Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 27
Found at i:2411294 original size:10 final size:10
Alignment explanation
Indices: 2411255--2411294 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
2411245 TTCATCACAC
2411255 CAAATTCTCT
1 CAAATTCTCT
*
2411265 CAATTTCTCT
1 CAAATTCTCT
*
2411275 CAACTTCTCT
1 CAAATTCTCT
*
2411285 CAAATACTCT
1 CAAATTCTCT
2411295 TATATTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:2412245 original size:31 final size:31
Alignment explanation
Indices: 2412207--2412362 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
2412197 CCCGAAGGAC
* *
2412207 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
2412238 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
2412269 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2412300 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2412331 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2412362 C
1 C
2412363 CCTCGACCCT
Statistics
Matches: 120, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2412798 original size:16 final size:16
Alignment explanation
Indices: 2412777--2412808 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2412767 CTTCTTACCA
2412777 TAGTAACTCCATCACT
1 TAGTAACTCCATCACT
2412793 TAGTAACTCCATCACT
1 TAGTAACTCCATCACT
2412809 GGCTTATCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (16 bp):
TAGTAACTCCATCACT
Found at i:2416286 original size:31 final size:31
Alignment explanation
Indices: 2416248--2416403 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
2416238 CCCGAAGGAC
* *
2416248 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
2416279 CAGTCCATATGTCCCGAAGAACATAGGTAAG
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
2416310 CAGTCCATCTATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
2416341 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2416372 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2416403 C
1 C
2416404 CGTCGACCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 113 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2429735 original size:24 final size:24
Alignment explanation
Indices: 2429703--2429751 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
2429693 GAAAACTTAC
2429703 CGATGCAAAGAGTATTATATAGCT
1 CGATGCAAAGAGTATTATATAGCT
2429727 CGATGCAAAGAGTATTATATAGCT
1 CGATGCAAAGAGTATTATATAGCT
2429751 C
1 C
2429752 AACGCAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (24 bp):
CGATGCAAAGAGTATTATATAGCT
Found at i:2429758 original size:24 final size:24
Alignment explanation
Indices: 2429707--2429759 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
2429697 ACTTACCGAT
* *
2429707 GCAAAGAGTATTATATAGCTCGAT
1 GCAAAGAGTATTATATAGCTCAAC
2429731 GCAAAGAGTATTATATAGCTCAAC
1 GCAAAGAGTATTATATAGCTCAAC
2429755 GCAAA
1 GCAAA
2429760 CCAATCTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (24 bp):
GCAAAGAGTATTATATAGCTCAAC
Found at i:2432099 original size:6 final size:6
Alignment explanation
Indices: 2432088--2432122 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
2432078 GAGAAGAGAA
*
2432088 AAAAAT AAAAAT AAAAAT AAAAGT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
2432123 AGATTAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:2440394 original size:22 final size:20
Alignment explanation
Indices: 2440356--2440403 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
2440346 CGTCATAATT
2440356 ATATAAAAAATTAAATAAAA
1 ATATAAAAAATTAAATAAAA
*
2440376 ATATCAAAAATATTTAATAAAA
1 ATAT-AAAAA-ATTAAATAAAA
*
2440398 AAATAA
1 ATATAA
2440404 TTTTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 7 0.29
22 13 0.54
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
ATATAAAAAATTAAATAAAA
Found at i:2454001 original size:21 final size:21
Alignment explanation
Indices: 2453977--2454021 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2453967 TGTATTTAAA
*
2453977 TAATTTCATATTTCAAAA-ATT
1 TAATTTAAT-TTTCAAAATATT
*
2453998 TAATTTAATTTTTAAAATATT
1 TAATTTAATTTTCAAAATATT
2454019 TAA
1 TAA
2454022 AAATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATTTAATTTTCAAAATATT
Found at i:2458267 original size:18 final size:18
Alignment explanation
Indices: 2458244--2458297 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
2458234 GTGTCACGTT
2458244 AATATTATTTTAAAATAA
1 AATATTATTTTAAAATAA
2458262 AATATTA-TTT-AAA-AA
1 AATATTATTTTAAAATAA
2458277 AATATATATTTTTAAAATAA
1 AATAT-TA-TTTTAAAATAA
2458297 A
1 A
2458298 CGTGACACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.23
16 5 0.16
17 3 0.10
18 10 0.32
19 3 0.10
20 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATTATTTTAAAATAA
Found at i:2458550 original size:48 final size:48
Alignment explanation
Indices: 2458497--2458592 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
2458487 TGATAAAAAC
2458497 GTGAAGACACAAATCGATTCTAATTTTTAATTTAATTGATGAAAGATG
1 GTGAAGACACAAATCGATTCTAATTTTTAATTTAATTGATGAAAGATG
2458545 GTGAAGACACAAATCGATTCTAATTTTTAATTTAATTGATGAAAGATG
1 GTGAAGACACAAATCGATTCTAATTTTTAATTTAATTGATGAAAGATG
2458593 ATCAGTCCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (48 bp):
GTGAAGACACAAATCGATTCTAATTTTTAATTTAATTGATGAAAGATG
Found at i:2462912 original size:20 final size:21
Alignment explanation
Indices: 2462887--2462930 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
2462877 GATTTCTGGG
*
2462887 CAAGGGGAATCG-TACCCATT
1 CAAGGGGAACCGATACCCATT
*
2462907 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2462928 CAA
1 CAA
2462931 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2464646 original size:23 final size:22
Alignment explanation
Indices: 2464587--2464653 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
2464577 TATGGACATC
*
2464587 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
2464609 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
2464631 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
2464654 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:2467811 original size:21 final size:21
Alignment explanation
Indices: 2467785--2467829 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2467775 GATTTCTGGG
* *
2467785 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2467806 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2467827 CAA
1 CAA
2467830 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2468852 original size:2 final size:2
Alignment explanation
Indices: 2468845--2468926 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
2468835 GAACATGTGA
2468845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2468887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2468927 GTTTAAGAGA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2469631 original size:23 final size:22
Alignment explanation
Indices: 2469572--2469638 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
2469562 TATGGACATC
*
2469572 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
*
2469594 ATTCTACGGGCACTTTGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
2469616 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
2469639 TTTATACGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 27 0.66
23 14 0.34
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.27
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:2470653 original size:2 final size:2
Alignment explanation
Indices: 2470646--2470707 Score: 64
Period size: 2 Copynumber: 34.0 Consensus size: 2
2470636 CCACCCCGAT
*
2470646 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2470686 TA T- TT TA TA T- TA -A T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2470708 ATACAAACAT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
1 6 0.12
2 46 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2471769 original size:9 final size:9
Alignment explanation
Indices: 2471755--2471779 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2471745 AATTCAGTTT
2471755 ATTTTATAA
1 ATTTTATAA
2471764 ATTTTATAA
1 ATTTTATAA
2471773 ATTTTAT
1 ATTTTAT
2471780 TTACATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTATAA
Found at i:2473497 original size:31 final size:32
Alignment explanation
Indices: 2473428--2473500 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 32
2473418 GGTCGGATTT
2473428 TGAGTTAAATT-GATATTTTATCTAAGTTTCA
1 TGAGTTAAATTAGATATTTTATCTAAGTTTCA
* * *
2473459 -AAATTAAATTAG-TATTTTATTTGAAGTTT-A
1 TGAGTTAAATTAGATATTTTATCT-AAGTTTCA
2473489 TGAGTTAAATTA
1 TGAGTTAAATTA
2473501 CTAATTAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.48
Consensus pattern (32 bp):
TGAGTTAAATTAGATATTTTATCTAAGTTTCA
Found at i:2480117 original size:12 final size:12
Alignment explanation
