTCCACAACTCCGTGGCATCCCTTTC
* * * ** *
2009395 AATGTC-C-A---CGCGGCACCCTTCTTAAAGTCTATGACTCTATGGCACCCTTCTCAAAGTCCA
1 AAAGTCACAACTCCGTGGCACCCTT-TCAAAGTC-ACAACTCCATGGCACCCTT-TCAAAGTCCA
** * * * **
2009455 TGACTCCATAGCACCCTTCTCAAAGTCCATGA-TGCCGTGGCA-CCCTTTC
63 CAACTCCATGGCACCTTTTTCAAAGTCCACAACT-CCGTGGCATCCCTTTC
*
2009504 AAAGTCACAACTCCGTGGCACCCTTTCAAAGTCACAACTCCGTGGCACCCTTTCAAAGTCCACAA
1 AAAGTCACAACTCCGTGGCACCCTTTCAAAGTCACAACTCCATGGCACCCTTTCAAAGTCCACAA
* * **
2009569 CTCCGTGGCATCCTTTTTCAAAGTCCACAACTTCGTGGCATCATTTTTC
66 CTCCATGGCA-CCTTTTTCAAAGTCCACAACTCCGTGGCATC-CCTTTC
*
2009618 AAAGTC-C-A-TGCTGTGGCACCCTTTCAAAGTCACAACTCCATGGCACCCTTTCAAAGTCCACA
1 AAAGTCACAACT-CCGTGGCACCCTTTCAAAGTCACAACTCCATGGCACCCTTTCAAAGTCCACA
* * *
2009680 ACTCCGTGGCATCCTTTTTCAAAGTCCACAACTCCATGGCATCCTTTTTC
65 ACTCCATGGCA-CCTTTTTCAAAGTCCACAACTCCGTGGCATCC-CTTTC
** * * * *
2009730 AAAGTCCACAACTTTGTGGCACCCTTCTCAAAGTCCAAAAGTCAATGGCAACCCTTTCAAAGTTC
1 AAAGT-CACAACTCCGTGGCACCCTT-TCAAAGT-CACAACTCCATGGC-ACCCTTTCAAAGTCC
2009795 ACAACTCCATGGCACCTTTTT-AAAG-CCACA
62 ACAACTCCATGGCACCTTTTTCAAAGTCCACA
2009825 CAAGTCAGTG
Statistics
Matches: 363, Mismatches: 45, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
106 9 0.02
107 6 0.02
108 20 0.06
109 53 0.15
110 2 0.01
111 22 0.06
112 143 0.39
113 11 0.03
114 22 0.06
115 18 0.05
116 12 0.03
117 18 0.05
118 27 0.07
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.27
Consensus pattern (112 bp):
AAAGTCACAACTCCGTGGCACCCTTTCAAAGTCACAACTCCATGGCACCCTTTCAAAGTCCACAA
CTCCATGGCACCTTTTTCAAAGTCCACAACTCCGTGGCATCCCTTTC
Found at i:2009845 original size:32 final size:31
Alignment explanation
Indices: 2009745--2009996 Score: 214
Period size: 32 Copynumber: 8.2 Consensus size: 31
2009735 CCACAACTTT
*
2009745 GTGGC-ACCCTTCTCAAAGTCCA-A-AAGTCA
1 GTGGCAACCCTT-TCAAAGCCCACACAAGTCA
* ** *
2009774 ATGGCAACCCTTTCAAAG--TTCACAACTCCA
1 GTGGCAACCCTTTCAAAGCCCACACAAGT-CA
* *
2009804 -TGGC-ACCTTTTTAAAG-CCACACAAGTCA
1 GTGGCAACCCTTTCAAAGCCCACACAAGTCA
* **
2009832 GTGTCAACCCCTTTCAAAGCCCACACAAGTTG
1 GTGGCAA-CCCTTTCAAAGCCCACACAAGTCA
* * *
2009864 GTGGCAACCCTTTCAAAGCCCATATAAGTGA
1 GTGGCAACCCTTTCAAAGCCCACACAAGTCA
* *
2009895 GTGGTAACCCTTTCCAAAGCCAACACAAGTCA
1 GTGGCAACCCTTT-CAAAGCCCACACAAGTCA
* **
2009927 GTGGCAACCCTTTCCAAAGCCCATACAAGTTG
1 GTGGCAACCCTTT-CAAAGCCCACACAAGTCA
* *
2009959 GTGGCAACCCTCTCAAAAGCCCACACAAATCA
1 GTGGCAACCCTTTC-AAAGCCCACACAAGTCA
2009991 GTGGCA
1 GTGGCA
2009997 TCTTCTTCTA
Statistics
Matches: 178, Mismatches: 34, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
28 13 0.07
29 26 0.15
30 9 0.05
31 42 0.24
32 88 0.49
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (31 bp):
GTGGCAACCCTTTCAAAGCCCACACAAGTCA
Found at i:2010010 original size:95 final size:94
Alignment explanation
Indices: 2009816--2009994 Score: 261
Period size: 95 Copynumber: 1.9 Consensus size: 94
2009806 GCACCTTTTT
* *
2009816 AAAGCCACACAAGTCAGTGTCAACCCCTTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAA
1 AAAGCCACACAAGTCAGTGGCAACCCCTTTCAAAGCCCACACAAGTTGGTGGCAACCCTCTCAAA
* * * *
2009881 GCCCATATAAGTGAGTGGTAACCCTTTCC
66 GCCCACACAAATCAGTGGTAACCCTTTCC
*
2009910 AAAGCCAACACAAGTCAGTGGCAA-CCCTTTCCAAAGCCCATACAAGTTGGTGGCAACCCTCTCA
1 AAAGCC-ACACAAGTCAGTGGCAACCCCTTT-CAAAGCCCACACAAGTTGGTGGCAACCCTCTC-
2009974 AAAGCCCACACAAATCAGTGG
63 AAAGCCCACACAAATCAGTGG
2009995 CATCTTCTTC
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
94 12 0.16
95 46 0.61
96 17 0.23
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.18
Consensus pattern (94 bp):
AAAGCCACACAAGTCAGTGGCAACCCCTTTCAAAGCCCACACAAGTTGGTGGCAACCCTCTCAAA
GCCCACACAAATCAGTGGTAACCCTTTCC
Found at i:2010066 original size:59 final size:59
Alignment explanation
Indices: 2009995--2010131 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 59
2009985 AAATCAGTGG
* **
2009995 CATCTTCTTCTAAGCCCAAAGTTGTTGGCCTTGAATCAACACATTGGCAT-TTATCAAAC
1 CATCTCCTTCTAAGCCCAAAGTCATTGGCCTTGAATCAACACATTGGC-TCTTATCAAAC
* ** * *
2010054 CATCTCCTTCTAACCCCATTGTCATTGGCCTTGAATCAATACATTGGCTCTTATCCAAC
1 CATCTCCTTCTAAGCCCAAAGTCATTGGCCTTGAATCAACACATTGGCTCTTATCAAAC
2010113 CATCTCCTTCTAAGCCCAA
1 CATCTCCTTCTAAGCCCAA
2010132 TATCTTTAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
58 1 0.01
59 66 0.99
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (59 bp):
CATCTCCTTCTAAGCCCAAAGTCATTGGCCTTGAATCAACACATTGGCTCTTATCAAAC
Found at i:2020437 original size:19 final size:20
Alignment explanation
Indices: 2020395--2020444 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
2020385 ACACCTAAAT
*
2020395 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCATA
*
2020415 GTATCGATACATGTT-CATA
1 GTATCGATACATATTGCATA
2020434 GTATCGATACA
1 GTATCGATACA
2020445 CCTTGAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
GTATCGATACATATTGCATA
Found at i:2022099 original size:3 final size:3
Alignment explanation
Indices: 2022091--2022118 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2022081 TCAACCATCA
2022091 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
2022119 AGTTGACTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:2024595 original size:20 final size:19
Alignment explanation
Indices: 2024570--2024662 Score: 71
Period size: 20 Copynumber: 4.6 Consensus size: 19
2024560 TGCTAGTTTC
2024570 ATGTATCGATACAATTAGGT
1 ATGTATCGATAC-ATTAGGT
* * *
2024590 ATGTATCAATACAAT-GAGC
1 ATGTATCGATACATTAG-GT
2024609 ATGTATCGATACATTAGGCAT
1 ATGTATCGATACATTAGG--T
* *
2024630 AATGTATTGATACATATGGGT
1 -ATGTATCGATACAT-TAGGT
*
2024651 GTGTATCGATAC
1 ATGTATCGATAC
2024663 TTTCAAAGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
18 1 0.02
19 17 0.30
20 22 0.39
21 1 0.02
22 13 0.23
23 3 0.05
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACATTAGGT
Found at i:2024614 original size:19 final size:20
Alignment explanation
Indices: 2024569--2024621 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
2024559 CTGCTAGTTT
*
2024569 CATGTATCGATACAATTAGG
1 CATGTATCGATACAATGAGG
* *
2024589 TATGTATCAATACAATGA-G
1 CATGTATCGATACAATGAGG
2024608 CATGTATCGATACA
1 CATGTATCGATACA
2024622 TTAGGCATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGAGG
Found at i:2024629 original size:19 final size:19
Alignment explanation
Indices: 2024569--2024629 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
2024559 CTGCTAGTTT
2024569 CATGTATCGATACAATTAGG
1 CATGTATCGATAC-ATTAGG
* * *
2024589 TATGTATCAATACAAT-GAG
1 CATGTATCGATACATTAG-G
2024608 CATGTATCGATACATTAGG
1 CATGTATCGATACATTAGG
2024627 CAT
1 CAT
2024630 AATGTATTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 1 0.03
19 20 0.61
20 12 0.36
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACATTAGG
Found at i:2025522 original size:33 final size:33
Alignment explanation
Indices: 2025476--2025542 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
2025466 CGTTGGGCAT
* *
2025476 AATGTATCGATACAATTCTTC-ATGTATCGATAC
1 AATGTATCAATAC-ATTCTCCTATGTATCGATAC
*
2025509 AATGTATCAATACATTGTCCTATGTATCGATAC
1 AATGTATCAATACATTCTCCTATGTATCGATAC
2025542 A
1 A
2025543 TTTCACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
AATGTATCAATACATTCTCCTATGTATCGATAC
Found at i:2025611 original size:13 final size:13
Alignment explanation
Indices: 2025593--2025617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2025583 CAATTGGGTA
2025593 TGTATCGATACAT
1 TGTATCGATACAT
2025606 TGTATCGATACA
1 TGTATCGATACA
2025618 AGGCATAATG
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):
TGTATCGATACAT
Found at i:2030660 original size:43 final size:43
Alignment explanation
Indices: 2030602--2030683 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
2030592 CGTTTTTGCT
*
2030602 ATAACAAAAAAGGGGGAGAAGTATTTTGCAAATAAATTTGGGGG
1 ATAACAAAAAAGGGGGAGAAGTAATTTGC-AATAAATTTGGGGG
*
2030646 ATAAC-AAAAAGGGGGAGAAGTAATTTGCAATATATTTG
1 ATAACAAAAAAGGGGGAGAAGTAATTTGCAATAAATTTG
2030684 TTTTAGAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 9 0.25
43 22 0.61
44 5 0.14
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (43 bp):
ATAACAAAAAAGGGGGAGAAGTAATTTGCAATAAATTTGGGGG
Found at i:2033382 original size:23 final size:22
Alignment explanation
Indices: 2033339--2033387 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
2033329 AGTAAAACAA
**
2033339 AAAATAACGAACAAATTTACAC
1 AAAATAACGAACAAAAATACAC
* *
2033361 AAAATAAACGCACAAAAATACAT
1 AAAAT-AACGAACAAAAATACAC
2033384 AAAA
1 AAAA
2033388 AGAAGGGACG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.65, C:0.16, G:0.04, T:0.14
Consensus pattern (22 bp):
AAAATAACGAACAAAAATACAC
Found at i:2033836 original size:79 final size:78
Alignment explanation
Indices: 2033586--2034037 Score: 453
Period size: 78 Copynumber: 5.7 Consensus size: 78
2033576 TCCTCTGAAT
* * * ** * **
2033586 ATGGGGTTGGAGTA-CCCTATCGAAAATAACAGGGTTAGAGTATCCTTGAGATAAAAAAAATTAA
1 ATGGGGTTGGAGTATCCC-CTCGAAAATAACGGGGTTGGAGTA-CCCCGAGAT-GAAAATTTTAA
*
2033650 TATTTTGAAAATAAAA
63 TATTTCGAAAATAAAA
* * ** * * *
2033666 ATGGGGTTGGAGTATCCCCTTGGAAATAATAGGGTTAGAGTATCCCAAGATGAAAATTTTAATAT
1 ATGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTACCCCGAGATGAAAATTTTAATA-