Indices: 2480100--2480124 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2480090 GTCAAATAAT
2480100 TTAGGCACCAAA
1 TTAGGCACCAAA
2480112 TTAGGCACCAAA
1 TTAGGCACCAAA
2480124 T
1 T
2480125 GATGCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TTAGGCACCAAA
Found at i:2481297 original size:29 final size:29
Alignment explanation
Indices: 2481249--2481310 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
2481239 AAAAAATATT
2481249 AAATAAATATTAAATTTTAATT-TTATTAA
1 AAATAAATA-TAAATTTTAATTGTTATTAA
*
2481278 AAATAAATA-AACATTATTAATTGTTGTTAA
1 AAATAAATATAA-ATT-TTAATTGTTATTAA
2481308 AAA
1 AAA
2481311 ATAATAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 2 0.07
28 3 0.10
29 15 0.52
30 9 0.31
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATAAATATAAATTTTAATTGTTATTAA
Found at i:2481946 original size:24 final size:24
Alignment explanation
Indices: 2481905--2481959 Score: 94
Period size: 23 Copynumber: 2.3 Consensus size: 24
2481895 TAAATAATTA
2481905 AAAAAAATAAGTGATTTTTTGA-G
1 AAAAAAATAAGTGATTTTTTGAGG
*
2481928 AAAACAATAAGTGATTTTTTGAGG
1 AAAAAAATAAGTGATTTTTTGAGG
2481952 AAAAAAAT
1 AAAAAAAT
2481960 CACCTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.31
Consensus pattern (24 bp):
AAAAAAATAAGTGATTTTTTGAGG
Found at i:2482417 original size:18 final size:18
Alignment explanation
Indices: 2482383--2482429 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
2482373 ATTTTTCTGA
*
2482383 TTTTTAGTTTTTGTTATT
1 TTTTTACTTTTTGTTATT
2482401 TTTTTACTTTCTT-TTATT
1 TTTTTACTTT-TTGTTATT
*
2482419 ATTTT-CTTTTT
1 TTTTTACTTTTT
2482430 CTTTTCCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 2 0.08
17 4 0.15
18 18 0.69
19 2 0.08
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTACTTTTTGTTATT
Found at i:2483244 original size:29 final size:29
Alignment explanation
Indices: 2483210--2483274 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
2483200 AATATGTTAC
2483210 GAAGATTATTGAAGTTGTTTGGATTTCAA
1 GAAGATTATTGAAGTTGTTTGGATTTCAA
2483239 GAAGATTATTGAAGTTGTTTGGATTTCAA
1 GAAGATTATTGAAGTTGTTTGGATTTCAA
2483268 GAAGATT
1 GAAGATT
2483275 GTTTTGTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.40
Consensus pattern (29 bp):
GAAGATTATTGAAGTTGTTTGGATTTCAA
Found at i:2483504 original size:10 final size:10
Alignment explanation
Indices: 2483486--2483530 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
2483476 TGTTCGTTTA
*
2483486 TTATATTCGT
1 TTATGTTCGT
2483496 TTATGTTCGT
1 TTATGTTCGT
* *
2483506 TTTTGTTCATT
1 TTATGTTC-GT
2483517 TTATGTTCGT
1 TTATGTTCGT
2483527 TTAT
1 TTAT
2483531 CATTTAAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.13, C:0.09, G:0.13, T:0.64
Consensus pattern (10 bp):
TTATGTTCGT
Found at i:2493344 original size:14 final size:15
Alignment explanation
Indices: 2493325--2493356 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2493315 CTTCAAATTC
2493325 CCTTTCTTC-CTCTT
1 CCTTTCTTCTCTCTT
2493339 CCTTTCTTCTCTCTT
1 CCTTTCTTCTCTCTT
2493354 CCT
1 CCT
2493357 CCATTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (15 bp):
CCTTTCTTCTCTCTT
Found at i:2501058 original size:2 final size:2
Alignment explanation
Indices: 2501051--2501080 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2501041 TGGTGAAGCA
2501051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2501081 GAGTGATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2505789 original size:2 final size:2
Alignment explanation
Indices: 2505782--2505838 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
2505772 CATGAGTTAG
2505782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2505824 AC AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT A
2505839 GGAATTTGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2506599 original size:30 final size:30
Alignment explanation
Indices: 2506497--2506603 Score: 108
Period size: 31 Copynumber: 3.5 Consensus size: 30
2506487 GTCGAGGGTT
* *
2506497 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTAGGTTCTTTGGA-ACATATGGACAG
* * *
2506527 TATACCTATGTTCTATGGAACATATGGACAAT
1 T-TACCTAGGTTCTTTGGAACATATGGAC-AG
* *
2506559 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCTAGGTTCTTTGGAACATATGGACAG
*
2506589 TTACCGAGGTTCTTT
1 TTACCTAGGTTCTTT
2506604 ATTACCTCTG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
30 16 0.25
31 41 0.63
32 8 0.12
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (30 bp):
TTACCTAGGTTCTTTGGAACATATGGACAG
Found at i:2506621 original size:30 final size:30
Alignment explanation
Indices: 2506559--2506647 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
2506549 TATGGACAAT
* * * *
2506559 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCGAGGTTCTTTGTGACCTCTGGATAG
* *
2506589 TTACCGAGGTTCTTTATTACCTCTGGATAG
1 TTACCGAGGTTCTTTGTGACCTCTGGATAG
* *
2506619 TTATCG-GGGTCTTTGTGACCTCTGGATAG
1 TTACCGAGGTTCTTTGTGACCTCTGGATAG
2506648 GTCCTTCGGG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
29 20 0.41
30 29 0.59
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (30 bp):
TTACCGAGGTTCTTTGTGACCTCTGGATAG
Found at i:2510460 original size:2 final size:2
Alignment explanation
Indices: 2510453--2510511 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
2510443 CATGAGTTAG
2510453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2510495 AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
2510512 GGAATTTGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2511257 original size:31 final size:31
Alignment explanation
Indices: 2511169--2511276 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 31
2511159 AGTCGAGGGT
* * *
2511169 TTTACCTATG-TCTTTCGAGACATATGGAAAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
2511200 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
2511231 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
2511262 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
2511277 ATGACCTCTG
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
30 13 0.21
31 46 0.74
32 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:2511283 original size:30 final size:30
Alignment explanation
Indices: 2511222--2511297 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
2511212 CTAAGGAACA
* *
2511222 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAGGACC
* *
2511253 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
2511283 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
2511298 GTGTCTTTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:2524929 original size:136 final size:135
Alignment explanation
Indices: 2524554--2525044 Score: 779
Period size: 136 Copynumber: 3.6 Consensus size: 135
2524544 TTGTTAGATT
* * * *
2524554 GAACAAGTTCTTCGCATTATGAACTTCTTCTCTCT-TTTGGATGAGTTTTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
* * * * * *
2524618 TTCACTGAAAATGTTGATCCCTCAAGCGAGGCGTCCCTGACTCGAAATG-CTGTGAATCGAGTGA
66 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTC-ATGAATCGAGTGA
2524682 TAGGTC
130 TAGGTC
*
2524688 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
2524753 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGAT
66 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGAT
2524818 AGGTC
131 AGGTC
*
2524823 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTTTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTT-GGATGAGTTCTTCTCATTATGAACT
* ** *
2524888 CTCCATTGGAAATGTCAATTCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGA
65 CTCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGA
2524953 TAGGTC
130 TAGGTC
*
2524959 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCT-TTGGATGAGTTCTTCTCATTATGAACT
*
2525024 CTCCATTGAAAATGCTGATCC
65 CTCCATTGAAAATGTTGATCC
2525045 ACCTCTTTTT
Statistics
Matches: 329, Mismatches: 24, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
134 32 0.10
135 126 0.38
136 170 0.52
137 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGAT
AGGTC
Found at i:2525134 original size:113 final size:118
Alignment explanation
Indices: 2524954--2525162 Score: 311
Period size: 113 Copynumber: 1.8 Consensus size: 118
2524944 ATCGAGTGAT
* *
2524954 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTAGGACGAGTTCTTCTCATTAT
*
2525019 GAACTCTCCATTGAAAATGCTGATCCACCTCTTTTTGTGATGGAACCAAACCA
66 GAACTCTCCACTGAAAATGCTGATCCACCTCTTTTTGTGATGGAACCAAACCA
* * *
2525072 AGGTTGAACAAGTTCTTCTTATTATGAAC-T-TTCT-CCT-T-TAGGACGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTAGGACGAGTTCTTCTCATTAT
* *
2525132 GAACTCTTCACTGAAAATGTTGATCCACCTC
66 GAACTCTCCACTGAAAATGCTGATCCACCTC
2525163 ATTCTGCGGT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
113 48 0.58
114 1 0.01
115 3 0.04
116 4 0.05
117 1 0.01
118 26 0.31
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (118 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTAGGACGAGTTCTTCTCATTAT
GAACTCTCCACTGAAAATGCTGATCCACCTCTTTTTGTGATGGAACCAAACCA
Found at i:2526033 original size:10 final size:10
Alignment explanation
Indices: 2526013--2526051 Score: 60
Period size: 10 Copynumber: 3.7 Consensus size: 10
2526003 TCCTTCTTCA
2526013 TTTTTTCTTTC
1 TTTTTT-TTTC
2526024 TTTTTTTTTC
1 TTTTTTTTTC
2526034 TTTTTTTTTC
1 TTTTTTTTTC
2526044 TTCTTTTT
1 TT-TTTTT
2526052 ATTTTTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 16 0.59
11 11 0.41
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:2526041 original size:23 final size:26
Alignment explanation
Indices: 2526013--2526072 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
2526003 TCCTTCTTCA
*
2526013 TTTTTTCTT-TCTTT-TTTTTTCTTT
1 TTTTTTCTTCTCTTTATTTTTTCATT
*
2526037 TTTTTTCTTCTTTTTATTTTTTCATT
1 TTTTTTCTTCTCTTTATTTTTTCATT
2526063 TTTTTTCTTC
1 TTTTTTCTTC
2526073 AAGCATAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 9 0.28
25 4 0.12
26 19 0.59
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (26 bp):
TTTTTTCTTCTCTTTATTTTTTCATT
Found at i:2526057 original size:20 final size:19
Alignment explanation
Indices: 2526012--2526068 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
2526002 CTCCTTCTTC
2526012 ATTTTTTCTTTCTTTTTTT
1 ATTTTTTCTTTCTTTTTTT
* *
2526031 TTCTTTTTTTTTCTTCTTTTT
1 AT-TTTTTCTTTCTT-TTTTT
2526052 ATTTTTTCATTT-TTTTT
1 ATTTTTTC-TTTCTTTTT
2526069 CTTCAAGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 4 0.13
20 18 0.58
21 9 0.29
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (19 bp):
ATTTTTTCTTTCTTTTTTT
Found at i:2526073 original size:13 final size:13
Alignment explanation
Indices: 2526006--2526073 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
2525996 CGAACCCTCC
2526006 TTCTTCATTTTTT
1 TTCTTCATTTTTT
*
2526019 CT-TTC--TTTTT
1 TTCTTCATTTTTT
*
2526029 TT-TTCTTTTTTT
1 TTCTTCATTTTTT
2526041 TTCTTC-TTTTTAT
1 TTCTTCATTTTT-T
*
2526054 TTTTTCATTTTTT
1 TTCTTCATTTTTT
2526067 TTCTTCA
1 TTCTTCA
2526074 AGCATAGTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
10 9 0.20
12 15 0.33
13 17 0.37
14 5 0.11
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTCATTTTTT
Found at i:2539921 original size:13 final size:14
Alignment explanation
Indices: 2539881--2539919 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
2539871 TATTATTGTT
2539881 ATTATATATTTTAAC
1 ATTAT-TATTTTAAC
2539896 ATTATTATTTTAA-
1 ATTATTATTTTAAC
2539909 ATTAATTATTT
1 ATT-ATTATTT
2539920 AATAACTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.13
14 15 0.65
15 5 0.22
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTATTTTAAC
Found at i:2546445 original size:16 final size:16
Alignment explanation
Indices: 2546421--2546454 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2546411 TATCGCCGAT
*
2546421 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
2546437 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
2546453 CG
1 CG
2546455 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:2548176 original size:16 final size:16
Alignment explanation
Indices: 2548157--2548200 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
2548147 CTCGTTAAAC
*
2548157 TCGTTGCTCATTAAGT
1 TCGTTACTCATTAAGT
* *
2548173 TCGTTACTCGTTAAGC
1 TCGTTACTCATTAAGT
*
2548189 TCGATACTCATT
1 TCGTTACTCATT
2548201 GCCAGTCTCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (16 bp):
TCGTTACTCATTAAGT
Found at i:2556818 original size:11 final size:11
Alignment explanation
Indices: 2556802--2556826 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2556792 ATGAACGGGT
2556802 GGTTAATATAC
1 GGTTAATATAC
2556813 GGTTAATATAC
1 GGTTAATATAC
2556824 GGT
1 GGT
2556827 GTTACCAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:2557385 original size:182 final size:181
Alignment explanation
Indices: 2556980--2557453 Score: 664
Period size: 182 Copynumber: 2.6 Consensus size: 181
2556970 GATCCAGATT
* * * * * **
2556980 AAAAATGTATCGATCCACGACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
2557045 AAACCGGTAAAGCGGTACCGAATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAAC-ATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
2557110 GTTAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTGTCGATACTTTCA
130 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTGTCGATACTTTAA
* * *
2557162 AAAAATATATCGATCAACAATGATATAACAGGTAAAAATATGATAAATA-TGGTATCAAAATGAT
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAA-ACCGGTATCAAAATGAT
* * *
2557226 GAAACCGGTAAAACACTACCGAATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTT
65 AAAACCGGTAAAACA-TACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
2557290 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
129 CGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTGTCGATACTTTAA
* *
2557343 AAAAATGTATCGATCTAACAACGATCTAACATGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* *
2557408 AAAACCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAA-CATACCGAATATATTAAAAGTGTCGATACTTT
2557454 CGTAAGTACG
Statistics
Matches: 257, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
181 82 0.32
182 173 0.67
183 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTGTCGATACTTTAA
Found at i:2557422 original size:17 final size:19
Alignment explanation
Indices: 2557383--2557425 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2557373 ATGTAAAAAT
2557383 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
2557403 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
2557420 ATGATA
1 ATGATA
2557426 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:2559581 original size:15 final size:15
Alignment explanation
Indices: 2559561--2559593 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2559551 TGGTTGTATT
*
2559561 GGGGGATGACGGTGA
1 GGGGGACGACGGTGA
2559576 GGGGGACGACGGTGA
1 GGGGGACGACGGTGA
2559591 GGG
1 GGG
2559594 AAAACAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.64, T:0.09
Consensus pattern (15 bp):
GGGGGACGACGGTGA
Found at i:2559702 original size:21 final size:21
Alignment explanation
Indices: 2559676--2559716 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2559666 AAGACAATCA
2559676 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
* *
2559697 AGAGTCGAAGATACACTTGA
1 AGAGTCGAAGAGAAACTTGA
2559717 GAGGCATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:2559790 original size:33 final size:33
Alignment explanation
Indices: 2559753--2559818 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2559743 AAATAGATGG
* *
2559753 AGTGGTGAAAGAAGTAGAGGTGTTGATGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
2559786 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2559819 TCTTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2561265 original size:2 final size:2
Alignment explanation
Indices: 2561258--2561283 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2561248 ATGGGGAAGG
2561258 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2561284 CTCCGGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2563742 original size:184 final size:184
Alignment explanation
Indices: 2563429--2563777 Score: 637
Period size: 184 Copynumber: 1.9 Consensus size: 184
2563419 ATATCAGCAT
*
2563429 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCACAATTATAATGTA
*
2563494 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTATACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACC
2563559 TATATCGACACTTTTTAATATTGTGTCGC-TACTTTACGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTC-CATACTTTACGTCCAGAATGGATGAAA
2563613 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCACAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCACAATTATAATGTA
* * *
2563678 ATAGGTACTTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACC
2563743 TATATCGACACTTTTTAATATTGTGTCCATACTTT
131 TATATCGACACTTTTTAATATTGTGTCCATACTTT
2563778 TAAGTAACGC
Statistics
Matches: 159, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 1 0.01
184 158 0.99
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (184 bp):
AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCACAATTATAATGTA
ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACC
TATATCGACACTTTTTAATATTGTGTCCATACTTTACGTCCAGAATGGATGAAA
Found at i:2567111 original size:182 final size:182
Alignment explanation
Indices: 2566476--2567497 Score: 1696
Period size: 182 Copynumber: 5.6 Consensus size: 182
2566466 TTTTACCTTT
* *
2566476 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATC-AGTCCA
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGA-TCCA
* * *