2033731 TTTC-AAAATAAAA
65 TTTCGAAAATAAAA
*
2033744 ATGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTACCCTCGAGATGAAAATTTTAATA
1 ATGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTACCC-CGAGATGAAAATTTTAATA
2033809 TTTCGAAAATAAAA
65 TTTCGAAAATAAAA
* * * * * * *
2033823 ACGAGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTACCCCTAAGTTGAAATTTTTAATA
1 ATGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTACCCC-GAGATGAAAATTTTAATA
2033888 TTTCGAAAATAAAAA
65 TTTCGAAAAT-AAAA
* * * * * *
2033903 AGGGGGTTGGAGTATCTCCTAGGAAATAACGGGGTTGGAGTATCCCCGTGATGAAAAATTTAAT-
1 ATGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTA-CCCCGAGATGAAAATTTTAATA
* *
2033967 TTTTGGAAATAAAA
65 TTTCGAAAATAAAA
* * ** *
2033981 ATAGGGTTAGAGTATCCTTTCGAAAATAACGGGGTTGGATTATCCCC-ATGATGAAAA
1 ATGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTA-CCCCGA-GATGAAAA
2034038 ATTCGATATC
Statistics
Matches: 312, Mismatches: 52, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
78 112 0.36
79 108 0.35
80 85 0.27
81 7 0.02
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (78 bp):
ATGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTACCCCGAGATGAAAATTTTAATAT
TTCGAAAATAAAA
Found at i:2034015 original size:158 final size:156
Alignment explanation
Indices: 2033588--2034037 Score: 489
Period size: 158 Copynumber: 2.8 Consensus size: 156
2033578 CTCTGAATAT
* * ** * *
2033588 GGGGTTGGAGTA-CCCTATCGAAAATAACAGGGTTAGAGTATCCTTGAGATAAAAAAAATTAATA
1 GGGGTTGGAGTATCCCTA--GAAAATAACGGGGTTGGAGTATCCCCGAGAT-GAAAAATTTAATA
* * * * *
2033652 TTTTGAAAATAAAAATGGGGTTGGAGTATCCCCTT-GGAAATAATAGGGTTAGAGTATCCCAAGA
63 TTTTGAAAATAAAAATAGGGTTGGAGTAT-CCCTTCGAAAATAATGGGGTTGGAGTACCCCAAGA
*
2033716 TGAAAATTTTAATATTTTCAAAATAAAAAT
127 TGAAAATTTTAATATTTTCAAAATAAAAAG
* * *
2033746 GGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTA-CCCTCGAGATGAAAATTTTAATAT
1 GGGGTTGGAGTAT-CCCTAGAAAATAACGGGGTTGGAGTATCCC-CGAGATGAAAAATTTAATAT
* * * * *
2033810 TTCGAAAATAAAAA-CGAGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTACCCCTAAGT
64 TTTGAAAATAAAAATAG-GGTTGGAGTATCCCTTCGAAAATAATGGGGTTGGAGTACCCC-AAGA
*
2033874 TGAAATTTTTAATA-TTTCGAAAATAAAAAAG
127 TGAAAATTTTAATATTTTC-AAAAT-AAAAAG
* *
2033905 GGGGTTGGAGTATCTCCTAGGAAATAACGGGGTTGGAGTATCCCCGTGATGAAAAATTTAAT-TT
1 GGGGTTGGAGTATC-CCTAGAAAATAACGGGGTTGGAGTATCCCCGAGATGAAAAATTTAATATT
* * * * * *
2033969 TTGGAAATAAAAATAGGGTTAGAGTATCCTTTCGAAAATAACGGGGTTGGATTATCCCCATGATG
65 TTGAAAATAAAAATAGGGTTGGAGTATCCCTTCGAAAATAATGGGGTTGGAGTA-CCCCAAGATG
2034034 AAAA
129 AAAA
2034038 ATTCGATATC
Statistics
Matches: 243, Mismatches: 37, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
156 5 0.02
157 61 0.25
158 109 0.45
159 61 0.25
160 7 0.03
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (156 bp):
GGGGTTGGAGTATCCCTAGAAAATAACGGGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTT
TGAAAATAAAAATAGGGTTGGAGTATCCCTTCGAAAATAATGGGGTTGGAGTACCCCAAGATGAA
AATTTTAATATTTTCAAAATAAAAAG
Found at i:2034038 original size:78 final size:79
Alignment explanation
Indices: 2033589--2034040 Score: 441
Period size: 79 Copynumber: 5.7 Consensus size: 79
2033579 TCTGAATATG
* * * *** * *
2033589 GGGTTGGAGTA-CCCTATCGAAAATAACAGGGTTAGAGTATCCTTGAGATAAAAAAAATTAATAT
1 GGGTTGGAGTATCCC-CTCGAAAATAACGGGGTTGGAGTATCCCCAAGAT-GAAAAATTTAATAT
*
2033653 TTTGAAAATAAAAATG
64 TTTGAAAATAAAAATA
* * ** * *
2033669 GGGTTGGAGTATCCCCTTGGAAATAATAGGGTTAGAGTAT-CCCAAGATGAAAATTTTAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTT
* *
2033733 TCAAAATAAAAATG
66 TGAAAATAAAAATA
* * *
2033747 GGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTA-CCCTCGAGATGAAAATTTTAATATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC-CAAGATGAAAAATTTAATATT
* *
2033811 TCGAAAATAAAAA-C
65 TTGAAAATAAAAATA
* * * **
2033825 GAGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTA-CCCCTAAGTTGAAATTTTTAATAT
1 G-GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC-AAGATGAAAAATTTAATAT
*
2033889 TTCGAAAATAAAAA-A
64 TTTGAAAATAAAAATA
* * * **
2033904 GGGGGTTGGAGTATCTCCTAGGAAATAACGGGGTTGGAGTATCCCCGTGATGAAAAATTTAAT-T
1 --GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATAT
*
2033968 TTTGGAAATAAAAATA
64 TTTGAAAATAAAAATA
* ** * *
2033984 GGGTTAGAGTATCCTTTCGAAAATAACGGGGTTGGATTATCCCCATGATGAAAAATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAAGATGAAAAATT
2034041 CGATATCATA
Statistics
Matches: 315, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
78 112 0.36
79 117 0.37
80 78 0.25
81 8 0.03
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTT
TGAAAATAAAAATA
Found at i:2036509 original size:52 final size:51
Alignment explanation
Indices: 2036429--2036562 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 51
2036419 AGCTTGCATT
* * * *
2036429 TATCGATACATTGAAG-ATGTATCAATACATTTGGGTCAAAAATCCAGAATG
1 TATCGATACAATGAAGAATGAATCGATACATTTGGGTC-AAAACCCAGAATG
*
2036480 TATTGATACAATGAAGAATGAATCGATACATTTGGGTCAAAACCCAGAATG
1 TATCGATACAATGAAGAATGAATCGATACATTTGGGTCAAAACCCAGAATG
* * * *
2036531 TATCGATACAATAAAAAATGCACCGATACATT
1 TATCGATACAATGAAGAATGAATCGATACATT
2036563 ACAAGCATGA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 53 0.74
52 19 0.26
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (51 bp):
TATCGATACAATGAAGAATGAATCGATACATTTGGGTCAAAACCCAGAATG
Found at i:2040237 original size:12 final size:11
Alignment explanation
Indices: 2040218--2040293 Score: 70
Period size: 12 Copynumber: 6.9 Consensus size: 11
2040208 AGAGAAAGAA
2040218 GAGATAGGAGG
1 GAGATAGGAGG
2040229 GATGATAGGAGG
1 GA-GATAGGAGG
2040241 AGAGATAGGA--
1 -GAGATAGGAGG
*
2040251 GAGATAGTA--
1 GAGATAGGAGG
2040260 GAGATAGGAGG
1 GAGATAGGAGG
*
2040271 GATGATAGGAGAA
1 GA-GATAGGAG-G
2040284 GAGATAGGAG
1 GAGATAGGAG
2040294 AGATAATAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
9 16 0.29
11 4 0.07
12 32 0.57
13 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.46, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2040252 original size:9 final size:9
Alignment explanation
Indices: 2040238--2040298 Score: 59
Period size: 9 Copynumber: 6.1 Consensus size: 9
2040228 GGATGATAGG
2040238 AGGAGAGAT
1 AGGAGAGAT
2040247 AGGAGAGAT
1 AGGAGAGAT
*
2040256 AGTAGAGAT
1 AGGAGAGAT
2040265 AGGAGGGATGAT
1 AGGA--GA-GAT
2040277 AGGAGAAGAGAT
1 A-G-G-AGAGAT
2040289 AGGAGAGAT
1 AGGAGAGAT
2040298 A
1 A
2040299 ATAGAGAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
9 27 0.61
10 1 0.02
11 3 0.07
12 8 0.18
13 3 0.07
14 1 0.02
15 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:2040264 original size:18 final size:18
Alignment explanation
Indices: 2040241--2040311 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 18
2040231 TGATAGGAGG
2040241 AGAGATAGGAGAGATAGT
1 AGAGATAGGAGAGATAGT
*
2040259 AGAGATAGGAGGGATGATAGGAGA
1 AGAGATAGGA--GA-GAT---AGT
*
2040283 AGAGATAGGAGAGATAAT
1 AGAGATAGGAGAGATAGT
*
2040301 AGAGAGAGGAG
1 AGAGATAGGAG
2040312 GGATGACAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
18 21 0.49
20 2 0.05
21 6 0.14
22 2 0.05
24 12 0.28
ACGTcount: A:0.45, C:0.00, G:0.42, T:0.13
Consensus pattern (18 bp):
AGAGATAGGAGAGATAGT
Found at i:2040267 original size:42 final size:42
Alignment explanation
Indices: 2040208--2040326 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
2040198 TAGCCCTCAA
* *
2040208 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
*
2040250 AGAGATAGTAGAGATAGGAGGGATGATAGGAGAAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* * *
2040292 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAG
2040327 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.01, G:0.45, T:0.11
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:2040302 original size:12 final size:12
Alignment explanation
Indices: 2040220--2040307 Score: 59
Period size: 12 Copynumber: 7.9 Consensus size: 12
2040210 AGAAAGAAGA
*
2040220 GATAGGAGGGAT
1 GATAGGAGAGAT
2040232 GATAGGAGGAGA-
1 GATAGGA-GAGAT
2040244 GATA-G-GAGA-
1 GATAGGAGAGAT
*
2040253 GATA-G-TAGA-
1 GATAGGAGAGAT
*
2040262 GATAGGAGGGAT
1 GATAGGAGAGAT
2040274 GATAGGAGAAGA-
1 GATAGGAG-AGAT
2040286 GATAGGAGAGAT
1 GATAGGAGAGAT
*
2040298 AATA-GAGAGA
1 GATAGGAGAGA
2040308 GGAGGGATGA
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
9 16 0.25
10 1 0.02
11 12 0.19
12 30 0.47
13 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:2042909 original size:12 final size:11
Alignment explanation
Indices: 2042890--2042959 Score: 69
Period size: 12 Copynumber: 6.5 Consensus size: 11
2042880 AGAGAAAGAA
2042890 GAGATAGGAGG
1 GAGATAGGAGG
2042901 GATGATAGGAGG
1 GA-GATAGGAGG
2042913 AGAGATAGGA--
1 -GAGATAGGAGG
*
2042923 GAGATAGTA--
1 GAGATAGGAGG
2042932 GAGATAGGAGG
1 GAGATAGGAGG
2042943 GATGATAGGA-G
1 GA-GATAGGAGG
2042954 GAGATA
1 GAGATA
2042960 ATAAAGAGAG
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
9 16 0.31
10 4 0.08
11 7 0.13
12 23 0.44
13 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.46, T:0.14
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2042924 original size:9 final size:9
Alignment explanation