2566540 TAACAATATAATAGGTAAAAATATGACAAAACCGGTCTTGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
* *
2566605 CCGGTTATATTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
2566658 TTTAAAAGAGAAG-AGTTATATCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
2566722 AACAATATAACATGTAAAAATATGACAAAACCGGTTTCGAAATGACAAAACATGTAAAGTGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
2566787 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-A-TTTTAGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
2566837 -TTAATAAGAGAAGAAGTTATAGCGCCAATAATGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
**
2566901 TAACAATATAACATGTAAAAATATGACAAAATTGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
2566966 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
2567019 TTTAAAAGAGAATAAGTTATAGCGCCAATAAAGTGTCGATACTTGATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
2567084 AACAATATAACATGTAATAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTTAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
2567149 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATAGACACTTTTAGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
2567201 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCAATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
2567266 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
2567331 GGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
2567383 -TTAATAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* * * **
2567447 TAATAATATAACATGTAAAAATATGATAAAATCGGTCTATAAATGACAAAA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
2567498 GGTGAACGCA
Statistics
Matches: 788, Mismatches: 45, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
178 4 0.01
179 15 0.02
180 151 0.19
181 151 0.19
182 463 0.59
183 4 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:2567703 original size:23 final size:23
Alignment explanation
Indices: 2567633--2567694 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
2567623 AAATAGGTCA
2567633 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
2567656 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
2567679 ATATAAGCGCTACCTA
1 ATATAAGCGCTACCTA
2567695 ATATGTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2567744 original size:87 final size:87
Alignment explanation
Indices: 2567643--2567818 Score: 298
Period size: 87 Copynumber: 2.0 Consensus size: 87
2567633 ATATAAGCGC
*
2567643 TACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTA
1 TACCTATTACATTATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTA
2567708 CTTGATAATATTTCCGGTTAAA
66 CTTGATAATATTTCCGGTTAAA
** * * *
2567730 TACCTATTTTATTATATAAGCGCTATATATTACATTATATAAGTGTTACCTAATATGTTATTGTA
1 TACCTATTACATTATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTA
2567795 CTTGATAATATTTCCGGTTAAA
66 CTTGATAATATTTCCGGTTAAA
2567817 TA
1 TA
2567819 ATATAACATA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (87 bp):
TACCTATTACATTATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTA
CTTGATAATATTTCCGGTTAAA
Found at i:2572452 original size:2 final size:2
Alignment explanation
Indices: 2572445--2572469 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2572435 ACATTTTTAC
2572445 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2572470 CACATGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2580545 original size:20 final size:20
Alignment explanation
Indices: 2580510--2580547 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2580500 TCACACCAAA
* *
2580510 TTCTCTCAACTTCTCTTAAC
1 TTCTCTCAAATACTCTTAAC
2580530 TTCTCTCAAATACTCTTA
1 TTCTCTCAAATACTCTTA
2580548 TAATCTATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.45
Consensus pattern (20 bp):
TTCTCTCAAATACTCTTAAC
Found at i:2580604 original size:9 final size:9
Alignment explanation
Indices: 2580592--2580643 Score: 65
Period size: 9 Copynumber: 6.1 Consensus size: 9
2580582 TAATATTTTG
2580592 TATTTAATT
1 TATTTAATT
*
2580601 TATTTAA-G
1 TATTTAATT
2580609 TATTTAATT
1 TATTTAATT
2580618 TATTTAA--
1 TATTTAATT
2580625 TATTTAATT
1 TATTTAATT
*
2580634 TAATTAATT
1 TATTTAATT
2580643 T
1 T
2580644 TTTTCAGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 7 0.19
8 7 0.19
9 23 0.62
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:2580604 original size:16 final size:16
Alignment explanation
Indices: 2580585--2580635 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
2580575 ATATTTTTAA
*
2580585 TATTTTGTATTTAATT
1 TATTTAGTATTTAATT
2580601 TATTTAAGTATTTAATT
1 TATTT-AGTATTTAATT
*
2580618 TATTTAATATTTAATT
1 TATTTAGTATTTAATT
2580634 TA
1 TA
2580636 ATTAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 17 0.53
17 15 0.47
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (16 bp):
TATTTAGTATTTAATT
Found at i:2580613 original size:17 final size:17
Alignment explanation
Indices: 2580591--2580640 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
2580581 TTAATATTTT
2580591 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
2580608 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
*
2580625 -TATTTAATTTAATTAA
1 GTATTTAATTTATTTAA
2580641 TTTTTTTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 15 0.47
17 17 0.53
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:2580640 original size:16 final size:16
Alignment explanation
Indices: 2580592--2580641 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
2580582 TAATATTTTG
2580592 TATTTAATTTATTTAA
1 TATTTAATTTATTTAA
2580608 GTATTTAATTTATTTAA
1 -TATTTAATTTATTTAA
*
2580625 TATTTAATTTAATTAA
1 TATTTAATTTATTTAA
2580641 T
1 T
2580642 TTTTTTCAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 16 0.50
17 16 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTAATTTATTTAA
Found at i:2584293 original size:16 final size:16
Alignment explanation
Indices: 2584272--2584303 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2584262 ATTGTCCTCC
2584272 TGATTTCAAGGCTTTA
1 TGATTTCAAGGCTTTA
*
2584288 TGATTTCAAGGTTTTA
1 TGATTTCAAGGCTTTA
2584304 CCTTGACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (16 bp):
TGATTTCAAGGCTTTA
Found at i:2590765 original size:3 final size:3
Alignment explanation
Indices: 2590757--2590895 Score: 217
Period size: 3 Copynumber: 46.7 Consensus size: 3
2590747 ATAATATAAA
* * *
2590757 TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT AAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2590805 TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2590853 TAT TAT TAT TAT TAT TAT TAT CAT TAT CA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2590896 AATATATTAA
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
2 1 0.01
3 124 0.99
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2591324 original size:15 final size:16
Alignment explanation
Indices: 2591304--2591333 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2591294 ACAGAATCGG
2591304 AGAGAAAA-AAAAAAC
1 AGAGAAAAGAAAAAAC
2591319 AGAGAAAAGAAAAAA
1 AGAGAAAAGAAAAAA
2591334 ACAAACTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (16 bp):
AGAGAAAAGAAAAAAC
Found at i:2592942 original size:18 final size:17
Alignment explanation
Indices: 2592919--2592969 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
2592909 TTCTTTTCAA
2592919 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
2592936 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
2592954 ATGTTTTATTTTATTT
1 ATTTTTTA-TTTATTT
2592970 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 17 0.63
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:2592991 original size:13 final size:15
Alignment explanation
Indices: 2592960--2592996 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
2592950 TTATATGTTT
2592960 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
2592975 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
2592988 TA-TTTATTT
1 TATTTTATTT
2592997 TTATGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:2597671 original size:17 final size:17
Alignment explanation
Indices: 2597649--2597684 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2597639 ACCTTACCAG
2597649 TACCATATGCAGAGGTC
1 TACCATATGCAGAGGTC
2597666 TACCATATGCAGAGGTC
1 TACCATATGCAGAGGTC
2597683 TA
1 TA
2597685 TGATTCGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (17 bp):
TACCATATGCAGAGGTC
Found at i:2603029 original size:222 final size:220
Alignment explanation
Indices: 2602645--2603085 Score: 823
Period size: 222 Copynumber: 2.0 Consensus size: 220
2602635 TGAACCTGAA
*
2602645 CAACAAACTGATGACCGAACTTTACACAGTTCAAGATCAAACATGCAAACTCAGTGGCATATCGT
1 CAACAAAATGATGACCGAACTTTACACAGTTCAAGATCAAACATGCAAACTCAGTGGCATATCGT
2602710 CCAAAGATGAATGGGCAGTTGAAGCAGCAAATAAAAACATCAAGAGAATCATTACAAGACTACTG
66 CCAAAGATGAATGGGCAGTTGAAGCAGCAAATAAAAACATCAAGAGAATCATTACAAGACTACTG
2602775 AAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTCTATATGCATACCGAACTACTGTTCGA
131 AAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTCTATATGCATACCGAACTACTGTTCGA
2602840 ACATCTACTGGGGCAACGCCTTTTC
196 ACATCTACTGGGGCAACGCCTTTTC
2602865 CAACAAAATGATGACCGAACTTTGTACACAGTTCAAGATC-AA-ATGCAAACTCAGTGGCATATC
1 CAACAAAATGATGACCGAAC-TT-TACACAGTTCAAGATCAAACATGCAAACTCAGTGGCATATC
2602928 GTCCAAAGATGAATGGGGCAGTTGAAGCAGCAAATAAAAACATCAAGAGAATCATTACAAAGACT
64 GTCCAAAGATGAAT-GGGCAGTTGAAGCAGCAAATAAAAACATCAAGAGAATCATTAC-AAGACT
2602993 ACTGAAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTCTATATGCATACCGAACTACTGT
127 ACTGAAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTCTATATGCATACCGAACTACTGT
2603058 TCGAACATCTACTGGGGCAACGCCTTTT
192 TCGAACATCTACTGGGGCAACGCCTTTT
2603086 TCTTTAGTCT
Statistics
Matches: 216, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
220 54 0.25
221 47 0.22
222 115 0.53
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (220 bp):
CAACAAAATGATGACCGAACTTTACACAGTTCAAGATCAAACATGCAAACTCAGTGGCATATCGT
CCAAAGATGAATGGGCAGTTGAAGCAGCAAATAAAAACATCAAGAGAATCATTACAAGACTACTG
AAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTCTATATGCATACCGAACTACTGTTCGA
ACATCTACTGGGGCAACGCCTTTTC
Found at i:2603525 original size:10 final size:10
Alignment explanation
Indices: 2603502--2603535 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
2603492 ATTATGCTTG
2603502 AAGAAAACAAA
1 AAGAAAA-AAA
2603513 AAGAAAAAAA
1 AAGAAAAAAA
2603523 AAGAAAGAAAA
1 AAGAAA-AAAA
2603534 AA
1 AA
2603536 AAACGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:2603529 original size:14 final size:15
Alignment explanation
Indices: 2603512--2603543 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2603502 AAGAAAACAA
2603512 AAAGAAAAAAAAA-G
1 AAAGAAAAAAAAACG
2603526 AAAGAAAAAAAAACG
1 AAAGAAAAAAAAACG
2603541 AAA
1 AAA
2603544 AAAGGGGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAACG
Found at i:2603912 original size:19 final size:19
Alignment explanation
Indices: 2603884--2603920 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2603874 GTTCAACTTA
*
2603884 TTGGAGATTCAATTTATTT
1 TTGGAAATTCAATTTATTT
2603903 TTGGAAATTCAATTTATT
1 TTGGAAATTCAATTTATT
2603921 CTTTTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (19 bp):
TTGGAAATTCAATTTATTT
Found at i:2604846 original size:52 final size:52
Alignment explanation
Indices: 2604779--2605503 Score: 1337
Period size: 52 Copynumber: 13.9 Consensus size: 52
2604769 TGAATGTGCT
2604779 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
2604831 CATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
2604883 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
2604935 CATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
2604987 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
2605039 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
2605091 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
2605143 CATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
2605195 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAA
* * *
2605247 CATAGCATCTTCTGAAAGTGTTCTTTAAGTTATCTGATCTGATTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
2605299 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
2605351 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAA
*
2605403 CATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
2605455 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
2605504 AAATCAAGTA
Statistics
Matches: 652, Mismatches: 17, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
51 4 0.01
52 644 0.99
53 4 0.01
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.37
Consensus pattern (52 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
Found at i:2606366 original size:114 final size:114
Alignment explanation
Indices: 2606142--2606901 Score: 1188
Period size: 114 Copynumber: 6.8 Consensus size: 114
2606132 ATTCAAATCT
* **
2606142 ATCATTTGAAGGATTGACA-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATCAACATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
2606206 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTC
2606255 ATCATTTGATGGATCAACATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATCAACATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
2606320 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTC
* ** *
2606369 ATCA-CT--T-G------ATTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATCAACATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
2606424 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATCC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTC
* * * *
2606473 GTCATTTGATGAATCAGC-TTTTCCAGAGAAAGTTCGTAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATCAACATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
2606537 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTC
* * *
2606586 ATCATTTGGTGAATCATC-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATCAACATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
2606650 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTC
2606699 ATCATTTGATGGATCAATC-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 ATCATTTGATGGATCAA-CATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
2606763 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC
65 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTC
*
2606813 ATTATTTGATGGATCAACATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATCAACATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
2606878 AGAAAAAGTTCATAATGAGAAGAA
66 AGAAGAAGTTCATAATGAGAAGAA
2606902 CTCATCAAGA
Statistics
Matches: 599, Mismatches: 35, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
104 93 0.16
105 1 0.00
107 1 0.00
110 1 0.00
111 1 0.00
113 225 0.38
114 277 0.46
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (114 bp):
ATCATTTGATGGATCAACATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTC
Found at i:2606513 original size:113 final size:113
Alignment explanation
Indices: 2606390--2606901 Score: 862
Period size: 113 Copynumber: 4.5 Consensus size: 113
2606380 TTCCAGTTAG
2606390 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
2606455 AACCTTTTATTTGAATCCGTCATTTGATGAATCAGCTTTTCCAGAGAA
66 AACCTTTTACTTGAATCCATCATTTGATGAATCATCTTTTCCAGAGAA
* *
2606503 AGTTCGTAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
2606568 AACCTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAA
66 AACCTTTTACTTGAATCCATCATTTGATGAATCATCTTTTCCAGAGAA
2606616 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
2606681 AACCTTTTGCTTGAATTCATCATTTGATGGATCAATCTTTTCCAGAGAA
66 AACCTTTTACTTGAATCCATCATTTGATGAATC-ATCTTTTCCAGAGAA
2606730 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * *
2606795 AACCTTTTGCTTGAATTCATTATTTGATGGATCAACATTTTCCAGAGAA
66 AACCTTTTACTTGAATCCATCATTTGATGAATCATC-TTTTCCAGAGAA
*
2606844 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
2606902 CTCATCAAGA
Statistics
Matches: 380, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
113 199 0.52
114 181 0.48
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTACTTGAATCCATCATTTGATGAATCATCTTTTCCAGAGAA
Found at i:2607167 original size:3 final size:3
Alignment explanation
Indices: 2607159--2607298 Score: 235
Period size: 3 Copynumber: 46.7 Consensus size: 3
2607149 ATAATATAAA
* *
2607159 TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2607207 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2607255 TAT TAT TAT TAT TAT TAT CAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2607299 AATATATTAA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 127 1.00
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2607723 original size:15 final size:16
Alignment explanation
Indices: 2607703--2607732 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2607693 ACAGAATCGG
2607703 AGAGAAAA-AAAAAAT
1 AGAGAAAAGAAAAAAT
2607718 AGAGAAAAGAAAAAA
1 AGAGAAAAGAAAAAA
2607733 ACAAACTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AGAGAAAAGAAAAAAT
Found at i:2611527 original size:20 final size:20
Alignment explanation
Indices: 2611502--2611542 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2611492 TGCGATATCT
2611502 GGTTGGTATACTGAATTATG
1 GGTTGGTATACTGAATTATG
*
2611522 GGTTGGTGTACTGAATTATG
1 GGTTGGTATACTGAATTATG
2611542 G
1 G
2611543 CTTAGAGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.34, T:0.39
Consensus pattern (20 bp):
GGTTGGTATACTGAATTATG
Found at i:2612147 original size:17 final size:17
Alignment explanation