Indices: 2042910--2042941 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2042900 GGATGATAGG
2042910 AGGAGAGAT
1 AGGAGAGAT
2042919 AGGAGAGAT
1 AGGAGAGAT
*
2042928 AGTAGAGAT
1 AGGAGAGAT
2042937 AGGAG
1 AGGAG
2042942 GGATGATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:2042968 original size:42 final size:41
Alignment explanation
Indices: 2042878--2042968 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 41
2042868 AGTAGCCCTC
*
2042878 AAAGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGAT
1 AAAGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAAAT
* * *
2042919 AGGAGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGATAAT
1 A-AAGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGA-AAT
2042962 AAAGAGA
1 AAAGAGA
2042969 GGAGGGATGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.02
42 39 0.91
43 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (41 bp):
AAAGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAAAT
Found at i:2042972 original size:31 final size:31
Alignment explanation
Indices: 2042907--2042987 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
2042897 GAGGGATGAT
* * *
2042907 AGGAGGAGA-GATAGGA-GAGATAGTAGAGAT
1 AGGAGG-GATGATAGGAGGAGATAATAAAGAG
2042937 AGGAGGGATGATAGGAGGAGATAATAAAGAG
1 AGGAGGGATGATAGGAGGAGATAATAAAGAG
*
2042968 AGGAGGGATGACAGGAGGAG
1 AGGAGGGATGATAGGAGGAG
2042988 GAGAGAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 2 0.04
30 13 0.29
31 30 0.67
ACGTcount: A:0.42, C:0.01, G:0.46, T:0.11
Consensus pattern (31 bp):
AGGAGGGATGATAGGAGGAGATAATAAAGAG
Found at i:2047895 original size:17 final size:17
Alignment explanation
Indices: 2047859--2047893 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
2047849 TCTTTGCTGG
2047859 TTTGTCCAACCTCTTTT
1 TTTGTCCAACCTCTTTT
2047876 TTTG-CCAA-CTCTTTT
1 TTTGTCCAACCTCTTTT
2047891 TTT
1 TTT
2047894 TTTTTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.11, C:0.26, G:0.06, T:0.57
Consensus pattern (17 bp):
TTTGTCCAACCTCTTTT
Found at i:2047902 original size:23 final size:22
Alignment explanation
Indices: 2047872--2047915 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
2047862 GTCCAACCTC
2047872 TTTTTTTGCCAACTCTTTTTTTT
1 TTTTTTTGCCAAC-CTTTTTTTT
2047895 TTTTTTTGCCAACCTTTTTTT
1 TTTTTTTGCCAACCTTTTTTT
2047916 GAAATGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.09, C:0.18, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTTTTGCCAACCTTTTTTTT
Found at i:2047915 original size:16 final size:18
Alignment explanation
Indices: 2047859--2047894 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
2047849 TCTTTGCTGG
2047859 TTTGTCCAAC-CTCTTTT
1 TTTGTCCAACTCTCTTTT
2047876 TTTG-CCAACTCT-TTTT
1 TTTGTCCAACTCTCTTTT
2047892 TTT
1 TTT
2047895 TTTTTTTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.11, C:0.25, G:0.06, T:0.58
Consensus pattern (18 bp):
TTTGTCCAACTCTCTTTT
Found at i:2050201 original size:159 final size:156
Alignment explanation
Indices: 2049971--2050537 Score: 527
Period size: 159 Copynumber: 3.6 Consensus size: 156
2049961 CCCAATCAAC
* * * * * * * * *
2049971 AAAAGAATGGAGATTATCACAAGAATCTATGTTCGTCTCAATTGAATGACACACTTTGATTATTG
1 AAAAGAATGGAGATTATTACAAGAATCTATGTTCATCTCATTTGAAGGATAAACATTAATTA-AG
* *
2050036 GAAAAATGGTGGAAAGAAAAGTTTTTCTTGTGAAA-CAAAAACATCATTATCATGTATCCTAATG
65 G-AAAATGGTGGAAAGAAAAGCTTTTCTTGTGAAAGC-AAAACATCAATATCATGTATCCTAATG
* *
2050100 AGGAAAACGTGTTTTCATTGCCAAAT-ATCA
128 A-GAAAATGTGTTTTCGTTGCCAAATAAT-A
*
2050130 AAAAGAATGGAGATTATTGCAAGAATCTATGTTCATCTCATTTGAAGGATAAACATTAAGTCTAA
1 AAAAGAATGGAGATTATTACAAGAATCTATGTTCATCTCATTTGAAGGATAAACATTAA-T-TAA
* *** * * * * *
2050195 GGAAAATAGCAAAAAGAAAAGCTTTTCTTGTGAAATCCAAGCATCAATATCATGTATCCCAATCA
64 GGAAAATGGTGGAAAGAAAAGCTTTTCTTGTGAAAGCAAAACATCAATATCATGTATCCTAATGA
* * * *
2050260 AAAGAATGTGTTTTTGTTGCCAAATCATG
129 GAA-AATGTGTTTTCGTTGCCAAATAATA
* ** * * * * *
2050289 AAAAGAATAGAGATTATTATGAGAATCCATGTTTATCTTATTTGAGGGATGAACATTAATTCTAA
1 AAAAGAATGGAGATTATTACAAGAATCTATGTTCATCTCATTTGAAGGATAAACATTAA-T-TAA
* * * * *
2050354 GGCAAATGGTGGAAAGAAAATCTTTTCTTGCGAAAGCACAACATCAAAATCATGTATCCTAATGA
64 GGAAAATGGTGGAAAGAAAAGCTTTTCTTGTGAAAGCAAAACATCAATATCATGTATCCTAATGA
* * *
2050419 TGAGAATGTGTTTTCGTTACCAAATAATT
129 -GAAAATGTGTTTTCGTTGCCAAATAATA
* * * * *
2050448 ATAAGAACGGAGATTATTACGAGAATCCATAT-TTC-TCTCATTTGAGGGAT-AATATT--TTAA
1 AAAAGAATGGAGATTATTACAAGAAT-C-TATGTTCATCTCATTTGAAGGATAAACATTAATTAA
*
2050508 GGAAAATGGTGGAAAGAAAAGCTTGTCTTG
64 GGAAAATGGTGGAAAGAAAAGCTTTTCTTG
2050538 CTAAACCCAA
Statistics
Matches: 334, Mismatches: 66, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
154 30 0.09
155 1 0.00
158 7 0.02
159 282 0.84
160 10 0.03
161 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (156 bp):
AAAAGAATGGAGATTATTACAAGAATCTATGTTCATCTCATTTGAAGGATAAACATTAATTAAGG
AAAATGGTGGAAAGAAAAGCTTTTCTTGTGAAAGCAAAACATCAATATCATGTATCCTAATGAGA
AAATGTGTTTTCGTTGCCAAATAATA
Found at i:2050243 original size:318 final size:314
Alignment explanation
Indices: 2049813--2050578 Score: 705
Period size: 318 Copynumber: 2.4 Consensus size: 314
2049803 CTCAATGAGG
* *** * * *
2049813 AAAAGAATGGAGATTATTATGGGAATGCAT-TTT-ATCTCATTTCAAGGATAAACTTTGATTCTA
1 AAAAGAACGGAGATTATTACAAGAATCCATATTTCATCTCATTTGAAGGATAAACATT-A-TCTA
** * ** * * *
2049876 AGGAAAATA-CTAGAAAGAAAAAATTTTGTTACAAATCCAAAGAATCAATATTGTATATCCCAAT
64 AGGAAAATAGC-AGAAAGAAAAGCTTTTCTTGTAAATCC-AAGCATCAATATTATGTATCCCAAT
* * * *
2049940 GAGGAGAACATGTTGTTGTTTCCCAATCAACAAAAGAATGGAGATTATCACAAGAATCTATGTTC
127 GAGGAGAACATGTTGTTGTTGCCAAATCAACAAAAGAATAGAGATTATCACAAGAATCCATGTTC
* * * *
2050005 GTCTCAATTGA-ATGACACACTTTGATTAT-TGGAAAAATGGTGGAAAGAAAAGT-TTTTCTTGT
192 ATCTCAATTGAGATGA-ACA--TTAATTATAAGG-AAAATGGTGGAAAGAAAA-TCTTTTCTTGC
** *
2050067 GAAA-CAAAAACATCATTATCATGTATCCTAATGAGGAAAACGTGTTTTCATTGCCAAAT-ATCA
252 GAAAGC-AAAACATCAAAATCATGTATCCTAATGAGGAAAACGTGTTTTCATTACCAAATAAT-A
* *
2050130 AAAAGAATGGAGATTATTGCAAGAAT-C-TATGTTCATCTCATTTGAAGGATAAACATTAAGTCT
1 AAAAGAACGGAGATTATTACAAGAATCCATAT-TTCATCTCATTTGAAGGATAAACATT-A-TCT
* *
2050193 AAGGAAAATAGCAAAAAGAAAAGCTTTTCTTGTGAAATCCAAGCATCAATATCATGTATCCCAAT
63 AAGGAAAATAGCAGAAAGAAAAGCTTTTCTTGT-AAATCCAAGCATCAATATTATGTATCCCAAT
* ** ** * ** * ** *
2050258 CAAAAGAATGTGTTTTTGTTGCCAAATCATGAAAAGAATAGAGATTATTATGAGAATCCATGTTT
127 GAGGAGAACATGTTGTTGTTGCCAAATCAACAAAAGAATAGAGATTATCACAAGAATCCATGTTC
* * * *
2050323 ATCTTATTTGAGGGATGAACATTAATTCTAAGGCAAATGGTGGAAAGAAAATCTTTTCTTGCGAA
192 ATCTCAATTGA--GATGAACATTAATTATAAGGAAAATGGTGGAAAGAAAATCTTTTCTTGCGAA
* * * * * *
2050388 AGCACAACATCAAAATCATGTATCCTAATGATGAGAATGTGTTTTCGTTACCAAATAATT
255 AGCAAAACATCAAAATCATGTATCCTAATGAGGAAAACGTGTTTTCATTACCAAATAATA
* * * *
2050448 ATAAGAACGGAGATTATTACGAGAATCCATATTTC-TCTCATTTGAGGGAT-AATATT-T-TAAG
1 AAAAGAACGGAGATTATTACAAGAATCCATATTTCATCTCATTTGAAGGATAAACATTATCTAAG
* ** * * * *
2050509 GAAAATGGTGGAAAGAAAAGCTTGTCTTGCTAAACCCAAGCTTTAATATTATGTATCCCAATGAG
66 GAAAATAGCAGAAAGAAAAGCTTTTCTTG-TAAATCCAAGCATCAATATTATGTATCCCAATGAG
2050574 GAGAA
130 GAGAA
2050579 TACATAAGAA
Statistics
Matches: 365, Mismatches: 69, Indels: 34
0.78 0.15 0.07
Matches are distributed among these distances:
313 60 0.16
314 2 0.01
315 1 0.00
316 2 0.01
317 30 0.08
318 244 0.67
319 16 0.04
320 6 0.02
321 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (314 bp):
AAAAGAACGGAGATTATTACAAGAATCCATATTTCATCTCATTTGAAGGATAAACATTATCTAAG
GAAAATAGCAGAAAGAAAAGCTTTTCTTGTAAATCCAAGCATCAATATTATGTATCCCAATGAGG
AGAACATGTTGTTGTTGCCAAATCAACAAAAGAATAGAGATTATCACAAGAATCCATGTTCATCT
CAATTGAGATGAACATTAATTATAAGGAAAATGGTGGAAAGAAAATCTTTTCTTGCGAAAGCAAA
ACATCAAAATCATGTATCCTAATGAGGAAAACGTGTTTTCATTACCAAATAATA
Found at i:2051117 original size:159 final size:160
Alignment explanation
Indices: 2050809--2051516 Score: 380
Period size: 158 Copynumber: 4.4 Consensus size: 160
2050799 CTCATTTGAG
* * **
2050809 GGATGAACTTTATTTCTAAGGAAAATAGTAGAAAGAAAAGCTTTTTTTGTGAAACCAAAGCATCA
1 GGATGAACTTTAATTCTAAGGAAAATAGTAGAAAGAAAAGCTTTTCTTGACAAACCAAAGCATCA
* * *
2050874 AATATCTTGTATACCAATGAGCAGAACATGTTTATGGAGCCCAATCATGAAAAGAATTGAGATTA
66 AATATCTTGTATACCAATGAGCAGAACATGTTCATGGAGCCCAATCATCAAAAGAATGGAGATTA
* *
2050939 TTATGGGAATCTAGTTTTGTCACATTCGAT
131 TTATGGGAACCAAGTTTTGTCACATTCGAT
* * * *
2050969 GGATGAACTTTAATTCTAAGGAAAATGGT-GTTACGAAAAGCTTTTCTT-ACAAAGCCAAAGCTT
1 GGATGAACTTTAATTCTAAGGAAAATAGTAG-AAAGAAAAGCTTTTCTTGACAAA-CCAAAGCAT
* * *
2051032 C-AATAAT-TTGTAT-CTCAATGAGGAGAATATGTTCATGGTGCCCAATCA-CAAAAGGAATGGA
64 CAAAT-ATCTTGTATAC-CAATGAGCAGAACATGTTCATGGAGCCCAATCATCAAAA-GAATGGA
* * ** *
2051093 GATTATTATGTGAACCAAAG-TTTGTCTC-TTTAAG
126 GATTATTATGGGAACC-AAGTTTTGTCACATTCGAT
* * * * * ** *
2051127 GGATGAACCATTTATGATTCTAGGGAAAATCA-TGGAAATAAAGGCTTTCCTCCA-AAAGGCAAA
1 GGATGAA-C-TTTA--ATTCTAAGGAAAAT-AGTAGAAAGAAAAGCTTTTCTTGACAAA-CCAAA
* * * * * * * *
2051190 GCGTC-AATATCATGTATCCCAATGAGGAGAACATGTTTAT-CAGACCCAATCAT-ATAAGAGTG
60 GCATCAAATATCTTGTATACCAATGAGCAGAACATGTTCATGGAG-CCCAATCATCAAAAGAATG
** * * * *
2051252 GAGATTATTATAAGCATCAATGTTTT-TCTCATTTGAT
124 GAGATTATTATGGGAACCAA-GTTTTGTCACATTCGAT
* ** * * ** * **
2051289 AGACAAACTTTGATTCTAA-GAAATATGGCGGAAAGAAAAGCTTTCCTTGTGAAACCAAAGCATC