Indices: 2612125--2612161 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
2612115 AAGCTGGAGT
2612125 TTGTTAGTTGTTAAAGC
1 TTGTTAGTTGTTAAAGC
2612142 TTGTTAGTTGTTAAAGC
1 TTGTTAGTTGTTAAAGC
2612159 TTG
1 TTG
2612162 CTGTTAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (17 bp):
TTGTTAGTTGTTAAAGC
Found at i:2613755 original size:20 final size:21
Alignment explanation
Indices: 2613730--2613771 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2613720 TATCAAATTA
*
2613730 TTTTAAATTAT-TTATTTATT
1 TTTTAAATCATATTATTTATT
*
2613750 TTTTAAATCATATTGTTTATT
1 TTTTAAATCATATTATTTATT
2613771 T
1 T
2613772 ATTTGAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTAAATCATATTATTTATT
Found at i:2615146 original size:50 final size:50
Alignment explanation
Indices: 2615042--2615152 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
2615032 GCCCCATGAA
* * * *
2615042 CCGCGCTATACGCTGATTTTGCGCCACGTGGGTATAGCGCGCCCCCTGTC
1 CCGCGCTATACGCTGATCTGGCGCCACGTGCGTATAGCGCGCCACCTGTC
* * * * *
2615092 CCGCGATATACGGTGATCTGGCGCCACGTGCGTATAGTGTGCCACTTGAT-
1 CCGCGCTATACGCTGATCTGGCGCCACGTGCGTATAGCGCGCCACCTG-TC
2615142 CCGCGCTATAC
1 CCGCGCTATAC
2615153 CTGGGTATCT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 49 0.98
51 1 0.02
ACGTcount: A:0.15, C:0.32, G:0.28, T:0.24
Consensus pattern (50 bp):
CCGCGCTATACGCTGATCTGGCGCCACGTGCGTATAGCGCGCCACCTGTC
Found at i:2615614 original size:111 final size:111
Alignment explanation
Indices: 2615420--2615744 Score: 540
Period size: 111 Copynumber: 3.0 Consensus size: 111
2615410 TGGAAATCAT
*
2615420 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
2615485 TATTTAGTTAATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
2615531 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
2615596 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
2615642 ATATCTCGACACTTTGCTGATACGGTAAC------A--TTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
2615699 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAAAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
2615745 TTTTTGTAAT
Statistics
Matches: 207, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
103 71 0.34
105 1 0.00
111 135 0.65
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:2617620 original size:3 final size:3
Alignment explanation
Indices: 2617612--2617664 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
2617602 ACATGCTCAG
* * * **
2617612 GAC GAC GAC GAC GAC GAT GAC GAC GAT GAC GAT GGT GAC GAC GAC GAC
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC
2617660 GAC GA
1 GAC GA
2617665 TGATGACAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.25, G:0.36, T:0.08
Consensus pattern (3 bp):
GAC
Found at i:2617626 original size:9 final size:9
Alignment explanation
Indices: 2617612--2617667 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
2617602 ACATGCTCAG
*
2617612 GACGACGAC
1 GACGACGAT
2617621 GACGACGAT
1 GACGACGAT
2617630 GACGACGAT
1 GACGACGAT
* *
2617639 GACGATGGT
1 GACGACGAT
*
2617648 GACGACGAC
1 GACGACGAT
2617657 GACGACGAT
1 GACGACGAT
2617666 GA
1 GA
2617668 TGACAGCGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.36, T:0.09
Consensus pattern (9 bp):
GACGACGAT
Found at i:2620437 original size:51 final size:52
Alignment explanation
Indices: 2620335--2620477 Score: 150
Period size: 51 Copynumber: 2.8 Consensus size: 52
2620325 CCCTACGTGG
* *
2620335 CGTATAGCGCGG-AGCAGGGGGCGCGCTATAC-CCTACGGGTAATCCAGTCAA
1 CGTATAGCGCGGTA-CAGGGGGCGCGCTATACTCCTACGGGTAAGCCAATCAA
* * *
2620386 CGTATAGCGCGGTACAGGGGACGCGCTATACTCC-ACGTG-ACGCCAAATCAA
1 CGTATAGCGCGGTACAGGGGGCGCGCTATACTCCTACGGGTAAGCC-AATCAA
* * * * *
2620437 CATATAACGCGGTTCAGGGGGCGCGCTTTACTACTACGGGT
1 CGTATAGCGCGGTACAGGGGGCGCGCTATACTCCTACGGGT
2620478 GTTAGATCAA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
50 3 0.04
51 65 0.87
52 7 0.09
ACGTcount: A:0.24, C:0.27, G:0.31, T:0.18
Consensus pattern (52 bp):
CGTATAGCGCGGTACAGGGGGCGCGCTATACTCCTACGGGTAAGCCAATCAA
Found at i:2626927 original size:30 final size:30
Alignment explanation
Indices: 2626893--2626961 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 30
2626883 TTAAGCATCA
2626893 AAAGTATTTTTTTGGTCAAAATA-AGTACCT
1 AAAGTATTTTTTTGGTCAAAATAGA-TACCT
*
2626923 AAAGTTATCTTTTTGGTCAAAATAGATACCT
1 AAAG-TATTTTTTTGGTCAAAATAGATACCT
2626954 AAAGTATT
1 AAAGTATT
2626962 CAATTTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 7 0.20
31 27 0.77
32 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (30 bp):
AAAGTATTTTTTTGGTCAAAATAGATACCT
Found at i:2627091 original size:28 final size:28
Alignment explanation
Indices: 2627048--2627149 Score: 105
Period size: 31 Copynumber: 3.5 Consensus size: 28
2627038 AAAGTGTTTG
* * * *
2627048 AATAGTTTAGGCACCTGTTTTGACATAA
1 AATACTTTAGGTACCTATTTTGACAAAA
2627076 AATACTTTAGGTACCTATTTTGACTAAAA
1 AATACTTTAGGTACCTATTTTGAC-AAAA
**
2627105 ATATAACTTTAGGTATTTATTTTGATCAAAA
1 A-AT-ACTTTAGGTACCTATTTTGA-CAAAA
*
2627136 AATAATTTAGGTAC
1 AATACTTTAGGTAC
2627150 TTAAATGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
28 21 0.34
29 13 0.21
30 4 0.06
31 23 0.37
32 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (28 bp):
AATACTTTAGGTACCTATTTTGACAAAA
Found at i:2631148 original size:61 final size:61
Alignment explanation
Indices: 2631070--2631192 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
2631060 TGAAATTTCT
*
2631070 TACTAACTTAGTGTCATAGTC-ATAGACGGATCAGGTGAAGGTTAACGTAACCGTTATCTCC
1 TACTAACTTAGTGTCATAGTCGA-AGACGGATCAGGTGAAGGTTAACATAACCGTTATCTCC
* *
2631131 TACTAACTTAGTGTCATAGTCGAAGACGGATCGGGTGAAGGTTAACATAACTGTTATCTCC
1 TACTAACTTAGTGTCATAGTCGAAGACGGATCAGGTGAAGGTTAACATAACCGTTATCTCC
2631192 T
1 T
2631193 TAAAATTTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 57 0.98
62 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (61 bp):
TACTAACTTAGTGTCATAGTCGAAGACGGATCAGGTGAAGGTTAACATAACCGTTATCTCC
Found at i:2631266 original size:20 final size:21
Alignment explanation
Indices: 2631229--2631268 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2631219 ATATATTTTA
*
2631229 TTTTATATTTTATTAATATTT
1 TTTTATATTTTATAAATATTT
*
2631250 TTTTATCTTTTA-AAATATT
1 TTTTATATTTTATAAATATT
2631269 ATAAGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATATTTTATAAATATTT
Found at i:2638350 original size:2 final size:2
Alignment explanation
Indices: 2638343--2638380 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2638333 ATCTTCACAA
2638343 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2638381 CCAAATTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2648100 original size:2 final size:2
Alignment explanation
Indices: 2648095--2648141 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2648085 TTTTTTTTAA
2648095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2648137 AT AT A
1 AT AT A
2648142 GGTTCAGAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2649868 original size:70 final size:68
Alignment explanation
Indices: 2649719--2649875 Score: 153
Period size: 70 Copynumber: 2.3 Consensus size: 68
2649709 TTTAATAGTG
*
2649719 TTATTC-ATTAATATTCAAATTCTAAAAAATGATATCTTTAATTTGAAAATATTCAAAAAGATAT
1 TTATTCTATTAATATTCAAATTCTAAAAAATAATATCTTTAATTTGAAAATATTCAAAAAGATAT
2649783 TAA
66 TAA
* * * * * * *
2649786 -TA-TCTTTTTAATATTCAAATTTTAAAAGATAATAATATCTTTTACTTTG-AGATATTTAAGAT
1 TTATTC-TATTAATATTCAAATTCT-AAA-A-AATAATATC-TTTAATTTGAAAATATTCAAAAA
2649848 GATA-TAA
61 GATATTAA
*
2649855 TTATTCTATTAATATTTAAAT
1 TTATTCTATTAATATTCAAAT
2649876 ATAAAAATAA
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
65 2 0.03
66 2 0.03
67 15 0.21
68 3 0.04
69 4 0.06
70 36 0.50
71 10 0.14
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.45
Consensus pattern (68 bp):
TTATTCTATTAATATTCAAATTCTAAAAAATAATATCTTTAATTTGAAAATATTCAAAAAGATAT
TAA
Found at i:2650383 original size:11 final size:11
Alignment explanation
Indices: 2650367--2650393 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2650357 ACCACCGTCA
2650367 TCACCGAACGG
1 TCACCGAACGG
2650378 TCACCGAACGG
1 TCACCGAACGG
2650389 TCACC
1 TCACC
2650394 TACTCGTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.41, G:0.22, T:0.11
Consensus pattern (11 bp):
TCACCGAACGG
Found at i:2651385 original size:5 final size:5
Alignment explanation
Indices: 2651371--2651419 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
2651361 GTCCGTCCGT
* * *
2651371 CTCGT CTCGG CTCGG CACGG CACGG CTCGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
2651420 TGGTCGTGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.04, C:0.41, G:0.37, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:2651428 original size:6 final size:6
Alignment explanation
Indices: 2651417--2651465 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