1 GGATGAACTTTAATTCTAAGGAAA-ATAGTAGAAAGAAAAGCTTTTCTTGACAAACCAAAGCATC
* * * * * ** * * * ** *
2051353 -CATATCATATAT-CCTAATAAGGAGAATGTGTTTATGG-TCTCCAATCATGAACGGAATGAAGA
65 AAATATCTTGTATACC-AATGAGCAGAACATGTTCATGGAGC-CCAATCATCAAAAGAATGGAGA
*** * * * *
2051415 TTATTACAAGAATCCAAG-TTTATCTCATTTGAG
128 TTATTATGGGAA-CCAAGTTTTGTCACATTCGAT
* * * * * *
2051448 GGACGAACTTTGATT-TAAAGAAAACAGT-GAGAAGAAAAGCTTTTCTTGAAAAACTAAAGCATC
1 GGATGAACTTTAATTCTAAGGAAAATAGTAGA-AAGAAAAGCTTTTCTTGACAAACCAAAGCATC
2051511 -AATATC
65 AAATATC
2051517 ATTTAACCCT
Statistics
Matches: 433, Mismatches: 84, Indels: 64
0.75 0.14 0.11
Matches are distributed among these distances:
157 9 0.02
158 123 0.28
159 119 0.27
160 66 0.15
161 27 0.06
162 86 0.20
163 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (160 bp):
GGATGAACTTTAATTCTAAGGAAAATAGTAGAAAGAAAAGCTTTTCTTGACAAACCAAAGCATCA
AATATCTTGTATACCAATGAGCAGAACATGTTCATGGAGCCCAATCATCAAAAGAATGGAGATTA
TTATGGGAACCAAGTTTTGTCACATTCGAT
Found at i:2051702 original size:159 final size:158
Alignment explanation
Indices: 2051423--2051751 Score: 349
Period size: 159 Copynumber: 2.1 Consensus size: 158
2051413 GATTATTACA
*
2051423 AGAATCCAAGTTTATCTCATTTGAGGGACGAACTTTGATTTAAAGAAAACAGTGAGAAGAAAAGC
1 AGAATCCAAGTTTATCTCATTTAAGGGACGAACTTTGATTTAAAGAAAACAGTGAGAAGAAAAGC
* * ** * *
2051488 TTTTCTTGAAAAACTAAAGCATCAATATCATTTAACCCTAAGGGAGAGATGGTGTTTTCATTGCC
66 TTTTCTTGAAAAACCAAAGCATCAATATCATATAA-CCTAAAAGAAAAATGGTGTTTTCATTGCC
** * * *
2051553 TAAACTTGAGAAGAATGGATATTATAATG
130 TAAACAAGAAAAGAATAGAGATTATAATG
* * * * ** **
2051582 AGAATCCATGTTTGTCTCATTTAAGGGATGACCTTTGATTCTATGGAAAATGGTG-GAAAGAAAA
1 AGAATCCAAGTTTATCTCATTTAAGGGACGAACTTTGATT-TAAAGAAAACAGTGAG-AAGAAAA
* * * **
2051646 GCTTTTCTTGCAAACCCAAAGCATCAATTTCATATATA-CTAACAAGAAAAAT-GTGTTTTTTTT
64 GCTTTTCTTGAAAAACCAAAGCATCAATATCATATA-ACCTAA-AAGAAAAATGGTGTTTTCATT
* *
2051709 GCCTAATCAAGAAAAGAATAGAGATTATTATG
127 GCCTAAACAAGAAAAGAATAGAGATTATAATG
2051741 AGAATCCAAGT
1 AGAATCCAAGT
2051752 GATGAGAACC
Statistics
Matches: 138, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
159 84 0.61
160 53 0.38
161 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (158 bp):
AGAATCCAAGTTTATCTCATTTAAGGGACGAACTTTGATTTAAAGAAAACAGTGAGAAGAAAAGC
TTTTCTTGAAAAACCAAAGCATCAATATCATATAACCTAAAAGAAAAATGGTGTTTTCATTGCCT
AAACAAGAAAAGAATAGAGATTATAATG
Found at i:2052115 original size:44 final size:43
Alignment explanation
Indices: 2052060--2052145 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 43
2052050 TGTTATTTTA
2052060 GTTTATTAAGAATTGGGCTTGTTAACACAATAAATCCATTAAG
1 GTTTATTAAGAATTGGGCTTGTTAACACAATAAATCCATTAAG
* * *
2052103 GTTTAATTAAGAATTGGGTTTGTTAGCACAATAAGTCCATTAA
1 GTTT-ATTAAGAATTGGGCTTGTTAACACAATAAATCCATTAA
2052146 TTTTTGTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 4 0.10
44 35 0.90
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (43 bp):
GTTTATTAAGAATTGGGCTTGTTAACACAATAAATCCATTAAG
Found at i:2054177 original size:42 final size:42
Alignment explanation
Indices: 2054116--2054234 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
2054106 TAGCCCTCAA
* *
2054116 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
2054158 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
2054200 GGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2054235 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.42, C:0.03, G:0.47, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2059239 original size:23 final size:23
Alignment explanation
Indices: 2059213--2059266 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
2059203 AAAAAAGAAG
2059213 AAGAAGAAGAAAGAATACAAAAA
1 AAGAAGAAGAAAGAATACAAAAA
*
2059236 AAGAAAAAGAAAGAATACAAAAA
1 AAGAAGAAGAAAGAATACAAAAA
*
2059259 AAAAAGAA
1 AAGAAGAA
2059267 AAAAACCAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.04
Consensus pattern (23 bp):
AAGAAGAAGAAAGAATACAAAAA
Found at i:2059261 original size:26 final size:26
Alignment explanation
Indices: 2059203--2059269 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 26
2059193 TTTTCACCAA
*
2059203 AAAAAAGAAGAAGAAGAAGAAAGAATAC
1 AAAAAA-AA-AAGAAAAAGAAAGAATAC
2059231 ---AAAAAAAGAAAAAGAAAGAATAC
1 AAAAAAAAAAGAAAAAGAAAGAATAC
2059254 AAAAAAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
2059270 AACCAGCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
23 17 0.49
24 2 0.06
25 3 0.09
26 13 0.37
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (26 bp):
AAAAAAAAAAGAAAAAGAAAGAATAC
Found at i:2065854 original size:12 final size:11
Alignment explanation
Indices: 2065832--2065907 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2065822 AGAGAAAGAA
*
2065832 GAGAGAGGAGG
1 GAGATAGGAGG
2065843 GATGATAGGAGG
1 GA-GATAGGAGG
*
2065855 AGAGACAGGA--
1 -GAGATAGGAGG
*
2065865 GAGATAGTA--
1 GAGATAGGAGG
2065874 GAGATAGGAGG
1 GAGATAGGAGG
2065885 GATGATAGGAGG
1 GA-GATAGGAGG
*
2065897 AGAGACAGGAG
1 -GAGATAGGAG
2065908 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2065864 original size:24 final size:24
Alignment explanation
Indices: 2065831--2065916 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2065821 AAGAGAAAGA
*
2065831 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
2065855 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
2065873 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
2065897 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
2065917 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:2065883 original size:42 final size:42
Alignment explanation
Indices: 2065822--2065940 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2065812 TAGCCCTCAA
* *
2065822 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
2065864 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2065906 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2065941 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2073205 original size:12 final size:11
Alignment explanation
Indices: 2073190--2073280 Score: 105
Period size: 12 Copynumber: 7.9 Consensus size: 11
2073180 TCTATTATCT
2073190 CTCCTATCTCAC
1 CTCCTATCTC-C
2073202 CTCCTATCATCC
1 CTCCTATC-TCC
2073214 CTCCTATCTCTC
1 CTCCTATCTC-C
2073226 CTCCTATCATCC
1 CTCCTATC-TCC
2073238 CTCCTATCT--
1 CTCCTATCTCC
2073247 CTCCTATCTCTC
1 CTCCTATCTC-C
*
2073259 CTCCTATCATCT
1 CTCCTATC-TCC
2073271 CTCCTATCTC
1 CTCCTATCTC
2073281 TTCTTTCTCT
Statistics
Matches: 71, Mismatches: 1, Indels: 15
0.82 0.01 0.17
Matches are distributed among these distances:
9 9 0.13
11 5 0.07
12 51 0.72
13 6 0.08
ACGTcount: A:0.13, C:0.48, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2073281 original size:24 final size:24
Alignment explanation
Indices: 2073175--2073278 Score: 103
Period size: 24 Copynumber: 4.4 Consensus size: 24
2073165 GTCATCCCTC
* *
2073175 CTCTCTCTATTATCTCTCCTATC-T
1 CTCTC-CTATCATCCCTCCTATCAT
*
2073199 CACCTCCTATCATCCCTCCTATC-T
1 C-TCTCCTATCATCCCTCCTATCAT
2073223 CTCCTCCTATCATCCCTCC--T-AT
1 CT-CTCCTATCATCCCTCCTATCAT
2073245 CTCTCCTATC-TCTCCTCCTATCAT
1 CTCTCCTATCATC-CCTCCTATCAT
2073269 CTCTCCTATC
1 CTCTCCTATC
2073279 TCTTCTTTCT
Statistics
Matches: 69, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.03
21 13 0.19
22 4 0.06
23 1 0.01
24 46 0.67
25 3 0.04
ACGTcount: A:0.13, C:0.46, G:0.00, T:0.40
Consensus pattern (24 bp):
CTCTCCTATCATCCCTCCTATCAT
Found at i:2073281 original size:33 final size:34
Alignment explanation
Indices: 2073185--2073278 Score: 72
Period size: 33 Copynumber: 2.7 Consensus size: 34
2073175 CTCTCTCTAT
*
2073185 TATCTCTCCTATCTCACCTCCTATCATCCCTCCTA
1 TATCTCTCCTATCTCTCCTCCTATCATCCCTCC-A
*
2073220 TCTCTCCTCCTATCATC-CCTCCTATC-T--CTCCTA
1 TATCT-CTCCTATC-TCTCCTCCTATCATCCCTCC-A
*
2073253 TCTCTCCTCCTATCATCT-CTCCTATC
1 TATCT-CTCCTATC-TCTCCTCCTATC
2073279 TCTTCTTTCT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
33 31 0.56
35 5 0.09
36 17 0.31
37 2 0.04
ACGTcount: A:0.14, C:0.47, G:0.00, T:0.39
Consensus pattern (34 bp):
TATCTCTCCTATCTCTCCTCCTATCATCCCTCCA
Found at i:2073637 original size:113 final size:113
Alignment explanation
Indices: 2073425--2073639 Score: 254
Period size: 113 Copynumber: 1.9 Consensus size: 113
2073415 GAAAGAATTA
* *
2073425 ATGTTTGTTTCATTTCAAGGATGAACTTTGATTTTAAGGAAAATGGTAGAAATAAAAGTAGTTCT
1 ATGTTTGTCTCATTTCAAGGATGAACTTTGATTCTAAGGAAAATGGTAGAAATAAAAGTAGTTCT
* * * *
2073490 TGCAAAACCAAAATAGAAACATCATGCATTCCAATGAGGAGAACGTTC
66 TGCAAAACCAAAAGAGAAACACCATGAATCCCAATGAGGAGAACGTTC
* * *
2073538 ATGTTTGTCTCAATTT-AGGGATGAACTTTGATTCTAAGGAAAATGGTGGAAATAAAAGCT-TTT
1 ATGTTTGTCTC-ATTTCAAGGATGAACTTTGATTCTAAGGAAAATGGTAGAAATAAAAG-TAGTT
** * ** * *
2073601 CTTGTGAAACCAAAGGATCAATACCTTGAATCCCAATGA
64 CTTGCAAAACCAAAAGAGAAACACCATGAATCCCAATGA
2073640 AAAGAACCTG
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
113 79 0.94
114 5 0.06
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (113 bp):
ATGTTTGTCTCATTTCAAGGATGAACTTTGATTCTAAGGAAAATGGTAGAAATAAAAGTAGTTCT
TGCAAAACCAAAAGAGAAACACCATGAATCCCAATGAGGAGAACGTTC
Found at i:2075541 original size:20 final size:20
Alignment explanation