2651407 TCGGCTCGGC
* * *
2651417 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
2651465 T
1 T
2651466 AATACGTGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.06, C:0.16, G:0.49, T:0.29
Consensus pattern (6 bp):
TCGTGG
Found at i:2651765 original size:22 final size:22
Alignment explanation
Indices: 2651740--2651794 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2651730 TCAGGAGTTA
* *
2651740 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
2651762 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
2651784 CGGGAGTTATA
1 CAGGAGTTATA
2651795 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:2657354 original size:5 final size:5
Alignment explanation
Indices: 2657340--2657388 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
2657330 GTCCGTCCGT
* * * *
2657340 CTCGT CTCGG CTCGG CACGG CACGG CACGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
2657389 TGGTCGTGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.06, C:0.41, G:0.37, T:0.16
Consensus pattern (5 bp):
CTCGG
Found at i:2657397 original size:6 final size:6
Alignment explanation
Indices: 2657386--2657440 Score: 83
Period size: 6 Copynumber: 9.2 Consensus size: 6
2657376 TCGGCTCGGC
* * *
2657386 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
2657434 TCGTGG T
1 TCGTGG T
2657441 AATACGTGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.05, C:0.16, G:0.49, T:0.29
Consensus pattern (6 bp):
TCGTGG
Found at i:2657739 original size:22 final size:22
Alignment explanation
Indices: 2657714--2657768 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2657704 TCAGGAGTTA
* *
2657714 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
2657736 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
2657758 CGGGAGTTATA
1 CAGGAGTTATA
2657769 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:2661683 original size:2 final size:2
Alignment explanation
Indices: 2661676--2661711 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2661666 TTATGTAAAC
2661676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2661712 GGTTTAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2664510 original size:14 final size:15
Alignment explanation
Indices: 2664480--2664523 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
2664470 TAACCCCTTT
*
2664480 TATT-TATTTTTATA
1 TATTATATTATTATA
2664494 TATTATATTATTA-A
1 TATTATATTATTATA
2664508 TATTATATTA-TATA
1 TATTATATTATTATA
2664522 TA
1 TA
2664524 CTAATTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 2 0.07
14 18 0.67
15 7 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATATTATTATA
Found at i:2664813 original size:14 final size:14
Alignment explanation
Indices: 2664794--2664831 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
2664784 TATATGTTTG
2664794 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
*
2664808 TTTATGTTTGTTCA
1 TTTATGTTCGTTCA
2664822 TTTATGTTCG
1 TTTATGTTCG
2664832 AACAGAGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.13, C:0.11, G:0.16, T:0.61
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:2666456 original size:23 final size:23
Alignment explanation
Indices: 2666430--2666473 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2666420 ATTAATTAAT
2666430 TATTAAAT-ATTATATTTTAAAAG
1 TATTAAATCA-TATATTTTAAAAG
*
2666453 TATTAATTCATATATTTTAAA
1 TATTAAATCATATATTTTAAA
2666474 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTAAATCATATATTTTAAAAG
Found at i:2666635 original size:105 final size:103
Alignment explanation
Indices: 2666498--2666722 Score: 239
Period size: 105 Copynumber: 2.2 Consensus size: 103
2666488 TACTATTAGA
*
2666498 TTATTATATTAATATTAAATACAAAAATAATAT-TGT-TCATTATTAATAATTTAA-T-AATATT
1 TTATTATATTAATATTAAATACAAAAATAATATCT-TAT-ATTA-TAATAATATAATTGAATATT
* *
2666559 ATTTCTATAAAATTAATAAATAATATAAATTTTATTAATAAT
63 -TTACTATAAAATTAAAAAATAATATAAATTTTATTAATAAT
* *
2666601 TTATTATATATATTATTAGAATA-AAAATATAATATCTTATATTATAATAATATAATTGAGTATT
1 TTATTATAT-TAATATTA-AATACAAAA-ATAATATCTTATATTATAATAATATAATTGAATATT
* *
2666665 TTACTATAATATTAAAAAATAATATAATATTATT-TTAAATATT
63 TTACTATAAAATTAAAAAATAATATAA-ATT-TTATT-AATAAT
*
2666708 TTAATA-ATTAATATT
1 TTATTATATTAATATT
2666723 TTGATTAAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
103 9 0.09
104 21 0.20
105 47 0.46
106 14 0.14
107 12 0.12
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (103 bp):
TTATTATATTAATATTAAATACAAAAATAATATCTTATATTATAATAATATAATTGAATATTTTA
CTATAAAATTAAAAAATAATATAAATTTTATTAATAAT
Found at i:2668421 original size:15 final size:15
Alignment explanation
Indices: 2668401--2668435 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2668391 CCGTAGGACC
*
2668401 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGA
2668416 ACTACGTCCCGAAGA
1 ACTACGTCCCGAAGA
2668431 ACTAC
1 ACTAC
2668436 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGA
Found at i:2674751 original size:400 final size:400
Alignment explanation
Indices: 2674011--2674794 Score: 1541
Period size: 400 Copynumber: 2.0 Consensus size: 400
2674001 TTGGGCGTTA
2674011 GTCATCCTCAATGTAACATTGGTCCACCAGATCCTTGCTTGTCCTCTCAATAAGGAAATTACTCC
1 GTCATCCTCAATGTAACATTGGTCCACCAGATCCTTGCTTGTCCTCTCAATAAGGAAATTACTCC
2674076 ATCTAGCTTCTCAGCATCGGAACAATGAAGTCCCGTAAGCATGACCTTCACGTCATTAAGCCAAA
66 ATCTAGCTTCTCAGCATCGGAACAATGAAGTCCCGTAAGCATGACCTTCACGTCATTAAGCCAAA
2674141 GGTCCACAGTAACATGACCTTCATCGGCTTCCCCTCTAAACTCTAGAGCTCCTAATCCCTTCAAC
131 GGTCCACAGTAACATGACCTTCATCGGCTTCCCCTCTAAACTCTAGAGCTCCTAATCCCTTCAAC
2674206 TCTTTCGCAACATTCATTTTTGGAATTGAAGTAACAGGAGGTTGAAAACGCGTCAATACCGCGTC
196 TCTTTCGCAACATTCATTTTTGGAATTGAAGTAACAGGAGGTTGAAAACGCGTCAATACCGCGTC
*
2674271 TAAAGTTCTAAAGAATACATCTTGATCATTCGCATGCACTCCAGAGGGTGTCTGTTCTTCACTCT
261 TAAAGTTCTAAAGAATACATCTTGATCATTCACATGCACTCCAGAGGGTGTCTGTTCTTCACTCT
*
2674336 GTCTGGCCAGAGCATGTGAATTACTGCTTTCAGCGGGTATATCATCTCCCACTTCATTTAGCTTT
326 GCCTGGCCAGAGCATGTGAATTACTGCTTTCAGCGGGTATATCATCTCCCACTTCATTTAGCTTT
2674401 CAGCGGGTAT
391 CAGCGGGTAT
2674411 GTCATCCTCAATGTAACATTGGTCCACCAGATCCTTGCTTGTCCTCTCAATAAGGAAATTACTCC
1 GTCATCCTCAATGTAACATTGGTCCACCAGATCCTTGCTTGTCCTCTCAATAAGGAAATTACTCC
2674476 ATCTAGCTTCTCAGCATCGGAACAATGAAGTCCCGTAAGCATGACCTTCACGTCATTAAGCCAAA
66 ATCTAGCTTCTCAGCATCGGAACAATGAAGTCCCGTAAGCATGACCTTCACGTCATTAAGCCAAA
2674541 GGTCCACAGTAACATGACCTTCATCGGCTTCCCCTCTAAACTCTAGAGCTCCTAATCCCTTCAAC
131 GGTCCACAGTAACATGACCTTCATCGGCTTCCCCTCTAAACTCTAGAGCTCCTAATCCCTTCAAC
*
2674606 TCTTTCGCAACATTCTTTTTTGGAATTGAAGTAACAGGAGGTTGAAAACGCGTCAATACCGCGTC
196 TCTTTCGCAACATTCATTTTTGGAATTGAAGTAACAGGAGGTTGAAAACGCGTCAATACCGCGTC
2674671 TAAAGTTCTAAAGAATACATCTTGATCATTCACATGCACTCCAGAGGGTGTCTGTTCTTCACTCT
261 TAAAGTTCTAAAGAATACATCTTGATCATTCACATGCACTCCAGAGGGTGTCTGTTCTTCACTCT
2674736 GCCTGGCCAGAGCATGTGAATTACTGCTTTCAGCGGGTATATCATCTCCCACTTCATTT
326 GCCTGGCCAGAGCATGTGAATTACTGCTTTCAGCGGGTATATCATCTCCCACTTCATTT
2674795 CTAGAACTAC
Statistics
Matches: 381, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
400 381 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (400 bp):
GTCATCCTCAATGTAACATTGGTCCACCAGATCCTTGCTTGTCCTCTCAATAAGGAAATTACTCC
ATCTAGCTTCTCAGCATCGGAACAATGAAGTCCCGTAAGCATGACCTTCACGTCATTAAGCCAAA
GGTCCACAGTAACATGACCTTCATCGGCTTCCCCTCTAAACTCTAGAGCTCCTAATCCCTTCAAC
TCTTTCGCAACATTCATTTTTGGAATTGAAGTAACAGGAGGTTGAAAACGCGTCAATACCGCGTC
TAAAGTTCTAAAGAATACATCTTGATCATTCACATGCACTCCAGAGGGTGTCTGTTCTTCACTCT
GCCTGGCCAGAGCATGTGAATTACTGCTTTCAGCGGGTATATCATCTCCCACTTCATTTAGCTTT
CAGCGGGTAT
Found at i:2675665 original size:15 final size:15
Alignment explanation
Indices: 2675645--2675679 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2675635 CCGTAGGACC
2675645 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
*
2675660 ACTACGTCCCGAATG
1 ACTACGTCCCGAAGG
2675675 ACTAC
1 ACTAC
2675680 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:2679739 original size:37 final size:37
Alignment explanation
Indices: 2679665--2679743 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
2679655 TCAAATGTTA
* *
2679665 AATAAAATAATAATAATAAAGTAATACAAAATTATTG
1 AATAAAATAATAATAATAAAATAATACAAAATAATTG
*
2679702 AATAAAATAATTAATTACTAAAATAATA-AAAA-AATTG
1 AATAAAATAA-TAA-TAATAAAATAATACAAAATAATTG
2679739 -ATAAA
1 AATAAA
2679744 TGAAAAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 5 0.14
37 14 0.38
38 7 0.19
39 11 0.30
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29
Consensus pattern (37 bp):
AATAAAATAATAATAATAAAATAATACAAAATAATTG
Found at i:2689394 original size:24 final size:21
Alignment explanation
Indices: 2689339--2689387 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
2689329 TTTGTTCTTT
*
2689339 CTTCTCCCAATCAGACATCGA
1 CTTCTTCCAATCAGACATCGA
2689360 CTTCTTCCAATCAGACATCGA
1 CTTCTTCCAATCAGACATCGA
2689381 CTTCTTC
1 CTTCTTC
2689388 AGTCAATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.37, G:0.08, T:0.31
Consensus pattern (21 bp):
CTTCTTCCAATCAGACATCGA
Found at i:2691477 original size:84 final size:84
Alignment explanation
Indices: 2691332--2691494 Score: 299
Period size: 84 Copynumber: 1.9 Consensus size: 84
2691322 TAAATTTTTA
*
2691332 ACAGTGACATGTCACCACCTTATTAGAAACAAAATTATGAATTAAACTCCTAAAGGAGTACTCAC
1 ACAGTGACATGTCACCACCTTATTAGAAACAAAATTATGAAATAAACTCCTAAAGGAGTACTCAC
2691397 TATGGATCGAACCTTATTT
66 TATGGATCGAACCTTATTT
* *
2691416 ACAGTGACGTGTCACCACCTTATTAGAAACAAAATTATGAAATAAACTCCTAAAGGTGTACTCAC
1 ACAGTGACATGTCACCACCTTATTAGAAACAAAATTATGAAATAAACTCCTAAAGGAGTACTCAC
2691481 TATGGATCGAACCT
66 TATGGATCGAACCT
2691495 GGGTCTCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 76 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (84 bp):
ACAGTGACATGTCACCACCTTATTAGAAACAAAATTATGAAATAAACTCCTAAAGGAGTACTCAC
TATGGATCGAACCTTATTT
Found at i:2700506 original size:16 final size:16
Alignment explanation
Indices: 2700477--2700525 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
2700467 TTGAACGATT
2700477 AATTTAAAACTTTAAA
1 AATTTAAAACTTTAAA
* *
2700493 AATTTGAAAGTTT--A
1 AATTTAAAACTTTAAA
2700507 AA-TTAAAA-TTTAAA
1 AATTTAAAACTTTAAA
2700521 AATTT
1 AATTT
2700526 TTAAAGGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
12 3 0.11
13 5 0.19
14 6 0.22
15 2 0.07
16 11 0.41
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (16 bp):
AATTTAAAACTTTAAA
Found at i:2700531 original size:29 final size:29
Alignment explanation
Indices: 2700466--2700525 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
2700456 GGTAATAGAG
* * *
2700466 TTTGAACGATTAATTTAAAACTTTAAAAA
1 TTTGAAAGTTTAAATTAAAACTTTAAAAA
2700495 TTTGAAAGTTTAAATTAAAA-TTTAAAAA
1 TTTGAAAGTTTAAATTAAAACTTTAAAAA
2700523 TTT
1 TTT
2700526 TTAAAGGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (29 bp):
TTTGAAAGTTTAAATTAAAACTTTAAAAA
Found at i:2705421 original size:31 final size:31
Alignment explanation
Indices: 2705361--2705421 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
2705351 ATTAAAAGGT
*
2705361 AAAAAAATATGTGAGACTCTGGTACTTTTAA
1 AAAAAAATATGTGAGACTCTCGTACTTTTAA
*
2705392 AAAAAAATTAATGTG-GA-TCTCGTATTTTTA
1 AAAAAAA-T-ATGTGAGACTCTCGTACTTTTA
2705422 CATCTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 18 0.69
32 3 0.12
33 5 0.19
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (31 bp):
AAAAAAATATGTGAGACTCTCGTACTTTTAA
Found at i:2705618 original size:21 final size:21
Alignment explanation
Indices: 2705567--2705625 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
2705557 TAAATTAAGC
*
2705567 AAATATTGAGAAAATTAAATATAA
1 AAATATT--GAAAA-TAAAAATAA
*
2705591 AAATATTGAAAATAAAAATTA
1 AAATATTGAAAATAAAAATAA
* *
2705612 AATTATTAAAAATA
1 AAATATTGAAAATA
2705626 TCTATATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 19 0.61
22 5 0.16
24 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
AAATATTGAAAATAAAAATAA
Found at i:2705786 original size:16 final size:17
Alignment explanation
Indices: 2705749--2705789 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2705739 TATATATGTC
*
2705749 AATTTTAATTTGAGTTTT
1 AATTTT-ATTTCAGTTTT
2705767 -ATTTTATTTCA-TTTT
1 AATTTTATTTCAGTTTT
2705782 AATTTTAT
1 AATTTTAT
2705790 ATAGACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 12 0.57
17 5 0.24
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (17 bp):
AATTTTATTTCAGTTTT
Found at i:2705968 original size:22 final size:23
Alignment explanation
Indices: 2705926--2705991 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
2705916 TAATAATATA
* *
2705926 TTTTTATTAA-TTTACTTTTTACT
1 TTTTTAATAATTTTA-TATTTACT
* *
2705949 TTTTT-ATATTTTTATATTTATT
1 TTTTTAATAATTTTATATTTACT
2705971 TTTTTGAATAATTTTATATTT
1 TTTTT-AATAATTTTATATTT
2705992 TAAATTAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 13 0.37
23 9 0.26
24 13 0.37
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTAATAATTTTATATTTACT
Found at i:2708225 original size:57 final size:57
Alignment explanation
Indices: 2708136--2708260 Score: 214
Period size: 57 Copynumber: 2.2 Consensus size: 57
2708126 GATGACTTCT
* * *
2708136 CAGAATGCATAAGCTATATAAGAAGCTTGATAGACAAGAAAAATAAGTGTAGAGATG
1 CAGAATGCATAAGCCATATAAAAAGCTGGATAGACAAGAAAAATAAGTGTAGAGATG
2708193 CAGAATGCATAAGCCATATAAAAAGCTGGATAGACAAGAAAAATAAGTGTAGAGATG
1 CAGAATGCATAAGCCATATAAAAAGCTGGATAGACAAGAAAAATAAGTGTAGAGATG
*
2708250 CATAATGCATA
1 CAGAATGCATA
2708261 TATGTTCCCA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 64 1.00
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.20
Consensus pattern (57 bp):
CAGAATGCATAAGCCATATAAAAAGCTGGATAGACAAGAAAAATAAGTGTAGAGATG
Found at i:2709256 original size:25 final size:25
Alignment explanation
Indices: 2709228--2709293 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
2709218 GAACCAAGGA
*
2709228 AACCCCTTATGTTTCTGTTTCTGGT
1 AACCCCTTATGTTTCTGTTTCTAGT
* * *
2709253 AACCACTTATGCTTATGTTTCTAGT
1 AACCCCTTATGTTTCTGTTTCTAGT
*
2709278 AACCCCTTCTGTTTCT
1 AACCCCTTATGTTTCT
2709294 AGATTGCATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.17, C:0.26, G:0.12, T:0.45
Consensus pattern (25 bp):
AACCCCTTATGTTTCTGTTTCTAGT
Found at i:2710532 original size:15 final size:15
Alignment explanation
Indices: 2710512--2710542 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2710502 CAACAAATAG
2710512 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
2710527 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
2710542 A
1 A
2710543 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:2714252 original size:19 final size:19
Alignment explanation
Indices: 2714228--2714264 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2714218 AAATCCAACG
*
2714228 ATTCATTTTCTTTTACATT
1 ATTCATTTCCTTTTACATT
2714247 ATTCATTTCCTTTTACAT
1 ATTCATTTCCTTTTACAT
2714265 ATCAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTCATTTCCTTTTACATT
Found at i:2714345 original size:116 final size:116
Alignment explanation
Indices: 2714135--2714346 Score: 279
Period size: 116 Copynumber: 1.8 Consensus size: 116
2714125 CAAACGATTT
*
2714135 ATTTCCTTTTATAAACAAAAATCATAAAAGATTCCCCAAAAAATAAATCTAAAGATTTATTTCCT
1 ATTTCCTTTTACAAACAAAAATCATAAAAGATTCCCCAAAAAATAAATCTAAAGATTTATTTCCT
2714200 TTCACAGAATAGGAAAATAAATCCAACGATTCATTTTCTTTTACATTATTC
66 TTCACAGAATAGGAAAATAAATCCAACGATTCATTTTCTTTTACATTATTC
* * ** * *
2714251 ATTTCCTTTTACATATC-AAAATCATACAAGATT-CTTAAGAAAATAAATTTAATGATTTATTTC
1 ATTTCCTTTTACA-AACAAAAATCATAAAAGATTCCCCAA-AAAATAAATCTAAAGATTTATTTC
* *
2714314 C-TTCTACA-AATCAGGAAAATAAATTCTACGATT
64 CTTTC-ACAGAAT-AGGAAAATAAATCCAACGATT
2714347 TATCCTTTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
115 9 0.11
116 72 0.87
117 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (116 bp):
ATTTCCTTTTACAAACAAAAATCATAAAAGATTCCCCAAAAAATAAATCTAAAGATTTATTTCCT
TTCACAGAATAGGAAAATAAATCCAACGATTCATTTTCTTTTACATTATTC
Found at i:2714364 original size:37 final size:38
Alignment explanation
Indices: 2714289--2714364 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 38
2714279 AGATTCTTAA
*
2714289 GAAAATAAATTTAATGATTTATTTCCTTCTACAAATCAG
1 GAAAATAAATTTAACGATTTA-TTCCTTCTACAAATCAG
* *
2714328 GAAAATAAATTCT-ACGATTTA-TCCTTTTACATATCAG
1 GAAAATAAATT-TAACGATTTATTCCTTCTACAAATCAG
2714365 AATCATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
39 18 0.55
40 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (38 bp):
GAAAATAAATTTAACGATTTATTCCTTCTACAAATCAG
Found at i:2714428 original size:95 final size:97
Alignment explanation
Indices: 2714253--2714491 Score: 261
Period size: 95 Copynumber: 2.5 Consensus size: 97
2714243 CATTATTCAT
* * * *
2714253 TTCCTTTTACATATCAAAATCATACAAGATTCTTAAGAAAATAAATTTAATGATTTATTTCCTTC
1 TTCCTTTTACATATCAAAATCATATAAGATTTTTAGGAAAATAAATTTAATAATTTATTTCCTTC
*
2714318 TACAAATCAGGAAAATA-AATTCTACGATTTA
66 TACAAATCAAGAAAATATAATTCTACGATTTA
* * *
2714349 -TCCTTTTACATATCAGAATCATATAAGATTTTTAGGAAAACAAATTT-ATCAATTTTTTTCCTT
1 TTCCTTTTACATATCAAAATCATATAAGATTTTTAGGAAAATAAATTTAAT-AATTTATTTCCTT
* * * ** *
2714412 TTTCAAGA-CAATAAAATATGTTTTTACGATTTA
65 CTACAA-ATCAAGAAAATATAATTCTACGATTTA
* * **
2714445 TTTCTTTTTACAAATCAAAATCATATAAGATTTACAGGAAAATAAAT
1 -TTCCTTTTACATATCAAAATCATATAAGATTTTTAGGAAAATAAAT
2714492 CCACCAACTT
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
94 2 0.02
95 65 0.55
96 12 0.10
98 39 0.33
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.40
Consensus pattern (97 bp):
TTCCTTTTACATATCAAAATCATATAAGATTTTTAGGAAAATAAATTTAATAATTTATTTCCTTC
TACAAATCAAGAAAATATAATTCTACGATTTA
Done.