Indices: 2075500--2075541 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2075490 TTTTTTTTTC
*
2075500 AAGAATCCAAAAAAATAAGA
1 AAGAATCCAAAAAAAGAAGA
* *
2075520 AAGAATGCAAAAAAAGAGGA
1 AAGAATCCAAAAAAAGAAGA
2075540 AA
1 AA
2075542 AAAAACTAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.69, C:0.07, G:0.17, T:0.07
Consensus pattern (20 bp):
AAGAATCCAAAAAAAGAAGA
Found at i:2079828 original size:29 final size:29
Alignment explanation
Indices: 2079794--2079871 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
2079784 AAAGCTAAGG
2079794 AATTAAAAGTCAACTAAAATACTAAAAGA
1 AATTAAAAGTCAACTAAAATACTAAAAGA
*
2079823 AATTAAGAGTCAACTAAAATACTAAAAGA
1 AATTAAAAGTCAACTAAAATACTAAAAGA
* *
2079852 AATTGAAGGTCAACTAAAAT
1 AATTAAAAGTCAACTAAAAT
2079872 CCCAGAACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.22
Consensus pattern (29 bp):
AATTAAAAGTCAACTAAAATACTAAAAGA
Found at i:2080337 original size:36 final size:37
Alignment explanation
Indices: 2080290--2080364 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 37
2080280 GTCAAATGAG
2080290 ATAAACATTGATTTTTGTAAT-ATCTCTATTCTTTCC
1 ATAAACATTGATTTTTGTAATAATCTCTATTCTTTCC
*
2080326 ATAAACATTGATTTTTGTACTAATCTCTATTCTTTCC
1 ATAAACATTGATTTTTGTAATAATCTCTATTCTTTCC
2080363 AT
1 AT
2080365 TGTTGGGCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 20 0.54
37 17 0.46
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.49
Consensus pattern (37 bp):
ATAAACATTGATTTTTGTAATAATCTCTATTCTTTCC
Found at i:2080622 original size:159 final size:158
Alignment explanation
Indices: 2080385--2080829 Score: 405
Period size: 159 Copynumber: 2.8 Consensus size: 158
2080375 CATAAACACA
* ** * *** **
2080385 TTCTCCTCATAGGGATACACCATATTGATGCTTTGGTTTTGCAAGAAAAGCTCCGCTTTCCATGA
1 TTCTCCTCATTGGGATACAAAATATTGATGCTTTGGTTTAGCAAGAAAAGCTTTTCTTAACATGA
* * * ** * * * *
2080450 TTTTCCCTTGAATCATAGTTTGTCCTTCAAATGAGATAAACTTCGATTTGT-GTAATAATCTCCA
66 TTTTCCCTAGAATCAAAGTTTATCCACCAAATAAGAT-AACCTCGATTT-TCATAATAATCTCAA
* * *
2080514 TTCTTTTCATGATTAGG-TATCTTGAACATG
129 TTCTTTTCATGATTAGGCT-CCATCAACATG
* * *
2080544 TTCTCCTCATTGGGATACAAAATATTGAAGGTTTGGTTTCGCAAGAAAAGCTTTTCTTAACACT-
1 TTCTCCTCATTGGGATACAAAATATTGATGCTTTGGTTTAGCAAGAAAAGCTTTTCTTAACA-TG
* * *
2080608 ATTTTCCGTAGAATCAAAGTTTATTCACCAAATAAGATAACCTGGATTTTCATAATAATCTCAAT
65 ATTTTCCCTAGAATCAAAGTTTATCCACCAAATAAGATAACCTCGATTTTCATAATAATCTCAAT
* *
2080673 TCTTTTCGTGATTGGGCTCCATCAACATG
130 TCTTTTCATGATTAGGCTCCATCAACATG
* * ** *** *
2080702 TTCTCTTCATTGGGATATAGGATATTTGATGCTTTGGTTTAGCAAGAAAAGCTTTTCTTTTTATC
1 TTCTCCTCATTGGGATACAAAATA-TTGATGCTTTGGTTTAGCAAGAAAAGCTTTTCTTAACATG
* * * * *
2080767 ATTTTCCTTAGACTCAAAGTTTAGCC-CTCAAATGAGAGA-AACATAGATTTTCATAATAATCTC
65 ATTTTCCCTAGAATCAAAGTTTATCCAC-CAAAT-A-AGATAACCTCGATTTTCATAATAATCTC
2080830 CGTTCTTTCC
Statistics
Matches: 234, Mismatches: 44, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
157 1 0.00
158 65 0.28
159 141 0.60
160 24 0.10
161 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (158 bp):
TTCTCCTCATTGGGATACAAAATATTGATGCTTTGGTTTAGCAAGAAAAGCTTTTCTTAACATGA
TTTTCCCTAGAATCAAAGTTTATCCACCAAATAAGATAACCTCGATTTTCATAATAATCTCAATT
CTTTTCATGATTAGGCTCCATCAACATG
Found at i:2086320 original size:58 final size:58
Alignment explanation
Indices: 2086230--2086344 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
2086220 ACAATAGGCT
* * **
2086230 ATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTAGGCTCCAAGCC
1 ATAAATATATGAAAACTGGGCTCCACTCTTCTTGGACATACGAATTAGGCTCCAAGCC
* * *
2086288 ATAAATATATGAAAACTGGGCTTCACTCTTCTTGGGCATACGAATTGGGCTCCAAGC
1 ATAAATATATGAAAACTGGGCTCCACTCTTCTTGGACATACGAATTAGGCTCCAAGC
2086345 TTTATTCTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (58 bp):
ATAAATATATGAAAACTGGGCTCCACTCTTCTTGGACATACGAATTAGGCTCCAAGCC
Found at i:2088162 original size:42 final size:42
Alignment explanation
Indices: 2088096--2088214 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
2088086 TAGCCCTCAA
* * *
2088096 AGAGAAAGAAGAGAGAGGATGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2088138 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACGGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2088180 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2088215 GAGAGAAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.42, C:0.03, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2093882 original size:57 final size:58
Alignment explanation
Indices: 2093794--2093909 Score: 171
Period size: 57 Copynumber: 2.0 Consensus size: 58
2093784 GAAGAATAAA
**
2093794 GCTTGAAGCCCAATTCGTATGTCCAAGAAGAGTGAAGCCCAATTT-CATATATTCATG
1 GCTTGAAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCATG
* * * *
2093851 GCTTGGAGCCTAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTTATG
1 GCTTGAAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCATG
2093909 G
1 G
2093910 GCCTATTGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 40 0.77
58 12 0.23
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (58 bp):
GCTTGAAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCATG
Found at i:2094540 original size:11 final size:10
Alignment explanation
Indices: 2094524--2094554 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
2094514 ATCATCCACT
2094524 AAAAAAAACAG
1 AAAAAAAA-AG
2094535 AAAAAAAAAG
1 AAAAAAAAAG
2094545 AAAAAAAAAG
1 AAAAAAAAAG
2094555 TGTTCTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:2094721 original size:28 final size:28
Alignment explanation
Indices: 2094663--2094730 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
2094653 TCTTTATTGT
* * *
2094663 TTTCTTTTCCTTTGAAATTTCTTTCTTA
1 TTTCATTTCCTTTCAAATTTCTTTCTGA
*
2094691 TTTCATTTCCTTTCATATTTCTTGT-TGA
1 TTTCATTTCCTTTCAAATTTCTT-TCTGA
*
2094719 TTTCACTTCCTT
1 TTTCATTTCCTT
2094731 GATCTTGCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.13, C:0.21, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTCATTTCCTTTCAAATTTCTTTCTGA
Found at i:2099761 original size:12 final size:11
Alignment explanation
Indices: 2099739--2099814 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2099729 AGAGAAAGAA
*
2099739 GAGAGAGGAGG
1 GAGATAGGAGG
2099750 GATGATAGGAGG
1 GA-GATAGGAGG
*
2099762 AGAGACAGGA--
1 -GAGATAGGAGG
*
2099772 GAGATAGTA--
1 GAGATAGGAGG
2099781 GAGATAGGAGG
1 GAGATAGGAGG
2099792 GATGATAGGAGG
1 GA-GATAGGAGG
*
2099804 AGAGACAGGAG
1 -GAGATAGGAG
2099815 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2099771 original size:24 final size:24
Alignment explanation
Indices: 2099738--2099823 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2099728 AAGAGAAAGA
*
2099738 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
2099762 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
2099780 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
2099804 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
2099824 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:2099790 original size:42 final size:42
Alignment explanation
Indices: 2099729--2099847 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2099719 TAGCCCTCAA
* *
2099729 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
2099771 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2099813 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2099848 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2111394 original size:42 final size:42
Alignment explanation
Indices: 2111339--2111457 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
2111329 TTCTTCTCTC
* *
2111339 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCCGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCCGTCT
* *
2111381 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCCGTCT
* *
2111423 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2111458 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.08, C:0.47, G:0.03, T:0.42
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCCGTCT
Found at i:2111399 original size:24 final size:24
Alignment explanation
Indices: 2111363--2111441 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 24
2111353 CCTCCTCTCT
* *
2111363 CTATTATCTCTCCCGTCTCTCCTC
1 CTATCATCCCTCCCGTCTCTCCTC
* *
2111387 CTATCATCCCT-CC-TATCT-CTA
1 CTATCATCCCTCCCGTCTCTCCTC
*
2111408 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCCGTCTCTCCTC
2111429 CTATCATCCCTCC
1 CTATCATCCCTCC
2111442 TCTCTCTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 5 0.12
21 14 0.33
22 5 0.12
23 2 0.05
24 13 0.31
ACGTcount: A:0.11, C:0.47, G:0.03, T:0.39
Consensus pattern (24 bp):
CTATCATCCCTCCCGTCTCTCCTC
Found at i:2111442 original size:24 final size:24
Alignment explanation
Indices: 2111363--2111448 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
2111353 CCTCCTCTCT
* * *
2111363 CTATTATCTCTCCCGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
2111387 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
2111408 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
2111429 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
2111449 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.47, G:0.02, T:0.41
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:2113298 original size:58 final size:58
Alignment explanation
Indices: 2113208--2113324 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 58
2113198 GAAGAATAAA
** *
2113208 GCTTGGAGCCCAATTCGTATGTCCAAGAAGAGTGAAGCCCAATTTTCATATATTTATG
1 GCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTTATG
* *
2113266 GCTTGGAGCCTAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTTATG
1 GCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTTATG
2113324 G
1 G
2113325 GCCTATTGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (58 bp):
GCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTTATG
Found at i:2116779 original size:58 final size:58
Alignment explanation
Indices: 2116689--2116803 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
2116679 GAAGAATAAA
** * *
2116689 GCTTGGAGCCCAATTCGTATGCCCAAGAAGAGTGAAGCCCAGTTTTCATATATTTATG
1 GCTTGGAGCCCAATTCACATGCCCAAGAAGAGTGAAGCCCAATTTGCATATATTTATG
* * *
2116747 GCTTGGAGCCTAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTTAT
1 GCTTGGAGCCCAATTCACATGCCCAAGAAGAGTGAAGCCCAATTTGCATATATTTAT
2116804 AGCCTATTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (58 bp):
GCTTGGAGCCCAATTCACATGCCCAAGAAGAGTGAAGCCCAATTTGCATATATTTATG
Found at i:2122395 original size:159 final size:155
Alignment explanation
Indices: 2121693--2122425 Score: 498
Period size: 159 Copynumber: 4.6 Consensus size: 155
2121683 ATTCTCATCA
* * * **
2121693 AAAGCAGT-AATATCATGTATCCCAATG-GAGAGAACGTTTTTATGGTGCAAAATCATGAAAAGA
1 AAAGCA-TCAATATCCTGTATCCCAATGAG-GAGAACATGTTTATGGTGCCCAATCATGAAAAGA
* * * *
2121756 ATGGAGATTATTA-CAAGAATCCATA-TTAATCTCTTTTGAGGGACAAACTTTAATTATAAGGAA
64 ATGGAGATTATTATCAA-AAT-CA-AGTTTATCTCATTTGA-GGACAAACTTTGATT-CAAGGAA
* * * **
2121819 AATGGTAAAAAG-AAAGCTTTTTTTTTTTTAAAAAACC
124 AAT-ATGAAAAGAAAAGC-----TTTTCTTGCAAAACC
** * * * * ** ** * *
2121856 AAAGCATTGATATCATGCATCCTAATGAGAAGAA-ATTGTTT-TCACTATCCAATTATGGAAAGA
1 AAAGCATCAATATCCTGTATCCCAATGAGGAGAACA-TGTTTAT-GGTGCCCAATCATGAAAAGA
* * * * *
2121919 ATGGAGATTATTATGAAAATCTATGTTTCTCTCATTTGAGGGCTAAACTTTGAGTCTAAGGAAAA
64 ATGGAGATTATTATCAAAATC-AAGTTTATCTCATTTGAGGAC-AAACTTTGATTC-AAGGAAAA
* *
2121984 TGATAAAAAGAAAAGCTTTTCTTGCTAAACC
126 T-ATGAAAAGAAAAGCTTTTCTTGCAAAACC
* * *
2122015 AAAGCATCAAATATCCTGTATCCCAATGAAGAGAACATGTTTATGGAGCCCAATCACGAAAAGAA
1 AAAGCATC-AATATCCTGTATCCCAATGAGGAGAACATGTTTATGGTGCCCAATCATGAAAAGAA
* * * * * * *
2122080 TTGAGATTATTATGAAAATCCAGGTTATCTTATTTG-GTGAATAAACTTTGATTCTACGGAAAAT
65 TGGAGATTATTATCAAAATCAAGTTTATCTCATTTGAG-G-ACAAACTTTGATTC-AAGGAAAAT
** *
2122144 AGTGTTAAGAAAAGCTTTTCTTGCGAAACC
127 A-TGAAAAGAAAAGCTTTTCTTGCAAAACC
* * ** * * * * *
2122174 AAACCTTCAATATTTTGTATCCCAATGAGGAGAACATGTTCAAGATACCTAATCATGAAAAGAAT
1 AAAGCATCAATATCCTGTATCCCAATGAGGAGAACATGTTTATGGTGCCCAATCATGAAAAGAAT
*
2122239 GGAGATTATTA-CACAAATCGAAGTTTATCTCATTTGAAGGACAAACTATGATTCAAGGGAAAAT
66 GGAGATTATTATCA-AAATC-AAGTTTATCTCATTTG-AGGACAAACTTTGATTCAA-GGAAAAT
* **
2122303 CATGGAAAGAGGAGCTTTTCTTGCAAAACC
127 -ATGAAAAGAAAAGCTTTTCTTGCAAAACC
** * ** *
2122333 AAAGCATCAATATGGTGTATCCCTATGAGGAGAATGTGTTTATGGTGCCCAA-CAATGGAAAGAA
1 AAAGCATCAATATCCTGTATCCCAATGAGGAGAACATGTTTATGGTGCCCAATC-ATGAAAAGAA
* *
2122397 TAGAGATTAGTA-CAAAAATCAATGTTTAT
65 TGGAGATTATTATC-AAAATCAA-GTTTAT
2122426 GGAAAGAATA
Statistics
Matches: 448, Mismatches: 97, Indels: 54
0.75 0.16 0.09
Matches are distributed among these distances:
157 1 0.00
158 68 0.15
159 206 0.46
160 60 0.13
161 3 0.01
162 6 0.01
163 96 0.21
164 8 0.02
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (155 bp):
AAAGCATCAATATCCTGTATCCCAATGAGGAGAACATGTTTATGGTGCCCAATCATGAAAAGAAT
GGAGATTATTATCAAAATCAAGTTTATCTCATTTGAGGACAAACTTTGATTCAAGGAAAATATGA
AAAGAAAAGCTTTTCTTGCAAAACC
Found at i:2122454 original size:36 final size:37
Alignment explanation
Indices: 2122387--2122461 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 37
2122377 GTGCCCAACA
2122387 ATGGAAAGAATAGAGATTAGTACAAAAATCAATGTTT
1 ATGGAAAGAATAGAGATTAGTACAAAAATCAATGTTT
* *
2122424 ATGGAAAGAATATAGA-TATTACAAAAATCAATGTTT
1 ATGGAAAGAATAGAGATTAGTACAAAAATCAATGTTT
2122460 AT
1 AT
2122462 CTCATTTGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 21 0.58
37 15 0.42
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.29
Consensus pattern (37 bp):
ATGGAAAGAATAGAGATTAGTACAAAAATCAATGTTT
Found at i:2122913 original size:29 final size:29
Alignment explanation
Indices: 2122880--2122957 Score: 131
Period size: 29 Copynumber: 2.7 Consensus size: 29
2122870 AAGTTCTGGG
2122880 ATTTTAGTTGAC-CTTCAATTTCTTTTAGT
1 ATTTTAGTTGACTCTT-AATTTCTTTTAGT
2122909 ATTTTAGTTGACTCTTAATTTCTTTTAGT
1 ATTTTAGTTGACTCTTAATTTCTTTTAGT
*
2122938 ATTTTAGTTGACTTTTAATT
1 ATTTTAGTTGACTCTTAATT
2122958 CCTTAGCTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 44 0.94
30 3 0.06
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.58
Consensus pattern (29 bp):
ATTTTAGTTGACTCTTAATTTCTTTTAGT
Found at i:2127099 original size:19 final size:20
Alignment explanation
Indices: 2127074--2127128 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
2127064 TTATCAATAC
*
2127074 ATTGTATCGATACATGC-TC
1 ATTGTATCGATACATGCTTA
* *
2127093 CTTGTATCGATACATACTTA
1 ATTGTATCGATACATGCTTA
2127113 ATTGTATCGATACATG
1 ATTGTATCGATACATG
2127129 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGCTTA
Found at i:2134689 original size:22 final size:20
Alignment explanation
Indices: 2134662--2134719 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 20
2134652 CATCCTTCAT
2134662 AAAAAAATAAATAAAA-AATC
1 AAAAAAATAAA-AAAACAATC
2134682 ACAGAAAAAGTAAAAAAAGCAATC
1 A-A-AAAAA-TAAAAAAA-CAATC
2134706 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
2134720 TAAAAAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 1 0.03
21 8 0.24
22 14 0.42
23 5 0.15
24 5 0.15
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAAATAAAAAAACAATC
Found at i:2134719 original size:7 final size:7
Alignment explanation
Indices: 2134707--2134760 Score: 67
Period size: 7 Copynumber: 8.0 Consensus size: 7
2134697 AAAGCAATCA
2134707 AAAAAAT
1 AAAAAAT
2134714 AAAAAAT
1 AAAAAAT
2134721 AAAAAA-
1 AAAAAAT
*
2134727 AACAAAT
1 AAAAAAT
2134734 AAAAAAT
1 AAAAAAT
2134741 AAAAAA-
1 AAAAAAT
**
2134747 ATTAAAT
1 AAAAAAT
2134754 AAAAAAT
1 AAAAAAT
2134761 CATAAAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 9 0.23
7 30 0.77
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:2134724 original size:13 final size:13
Alignment explanation
Indices: 2134708--2134760 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
2134698 AAGCAATCAA
2134708 AAAAATAAAAAAT
1 AAAAATAAAAAAT
2134721 AAAAA-AAACAAAT
1 AAAAATAAA-AAAT
2134734 AAAAAATAAAAAA-
1 -AAAAATAAAAAAT
*
2134747 ATTAAATAAAAAAT
1 A-AAAATAAAAAAT
2134761 CATAAAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
12 4 0.12
13 19 0.56
14 8 0.24
15 3 0.09
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:2134733 original size:20 final size:19
Alignment explanation
Indices: 2134660--2134760 Score: 87
Period size: 20 Copynumber: 5.1 Consensus size: 19
2134650 GCCATCCTTC
*
2134660 ATAAAAAAATAAATAAAAA
1 ATAAAAAAAAAAATAAAAA
* * * *
2134679 ATCACAGAAAAAGTAAAAA
1 ATAAAAAAAAAAATAAAAA
*
2134698 A-AGCAATCAAAAAAATAAAAA
1 ATA--AA-AAAAAAAATAAAAA
2134719 ATAAAAAAAACAAATAAAAA
1 ATAAAAAAAA-AAATAAAAA
*
2134739 ATAAAAAAATTAAATAAAAA
1 ATAAAAAAA-AAAATAAAAA
2134759 AT
1 AT
2134761 CATAAAAAAG
Statistics
Matches: 64, Mismatches: 12, Indels: 11
0.74 0.14 0.13
Matches are distributed among these distances:
19 19 0.30
20 32 0.50
21 12 0.19
22 1 0.02
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (19 bp):
ATAAAAAAAAAAATAAAAA
Found at i:2136073 original size:52 final size:52
Alignment explanation
Indices: 2136009--2136522 Score: 343
Period size: 52 Copynumber: 9.8 Consensus size: 52
2135999 CTCTAAAACC
* * * * *
2136009 AATGCCACTGGCCTTTGATTAGCACATTAGCACCTTTATCATCTTTAAGTCT
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAGTCT
* * ** ** *
2136061 AATGTCGCTGGCCTTGGATTAGTGCATTGGCAACC-TTCCCATCTTTAAGTCC
1 AATGTCACTGGCCTTGGATCAGCACATTGGC-ACCTTTGTCATCTTTAAGTCT
* * * *
2136113 AATGTCACTAGCCTTGGATCAGCACATTGGCACTTTTGTCGTCTCTAAGTCT
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAGTCT
* * * * *
2136165 AATGTCACTTGCCTTGGATCAACACATTGGCACTTTTGTCATCTCTAAGTCC
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAGTCT
** * *
2136217 AATGTCGTTGGCCTTGGATTAGCACATTGGCACCTTTGTCAT-TTCTAAGTCC
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTT-TAAGTCT
* * * * * **
2136269 AATGTCATTGGACTTGGATCAGCATATTGGCACCTTTGTTATCTCTAAAACT
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAGTCT
* * * * * * *
2136321 AGTGTCATTGGCCTTGAATCAGCATATAGACATCC-TTATCATCTTTAAGT-T
1 AATGTCACTGGCCTTGGATCAGCACATTGGCA-CCTTTGTCATCTTTAAGTCT
* * * * * ** *
2136372 CAATGTCGCTGGGTTACCCTTGGATCAGCACATTGACGCCTTTGTTATCCTTAACACC
1 -AATGTCACT-GG----CCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAGTCT
*** * * ** * *
2136430 AATGTTGTTGGCCTTGAATCAACACATTAACACCTGTGTCATCTTTAAGTCC
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAGTCT
** * * * ** *
2136482 AGCGTCGCAGGCCTTGAATTTGCACATTGGCACATTTGTCA
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCA
2136523 AAAATCTTTT
Statistics
Matches: 363, Mismatches: 86, Indels: 26
0.76 0.18 0.05
Matches are distributed among these distances:
51 4 0.01
52 313 0.86
53 8 0.02
56 4 0.01
57 34 0.09
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (52 bp):
AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAGTCT
Found at i:2136245 original size:156 final size:156
Alignment explanation
Indices: 2135995--2136383 Score: 401
Period size: 156 Copynumber: 2.5 Consensus size: 156
2135985 TCAAAATTTA
** * * * * * * *
2135995 TCATCTCTAAAACCAATGCCACTGGCCTTTGATTAGCACATTAGCACCTTTATCATCTTTAAGTC
1 TCATCTCTAAGTCTAATGTCACTTGCCTTGGATCAACACATTAGCACCTTTATCATCTCTAAGTC
* **
2136060 TAATGTCGCTGGCCTTGGATTAGTGCATTGGCAACC-TTCCCATCTT-TAAGTCCAATGTCACTA
66 CAATGTCGCTGGCCTTGGATTAGCACATTGGC-ACCTTTCCCAT-TTCTAAGTCCAATGTCACTA
* *
2136123 GCCTTGGATCAGCACATTGGCACTTTTG
129 GACTTGGATCAGCACATTGGCACCTTTG
* * * *
2136151 TCGTCTCTAAGTCTAATGTCACTTGCCTTGGATCAACACATTGGCACTTTTGTCATCTCTAAGTC
1 TCATCTCTAAGTCTAATGTCACTTGCCTTGGATCAACACATTAGCACCTTTATCATCTCTAAGTC
* ** * *
2136216 CAATGTCGTTGGCCTTGGATTAGCACATTGGCACCTTTGTCATTTCTAAGTCCAATGTCATTGGA
66 CAATGTCGCTGGCCTTGGATTAGCACATTGGCACCTTTCCCATTTCTAAGTCCAATGTCACTAGA
*
2136281 CTTGGATCAGCATATTGGCACCTTTG
131 CTTGGATCAGCACATTGGCACCTTTG
* ** * * * * *
2136307 TTATCTCTAAAACTAGTGTCA-TTGGCCTTGAATCAGCATA-TAGACATCC-TTATCATCTTTAA
1 TCATCTCTAAGTCTAATGTCACTT-GCCTTGGATCAACACATTAG-CA-CCTTTATCATCTCTAA
*
2136369 GTTCAATGTCGCTGG
63 GTCCAATGTCGCTGG
2136384 GTTACCCTTG
Statistics
Matches: 190, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
155 9 0.05
156 180 0.95
157 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (156 bp):
TCATCTCTAAGTCTAATGTCACTTGCCTTGGATCAACACATTAGCACCTTTATCATCTCTAAGTC
CAATGTCGCTGGCCTTGGATTAGCACATTGGCACCTTTCCCATTTCTAAGTCCAATGTCACTAGA
CTTGGATCAGCACATTGGCACCTTTG
Found at i:2136472 original size:109 final size:109
Alignment explanation
Indices: 2136281--2136479 Score: 251
Period size: 109 Copynumber: 1.8 Consensus size: 109
2136271 TGTCATTGGA
* * * * * *
2136281 CTTGGATCAGCATATTGGCACCTTTGTTATCTCTAAAACTAGTGTCATTGGCCTTGAATCAGCAT
1 CTTGGATCAGCACATTGACACCTTTGTTATCTCTAAAACCAATGTCATTGGCCTTGAATCAACAC
2136346 ATAGACATCCTTATCATCTTTAAGTTCAATGTCGCTGGGTTACC
66 ATAGACATCCTTATCATCTTTAAGTTCAATGTCGCTGGGTTACC
* * **
2136390 CTTGGATCAGCACATTGACGCCTTTGTTATC-CTTAACACCAATGTTGTTGGCCTTGAATCAACA
1 CTTGGATCAGCACATTGACACCTTTGTTATCTC-TAAAACCAATGTCATTGGCCTTGAATCAACA
*
2136454 CATTA-ACA-CCTGTGTCATCTTTAAGT
65 CA-TAGACATCCT-TATCATCTTTAAGT
2136480 CCAGCGTCGC
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
108 4 0.05
109 70 0.92
110 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (109 bp):
CTTGGATCAGCACATTGACACCTTTGTTATCTCTAAAACCAATGTCATTGGCCTTGAATCAACAC
ATAGACATCCTTATCATCTTTAAGTTCAATGTCGCTGGGTTACC
Found at i:2137842 original size:102 final size:102
Alignment explanation
Indices: 2137661--2138187 Score: 743
Period size: 102 Copynumber: 5.1 Consensus size: 102
2137651 TTTTATTCAC
* * * * * *
2137661 GGGGATACTTCAACCCCAACCTTTCGAGGGGATACTCCAACCCCGCTCCTCAAAATTTATCTATA
1 GGGGATACTCCAACCCC-ACCTTTCGAAGGGATACTCCAACCTCGCTCTTCAAAATTTATCAAGA
* *
2137726 TTTGAACTCCTCTTTTGTCTAAATTATTTGTTATCCAC
65 TTTGAACTCCTCTTTTGTCAAAATTATTTGTTATCCAT
** * ** * *
2137764 AAGGATACTCCAACCCCACCTTTTGAAAAGATACTTCAACC-CTGCTCTTCAAAGTTTATCAAGA
1 GGGGATACTCCAACCCCACCTTTCGAAGGGATACTCCAACCTC-GCTCTTCAAAATTTATCAAGA
* * * *
2137828 TTCGAACTCTTCTTTTGTTAAAATTATTTGATATCCAT
65 TTTGAACTCCTCTTTTGTCAAAATTATTTGTTATCCAT
* * * * *
2137866 AGGGATACTCCAACCCCACCTTTTGAAGGGATACTTCAACCTCGCCCTTCAAAGTTTATCAAGAT
1 GGGGATACTCCAACCCCACCTTTCGAAGGGATACTCCAACCTCGCTCTTCAAAATTTATCAAGAT
* *
2137931 TTGAACTTCTTTTCTTGTCAAAATTATTTGTTATCCAT
66 TTGAACTCCTCTT-TTGTCAAAATTATTTGTTATCCAT
2137969 GGGGATACTCCAACCCCACCTTTCG-AGGGATACTCCAACCTCGCTCTTCAAAATTTATCAAGAT
1 GGGGATACTCCAACCCCACCTTTCGAAGGGATACTCCAACCTCGCTCTTCAAAATTTATCAAGAT
*
2138033 TTGAGCTCCTCTTTTGTCAAAATTATTTGTTATCCAT
66 TTGAACTCCTCTTTTGTCAAAATTATTTGTTATCCAT
* *
2138070 GGGGATACTCCAACCCCACCTTTCGAGGGGATACTCCAAGCTCGCTCTTCAAAATTTATCAAGAT
1 GGGGATACTCCAACCCCACCTTTCGAAGGGATACTCCAACCTCGCTCTTCAAAATTTATCAAGAT
2138135 TTGAACTCCTCTTTTGTCAAAATTTATTTGTTATCCAT
66 TTGAACTCCTCTTTTGTCAAAA-TTATTTGTTATCCAT
2138173 GGGGATACTCCAACC
1 GGGGATACTCCAACC
2138188 TCGCTCTTTA
Statistics
Matches: 380, Mismatches: 39, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
101 50 0.13
102 240 0.63
103 90 0.24
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (102 bp):
GGGGATACTCCAACCCCACCTTTCGAAGGGATACTCCAACCTCGCTCTTCAAAATTTATCAAGAT
TTGAACTCCTCTTTTGTCAAAATTATTTGTTATCCAT
Found at i:2138232 original size:77 final size:76
Alignment explanation
Indices: 2138096--2138259 Score: 249
Period size: 77 Copynumber: 2.2 Consensus size: 76
2138086 CACCTTTCGA
*
2138096 GGGGATACTCCAAGCTCGCTCTTCAAAATTTATCAAGATTTGAACTCCTCTTTTGTCAAAATTTA
1 GGGGATACTCCAACCTCGCTCTTCAAAATTTATCAAGATTTGAACTCCTCTTTTGTCAAAA-TTA
2138161 TTTGTTATCCAT
65 TTTGTTATCCAT
* * * * *
2138173 GGGGATACTCCAACCTCGCTCTTTAAAATTTATTAAGATTTGAACTCTTTTTTTTTCAAAATTAT
1 GGGGATACTCCAACCTCGCTCTTCAAAATTTATCAAGATTTGAACTCCTCTTTTGTCAAAATTAT
2138238 TTGTTATCCAT
66 TTGTTATCCAT
*
2138249 -AGGATACTCCA
1 GGGGATACTCCA
2138260 GCCCCATCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
75 10 0.12
76 15 0.19
77 55 0.69
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (76 bp):
GGGGATACTCCAACCTCGCTCTTCAAAATTTATCAAGATTTGAACTCCTCTTTTGTCAAAATTAT
TTGTTATCCAT
Found at i:2139299 original size:40 final size:40
Alignment explanation
Indices: 2139255--2139355 Score: 193
Period size: 40 Copynumber: 2.5 Consensus size: 40
2139245 TTTTTACCCA
*
2139255 AATGTATCGATACATTTTTCGATGAATCGATACATGTATG
1 AATGTATCGATACATTTTTCAATGAATCGATACATGTATG
2139295 AATGTATCGATACATTTTTCAATGAATCGATACATGTATG
1 AATGTATCGATACATTTTTCAATGAATCGATACATGTATG
2139335 AATGTATCGATACATTTTTCA
1 AATGTATCGATACATTTTTCA
2139356 TCGATACATT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39
Consensus pattern (40 bp):
AATGTATCGATACATTTTTCAATGAATCGATACATGTATG
Found at i:2139360 original size:15 final size:15
Alignment explanation
Indices: 2139340--2139368 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2139330 GTATGAATGT
2139340 ATCGATACATTTTTC
1 ATCGATACATTTTTC
2139355 ATCGATACATTTTT
1 ATCGATACATTTTT
2139369 TAATTTATCG
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:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (15 bp):
ATCGATACATTTTTC
Found at i:2139381 original size:20 final size:20
Alignment explanation
Indices: 2139255--2139355 Score: 121
Period size: 20 Copynumber: 5.0 Consensus size: 20
2139245 TTTTTACCCA
2139255 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * * * *
2139275 GATGAATCGATACATGTATG
1 AATGTATCGATACATTTTTC
2139295 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * * *
2139315 AATGAATCGATACATGTATG
1 AATGTATCGATACATTTTTC
2139335 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
2139355 A
1 A
2139356 TCGATACATT
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:2152417 original size:20 final size:21
Alignment explanation
Indices: 2152362--2152417 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
2152352 CCCTAAGTAA
2152362 AATGTATCGATACA-TAAGAC
1 AATGTATCGATACATTAAGAC
2152382 AATGTATCGATACATTAAGA-
1 AATGTATCGATACATTAAGAC
*
2152402 ATTGTATCGATACATT
1 AATGTATCGATACATT
2152418 GTGCCCAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 29 0.85
21 5 0.15
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (21 bp):
AATGTATCGATACATTAAGAC
Found at i:2155800 original size:14 final size:14
Alignment explanation
Indices: 2155715--2155802 Score: 58
Period size: 14 Copynumber: 6.6 Consensus size: 14
2155705 TGATTTGTCA
*
2155715 TTTGTCAAGAAATG
1 TTTGTCAAGAAATT
*
2155729 GTTGTCAAGAAATT
1 TTTGTCAAGAAATT
* * *
2155743 ATCGTCAAG-AACT
1 TTTGTCAAGAAATT
* *
2155756 TTTGTCGAG-AATG
1 TTTGTCAAGAAATT
* * *
2155769 TTAGT-TAGAAA-C
1 TTTGTCAAGAAATT
2155781 TTTGTCAAGAAATT
1 TTTGTCAAGAAATT
2155795 TTTGTCAA
1 TTTGTCAA
2155803 TACAACCCCC
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
12 6 0.11
13 22 0.40
14 27 0.49
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (14 bp):
TTTGTCAAGAAATT
Found at i:2155891 original size:28 final size:28
Alignment explanation
Indices: 2155847--2156628 Score: 519
Period size: 28 Copynumber: 27.0 Consensus size: 28
2155837 CATCTTTTTA
2155847 TTCAAAGCCCA-AGAGTCAGTGGCACCCT
1 TTCAAAGCCCACA-AGTCAGTGGCACCCT
* *
2155875 TTCAAATCCCATAAGTCAGTGGCACCCTTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC--T
* * ** *
2155905 TTCAAAGCCCACAAGTCAATAGCTTCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** *
2155933 TTCAAAGTACACAAGTTAGTGGCATCCC-
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
*
2155961 TTCGGAAGCCCACAAGTCAGTGGCACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCACCCT
* ** *
2155990 TTCAAAACCCATGAGTCAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * *
2156019 TCCAAAACCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2156047 TTCATAGCCTACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
* *
2156076 TTCAAAGCCCACAAGTCAGTGGCTTCAC-
1 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
** **
2156104 TTCAAAGCCCACACAAGTTGGTGGCATCTTTTT
1 TTCAAAG-CC-CACAAGTCAGTGGCA-C--CCT
* *
2156137 TTCAAAGCCCACGAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
* * *
2156166 TTCAAAGCCTACAAGTCAGTGGCTTCAC-
1 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
** **
2156194 TTCAAAGCCCACACAAGTTGGTGGCATCTTTTT
1 TTCAAAG-CC-CACAAGTCAGTGGCA-C--CCT
*
2156227 TTCAAAGCCCATGAA-TCAGTGGCACCCT
1 TTCAAAGCCCA-CAAGTCAGTGGCACCCT
* * * *
2156255 TTTAAAGCTCACAAGTCAGTGGGCTCAC-
1 TTCAAAGCCCACAAGTCAGT-GGCACCCT
** **
2156283 TTCAAAAGCCCATACAAGTTGGTGGCATCTTTTT
1 TTC-AAAGCCC--ACAAGTCAGTGGCA-C--CCT
*
2156317 TTC-AAGCCCACTGAA-TCAGTGGTACCCTT
1 TTCAAAGCCCAC--AAGTCAGTGGCACCC-T
* *
2156346 TTCAAAGCCCACAAGTTAGTGGCTTCCC-
1 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
2156374 TTCTAAAGCCCACAAGTCAGTGGCACCCTT
1 TTC-AAAGCCCACAAGTCAGTGGCACCC-T
* * *
2156404 TTCAAAAG-TCACGAGTTAGTGGCATCCC-
1 TTC-AAAGCCCACAAGTCAGTGGCA-CCCT
* *
2156432 TTCTAAAACCCATAAGTCAGTGGCACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCACCCT
*
2156461 TTCAAAGCCTACAAGTCAGTGGCACCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* *
2156490 TTCAAAGCCCATAAGTC-GATGGCATCCT
1 TTCAAAGCCCACAAGTCAG-TGGCACCCT
* *
2156518 TTCAAAGTCCACAAGTCCA-TGGCATCCT
1 TTCAAAGCCCACAAGT-CAGTGGCACCCT
* * *
2156546 TTCAAAGTCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
2156574 TTTAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
2156602 TTTAAAGCTCATAAGTCAGTGGCACCC
1 TTCAAAGCCCACAAGTCAGTGGCACCC
2156629 CCTCTATAGC
Statistics
Matches: 593, Mismatches: 111, Indels: 100
0.74 0.14 0.12
Matches are distributed among these distances:
27 3 0.01
28 258 0.44
29 185 0.31
30 79 0.13
31 37 0.06
32 14 0.02
33 14 0.02
34 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:2155993 original size:57 final size:56
Alignment explanation
Indices: 2155847--2156628 Score: 535
Period size: 57 Copynumber: 13.5 Consensus size: 56
2155837 CATCTTTTTA
* *
2155847 TTCAAAGCCCA-AGAGTCAGTGGCACCCTTTCAAATCCCATAAGTCAGTGGCA-CCC
1 TTCAAAGCCCACA-AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * ** * ** *
2155902 TTTTTCAAAGCCCACAAGTCAATAGCTTCATTTCAAAGTACACAAGTTAGTGGCATCCC
1 ---TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * ** *
2155961 TTCGGAAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCATGAGTCAGTGGCATCTC
1 TTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * * *
2156018 TTCCAAAACCCACAAGTCAATGGCACCCTTTCATAGCCTACAAGTCAGTGGCA-CCC
1 TT-CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * ** **
2156074 TTTTCAAAGCCCACAAGTCAGTGGCTTCAC-TTCAAAGCCCACACAAGTTGGTGGCATCTTTTT
1 --TTCAAAGCCCACAAGTCAGTGGC-ACCCTTTCAAAG-CC-CACAAGTCAGTGGCATC---CC
* * * * *
2156137 TTCAAAGCCCACGAGTTAGTGGCACCCTTTTCAAAGCCTACAAGTCAGTGGCTTCAC
1 TTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCATCCC
** ** *
2156194 TTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTTCAAAGCCCATGAA-TCAGTGGCA-CCC
1 TTCAAAG-CC-CACAAGTCAGTGGCA-C--CCTTTCAAAGCCCA-CAAGTCAGTGGCATCCC
* * * * ** **
2156254 TTTTAAAGCTCACAAGTCAGTGGGCTCAC-TTCAAAAGCCCATACAAGTTGGTGGCATCTTTTT
1 -TTCAAAGCCCACAAGTCAGT-GGCACCCTTTC-AAAGCCC--ACAAGTCAGTGGCATC---CC
* * *
2156317 TTC-AAGCCCACTGAA-TCAGTGGTACCCTTTTCAAAGCCCACAAGTTAGTGGCTTCCC
1 TTCAAAGCCCAC--AAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCATCCC
* * *
2156374 TTCTAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAG-TCACGAGTTAGTGGCATCCC
1 TTC-AAAGCCCACAAGTCAGTGGCACCC-TTTC-AAAGCCCACAAGTCAGTGGCATCCC
* * * *
2156432 TTCTAAAACCCATAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTCAGTGGCACCCC
1 TTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * * *
2156489 TTTCAAAGCCCATAAGTC-GATGGCATCCTTTCAAAGTCCACAAGTCCA-TGGCATCCT
1 -TTCAAAGCCCACAAGTCAG-TGGCACCCTTTCAAAGCCCACAAGT-CAGTGGCATCCC
* * * * * *
2156546 TTCAAAGTCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * *
2156602 TTTAAAGCTCATAAGTCAGTGGCACCC
1 TTCAAAGCCCACAAGTCAGTGGCACCC
2156629 CCTCTATAGC
Statistics
Matches: 569, Mismatches: 110, Indels: 92
0.74 0.14 0.12
Matches are distributed among these distances:
55 1 0.00
56 80 0.14
57 189 0.33
58 115 0.20
59 59 0.10
60 38 0.07
61 59 0.10
62 23 0.04
63 5 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCC
Found at i:2156146 original size:33 final size:32
Alignment explanation
Indices: 2156057--2156409 Score: 127
Period size: 29 Copynumber: 11.8 Consensus size: 32
2156047 TTCATAGCCT
* *
2156057 ACAAGTCAGTGGCAC-CCTTTTCAAAG-CC-C
1 ACAAGTTAGTGGCACTTCTTTTCAAAGCCCAC
* **
2156086 ACAAGTCAGTGG--CTTCACTTCAAAGCCCAC
1 ACAAGTTAGTGGCACTTCTTTTCAAAGCCCAC
* *
2156116 ACAAGTTGGTGGCATCTTTTTTTCAAAG-CC-C
1 ACAAGTTAGTGGCA-CTTCTTTTCAAAGCCCAC
* * *
2156147 ACGAGTTAGTGGCAC-CCTTTTCAAAG-CC-T
1 ACAAGTTAGTGGCACTTCTTTTCAAAGCCCAC
* **
2156176 ACAAGTCAGTGG--CTTCACTTCAAAGCCCAC
1 ACAAGTTAGTGGCACTTCTTTTCAAAGCCCAC
* *
2156206 ACAAGTTGGTGGCATCTTTTTTTCAAAGCCCA-
1 ACAAGTTAGTGGCA-CTTCTTTTCAAAGCCCAC
** * * *
2156238 TGAA-TCAGTGGCAC-CCTTTT-AAAG--CTC
1 ACAAGTTAGTGGCACTTCTTTTCAAAGCCCAC
* * ** *
2156265 ACAAGTCAGTGG-GC-TCACTTCAAAAGCCCAT
1 ACAAGTTAGTGGCACTTCTTTTC-AAAGCCCAC
* *
2156296 ACAAGTTGGTGGCATCTTTTTTTC-AAGCCCAC
1 ACAAGTTAGTGGCA-CTTCTTTTCAAAGCCCAC
** * * *
2156328 TGAA-TCAGTGGTAC-CCTTTTCAAAG-CC-C
1 ACAAGTTAGTGGCACTTCTTTTCAAAGCCCAC
**
2156356 ACAAGTTAGTGG--CTTCCCTTCTAAAG-CC-C
1 ACAAGTTAGTGGCACTTCTTTTC-AAAGCCCAC
* *
2156385 ACAAGTCAGTGGCAC-CCTTTTCAAA
1 ACAAGTTAGTGGCACTTCTTTTCAAA
2156410 AGTCACGAGT
Statistics
Matches: 234, Mismatches: 63, Indels: 54
0.67 0.18 0.15
Matches are distributed among these distances:
26 1 0.00
27 9 0.04
28 34 0.15
29 79 0.34
30 31 0.13
31 38 0.16
32 13 0.06
33 25 0.11
34 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (32 bp):
ACAAGTTAGTGGCACTTCTTTTCAAAGCCCAC
Found at i:2156293 original size:180 final size:181
Alignment explanation
Indices: 2155874--2156387 Score: 540
Period size: 180 Copynumber: 2.9 Consensus size: 181
2155864 AGTGGCACCC
* * * *
2155874 TTTCAAATCCCAT-AAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTCAATAGCTTCATTTCAA
1 TTTCAAAGCCCATGAA-TCAGTGGCACCC-TTTTCAAAGCCCACAAGTCAGTGGCTTCACTTCAA
* * ** *** *
2155938 AG--TACACAAGTTAGTGGCATC-CCTTCGGAAGCCCAC--AAGTCAGTGGCACCC-TTTCAAAA
64 AGCCCACACAAGTTGGTGGCATCTTTTTTTCAAGCCCACTGAA-TCAGTGGCACCCTTTTCAAAG
** * * * * *** **
2155997 CCCATGAGTCAGTGGCATCTCTTCCAAA-ACC-CACAAGTCAATGGCA-C--CC
128 CCCACAAGTCAGTGGCTTCACTTCTAAAGCCCACACAAGTTGGTGGCATCTTTT
* * *
2156046 TTTCATAGCCTA-CAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCTTCACTTCAAA
1 TTTCAAAGCCCATGAA-TCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCTTCACTTCAAA
* *
2156110 GCCCACACAAGTTGGTGGCATCTTTTTTTCAAAGCCCAC-GAGTTAGTGGCACCCTTTTCAAAGC
65 GCCCACACAAGTTGGTGGCATCTTTTTTTC-AAGCCCACTGAATCAGTGGCACCCTTTTCAAAGC
*
2156174 CTACAAGTCAGTGGCTTCACTTC-AAAGCCCACACAAGTTGGTGGCATCTTTT
129 CCACAAGTCAGTGGCTTCACTTCTAAAGCCCACACAAGTTGGTGGCATCTTTT
*
2156226 TTTCAAAGCCCATGAATCAGTGGCACCCTTTT-AAAGCTCACAAGTCAGTGGGC-TCACTTCAAA
1 TTTCAAAGCCCATGAATCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGT-GGCTTCACTTC-AA
* *
2156289 AGCCCATACAAGTTGGTGGCATCTTTTTTTCAAGCCCACTGAATCAGTGGTACCCTTTTCAAAGC
64 AGCCCACACAAGTTGGTGGCATCTTTTTTTCAAGCCCACTGAATCAGTGGCACCCTTTTCAAAGC
* *
2156354 CCACAAGTTAGTGGCTTCCCTTCTAAAGCCCACA
129 CCACAAGTCAGTGGCTTCACTTCTAAAGCCCACA
2156388 AGTCAGTGGC
Statistics
Matches: 287, Mismatches: 38, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
171 34 0.12
172 24 0.08
173 17 0.06
174 2 0.01
175 22 0.08
176 29 0.10
177 12 0.04
178 1 0.00
179 31 0.11
180 103 0.36
181 12 0.04
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (181 bp):
TTTCAAAGCCCATGAATCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCTTCACTTCAAAG
CCCACACAAGTTGGTGGCATCTTTTTTTCAAGCCCACTGAATCAGTGGCACCCTTTTCAAAGCCC
ACAAGTCAGTGGCTTCACTTCTAAAGCCCACACAAGTTGGTGGCATCTTTT
Found at i:2156730 original size:34 final size:34
Alignment explanation
Indices: 2156630--2156721 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 34
2156620 GTGGCACCCC
* * *
2156630 CTCTATAGCCTACATAAGCTGGTGGCAACC-C-T
1 CTCTAAAGCCCACACAAGCTGGTGGCAACCTCTT
*
2156662 -TCTAAAGCCCACACAAGCTGGTGGTAACCTCTT
1 CTCTAAAGCCCACACAAGCTGGTGGCAACCTCTT
*
2156695 CTCTAAAGCCCACACAAGTTGGTGGCA
1 CTCTAAAGCCCACACAAGCTGGTGGCA
2156722 TCTCCTTCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
31 25 0.49
32 1 0.02
33 1 0.02
34 24 0.47
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (34 bp):
CTCTAAAGCCCACACAAGCTGGTGGCAACCTCTT
Found at i:2157877 original size:20 final size:20
Alignment explanation
Indices: 2157852--2157899 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2157842 TAGATGTATT
* *
2157852 GATACATTTTTTAATGAATC
1 GATACATTTATGAATGAATC
* *
2157872 GATACATGTATGAATGTATC
1 GATACATTTATGAATGAATC
2157892 GATACATT
1 GATACATT
2157900 CTGTTTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
GATACATTTATGAATGAATC
Done.